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comparison newtests/cap3stdout.txt @ 1:a36a1acd5807 draft default tip

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/cap3 commit 3bb28761a3768b3b84616be41efc40683653da60
author artbio
date Thu, 12 Oct 2023 23:17:38 +0000
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equal deleted inserted replaced
0:d76a0d8a9eac 1:a36a1acd5807
1 Number of segment pairs = 342; number of pairwise comparisons = 14
2 '+' means given segment; '-' means reverse complement
3
4 Overlaps Containments No. of Constraints Supporting Overlap
5
6 ******************* Contig 1 ********************
7 2+
8 9+ is in 2+
9 6+ is in 2+
10 15+
11 1+ is in 15+
12 17+ is in 15+
13 13+
14 ******************* Contig 2 ********************
15 7+
16 10+ is in 7+
17 ******************* Contig 3 ********************
18 11+
19 4+
20 ******************* Contig 4 ********************
21 18+
22 12+
23
24 DETAILED DISPLAY OF CONTIGS
25 ******************* Contig 1 ********************
26 . : . : . : . : . : . :
27 2+ GTTGCATATTCAACCTGCCGAGCCCAGGAAGACTCAGGCGGGGGAGGCACTACATTAGGG
28 9+ GTTGCATATTCAACCTGCCGAGCCCAGGAAGACTCAGGCGGGGGAGGCACTACATTAGGG
29 15+ GTTGCATATTCAACCTGCCGAGCCCAGGAAGACTCAGGCGGGGGAGGCACTACATTAGGG
30 ____________________________________________________________
31 consensus GTTGCATATTCAACCTGCCGAGCCCAGGAAGACTCAGGCGGGGGAGGCACTACATTAGGG
32
33 . : . : . : . : . : . :
34 2+ GTCGCAAAGCTAGACTTCTTGTATGGGATGTTGTTAACCTCCAAAATAGCTGCACAGATG
35 9+ GTCGCAAAGCTAGACTTCTTGTATGGGATGTTGTTAACCTCCAAAATAGCTGCACAGATG
36 15+ GTCGCAAAGCTAGACTTCTTGTATGGGATGTTGTTAACCTCCAAAATAGCTGCACAGATG
37 ____________________________________________________________
38 consensus GTCGCAAAGCTAGACTTCTTGTATGGGATGTTGTTAACCTCCAAAATAGCTGCACAGATG
39
40 . : . : . : . : . : . :
41 2+ TATTCCTTAGCCAGTTTGGCAGAGGAAGACCAGGCTTCTCCCAACAGCTTCACATCCTGG
42 9+ TATTCCTTAGCCAGTTTGGCAGAGGAAGACCAGGCTTCTCCCAACAGCTTCACATCCTGG
43 6+ ACATCCTGG
44 15+ TATTCCTTAGCCAGTTTGGCAGAGGAAGACCAGGCTTCTCCCAACAGCTTCACATCCTGG
45 ____________________________________________________________
46 consensus TATTCCTTAGCCAGTTTGGCAGAGGAAGACCAGGCTTCTCCCAACAGCTTCACATCCTGG
47
48 . : . : . : . : . : . :
49 2+ GTATGGTGGCTGTGGGCGTAGAGCCTAACTCCAACAGGATTGGCAGCATTTGGCCGTACC
50 9+ GTATGGTGGCTGTGGGC
51 6+ GTATGGTGGCTGTGGGCGTAGAGCCTAACTCCAACAGGATTGGCAGCATTTGGCCGTACC
52 15+ GTATGGTGGCTGTGGGCGTAGAGCCTAACTCCAACAGGATTGGCAGCATTTGGCCGTACC
53 ____________________________________________________________
