Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 131 of 356
Found at i:41813991 original size:17 final size:17
Alignment explanation
Indices: 41813969--41814006 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
41813959 ATAAGTCTGT
41813969 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTC-CTTTA
41813986 ACA-TTTTAGTCCTTTA
1 ACATTTTTAGTCCTTTA
41814002 ACATT
1 ACATT
41814007 AAAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (17 bp):
ACATTTTTAGTCCTTTA
Found at i:41815838 original size:26 final size:26
Alignment explanation
Indices: 41815809--41815863 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
41815799 AACACACCAA
* *
41815809 TATCACAGCAAGGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAATAATAG
*
41815835 TATCGCAGCAAAGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAATAATAG
41815861 TAT
1 TAT
41815864 ATGTAGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAATAATAG
Found at i:41817381 original size:18 final size:18
Alignment explanation
Indices: 41817360--41817398 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
41817350 AAGAGAAATA
41817360 AAAGAATAGATGATATCG
1 AAAGAATAGATGATATCG
*
41817378 AAAGACTAGATGATATCG
1 AAAGAATAGATGATATCG
41817396 AAA
1 AAA
41817399 TAAAATAGTA
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:0.51, C:0.08, G:0.21, T:0.21
Consensus pattern (18 bp):
AAAGAATAGATGATATCG
Found at i:41818500 original size:40 final size:40
Alignment explanation
Indices: 41818451--41818526 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
41818441 TCCCCGATTG
*
41818451 CACATTTGTGCCCCTAAATGCACTCTGGTGCCCCTGGTTA
1 CACACTTGTGCCCCTAAATGCACTCTGGTGCCCCTGGTTA
* * * *
41818491 CACACTTGTGCTCCTGATTGCACTTTGGTGCCCCTG
1 CACACTTGTGCCCCTAAATGCACTCTGGTGCCCCTG
41818527 TTTTGCATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.32
Consensus pattern (40 bp):
CACACTTGTGCCCCTAAATGCACTCTGGTGCCCCTGGTTA
Found at i:41823740 original size:13 final size:13
Alignment explanation
Indices: 41823722--41823747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41823712 TGACTGTAAC
41823722 CCTTTGCAACAAG
1 CCTTTGCAACAAG
41823735 CCTTTGCAACAAG
1 CCTTTGCAACAAG
41823748 TCCACTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
CCTTTGCAACAAG
Found at i:41828919 original size:26 final size:26
Alignment explanation
Indices: 41828883--41828935 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
41828873 TGAAAGAAAG
*
41828883 TATGAGCACTTGGTTTAAATTTATGT
1 TATGAGCACTTGATTTAAATTTATGT
41828909 TATGAGCACTTGATTTAAATTTATGT
1 TATGAGCACTTGATTTAAATTTATGT
41828935 T
1 T
41828936 TTATTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (26 bp):
TATGAGCACTTGATTTAAATTTATGT
Found at i:41838100 original size:24 final size:24
Alignment explanation
Indices: 41838066--41838111 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
41838056 AGTTCGTATG
41838066 TTAAAAATAAGCTTTAGAATAATT
1 TTAAAAATAAGCTTTAGAATAATT
*
41838090 TTAAAACTAAGCTTTAGAATAA
1 TTAAAAATAAGCTTTAGAATAA
41838112 CTGTACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (24 bp):
TTAAAAATAAGCTTTAGAATAATT
Found at i:41842121 original size:30 final size:30
Alignment explanation
Indices: 41842087--41842144 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41842077 CCCTTAACTC
41842087 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
41842117 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
41842145 GTAGGTTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:41845078 original size:28 final size:28
Alignment explanation
Indices: 41845015--41845192 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
41845005 ATAATAAGTC
* *
41845015 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
41845042 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
41845070 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
41845098 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
41845126 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
41845153 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
41845182 CGCACACTTAG
1 CGCACACTTAG
41845193 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:41859880 original size:45 final size:45
Alignment explanation
Indices: 41859827--41859914 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
41859817 TGATATCATG
*
41859827 GCTCAAAGCCAAATCAGTTGATATGCATGGTCCAAAGCTAAGTAA
1 GCTCAAAGCCAAATCAGTCGATATGCATGGTCCAAAGCTAAGTAA
**
41859872 GCTCAAAGCCAAATCAGTCGATATGCATTTTCCAAAGCTAAGT
1 GCTCAAAGCCAAATCAGTCGATATGCATGGTCCAAAGCTAAGT
41859915 CAGTTTTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (45 bp):
GCTCAAAGCCAAATCAGTCGATATGCATGGTCCAAAGCTAAGTAA
Found at i:41863168 original size:39 final size:38
Alignment explanation
Indices: 41863087--41863249 Score: 166
Period size: 39 Copynumber: 4.4 Consensus size: 38
41863077 ATTGTAACTT
* *
41863087 GGGCTAAGTCCGAAGGCATT-TGC--GCTA-TATATCC
1 GGGCTAAGTCCGAAGGCATTGTGCGAGTTACTATAACC
41863121 GGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACC
1 GGGCTAAGT-CCGAAGGCATTGTGCGAGTTACTATAACC
41863160 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AACC
1 GGGCTAAGTCCGAAGGCA-TTGTGCGAGTTACTATAACC
* *
41863198 -GGCT-AGTCCCGAAGGCATT-TGAGCAG-TAGCTATATCC
1 GGGCTAAGT-CCGAAGGCATTGTGCG-AGTTA-CTATAACC
*
41863235 -GGCTAAATCCGAAGG
1 GGGCTAAGTCCGAAGG
41863250 TACTGGCTTG
Statistics
Matches: 113, Mismatches: 5, Indels: 19
0.82 0.04 0.14
Matches are distributed among these distances:
34 9 0.08
35 16 0.14
36 13 0.12
37 27 0.24
38 18 0.16
39 30 0.27
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
GGGCTAAGTCCGAAGGCATTGTGCGAGTTACTATAACC
Found at i:41863239 original size:37 final size:40
Alignment explanation
Indices: 41863087--41863218 Score: 169
Period size: 39 Copynumber: 3.6 Consensus size: 40
41863077 ATTGTAACTT
* *
41863087 GGGCTAAGT-CCGAAGGCA-TT-TGC--GCTA-TATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
41863121 GGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
41863160 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
41863198 -GGCT-AGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
41863219 AGCAGTAGCT
Statistics
Matches: 89, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
34 9 0.10
35 11 0.12
36 6 0.07
37 17 0.19
38 16 0.18
39 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:41863247 original size:37 final size:39
Alignment explanation
Indices: 41863087--41863249 Score: 170
Period size: 37 Copynumber: 4.4 Consensus size: 39
41863077 ATTGTAACTT
* *
41863087 GGGCTAAGTCCGAAGGCA-TT-TGC--GCTA-TATATCC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
41863121 GGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAACC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACC
41863160 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AACC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
* *
41863198 -GGCT-AGTCCCGAAGGCATTTGAGC-AG-TAGCTATATCC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATAACC
*
41863235 -GGCTAAATCCGAAGG
1 GGGCTAAGTCCGAAGG
41863250 TACTGGCTTG
Statistics
Matches: 114, Mismatches: 5, Indels: 17
0.84 0.04 0.12
Matches are distributed among these distances:
34 9 0.08
35 13 0.11
36 11 0.10
37 33 0.29
38 18 0.16
39 30 0.26
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:41871023 original size:40 final size:39
Alignment explanation
Indices: 41870968--41871145 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 39
41870958 CGGATGATAA
* * *
41870968 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
41871008 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
41871048 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
41871088 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
41871128 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41871146 TACCTGGCTT
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 16 0.13
40 105 0.87
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:41871101 original size:80 final size:80
Alignment explanation
Indices: 41870968--41871145 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
41870958 CGGATGATAA
* * ** *
41870968 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCG
*
41871033 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
* * *
41871048 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGTTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCG
41871113 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
*
41871128 CC-GGTTAAATCCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
41871146 TACCTGGCTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 17 0.20
80 70 0.80
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTCG
AGCGAGTAGCTATAT
Found at i:41873079 original size:13 final size:13
Alignment explanation
Indices: 41873061--41873085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41873051 CTCGGCAAGG
41873061 ACACGCTCGTGTA
1 ACACGCTCGTGTA
41873074 ACACGCTCGTGT
1 ACACGCTCGTGT
41873086 GCGATTACAT
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:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
ACACGCTCGTGTA
Found at i:41880685 original size:16 final size:17
Alignment explanation
Indices: 41880661--41880694 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
41880651 TAATACCAAG
41880661 ATTCGTCTTAGG-ATTC
1 ATTCGTCTTAGGTATTC
*
41880677 ATTCTTCTTAGGTATTC
1 ATTCGTCTTAGGTATTC
41880694 A
1 A
41880695 GGGGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCGTCTTAGGTATTC
