Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 126 of 185
Found at i:39332157 original size:24 final size:24
Alignment explanation
Indices: 39332111--39332157 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
39332101 AAAATCCTAT
*
39332111 AAGTAAAAGGTCGTAATTATAAAA
1 AAGTAAAAGGTCGTAACTATAAAA
* * *
39332135 AAGTCAAAGGTCGTGACTGTAAA
1 AAGTAAAAGGTCGTAACTATAAA
39332158 TCAGTGGATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (24 bp):
AAGTAAAAGGTCGTAACTATAAAA
Found at i:39332157 original size:78 final size:78
Alignment explanation
Indices: 39332056--39332205 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
39332046 GGACCGTAAG
* *
39332056 AAAGCCAAAGGTCGTGATCGTAAATCAGCAGATCATGAGATTCGTAAAATCCTATAAGTAAAAGG
1 AAAGCCAAAGGTCGTGATCGTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAGG
*
39332121 TCGTAATTATAAA
66 TCATAATTATAAA
* ** * * *
39332134 AAAGTCAAAGGTCGTGA-CTGTAAATCAGTGGATCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
1 AAAGCCAAAGGTCGTGATC-GTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAG
39332198 GTCATAAT
65 GTCATAAT
39332206 CGTAAATCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.02
78 61 0.98
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (78 bp):
AAAGCCAAAGGTCGTGATCGTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAGG
TCATAATTATAAA
Found at i:39332362 original size:54 final size:54
Alignment explanation
Indices: 39332266--39332368 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
39332256 AGCGGATCGT
* *
39332266 GAGATTCGTAAAATCCCATATGTAAAAAACCGTGATCGTAAATCAACGGGCCAC
1 GAGATTCGTAAAATCCCATATGTAAAAAACCGTGACCATAAATCAACGGGCCAC
* ****
39332320 GAGATTCGTAAAATCCCATTTGTAAAAGGTTGTGACCATAAATCAACGG
1 GAGATTCGTAAAATCCCATATGTAAAAAACCGTGACCATAAATCAACGG
39332369 ATGGTAAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (54 bp):
GAGATTCGTAAAATCCCATATGTAAAAAACCGTGACCATAAATCAACGGGCCAC
Found at i:39332528 original size:42 final size:42
Alignment explanation
Indices: 39332396--39332529 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 42
39332386 GGTTATTATT
* * *
39332396 GTAAATTAGTGGACCATAAGAAAGTCAAATGTGGTTGTGGTC
1 GTAAATTAGCGGACCATAAGAAAGCCAAATGTGGTTGTGATC
* * * * * **
39332438 GTAAATCAACAGACCATAAAAAAACCAAATGTGGTCCTGATC
1 GTAAATTAGCGGACCATAAGAAAGCCAAATGTGGTTGTGATC
* *
39332480 ATAAATTAGCGGACCATAAGAAAGCCGAAAT-TAGTTGTGATC
1 GTAAATTAGCGGACCATAAGAAAGCC-AAATGTGGTTGTGATC
39332522 GTAAATTA
1 GTAAATTA
39332530 AAGGACCGTG
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 67 0.94
43 4 0.06
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (42 bp):
GTAAATTAGCGGACCATAAGAAAGCCAAATGTGGTTGTGATC
Found at i:39332726 original size:54 final size:54
Alignment explanation
Indices: 39332656--39332791 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 54
39332646 TAAGAAAGCC
* * * * * **
39332656 AAAGGTTGTGACCGTAAATCAACAAACTGCGAGATTCGTAAAATCCCGTATGTA
1 AAAGGTCGTGATCGTAAATCAACAAACCGCGAGATCCATAAAATCCCGTAAATA
* ** *
39332710 AAAGGTCGTGATCGTAAATCAACGAACCGTTAGATCCATAAAATCTCGTAAATA
1 AAAGGTCGTGATCGTAAATCAACAAACCGCGAGATCCATAAAATCCCGTAAATA
*
39332764 AAAGGTCGTGATCATAAATCAACAAACC
1 AAAGGTCGTGATCGTAAATCAACAAACC
39332792 ATAAGAAAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (54 bp):
AAAGGTCGTGATCGTAAATCAACAAACCGCGAGATCCATAAAATCCCGTAAATA
Found at i:39332797 original size:147 final size:149
Alignment explanation
Indices: 39332496--39332880 Score: 352
Period size: 147 Copynumber: 2.6 Consensus size: 149
39332486 TAGCGGACCA
** * * * * * *
39332496 TAAGAAAGCCGAAATTAGTTGTGATCGTAAATTAA-AGGACCGTGAGATTCATAAAATCTCGTAT
1 TAAGAAAGCC-AAAAGAGTTGTGACCGTAAATCAACA-AACCGCGAGATTCGTAAAATCACGTAT
* * * **
39332560 GTAAAAGGCCATGATCGTAAATCAACAGGCTGCGAGATTTATAAAATCCTATAAGTAAAAGGTCG
64 GTAAAAGGTCATGATCGTAAATCAACAGACCGCGAGATCCATAAAATCCTATAAGTAAAAGGTCG
*** *
39332625 TGATAAAAAATCAGTGAATAG
129 TGATAAAAAATCAACAAACAG
* *
39332646 TAAGAAAGCC-AAAG-GTTGTGACCGTAAATCAACAAACTGCGAGATTCGTAAAATCCCGTATGT
1 TAAGAAAGCCAAAAGAGTTGTGACCGTAAATCAACAAACCGCGAGATTCGTAAAATCACGTATGT
* **
39332709 AAAAGGTCGTGATCGTAAATCAAC-GAACCGTTAGATCCATAAAATCTCGTA-AA-TAAAAGGTC
66 AAAAGGTCATGATCGTAAATCAACAG-ACCGCGAGATCCATAAAATC-C-TATAAGTAAAAGGTC
* *
39332771 GTGATCATAAATCAACAAACCA-
128 GTGATAAAAAATCAACAAA-CAG
* ** * ** ** * *
39332793 TAAGAAAGCCAAAAGTAGTTTTGATTGTAAATTAGTAAACCGTAAGATTTGTAAAATCATGTATG
1 TAAGAAAGCCAAAAG-AGTTGTGACCGTAAATCAACAAACCGCGAGATTCGTAAAATCACGTATG
39332858 TAAAAGGTCATGATCGTAAATCA
65 TAAAAGGTCATGATCGTAAATCA
39332881 GTAGACCGTA
Statistics
Matches: 191, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
146 1 0.01
147 109 0.57
148 11 0.06
149 2 0.01
150 68 0.36
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (149 bp):
TAAGAAAGCCAAAAGAGTTGTGACCGTAAATCAACAAACCGCGAGATTCGTAAAATCACGTATGT
AAAAGGTCATGATCGTAAATCAACAGACCGCGAGATCCATAAAATCCTATAAGTAAAAGGTCGTG
ATAAAAAATCAACAAACAG
Found at i:39332967 original size:42 final size:42
Alignment explanation
Indices: 39332863--39333126 Score: 169
Period size: 42 Copynumber: 6.4 Consensus size: 42
39332853 GTATGTAAAA
* ** * *
39332863 GGTCATGATCGTAAATCAGTAGACCGTAAGAAAGTCGAA---
1 GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
* * * *
39332902 AGTCGTGATCATAAATTAGCAGACCATAAGAAAGCCGAAGGT
1 GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
* *
39332944 GGTCATGATCGTAAATTGACAGACCATAAGAAAGCCGAAGAT
1 GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
* * * ** *
39332986 GGCCATGATTGTAAATTAACAAATTATACA-AAA-CTCAAAGGT
1 GGTCATGATCGTAAATTAACAGACCATA-AGAAAGC-CGAAGGT
* * * * * *
39333028 GGTCGTGGTCGTAAATCAACAGACCATAAAAAAGTCGAAAGT
1 GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
* * ** ** ** *
39333070 GGTCGTGATCATAAACCAATGGACCATAAGAAAGTTGAAAGT
1 GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
* *
39333112 AGTCGTGATCGTAAA
1 GGTCATGATCGTAAA
39333127 GTAGTAGACC
Statistics
Matches: 177, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
39 32 0.18
41 2 0.01
42 142 0.80
43 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.21
Consensus pattern (42 bp):
GGTCATGATCGTAAATTAACAGACCATAAGAAAGCCGAAGGT
Found at i:39333177 original size:54 final size:52
Alignment explanation
Indices: 39333113--39333289 Score: 219
Period size: 54 Copynumber: 3.3 Consensus size: 52
39333103 GTTGAAAGTA
**
39333113 GTCGTGATCGTAAAGTAGTAGACCGCGAGATTTGTAAAATCCCGTCTGTAAAAG
1 GTCGTGATCGTAAA-TAGT-GACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
* * *
39333167 GTCGTGATCGTAAATCAATGGACCACGAGATTTGTAAAATCCCATAAGTAAAAG
1 GTCGTGATCGTAAAT-AGT-GACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
* * **
39333221 GTCGTGATCGTAAATTAGCTGACCGCAATATTCATAAAATCCCGTAAGTAAAAG
1 GTCGTGATCGTAAA-TAG-TGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
39333275 GTCGTGATCGTAAAT
1 GTCGTGATCGTAAAT
39333290 CAACAGATCA
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.02
54 103 0.96
55 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (52 bp):
GTCGTGATCGTAAATAGTGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
Found at i:39333596 original size:39 final size:39
Alignment explanation
Indices: 39333516--39333598 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
39333506 TTGTATGTAA
* ** *
39333516 AAGGTCGTGATCGTAAATCAGCAAACTGTAAGAAAGCCG
1 AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
* *
39333555 AAGGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCG
1 AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
39333594 AAGGT
1 AAGGT
39333599 AGTCATGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (39 bp):
AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
Found at i:39333655 original size:83 final size:83
Alignment explanation
Indices: 39333544--39333826 Score: 340
Period size: 83 Copynumber: 3.4 Consensus size: 83
39333534 CAGCAAACTG
* * * * *
39333544 TAAGAAAGCCGAA---GGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCGAAGGTAGTCATG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGCAGACTATAAGAAAGTCAAAGGTAGTCGTG
*
39333606 ATCGTAAATTATGGGCCA
66 ATCGTAAATTATGAGCCA
* * *
39333624 TAAGAAAGTCGAAGGTGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGTGGTCGTG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGCAGACTATAAGAAAGTCAAAGGTAGTCGTG
*
39333689 ATCGTAAATTAATGTGCCA
66 ATCGTAAATT-ATGAGCCA
* ** *
39333708 TAAGAAAGCCGAGGGTGGTCGTGATCGTAAATCAGTGGACTATAAGAAAGTCAAAGGTCGTCGTG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGCAGACTATAAGAAAGTCAAAGGTAGTCGTG
* **
39333773 ATCATAAACCA-GTAGCCA
66 ATCGTAAATTATG-AGCCA
* * *
39333791 TAAGAAAGCCAAAAGTAGTCGTGATCGTAAATCAGC
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGC
39333827 GGATTACGAG
Statistics
Matches: 176, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
80 12 0.07
82 1 0.01
83 88 0.50
84 75 0.43
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (83 bp):
TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGCAGACTATAAGAAAGTCAAAGGTAGTCGTG
ATCGTAAATTATGAGCCA
Found at i:39333681 original size:42 final size:42
Alignment explanation
Indices: 39333518--39333825 Score: 297
Period size: 42 Copynumber: 7.5 Consensus size: 42
39333508 GTATGTAAAA
* * ** *
39333518 GGTCGTGATCGTAAATCAGCAAACTGTAAGAAAGCCGAA---
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
* * *
39333557 GGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCGAAGGT
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
* * * * *
39333599 AGTCATGATCGTAAATTA-TGGGCCATAAGAAAGTCGAAGGT
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
* *
39333640 GGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGT
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
* * *
39333682 GGTCGTGATCGTAAATTAATGT-G-CCATAAGAAAGCCGAGGGT
1 GGTCGTGATCGTAAA-TCA-GTAGACCATAAGAAAGTCGAAGGT
* * *
39333724 GGTCGTGATCGTAAATCAGTGGACTATAAGAAAGTCAAAGGT
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
* * * * * *
39333766 CGTCGTGATCATAAACCAGTAG-CCATAAGAAAGCCAAAAGT
1 GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
*
39333807 AGTCGTGATCGTAAATCAG
1 GGTCGTGATCGTAAATCAG
39333826 CGGATTACGA
Statistics
Matches: 220, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.15
40 2 0.01
41 69 0.31
42 111 0.50
43 3 0.01
44 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (42 bp):
GGTCGTGATCGTAAATCAGTAGACCATAAGAAAGTCGAAGGT
