Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 100 of 335
Found at i:31767687 original size:20 final size:20
Alignment explanation
Indices: 31767662--31767702 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31767652 CTATTAGGAT
31767662 GAATAATCATGATTAATAGA
1 GAATAATCATGATTAATAGA
*
31767682 GAATAATTATGATTAATAGA
1 GAATAATCATGATTAATAGA
31767702 G
1 G
31767703 TTAACCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.17, T:0.32
Consensus pattern (20 bp):
GAATAATCATGATTAATAGA
Found at i:31768879 original size:10 final size:10
Alignment explanation
Indices: 31768864--31768913 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
31768854 TAATTTTAGA
31768864 ATTTAT-TTT
1 ATTTATCTTT
31768873 CATTTATCTTT
1 -ATTTATCTTT
*
31768884 ATTTATATTT
1 ATTTATCTTT
*
31768894 AATTAT-TTGT
1 ATTTATCTT-T
31768904 ATTTATCTTT
1 ATTTATCTTT
31768914 TAGTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31768920 original size:20 final size:20
Alignment explanation
Indices: 31768883--31768921 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31768873 CATTTATCTT
*
31768883 TATTTATATTTAATTATTTG
1 TATTTATATTTAAGTATTTG
* *
31768903 TATTTATCTTTTAGTATTT
1 TATTTATATTTAAGTATTT
31768922 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTTATATTTAAGTATTTG
Found at i:31770312 original size:51 final size:52
Alignment explanation
Indices: 31770257--31770367 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 52
31770247 TTCTTTTTCG
* * *
31770257 TTTTCATTTTTGAGAAAACCACATTCATTTCCAAATGATT-CTATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCA
* *
31770308 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCA
31770360 TTTTCATT
1 TTTTCATT
31770368 ACTTCTATCC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 36 0.67
52 18 0.33
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (52 bp):
TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCA
Found at i:31773063 original size:60 final size:60
Alignment explanation
Indices: 31772984--31773125 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
31772974 ATTAGAGTTA
* * *
31772984 ACTGGGCCTTAGCCCATATCAATATTAAT-TTGGGCCATAGCCC-CTTAC-AGTATCAAGGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTT-GGCCATAGCCCTATTACAAGT-T-AAGATAT
* *
31773045 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTATTACAAGTTGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTTGGCCATAGCCCTATTACAAGTTAAGATAT
* *
31773105 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
31773126 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
60 52 0.74
61 15 0.21
62 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (60 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTTGGCCATAGCCCTATTACAAGTTAAGATAT
Found at i:31773085 original size:28 final size:28
Alignment explanation
Indices: 31772988--31773086 Score: 69
Period size: 28 Copynumber: 3.4 Consensus size: 28
31772978 GAGTTAACTG
* * *
31772988 GGCCTTAGCCCATATCAATATTAAT-TT
1 GGCCATAGCCCATATCAGTATCAATCTT
* *
31773015 GGGCCATAGCCCCT-TACAGTATCAAGGTATACTG
1 -GGCCATAGCCCATAT-CAGTATC-A---AT-CTT
31773049 GGCC-TAGCCCATATCAGTATCAATCTT
1 GGCCATAGCCCATATCAGTATCAATCTT
31773076 GGCCATAGCCC
1 GGCCATAGCCC
31773087 TATTACAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
27 7 0.13
28 24 0.44
29 1 0.02
31 1 0.02
32 16 0.29
33 5 0.09
34 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
GGCCATAGCCCATATCAGTATCAATCTT
Found at i:31773140 original size:20 final size:20
Alignment explanation
Indices: 31773115--31773154 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31773105 ATTGGGCCTT
31773115 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
31773135 GCCCATTTCAATACAGTTGG
1 GCCCATATCAACACAGTTGG
31773155 CCTATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:31776161 original size:25 final size:25
Alignment explanation
Indices: 31776108--31776165 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
31776098 AAGCTCTTCT
* **
31776108 GAGCTAAATAACAAGAAGCTCATGC
1 GAGCTGAATAACAAGAAGCTCATAA
*
31776133 GAGCTGAATAACAGGAAGCTCATAA
1 GAGCTGAATAACAAGAAGCTCATAA
31776158 GAGCTGAA
1 GAGCTGAA
31776166 ATCGGTGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCTGAATAACAAGAAGCTCATAA
Found at i:31779495 original size:30 final size:30
Alignment explanation
Indices: 31779459--31779519 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31779449 ATACAAAGTT
31779459 AAACATGGGATATTTGACAATATTTCTAAC
1 AAACATGGGATATTTGACAATATTTCTAAC
31779489 AAACATGGGATATTTGACAATATTTCTAAC
1 AAACATGGGATATTTGACAATATTTCTAAC
31779519 A
1 A
31779520 CATTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (30 bp):
AAACATGGGATATTTGACAATATTTCTAAC
Found at i:31783187 original size:31 final size:31
Alignment explanation
Indices: 31783152--31783217 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
31783142 ACTTTTAGTA
*
31783152 ACAAAAGCATAATTTATTACAATGAGTGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
*
31783183 ACAAAAGCATAATTTATTACTATGAATGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
31783214 ACAA
1 ACAA
31783218 CTCTTGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (31 bp):
ACAAAAGCATAATTTATTACAATGAATGGTG
Found at i:31783782 original size:33 final size:33
Alignment explanation
Indices: 31783740--31783805 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
31783730 ACCATAAGCC
31783740 CCACTCTAATGGTGGGGAGAATGTTGAAAACAA
1 CCACTCTAATGGTGGGGAGAATGTTGAAAACAA
*
31783773 CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
1 CCACTCTAATGGTGGGGAGAATGTTGAAAACAA
31783806 TCTTATTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (33 bp):
CCACTCTAATGGTGGGGAGAATGTTGAAAACAA
Found at i:31785176 original size:28 final size:27
Alignment explanation
Indices: 31785145--31785198 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
31785135 ATGATCACTT
*
31785145 AAAAATTAAAAATATATATTATAAAATTA
1 AAAAAATAAAAA-ATATATTA-AAAATTA
31785174 AAAAAATAAAAAATATATTAAAAAT
1 AAAAAATAAAAAATATATTAAAAAT
31785199 ATCAATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 8 0.33
29 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAAATAAAAAATATATTAAAAATTA
Found at i:31789815 original size:23 final size:23
Alignment explanation
Indices: 31789784--31789838 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
31789774 GATGTATAGA
* *
31789784 CCTATTCCTCGTCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
31789807 CCTACTCCTCATCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
31789830 CCTACTCCT
1 CCTACTCCT
31789839 TACACTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.15, C:0.51, G:0.02, T:0.33
Consensus pattern (23 bp):
CCTACTCCTCATCATCCACCTCT
Found at i:31791301 original size:22 final size:22
Alignment explanation
Indices: 31791276--31791317 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31791266 ACTTATATTG
* *
31791276 GACATAAAGTAAAGTACTTTTA
1 GACATAAAGCAAAATACTTTTA
31791298 GACATAAAGCAAAATACTTT
1 GACATAAAGCAAAATACTTT
31791318 AATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
GACATAAAGCAAAATACTTTTA
Found at i:31802885 original size:10 final size:10
Alignment explanation
Indices: 31802872--31803029 Score: 55
Period size: 10 Copynumber: 16.2 Consensus size: 10
31802862 AAATTCAAAT
31802872 AAATTATAAA
1 AAATTATAAA
31802882 AAATTAT-AA
1 AAATTATAAA
* *
31802891 AAGTAATAAA
1 AAATTATAAA
31802901 ATATATT-TAAA
1 A-A-ATTATAAA
* *
31802912 ATATT-TAAT
1 AAATTATAAA
***
31802921 TTTTTATAAA
1 AAATTATAAA
** *
31802931 AACGTATTAA
1 AAATTATAAA
*
31802941 AATTCTATA-A
1 AAAT-TATAAA
*
31802951 AAATCAT-AA
1 AAATTATAAA
31802960 AAATTATAAA
1 AAATTATAAA
*
31802970 AAA--ATTAA
1 AAATTATAAA
*
31802978 AAATTAT-TA
1 AAATTATAAA
*
31802987 AAATTGATATA
1 AAATT-ATAAA
*
31802998 AACTTAT-AA
1 AAATTATAAA
31803007 AAATTATAAAA
1 AAATTAT-AAA
*
31803018 AAATCATAAA
1 AAATTATAAA
31803028 AA
1 AA
31803030 CTTGAATTGA
Statistics
Matches: 109, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
8 7 0.06
9 38 0.35
10 40 0.37
11 23 0.21
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:31802961 original size:9 final size:9
Alignment explanation
Indices: 31802946--31803018 Score: 76
Period size: 9 Copynumber: 7.9 Consensus size: 9
31802936 ATTAAAATTC