54 consensus GTATGGTGGCTGTGGGCGTAGAGCCTAACTCCAACAGGATTGGCAGCATTTGGCCGTACC
55
56 . : . : . : . : . : . :
57 2+ TCAGATATCCATTTAGTGAATCCTGAGAATCTCCCGCTGACCATTGCATGGACATATGCC
58 6+ TCAGATATCCATTTAGTGAATCCTGAGAATCTCCCGCTGACCATTGCATGGACATATGCC
59 15+ TCAGATATCCATTTAGTGAATCCTGAGAATCTCCCGCTGACCATTGCATGGACATATGCC
60 ____________________________________________________________
61 consensus TCAGATATCCATTTAGTGAATCCTGAGAATCTCCCGCTGACCATTGCATGGACATATGCC
62
63 . : . : . : . : . : . :
64 2+ ATGGCATCCTCTGCTGTATTTATATCGTGGGGAGGTGGATGGAGGTTCGATACTCCTGCA
65 6+ ATGGCATCCTCTGCTGTATTTATATCGTGGGGAGGTGGATGGAGGTTCGATACTCCTGCA
66 15+ ATGGCATCCTCTGCTGTATTTATATCGTGGGGAGGTGGATGGAGGTTCGATACTCCTGCA
67 17+ TACTCCTGCA
68 ____________________________________________________________
69 consensus ATGGCATCCTCTGCTGTATTTATATCGTGGGGAGGTGGATGGAGGTTCGATACTCCTGCA
70
71 . : . : . : . : . : . :
72 2+ ACGTCCAGGTTAATGAGCTCAGGTTGGGTTTTTAC
73 6+ ACGTCCAGGTTAATGAGCTCAGGTTGGGTTTTTAC
74 15+ ACGTCCAGGTTAATGAGCTCAGGTTGGGTTTTTACAATCTCCCGTCTCAAAGCTGACGTT
75 1+ TTAATGAGCTCAGGTTGGGTTTTTACAATCTCCCGTCTCAAAGCTGACGTT
76 17+ ACGTCCAGATTAATGAGCTCAGGTTGGGTTTTTACAATCTCCCGTCTCAAAGCTGACGTT
77 ____________________________________________________________
78 consensus ACGTCCAGGTTAATGAGCTCAGGTTGGGTTTTTACAATCTCCCGTCTCAAAGCTGACGTT
79
80 . : . : . : . : . : . :
81 15+ CTGGCTGCAGTAGTCTTATCAATCAGATTACGCTTTTCCTCCATTTCTTCTCTTTGACTG
82 1+ CTGGCTGCAGTAGTCTTATCAATCAGATTACGCTTTTCCTCCATTTCTTCTCTTTGACTG
83 17+ CTGGCTGCAGTAGTCTTATCAATCAGATTACGCTTTTCCTCCATTTCTTCTCTTTGACTG
84 ____________________________________________________________
85 consensus CTGGCTGCAGTAGTCTTATCAATCAGATTACGCTTTTCCTCCATTTCTTCTCTTTGACTG
86
87 . : . : . : . : . : . :
88 15+ TCCTGCAATGTGGGGAAAGGAGTCACTAGTGGGTATAAGGAAATCAAGTCTCCAAGTTCA
89 1+ TCCTGCAATGTGGGGAAAGGAGTCACTAGTGGGTATAAGGAAATCAAGTCTCCAAGTTCA
90 17+ TCCTGCAATGTGGGGAAAGGAGTCACTAGTGGGTATAAGGAAATCAAGTCTCCAAGTTCA
91 ____________________________________________________________
92 consensus TCCTGCAATGTGGGGAAAGGAGTCACTAGTGGGTATAAGGAAATCAAGTCTCCAAGTTCA
93
94 . : . : . : . : . : . :
95 15+ TCTCCAGTAGTGAAATAGCCCCCTTTAGCAGCACCCACAACAATTTGGTAGGCACTAGCT
96 1+ TCTCCAGTAGTGAAATAGCCCCCTTTAGCAGCACCCACAACAATTTGGTAGGCACTAGCT
97 17+ TCTCCAGTAGTGAAATAGCCCCCTTTAGCAGCACCCACAACAATTTGGTAGGCACTAGCT
98 ____________________________________________________________
99 consensus TCTCCAGTAGTGAAATAGCCCCCTTTAGCAGCACCCACAACAATTTGGTAGGCACTAGCT
100
101 . : . : . : . : . : . :
102 15+ CCAACTTTATCGGCAACAGTACCAACCTGAGAAACACCTCCAACTGAGGTAAGCCATCTA