Found at i:41893872 original size:24 final size:24
Alignment explanation
Indices: 41893844--41893904 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
41893834 AACCGTATTT
* * *
41893844 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
41893868 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
41893892 GCACACATAGTGC
1 GCACACATAGTGC
41893905 ATTGGATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:41895651 original size:28 final size:29
Alignment explanation
Indices: 41895615--41895679 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
41895605 AAAGTGATTT
* *
41895615 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
* *
41895643 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
41895672 TTGTGAAA
1 TTGAGAAA
41895680 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:41898532 original size:10 final size:10
Alignment explanation
Indices: 41898517--41898542 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
41898507 AAACAGTGTC
41898517 GAATGACTGT
1 GAATGACTGT
41898527 GAATGACTGT
1 GAATGACTGT
41898537 GAATGA
1 GAATGA
41898543 GTATGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (10 bp):
GAATGACTGT
Found at i:41903108 original size:40 final size:40
Alignment explanation
Indices: 41903064--41903236 Score: 285
Period size: 40 Copynumber: 4.3 Consensus size: 40
41903054 GCTCCTCGTT
* * * *
41903064 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41903104 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
41903144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41903184 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41903224 CAAATGCCTTCGG
1 CAAATGCCTTCGG
41903237 ATCTTAGTCT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41906060 original size:18 final size:20
Alignment explanation
Indices: 41906039--41906084 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
41906029 GCATGTGAGC
*
41906039 AAGAAAAGA-AAATTTAA-A
1 AAGAAAAGAGAAATTGAAGA
*
41906057 AAG-AGAGAGAAATTGAAGA
1 AAGAAAAGAGAAATTGAAGA
41906076 AAGAAAAGA
1 AAGAAAAGA
41906085 TAGTGAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 4 0.18
20 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (20 bp):
AAGAAAAGAGAAATTGAAGA
Found at i:41908663 original size:40 final size:40
Alignment explanation
Indices: 41908598--41908815 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
41908588 CAAGCATCTA
* *
41908598 CGGGATTTAG-CCGGATATAACAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
* *
41908637 CGGGTCTTGGCCCGGATATAGCAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
*
41908677 TGGGACTTAGCCCGGATATAGTCAA-TAC-CACAAATGCCTT
1 CGGGACTTAGCCCGGATATAG-CAACT-CGCACAAATGCCTT
* * *
41908717 CGGGACTTAGCCCGGATATATTC-ACTAGCACAAAAGCCTT
1 CGGGACTTAGCCCGGATATA-GCAACTCGCACAAATGCCTT
41908757 CGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
41908797 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
41908816 CATTCGAATA
Statistics
Matches: 158, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 9 0.06
40 145 0.92
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
Found at i:41914848 original size:93 final size:93
Alignment explanation
Indices: 41914735--41914906 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
41914725 CGCCCATAAG
* * * *
41914735 CGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGAACTCAACTCAACGAGCTC-AGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
41914799 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
41914828 CGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
41914893 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
41914907 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:41914922 original size:46 final size:46
Alignment explanation
Indices: 41914728--41914908 Score: 172
Period size: 46 Copynumber: 3.9 Consensus size: 46
41914718 TGTAACCCGC
* *
41914728 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCGCAT
*
41914774 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* * * * * ***
41914824 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
41914867 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC
41914909 AATCATCCTA
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 64 0.60
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:41919730 original size:40 final size:40
Alignment explanation
Indices: 41919671--41919891 Score: 331
Period size: 40 Copynumber: 5.5 Consensus size: 40
41919661 ACCCAAGTAT
* *
41919671 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
41919710 CTTCGGGTCTTGGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
41919750 CTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
* * *
41919790 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAGAAAAGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
41919830 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
41919870 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41919892 CATTCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 12 0.07
40 151 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:41923829 original size:39 final size:39
Alignment explanation
Indices: 41923785--41923861 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
41923775 TTTAGCTTGT
** *
41923785 GTCTTTAATTATGTCATAGTTTGAACATTATTAATATGA
1 GTCTTTAACAATGTCATAGTTTGAACATCATTAATATGA
*
41923824 GTCTTTAACAATGTCATAGTTTGCACATCATTAATATG
1 GTCTTTAACAATGTCATAGTTTGAACATCATTAATATG
41923862 TGTTTTGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (39 bp):
GTCTTTAACAATGTCATAGTTTGAACATCATTAATATGA
Found at i:41923936 original size:33 final size:33
Alignment explanation
Indices: 41923899--41923994 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 33
41923889 TATGTAACTT
41923899 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
*
41923932 TCATGTTAGTTTAA--TT-C-T-A-TAACTT---
1 TCATGTTAG-TTAAGTTTGCATCATTAAATTAAG
41923957 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
41923990 TCATG
1 TCATG
41923995 CATTAAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
24 4 0.08
25 9 0.18
26 2 0.04
27 1 0.02
28 6 0.12
29 2 0.04
30 6 0.12
31 1 0.02
32 2 0.04
33 14 0.27
34 4 0.08
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (33 bp):
TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
Found at i:41926283 original size:29 final size:29
Alignment explanation
Indices: 41926220--41926287 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
41926210 TAATCAACCG
*
41926220 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
41926249 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
41926278 CGCACACTTA
1 CGCACACTTA
41926288 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:41926399 original size:174 final size:174
Alignment explanation
Indices: 41926109--41926436 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
41926099 AACTCAAGGT
* *
41926109 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
41926174 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
41926239 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
41926283 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
41926348 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
41926413 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
41926437 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:41926428 original size:29 final size:30
Alignment explanation
Indices: 41926389--41926467 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
41926379 CTTAATAATC
41926389 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
41926419 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
41926448 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41926468 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:41943856 original size:96 final size:96
Alignment explanation
Indices: 41943755--41943928 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
41943745 TGAGACCATA
* * *
41943755 TCCTAGACATGGTCTTACACTAG-CACACATATCATCACCGATGCCATTTCCCAGACATGGTCTT
1 TCCTAGACATGGTCTTACACT-GCCACACATATCAACACCGATGCCATGTCCCAGACATGGTCTC
41943819 ACACTGGCACACATATCAACGCCAATACTATG
65 ACACTGGCACACATATCAACGCCAATACTATG
*
41943851 TCCTAGACATGGTCTTACACTGCCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCTCA
1 TCCTAGACATGGTCTTACACTGCCACACATATCAACACCGATGCCATGTCCCAGACATGGTCTCA
* *
41943916 CATTGGCTCACAT
66 CACTGGCACACAT
41943929 TAACCATGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
95 1 0.01
96 70 0.99
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (96 bp):
TCCTAGACATGGTCTTACACTGCCACACATATCAACACCGATGCCATGTCCCAGACATGGTCTCA
CACTGGCACACATATCAACGCCAATACTATG
Found at i:41943928 original size:48 final size:48
Alignment explanation
Indices: 41943750--41943928 Score: 232
Period size: 48 Copynumber: 3.7 Consensus size: 48
41943740 AGTGCTGAGA
* * * * *
41943750 CCATATCCTAGACATGGTCTTACACTAGCACACATATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATG
* * *
41943798 CCATTTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCAATA
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATG
* * *
41943846 CTATGTCCTAGACATGGTCTTACACTGCCACACATATCAACGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATG
* * *
41943894 CCATGTCCCAGACATGGTCTCACATTGGCTCACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCACACAT
41943929 TAACCATGGT
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATG
Found at i:41944807 original size:21 final size:21
Alignment explanation
Indices: 41944781--41944823 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41944771 TAAACACACT
41944781 TCAATCTTTCATATTCTTCCA
1 TCAATCTTTCATATTCTTCCA
41944802 TCAATCTTTCATATTCTTCCA
1 TCAATCTTTCATATTCTTCCA
41944823 T
1 T
41944824 AAATATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (21 bp):
TCAATCTTTCATATTCTTCCA
Found at i:41947212 original size:68 final size:68
Alignment explanation
Indices: 41947065--41947220 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 68
41947055 AGCTGATTTG
* * * * **
41947065 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTATATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCTATACA
*
41947130 TATC
65 TATA
*
41947134 TCTCATGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCTC--GTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCTA-T
41947196 ACATAGTA
62 ACATA-TA
*
41947204 TCTCGTAGCTTTCTTGT
1 TCTCGTAGCTCTCTTGT
41947221 ACACATGATG
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
68 33 0.45
69 8 0.11
70 7 0.10
71 25 0.34
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCTATACAT
ATA
Found at i:41955578 original size:39 final size:40
Alignment explanation
Indices: 41955483--41955744 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
41955473 TTGAATGATG
*
41955483 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
41955521 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
41955562 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
41955601 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
41955640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
41955679 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
41955718 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
41955745 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:41964164 original size:48 final size:48
Alignment explanation
Indices: 41964108--41964231 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 48
41964098 GAATGCCAAA
* *
41964108 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC-ATCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCT-GAT
* * *
41964156 GCCATGTCCTAGACATGGTCTTACACTGGTACACATATCAACGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCTGAT
*
41964204 GCCATGTACCAGACATGGTCTTACACTA
1 GCCATGTCCCAGACATGGTCTTACACTA
41964232 CCTCACATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 66 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCTGAT
Found at i:41967477 original size:29 final size:29
Alignment explanation
Indices: 41967414--41967481 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
41967404 TAATCAACCG
41967414 CGCACACTTAGTGCCATGCACTTTAAAAT
1 CGCACACTTAGTGCCATGCACTTTAAAAT
* **
41967443 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAAAT
41967472 CGCACACTTA
1 CGCACACTTA
41967482 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAAAT
Found at i:41967594 original size:174 final size:174
Alignment explanation
Indices: 41967303--41967630 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
41967293 AACTCAATGT
* *
41967303 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
41967368 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
41967433 ACTTTAAAATCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAAATCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
41967477 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
41967542 GAAAATATATATTGGGTTCGCACACCTAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
* *
41967607 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAAATCACACACTTAGTGC
41967631 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAAATCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:41967622 original size:29 final size:30
Alignment explanation
Indices: 41967583--41967661 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
41967573 CTTAATAATC
41967583 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
41967613 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
41967642 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41967662 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:41972712 original size:41 final size:42
Alignment explanation
Indices: 41972605--41972716 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 42
41972595 ATATTGAACA
* * **
41972605 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGCAATCAAATATCG
*
41972648 ATGCCACTGTCCCAGACAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGCAATCAAATATCG
*
41972689 ATTCCGATGTCCCAGACATGGTCTTACA
1 ATGCC-ATGTCCCAGACATGGTCTTACA
41972717 CGTAACAACA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 26 0.43
42 8 0.13
43 26 0.43
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGCAATCAAATATCG
Found at i:41975141 original size:40 final size:40
Alignment explanation
Indices: 41975085--41975246 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
41975075 CGGATGATAA
* * * *
41975085 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGTTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
41975125 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
41975165 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
41975205 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
41975245 CC
1 CC
41975247 AGATAAATCC
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 100 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:41983078 original size:40 final size:40
Alignment explanation
Indices: 41983020--41983196 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
41983010 CGGATGATAA
* * * *
41983020 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
41983060 CCGGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
41983100 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
41983140 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
41983180 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
41983197 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 96 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:41985903 original size:51 final size:51
Alignment explanation
Indices: 41985826--41985954 Score: 199
Period size: 51 Copynumber: 2.5 Consensus size: 51
41985816 TTCGGGATGT
*
41985826 TACAAGTGTA-GTACTACGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGAC
1 TACAAGTG-AGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGG-C
41985878 -ACAAGTGAGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGC
1 TACAAGTGAGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGC
* *
41985928 TACAAGGGTGGTACTATGTGAAGGCCA
1 TACAAGTGAGGTACTATGTGAAGGCCA
41985955 GTGCGTATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
50 2 0.03
51 70 0.97
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
TACAAGTGAGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGC
Found at i:41989474 original size:40 final size:40
Alignment explanation
Indices: 41989363--41989663 Score: 373
Period size: 40 Copynumber: 7.6 Consensus size: 40
41989353 GATATTCGGA
* * * * *
41989363 TATAACCGGGGTAAGTCCCGAAGGCATCTGTGCAAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
41989403 TA-ATTCCGGGCTAAG-CCTGAAGGTGA-TTGTGCGAGTTAT
1 TATA-TCCGGGCTAAGTCCCGAAGG-CATTTGTGCGAGTTAC
* *
41989442 TATATCCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
41989482 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
41989522 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAG-TAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTAC
41989562 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
41989602 TATAACCGGGCTAAGTCCCAAAGGCATTTGAGC-AG-TAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-C
**
41989641 TATATCC-GGCTAAACCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
41989664 TACTTGGTTG
Statistics
Matches: 232, Mismatches: 21, Indels: 18
0.86 0.08 0.07
Matches are distributed among these distances:
38 15 0.06
39 42 0.18
40 173 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:41993345 original size:14 final size:14
Alignment explanation
Indices: 41993326--41993356 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
41993316 ATTCCGAAGT
41993326 ATATATATATATAC
1 ATATATATATATAC
41993340 ATATATATATATAC
1 ATATATATATATAC
41993354 ATA
1 ATA
41993357 AGTATGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:41993887 original size:27 final size:28
Alignment explanation
Indices: 41993803--41993900 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41993793 CATGAGATTG
* * * *
41993803 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41993832 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41993860 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41993887 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41993901 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41993911 original size:27 final size:27
Alignment explanation
Indices: 41993831--41993913 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41993821 TAAATTGTAC
* *
41993831 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41993859 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41993886 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41993913 A
1 A
41993914 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:42000294 original size:27 final size:27
Alignment explanation
Indices: 42000244--42000296 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42000234 CAGAATCAAT
* *