31802946 TATAAAAAT
1 TATAAAAAT
*
31802955 CATAAAAAT
1 TATAAAAAT
31802964 TATAAAAA-
1 TATAAAAAT
*
31802972 AATTAAAAAT
1 TA-TAAAAAT
*
31802982 TATTAAAAT
1 TATAAAAAT
*
31802991 TGATATAAACT
1 T-ATA-AAAAT
31803002 TATAAAAAT
1 TATAAAAAT
31803011 TATAAAAA
1 TATAAAAA
31803019 AATCATAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 1 0.02
9 40 0.77
10 6 0.12
11 5 0.10
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:31803468 original size:20 final size:20
Alignment explanation
Indices: 31803445--31803495 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
31803435 TTTATACCAA
31803445 TTTTAATATTTTTA-TATTTT
1 TTTTAAT-TTTTTATTATTTT
31803465 TTTTCAATTTTTTATTATTTT
1 TTTT-AATTTTTTATTATTTT
*
31803486 TATTAATTTT
1 TTTTAATTTT
31803496 AATACTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTAATTTTTTATTATTTT
Found at i:31803555 original size:26 final size:25
Alignment explanation
Indices: 31803526--31803638 Score: 88
Period size: 28 Copynumber: 4.2 Consensus size: 25
31803516 TAAGTTTTTT
31803526 AATTTTATATTTTCATAATTTATTA-A
1 AATTTTATATTTT-ATAATTT-TTATA
31803552 AATTTTTATATTTTATAATTTTTATA
1 AA-TTTTATATTTTATAATTTTTATA
* *
31803578 AGTTTTTATATTTTTTATAATTTTAATA
1 A-ATTTTATA--TTTTATAATTTTTATA
*
31803606 AGTTTATATTAATTTTA-ATATTTTTA-A
1 AATTT-TA-T-ATTTTATA-ATTTTTATA
31803633 AATTTT
1 AATTTT
31803639 TAATTTTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
25 3 0.04
26 19 0.26
27 20 0.27
28 29 0.40
29 1 0.01
30 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTTATATTTTATAATTTTTATA
Found at i:31803606 original size:28 final size:27
Alignment explanation
Indices: 31803473--31803655 Score: 132
Period size: 27 Copynumber: 6.8 Consensus size: 27
31803463 TTTTTTCAAT
* *
31803473 TTTTTATTATTTTTATTAATTTTAATAC
1 TTTTTA-TATTTTTAATAATTTTAATAA
* *
31803501 TTTTT-TAATTTTAAATAAGTTTT-TTAA
1 TTTTTAT-ATTTTTAATAA-TTTTAATAA
*
31803528 -TTTTATA-TTTTCATAATTTATTAA-AA
1 TTTTTATATTTTTAATAA-TT-TTAATAA
*
31803554 TTTTTATA-TTTT-ATAATTTTTATAA
1 TTTTTATATTTTTAATAATTTTAATAA
*
31803579 GTTTTTATATTTTTTATAATTTTAATAA
1 -TTTTTATATTTTTAATAATTTTAATAA
* * *
31803607 GTTTATATTAATTTTAATATTTTTAA-AA
1 -TTTTTA-TATTTTTAATAATTTTAATAA
31803635 TTTTTA-ATTTTTAATATATTT
1 TTTTTATATTTTTAATA-ATTT
31803656 ATTTTTTAAT
Statistics
Matches: 126, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
24 3 0.02
25 22 0.17
26 25 0.20
27 32 0.25
28 29 0.23
29 15 0.12
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATATTTTTAATAATTTTAATAA
Found at i:31803646 original size:16 final size:16
Alignment explanation
Indices: 31803552--31803690 Score: 73
Period size: 16 Copynumber: 8.2 Consensus size: 16
31803542 AATTTATTAA
*
31803552 AATTTTT-ATATTTTAT
1 AATTTTTAAAATTTT-T
*
31803568 AATTTTTATAAGTTTTT
1 AATTTTTA-AAATTTTT
*
31803585 ATATTTTTTATAATTTTAAT
1 A-A-TTTTTAAAATTTT--T
* * *
31803605 AAGTTTATATTAATTTTA
1 AA-TTTTTA-AAATTTTT
31803623 ATATTTTTAAAATTTTT
1 A-ATTTTTAAAATTTTT
* *
31803640 AATTTTTAATATATTT
1 AATTTTTAAAATTTTT
* **
31803656 ATTTTTTAATTTTTTT
1 AATTTTTAAAATTTTT
* *
31803672 AATTTGTAATATTTTT
1 AATTTTTAAAATTTTT
31803688 AAT
1 AAT
31803691 CATTCTTATT
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
16 49 0.51
17 9 0.09
18 17 0.18
19 13 0.13
20 9 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
AATTTTTAAAATTTTT
Found at i:31803690 original size:9 final size:9
Alignment explanation
Indices: 31803445--31803690 Score: 101
Period size: 9 Copynumber: 27.8 Consensus size: 9
31803435 TTTATACCAA
31803445 TTTTAATAT
1 TTTTAATAT
*
31803454 TTTTATATTTT
1 TTTTA-A-TAT
31803465 TTTTCAAT-T
1 TTTT-AATAT
*
31803474 TTTTATTAT
1 TTTTAATAT
* *
31803483 TTTTATTAA
1 TTTTAATAT
31803492 TTTTAATACT
1 TTTTAATA-T
*
31803502 TTTTTA-AT
1 TTTTAATAT
*
31803510 TTTAAATAAGT
1 TTTTAAT-A-T
*
31803521 TTTT--TAA
1 TTTTAATAT
31803528 TTTT-ATAT
1 TTTTAATAT
31803536 TTTCATAAT-T
1 TTT--TAATAT
* *
31803546 TATTAAAAT
1 TTTTAATAT
31803555 TTTT-ATAT
1 TTTTAATAT
31803563 TTTATAAT-T
1 TTT-TAATAT
*
31803572 TTTATAA-GT
1 TTT-TAATAT
31803581 TTTT-ATAT
1 TTTTAATAT
* *
31803589 TTTTTATAA
1 TTTTAATAT
31803598 TTTTAATAAGT
1 TTTTAAT-A-T
* * *
31803609 TTATATTAA
1 TTTTAATAT
31803618 TTTTAATAT
1 TTTTAATAT
*
31803627 TTTTAAAAT
1 TTTTAATAT
31803636 TTTT-A-AT
1 TTTTAATAT
31803643 TTTTAATAT
1 TTTTAATAT
*
31803652 ATTT-AT-T
1 TTTTAATAT
31803659 TTTTAAT-T
1 TTTTAATAT
*
31803667 TTTTTA-AT
1 TTTTAATAT
*
31803675 TTGTAATAT
1 TTTTAATAT
31803684 TTTTAAT
1 TTTTAAT
31803691 CATTCTTATT
Statistics
Matches: 180, Mismatches: 32, Indels: 50
0.69 0.12 0.19
Matches are distributed among these distances:
7 15 0.08
8 45 0.25
9 85 0.47
10 16 0.09
11 18 0.10
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:31809609 original size:6 final size:6
Alignment explanation
Indices: 31809580--31809629 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
31809570 ACAGTATCTA
* *
31809580 AACAGT AATCAGA AAC-GAT AACAGT AACAGT AACAGT AACAGT AAAAGT
1 AACAGT AA-CAGT AACAG-T AACAGT AACAGT AACAGT AACAGT AACAGT
31809629 A
1 A
31809630 TTCAACACAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 1 0.03
6 31 0.82
7 6 0.16
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:31809664 original size:45 final size:45
Alignment explanation
Indices: 31809609--31809719 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
31809599 AACAGTAACA
* * * * *
31809609 GTAACAGTAACAGTAAAAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
* *
31809654 GTAATAGTAACGGTAACAGTATTCGACAAACAAAGTGTCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
31809699 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
31809720 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
Found at i:31809714 original size:12 final size:12
Alignment explanation
Indices: 31809697--31809721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31809687 AGTGTCGAAT
31809697 CGGTAACAGTAA
1 CGGTAACAGTAA
31809709 CGGTAACAGTAA
1 CGGTAACAGTAA
31809721 C
1 C
31809722 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:31809979 original size:40 final size:40
Alignment explanation
Indices: 31809930--31810015 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
31809920 ATTCATTTTA
* * *
31809930 TCAGAAATTTTACAGTTCAATGCAGTATACATAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
* * *
31809970 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
31810010 TCAGTA
1 TCAGTA
31810016 TCCCATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (40 bp):
TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
Found at i:31810825 original size:19 final size:17
Alignment explanation
Indices: 31810791--31810827 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
31810781 GTTTCTTTGT
31810791 TTTTCTTTTATATTTTA
1 TTTTCTTTTATATTTTA
31810808 TTTTCTTTGTATTATTTTA
1 TTTTCTTT-TA-TATTTTA
31810827 T
1 T
31810828 CATTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTATATTTTA
Found at i:31814108 original size:15 final size:15
Alignment explanation
Indices: 31814090--31814143 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
31814080 TAGTTTTTAA
31814090 TTAATTACAATTAA-C
1 TTAATTA-AATTAAGC
** *
31814105 TTAATTAACCTAAGT
1 TTAATTAAATTAAGC
31814120 TTAATTAAAATTAAGC
1 TTAATT-AAATTAAGC
31814136 TTAATTAA
1 TTAATTAA
31814144 CACTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 4 0.13
15 15 0.48
16 12 0.39
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (15 bp):
TTAATTAAATTAAGC
Found at i:31815380 original size:21 final size:21
Alignment explanation
Indices: 31815334--31815374 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31815324 AAATTGTGGA
**
31815334 AAAAAGAAAAAGAAAAGATCC
1 AAAAAGAAAAAGAAAAGAAAC
31815355 AAAAAGAAAAAGAAAAGAAA
1 AAAAAGAAAAAGAAAAGAAA
31815375 GTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAGAAAC
Found at i:31818704 original size:41 final size:41
Alignment explanation
Indices: 31818647--31818728 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
31818637 GGGCTACTCA
31818647 TCCAAAATTTGTGCTTATTATTCATTTTTTTTGTCTAGTTT
1 TCCAAAATTTGTGCTTATTATTCATTTTTTTTGTCTAGTTT
31818688 TCCAAAATTTGTGCTTATTATTCATTTTTTTTGTCTAGTTT
1 TCCAAAATTTGTGCTTATTATTCATTTTTTTTGTCTAGTTT
31818729 CGGTTATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (41 bp):