Found at i:39333773 original size:654 final size:641
Alignment explanation
Indices: 39332493--39334114 Score: 1720
Period size: 654 Copynumber: 2.5 Consensus size: 641
39332483 AATTAGCGGA
** * * * ** * *
39332493 CCATAAGAAAGCCGAAATTAGTTGTGATCGTAAATTAAAGGACCGTGAGATTCATAAAATCTCG-
1 CCATAAGAAAGCC-AAAAGAGTCGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCGA
** * * * * * * *
39332557 TATGTAAAAGGCCATGATCGTAAATCAACAGG-CTGCGAGATTTATAAAATCCTATAAGTAAAAG
65 TATAAAAAAGGTCATGATCGTAAATCAA-TGGACCGCAAGATTCATAAAATCCCATAAGTAAAAA
*** *** * * * *
39332621 GTCGTGATAAAAAATCAGTGAAT-AGTAAGAAAGCCAAAGGTTGTGACCGTAAATCAACAAACTG
129 GTCGTGATCGTAAATCAACAAATCA-TAAGAAAGCCAATGGTTGTGACCGTAAATCAGCAGACTA
* *
39332685 CGAGATTCGTAAAATCCCGTATGTAAAAGGTCGTGATCGTAAATCAACGAACCGTTAGATCCATA
193 CGAGATTCGTAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATA
* * * * * **
39332750 AAATCTCGTAAATAAAAGGTCGTGATCATAAATCAACAAACCATAAGAAAGCCAAAAGTAGTTTT
258 AAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGCAGACCATAAGAAAGCGAAAAGTAGTCGT
* *
39332815 GATTGTAAATTAGTAAACCGTAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATC
323 GATTGTAAATCAGTAAACCGCAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATC
* * * * * *
39332880 AGTAGACCGTAAGAAAGTCGAAAGTCGTGATCATAAATTAGCAGACCATAAGAAAGCCGAAGGTG
388 AGCAAACCGTAAGAAAGCCGAAAGTCGTGATCATAAATCAGCAGACCATAAAAAAGCCGAAGGTA
* * *
39332945 GTCATGATCGTAAATTGACAGACCATAAGAAAGCCGAAGATGGCCATGATTGTAAATTAACAAAT
453 GTCATGATCGTAAATTGACAGACCATAAGAAAGCCGAAGATGGCCATGATCGTAAATCAACAAAC
* *
39333010 TATACAAAACTCAAAGGTGGTCGTGGTCGTAAATCAACAGACCATAAAAAAGTCGAAAGTGGTCG
518 TATACAAAACTCAAAGGTGGTCGTGATCGTAAATCAACAGACCATAAAAAAGCCGAAAGTGGTCG
* * **
39333075 TGATCATAAACCAATGGACCATAAGAAAGTTGAAAGTAGTCGTGATCGTAAAGTAGTAG
583 TGATCATAAACCAATGGACCATAAGAAAGTTCAAAGTAGTCGTGATCATAAACCAGTAG
** * *
39333134 ACCGCGAGATTTGTAAAATCCCGTCTGTAAAAG-GTCGTGATCGTAAATCAATGGACCACGAGAT
1 --C-C---ATAAG--AAA----G-C--CAAAAGAGTCGTGATCGTAAATCAACGGACCACGAGAT
* * * * * *
39333198 TTGTAAAATCCC-ATA-AGTAAAAGGTCGTGATCGTAAATTAGCT-GACCGCAATATTCATAAAA
51 TTATAAAATCCCGATATA-AAAAAGGTCATGATCGTAAATCA-ATGGACCGCAAGATTCATAAAA
* * * *
39333260 TCCCGTAAGTAAAAGGTCGTGATCGTAAATCAACAGATCATAAGAAAGCCAATGGTTGTGACTGT
114 TCCCATAAGTAAAAAGTCGTGATCGTAAATCAACAAATCATAAGAAAGCCAATGGTTGTGACCGT
* * * * * *
39333325 AAATCAGCGGACTACGAGATTCGTAAAATCCCATAAGTAAAATGTCGTGATCGTAAATTAATGGA
179 AAATCAGCAGACTACGAGATTCGTAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAACGAA
* * * * *
39333390 CCGTGAGATCCATAAAACCCCATAAGTAAAAAGGTTGTGATCATAAATCAGCGGACCATAAGAAA
244 CCGTAAGATCCATAAAATCTCATAAGT-AAAAGGTCGTGATCATAAATCAGCAGACCATAAGAAA
* ** *
39333455 GTGAAAAGTAGTCGTGATTGTAAATCAGTGGACCGCAAGATTTGTAAAATCTTGTATGTAAAAGG
308 GCGAAAAGTAGTCGTGATTGTAAATCAGTAAACCGCAAGATTTGTAAAATCATGTATGTAAAAGG
* * *
39333520 TCGTGATCGTAAATCAGCAAACTGTAAGAAAGCCGAAGGTCGTGATCATAAATCAGCAGACCATA
373 TCATGATCGTAAATCAGCAAACCGTAAGAAAGCCGAAAGTCGTGATCATAAATCAGCAGACCATA
* ** * * * * *
39333585 AAAAAGTCGAAGGTAGTCATGATCGTAAATT-ATGGGCCATAAGAAAGTCGAAGGTGGTCGTGAT
438 AAAAAGCCGAAGGTAGTCATGATCGTAAATTGACAGACCATAAGAAAGCCGAAGATGGCCATGAT
** * * * * * *
39333649 CGTAAATCAGTAGACTATA-AGAAAGTCAAAGGTGGTCGTGATCGTAAATTAA-TGTGCCATAAG
503 CGTAAATCAACAAACTATACA-AAACTCAAAGGTGGTCGTGATCGTAAATCAACAG-ACCATAAA
** * * * * *
39333712 AAAGCCGAGGGTGGTCGTGATCGTAAATCAGTGGACTATAAGAAAG-TCAAAGGTCGTCGTGATC
566 AAAGCCGAAAGTGGTCGTGATCATAAACCAATGGACCATAAGAAAGTTCAAA-GTAGTCGTGATC
39333776 ATAAACCAGTAG
630 ATAAACCAGTAG
* **
39333788 CCATAAGAAAGCCAAAAGTAGTCGTGATCGTAAATCAGCGGATTACGAGATTTATAAAATCCCGT
1 CCATAAGAAAGCCAAAAG-AGTCGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCG-
** **
39333853 ATATAAAAAAGGTCATGATCGTAAATCAATGGACCGTGAGATTTGTAAAATCCCATAAGTAAAAA
64 ATATAAAAAAGGTCATGATCGTAAATCAATGGACCGCAAGATTCATAAAATCCCATAAGTAAAAA
* * * * * * * *
39333918 GTTGTGATCGTAAATTAAGAAATCGTAAGAAAACCAATGGTTTTGACCATAAATCAGCAGACCAC
129 GTCGTGATCGTAAATCAACAAATCATAAGAAAGCCAATGGTTGTGACCGTAAATCAGCAGACTAC
** * * * *
39333983 GAGATTTATAAAATCACGTAAGTAAAGGGTTGTGATCGTAAATCAACGAACCGTAAGATTCATAA
194 GAGATTCGTAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAA
* * *
39334048 AATCTCATAAGTAAAAGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGCCG-AAAGTAGTCGT
259 AATCTCATAAGTAAAAGGTCGTGATCATAAATCAGCAGACCATAAGAAAG-CGAAAAGTAGTCGT
39334112 GAT
323 GAT
39334115 CGTATGTGCA
Statistics
Matches: 797, Mismatches: 153, Indels: 59
0.79 0.15 0.06
Matches are distributed among these distances:
639 5 0.01
641 39 0.05
642 49 0.06
643 169 0.21
644 2 0.00
646 3 0.00
647 3 0.00
648 3 0.00
649 3 0.00
651 1 0.00
652 1 0.00
653 8 0.01
654 332 0.42
655 179 0.22
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (641 bp):
CCATAAGAAAGCCAAAAGAGTCGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCGAT
ATAAAAAAGGTCATGATCGTAAATCAATGGACCGCAAGATTCATAAAATCCCATAAGTAAAAAGT
CGTGATCGTAAATCAACAAATCATAAGAAAGCCAATGGTTGTGACCGTAAATCAGCAGACTACGA
GATTCGTAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAAAA
TCTCATAAGTAAAAGGTCGTGATCATAAATCAGCAGACCATAAGAAAGCGAAAAGTAGTCGTGAT
TGTAAATCAGTAAACCGCAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATCAGC
AAACCGTAAGAAAGCCGAAAGTCGTGATCATAAATCAGCAGACCATAAAAAAGCCGAAGGTAGTC
ATGATCGTAAATTGACAGACCATAAGAAAGCCGAAGATGGCCATGATCGTAAATCAACAAACTAT
ACAAAACTCAAAGGTGGTCGTGATCGTAAATCAACAGACCATAAAAAAGCCGAAAGTGGTCGTGA
TCATAAACCAATGGACCATAAGAAAGTTCAAAGTAGTCGTGATCATAAACCAGTAG
Found at i:39334026 original size:54 final size:54
Alignment explanation
Indices: 39333967--39334087 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 54
39333957 GTTTTGACCA
* * * *
39333967 TAAATCAGCAGACCACG-AGATTTATAAAATCACGTAAGTAAAGGGTTGTGATCG
1 TAAATCAGCAGACC-CGAAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
* * *
39334021 TAAATCAAC-GAACCGTAAGATTCATAAAATCTCATAAGTAAAAGGTCGTGATCG
1 TAAATCAGCAGACCCG-AAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
*
39334075 TAAATCAGTAGAC
1 TAAATCAGCAGAC
39334088 TATAAGAAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
52 2 0.04
53 3 0.06
54 47 0.87
55 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (54 bp):
TAAATCAGCAGACCCGAAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
Found at i:39334251 original size:77 final size:77
Alignment explanation
Indices: 39334150--39334324 Score: 318
Period size: 77 Copynumber: 2.3 Consensus size: 77
39334140 CATGGAGTTA
39334150 TACCC-AAACAACAT-AATGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAA
1 TACCCTAAACAACATGAA-GGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAA
*
39334213 GCTCTAACCATGT
65 GCTCCAACCATGT
39334226 TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
1 TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
39334291 CTCCAACCATGT
66 CTCCAACCATGT
39334303 TACCCTAAACAACATGAAGGAA
1 TACCCTAAACAACATGAAGGAA
39334325 GTCAAAGCTC
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
76 5 0.05
77 89 0.93
78 2 0.02
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (77 bp):
TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
CTCCAACCATGT
Found at i:39340632 original size:24 final size:24
Alignment explanation
Indices: 39340599--39340650 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39340589 TTTCTAGCTC
* *
39340599 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACA
*
39340623 AAATATATTATACTAATAAATACA
1 AAATAAATTATACTAATAAATACA
39340647 AAAT
1 AAAT
39340651 CTTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:39341825 original size:28 final size:28
Alignment explanation
Indices: 39341794--39341862 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
39341784 ATAAAAAATA
*
39341794 ACCAAAATGT-TATAACTTTTTTTTATTT
1 ACCAAAATATATATAA-TTTTTTTTATTT
39341822 ACCAAAATATATATAATTTTTTTTATTT
1 ACCAAAATATATATAATTTTTTTTATTT
39341850 ACCAAAATATATA
1 ACCAAAATATATA
39341863 AACAAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 34 0.87
29 5 0.13
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (28 bp):
ACCAAAATATATATAATTTTTTTTATTT
Found at i:39342448 original size:36 final size:35
Alignment explanation
Indices: 39342377--39342457 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
39342367 AGTTAGTTAG
* *
39342377 TTAGT-TATTATTTTTAGTAAAATTAATAATTTTA
1 TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
*
39342411 TT-GTGTATTATTTTGAGTATAAAATTATTAATATTA
1 TTAGTGTATTATTTTGAG--TAAAATTAATAATATTA
39342447 TTAGTGTATTA
1 TTAGTGTATTA
39342458 GTTATAAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 2 0.05
34 13 0.32
36 17 0.43
37 8 0.20
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (35 bp):
TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
Found at i:39343102 original size:18 final size:18
Alignment explanation
Indices: 39343079--39343117 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
39343069 TTGACATGGT
*
39343079 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
39343097 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
39343115 TGG
1 TGG
39343118 CAGCGATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.51, T:0.15
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:39343123 original size:18 final size:18
Alignment explanation
Indices: 39343086--39343123 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
39343076 GGTTGGTGGT
**
39343086 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGGCAGC
39343104 GAAGAAGAAGGTGGCAGC
1 GAAGAAGAAGGTGGCAGC
39343122 GA
1 GA
39343124 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.47, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAGGTGGCAGC
Found at i:39347592 original size:15 final size:15
Alignment explanation
Indices: 39347572--39347603 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39347562 AAAAAATATC
39347572 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
39347587 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
39347602 AT
1 AT
39347604 TAGCCGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTTCTAAATTT
Found at i:39348457 original size:6 final size:5
Alignment explanation
Indices: 39348393--39348530 Score: 51
Period size: 5 Copynumber: 27.8 Consensus size: 5
39348383 AAATTACCTC
* * **
39348393 TTCTT TTCTT TTCTT TTCCT TCCTT CCCTT TTCTT CTT-TT TT-TT TTCTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT TTCT-T
* *