42000244 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAATAACAAAATCAGG
42000271 TGGGCCTATGCCCAAT-ACAAAATCAG
1 TGGGCCTA-GCCCAATAACAAAATCAG
42000297 TATCAGGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAAAATCAGG
Found at i:42000783 original size:27 final size:27
Alignment explanation
Indices: 42000724--42000784 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
42000714 ATTCTACTAT
* * **
42000724 ACAGGGGTATTACAGTCATTTTGCCCT
1 ACAGGGGCATTACAATCATTTTGCCAA
42000751 ACAGGGGCATTACAATCATTTT-CCAA
1 ACAGGGGCATTACAATCATTTTGCCAA
42000777 ACTAGGGG
1 AC-AGGGG
42000785 TATTTATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (27 bp):
ACAGGGGCATTACAATCATTTTGCCAA
Found at i:42005048 original size:28 final size:28
Alignment explanation
Indices: 42005001--42005065 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
42004991 AAAATAACCC
*
42005001 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
42005029 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
42005057 TAGGGGTAT
1 TAGGGGTAT
42005066 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:42006153 original size:12 final size:13
Alignment explanation
Indices: 42006134--42006166 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
42006124 GGGTTCAGCT
42006134 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
42006147 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
42006159 ATGGAGAA
1 ATGGAGAA
42006167 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:42006995 original size:27 final size:27
Alignment explanation
Indices: 42006965--42007017 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
42006955 TAGTAACAAT
*
42006965 TGGGCCT-AGCCCATTAACAGAATCAGG
1 TGGGCCTAAGCCCAAT-ACAGAATCAGG
42006992 TGGGCCTAAGCCCAATACAGAATCAG
1 TGGGCCTAAGCCCAATACAGAATCAG
42007018 TACCAGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAAGCCCAATACAGAATCAGG
Found at i:42022413 original size:27 final size:27
Alignment explanation
Indices: 42022382--42022541 Score: 128
Period size: 27 Copynumber: 5.9 Consensus size: 27
42022372 TCAGTACTAT
*
42022382 ATAATCAACTCGCACATTTAGTGCCAC
1 ATAATCAACTCGCACACTTAGTGCCAC
* * *
42022409 GTAATCAAATCGCACACTTAGTGCTAC
1 ATAATCAACTCGCACACTTAGTGCCAC
* * *
42022436 ATAGTCAAACCCGCACACTTAGTGCCGC
1 ATAATC-AACTCGCACACTTAGTGCCAC
** *
42022464 ATGGTCAATTCGCACACTTAGTG-CATC
1 ATAATCAACTCGCACACTTAGTGCCA-C
* ** *
42022491 ATATTCATTTCGCACACTTAGTGCAAC
1 ATAATCAACTCGCACACTTAGTGCCAC
*
42022518 A-AAGT-AGAATCGCACACTTAGTGC
1 ATAA-TCA-ACTCGCACACTTAGTGC
42022542 TGTACAATTT
Statistics
Matches: 107, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.03
27 81 0.76
28 23 0.21
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
ATAATCAACTCGCACACTTAGTGCCAC
Found at i:42062109 original size:40 final size:41
Alignment explanation
Indices: 42062050--42062221 Score: 210
Period size: 40 Copynumber: 4.3 Consensus size: 41
42062040 CATTTGAATG
* * * *
42062050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATT
*
42062090 TTATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATT
* *
42062130 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATT
* * **
42062170 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATT
42062210 ATATCC-GGCTAA
1 ATATCCGGGCTAA
42062222 ATTCTGAAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 7 0.06
40 104 0.91
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATT
Found at i:42065618 original size:46 final size:46
Alignment explanation
Indices: 42065568--42065743 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
42065558 TGGTTGAGCA
*
42065568 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
42065614 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* ** *
42065661 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACGCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
42065707 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGA-TTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
42065744 GTGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 29 0.28
48 2 0.02
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42065724 original size:93 final size:93
Alignment explanation
Indices: 42065565--42065736 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
42065555 GGATGGTTGA
* ** * * *
42065565 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACGCATGGATGCAAACGCCCGAACTCATTGAGT
42065630 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
42065658 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACGCATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACGCATGGATGCAAACGCCCGAACTCATTGAGT
42065723 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42065737 ATTATGGGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACGCATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42072366 original size:16 final size:15
Alignment explanation
Indices: 42072347--42072385 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
42072337 CTTTCCATCC
42072347 TTTCCTTTCCTTTCT
1 TTTCCTTTCCTTTCT
*
42072362 TTTTCTCTTCCTTTCT
1 TTTCCT-TTCCTTTCT
42072378 TTTCCTTT
1 TTTCCTTT
42072386 ATTACTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCCTTTCCTTTCT
Found at i:42076175 original size:69 final size:69
Alignment explanation
Indices: 42076100--42076237 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
42076090 TAAATCTTCA
42076100 AATAATTATCATCTGAACCTTTTTAACTAATAAAAATCAATAAGGATTAACTTTTATGGTTTTTA
1 AATAATTATCATCTGAACCTTTTTAACTAATAAAAATCAATAAGGATTAACTTTTATGGTTTTTA
42076165 CAAT
66 CAAT
42076169 AATAATTATCATCTGAACCTTTTTAACTAATAAAAATCAATAAGGATTAACTTTTATGGTTTTTA
1 AATAATTATCATCTGAACCTTTTTAACTAATAAAAATCAATAAGGATTAACTTTTATGGTTTTTA
42076234 CAAT
66 CAAT
42076238 TCAATCATTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (69 bp):
AATAATTATCATCTGAACCTTTTTAACTAATAAAAATCAATAAGGATTAACTTTTATGGTTTTTA
CAAT
Found at i:42076782 original size:32 final size:32
Alignment explanation
Indices: 42076741--42076808 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
42076731 TGTGTGGCGT
* *
42076741 TCTAAGCATTAGTCGAGCGTAAATAAAATGCA
1 TCTAAGCATTAGTCAAGCATAAATAAAATGCA
*
42076773 TCTAAGCATTATTCAAGCATAAATAAAATGCA
1 TCTAAGCATTAGTCAAGCATAAATAAAATGCA
42076805 TCTA
1 TCTA
42076809 CATATTTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (32 bp):
TCTAAGCATTAGTCAAGCATAAATAAAATGCA
Found at i:42079182 original size:18 final size:19
Alignment explanation
Indices: 42079146--42079185 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
42079136 ATATTTTTTT
* *
42079146 AAAATATTAATTATTATAA
1 AAAATATTAAGTATGATAA
42079165 AAAATATT-AGTATGATAA
1 AAAATATTAAGTATGATAA
42079183 AAA
1 AAA
42079186 TAATTTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATATTAAGTATGATAA
Found at i:42082120 original size:15 final size:15
Alignment explanation
Indices: 42082098--42082134 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
42082088 GCACCAACAG
42082098 CACCACCCACATCATC
1 CACCACCCACATC-TC
42082114 C-CCACCCACATCTC
1 CACCACCCACATCTC
42082128 CACCACC
1 CACCACC
42082135 GCCAGCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 16 0.80
16 1 0.05
ACGTcount: A:0.27, C:0.62, G:0.00, T:0.11
Consensus pattern (15 bp):
CACCACCCACATCTC
Found at i:42082166 original size:6 final size:6
Alignment explanation
Indices: 42082148--42082234 Score: 138
Period size: 6 Copynumber: 14.5 Consensus size: 6
42082138 AGCTGCTACT
*
42082148 CCAACC CCGACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC
* * *
42082196 CCAACC CCATCC CCATCC CCATCC CCAACC CCAACC CCA
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCA
42082235 TCTGCATCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.29, C:0.67, G:0.01, T:0.03
Consensus pattern (6 bp):
CCAACC
Found at i:42082242 original size:24 final size:24
Alignment explanation
Indices: 42082148--42082265 Score: 128
Period size: 24 Copynumber: 4.9 Consensus size: 24
42082138 AGCTGCTACT
* * *
42082148 CCAACCCCGACCCCAACCCCAACC
1 CCAACCCCAACCCCATCCCCATCC
* *
42082172 CCAACCCCAACCCCAACCCCAACC
1 CCAACCCCAACCCCATCCCCATCC
*
42082196 CCAACCCCATCCCCATCCCCATCC
1 CCAACCCCAACCCCATCCCCATCC
** *
42082220 CCAACCCCAACCCCATCTGCATCT
1 CCAACCCCAACCCCATCCCCATCC
* *
42082244 CCAGCTCCAACCCCATCACCCA
1 CCAACCCCAACCCCATC-CCCA
42082266 CCACTTCCCC
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
24 79 0.98
25 2 0.02
ACGTcount: A:0.27, C:0.63, G:0.03, T:0.08
Consensus pattern (24 bp):
CCAACCCCAACCCCATCCCCATCC
Found at i:42082254 original size:30 final size:30
Alignment explanation
Indices: 42082158--42082258 Score: 130
Period size: 30 Copynumber: 3.4 Consensus size: 30
42082148 CCAACCCCGA
* * *
42082158 CCCCAACCCCAACCCCAACCCCAACCCCAA
1 CCCCAACCCCAACCCCATCCCCATCCCCAG
*
42082188 CCCCAACCCCAACCCCATCCCCATCCCCAT
1 CCCCAACCCCAACCCCATCCCCATCCCCAG
** *
42082218 CCCCAACCCCAACCCCATCTGCATCTCCAG
1 CCCCAACCCCAACCCCATCCCCATCCCCAG
*
42082248 CTCCAACCCCA
1 CCCCAACCCCA
42082259 TCACCCACCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.27, C:0.63, G:0.02, T:0.08
Consensus pattern (30 bp):
CCCCAACCCCAACCCCATCCCCATCCCCAG
Found at i:42083704 original size:30 final size:30
Alignment explanation
Indices: 42083668--42083727 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42083658 AGAATTTGAC
*
42083668 TGGAAGAAAAAAATCGAGAAAATTGCATAA
1 TGGAAGAAAAAAACCGAGAAAATTGCATAA
* *
42083698 TGGAAGAAGAAAACCGAGAAAATTGTATAA
1 TGGAAGAAAAAAACCGAGAAAATTGCATAA
42083728 CACGTCATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.22, T:0.17
