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annotate test-data/chr21.l150.apeki.txt @ 22:062399f3787f draft

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new version of gbsx: v1.2 with barcodeGenerator, demultiplex and digest
author koen
date Tue, 26 Jan 2016 07:38:36 -0500
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062399f3787f new version of gbsx: v1.2 with barcodeGenerator, demultiplex and digest
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1 input parameters:
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2 enzyme name used: ApeKI
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3 enzyme cut sequence: G^CWGC
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4 for bedfile, genome name used: genome
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5 read length provided: 150
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6 minimum fragment size: 100
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7 maximum fragment size: 1000
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8
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9 reference sequence(s) analyzed:
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10 chr21.fa
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12 total cuts for enzyme (ApeKI): 62623
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14 looked at 62624 fragments in total
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15 35553 fragments <= 1000 nt and >= 100 nt
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16 fragments in range per reference sequence:
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17 chr21 had 35553 fragments
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18 distances between fragments in range:
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19 <=1kb 28216 fragment pairs
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20 1kb-10kb 7209 fragment pairs
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21 10kb-100kb 125 fragment pairs
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22 100kb-1Mb 1 fragment pairs
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23 1Mb-10Mb 1 fragment pairs
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24 >10Mb 0 fragment pairs
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25 fragments less than 100 nt: 16329
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27 fragments 100-199 nt: 9755
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28 fragments 200-299 nt: 6571
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29 fragments 300-399 nt: 4853
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30 fragments 400-499 nt: 3701
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31 fragments 500-599 nt: 2936
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32 fragments 600-699 nt: 2430
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33 fragments 700-799 nt: 2004
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34 fragments 800-899 nt: 1789
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35 fragments 900-999 nt: 1496
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