39348443 TCTCCTT TCCTT TTCTT TCCTT CCTTC-T TTC-T TTC-T TT-TT TTCTT
1 T-T-CTT TTCTT TTCTT TTCTT --TTCTT TTCTT TTCTT TTCTT TTCTT
* ** *
39348488 CTCCTT CCCTT TTCTT CTTC-T TTC-T TTCTT TT-TT TTCTC TTCT
1 -TTCTT TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
39348531 CCTTCCCTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
4 30 0.29
5 56 0.53
6 12 0.11
7 5 0.05
8 2 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (5 bp):
TTCTT
Found at i:39348474 original size:4 final size:4
Alignment explanation
Indices: 39348454--39348594 Score: 64
Period size: 4 Copynumber: 36.0 Consensus size: 4
39348444 CTCCTTTCCT
* * * * **
39348454 TTTC TTTC CTTC CTTC TTTC TTTC TTTT TTTC TTCTC CTTC CCT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC TTTC
* **
39348502 -TTC -TTC TTTC TTTC TTT- TTT- TTCTC TTCTC CTTC CCT- TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TT-TC TTTC TTTC TTTC TTTC
* * * *
39348547 CTTC -TT- TTTC TTTC TTTCC TCTC ATTC ATTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTT-C TTTC TTTC -TTTC TTTC TTTC TTTC TTTC
39348595 CCTCTCCTTC
Statistics
Matches: 108, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
3 17 0.16
4 77 0.71
5 14 0.13
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:39348505 original size:35 final size:39
Alignment explanation
Indices: 39348393--39348563 Score: 136
Period size: 41 Copynumber: 4.2 Consensus size: 39
39348383 AAATTACCTC
* *
39348393 TTCTTTTCTTT-TCTTTTCCTT-CCTTCCCTT-TTC-TTCT
1 TTCTTTT-TTTCTCTTCTCCTTCCCTT-TCTTCTTCTTTCT
* *
39348430 TT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCCTTCT
1 TTCTTTTTTTCTCTTCTCC-TTCCCTTTC-TT-CTTCTTTCT
*
39348471 TTCTTTCTTTTTTTCTTCTCCTTCCCTTTTCTTCTTCTTTCT
1 TTC-TT-TTTTTCTCTTCTCCTTCCC-TTTCTTCTTCTTTCT
39348513 TTCTTTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTTTTTCT
1 TTC-TTTTTTTCTCTTCTCCTTCCC-TTTC-TT-CTTC--TTTCT
39348558 TTCTTT
1 TTCTTT
39348564 CCTCTCATTC
Statistics
Matches: 112, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
35 3 0.03
36 11 0.10
37 5 0.04
38 5 0.04
40 3 0.03
41 29 0.26
42 16 0.14
43 12 0.11
44 20 0.18
45 8 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (39 bp):
TTCTTTTTTTCTCTTCTCCTTCCCTTTCTTCTTCTTTCT
Found at i:39348541 original size:19 final size:19
Alignment explanation
Indices: 39348477--39348541 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
39348467 TTCTTTCTTT
*
39348477 CTTTTTTTCTTCTCCTTCC
1 CTTTTTCTCTTCTCCTTCC
* *
39348496 C-TTTTCTTCTTCTTTCTTTCTT
1 CTTTTTC-TCTTC--TCCTTC-C
*
39348518 TTTTTTCTCTTCTCCTTCC
1 CTTTTTCTCTTCTCCTTCC
39348537 CTTTT
1 CTTTT
39348542 CTTTCCTTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 5 0.15
21 5 0.15
22 5 0.15
23 5 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTTTTCTCTTCTCCTTCC
Found at i:39348581 original size:41 final size:43
Alignment explanation
Indices: 39348423--39348563 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 43
39348413 TCCTTCCCTT
*
39348423 TTCTTC-TT-TTT-TTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTCTTTCTTTCTTTTTCTCTTCTCCTTCCCTTTTCTTTCC
*
39348463 TTCCTTCTTTCTTTCTTTTTTTCTTCTCCTTCCCTTTTC-TT-C
1 TT-CTTCTTTCTTTCTTTTTCTCTTCTCCTTCCCTTTTCTTTCC
39348505 TTCTTTCTTTCTTT-TTTTTCTCTTCTCCTTCCCTTTTCTTTCC
1 TTC-TTCTTTCTTTCTTTTTCTCTTCTCCTTCCCTTTTCTTTCC
39348548 TTCTT-TTTCTTTCTTT
1 TTCTTCTTTCTTTCTTT
39348564 CCTCTCATTC
Statistics
Matches: 90, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
40 2 0.02
41 35 0.39
42 22 0.24
43 9 0.10
44 22 0.24
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (43 bp):
TTCTTCTTTCTTTCTTTTTCTCTTCTCCTTCCCTTTTCTTTCC
Found at i:39348675 original size:27 final size:27
Alignment explanation
Indices: 39348637--39348706 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
39348627 CCCTAATATA
39348637 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCT-TTGGCAC
* * *
39348664 CATTGTTGCCGCTAATGGCTTTGGGAC
1 CATTGGTGCCGCCAATGGCTTTGGCAC
*
39348691 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
39348707 CCCATTGGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.30
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGCAC
Found at i:39348714 original size:27 final size:27
Alignment explanation
Indices: 39348637--39348715 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
39348627 CCCTAATATA
*
39348637 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
* * * *
39348664 CATTGTTGCCGCTAATGGCTTTGGGAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
* **
39348691 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
39348716 GTGACCAGTG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.29
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:39363185 original size:49 final size:49
Alignment explanation
Indices: 39363113--39363211 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
39363103 TGACAAAAGA
39363113 GGTAAGTTCCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
1 GGTAAGTTCCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
* *
39363162 GGTAAGTTTCGTACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
1 GGTAAGTTCCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
39363211 G
1 G
39363212 TGAATGAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (49 bp):
GGTAAGTTCCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
Found at i:39370859 original size:12 final size:12
Alignment explanation
Indices: 39370844--39370877 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39370834 TTAAATAAAC
39370844 AAATAAACATAA
1 AAATAAACATAA
*
39370856 AAATAAAAATAA
1 AAATAAACATAA
39370868 AAATGAAACA
1 AAAT-AAACA
39370878 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAACATAA
Found at i:39370876 original size:25 final size:25
Alignment explanation
Indices: 39370827--39370877 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
39370817 AAGAAGATTA
*
39370827 ATAAAAATTAAATAAACAAATAAAC
1 ATAAAAATTAAATAAAAAAATAAAC
39370852 ATAAAAA-TAAA-AATAAAAATGAAAC
1 ATAAAAATTAAATAA-AAAAAT-AAAC
39370877 A
1 A
39370878 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.09
24 9 0.39
25 12 0.52
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (25 bp):
ATAAAAATTAAATAAAAAAATAAAC
Found at i:39379046 original size:22 final size:22
Alignment explanation
Indices: 39379021--39379134 Score: 65
Period size: 22 Copynumber: 5.2 Consensus size: 22
39379011 TTCTTATTCC
39379021 TAATTTAAAACACGTTAAATTA
1 TAATTTAAAACACGTTAAATTA
** * * *
39379043 TAATACAATATACATG-CATATT-
1 TAATTTAA-A-ACACGTTAAATTA
*
39379065 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACGTTAAATTA
** * *
39379087 TAATACAATATACATG-TATATT-
1 TAATTTAA-A-ACACGTTAAATTA
*
39379109 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACGTTAAATTA
39379131 TAAT
1 TAAT
39379135 ACAATATACA
Statistics
Matches: 63, Mismatches: 21, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
20 6 0.10
21 11 0.17
22 28 0.44
23 11 0.17
24 7 0.11
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (22 bp):
TAATTTAAAACACGTTAAATTA
Found at i:39379071 original size:44 final size:44
Alignment explanation
Indices: 39379021--39379257 Score: 386
Period size: 44 Copynumber: 5.4 Consensus size: 44
39379011 TTCTTATTCC
* *
39379021 TAATTTAAAACACGTTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
**
39379065 TAATTTAAAACACATTAAATTATAATACAATATACATGTATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
39379109 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
39379153 TGAA-TTAAAGCACATTAAATTATAATACAATATACATACATGTT
1 T-AATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
39379197 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
39379241 TATTTTAAAACACATTA
1 TAATTTAAAACACATTA
39379258 TATATATTAA
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
43 1 0.01
44 179 0.98
45 2 0.01
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:39379255 original size:22 final size:22
Alignment explanation
Indices: 39379186--39379255 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
39379176 AATACAATAT
*
39379186 ACATACATGTTTATTTTAAAAC
1 ACATACATATTTATTTTAAAAC
** *
39379208 ACATTA-A-A-TTATAATACAATAT
1 ACA-TACATATTTATTTTA-AA-AC
39379230 ACATACATATTTATTTTAAAAC
1 ACATACATATTTATTTTAAAAC
39379252 ACAT
1 ACAT
39379256 TATATATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
20 6 0.17
21 4 0.11
22 14 0.40
23 5 0.14
24 6 0.17
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (22 bp):
ACATACATATTTATTTTAAAAC
Found at i:39379464 original size:35 final size:36
Alignment explanation
Indices: 39379416--39379483 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
39379406 TTTTAATGCC
* *
39379416 GGCACCAAGGCCTGCCAGAGATGGTCTTACATTGCT
1 GGCACCAAGGCCTGCCACAGATGGCCTTACATTGCT
*
39379452 GGCACTAA-GCCTGCCACAGATGGCCTTACATT
1 GGCACCAAGGCCTGCCACAGATGGCCTTACATT
39379484 AGTCAGCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (36 bp):
GGCACCAAGGCCTGCCACAGATGGCCTTACATTGCT
Found at i:39379718 original size:27 final size:24
Alignment explanation
Indices: 39379673--39379755 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 24
39379663 ACGTAAATTA
39379673 AAATGGAAAAAAGATAATTTAAATG
1 AAATGGAAAAAA-ATAATTTAAATG
39379698 AAATGAGAAAAAAATTAAATTTAAATGG
1 AAATG-GAAAAAAA-T-AATTTAAAT-G
*
39379726 AAA---AAAAAGATAATTTAAATG
1 AAATGGAAAAAAATAATTTAAATG
39379747 AAATGGAAA
1 AAATGGAAA
39379756 TGAAATGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
21 4 0.08
22 9 0.18
23 1 0.02
24 9 0.18
25 6 0.12
26 8 0.16
27 9 0.18
28 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (24 bp):
AAATGGAAAAAAATAATTTAAATG
Found at i:39380010 original size:21 final size:21
Alignment explanation
Indices: 39379986--39380025 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39379976 TTTAAATTGA
*
39379986 GAAAAAATTTAAATAAAATAT
1 GAAAAAATGTAAATAAAATAT
*
39380007 GAAAAACTGTAAATAAAAT
1 GAAAAAATGTAAATAAAAT
39380026 GTAATTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
GAAAAAATGTAAATAAAATAT
Found at i:39380096 original size:15 final size:15
Alignment explanation
Indices: 39380064--39380108 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
39380054 AAAAAATATG
*
39380064 AAATGAATTGAAAAAA
1 AAATAAATTG-AAAAA
*
39380080 AAATTGAATTGAAAAA
1 AAA-TAAATTGAAAAA
39380096 AAATAAATTGAAA
1 AAATAAATTGAAA
39380109 TGAGACTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (15 bp):