TCCAAAATTTGTGCTTATTATTCATTTTTTTTGTCTAGTTT
Found at i:31818744 original size:2 final size:2
Alignment explanation
Indices: 31818737--31818770 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31818727 TTCGGTTATC
*
31818737 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31818771 AAATAGCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31821529 original size:16 final size:16
Alignment explanation
Indices: 31821499--31821529 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31821489 TTATAATAAA
*
31821499 AAATTATAAAAATATT
1 AAATCATAAAAATATT
31821515 AAATCATAAAAATAT
1 AAATCATAAAAATAT
31821530 AATAATCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATCATAAAAATATT
Found at i:31821635 original size:25 final size:27
Alignment explanation
Indices: 31821607--31821656 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31821597 CTATTTTAAT
*
31821607 TAAAT-TATTT-TTACATTATTGATCA
1 TAAATATATTTATTACAATATTGATCA
31821632 TAAATATATTTATTACAATATTGAT
1 TAAATATATTTATTACAATATTGAT
31821657 AATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (27 bp):
TAAATATATTTATTACAATATTGATCA
Found at i:31823839 original size:21 final size:21
Alignment explanation
Indices: 31823813--31823863 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
31823803 GGAAAAGCAA
31823813 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
31823834 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
* *
31823855 AAATTATTT
1 TAATAATTT
31823864 TGTAAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (21 bp):
TAATAATTTCACAATGGAGAG
Found at i:31824353 original size:40 final size:40
Alignment explanation
Indices: 31824294--31824370 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
31824284 GAAATTACAG
31824294 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
1 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
* *
31824334 AAAAGCGCACTGACTTGGGCATGCTTTACCCAATGTT
1 AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTT
31824371 TTTCCCCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAGCGCACTGACGTGGGCACGCTTTACCCAATGTTAGC
Found at i:31826490 original size:46 final size:44
Alignment explanation
Indices: 31826385--31826492 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
31826375 TGTCTTTGAC
** * * *
31826385 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
31826429 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
31826475 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
31826493 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:31829717 original size:44 final size:45
Alignment explanation
Indices: 31829627--31829755 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
31829617 GACAGAACGA
*
31829627 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
31829673 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
31829717 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
31829756 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:31837076 original size:44 final size:45
Alignment explanation
Indices: 31836986--31837114 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
31836976 GACAGAACGA
*
31836986 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
31837032 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
31837076 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
31837115 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:31842703 original size:46 final size:44
Alignment explanation
Indices: 31842599--31842706 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
31842589 TGTCTTTGAC
** * * *
31842599 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
31842643 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
31842689 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
31842707 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:31847958 original size:46 final size:44
Alignment explanation
Indices: 31847853--31847960 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
31847843 TGTCTTTGAC
** * * *
31847853 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
31847897 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
31847943 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
31847961 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:31853854 original size:59 final size:59
Alignment explanation
Indices: 31853758--31853884 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
31853748 CATTGATTTT
* ** * *
31853758 TTTTGAATATATTTGTACAAACTCTTTTTATTTTGTTTCATTTAATAAAACATAAGTTG
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
* * *
31853817 TTTTGAATATTTTTGTACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTC
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
31853876 TTTTGAATA
1 TTTTGAATA
31853885 AGACAATACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
Found at i:31853895 original size:59 final size:59
Alignment explanation
Indices: 31853773--31853898 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 59
31853763 AATATATTTG
* * ** * * ******
31853773 TACAAACTCTTTTTATTTTGTTTCATTTAATAAAACATAAGTTGTTTTGAATATTTTTG
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
*
31853832 TACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTCTTTTGAATAAGACAA
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
31853891 TACAAATT
1 TACAAATT
31853899 GAATATTCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (59 bp):
TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
Found at i:31855129 original size:28 final size:29
Alignment explanation
Indices: 31855081--31855186 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 29
31855071 AAATAAAATC
* * * * *
31855081 CATCTCGTCAAAATAATTTTTTCAGAATA
1 CATCACGTCAAATTTATTTTTTCAAAACA
* *
31855110 CATCACGTTAAATTTATTTTTTTAAAACA
1 CATCACGTCAAATTTATTTTTTCAAAACA
* * *
31855139 CATCACGTCAAATTTATTTTTTCATATCC
1 CATCACGTCAAATTTATTTTTTCAAAACA
**
31855168 CATCTTGTCAAATTTATTT
1 CATCACGTCAAATTTATTT
31855187 CTTCTGGAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (29 bp):
CATCACGTCAAATTTATTTTTTCAAAACA
Found at i:31855234 original size:15 final size:15
Alignment explanation
Indices: 31855210--31855243 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31855200 ACTTACCAAT
31855210 TAAAAAAATAAACCC
1 TAAAAAAATAAACCC
* *
31855225 TAAAACAATAGACCC
1 TAAAAAAATAAACCC
31855240 TAAA
1 TAAA
31855244 CCTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.03, T:0.15
Consensus pattern (15 bp):
TAAAAAAATAAACCC
Found at i:31855281 original size:30 final size:29
Alignment explanation
Indices: 31855238--31855308 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
31855228 AACAATAGAC
*
31855238 CCTAAACCTTAATTATTATTTTTTT-AAAAT
1 CCTAAACCCTAA-T-TTATTTTTTTAAAAAT
*
31855268 CTTAAACCCTAATTTATTTTTTTCAAAAAT
1 CCTAAACCCTAATTTATTTTTTT-AAAAAT
31855298 CCT-AACCCTAA
1 CCTAAACCCTAA
31855309 ATCCTAACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.28
29 9 0.25
30 17 0.47
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (29 bp):
CCTAAACCCTAATTTATTTTTTTAAAAAT
Found at i:31855803 original size:13 final size:13
Alignment explanation
Indices: 31855781--31855822 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31855771 ATAATAAAAA
31855781 ATTATAAATATATT
1 ATTAT-AATATATT
*
31855795 ATTGTAATATATT
1 ATTATAATATATT
*
31855808 TTTATAATATATT
1 ATTATAATATATT
31855821 AT
1 AT
31855823 CAGTTGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATTATAATATATT
Found at i:31856242 original size:44 final size:45
Alignment explanation
Indices: 31856174--31856268 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 45
31856164 CTACTTCATG
* *
31856174 CAAAGATAGGTGTATATATATAT-ACATATAACAGAAAAAGGAAA
1 CAAAAATAGGTATATATATATATAACATATAACAGAAAAAGGAAA
31856218 CAAAAATAGGTATATATATATATACACATATAACAGAAAAAGGAAA
1 CAAAAATAGGTATATATATATATA-ACATATAACAGAAAAAGGAAA
31856264 CAAAA
1 CAAAA
31856269 TAAAAGAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 21 0.45
46 26 0.55
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (45 bp):
CAAAAATAGGTATATATATATATAACATATAACAGAAAAAGGAAA
Found at i:31859276 original size:20 final size:20
Alignment explanation