103 1+ CCAACTTTATCGGCAACAGTACCAACCTGAGAAACACCTCCAACTGAGGTAAGCCATCTA
104 17+ CCAACTTTATCGGCAACAGTACCAACCTGAGAAACACCTCCAACTGAGGTAAGCCATCTA
105 ____________________________________________________________
106 consensus CCAACTTTATCGGCAACAGTACCAACCTGAGAAACACCTCCAACTGAGGTAAGCCATCTA
107
108 . : . : . : . : . : . :
109 15+ ACGACGGCTTGAGCCATATTTGGTAGGAATTTCTCAGGGATGTCACCACTTTCTGTGATC
110 1+ ACGACGGCTTGAGCCATATTTGGTAGGAATTTCTCAGGGATGTCACCACTTTCTGTGATC
111 17+ ACGACGGCTTGAGCCATATTTGGTAGGAATTTCTCAGGGATGTCACCACTTTCTGTGATC
112 ____________________________________________________________
113 consensus ACGACGGCTTGAGCCATATTTGGTAGGAATTTCTCAGGGATGTCACCACTTTCTGTGATC
114
115 . : . : . : . : . : . :
116 15+ CGAACTACTTTGGGTCTGGGGTTCGGTTCTGAATACTGGACTTGCTGAGGTCTAAGAGCC
117 1+ CGAACTACTTTGGGTCTGGGGTTCGGTTCTGAATACTGGACTTGCTGAGGT
118 17+ CGAACTACTTTGGGTCTGGGGTTCGGTTCTGAATACTGGACTTGCTGAGGT
119 13+ GTTCTGAATACTGGACTTGCTGAGGTCTAAGAGCC
120 ____________________________________________________________
121 consensus CGAACTACTTTGGGTCTGGGGTTCGGTTCTGAATACTGGACTTGCTGAGGTCTAAGAGCC
122
123 . : . : . : . : . : . :
124 15+ TCAAACACTTTGTACTCATCATTCAGATTCGCCTCAGGAGGAGGAGGGCATCCTACAACC
125 13+ TCAAACACTTTGTACTCATCATTCAGATTCGCCTCAGGAGGAGGAGGGCATCCTACAACC
126 ____________________________________________________________
127 consensus TCAAACACTTTGTACTCATCATTCAGATTCGCCTCAGGAGGAGGAGGGCATCCTACAACC
128
129 . : . : . : . : . : . :
130 15+ TCCTTGACATCATAGTCGTTGGATTGGACTGTCAAATTTATCTGCCTCACAGCCACTCTC
131 13+ TCCTTGACATCATAGTCGTTGGATTGGACTGTCAAATTTATCTGCCTCACAGCCACTCTC
132 ____________________________________________________________
133 consensus TCCTTGACATCATAGTCGTTGGATTGGACTGTCAAATTTATCTGCCTCACAGCCACTCTC
134
135 . : . : . : . : . : . :
136 15+ TGCTCCCTCTTAAACTCGTCCAGGAATCCTGACAATGTGGGGAACAGATTAATCCATCCC
137 13+ TGCTCCCTCTTAAACTCGTCCAGGAATCCTGACAATGTGGGGAACAGATTAATCCATCCC
138 ____________________________________________________________
139 consensus TGCTCCCTCTTAAACTCGTCCAGGAATCCTGACAATGTGGGGAACAGATTAATCCATCCC
140
141 . : . : . : . : . : . :
142 15+ GCTTTGTCATCCTCTCCATCTGAATAGAGGTCTAGACAGAAGTCCCGAGAGGGGAATCCT
143 13+ GCTTTGTCATCCTCTCCATCTGAATAGAGGTCTAGACAGAAGTCCCGAGAGGGGAATCCT
144 ____________________________________________________________
145 consensus GCTTTGTCATCCTCTCCATCTGAATAGAGGTCTAGACAGAAGTCCCGAGAGGGGAATCCT
146
147 . : . : . : . : . : . :
148 15+ GACGAATCTGGATATTCAAAGTCCTGGAGGGTTATATGTTCTGGCTTCGTTCCGGTTTGC
149 13+ GACGAATCTGGATATTCAAAGTCCTGGAGGGTTATATGTTCTGGCTTCGTTCCGGTTTGC