AAATAAATTGAAAAA
Found at i:39380204 original size:23 final size:23
Alignment explanation
Indices: 39380178--39380258 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 23
39380168 AAAACAATTA
39380178 ATGAAATGTAATTTGTAATGAAT
1 ATGAAATGTAATTTGTAATGAAT
* *
39380201 ATGAAATGAAATGTT-AAATGAAT
1 ATGAAATGTAAT-TTGTAATGAAT
*
39380224 ATGAAATGAAATGAATTTGTAATGATT
1 ATGAAATG---T-AATTTGTAATGAAT
39380251 ATGAAATG
1 ATGAAATG
39380259 GAATGAAAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 26 0.55
24 2 0.04
26 2 0.04
27 17 0.36
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (23 bp):
ATGAAATGTAATTTGTAATGAAT
Found at i:39380221 original size:12 final size:10
Alignment explanation
Indices: 39380194--39380266 Score: 56
Period size: 11 Copynumber: 6.7 Consensus size: 10
39380184 TGTAATTTGT
39380194 AATGAATATGA
1 AATGAA-ATGA
39380205 AATGAAATGTTA
1 AATGAAATG--A
39380217 AATGAATATGA
1 AATGAA-ATGA
39380228 AATGAAATGA
1 AATGAAATGA
* *
39380238 ATTTGTAATGA
1 A-ATGAAATGA
* *
39380249 TTATGAAATGG
1 -AATGAAATGA
39380260 AATGAAA
1 AATGAAA
39380267 GCTTAAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 14 0.28
11 26 0.52
12 7 0.14
13 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (10 bp):
AATGAAATGA
Found at i:39380421 original size:6 final size:6
Alignment explanation
Indices: 39380406--39380439 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
39380396 AAGATCATTT
39380406 AAAT-G AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
39380440 AAAAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:39383129 original size:90 final size:90
Alignment explanation
Indices: 39382986--39383402 Score: 617
Period size: 90 Copynumber: 4.6 Consensus size: 90
39382976 ATTCTGGAAT
* * * * * *
39382986 ATTAATACACAAAAATATAAAATTAAAAC-AAAAATAATAC-GCACTAAATTAAATTTAAACACC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAG-ACTAAATTAAATTTAAACACC
39383049 CAACAAACTACAAACAGATGGGTAAA
65 CAACAAACTACAAACAGATGGGTAAA
* *
39383075 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACCCCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
*
39383140 AACAAACTACAAACGGATGGGTAAA
66 AACAAACTACAAACAGATGGGTAAA
* * * *
39383165 ATTAGA-GCACGAAAATTTTAAATTTAAACTATATATAACACAGACTAAATTAAATTTAAACACC
1 ATTA-ATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACC
39383229 CAACAAACTACAAACAGATGGGTAAA
65 CAACAAACTACAAACAGATGGGTAAA
* * *
39383255 ATTAGA-GCACGAAAATTTTAAATTCAAACTATATATAACACAGACTAAATTAAATTTAAACACC
1 ATTA-ATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACC
*
39383319 CAACAAACTACAAACAAATGGGTAAA
65 CAACAAACTACAAACAGATGGGTAAA
*
39383345 ATTAATACATGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTA
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTA
39383403 CAGATACAAA
Statistics
Matches: 303, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
89 26 0.09
90 275 0.91
91 2 0.01
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.25
Consensus pattern (90 bp):
ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATGGGTAAA
Found at i:39383448 original size:180 final size:179
Alignment explanation
Indices: 39383028--39383450 Score: 541
Period size: 180 Copynumber: 2.3 Consensus size: 179
39383018 AATAATACGC
* * * *
39383028 ACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACACGAAAATTT
1 ACTAAATTAAATTTAAACACCAAAAAAAATACAAACA-ATGGCTAAAATTAATACACGAAAATTT
* * * **
39383093 TAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACCCCCAACAAACTACAAACGGAT
65 TAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAAT
* * *
39383158 GGGTAAAATTAGAGCACGAAAATTTTAAATTTAAACTATATATAACACAG
130 GGGTAAAATTAGAACACGAAAATTTTAAATTCAAACTACATATAACACAG
* * * * *
39383208 ACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAGA-GCACGAAAATT
1 ACTAAATTAAATTTAAACACCAAAAAAAATACAAACA-ATGGCTAAAATTA-ATACACGAAAATT
*
39383272 TTAAATTCAAACTATATATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAA
64 TTAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAA
* *
39383337 TGGGTAAAATTA-ATACATGAAAATTTTAAATTCAAACTACATATAATACAG
129 TGGGTAAAATTAGA-ACACGAAAATTTTAAATTCAAACTACATATAACACAG
* *
39383388 ACTAAATTAAATTTACAGATA-CAAAAAAAATACAAAC-AT-TCTAAGAAATTAATACACGAAAA
1 ACTAAATTAAATTTA-A-ACACCAAAAAAAATACAAACAATGGCT-A-AAATTAATACACGAAAA
39383450 T
62 T
39383451 ATAAAAATTA
Statistics
Matches: 217, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
178 1 0.00
179 5 0.02
180 194 0.89
181 15 0.07
182 2 0.01
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (179 bp):
ACTAAATTAAATTTAAACACCAAAAAAAATACAAACAATGGCTAAAATTAATACACGAAAATTTT
AAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAATG
GGTAAAATTAGAACACGAAAATTTTAAATTCAAACTACATATAACACAG
Found at i:39384203 original size:110 final size:109
Alignment explanation
Indices: 39384067--39384279 Score: 347
Period size: 112 Copynumber: 1.9 Consensus size: 109
39384057 AAAGTTGGTG
* *
39384067 CCGGCCATCAGTGTCCCAAAGT-AAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTTGTGTCG
1 CCGGCCATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
39384131 GCCATCTACTGGCCAGCATCCAAATCTTTTTTTAAATGACACTGTA
66 GCCATCTACTGGCCAGCA-CCAAAT-TTTTTTTAAATGACACTGTA
*
39384177 CCGGCGATCAGTGTCCCAAAGTAAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCC
1 CCGGCCATCAGTGTCCCAAAGT-AAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCC
* *
39384242 GGTCATCTACTGGCCAGCACCCAATTTTTTTTAAATGA
65 GGCCATCTACTGGCCAGCACCAAATTTTTTTTAAATGA
39384280 TTCTGGTGCC
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
110 34 0.35
111 5 0.05
112 57 0.59
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (109 bp):
CCGGCCATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
GCCATCTACTGGCCAGCACCAAATTTTTTTTAAATGACACTGTA
Found at i:39387878 original size:11 final size:11
Alignment explanation
Indices: 39387864--39387936 Score: 75
Period size: 10 Copynumber: 7.0 Consensus size: 11
39387854 AATTAATTAT
39387864 ATTTTTAAATA
1 ATTTTTAAATA
39387875 ATTTTT--ATA
1 ATTTTTAAATA
39387884 ATTTTTAAATA
1 ATTTTTAAATA
39387895 A-TTTTAAAT-
1 ATTTTTAAATA
*
39387904 ATTTTAAAAT-
1 ATTTTTAAATA
**
39387914 ATTTTTTCATGA
1 ATTTTTAAAT-A
39387926 ATTTTTAAATA
1 ATTTTTAAATA
39387937 TATTAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
9 10 0.20
10 22 0.43
11 11 0.22
12 8 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
ATTTTTAAATA
Found at i:39387887 original size:20 final size:20
Alignment explanation
Indices: 39387860--39387936 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
39387850 TAGCAATTAA
39387860 TTAT-ATTTTTAAATAATTT
1 TTATAATTTTTAAATAATTT
39387879 TTATAATTTTTAAATAA-TT
1 TTATAATTTTTAAATAATTT
*
39387898 TTA-AATATTTTAAAATATTTT
1 TTATAAT-TTTT-AAATAATTT
39387919 TTCATGAATTTTTAAATA
1 TT-AT-AATTTTTAAATA
39387937 TATTAAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
18 3 0.06
19 13 0.26
20 17 0.34
21 4 0.08
22 6 0.12
23 4 0.08
24 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TTATAATTTTTAAATAATTT
Found at i:39387900 original size:10 final size:10
Alignment explanation
Indices: 39387866--39387947 Score: 62
Period size: 10 Copynumber: 8.1 Consensus size: 10
39387856 TTAATTATAT
39387866 TTTTAAATAA
1 TTTTAAATAA
*
39387876 TTTT-TATAA
1 TTTTAAATAA
39387885 TTTTTAAATAA
1 -TTTTAAATAA
39387896 TTTTAAAT-A
1 TTTTAAATAA
*
39387905 TTTTAAAATAT
1 TTTT-AAATAA
**
39387916 TTTTTCATGAA
1 TTTTAAAT-AA
39387927 TTTTTAAAT-A
1 -TTTTAAATAA
*
39387937 TATTAAATAA
1 TTTTAAATAA
39387947 T
1 T
39387948 CAATTAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
9 16 0.29
10 25 0.45
11 9 0.16
12 6 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:39388179 original size:29 final size:29
Alignment explanation
Indices: 39388118--39388174 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
39388108 TTAAACTTGA
* *
39388118 TATATTTAAATATATTAATAATGCATAAT
1 TATATTTAAATATATTAACAAAGCATAAT
39388147 TATATTTAAA-A-ATTAACAAAGCATAAT
1 TATATTTAAATATATTAACAAAGCATAAT
39388174 T
1 T
39388175 CTATAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (29 bp):
TATATTTAAATATATTAACAAAGCATAAT
Found at i:39389786 original size:27 final size:27
Alignment explanation
Indices: 39389748--39389803 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
39389738 TCACAAATCA
39389748 TTGACAACATTATTGAATTAACACCAT
1 TTGACAACATTATTGAATTAACACCAT
* *
39389775 TTGACAATATTATTGAATTAGCACCAT
1 TTGACAACATTATTGAATTAACACCAT
39389802 TT
1 TT
39389804 TATATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (27 bp):
TTGACAACATTATTGAATTAACACCAT
Found at i:39392768 original size:21 final size:21
Alignment explanation
Indices: 39392744--39392806 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
39392734 TATATAGAAT
39392744 ATCCTTAGACT-GACTAGGATA
1 ATCCTTAGA-TAGACTAGGATA
39392765 ATCC--AGGAATAGACTAGGATA
1 ATCCTTA-G-ATAGACTAGGATA
*
39392786 ATCCTTAGATGGACTAGGATA
1 ATCCTTAGATAGACTAGGATA
39392807 TTTGCCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 31 0.86
22 1 0.03
23 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (21 bp):
ATCCTTAGATAGACTAGGATA
Found at i:39396944 original size:50 final size:50
Alignment explanation
Indices: 39396836--39397083 Score: 271
Period size: 50 Copynumber: 4.8 Consensus size: 50
39396826 ATTTGGGTAA
* * ** *
39396836 AGAGATCCCATGTAAGACCATGTTTGGGACATGATATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATG
* * *
39396892 AGAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*
39396942 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * *
39396992 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * *
39397042 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39397084 GTACAAGAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 129 0.77
53 2 0.01
56 37 0.22
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:39398600 original size:31 final size:30
Alignment explanation
Indices: 39398522--39398601 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
39398512 TTTACATGGG
* *
39398522 CATT-AAATATTCATATATGCATTTTCATA
1 CATTGAAATATTCATATTTGCATATTCATA
*
39398551 CATTGTAATAATTCATATTTGCATATTCATA
1 CATTGAAAT-ATTCATATTTGCATATTCATA
*
39398582 C-TCTGAAATCATTTATATTT
1 CAT-TGAAAT-ATTCATATTT
39398602 ACCTGTCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 4 0.10
30 4 0.10
31 34 0.81