Indices: 31859241--31859294 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
31859231 TTTCAAATTT
31859241 TGAGTGAACTTTTTAACTTGGA
1 TGAGT-AAC-TTTTAACTTGGA
31859263 TGAGTAACTTTTAACTTGGA
1 TGAGTAACTTTTAACTTGGA
31859283 TGAGTAA-TTTTA
1 TGAGTAACTTTTA
31859295 CCATGAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.16
20 19 0.59
21 3 0.09
22 5 0.16
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (20 bp):
TGAGTAACTTTTAACTTGGA
Found at i:31859758 original size:30 final size:31
Alignment explanation
Indices: 31859722--31859787 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
31859712 CAACTTAACA
*
31859722 AACAAATGT-TTCTAAAATAAT-AACAAAATT
1 AACAAATGTCTT-TAAAATAATAAAAAAAATT
31859752 AACAAATGTCTTTAAAATAATAAAAAAAATT
1 AACAAATGTCTTTAAAATAATAAAAAAAATT
31859783 AACAA
1 AACAA
31859788 TAAATAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAAATGTCTTTAAAATAATAAAAAAAATT
Found at i:31859862 original size:11 final size:11
Alignment explanation
Indices: 31859846--31859871 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31859836 ACATAATAGT
31859846 AAAATAGGGAG
1 AAAATAGGGAG
31859857 AAAATAGGGAG
1 AAAATAGGGAG
31859868 AAAA
1 AAAA
31859872 CAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:31861154 original size:23 final size:24
Alignment explanation
Indices: 31861123--31861172 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
31861113 ATAATATTTT
31861123 GAATGATGTTCGAGAGAACAAGGA
1 GAATGATGTTCGAGAGAACAAGGA
*
31861147 GAAT-ATGTTCGAGAGAATAAGGA
1 GAATGATGTTCGAGAGAACAAGGA
31861170 GAA
1 GAA
31861173 GCAATTACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (24 bp):
GAATGATGTTCGAGAGAACAAGGA
Found at i:31863804 original size:12 final size:12
Alignment explanation
Indices: 31863787--31863814 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31863777 TATTATATGT
31863787 AAGATCGAGACC
1 AAGATCGAGACC
31863799 AAGATCGAGACC
1 AAGATCGAGACC
31863811 AAGA
1 AAGA
31863815 CCCAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.07
Consensus pattern (12 bp):
AAGATCGAGACC
Found at i:31863917 original size:25 final size:25
Alignment explanation
Indices: 31863883--31863947 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
31863873 GGCTAGACTA
*
31863883 GACCGGTCGGGTTGTCATTAACTCG
1 GACCGGTCGGGTTGTCATTAACCCG
31863908 GACCGGTCGGGTTGTCATTAACCCG
1 GACCGGTCGGGTTGTCATTAACCCG
*
31863933 GACAGGTCGGGTTGT
1 GACCGGTCGGGTTGT
31863948 TATTGACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.26
Consensus pattern (25 bp):
GACCGGTCGGGTTGTCATTAACCCG
Found at i:31864270 original size:62 final size:63
Alignment explanation
Indices: 31864182--31864369 Score: 183
Period size: 62 Copynumber: 3.0 Consensus size: 63
31864172 TAATAATTTA
* * * *
31864182 ATATTAAATTAAATCTAATACTTATCTTAAT-AGTATT-TTTTAATTTAATATTAAAGTGATT
1 ATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
* * * * * *
31864243 ATCTTAATATTAAATTTAATGTTTATCTTGTAAATAAATATTCTGTTATTTTAATA--AGA-T--
1 ATATTAA-ATTAAATTTAATATTTATC-T-T-AATAAATATTATATTAATTTAATATTAAAGTGA
31864303 TT
62 TT
*
31864305 AATATTAAATTAAATTTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGATT
1 -ATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
31864369 A
1 A
31864370 AGTTTAATCA
Statistics
Matches: 100, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
59 20 0.20
60 1 0.01
61 9 0.09
62 37 0.37
63 8 0.08
64 4 0.04
65 5 0.05
66 5 0.05
67 11 0.11
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (63 bp):
ATATTAAATTAAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
Found at i:31869027 original size:36 final size:36
Alignment explanation
Indices: 31868980--31869060 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
31868970 AGAATAAGGG
31868980 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
31869016 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
*
31869052 A-AGGAAAAC
1 AGTGGAAAAC
31869061 AAATAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 7 0.16
36 37 0.84
ACGTcount: A:0.47, C:0.04, G:0.30, T:0.20
Consensus pattern (36 bp):
AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
Found at i:31872915 original size:20 final size:21
Alignment explanation
Indices: 31872878--31872920 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
31872868 TTAAGCATGT
* *
31872878 ATTTTGTGGTGTGATTGG-TG
1 ATTTTATGGTGCGATTGGATG
*
31872898 ATTTTATGGTGCGTTTGGATG
1 ATTTTATGGTGCGATTGGATG
31872919 AT
1 AT
31872921 CAATAAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.14, C:0.02, G:0.35, T:0.49
Consensus pattern (21 bp):
ATTTTATGGTGCGATTGGATG
Found at i:31875587 original size:35 final size:35
Alignment explanation
Indices: 31875541--31875611 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
31875531 GAAAAGAACA
31875541 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
31875576 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
31875611 G
1 G
31875612 CAACAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.28
Consensus pattern (35 bp):
GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
Found at i:31878398 original size:6 final size:6
Alignment explanation
Indices: 31878388--31878441 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
31878378 GGGAGTAGTA
* * * *
31878388 ACTCAA ACTCAA ACTCAA ATTCAC ACTCAC ACTCAC ACTCAC ACTCAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
31878436 ACTCAC
1 ACTCAC
31878442 TTCACTACAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.19
Consensus pattern (6 bp):
ACTCAC
Found at i:31878836 original size:35 final size:35
Alignment explanation
Indices: 31878790--31878859 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
31878780 CAAGCATATA
31878790 TCCACCACTCCTTCAACTTTTGCTATAATTTTCTG
1 TCCACCACTCCTTCAACTTTTGCTATAATTTTCTG
31878825 TCCACCACTCCTTCAACTTTTGCTATAATTTTCTG
1 TCCACCACTCCTTCAACTTTTGCTATAATTTTCTG
31878860 ACATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
TCCACCACTCCTTCAACTTTTGCTATAATTTTCTG
Found at i:31880631 original size:17 final size:17
Alignment explanation
Indices: 31880604--31880637 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31880594 ATCATACCAT
31880604 CACCAGAGATATAGAAAA
1 CACCAGAGATAT-GAAAA
31880622 CACC-GAGATATGAAAA
1 CACCAGAGATATGAAAA
31880638 TTTCAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.12
Consensus pattern (17 bp):
CACCAGAGATATGAAAA
Found at i:31881516 original size:29 final size:29
Alignment explanation
Indices: 31881484--31881544 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
31881474 AAACATTAAA
31881484 ATCAAATAAATAAATTATTGGAAAGTTTT
1 ATCAAATAAATAAATTATTGGAAAGTTTT
31881513 ATCAAATAAATAAATTATTGGAAAGTTTT
1 ATCAAATAAATAAATTATTGGAAAGTTTT
31881542 ATC
1 ATC
31881545 CCTTGATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (29 bp):
ATCAAATAAATAAATTATTGGAAAGTTTT
Found at i:31881927 original size:31 final size:31
Alignment explanation
Indices: 31881890--31881952 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
31881880 TCTATGGTTG
*
31881890 TATTAAATCATTTAAATATCATTTATTATTA
1 TATTAAATCATTTAAATATAATTTATTATTA
* *
31881921 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAATCATTTAAATATAATTTATTATTA
31881952 T
1 T
31881953 GTTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTAAATCATTTAAATATAATTTATTATTA
Found at i:31881966 original size:31 final size:31
Alignment explanation
Indices: 31881890--31881976 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
31881880 TCTATGGTTG
*
31881890 TATT-AAATCATTTAAATATCATTTATTATTA
1 TATTAAAAT-ATTTAAATATAATTTATTATTA
* *
31881921 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAAATATTTAAATATAATTTATTATTA
* *
31881952 TGTTTAAAAT-TTTAAA-ATATTTTAT
1 T-ATTAAAATATTTAAATATAATTTAT
31881977 GTATCATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
30 8 0.17
31 31 0.65
32 9 0.19
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTAAAATATTTAAATATAATTTATTATTA
Found at i:31893001 original size:40 final size:41
Alignment explanation
Indices: 31892948--31893165 Score: 142
Period size: 41 Copynumber: 5.3 Consensus size: 41
31892938 GCAAAAATTG
* * *
31892948 TAAAACACAGAGCAATAATGGCGTTTTA-CCAAAAGCGCCGC
1 TAAAA-ACAGAGCAATAACGGCGTTTTAGCAAAAAACGCCGC