Consensus pattern (30 bp):
TGGAAGAAAAAAACCGAGAAAATTGCATAA
Found at i:42091593 original size:27 final size:26
Alignment explanation
Indices: 42091562--42091739 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
42091552 TAAATTGTAC
42091562 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
42091589 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
42091615 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
42091643 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
42091671 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
42091698 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
42091725 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42091740 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:42091678 original size:82 final size:81
Alignment explanation
Indices: 42091563--42091718 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42091553 AAATTGTACA
*
42091563 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
42091627 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
42091644 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
42091709 TGCGAGTTGA
65 TGCGAATTGA
42091719 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42091730 original size:82 final size:81
Alignment explanation
Indices: 42091559--42091739 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
42091549 GATTAAATTG
*
42091559 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
42091624 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
42091640 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
42091704 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42091722 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42091740 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42095050 original size:24 final size:24
Alignment explanation
Indices: 42095023--42095070 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
42095013 AAGAGAAAGT
42095023 GCTTGAGATTAGCATTGAAAAATG
1 GCTTGAGATTAGCATTGAAAAATG
42095047 GCTTGAGATTAGCATTGAAAAATG
1 GCTTGAGATTAGCATTGAAAAATG
42095071 TCTTTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (24 bp):
GCTTGAGATTAGCATTGAAAAATG
Found at i:42095085 original size:23 final size:24
Alignment explanation
Indices: 42095023--42095085 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
42095013 AAGAGAAAGT
*
42095023 GCTTGAGATTAGCATTGAAAAATG
1 GCTTGAGAATAGCATTGAAAAATG
*
42095047 GCTTGAGATTAGCATTGAAAAATG
1 GCTTGAGAATAGCATTGAAAAATG
* *
42095071 TCTTTAGAATA-CATT
1 GCTTGAGAATAGCATT
42095086 TTCCCCCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (24 bp):
GCTTGAGAATAGCATTGAAAAATG
Found at i:42098261 original size:14 final size:14
Alignment explanation
Indices: 42098244--42098271 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42098234 TTCACATGCT
42098244 CTTTTGTACATCTA
1 CTTTTGTACATCTA
42098258 CTTTTGTACATCTA
1 CTTTTGTACATCTA
42098272 TTTCTTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
CTTTTGTACATCTA
Found at i:42122691 original size:13 final size:13
Alignment explanation
Indices: 42122673--42122697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42122663 TAATGGTATA
42122673 TTGAATCCATGAT
1 TTGAATCCATGAT
42122686 TTGAATCCATGA
1 TTGAATCCATGA
42122698 AAATTTAGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:42124444 original size:47 final size:47
Alignment explanation
Indices: 42124308--42125005 Score: 1090
Period size: 47 Copynumber: 14.6 Consensus size: 47
42124298 TTATTCATTG
* *
42124308 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42124355 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124404 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
42124451 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42124498 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124547 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
42124594 GAATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42124641 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124690 GAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
42124739 GAATGTGAAAGTGTATATATGTGATGAGGGCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42124786 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
42124835 GAATGTGGAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124884 GAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * *
42124931 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
42124978 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
42125006 TCCCGAAGGG
Statistics
Matches: 606, Mismatches: 37, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
47 334 0.55
49 272 0.45
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:42124517 original size:96 final size:94
Alignment explanation
Indices: 42124308--42125005 Score: 1090
Period size: 96 Copynumber: 7.3 Consensus size: 94
42124298 TTATTCATTG
* *
42124308 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
42124373 ATATGTGATAAGGCCTAATGGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124404 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
42124469 ATGTGATAAGGCCGAATGGCCAATGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
42124498 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
42124563 ATATGTGATAAGGCCTAATAGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
42124594 GAATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
42124659 ATATGTGATAAGGCCTAATGGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124690 GAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
42124755 ATATGTGATGAGGGCTAATGGCCGATGTGAT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124786 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
42124851 ATATATGTGATAGGGCCTAATGGCCGATGTGAT
62 ATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
42124884 GAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
42124949 ATGTGACAGGGCCGAGTGGCCAATGTGAT
66 ATGTGATAAGGCCTAATGGCCGATGTGAT
* *
42124978 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
42125006 TCCCGAAGGG
Statistics
Matches: 561, Mismatches: 33, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
94 144 0.26
96 329 0.59
98 88 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:42124566 original size:143 final size:143
Alignment explanation
Indices: 42124308--42125005 Score: 1166
Period size: 143 Copynumber: 4.9 Consensus size: 143
42124298 TTATTCATTG
42124308 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
42124373 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
42124438 TAGCCGATGTGAT
131 TAGCCGATGTGAT
42124451 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
42124516 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
42124581 TAGCCGATGTGAT
131 TAGCCGATGTGAT
*
42124594 GAATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
42124659 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
42124724 AATGGCCGATGTGAT
129 AATAGCCGATGTGAT
* * * *
42124739 GAATGTGAAAGTGTATATATGTGATGAGGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
42124804 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAGGGCCT
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
42124869 AATGGCCGATGTGAT
129 AATAGCCGATGTGAT
* * *
42124884 GAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
42124947 ATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42125006 TCCCGAAGGG
Statistics
Matches: 534, Mismatches: 19, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
141 13 0.02
143 290 0.54
145 231 0.43
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TAGCCGATGTGAT
Found at i:42135268 original size:23 final size:23
Alignment explanation
Indices: 42135240--42135283 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
42135230 CATGCTAATA
42135240 ATAAATGCAATC-ATCATGCATTC
1 ATAAAT-CAATCAATCATGCATTC
*
42135263 ATAAATCATTCAATCATGCAT
1 ATAAATCAATCAATCATGCAT
42135284 ATTAGTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (23 bp):
ATAAATCAATCAATCATGCATTC
Found at i:42138627 original size:13 final size:13
Alignment explanation
Indices: 42138609--42138637 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42138599 GGTTGTTTAT
42138609 TAAACTAATTAAC
1 TAAACTAATTAAC
42138622 TAAACTAATTAAC
1 TAAACTAATTAAC
42138635 TAA
1 TAA
42138638 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:42139488 original size:13 final size:13
Alignment explanation
Indices: 42139470--42139494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42139460 GAAAAAGGGA
42139470 CACGGCCGTGTGC
1 CACGGCCGTGTGC
42139483 CACGGCCGTGTG
1 CACGGCCGTGTG
42139495 ACGTAATTGG
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:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:42145212 original size:40 final size:40
Alignment explanation
Indices: 42145112--42145376 Score: 270
Period size: 40 Copynumber: 6.7 Consensus size: 40
42145102 GCTCCTCGTT
* * * * *
42145112 CAAATGCCTTTGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
42145152 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
42145191 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
42145231 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
42145271 CAAAGGCCTTC-GGATCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
42145311 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42145352 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42145377 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 144 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42145385 original size:41 final size:41