150 ____________________________________________________________
151 consensus GACGAATCTGGATATTCAAAGTCCTGGAGGGTTATATGTTCTGGCTTCGTTCCGGTTTGC
152
153 . : . : . : . : . : . :
154 15+ TCTTGCGTTTGCATGACAATAATCTCGCCGGGGATTGTGTTAACCACAGCGTGTATTGTC
155 13+ TCTTGCGTTTGCATGACAATAATCTCGCCGGGGATTGTGTTAACCACAGCGTGTATTGTC
156 ____________________________________________________________
157 consensus TCTTGCGTTTGCATGACAATAATCTCGCCGGGGATTGTGTTAACCACAGCGTGTATTGTC
158
159 . : . : . : . : . : . :
160 15+ TCTTCGATCCGAGGTATGCTGAATCCCATTGTTATCATTAAACCCCTCATACGGTCATAC
161 13+ TCTTCGATCCGAGGTATGCTGAATCCCATTGTTATCATTAAACCCCTCATACGGTCATAC
162 ____________________________________________________________
163 consensus TCTTCGATCCGAGGTATGCTGAATCCCATTGTTATCATTAAACCCCTCATACGGTCATAC
164
165 . : . : . : . : . : . :
166 15+ AGAGTTCTTTGGCGTGCCGTTCTAGATACTGCCTTTTCAAAGGGATTATCCTTCTGGCAG
167 13+ AGAGTTCTTTGGCGTGCCGTTCTAGATACTGCCTTTTCAAAGGGATTATCCTTCTGGCAG
168 ____________________________________________________________
169 consensus AGAGTTCTTTGGCGTGCCGTTCTAGATACTGCCTTTTCAAAGGGATTATCCTTCTGGCAG
170
171 . : . : . : . : . : . :
172 15+ AGCATCATCTCAAGAGCATCGCTCTCAGGCATTGTGGGGACATGTATCACACGGTGTCTG
173 13+ AGCATCATCTCAAGAGCATCGCTCTCAGGCATTGTGGGGACATGTATCACACGGTGTCTG
174 ____________________________________________________________
175 consensus AGCATCATCTCAAGAGCATCGCTCTCAGGCATTGTGGGGACATGTATCACACGGTGTCTG
176
177 . : . : . : . : . : . :
178 15+ TGGTACACTCCCATAATTTGTACGCCAAGAAATTTGTGGTCCGTAATTAGAC
179 13+ TGGTACACTCCCATAATTTGTACGCCAAGAAATTTGTGGTCCGTAATTAGAC
180 ____________________________________________________________
181 consensus TGGTACACTCCCATAATTTGTACGCCAAGAAATTTGTGGTCCGTAATTAGAC
182
183 ******************* Contig 2 ********************
184 . : . : . : . : . : . :
185 7+ TGGATTTTCATCCATTGCTGGAGGGCTTACTAGGATGGTCGACTGGATGTATGCCTGCCC
186 10+ TGGATTTTCATCCATTGCTGGAGGGCTTACTAGGATGGTCGACTGGATGTATGCCTGCCC
187 ____________________________________________________________
188 consensus TGGATTTTCATCCATTGCTGGAGGGCTTACTAGGATGGTCGACTGGATGTATGCCTGCCC
189
190 . : . : . : . : . : . :
191 7+ AAAGCGGCGGGGACGGGTTGTCTGTTACGGTGACGATGCATGTATAACATTTTGGAGCCA
192 10+ AAAGCGGCGGGGACGGGTTGTCTGTTACGGTGACGATGCATGTATAACATTTTGGAGCCA
193 ____________________________________________________________
194 consensus AAAGCGGCGGGGACGGGTTGTCTGTTACGGTGACGATGCATGTATAACATTTTGGAGCCA
195
196 . : . : . : . : . : . :
197 7+ GGGCGTCCTCTATCGGGTGGATCCAGATTTTAAACAAATGGACGGGTCCATAGATAGAGA