** * *
31892989 TAAAAATGGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCAATAACGGCGTTTTAGCAAAAAACGCCGC
* * **
31893030 TAAAAACAGAGCATTAACGGCGTTTTTG-GTAAAACGCCGC
1 TAAAAACAGAGCAATAACGGCGTTTTAGCAAAAAACGCCGC
* ** **
31893070 TAAAAACCAGAGCATTGGCGGCGCTTTT-G-GTAAAACGCCGC
1 TAAAAA-CAGAGCAATAACGGCG-TTTTAGCAAAAAACGCCGC
* * ** **
31893111 AAAAAACCAGAGCATTGGCGGCGCTTTT-G-GTAAAACGCCGC
1 TAAAAA-CAGAGCAATAACGGCG-TTTTAGCAAAAAACGCCGC
31893152 TAAAAATCAGAGCA
1 TAAAAA-CAGAGCA
31893166 TTAGCACCGC
Statistics
Matches: 155, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 34 0.22
41 117 0.75
42 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
TAAAAACAGAGCAATAACGGCGTTTTAGCAAAAAACGCCGC
Found at i:31893328 original size:41 final size:41
Alignment explanation
Indices: 31892978--31893321 Score: 433
Period size: 41 Copynumber: 8.4 Consensus size: 41
31892968 GCGTTTTACC
** * *
31892978 AAAAGCGCCGCTAAAAA-TGGAGCAATAGCGGCG-TTTTAGT
1 AAAA-CGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
31893018 AAAAAACGCCGCTAAAAA-CAGAGCATTAACGGCGTTTTTGGT
1 --AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
31893060 AAAACGCCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
31893101 AAAACGCCGCAAAAAACCAGAGCATTGGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* ** * *
31893142 AAAACGCCGCTAAAAATCAGAGCATTAGCACCGCTTCTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * * * *
31893183 AAATCACCGCAAAAAACCAGAGCATTGGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
31893224 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTTGGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGGT
* *
31893266 AAAACGCCGCTAAAAACCAAATCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
31893307 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
31893322 GTCAAATAAC
Statistics
Matches: 264, Mismatches: 35, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
40 16 0.06
41 201 0.76
42 47 0.18
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:31893501 original size:14 final size:14
Alignment explanation
Indices: 31893479--31893530 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
31893469 TTAATTATCA
*
31893479 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
31893493 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* * *
31893507 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
*
31893521 TTAAGGTTTA
1 TTATGGTTTA
31893531 GGAGTTAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:31893521 original size:21 final size:21
Alignment explanation
Indices: 31893492--31893573 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
31893482 TAGTTTAAGG
*
31893492 TTTATGGTTTAAGATATATGA
1 TTTAGGGTTTAAGATATATGA
* * *
31893513 TTTAGGGTTTAAGGTTTAGGA
1 TTTAGGGTTTAAGATATATGA
*
31893534 GTTAACTGTGGTTTAAGATATATGA
1 -TTTA--G-GGTTTAAGATATATGA
31893559 TTTAGGGTTTAAGAT
1 TTTAGGGTTTAAGAT
31893574 TTAAGGTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 27 0.56
22 4 0.08
24 4 0.08
25 13 0.27
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAAGATATATGA
Found at i:31893574 original size:14 final size:14
Alignment explanation
Indices: 31893557--31893591 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31893547 TAAGATATAT
*
31893557 GATTTAGGGTTTAA
1 GATTTAAGGTTTAA
31893571 GATTTAAGGTTTAA
1 GATTTAAGGTTTAA
*
31893585 GAGTTAA
1 GATTTAA
31893592 CTAGTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (14 bp):
GATTTAAGGTTTAA
Found at i:31893656 original size:14 final size:14
Alignment explanation
Indices: 31893639--31893748 Score: 53
Period size: 14 Copynumber: 7.7 Consensus size: 14
31893629 GGATTATAAT
31893639 TTAGGGTTTAAGGG
1 TTAGGGTTTAAGGG
* ** *
31893653 TTAGTGTTGGA-GT
1 TTAGGGTTTAAGGG
* *
31893666 TTAAGGTGTAAGGG
1 TTAGGGTTTAAGGG
* *
31893680 TTTGGGGTTAAGGG
1 TTAGGGTTTAAGGG
31893694 TTTAGGGTTT-AGGG
1 -TTAGGGTTTAAGGG
* *
31893708 TTTAGTGTTTATGGG
1 -TTAGGGTTTAAGGG
** *
31893723 ACAGGGGTTAAGAGG
1 TTAGGGTTTAAG-GG
31893738 TTTAGGGTTTA
1 -TTAGGGTTTA
31893749 GATTAATTAG
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
13 7 0.11
14 39 0.60
15 12 0.18
16 7 0.11
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.38
Consensus pattern (14 bp):
TTAGGGTTTAAGGG
Found at i:31893687 original size:7 final size:7
Alignment explanation
Indices: 31893676--31893749 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
31893666 TTAAGGTGTA
31893676 AGGGTTT
1 AGGGTTT
* *
31893683 GGGGTTA
1 AGGGTTT
31893690 AGGGTTT
1 AGGGTTT
31893697 AGGGTTT
1 AGGGTTT
31893704 AGGGTTT
1 AGGGTTT
*
31893711 AGTGTTT
1 AGGGTTT
**
31893718 ATGGG-AC
1 A-GGGTTT
*
31893725 AGGGGTTA
1 A-GGGTTT
31893733 AGAGGTTT
1 AG-GGTTT
31893741 AGGGTTT
1 AGGGTTT
31893748 AG
1 AG
31893750 ATTAATTAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
7 43 0.83
8 9 0.17
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:31893691 original size:21 final size:21
Alignment explanation
Indices: 31893666--31893709 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31893656 GTGTTGGAGT
*
31893666 TTAA-GGTGTAAGGGTTTGGGG
1 TTAAGGGT-TAAGGGTTTAGGG
*
31893687 TTAAGGGTTTAGGGTTTAGGG
1 TTAAGGGTTAAGGGTTTAGGG
31893708 TT
1 TT
31893710 TAGTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTTAGGG
Found at i:31893717 original size:21 final size:21
Alignment explanation
Indices: 31893676--31893749 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
31893666 TTAAGGTGTA
*
31893676 AGGGTTTGGGGTTAAGGGTTT
1 AGGGTTTAGGGTTAAGGGTTT
* *
31893697 AGGGTTTAGGGTTTAGTGTTT
1 AGGGTTTAGGGTTAAGGGTTT
**
31893718 ATGGG-ACAGGGGTTAAGAGGTTT
1 A-GGGTTTA-GGGTTAAG-GGTTT
31893741 AGGGTTTAG
1 AGGGTTTAG
31893750 ATTAATTAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
21 20 0.50
22 14 0.35
23 6 0.15
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (21 bp):
AGGGTTTAGGGTTAAGGGTTT
Found at i:31895156 original size:6 final size:6
Alignment explanation
Indices: 31895147--31895176 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
31895137 CCATTCGCAT
*
31895147 TCCCAC TCCCAT TCCCAC TCCCAC TCCCAC
1 TCCCAC TCCCAC TCCCAC TCCCAC TCCCAC
31895177 ATACTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.63, G:0.00, T:0.20
Consensus pattern (6 bp):
TCCCAC
Found at i:31895160 original size:18 final size:18
Alignment explanation
Indices: 31895137--31895175 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31895127 TACTTCGTTT
* *
31895137 CCATTCGCATTCCCACTC
1 CCATTCCCACTCCCACTC
31895155 CCATTCCCACTCCCACTC
1 CCATTCCCACTCCCACTC
31895173 CCA
1 CCA
31895176 CATACTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.56, G:0.03, T:0.23
Consensus pattern (18 bp):
CCATTCCCACTCCCACTC
Found at i:31895161 original size:12 final size:12
Alignment explanation
Indices: 31895144--31895176 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
31895134 TTTCCATTCG
31895144 CATTCCCACTCC
1 CATTCCCACTCC
31895156 CATTCCCACTCC
1 CATTCCCACTCC
*
31895168 CACTCCCAC
1 CATTCCCAC
31895177 ATACTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (12 bp):
CATTCCCACTCC
Found at i:31897048 original size:19 final size:19
Alignment explanation
Indices: 31897026--31897066 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31897016 TTTATTGATA
31897026 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
31897044 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
31897063 TTTT
1 TTTT
31897067 GACTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:31897597 original size:22 final size:22
Alignment explanation
Indices: 31897569--31897615 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
31897559 TTCCATATAA
31897569 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
31897591 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
31897613 TTT
1 TTT
31897616 TCCAAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
TTTCACTTACAAATGAATACAC
Found at i:31899461 original size:17 final size:17
Alignment explanation
Indices: 31899439--31899504 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 17
31899429 ATGACGATAG
31899439 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
31899456 AAAATATACATATACAT
1 AAAATATACATATACAT
* * *
31899473 -ATATATATATATATAT
1 AAAATATACATATACAT
* *
31899489 -ATATATATATATACAT
1 AAAATATACATATACAT