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (30 bp):
CATTGAAATATTCATATTTGCATATTCATA
Found at i:39404450 original size:35 final size:35
Alignment explanation
Indices: 39404392--39404460 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
39404382 GACATTCAGC
* *
39404392 CAAACAAGTCAAACTCAACAGAGAAATGCAACTTG
1 CAAACAAGTCAAACTAAAAAGAGAAATGCAACTTG
39404427 CAAACCAAGTC-AACTAAAAAGAGAAATGCAACTT
1 CAAA-CAAGTCAAACTAAAAAGAGAAATGCAACTT
39404461 ATAAGAGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.51, C:0.22, G:0.13, T:0.14
Consensus pattern (35 bp):
CAAACAAGTCAAACTAAAAAGAGAAATGCAACTTG
Found at i:39413902 original size:18 final size:18
Alignment explanation
Indices: 39413864--39413899 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39413854 TTATTATTTT
*
39413864 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
39413882 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
39413900 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:39413939 original size:16 final size:16
Alignment explanation
Indices: 39413892--39413942 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
39413882 TAAAATTTAA
39413892 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* **
39413909 AGA--AATAATAGATT
1 ATATTAATAATTTATT
39413923 ATATTAATAATTTATT
1 ATATTAATAATTTATT
39413939 ATAT
1 ATAT
39413943 GACTAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
14 11 0.42
16 13 0.50
17 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:39414007 original size:13 final size:13
Alignment explanation
Indices: 39413989--39414013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39413979 ATATTAAAAA
39413989 TATTAATATTTTG
1 TATTAATATTTTG
39414002 TATTAATATTTT
1 TATTAATATTTT
39414014 AAATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTAATATTTTG
Found at i:39419070 original size:15 final size:15
Alignment explanation
Indices: 39419050--39419081 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39419040 CATTTCACTA
*
39419050 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
39419065 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
39419080 TT
1 TT
39419082 TACATGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:39426316 original size:22 final size:23
Alignment explanation
Indices: 39426288--39426331 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
39426278 ATGTAATCTT
*
39426288 AGATATGATT-TGTAATCTTAGA
1 AGATATGATTCTGTAATATTAGA
39426310 AGATATGATTCTGTAATATTAG
1 AGATATGATTCTGTAATATTAG
39426332 TGATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (23 bp):
AGATATGATTCTGTAATATTAGA
Found at i:39426346 original size:22 final size:23
Alignment explanation
Indices: 39426288--39426346 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
39426278 ATGTAATCTT
*
39426288 AGATATGA-TTTGTAATCTTAGA
1 AGATATGATTTTGTAATATTAGA
*
39426310 AGATATGATTCTGTAATATTAG-
1 AGATATGATTTTGTAATATTAGA
* *
39426332 TGATTTGATTTTGTA
1 AGATATGATTTTGTA
39426347 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (23 bp):
AGATATGATTTTGTAATATTAGA
Found at i:39427129 original size:9 final size:9
Alignment explanation
Indices: 39427112--39427148 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
39427102 TGAGTTTTCA
39427112 AATTCGAAT
1 AATTCGAAT
*
39427121 AACTCGAAT
1 AATTCGAAT
39427130 AATTCGAAT
1 AATTCGAAT
39427139 AATTCGAAT
1 AATTCGAAT
39427148 A
1 A
39427149 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39427698 original size:9 final size:9
Alignment explanation
Indices: 39427684--39427712 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
39427674 AATTTCACAT
39427684 TTTATATTA
1 TTTATATTA
39427693 TTTATATTA
1 TTTATATTA
39427702 TTTATATTA
1 TTTATATTA
39427711 TT
1 TT
39427713 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:39449295 original size:18 final size:20
Alignment explanation
Indices: 39449272--39449313 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
39449262 CTTGGCCTAT
39449272 TATAGTAACA-ATAATA-AG
1 TATAGTAACAGATAATACAG
*
39449290 TATAGTAACAGATTATACAG
1 TATAGTAACAGATAATACAG
39449310 TATA
1 TATA
39449314 CAGGTCCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (20 bp):
TATAGTAACAGATAATACAG
Found at i:39454122 original size:26 final size:25
Alignment explanation
Indices: 39454057--39454198 Score: 78
Period size: 25 Copynumber: 5.7 Consensus size: 25
39454047 TCTTAAAGCA
39454057 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGACTA-ATGGCTCTTTGGAGCT
* * * *
39454082 TCCCTATTAAGGGCTCTTTATGAGCT
1 TCCCGACTAATGGCTCTTT-GGAGCT
* ** *
39454108 TCCGGACTAATGGCTCTCCGAAGCT
1 TCCCGACTAATGGCTCTTTGGAGCT
* * *
39454133 TCCTGA-T-ATGGCTCGATT-GAACT
1 TCCCGACTAATGGCTC-TTTGGAGCT
* * *
39454156 TCCCGA-TATATAGCTATTAGGAGCT
1 TCCCGACTA-ATGGCTCTTTGGAGCT
*
39454181 TCCTGACTAATGGCTCTT
1 TCCCGACTAATGGCTCTT
39454199 CGGTGCTACC
Statistics
Matches: 84, Mismatches: 26, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
23 16 0.19
24 2 0.02
25 44 0.52
26 22 0.26
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGACTAATGGCTCTTTGGAGCT
Found at i:39454253 original size:73 final size:73
Alignment explanation
Indices: 39454093--39454256 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 73
39454083 CCCTATTAAG
*
39454093 GGCTCTTTATGAGCTTCCGGACTAATGGCTCTCCGAAGCTTCCTGATATGGCTCGATTGAACTTC
1 GGCTC-TTATGAGCTTCCGGACTAATGGCTCTCCGAAGCTACCTGATATGGCTCGATTGAACTTC
39454158 CCGATATAT
65 CCGATATAT
* * * * * ** * *
39454167 AGCTATTAGGAGCTTCCTGACTAATGGCTCTTCGGTGCTACCTGTTATTGGCTCG-TATGAATTT
1 GGCTCTTATGAGCTTCCGGACTAATGGCTCTCCGAAGCTACCTGATA-TGGCTCGAT-TGAACTT
*
39454231 CCTGAT-TAT
64 CCCGATATAT
39454240 GGCTCTTATGAGCTTCC
1 GGCTCTTATGAGCTTCC
39454257 CATTATATAG
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
73 53 0.72
74 21 0.28
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (73 bp):
GGCTCTTATGAGCTTCCGGACTAATGGCTCTCCGAAGCTACCTGATATGGCTCGATTGAACTTCC
CGATATAT
Found at i:39457727 original size:27 final size:27
Alignment explanation
Indices: 39457689--39457741 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
39457679 TCAGAGAACT
39457689 TGAATTTTCTATAGATCTTGTTCTGGG
1 TGAATTTTCTATAGATCTTGTTCTGGG
39457716 TGAATTTTCTATAGATCTTGTTCTGG
1 TGAATTTTCTATAGATCTTGTTCTGG
39457742 AACAACACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (27 bp):
TGAATTTTCTATAGATCTTGTTCTGGG
Found at i:39473006 original size:29 final size:29
Alignment explanation
Indices: 39472963--39473020 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
39472953 GGCCTGTGTA
*
39472963 CGACACACTGTCATGTGATAGGCCATGTG
1 CGACACACTGGCATGTGATAGGCCATGTG
*
39472992 CGACACACTGGCATGTGATAGGGCATGTG
1 CGACACACTGGCATGTGATAGGCCATGTG
39473021 TGAGGCCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (29 bp):
CGACACACTGGCATGTGATAGGCCATGTG
Found at i:39482848 original size:15 final size:15
Alignment explanation
Indices: 39482824--39482864 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
39482814 AATCACAAGC
* *
39482824 GGGTTTACCATTCTT
1 GGGTTCACCACTCTT
39482839 GGGTTCACCACTCTT
1 GGGTTCACCACTCTT
39482854 GGGTTCACCAC
1 GGGTTCACCAC
39482865 AGGCCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.29, G:0.22, T:0.34
Consensus pattern (15 bp):
GGGTTCACCACTCTT
Found at i:39483730 original size:18 final size:18
Alignment explanation
Indices: 39483704--39483739 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39483694 TAACCCTACA
*
39483704 AGGTCTATCTACAGTTTT
1 AGGTCTATCTACAATTTT
*
39483722 AGGTTTATCTACAATTTT
1 AGGTCTATCTACAATTTT
39483740 TATTCAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (18 bp):
AGGTCTATCTACAATTTT
Found at i:39485840 original size:44 final size:43
Alignment explanation
Indices: 39485745--39485861 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
39485735 CGTACAATGC
* ** *
39485745 CAACGTCCCAAACGTGGTCTTACATGT-AATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACATAAATCACAAATCGATG
* *
39485787 CCACTGTCCCAGACAG-GGTCTTACACATAAATCATAAATCGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACATAAATCACAAATCGATG
*
39485831 TCAACGTCCCAGATGTGGTCTTACACGATAA
1 -CAACGTCCCAGACGTGGTCTTACAC-ATAA
39485862 CACACAACGG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
42 3 0.05
43 19 0.31
44 32 0.52
45 7 0.11
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACATAAATCACAAATCGATG
Found at i:39486319 original size:15 final size:14
Alignment explanation
Indices: 39486282--39486325 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
39486272 TTTTATTATA
39486282 ATAACTTTATAATAT
1 ATAACTTTATAAT-T
*
39486297 ATAA-TTTATTATT
1 ATAACTTTATAATT
39486310 ATAACCTTTATAATT
1 ATAA-CTTTATAATT
39486325 A
1 A
39486326 ATATAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAACTTTATAATT
Found at i:39487157 original size:21 final size:21
Alignment explanation
Indices: 39487133--39487189 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
39487123 TTTTTTATAC
39487133 TATGCATGTTTTAATTCAATA
1 TATGCATGTTTTAATTCAATA
*
39487154 TATGCATGTTTTAATTCGATA
1 TATGCATGTTTTAATTCAATA
39487175 TATGCATGTTTTAAT
1 TATGCATGTTTTAAT
39487190 CGGCCATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (21 bp):
TATGCATGTTTTAATTCAATA
Found at i:39494615 original size:17 final size:19
Alignment explanation
Indices: 39494593--39494629 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
39494583 TTCTACTGAT
39494593 AAAAAAAT-A-TATAGTTG
1 AAAAAAATCATTATAGTTG
39494610 AAAAAAATCATTATAGTTG
1 AAAAAAATCATTATAGTTG
39494629 A
1 A
39494630 TCATTTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAAAAATCATTATAGTTG
Found at i:39501847 original size:18 final size:19
Alignment explanation
Indices: 39501824--39501860 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39501814 CAAAAAAATA
39501824 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
39501842 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
39501861 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:39512186 original size:45 final size:45
Alignment explanation
Indices: 39512122--39512213 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
39512112 CAGATACTCA
* * *
39512122 GTGGATTCAGCACATAGCAACCAGCTTAT-TAATCAATGATGTCCG
1 GTGGAATCAACACATAGCAACCACCTT-TCTAATCAATGATGTCCG
*
39512167 GTGGAATCAACACATAGCAACCACCTTTCTAATCAATGATGTTCG
1 GTGGAATCAACACATAGCAACCACCTTTCTAATCAATGATGTCCG