Alignment explanation
Indices: 42145308--42145385 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42145298 TTTGTATCTC
* * *
42145308 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42145349 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42145386 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42155504 original size:39 final size:39
Alignment explanation
Indices: 42155450--42155527 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
42155440 TGTCAAGGTT
42155450 GTTTAAAAGTATAATTAGGCCATGTTAAATTCCATTGAA
1 GTTTAAAAGTATAATTAGGCCATGTTAAATTCCATTGAA
42155489 GTTTAAAAGTATAATTAGGCCATGTTAAATTCCATTGAA
1 GTTTAAAAGTATAATTAGGCCATGTTAAATTCCATTGAA
42155528 CTCTCTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (39 bp):
GTTTAAAAGTATAATTAGGCCATGTTAAATTCCATTGAA
Found at i:42158790 original size:57 final size:56
Alignment explanation
Indices: 42158688--42158811 Score: 146
Period size: 57 Copynumber: 2.2 Consensus size: 56
42158678 ACTTGTACAA
* *
42158688 GCTAAATCCTGTTTTCAACATATGCTCACAAGAGCTTAATTAGGATTACCCA-TCCAG
1 GCTAAATCCTATTTT-AACATATGCTCACAAGAGCTTAATCAGGATTA-CCAGTCCAG
*
42158745 GCTAAATCCTATTTGT-ACATATGCTCA-ACAGGGCTTATATCAGGATTACCAGTCCAG
1 GCTAAATCCTATTT-TAACATATGCTCACA-AGAGCTTA-ATCAGGATTACCAGTCCAG
*
42158802 GCGAAATCCT
1 GCTAAATCCT
42158812 TTCTGTAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
55 1 0.02
56 21 0.36
57 36 0.61
58 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (56 bp):
GCTAAATCCTATTTTAACATATGCTCACAAGAGCTTAATCAGGATTACCAGTCCAG
Found at i:42159053 original size:7 final size:7
Alignment explanation
Indices: 42159041--42159081 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
42159031 AAATAACATT
42159041 TTTATCA
1 TTTATCA
42159048 TTTATCA
1 TTTATCA
42159055 TTTATCA
1 TTTATCA
42159062 TTTATCA
1 TTTATCA
42159069 TTTATCA
1 TTTATCA
42159076 TTTATC
1 TTTATC
42159082 GGGCCTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:42167729 original size:19 final size:19
Alignment explanation
Indices: 42167705--42167741 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42167695 ATGTTAATGT
42167705 GTTTGAAAACCGTAACTTG
1 GTTTGAAAACCGTAACTTG
* *
42167724 GTTTGAACACTGTAACTT
1 GTTTGAAAACCGTAACTT
42167742 TACTTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (19 bp):
GTTTGAAAACCGTAACTTG
Found at i:42169664 original size:21 final size:21
Alignment explanation
Indices: 42169635--42169687 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
42169625 TTTTTGATAT
42169635 TTTCC-CCCA-TAATTCCCTAA
1 TTTCCTCCCACTAA-TCCCTAA
*
42169655 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
42169676 ATTCGCTCCCAC
1 TTTC-CTCCCAC
42169688 ACTTCCCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 9 0.32
ACGTcount: A:0.21, C:0.43, G:0.02, T:0.34
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:42169694 original size:22 final size:20
Alignment explanation
Indices: 42169647--42169694 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
42169637 TCCCCCATAA
* *
42169647 TTCCCTAATTTCCTCCCACT
1 TTCCCTAAATTCCTCCCACC
42169667 TATCCCTAAATTCGCTCCCACAC
1 T-TCCCTAAATTC-CTCCCAC-C
42169690 TTCCC
1 TTCCC
42169695 CACACCCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 11 0.48
23 1 0.04
ACGTcount: A:0.19, C:0.46, G:0.02, T:0.33
Consensus pattern (20 bp):
TTCCCTAAATTCCTCCCACC
Found at i:42170629 original size:29 final size:29
Alignment explanation
Indices: 42170575--42170630 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
42170565 TCTTTTAAAG
* * *
42170575 ATATTTAGAAAAAGAGACATCTAATTTCA
1 ATATTTACAAAAAGAGACACCAAATTTCA
42170604 ATATTTACAAAAAGA-ACAACCAAATTT
1 ATATTTACAAAAAGAGAC-ACCAAATTT
42170631 TGCAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACACCAAATTTCA
Found at i:42170969 original size:14 final size:15
Alignment explanation
Indices: 42170941--42170969 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42170931 TGAATGAGAC
42170941 TTTATCCCGCTCAAT
1 TTTATCCCGCTCAAT
42170956 TTTATCCC-CTCAAT
1 TTTATCCCGCTCAAT
42170970 AATGTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.34, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTATCCCGCTCAAT
Found at i:42181510 original size:20 final size:20
Alignment explanation
Indices: 42181485--42181524 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42181475 TGGTTAGAAT
*
42181485 TAATTAAGTATTACGAGTTG
1 TAATTAAGGATTACGAGTTG
42181505 TAATTAAGGATTACGAGTTG
1 TAATTAAGGATTACGAGTTG
42181525 ATCATCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (20 bp):
TAATTAAGGATTACGAGTTG
Found at i:42192116 original size:48 final size:48
Alignment explanation
Indices: 42192055--42192379 Score: 454
Period size: 48 Copynumber: 6.8 Consensus size: 48
42192045 ACGATGCCTC
* *
42192055 ATGCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* * *
42192103 ATGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* * * *
42192151 ATACTGATGCTATGTCCCAGACATGGTCATACACT-GTCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATAACG
* * *
42192199 ATGCCGACGCCATGTCCCAGACATAGTCTTACACTAGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* * *
42192247 ATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGATCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* *
42192295 ATGCCGATGCCATGTCCTAGACATGGTCTCACACTAGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
* * *
42192343 ATGCCGATTCCATGTTCCAGACATGGTCTTATACTAG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
42192380 AGCACATATT
Statistics
Matches: 244, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
47 1 0.00
48 242 0.99
49 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
Found at i:42196240 original size:54 final size:54
Alignment explanation
Indices: 42196182--42196445 Score: 327
Period size: 54 Copynumber: 4.9 Consensus size: 54
42196172 ACCCTTAATC
* * * *
42196182 GATAAAATGACTATTTTTCCCCTATGTAGTAAAATGACTGCTTTGCCCTTATGG
1 GATAAAATGACTGTTTTGCCCTTATGTAGTAAAATGACTGATTTGCCCTTATGG
* * *
42196236 GATAAAATGATTGTTTTGTCCTTATG-AGGTAAAATGACTGATTTGCCCTTATGA
1 GATAAAATGACTGTTTTGCCCTTATGTA-GTAAAATGACTGATTTGCCCTTATGG
* * *
42196290 GATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATAGG
1 GATAAAATGACTGTTTTGCCCTTATGTAGTAAAATGACTGATTTGCCCTTAT-GG
* * *
42196345 G-TAAAATGATTGTTTTGCCCTTATGAAGTAAAATGATTGATTTGCCCTTATGAG
1 GATAAAATGACTGTTTTGCCCTTATGTAGTAAAATGACTGATTTGCCCTTATG-G
* * * *
42196399 G-TAAAATGACTGTTTTGCCCTTATATGGTAAGATGACTGATATGCCC
1 GATAAAATGACTGTTTTGCCCTTATGTAGTAAAATGACTGATTTGCCC
42196446 CTATCTGATG
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 176 0.98
55 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (54 bp):
GATAAAATGACTGTTTTGCCCTTATGTAGTAAAATGACTGATTTGCCCTTATGG
Found at i:42196444 original size:27 final size:27
Alignment explanation
Indices: 42196184--42196445 Score: 284
Period size: 27 Copynumber: 9.7 Consensus size: 27
42196174 CCTTAATCGA
* *
42196184 TAAAATGACT-ATTTTTCCCCTATGTA-G
1 TAAAATGACTGA-TTTGCCCTTATG-AGG
*
42196211 TAAAATGACTGCTTTGCCCTTATG-GG
1 TAAAATGACTGATTTGCCCTTATGAGG
* * *
42196237 ATAAAATGATTGTTTTGTCCTTATGAGG
1 -TAAAATGACTGATTTGCCCTTATGAGG
*
42196265 TAAAATGACTGATTTGCCCTTATGAGA
1 TAAAATGACTGATTTGCCCTTATGAGG
*
42196292 TAAAATGACT-ATTTTGCCCTTATGTGG
1 TAAAATGACTGA-TTTGCCCTTATGAGG
*
42196319 TAAAATGACTGTTTTGCCCTTAT-AGGG
1 TAAAATGACTGATTTGCCCTTATGA-GG
* * *
42196346 TAAAATGATTGTTTTGCCCTTATGAAG
1 TAAAATGACTGATTTGCCCTTATGAGG
*
42196373 TAAAATGATTGATTTGCCCTTATGAGG
1 TAAAATGACTGATTTGCCCTTATGAGG
*
42196400 TAAAATGACTGTTTTGCCCTTAT-ATGG
1 TAAAATGACTGATTTGCCCTTATGA-GG
* *
42196427 TAAGATGACTGATATGCCC
1 TAAAATGACTGATTTGCCC
42196446 CTATCTGATG
Statistics
Matches: 203, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
26 3 0.01
27 197 0.97
28 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
TAAAATGACTGATTTGCCCTTATGAGG
Found at i:42199751 original size:40 final size:40
Alignment explanation
Indices: 42199668--42199887 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
42199658 TTGAATGCTG
* * *
42199668 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
42199706 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42199747 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
42199787 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
**
42199827 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
42199865 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGTTAAGTCCCGAAGGCA
42199888 CTTGAACGAG
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 39 0.26
40 103 0.68
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42202237 original size:20 final size:19
Alignment explanation
Indices: 42202212--42202264 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
42202202 GGATGATAAA
42202212 AATAATTTTTATTTCTTTTT
1 AATAATTTTTATTTC-TTTT
* *
42202232 AATAATTTATA-ATCTTTT
1 AATAATTTTTATTTCTTTT
42202250 AAT-ATTTTTGATTTC
1 AATAATTTTT-ATTTC
42202265 CAATTTAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 4 0.15
20 10 0.37
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
AATAATTTTTATTTCTTTT
Found at i:42204620 original size:41 final size:40
Alignment explanation
Indices: 42204575--42204736 Score: 152
Period size: 41 Copynumber: 3.9 Consensus size: 40
42204565 TCTTAGTACC
42204575 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACCACT
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGA-CACT
* * *
42204616 GGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-TTATGACACT
1 GGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-GACACT
* * *
42204656 GGCTCTAAAAAGCCCTTCAAAACTAAGCTCGGCTATTAG-CACT
1 GGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--ATTAGACACT
*
42204699 GGCTCAAAAGCCCTCCGAGACCAAGCTCGGATTTAGAC
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGA-TTAGAC
42204737 CCCGATTAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
39 1 0.01
40 18 0.18
41 47 0.48
42 18 0.18
43 10 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACACT
Found at i:42213165 original size:41 final size:41
Alignment explanation
Indices: 42213010--42213176 Score: 135
Period size: 41 Copynumber: 4.0 Consensus size: 41
42213000 GAATAAAGTC
* * * *
42213010 CGACTCTTAGTACCGGCTCAAAAGCCCTTCGAGACCAAGCT
1 CGACTATTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCT
* * * * *
42213051 CG--TATTAGACCACTCGCTCGAAGGCCCTTCGGAACTAAG-T
1 CGACTATTAG--CACTGGCTCAAAAGCCCTTCGAAACCAAGCT
** * *
42213091 CCGGTTATGA-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGCT
1 -CGACTATTAGCACTGGCTC--AAAAGCCCTTCGAAACCAAGCT
*
42213134 CGACTATTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCT
1 CGACTATTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCT
42213175 CG
1 CG
42213177 GATTTAGACC
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
39 5 0.05
40 9 0.09
41 47 0.48
42 23 0.23
43 14 0.14
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (41 bp):
CGACTATTAGCACTGGCTCAAAAGCCCTTCGAAACCAAGCT
Found at i:42216155 original size:29 final size:29
Alignment explanation
Indices: 42216113--42216188 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
42216103 TCTTGACATA
*
42216113 TACTGGGCCGAAGCCTTTCGTTTAATGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
42216142 TACTGGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
42216171 TACTGGGCCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
42216189 TCATAAATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.32
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAACGGT
Found at i:42216210 original size:31 final size:31
Alignment explanation
Indices: 42216172--42216250 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
42216162 TTTAACGGTT
42216172 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
42216203 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
42216234 ACTGGGCTGAAG-CTTTT
1 ACTGGGCCGAAGCCTTTT
42216251 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.11
31 39 0.89
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:42216321 original size:42 final size:42
Alignment explanation
Indices: 42216274--42216365 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
42216264 TGGCCTATAG
* ** *
42216274 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
42216316 GCCCATTTCAGTATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
42216358 GCCCATTT
1 GCCCATTT
42216366 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:42217426 original size:27 final size:27
Alignment explanation
Indices: 42217345--42217437 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
42217335 GGGCATATTC
* *
42217345 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCTTACAGGGGCT-TTACG
* *
42217372 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCTTACAGGGGCTTTACG
42217399 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCTTACAGGGGCTTTACG
**
42217426 GTCTTTTTACCT
1 GTCACTTTACCT
42217438 AATAGGGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCTTACAGGGGCTTTACG
Found at i:42217520 original size:27 final size:27
Alignment explanation
Indices: 42217490--42217705 Score: 130
Period size: 27 Copynumber: 7.9 Consensus size: 27
42217480 GTAAATCTAC
*
42217490 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
42217517 AAACTAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
42217545 AAAGTCAAGGGTATTTCTA-TAACTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * ** *
42217573 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
42217600 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
42217627 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
42217654 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
42217681 AAACCAAGAGTATTTTAGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
42217706 GTAGATCGAG
Statistics
Matches: 153, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
27 124 0.81
28 14 0.09
29 15 0.10
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:42217638 original size:54 final size:54
Alignment explanation
Indices: 42217580--42217705 Score: 191
Period size: 54 Copynumber: 2.3 Consensus size: 54
42217570 TGTAAATCAG
*
42217580 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAA
* *
42217634 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
* *
42217688 GAGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
42217706 GTAGATCGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 64 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
Found at i:42217719 original size:54 final size:53
Alignment explanation
Indices: 42217582--42217719 Score: 168
Period size: 54 Copynumber: 2.5 Consensus size: 53
42217572 TAAATCAGGG
* *
42217582 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGG
1 GTATTTTGGTAATTTTAC-AATCGAGGGTATTTCGGTAATTTCACAAACCAAGA
* * * *
42217636 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGA
1 GTATTTTGGTAATTTTACAATCGA-GGGTATTTCGGTAATTTCACAAACCAAGA
* **
42217690 GTATTTTAGTAATTTTGTAGATCGAGGGTA
1 GTATTTTGGTAATTTTACA-ATCGAGGGTA
42217720 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
53 3 0.04
54 65 0.92
55 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (53 bp):
GTATTTTGGTAATTTTACAATCGAGGGTATTTCGGTAATTTCACAAACCAAGA
Found at i:42217727 original size:27 final size:27
Alignment explanation
Indices: 42217698--42217907 Score: 244
Period size: 27 Copynumber: 7.8 Consensus size: 27
42217688 GAGTATTTTA
* * *
42217698 GTAATTTTGTAGATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
42217725 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42217752 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
42217779 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42217806 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42217833 GTAATTATGTAAATCG-GGGTTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAACG
* * *
42217860 GTAATTATGAAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
42217886 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
42217908 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.15
27 137 0.85
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:42217756 original size:81 final size:81
Alignment explanation
Indices: 42217671--42217830 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
42217661 GGGTATTTTG
* ** * * * *
42217671 GTAATTTTACAAACCAAGAGT-ATTTTAGTAATTTTGTAGATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTCTACAAACCAAGAGTAAAATGA-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
42217735 AAATCAAGGGTAAAATA
65 AAATCAAGGGTAAAATA
* * * * *
42217752 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTACAAACCAAGAGTAAAATGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
**
42217817 AATTGAGGGTAAAA
66 AATCAAGGGTAAAA
42217831 CGGTAATTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGAGTAAAATGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAATA
Found at i:42217934 original size:27 final size:27
Alignment explanation
Indices: 42217913--42218002 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
42217903 GGGTACTTTG
*
42217913 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
42217940 GTAATTTTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
42217967 GTATTTTTACAAA-CTAAGTGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
42217994 GTAATTTTA
1 GTAATTTTA
42218003 ATAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:42219768 original size:15 final size:15
Alignment explanation
Indices: 42219747--42219783 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
42219737 GCTTGTTTTT
42219747 CAGTGGTGTTGGAAA
1 CAGTGGTGTTGGAAA
*
42219762 TAGTGGTGTTGGAAA
1 CAGTGGTGTTGGAAA
42219777 CAGTGGT
1 CAGTGGT
42219784 TTCGGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.41, T:0.30
Consensus pattern (15 bp):
CAGTGGTGTTGGAAA
Found at i:42225233 original size:16 final size:16
Alignment explanation
Indices: 42225208--42225243 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
42225198 GGTAATTCTA
*
42225208 GGCTTGCTTTAAATGT
1 GGCTTACTTTAAATGT
42225224 GGCTTACTTTAAATGT
1 GGCTTACTTTAAATGT
42225240 GGCT
1 GGCT
42225244 CCCAAGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (16 bp):
GGCTTACTTTAAATGT
Found at i:42226808 original size:44 final size:45
Alignment explanation
Indices: 42226713--42226811 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
42226703 TTTGAACTCA
* * * *
42226713 TTGAGTTGGTCCGGGTTCGTGATATGTATGAGGCATCCGAGCTCG
1 TTGAGTTGGTCCGAGTTCATGATATGTATGAAGCATCAGAGCTCG
*
42226758 TTGAGTTGGTCCGAGTTCATGATA-G-ATGCAAGCATCTAG-GCTTG
1 TTGAGTTGGTCCGAGTTCATGATATGTATG-AAGCATC-AGAGCTCG
42226802 TTGAGTTGGT
1 TTGAGTTGGT
42226812 TTAAGTTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 3 0.06
44 21 0.45
45 23 0.49
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.33
Consensus pattern (45 bp):
TTGAGTTGGTCCGAGTTCATGATATGTATGAAGCATCAGAGCTCG