31899505 GGCATACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
16 28 0.64
17 14 0.32
18 2 0.05
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:31899478 original size:2 final size:2
Alignment explanation
Indices: 31899459--31899501 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
31899449 TATACATAAA
* *
31899459 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31899501 A
1 A
31899502 CATGGCATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:31900308 original size:3 final size:3
Alignment explanation
Indices: 31900300--31900375 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
31900290 ATATACACAT
31900300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
31900348 ATA ATA ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31900376 CATAAAGTAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31902658 original size:73 final size:73
Alignment explanation
Indices: 31902336--31902799 Score: 503
Period size: 73 Copynumber: 6.5 Consensus size: 73
31902326 CATGTGATCC
* * * * * * * **
31902336 GAGGCTCCACTCACCTCTTGCAATATGAGTTG-A-TTTTAAAAAACGGAGATCAAAATTACCTCA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTGAAA-TACCTCA
* *
31902399 GCGTGTCCT
65 ACGTGTCTT
* * *
31902408 GAGGCTCAACT-ACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTTAAATTACCTC
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAAT-TTTTGAAAGACAGAAATTGAAA-TACCTC
*
31902472 AGCGTGTCTT
64 AACGTGTCTT
31902482 GAGGCTCAACT-AC-TCTCGCAATATGAGTTG-ATTTTTGAAA-ACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTG-AAATACCTCA
31902543 A--TGTCTT
65 ACGTGTCTT
* * *
31902550 GAGGCTCAACTCA--T-TCGCAGTATGAGTTGATTTTTTGAAAGATAGAAATTGAAATACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTGAAATACCTCAA
31902612 CGTGTCTT
66 CGTGTCTT
* * *
31902620 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTGAAAGACAGAAATTGAAAAACCTCAA
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTGAAATACCTCAA
31902685 CGTGTCTT
66 CGTGTCTT
* * * * *
31902693 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAA-TTTTG-AA-ACAGAAA-TAAAATATCTCAG
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTGAAATACCTCAA
*
31902754 CGTGTC-C
66 CGTGTCTT
* * *
31902761 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTT
31902800 TTTGAAGACA
Statistics
Matches: 349, Mismatches: 30, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
67 14 0.04
68 67 0.19
69 29 0.08
70 42 0.12
71 32 0.09
72 17 0.05
73 103 0.30
74 45 0.13
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTGAAAGACAGAAATTGAAATACCTCAA
CGTGTCTT
Found at i:31902738 original size:212 final size:212
Alignment explanation
Indices: 31902392--31902923 Score: 561
Period size: 212 Copynumber: 2.6 Consensus size: 212
31902382 AGATCAAAAT
* *
31902392 TACCTCAGCGTGTCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGA
1 TACCTCAACGTGTCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGAATATTTTGAAAGACAGA
* * * *
31902457 AATTTAAATTACCTCAGCGTGTCTTGAGGCTCAACTACTCTCGCAATATGAGTTGATTTTTGAAA
66 AATTGAAATAACCTCAACGTGTCTTGAGGCTCAACTACTCTCGCAATATGAGTTGAATTTTGAAA
** *
31902522 ACAGAAATTGAAAATACCTCA-ATGTCTTGAGGCTCAACTCA-T-TCGCAGTATGAGTTGATTTT
131 ACAGAAA-T-AAAATACCTCACATGTC-CAAGGCTCAACTCACTCTCGCAATATGAGTTGATTTT
31902584 TTGAAAGATAGAAATTGAAA
193 TTGAAAGATAGAAATTGAAA
* * * *
31902604 TACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAAT-TTTTGAAAGACAG
1 TACCTCAACGTGTCCTGAGGCTCAACT-ACCTCTCGCAATATGAGTTGAATATTTTGAAAGACAG
* *
31902668 AAATTGAAA-AACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG
65 AAATTGAAATAACCTCAACGTGTCTTGAGGCTCAACT-AC-TCTCGCAATATGAGTTGAATTTTG
* *
31902732 -AAACAGAAATAAAATATCTCAGCGTGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
128 AAAACAGAAATAAAATACCTCA-CATGTCCAAGGCTCAACTCA-CTCTCGCAATATGAGTTGATT
31902796 TTTT------T-----TTG-AA
191 TTTTGAAAGATAGAAATTGAAA
* ** * *
31902806 GA-CAGAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT-TTTT-AAAGGCAG
1 TACCTCAACGTGTCCTGAGGCTCAACT-ACCTCTCGCAATATGAGTTGAATATTTTGAAAGACAG
**
31902867 AAATTGAAA-ATACCTCAACGTGTCAGTCAAGGCTCAACTCACCTCTCGCAATATGAG
65 AAATTGAAATA-ACCTCAACGTGTC--TTGAGGCTCAACT-A-CTCTCGCAATATGAG
31902924 CTATTTTTTT
Statistics
Matches: 278, Mismatches: 30, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
199 17 0.06
200 19 0.07
201 38 0.14
202 28 0.10
203 4 0.01
208 1 0.00
210 10 0.04
211 38 0.14
212 61 0.22
213 41 0.15
214 21 0.08
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (212 bp):
TACCTCAACGTGTCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGAATATTTTGAAAGACAGA
AATTGAAATAACCTCAACGTGTCTTGAGGCTCAACTACTCTCGCAATATGAGTTGAATTTTGAAA
ACAGAAATAAAATACCTCACATGTCCAAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTG
AAAGATAGAAATTGAAA
Found at i:31902932 original size:134 final size:128
Alignment explanation
Indices: 31902685--31902933 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 128
31902675 AAAACCTCAA
* * * * *
31902685 CGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTGAAACAGAAATAAAATATC
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATAAAATACC
* *
31902750 TCAGCGTGTCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGACAGAG
66 TCAACGTGTCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTGAAGACAGAG
*
31902813 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTAAAGGCAGAAATTGAAAA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA--CAGAAA-T-AAAA
31902877 TACCTCAACGTGTCAGTCAAGGCTCAACTCACCTCTCGCAATATGAGCT-ATTTTTTT
62 TACCTCAACGTGTC---CAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
31902934 GAACAGTAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
127 8 0.08
128 36 0.34
129 6 0.06
130 1 0.01
131 16 0.15
133 8 0.08
134 31 0.29
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (128 bp):
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATAAAATACC
TCAACGTGTCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTGAAGACAGAG
Found at i:31914903 original size:17 final size:17
Alignment explanation
Indices: 31914881--31914929 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
31914871 ATGACGATAG
31914881 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
31914898 AAAATATACATATACAT
1 AAAATATACATATACAT
* *
31914915 ATATATATATATATA
1 A-AAATATACATATA
31914930 TATATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:31914920 original size:2 final size:2
Alignment explanation
Indices: 31914901--31914937 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
31914891 TATACATAAA
* *
31914901 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31914938 CATGGCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:31915585 original size:28 final size:30
Alignment explanation
Indices: 31915545--31915628 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 30
31915535 AATAATAAAT
** *
31915545 AAAATATGGTATTAAGAG-TATACAT-ATA
1 AAAATATAATATTAAAAGATATACATAATA
31915573 AAAATATAATATTAAAAGTATATACATAATA
1 AAAATATAATATTAAAAG-ATATACATAATA
31915604 AAATATATAA-ATATAAAA-A-ATACAT
1 AAA-ATATAATAT-TAAAAGATATACAT
31915629 GTAAATAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 15 0.31
29 6 0.12
30 8 0.17
31 8 0.17
32 11 0.23
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (30 bp):
AAAATATAATATTAAAAGATATACATAATA
Found at i:31915599 original size:30 final size:33
Alignment explanation
Indices: 31915563--31915622 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
31915553 GTATTAAGAG
*
31915563 TATACAT-ATAAAA-ATAT-AATATTAAAAGTA
1 TATACATAATAAAATATATAAATATAAAAAGTA
31915593 TATACATAATAAAATATATAAATATAAAAA
1 TATACATAATAAAATATATAAATATAAAAA
31915623 ATACATGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 6 0.23
32 4 0.15
33 9 0.35
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (33 bp):
TATACATAATAAAATATATAAATATAAAAAGTA
Found at i:31915610 original size:16 final size:15
Alignment explanation
Indices: 31915563--31915633 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 15
31915553 GTATTAAGAG
31915563 TATACATATAAAA-A
1 TATACATATAAAATA
31915577 TATA-ATATTAAAAGTA
1 TATACATA-TAAAA-TA
31915593 TATACATAATAAAATA
1 TATACAT-ATAAAATA
*
31915609 TATAAATATAAAA-A
1 TATACATATAAAATA
*
31915623 -ATACATGTAAA
1 TATACATATAAA