39512212 GT
1 GT
39512214 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTTCTAATCAATGATGTCCG
Found at i:39512277 original size:51 final size:51
Alignment explanation
Indices: 39512210--39512396 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 51
39512200 CAATGATGTT
* *
39512210 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
* * * * *
39512261 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
* * * ** * **
39512312 CGGTACGCATAGTAGCCTACACATAGTACTACACATGCAACCTAT-CGTTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
*
39512362 CGGTACACGTAGTAGCTTGCACATAGTACTACACA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
39512397 CGTAACCATC
Statistics
Matches: 113, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 34 0.30
51 79 0.70
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
Found at i:39512399 original size:101 final size:102
Alignment explanation
Indices: 39512217--39512399 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 102
39512207 GTTCGGTTCA
* **
39512217 CATAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCTGCA
39512282 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* ** * *
39512319 CATAGTAGCCTACACATAGTACTACACATGCAACCTAT-CGTTCCGGTACACGTAGTAGCTTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCTGCA
39512383 CATAGTACTACACACGT
66 CATAGTACTACACACGT
39512400 AACCATCACT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 39 0.53
102 34 0.47
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:39516032 original size:138 final size:138
Alignment explanation
Indices: 39515869--39516149 Score: 492
Period size: 138 Copynumber: 2.0 Consensus size: 138
39515859 TAGATATAAT
39515869 TAATTAATATATGAATTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAAT
39515934 ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
66 ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
*
39515999 AACGAATA
131 AAAGAATA
* * *
39516007 TAATTAATATATGAACTTT-ATTCATACAAAATATTAATTGTATATATTTTCCCTAATTTATTAA
1 TAATTAATATATGAA-TTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAA
*
39516071 TATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
65 TATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
*
39516136 GAAAGAATG
130 GAAAGAATA
39516145 TAATT
1 TAATT
39516150 CATTTTTCTA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
138 133 0.98
139 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (138 bp):
TAATTAATATATGAATTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAAT
ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
AAAGAATA
Found at i:39527946 original size:63 final size:63
Alignment explanation
Indices: 39527869--39527994 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
39527859 TAAGAACTAA
*
39527869 GTTAGAATCTAATTATGTAACACCCCTTACCTGAGACCATCGCCGGAATCGAGTACGAGATGT
1 GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
*
39527932 GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGTCGGAATCGAGTACGAGATGT
1 GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
39527995 TATCTAACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (63 bp):
GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
Found at i:39528926 original size:15 final size:16
Alignment explanation
Indices: 39528906--39528938 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39528896 ACATGTAAAC
39528906 AATAATTA-CTCATTT
1 AATAATTATCTCATTT
*
39528921 AATAATTATCTCTTTT
1 AATAATTATCTCATTT
39528937 AA
1 AA
39528939 CATATAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATTATCTCATTT
Found at i:39529193 original size:23 final size:23
Alignment explanation
Indices: 39529167--39529219 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
39529157 ATAAGTGCCA
39529167 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
39529190 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39529213 TACTGAT
1 CACTGAT
39529220 CAATAACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:39539136 original size:17 final size:17
Alignment explanation
Indices: 39539114--39539150 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
39539104 GGTGTAACAT
39539114 ACGCCCGTATGACCCAC
1 ACGCCCGTATGACCCAC
*
39539131 ACGCCCGTATGGCCCAC
1 ACGCCCGTATGACCCAC
39539148 ACG
1 ACG
39539151 GGCCAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.46, G:0.22, T:0.11
Consensus pattern (17 bp):
ACGCCCGTATGACCCAC
Found at i:39540011 original size:22 final size:22
Alignment explanation
Indices: 39539983--39540025 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39539973 TGGACAAGCC
39539983 ACCACATAATTGCT-GATAAACA
1 ACCACATAATTG-TAGATAAACA
39540005 ACCACATAATTGTAGATAAAC
1 ACCACATAATTGTAGATAAAC
39540026 TGCCATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (22 bp):
ACCACATAATTGTAGATAAACA
Found at i:39540302 original size:18 final size:19
Alignment explanation
Indices: 39540272--39540308 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
39540262 TTTGCACAAA
*
39540272 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
39540291 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
39540309 ACTTTTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:39545285 original size:16 final size:16
Alignment explanation
Indices: 39545266--39545300 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39545256 TTAAATAGGA
*
39545266 TTGTAATTGAATAAAG
1 TTGTAATGGAATAAAG
*
39545282 TTGTAATGGAATAGAG
1 TTGTAATGGAATAAAG
39545298 TTG
1 TTG
39545301 CAATCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TTGTAATGGAATAAAG
Found at i:39545514 original size:23 final size:23
Alignment explanation
Indices: 39545477--39545562 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
39545467 TTAATATATA
* * *
39545477 TTTTAATATAATTTAAAATAAATT
1 TTTTAA-ATATTTTATATTAAATT
39545501 TTTTAAATATTTTATATTAAATT
1 TTTTAAATATTTTATATTAAATT
39545524 TATTT-AATATTTTATATTAAATT
1 T-TTTAAATATTTTATATTAAATT
* *
39545547 GTTTCAAATATATTAT
1 -TTTTAAATATTTTAT
39545563 TTTTATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
23 35 0.65
24 19 0.35
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAATATTTTATATTAAATT
Found at i:39545520 original size:14 final size:13
Alignment explanation
Indices: 39545506--39545543 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 13
39545496 AAATTTTTTA
39545506 AATATTTTATATT
1 AATATTTTATATT
39545519 AA-A-TTTAT-TT
1 AATATTTTATATT
39545529 AATATTTTATATT
1 AATATTTTATATT
39545542 AA
1 AA
39545544 ATTGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.18
11 6 0.27
12 6 0.27
13 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATATTTTATATT
Found at i:39548723 original size:15 final size:15
Alignment explanation
Indices: 39548692--39548732 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
39548682 CATATAGTAA
39548692 TTAA-ATTTTCAAAAC
1 TTAATATTTT-AAAAC
*
39548707 TTAATATTTTAACAC
1 TTAATATTTTAAAAC
39548722 TTAAT-TTTTAA
1 TTAATATTTTAA
39548733 TTTATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATATTTTAAAAC
Found at i:39550039 original size:18 final size:18
Alignment explanation
Indices: 39550016--39550113 Score: 99
Period size: 18 Copynumber: 5.0 Consensus size: 18
39550006 GGCTTCACCA
*
39550016 CCGCCTTCTTTCTTCTCC
1 CCGCCTTCCTTCTTCTCC
39550034 CCGCCTTCCTTCTTCTCTCC
1 CCGCCTTCCTTC-T-TCTCC
39550054 GCCGCCTTCCTTCTTCTCC
1 -CCGCCTTCCTTCTTCTCC
39550073 CCGCCTCCTCCTTCCTTCTTCTC
1 CCGCCT--TCCTT-CTTC-TC-C
39550096 GCCGCCTTCCTTC-TCTCC
1 -CCGCCTTCCTTCTTCTCC
39550114 ACCTCCTCCT
Statistics
Matches: 70, Mismatches: 1, Indels: 18
0.79 0.01 0.20
Matches are distributed among these distances:
18 18 0.26
19 8 0.11
20 13 0.19
21 17 0.24
22 7 0.10
23 1 0.01
24 6 0.09
ACGTcount: A:0.00, C:0.54, G:0.07, T:0.39
Consensus pattern (18 bp):
CCGCCTTCCTTCTTCTCC
Found at i:39550058 original size:21 final size:21
Alignment explanation
Indices: 39550016--39550144 Score: 108
Period size: 21 Copynumber: 6.3 Consensus size: 21
39550006 GGCTTCACCA
*
39550016 CCGCCTTCTTTC-T-TCTCC-
1 CCGCCTTCCTTCTTCTCTCCG
39550034 CCGCCTTCCTTCTTCTCTCCG
1 CCGCCTTCCTTCTTCTCTCCG
*
39550055 CCGCCTTCCTTCTTCTCCCCG
1 CCGCCTTCCTTCTTCTCTCCG
*
39550076 CCTCC-TCCTTCCTTCT-TCTCG
1 CCGCCTTCCTT-CTTCTCTC-CG
* *
39550097 CCGCCTTCCTTC-TCTCCACCT
1 CCGCCTTCCTTCTTCT-CTCCG
* * * *
39550118 CCTCCTCCCTTCTTCCCGCCG
1 CCGCCTTCCTTCTTCTCTCCG
39550139 CCGCCT
1 CCGCCT
39550145 GCAGCAGCAG
Statistics
Matches: 89, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
18 11 0.12
19 1 0.01
20 14 0.16
21 55 0.62
22 8 0.09
ACGTcount: A:0.01, C:0.56, G:0.08, T:0.36
Consensus pattern (21 bp):
CCGCCTTCCTTCTTCTCTCCG
Found at i:39550068 original size:39 final size:41
Alignment explanation
Indices: 39550016--39550140 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 41
39550006 GGCTTCACCA
*
39550016 CCGCCTTCTTTCTTCTCCCCGCCT-TCCTT-CTTC-TCTCCG
1 CCGCCTTCCTTCTTCTCCCCGCCTCTCCTTCCTTCTTCT-CG
39550055 CCGCCTTCCTTCTTCTCCCCGCCTCCTCCTTCCTTCTTCTCG
1 CCGCCTTCCTTCTTCTCCCCGCCT-CTCCTTCCTTCTTCTCG
* * *
39550097 CCGCCTTCCTTC-TCT--CCACCTCCTCCTCCCTTCTTCCCG
1 CCGCCTTCCTTCTTCTCCCCGCCT-CTCCTTCCTTCTTCTCG
39550136 CCGCC
1 CCGCC
39550141 GCCTGCAGCA
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
39 49 0.63
41 8 0.10
42 18 0.23
43 3 0.04
ACGTcount: A:0.01, C:0.56, G:0.07, T:0.36
Consensus pattern (41 bp):
CCGCCTTCCTTCTTCTCCCCGCCTCTCCTTCCTTCTTCTCG
Found at i:39550085 original size:24 final size:24
Alignment explanation
Indices: 39550034--39550102 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
39550024 TTTCTTCTCC
*
39550034 CCGCCTTCCTTCTTCTCTCCG---
1 CCGCCTTCCTTCTTCTCCCCGCCT
39550055 CCGCCTTCCTTCTTCTCCCCGCCT
1 CCGCCTTCCTTCTTCTCCCCGCCT
* *
39550079 CCTCCTTCCTTCTTCTCGCCGCCT
1 CCGCCTTCCTTCTTCTCCCCGCCT
39550103 TCCTTCTCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.48
24 22 0.52
ACGTcount: A:0.00, C:0.55, G:0.09, T:0.36
Consensus pattern (24 bp):
CCGCCTTCCTTCTTCTCCCCGCCT
Found at i:39550129 original size:63 final size:63
Alignment explanation
Indices: 39550019--39550140 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
39550009 TTCACCACCG
* * *
39550019 CCTTCTTTCTTCTCCCCGCCTTCCTTCTTCTCTCCGCCGCCTTCCTTCTTCTCC-CCGCCTCCT
1 CCTTCCTTCTTCTCCCCGCCTTCCTTCTTCTCACCGCCGCCTCCCTTCTTC-CCGCCGCCTCCT
* * *
39550082 CCTTCCTTCTTCTCGCCGCCTTCCTTC-TCTCCACCTCCTCCTCCCTTCTTCCCGCCGCC