198 10+ GGGCGTCCTCTATCGGGTGGATCCAGATTTTAAACAAATGGACGGGTCCATAGATAGAGA
199 ____________________________________________________________
200 consensus GGGCGTCCTCTATCGGGTGGATCCAGATTTTAAACAAATGGACGGGTCCATAGATAGAGA
201
202 . : . : . : . : . : . :
203 7+ GGATGCAAGAATCACCATTGAGTGGGTCCTCCACCATCTCAGAAAGGATTTAGGTGTAGA
204 10+ GGATGCAAGAATCACCATTGAGTGGGTCCTCCACCATCTCAGAAAGGATTTAGGTGTAGA
205 ____________________________________________________________
206 consensus GGATGCAAGAATCACCATTGAGTGGGTCCTCCACCATCTCAGAAAGGATTTAGGTGTAGA
207
208 . : . : . : . : . : . :
209 7+ GGAGACCCCTGCTTTTTGGAAGACAGTTGCAGCAGTGTGGCTTGATATGGCCATTGACCC
210 10+ GGAGACCCCTGCTTTTTGGAAGACAGTTGCAGCAGTGTGGCTTGATATGGCCATTGACCC
211 ____________________________________________________________
212 consensus GGAGACCCCTGCTTTTTGGAAGACAGTTGCAGCAGTGTGGCTTGATATGGCCATTGACCC
213
214 . : . : . : . : . : . :
215 7+ CCACTTTATCGTGGATGGTAAAACTGTTTACAAGAAGAAGAACCCCCATGGACTCATGAC
216 10+ CCACTTTATCGTGGATGGTAAAACTGTTTACAAGAAGAAGAACCCCCATGGACTCATGAC
217 ____________________________________________________________
218 consensus CCACTTTATCGTGGATGGTAAAACTGTTTACAAGAAGAAGAACCCCCATGGACTCATGAC
219
220 . : . : . : . : . : . :
221 7+ TGGAGTTCCAGGAACAACCCTATTTGACACTGTGAAATCTGTAATAGTCTGGAATGAAAT
222 10+ TGGAGTTCCAGGAACAACCCTATTTGACACTGTGAAATCTGTAATAGTCTGGAATGAAAT
223 ____________________________________________________________
224 consensus TGGAGTTCCAGGAACAACCCTATTTGACACTGTGAAATCTGTAATAGTCTGGAATGAAAT
225
226 . : . : . : . : . : . :
227 7+ GTTGGATCAGGCTGGTGCAGGTTCCATAGACCTTTTAAATGAAGCTCAAGTAGTTGAATG
228 10+ GTTGGATCAGGCTGGTGCAGGTTCCATAGACCTTTTAAATGAAGCTCAAGTAGTTGAATG
229 ____________________________________________________________
230 consensus GTTGGATCAGGCTGGTGCAGGTTCCATAGACCTTTTAAATGAAGCTCAAGTAGTTGAATG
231
232 . : . : . : . : . : . :
233 7+ GATGAAGAGACAAGGCTTGGTTGTCAAAGAGGGAA
234 10+ GATGAAGAGACAAGGCTTAGTTGTCA
235 ____________________________________________________________
236 consensus GATGAAGAGACAAGGCTTAGTTGTCAAAGAGGGAA
237
238 ******************* Contig 3 ********************
239 . : . : . : . : . : . :
240 11+ AACGTAAAACAAACGACATGGATGCATCTAACCCTATTATTTCAAGCGATAGAAGCACTG
241 4+ ATAGAAGCACTG
242 ____________________________________________________________
243 consensus AACGTAAAACAAACGACATGGATGCATCTAACCCTATTATTTCAAGCGATAGAAGCACTG
244
245 . : . : . : . : . : . :
246 11+ TGAATCAGGTTTATGCGAAGATGGTGAGGAGAAAACGGCAAGATCTTGCCTATCTCCAGG
247 4+ TGAATCAGGTTTACGCGAAGATGGTGAGGAGAAAACGGCAAGATCTTGCCTATCTCCAGG