Found at i:42232683 original size:23 final size:22
Alignment explanation
Indices: 42232652--42233079 Score: 319
Period size: 23 Copynumber: 18.7 Consensus size: 22
42232642 AAATAAGTAC
42232652 TTAAACACTTCAATTTACAGCA
1 TTAAACACTTCAATTTACAGCA
42232674 TGTAAACACTTCAATTTACAGCA
1 T-TAAACACTTCAATTTACAGCA
*
42232697 TTCAAACACTTCAATTTGCAGCA
1 TT-AAACACTTCAATTTACAGCA
* *
42232720 CTTTAACA-TCTCAATTAACAGCA
1 -TTAAACACT-TCAATTTACAGCA
* *
42232743 TTTATACACCTCAA-TTACAGCGA
1 -TTAAACACTTCAATTTACAGC-A
* * *
42232766 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGC-A
* * *
42232789 CTAAACACTTCAATTTGCAGTA
1 TTAAACACTTCAATTTACAGCA
* * * *
42232811 CTTAAGCAGTTCAATTTGCAACA
1 -TTAAACACTTCAATTTACAGCA
*
42232834 TTTAAGCACTTCAATTTACAGCA
1 -TTAAACACTTCAATTTACAGCA
*
42232857 TTGAAACACTTTAATTTACAGCA
1 TT-AAACACTTCAATTTACAGCA
* *
42232880 TTCAAACACTTCAGTTTGCAGCA
1 TT-AAACACTTCAATTTACAGCA
*
42232903 CTTTAACACTTCAATTTACAGCA
1 -TTAAACACTTCAATTTACAGCA
*
42232926 TTTAAACACTTCAATTTGCAGCA
1 -TTAAACACTTCAATTTACAGCA
* * *
42232949 CTTTAACA-TCTCAATTAACAACA
1 -TTAAACACT-TCAATTTACAGCA
* *
42232972 TTTATACACCTCAA-TTACAGCA
1 -TTAAACACTTCAATTTACAGCA
* * *
42232994 ATAAA-ACATCTCAATGTGCAGCAA
1 TTAAACAC-T-TCAATTTACAGC-A
* *
42233018 CTAAACACTTCAATTTGCAGCA
1 TTAAACACTTCAATTTACAGCA
* *
42233040 CTTTAACACTTCAATTTACAACA
1 -TTAAACACTTCAATTTACAGCA
42233063 TTTAAACACTTCAATTT
1 -TTAAACACTTCAATTT
42233080 GCTGCACTTT
Statistics
Matches: 321, Mismatches: 65, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.01
21 3 0.01
22 33 0.10
23 270 0.84
24 11 0.03
25 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (22 bp):
TTAAACACTTCAATTTACAGCA
Found at i:42232734 original size:46 final size:46
Alignment explanation
Indices: 42232652--42233124 Score: 428
Period size: 46 Copynumber: 10.3 Consensus size: 46
42232642 AAATAAGTAC
* *
42232652 TTAAACACTTCAATTTACAGCA-TGTAAACA-CTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCACT-TTAACATC-TCAATTTACAGCAT
* *
42232698 TCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAGCAT
1 TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTACAGCAT
* * * ** * * *
42232744 TTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ACTTTAACATCTCAATTTACAGCAT
* * * *
42232789 CTAAACACTTCAATTTGCAGTAC-TTAAGCAGT-TCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAA-CA-TCTCAATTTACAGCAT
* * * *
42232835 TTAAGCACTTCAATTTACAGCA-TTGAAACA-CTTTAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCACTT-TAACATC-TCAATTTACAGCAT
* *
42232881 TCAAACACTTCAGTTTGCAGCACTTTAACA-CTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCACTTTAACATC-TCAATTTACAGCAT
* *
42232927 TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTACAGCAT
* * * * ** * * *
42232973 TTATACACCTCAA-TTACAGCAATAAAACATCTCAATGTGCAGCAA
1 TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTACAGCAT
* *
42233018 CTAAACACTTCAATTTGCAGCACTTTAACA-CTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAACATC-TCAATTTACAGCAT
* * *
42233064 TTAAACACTTCAATTTGCTGCACTTTAACATCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTACAGCAT
* *
42233110 TTATACACCTCAATT
1 TTAAACACTTCAATT
42233125 AACATCTCAA
Statistics
Matches: 341, Mismatches: 70, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
45 70 0.21
46 262 0.77
47 9 0.03
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (46 bp):
TTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTACAGCAT
Found at i:42233052 original size:137 final size:137
Alignment explanation
Indices: 42232790--42233125 Score: 466
Period size: 137 Copynumber: 2.4 Consensus size: 137
42232780 GTCCAGCAAC
* ** *
42232790 TAAACACTTCAATTTGCAGTAC-TTAAGCAGT-TCAATTTGCAACATTTA-AGCACTTCAATTTA
1 TAAACACTTCAATTTGCAGCACTTTAA-CA-TCTCAATTAACAACATTTATA-CACCTCAA-TTA
* * * * * *
42232852 CAGCATTGAAACACTTTAATTTACAGCATTCAAACACTTCAGTTTGCAGCACTTTAACACTTCAA
62 CAGCAATAAAACACTTCAATGTACAGCACTCAAACACTTCAATTTGCAGCACTTTAACACTTCAA
*
42232917 TTTACAGCATT
127 TTTACAACATT
42232928 TAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
1 TAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
*
42232993 AATAAAACA-TCTCAATGTGCAGCAACT-AAACACTTCAATTTGCAGCACTTTAACACTTCAATT
66 AATAAAACACT-TCAATGTACAGC-ACTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATT
42233056 TACAACATT
129 TACAACATT
*
42233065 TAAACACTTCAATTTGCTGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
1 TAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
42233126 ACATCTCAAT
Statistics
Matches: 180, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
136 1 0.01
137 127 0.71
138 47 0.26
139 5 0.03
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (137 bp):
TAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
AATAAAACACTTCAATGTACAGCACTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTA
CAACATT
Found at i:42233055 original size:229 final size:229
Alignment explanation
Indices: 42232654--42233079 Score: 721
Period size: 229 Copynumber: 1.9 Consensus size: 229
42232644 ATAAGTACTT
42232654 AAACACTTCAATTTACAGCATGTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTACAGCATGTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGC
* *
42232719 ACTTTAACATCTCAATTAACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATGTCC
* * * *
42232784 AGCAACTAAACACTTCAATTTGCAGTACTTAAGCAGTTCAATTTGCAACATTTAAGCACTTCAAT
131 AGCAACTAAACACTTCAATTTGCAGCACTTAAGCACTTCAATTTACAACATTTAAACACTTCAAT
42232849 TTACAGCATTGAAACACTTTAATTTACAGCATTC
196 TTACAGCATTGAAACACTTTAATTTACAGCATTC
* * * *
42232883 AAACACTTCAGTTTGCAGCACT-TTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTACAGCA-TGTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAG
*
42232947 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATGTG
65 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATGTC
42233012 CAGCAACTAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACATTTAAACACTTCA
130 CAGCAACTAAACACTTCAATTTGCAGCAC-TTAAGCACTTCAATTTACAACATTTAAACACTTCA
42233076 ATTT
194 ATTT
42233080 GCTGCACTTT
Statistics
Matches: 184, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
229 179 0.97
230 5 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (229 bp):
AAACACTTCAATTTACAGCATGTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGC
ACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCAATAAAACATCTCAATGTCC
AGCAACTAAACACTTCAATTTGCAGCACTTAAGCACTTCAATTTACAACATTTAAACACTTCAAT
TTACAGCATTGAAACACTTTAATTTACAGCATTC
Found at i:42235117 original size:40 final size:40
Alignment explanation
Indices: 42235062--42235141 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
42235052 GCTTTTAGAA
* * *
42235062 TAGTGTCTGCAAAACGACGTTTTAGCATTGCAGTACGGAG
1 TAGTGTCTGCAAAACGACGTTTCAGCATTACAGCACGGAG
42235102 TAGTGTCTGCAAAACGACGTTTCAGCATTACAGCACGGAG
1 TAGTGTCTGCAAAACGACGTTTCAGCATTACAGCACGGAG
42235142 ATCCTTCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
TAGTGTCTGCAAAACGACGTTTCAGCATTACAGCACGGAG
Found at i:42236544 original size:15 final size:14
Alignment explanation
Indices: 42236542--42236581 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
42236532 GTTCTTTATT
*
42236542 TTTTATTTTTTTAA
1 TTTTAATTTTTTAA
42236556 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
42236570 TTTTAATTTTTT
1 TTTTAATTTTTT
42236582 TGAAGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:42236560 original size:30 final size:29
Alignment explanation
Indices: 42236524--42236582 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
42236514 TAAATATTAA
* *
42236524 AATTTTAAGTTCTTTATTTTTTATTTTTTT
1 AATTTTAA-TTCTTTAATTTTAATTTTTTT
*
42236554 AATTTTAATTTTTTAATTTTAATTTTTTT
1 AATTTTAATTCTTTAATTTTAATTTTTTT
42236583 GAAGATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (29 bp):
AATTTTAATTCTTTAATTTTAATTTTTTT
Found at i:42236582 original size:15 final size:15
Alignment explanation
Indices: 42236524--42236582 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
42236514 TAAATATTAA
* *
42236524 AATTTTAAGTTCTTT
1 AATTTTAATTTTTTT
* *
42236539 ATTTTTTATTTTTTT
1 AATTTTAATTTTTTT
42236554 AATTTTAA-TTTTTT
1 AATTTTAATTTTTTT
42236568 AATTTTAATTTTTTT
1 AATTTTAATTTTTTT
42236583 GAAGATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
14 14 0.38
15 23 0.62
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
AATTTTAATTTTTTT
Found at i:42237063 original size:7 final size:7
Alignment explanation
Indices: 42237051--42237089 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
42237041 AATTGCATAC
42237051 TAAACCT
1 TAAACCT
*
42237058 TAAACCC
1 TAAACCT
42237065 TAAACCT
1 TAAACCT
* *
42237072 TAAATCA
1 TAAACCT
42237079 TAAACCT
1 TAAACCT
42237086 TAAA
1 TAAA
42237090 ATAGTAACTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:42237142 original size:14 final size:14
Alignment explanation
Indices: 42237051--42237152 Score: 64
Period size: 14 Copynumber: 7.2 Consensus size: 14
42237041 AATTGCATAC
* *
42237051 TAAACCTTAAACCC
1 TAAACCCTAAACCA
* *
42237065 TAAACCTTAAATCA
1 TAAACCCTAAACCA
*
42237079 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
42237091 TAGTAACTCATAAACCT
1 TA--AAC-CCTAAACCA
*
42237108 TAAACCCTTAACCA
1 TAAACCCTAAACCA
* *
42237122 TATACCCTAAACCG
1 TAAACCCTAAACCA
*
42237136 TAAACCCTAAACTA
1 TAAACCCTAAACCA
42237150 TAA
1 TAA
42237153 TCATAATTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
12 3 0.04
14 57 0.81
15 8 0.11
17 2 0.03
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACCA
Done.