1 CCTTCCTTCTTCTCCCCGCCTTCCTTCTTCT-CACCGCCGCCTCCCTTCTTCCCGCCGCC
39550141 GCCTGCAGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 5 0.10
63 46 0.90
ACGTcount: A:0.01, C:0.56, G:0.07, T:0.37
Consensus pattern (63 bp):
CCTTCCTTCTTCTCCCCGCCTTCCTTCTTCTCACCGCCGCCTCCCTTCTTCCCGCCGCCTCCT
Found at i:39550141 original size:42 final size:40
Alignment explanation
Indices: 39550016--39550144 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 40
39550006 GGCTTCACCA
*
39550016 CCGCCTTCTTTCTTCTCCCCGCCT--TCCTTCTTCTCTCCG
1 CCGCCTTCCTTCTTCTCCCCGCCTCCTCCTTCTTCTC-CCG
*
39550055 CCGCCTTCCTTCTTCTCCCCGCCTCCTCCTTCCTTCTTCTCG
1 CCGCCTTCCTTCTTCTCCCCGCCTCCTCCTT-CTTC-TCCCG
* *
39550097 CCGCCTTCCTTC-TCTCCACCTCCTCCTCCCTTCTTCCCGCCG
1 CCGCCTTCCTTCTTCTCC-CCGCCTCCT-CCTTCTTCTC-CCG
39550139 CCGCCT
1 CCGCCT
39550145 GCAGCAGCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
39 23 0.29
41 11 0.14
42 38 0.49
43 6 0.08
ACGTcount: A:0.01, C:0.56, G:0.08, T:0.36
Consensus pattern (40 bp):
CCGCCTTCCTTCTTCTCCCCGCCTCCTCCTTCTTCTCCCG
Found at i:39550229 original size:18 final size:18
Alignment explanation
Indices: 39550193--39550235 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
39550183 GCCGGCGTCA
* *
39550193 TTCTTCTCTCCGCCGTCT
1 TTCTTCTCACCGCCATCT
*
39550211 TTCTTCTCACCGGCATCT
1 TTCTTCTCACCGCCATCT
*
39550229 TTTTTCT
1 TTCTTCT
39550236 TAGGGGGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.37, G:0.09, T:0.49
Consensus pattern (18 bp):
TTCTTCTCACCGCCATCT
Found at i:39575006 original size:21 final size:21
Alignment explanation
Indices: 39574980--39575019 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39574970 TAACAGAGGC
39574980 TTTTTTAATTTCTAAAAATAA
1 TTTTTTAATTTCTAAAAATAA
*
39575001 TTTTTTAATTTTTAAAAAT
1 TTTTTTAATTTCTAAAAAT
39575020 TTAAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTTAATTTCTAAAAATAA
Found at i:39576641 original size:30 final size:31
Alignment explanation
Indices: 39576568--39576643 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
39576558 TATTCGTTTT
*
39576568 ATTCGAGTT-ATTCG-AATTCGAAAATCAAA
1 ATTCGAGTTGACTCGAAATTCGAAAATCAAA
* *
39576597 ATT-GATTTGAACTCGAAATTCGAAAA-GAAA
1 ATTCGAGTTG-ACTCGAAATTCGAAAATCAAA
*
39576627 TTTCGAGTTGACTCGAA
1 ATTCGAGTTGACTCGAA
39576644 TAATTCGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.11
29 3 0.08
30 16 0.42
31 15 0.39
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (31 bp):
ATTCGAGTTGACTCGAAATTCGAAAATCAAA
Found at i:39584036 original size:24 final size:25
Alignment explanation
Indices: 39583994--39584041 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39583984 TTATTTATTA
*
39583994 ATTTTTAATATTTATAAATTAAATT
1 ATTTTTAATATTTATAAATAAAATT
39584019 ATTTTTAACTA-TTA-AAATAAAAT
1 ATTTTTAA-TATTTATAAATAAAAT
39584042 AGTTGCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTTTAATATTTATAAATAAAATT
Found at i:39587979 original size:27 final size:28
Alignment explanation
Indices: 39587915--39587985 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
39587905 AAAGAACATT
* *
39587915 CATTAAAAAAATAAATGTATATACATGTC
1 CATTAAAAAAATAAA-GTATATACATATA
39587944 CA-TATAAAAAATAAA-TATATACATATA
1 CATTA-AAAAAATAAAGTATATACATATA
*
39587971 GATTAAAAATAATAA
1 CATTAAAAA-AATAA
39587986 TTAAATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 15 0.42
28 9 0.25
29 12 0.33
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (28 bp):
CATTAAAAAAATAAAGTATATACATATA
Found at i:39589857 original size:44 final size:43
Alignment explanation
Indices: 39589808--39590143 Score: 326
Period size: 44 Copynumber: 7.8 Consensus size: 43
39589798 ATCTACTATT
* * *
39589808 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTGCTGC-TAGGGAGATAGGATTCACAATC
* * * *
39589852 TTCAACCTATTCCACTACTGACCAGGGAGATAAGA-CCTACAATC
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGGATTC-ACAATC
* * * *
39589896 TTCAATCTATTTCACTGCTGCCTAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGGATTCACAATC
* *
39589940 TTCAACCTATTCCACTGCTGATCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGCT-AGGGAGATAGGATTCACAATC
* * *
39589984 TTTAACCTATTCCACTGCTGTCGAGGGAAATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGGATTCACAATC
* * *
39590023 TT-AATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGGATTCACAATC
* * *
39590066 TTCAACCAATTCCACTGCTGACCAGGGAGATAGGATTCAAAATC
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGGATTCACAATC
* *
39590110 TTTAACCTATTCCACTACTGACTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTG-CTAGGGAGATAGG
39590144 GCTGGGGTCA
Statistics
Matches: 238, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
38 29 0.12
39 2 0.01
40 2 0.01
42 2 0.01
43 4 0.02
44 197 0.83
45 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGCTAGGGAGATAGGATTCACAATC
Found at i:39590033 original size:38 final size:38
Alignment explanation
Indices: 39589982--39590060 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
39589972 GGATTCACAA
* *
39589982 TCTTTAACCTATTCCACTGCTGTCGAGGGAAATAGGAT
1 TCTTTAACCTATTCCACTGCTGCCGAGGGAAATAGAAT
* * *
39590020 TCTTTAATCTATTCCACTGCTGCCTAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCTGCCGAGGGAAATAGAAT
39590058 TCT
1 TCT
39590061 CAATCTTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTGCCGAGGGAAATAGAAT
Found at i:39590078 original size:82 final size:82
Alignment explanation
Indices: 39589946--39590103 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 82
39589936 AATCTTCAAC
* * * * *
39589946 CTATTCCACTGCTGATCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCGAGGG
1 CTATTCCACTGCTGATCAAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGGG
39590011 AAATAGGATTCTTTAAT
66 AAATAGGATTCTTTAAT
* * *
39590028 CTATTCCACTGCTG-CCTAGGGAGATAGAATTCTCAATCTTCAACCAATTCCACTGCTGACCAGG
1 CTATTCCACTGCTGATC-AAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGG
*
39590092 GAGATAGGATTC
65 GAAATAGGATTC
39590104 AAAATCTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 1 0.02
82 65 0.98
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (82 bp):
CTATTCCACTGCTGATCAAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGGG
AAATAGGATTCTTTAAT
Found at i:39590080 original size:126 final size:128
Alignment explanation
Indices: 39589808--39590143 Score: 460
Period size: 126 Copynumber: 2.6 Consensus size: 128
39589798 ATCTACTATT
* * * * * *
39589808 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
* *
39589873 CCAGGGAGATAAGACCTACAATCTTCAATCTATTTCACTGCTGCCTAGGGAGATAGAATTCTCAA
66 CCAGGGAGATAGGA-CT---ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAA
39589938 TC
127 TC
* * *
39589940 TTCAACCTATTCCACTGCTGATCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGT
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
* * *
39590005 CGAGGGAAATAGGA-T-TCTTTAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATC
66 CCAGGGAGATAGGACTATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATC
* * *
39590066 TTCAACCAATTCCACTGCTGACCAGGGAGATAGGATTCAAAATCTTTAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
*
39590131 CTAGGGAGATAGG
66 CCAGGGAGATAGG
39590144 GCTGGGGTCA
Statistics
Matches: 182, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
126 114 0.63
130 1 0.01
132 67 0.37
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (128 bp):
TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
CCAGGGAGATAGGACTATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATC
Found at i:39590326 original size:88 final size:88
Alignment explanation
Indices: 39590143--39590816 Score: 947
Period size: 88 Copynumber: 7.7 Consensus size: 88
39590133 AGGGAGATAG
* * * * * *
39590143 GGCTGGGGTCATCGATCTGCTTCACTGTTGGTGCAGGAAGGCAAGATCTACTA-TTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* **
39590207 TCCACTACAACCCAAAGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* *
39590230 GG-TCGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTG
1 GGCT-GGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
**
39590294 CTCTGCTGCAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * *
39590318 GGCTGGTGTCTTCGATCTGCTTCCCTATCGGTGCAGGAAGGCAAGATCTACTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
39590383 TCCGCTGCAACCTAGGGAAGAAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * * * *
39590406 GGTTGATGTCTTCGATCTGCTTCGCTATTGGCGTAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
39590471 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* *
39590494 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
39590559 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
39590582 GGCTGATGTCTTCGATCTGCTTCGCTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
39590647 TCCACTGCAACCCAGGAAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
39590670 GGTTGGTGTCTTTGATCTGTTTCGCTGTCAGTGCAGGAAGGCAAGATCTTCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
39590735 TCCACTACAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
*
39590758 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
39590817 CCGATCTGCT
Statistics
Matches: 521, Mismatches: 63, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
86 1 0.00
87 45 0.09
88 474 0.91
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:39590664 original size:44 final size:44
Alignment explanation
Indices: 39590440--39590758 Score: 176
Period size: 44 Copynumber: 7.2 Consensus size: 44
39590430 CTATTGGCGT
* *
39590440 AGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * ** * * ** *
39590484 AGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGCGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
*
39590528 AAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * ** * * ******
39590572 AGGGAGGCAAG-GCTGATGTCTTCGATCTGCTTCGCTGTTGGTGT
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
*
39590616 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * * * * ***
39590660 AGGAAGGCAAGGT-TGGTGTCTTTGATCTGTTTCGCTGTCAGTGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
* * *
39590704 AGGAAGGCAAGATCTTCTATTTTTAACCTGCTCCACTACAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
*
39590748 AGGGAGGCAAG
1 AGGAAGGCAAG
39590759 GTTGGTGTCT
Statistics
Matches: 183, Mismatches: 86, Indels: 12
0.65 0.31 0.04
Matches are distributed among these distances:
43 50 0.27