248 ____________________________________________________________
249 consensus TGAATCAGGTTTACGCGAAGATGGTGAGGAGAAAACGGCAAGATCTTGCCTATCTCCAGG
250
251 . : . : . : . : . : . :
252 11+ AGTTGGTGAGGACAGCCCATCGAGAGATTCTCCCCCAAGGAGAACTTCTCCATGAGTCGG
253 4+ AGTTGGTGAGGACAGCCCATCGAGAGATTCTCCCCCAAGGAGAACTTCTCCATGAGTCGG
254 ____________________________________________________________
255 consensus AGTTGGTGAGGACAGCCCATCGAGAGATTCTCCCCCAAGGAGAACTTCTCCATGAGTCGG
256
257 . : . : . : . : . : . :
258 11+ AAGCCAAACAGTATGTAGCCGAATATAAGGCTCGACTACCTGTGGTTGACACTAAGAAAG
259 4+ AAGCCAAACAGTATGTAGCCGAATATAAGGCTCGACTACCTGTGGTTGACACTAAGAAAG
260 ____________________________________________________________
261 consensus AAGCCAAACAGTATGTAGCCGAATATAAGGCTCGACTACCTGTGGTTGACACTAAGAAAG
262
263 . : . : . : . : . : . :
264 11+ TTGGCGAACTGCCAACTGAGGTCTTCCAGGTAGCACTCCCAAGT
265 4+ TTGGCGAACTGCCAACTGAGGTCTTCCAGGTAGCACTCCCAAGT
266 ____________________________________________________________
267 consensus TTGGCGAACTGCCAACTGAGGTCTTCCAGGTAGCACTCCCAAGT
268
269 ******************* Contig 4 ********************
270 . : . : . : . : . : . :
271 18+ TACGGTGCCCCTAAGAGAATCGAACTCAAACTCTCCAGTTGTGTAGTAACCAGAGAGCCA
272 12+ GGTGCCCCTAAGAGAATCGAACTCAAACTCTCCAGTTGTGTAGTAACCAGAGAGCCA
273 ____________________________________________________________
274 consensus TACGGTGCCCCTAAGAGAATCGAACTCAAACTCTCCAGTTGTGTAGTAACCAGAGAGCCA
275
276 . : . : . : . : . : . :
277 18+ CCGAGGAGGGACGGGGTGGTGATTATGAAAAGATGATGGGTTTTGGGGAGAGGTTATACA
278 12+ CCGAGGAGGGACGGGGTGGTGATTATGAAAAGATGATGGGTTTTGGGGAGAGGTTATACA
279 ____________________________________________________________
280 consensus CCGAGGAGGGACGGGGTGGTGATTATGAAAAGATGATGGGTTTTGGGGAGAGGTTATACA
281
282 . : . : . : . : . : . :
283 18+ ATTTCAAAATCTTGAACGGCCACTGGGTCTTCAGATATCACTTTGAAAGGACTGAGTGTC
284 12+ ATTTCAAAATCTTGAACGGCCACTGGGTCTTCAGATATCACTTTGAAAGGACTGAGTGTC
285 ____________________________________________________________
286 consensus ATTTCAAAATCTTGAACGGCCACTGGGTCTTCAGATATCACTTTGAAAGGACTGAGTGTC
287
288 . : . : . : . : . : . :
289 18+ GTTCCATCAGGCATACCCTCAAGTTTGGTCCTAATCTTAGCTGTGTCCTTGCTGAGAGCA
290 12+ GTTCCATCAGGCATACCCTCAAGTTTGGTCCTAATCTTAGCTGTGTCCTTGCTGAGAGCA
291 ____________________________________________________________
292 consensus GTTCCATCAGGCATACCCTCAAGTTTGGTCCTAATCTTAGCTGTGTCCTTGCTGAGAGCA
293
294 . : . : . : . : . : . :
295 18+ ACAGTTCTTGTTA
296 12+ ACAGTTCTTGTTA
297 ____________________________________________________________
298 consensus ACAGTTCTTGTTA
299