44 84 0.46
45 49 0.27
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
Found at i:39590800 original size:44 final size:44
Alignment explanation
Indices: 39590483--39590802 Score: 142
Period size: 44 Copynumber: 7.3 Consensus size: 44
39590473 CACTGCAACC
* * * * *
39590483 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGCG
1 CAGGAAGGCAAGGTTGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * * * * * * * *
39590527 CAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAGGT-TGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * * * ** *
39590571 CAGGGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTTGGTG
1 CAGGAAGGCAAGGTTGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * * * * * * * * *
39590615 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTG-CAACC
1 CAGGAAGGCAAGGT-TGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * *
39590659 CAGGAAGGCAAGGTTGGTGTCTTTGATCTGTTTCGCTGTCAGTG
1 CAGGAAGGCAAGGTTGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * * * * * * * * * *
39590703 CAGGAAGGCAAGATCTTCTATTTTTAACCTGCTCCACT-ACAACC
1 CAGGAAGGCAAGGT-TGCTGTCTTTGATCTGCTTCGCTGTCAGCG
* * * * *
39590747 CAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGTTGCTGTCTTTGATCTGCTTCGCTGTCAGCG
39590791 CAGGAAGGCAAG
1 CAGGAAGGCAAG
39590803 ATCTGCTATT
Statistics
Matches: 179, Mismatches: 91, Indels: 12
0.63 0.32 0.04
Matches are distributed among these distances:
43 47 0.26
44 85 0.47
45 47 0.26
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGGTTGCTGTCTTTGATCTGCTTCGCTGTCAGCG
Found at i:39597127 original size:28 final size:29
Alignment explanation
Indices: 39597065--39597130 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
39597055 AGAACATTCA
*
39597065 TTAAAAAAATAAATGTATATACATGACCAT
1 TTAAAAAAATAAA-GTATATACATGAACAT
* *
39597095 ATAAAAAAATAAA-TATATACAT-ATAGAT
1 TTAAAAAAATAAAGTATATACATGA-ACAT
39597123 TTAAAAAA
1 TTAAAAAA
39597131 TGATTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 18 0.58
30 12 0.39
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.29
Consensus pattern (29 bp):
TTAAAAAAATAAAGTATATACATGAACAT
Found at i:39600391 original size:10 final size:9
Alignment explanation
Indices: 39600376--39600404 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
39600366 GGTAAAATTG
39600376 TTTTTTTTC
1 TTTTTTTTC
39600385 TTTTTTTTC
1 TTTTTTTTC
39600394 TTTTTTTTC
1 TTTTTTTTC
39600403 TT
1 TT
39600405 CCAGTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:39609005 original size:27 final size:27
Alignment explanation
Indices: 39608975--39609037 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
39608965 GCCAAAAATA
**
39608975 CTTCCATTTCTTAGATTACTGCAAAGG
1 CTTCCATTTCTTAGATTACCACAAAGG
* *
39609002 CTTCCGTTTCTTAGATTGCCACAAAGG
1 CTTCCATTTCTTAGATTACCACAAAGG
39609029 CTTCCATTT
1 CTTCCATTT
39609038 TTTGACATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (27 bp):
CTTCCATTTCTTAGATTACCACAAAGG
Found at i:39609245 original size:50 final size:50
Alignment explanation
Indices: 39609149--39609247 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
39609139 CTTTTAGTTA
* * * * * **
39609149 TTTCCATATGATGCCATAACCTACCAGTTCTGGTATTATATGATATGGTC
1 TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGTC
* *
39609199 TTTCCATAAGAAGCCATAGCCTACCAGCTATGGTCTTACACAATATGGT
1 TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGT
39609248 GCCATGGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (50 bp):
TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGTC
Found at i:39614472 original size:8 final size:8
Alignment explanation
Indices: 39614461--39614496 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
39614451 TTTTTCAACA
39614461 TTTCTAAT
1 TTTCTAAT
39614469 TTTCTAAT
1 TTTCTAAT
*
39614477 TTTCTAAA
1 TTTCTAAT
39614485 TTTCTAAGT
1 TTTCTAA-T
39614494 TTT
1 TTT
39614497 TCATTGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 22 0.88
9 3 0.12
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (8 bp):
TTTCTAAT
Found at i:39615164 original size:6 final size:6
Alignment explanation
Indices: 39615155--39615183 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
39615145 AAGAAAAAGC
39615155 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
39615184 TTTCCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:39621188 original size:67 final size:66
Alignment explanation
Indices: 39621088--39621309 Score: 365
Period size: 67 Copynumber: 3.3 Consensus size: 66
39621078 ATTAGTAATA
*
39621088 AAATGTATGTATTTAATTAAATTGATTATATATACGTTATTTGAGAAAGTATGTGAATTGAGTAT
1 AAATGTATGTATTTAATTAAATTGATTATATATA-GTGATTTGAGAAAGTATGTGAATTGAGTAT
39621153 TT
65 TT
* *
39621155 AAATGTATGTAGTTAATTAAATTGATTAAATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
1 AAATGTATGTATTTAATTAAATTGATTATATATA-GTGATTTGAGAAAGTATGTGAATTGAGTAT
39621220 TT
65 TT
** *
39621222 AAATGTATGTATTTAATTAAATCAATTATATATA-TGATTTGAGAAAGTATGCGAATTGAGTATT
1 AAATGTATGTATTTAATTAAATTGATTATATATAGTGATTTGAGAAAGTATGTGAATTGAGTATT
39621286 T
66 T
39621287 AAATGTATGTATTTAATTAAATT
1 AAATGTATGTATTTAATTAAATT
39621310 TGAGAAGGCA
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
65 52 0.36
67 93 0.64
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (66 bp):
AAATGTATGTATTTAATTAAATTGATTATATATAGTGATTTGAGAAAGTATGTGAATTGAGTATT
T
Found at i:39621314 original size:49 final size:49
Alignment explanation
Indices: 39621258--39621351 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
39621248 TATATATATG
*
39621258 ATTTGAGAAAGTATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
1 ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
* *
39621307 ATTTGAGAAGGCATGCGAATTGAGTATTTACATGTATGTATTTAA
1 ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAA
39621352 ATGAATAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (49 bp):
ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
Found at i:39621637 original size:23 final size:25
Alignment explanation
Indices: 39621611--39621656 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
39621601 CTAGCTCGTT
*
39621611 AGAGCTTACCA-TT-TCAGCTCAAC
1 AGAGCCTACCATTTATCAGCTCAAC
*
39621634 AGAGCCTACTATTTATCAGCTCA
1 AGAGCCTACCATTTATCAGCTCA
39621657 GGAGGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (25 bp):
AGAGCCTACCATTTATCAGCTCAAC
Found at i:39622703 original size:13 final size:13
Alignment explanation
Indices: 39622685--39622709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39622675 ATATGTTTGG
39622685 ATATGAAATTGAT
1 ATATGAAATTGAT
39622698 ATATGAAATTGA
1 ATATGAAATTGA
39622710 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:39623174 original size:29 final size:28
Alignment explanation
Indices: 39623128--39623183 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
39623118 GTTTTTCTAT
* *
39623128 TTTCTATTTTATTTTATTCATTTATATTA
1 TTTCTATTTTATTATATTAATTT-TATTA
39623157 TTTCTACTTTT-TTATATTAATTTTATT
1 TTTCTA-TTTTATTATATTAATTTTATT
39623184 TAAGTTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 16 0.67
30 4 0.17
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTCTATTTTATTATATTAATTTTATTA
Found at i:39625872 original size:18 final size:20
Alignment explanation
Indices: 39625834--39625873 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
39625824 AGGGGGAGGA
*
39625834 TTCTTAGGTTTTTATTCTAG
1 TTCTTAGGTTTTTACTCTAG
39625854 TTCTTA-GTTTTTACT-TAG
1 TTCTTAGGTTTTTACTCTAG
39625872 TT
1 TT
39625874 TAAGTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (20 bp):
TTCTTAGGTTTTTACTCTAG
Found at i:39627862 original size:42 final size:42
Alignment explanation
Indices: 39627733--39627889 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 42
39627723 TTACTTTCCC
* * * *
39627733 TTTAGCTTTCACGAGCTTCTGTTCAA-CTCATATGAGTTTTCA
1 TTTAGCTCTCACGAGCTTCTGTTCAACCT-TTATGGGTTTTCG
* * *** * * *
39627775 TTCAACTCTTTTGAACTTCTGTTTAACCCTTATGGGTTTTCG
1 TTTAGCTCTCACGAGCTTCTGTTCAACCTTTATGGGTTTTCG
*
39627817 TTTAGCTCTTACGAGCTTCTGTTCAACCTTTATGGG-TTTCTG
1 TTTAGCTCTCACGAGCTTCTGTTCAACCTTTATGGGTTTTC-G
* *
39627859 TTTAGCTCTCATGAGCTTCTGTTCAGCCTTT
1 TTTAGCTCTCACGAGCTTCTGTTCAACCTTT
39627890 GGGCTTCTGA
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 4 0.04
42 86 0.95
43 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTAGCTCTCACGAGCTTCTGTTCAACCTTTATGGGTTTTCG
Found at i:39629441 original size:4 final size:4
Alignment explanation
Indices: 39629432--39629463 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
39629422 TTAAACTAAG
39629432 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
39629464 AATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:39635355 original size:42 final size:42
Alignment explanation
Indices: 39635222--39635377 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
39635212 CGTGTTTACT
*** *
39635222 TTTC-GTTTAGCTCTTACGAGCTTCTATTCAACTGATATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
* * ** * * * *
39635263 TTT-TCGTTCAACTCTTTTGAGCTTTTGTTTAACCCTTATAGG
1 TTTCT-GTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
*
39635305 TTTTTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
* * *
39635347 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTTAGCTCTTACGAGCTTCTATTCA
39635378 GCCTTCGGGC
Statistics
Matches: 88, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
41 3 0.03
42 84 0.95
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
Found at i:39635368 original size:84 final size:84
Alignment explanation
Indices: 39635221--39635375 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
39635211 TCGTGTTTAC
** **
39635221 TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACTGATATGAGTTTTCGTTCAACTCTTTTGAGCT
1 TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATATGAGTTTTCGTTCAACTCTCATGAGCT
*
39635286 TTTGTTTAACCCTTATAGG
66 TCTGTTTAACCCTTATAGG
* * * * *
39635305 TTTTTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATG-GGTTTCTGTTTAGCTCTCATGAGC
1 TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATATGAGTTTTC-GTTCAACTCTCATGAGC
39635369 TTCTGTT
65 TTCTGTT
39635376 CAGCCTTCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 5 0.08
84 55 0.92
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (84 bp):
TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATATGAGTTTTCGTTCAACTCTCATGAGCT
TCTGTTTAACCCTTATAGG
Done.