31915634 TAACATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
13 12 0.24
14 10 0.20
15 6 0.12
16 13 0.27
17 7 0.14
18 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (15 bp):
TATACATATAAAATA
Found at i:31915790 original size:3 final size:3
Alignment explanation
Indices: 31915784--31915839 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
31915774 CATATACTAG
*
31915784 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -CA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31915831 TAA TAA TAA
1 TAA TAA TAA
31915840 CATAAAGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:31918123 original size:47 final size:45
Alignment explanation
Indices: 31918072--31918162 Score: 164
Period size: 47 Copynumber: 2.0 Consensus size: 45
31918062 TCCTTTACTT
31918072 TTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTTTC
1 TTAGAAGAGCCATTGTTCTTTTC-TT-TTTTTTTAACTTTTGTTTTC
31918119 TTAGAAGAGCCATTGTTCTTTTCTTTTTTTTTAACTTTTGTTTT
1 TTAGAAGAGCCATTGTTCTTTTCTTTTTTTTTAACTTTTGTTTT
31918163 GAGTTAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 19 0.43
46 2 0.05
47 23 0.52
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (45 bp):
TTAGAAGAGCCATTGTTCTTTTCTTTTTTTTTAACTTTTGTTTTC
Found at i:31926759 original size:86 final size:86
Alignment explanation
Indices: 31926614--31926785 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
31926604 AAAAATTAGC
*
31926614 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACATGTACCTCATGTTGACGTACAT
1 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACATATACCTCATGTTGACGTACAT
31926679 AGACCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
* * *
31926700 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCCCGTATACCTTATGTTGACGTACAT
1 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACATATACCTCATGTTGACGTACAT
31926765 AGACCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
31926786 ATGGATAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (86 bp):
TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACATATACCTCATGTTGACGTACAT
AGACCAATTTTAATAACATAA
Found at i:31928579 original size:24 final size:24
Alignment explanation
Indices: 31928551--31928605 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
31928541 AGAGGTAGAA
31928551 GAAAGAATAATTTTGGAAACAGTG
1 GAAAGAATAATTTTGGAAACAGTG
31928575 GAAAGAATAATTTTGGAAACAGTG
1 GAAAGAATAATTTTGGAAACAGTG
31928599 GAAAGAA
1 GAAAGAA
31928606 AGATAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (24 bp):
GAAAGAATAATTTTGGAAACAGTG
Found at i:31931955 original size:44 final size:42
Alignment explanation
Indices: 31931882--31932030 Score: 117
Period size: 42 Copynumber: 3.5 Consensus size: 42
31931872 TGTGATTTCA
* * *
31931882 TGTAAGACTACGTCTGGGACGTTGACATCGACTTCTGTTTTACG
1 TGTAAGACCACGTCTGGGAC-ATGGCATCGA-TTCTGTTTTACG
* **
31931926 TGTAAGACCATGTCTGGGACATCGGCATCG-TATCTGACTT-CG
1 TGTAAGACCACGTCTGGGACAT-GGCATCGAT-TCTGTTTTACG
* * *
31931968 TGTAAAACC-CTGTCTGGGACAATGGCATCGATT-TTTTATTACA
1 TGTAAGACCAC-GTCTGGGAC-ATGGCATCGATTCTGTT-TTACG
*
31932011 TTTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
31932031 GTGGGCATTG
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 30 0.36
43 27 0.33
44 25 0.30
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATGGCATCGATTCTGTTTTACG
Found at i:31933043 original size:27 final size:27
Alignment explanation
Indices: 31932995--31933129 Score: 168
Period size: 27 Copynumber: 5.0 Consensus size: 27
31932985 GCGAGGCTGC
* * *
31932995 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
31933022 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
31933048 CAGATATGTGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
31933075 CAGATAATTGTGGCATAGCCACCA-AGA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
31933102 CAGATATATGTGGCAGAGCCACCAGATA
1 CAGATAT-TGTGGCAGAGCCACCAGATA
31933130 ATTGTGGGAT
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.12
27 78 0.84
28 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:31933135 original size:22 final size:22
Alignment explanation
Indices: 31933075--31933147 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 22
31933065 GCTACCAGAT
31933075 CAGATAATTGTGGCATAGCCAC
1 CAGATAATTGTGGCATAGCCAC
* *
31933097 CAAGACAGATATATGTGGCAGAGCCAC
1 C-AG--ATA-AT-TGTGGCATAGCCAC
*
31933124 CAGATAATTGTGGGATAGCCAC
1 CAGATAATTGTGGCATAGCCAC
31933146 CA
1 CA
31933148 AGACGCTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
22 15 0.37
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 14 0.34
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
CAGATAATTGTGGCATAGCCAC
Found at i:31933147 original size:49 final size:51
Alignment explanation
Indices: 31933022--31933151 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 51
31933012 TCACCAGATA
* * *
31933022 CAGAT-ATTGTGGCAGAGCCACC-AGAACAGATATGTGTGGCAGAGCTACCAGAT
1 CAGATAATTGTGGCATAGCCACCAAG-ACAGATATATGTGGCAGAG--ACCA-AC
31933075 CAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAG-CC-AC
1 CAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGACCAAC
*
31933124 CAGATAATTGTGGGATAGCCACCAAGAC
1 CAGATAATTGTGGCATAGCCACCAAGAC
31933152 GCTTCCTCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
49 28 0.39
51 2 0.03
53 5 0.07
54 34 0.48
55 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (51 bp):
CAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGACCAAC
Found at i:31933578 original size:8 final size:8
Alignment explanation
Indices: 31933563--31933599 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
31933553 AAAATACCGA
31933563 CTTTTCGG
1 CTTTTCGG
*
31933571 CATTTCGG
1 CTTTTCGG
*
31933579 CTTTTCAG
1 CTTTTCGG
31933587 CTTTTCGG
1 CTTTTCGG
31933595 CTTTT
1 CTTTT
31933600 GCCAATCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:31934852 original size:52 final size:52
Alignment explanation
Indices: 31934774--31934881 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
31934764 TGAAATGTCC
31934774 ATCATGGAACATTTACCTAAACTATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACTATTATCATGGAACATTTACCTAACCCATT
* ** *
31934826 ATCATGGAATATTTACCTAGTCTATTATCATGGAACATTTACCTGACCCATT
1 ATCATGGAACATTTACCTAAACTATTATCATGGAACATTTACCTAACCCATT
31934878 ATCA
1 ATCA
31934882 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACTATTATCATGGAACATTTACCTAACCCATT
Found at i:31934878 original size:26 final size:26
Alignment explanation
Indices: 31934774--31934881 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
31934764 TGAAATGTCC
* *
31934774 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
31934800 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* ** *
31934826 ATCATGGAATATTTACCTAGTCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
31934852 ATCATGGAACATTTACCTGACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31934878 ATCA
1 ATCA
31934882 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31940174 original size:27 final size:27
Alignment explanation
Indices: 31940130--31940283 Score: 118
Period size: 27 Copynumber: 5.7 Consensus size: 27
31940120 GGCTGCCAGA
* * *
31940130 TATTGTGACGGAGTCACCAGATACAGT
1 TATTGTGGCAGAGCCACCAGATACAGT
**
31940157 TATTGTGGCAGAGCCACCAGA-ACAAA
1 TATTGTGGCAGAGCCACCAGATACAGT
*
31940183 TATGTGTGGCAGAGCTACCAGAT-CAGAT
1 TAT-TGTGGCAGAGCCACCAGATACAG-T
* * * *
31940211 AATTGTGGCATAGCCACCA-AGACAGA
1 TATTGTGGCAGAGCCACCAGATACAGT
*
31940237 TATATGTGGTAGAGCCACCAGAT-CAGAT
1 TAT-TGTGGCAGAGCCACCAGATACAG-T
* * *
31940265 AATTGTGGGATAGCCACCA
1 TATTGTGGCAGAGCCACCA
31940284 AAACGCTTCC
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
26 9 0.09
27 85 0.86
28 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
TATTGTGGCAGAGCCACCAGATACAGT
Found at i:31940227 original size:54 final size:54
Alignment explanation
Indices: 31940144--31940284 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 54
31940134 GTGACGGAGT
* * *
31940144 CACCAGATACAG-TTATTGTGGCAGAGCCACC-AGAACAAATATGTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAAG-ACAAATATATGTGGCAGAGC
* * *
31940198 TACCAGATCAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAAATATATGTGGCAGAGC
*
31940252 CACCAGATCAGATAATTGTGGGATAGCCACCAA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAA
31940285 AACGCTTCCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.04
54 72 0.94
55 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAAATATATGTGGCAGAGC
Found at i:31941935 original size:26 final size:26
Alignment explanation
Indices: 31941906--31942013 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
31941896 TGAAATGCCC
31941906 ATCATGGAACATTTACCTGAA-CCATT
1 ATCATGGAACATTTACCT-AACCCATT
31941932 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
31941958 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
31941984 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31942010 ATCA
1 ATCA
31942014 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31972324 original size:19 final size:19
Alignment explanation
Indices: 31972296--31972344 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
31972286 GAGATAAAAA
*
31972296 TTTAAAAATTAAAATATAT
1 TTTAAGAATTAAAATATAT
31972315 TTTAAGAATTAAAATATAT
1 TTTAAGAATTAAAATATAT
31972334 TTTAAGTAATT
1 TTTAAG-AATT
31972345 TTTGTAGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTAAGAATTAAAATATAT
Found at i:31976784 original size:2 final size:2
Alignment explanation
Indices: 31976777--31976801 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31976767 ACTTTGAAAC
31976777 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31976802 TATTCTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31978222 original size:66 final size:63
Alignment explanation
Indices: 31978123--31978246 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 63
31978113 CAAATAATGG
* *
31978123 TAATTAATAATAAAACTCACATTATTTTAATATTAATAGTGATTATGTGTTAGAACAATTAGGA
1 TAATTAATAATAAAACTCACATTATTTTAATATTAATAGTGATGATGTGTCA-AACAATTAGGA
*
31978187 TAATTAATAATAAAAC-CGATACATTATTTTAATATTAATAGTGGTGATGTGTCAAACAAT
1 TAATTAATAATAAAACTC---ACATTATTTTAATATTAATAGTGATGATGTGTCAAACAAT
31978247 AAGGGTATTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
63 1 0.02
64 16 0.30
65 6 0.11
66 31 0.57
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (63 bp):
TAATTAATAATAAAACTCACATTATTTTAATATTAATAGTGATGATGTGTCAAACAATTAGGA
Found at i:31978839 original size:2 final size:2
Alignment explanation
Indices: 31978832--31978869 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
31978822 GCATCCTTGT
31978832 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31978870 TAATTATTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31982047 original size:20 final size:20
Alignment explanation
Indices: 31982022--31982074 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
31982012 AACTTTATGT
31982022 AGGTATTGATACCTATGCC-A
1 AGGTATTGATACCT-TGCCTA
*
31982042 AGGTATTGATACCTTGCCTT
1 AGGTATTGATACCTTGCCTA
*
31982062 AGGTACTGATACC
1 AGGTATTGATACC
31982075 AAAGTATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
AGGTATTGATACCTTGCCTA
Found at i:31984272 original size:30 final size:30
Alignment explanation
Indices: 31984232--31984294 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
31984222 CAGGGATTGT
*
31984232 ATTAAATTAATCCTTTT-TATTA-TAAAATAA
1 ATTAAATTAAT--TTTTATATTATTAAAAAAA
*
31984262 ATTAATTTAATTTTTATATTATTAAAAAAA
1 ATTAAATTAATTTTTATATTATTAAAAAAA
31984292 ATT
1 ATT
31984295 GAATAATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 5 0.17
30 20 0.69
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTAAATTAATTTTTATATTATTAAAAAAA
Found at i:31984423 original size:3 final size:3
Alignment explanation
Indices: 31984415--31984473 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
31984405 GAAAACATAT
31984415 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31984463 ATA ATA ATA AT
1 ATA ATA ATA AT
31984474 TTAAGGTAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:31984826 original size:29 final size:29
Alignment explanation
Indices: 31984761--31984823 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
31984751 TTTGTATTTG
*
31984761 GAATTTAATTTTTATATTTTTATTTTTAA
1 GAATTTAATTTTTATATTTTTATATTTAA
*
31984790 GAATTTAATTTTT-TATTTTTCTAATTTAA
1 GAATTTAATTTTTATATTTTTAT-ATTTAA
31984819 -AATTT
1 GAATTT
31984824 TAAGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (29 bp):
GAATTTAATTTTTATATTTTTATATTTAA
Found at i:31992560 original size:26 final size:24
Alignment explanation
Indices: 31992530--31992579 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
31992520 AAATAAAAAA
*
31992530 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
31992556 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
31992580 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:31992591 original size:22 final size:21
Alignment explanation
Indices: 31992558--31992608 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
31992548 TCAAATATAT
*
31992558 TTAAAA-ACATAAAAACAAATA
1 TTAAAACAAATAAAAACAAA-A
**
31992579 TTAAAACAAATAAAAATGAAA
1 TTAAAACAAATAAAAACAAAA
31992600 TTAAAACAA
1 TTAAAACAA
31992609 TTCTTAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.20
Consensus pattern (21 bp):
TTAAAACAAATAAAAACAAAA
Found at i:31998964 original size:40 final size:39
Alignment explanation
Indices: 31998911--31999144 Score: 117
Period size: 39 Copynumber: 5.9 Consensus size: 39
31998901 GAATTCAATC
* *
31998911 ACCAACACAAAGCCTACGGGACTTTAAGCCCAGATATAGT
1 ACCAACACGAAGCCTAC-GGACCTTAAGCCCAGATATAGT
* * * **
31998951 ACCAATACGAAGCCTGCGGACCTTAAGTCTGGATATAGT
1 ACCAACACGAAGCCTACGGACCTTAAGCCCAGATATAGT
* * * * * * *
31998990 ACCAGCACGAAGCCTGCGAATCTTAAGTCCGGATACAGT
1 ACCAACACGAAGCCTACGGACCTTAAGCCCAGATATAGT
* * * * * * * * *
31999029 TCCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGATACAAT
1 ACCAACACGAAGCCTAC-GGACCTTAAGCCCAGATATAGT
* * * * * * * *
31999069 TCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAAT
1 ACCAACACGAAGCCTACGGACCTTAAGCCCAGATATAGT
* * * * * *
31999108 TCGAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACCAACACGAAGCCTACGGACCTTAAGCCCAGATATA
31999145 CATCAAATAT
Statistics
Matches: 166, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
39 119 0.72
40 47 0.28
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (39 bp):
ACCAACACGAAGCCTACGGACCTTAAGCCCAGATATAGT
Found at i:31998987 original size:39 final size:39
Alignment explanation
Indices: 31998957--31999142 Score: 246
Period size: 39 Copynumber: 4.7 Consensus size: 39
31998947 TAGTACCAAT
* * *
31998957 ACGAAGCCTGCGGACCTTAAGTCTGGATATAGTACCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
* *
31998996 ACGAAGCCTGCGAATCTTAAGTCCGGATACAGTTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
* * * * *
31999035 ATGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGC
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATACAGTTCCAGC
* * *
31999075 ATGAAGCCTGCGGACCTTAAGTCCGGATACAATTCGAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
31999114 ACGAAGCCTGCGGACCTTAAGTCCGGATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATA
31999143 TACATCAAAT
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
39 96 0.74
40 33 0.26
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (39 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
Found at i:31999064 original size:79 final size:78
Alignment explanation
Indices: 31998957--31999144 Score: 250
Period size: 79 Copynumber: 2.4 Consensus size: 78
31998947 TAGTACCAAT
* * *
31998957 ACGAAGCCTGCGGACCTTAAGTCTGGATATAGTACCAGCACGAAGCCTGCGAATCTTAAGTCCGG
1 ACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGAACCTTAAGTCCGG
*
31999022 ATACAGTTCCAGC
66 ATACAATTCCAGC
* * * * * * * *
31999035 ATGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCG
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGAACCTTAAGTCCG
*
31999100 GATACAATTCGAGC
65 GATACAATTCCAGC
31999114 ACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATATA
31999145 CATCAAATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 26 0.29
79 65 0.71
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (78 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGAACCTTAAGTCCGG
ATACAATTCCAGC
Found at i:31999204 original size:24 final size:24
Alignment explanation
Indices: 31999177--31999225 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31999167 ATCATATATT
31999177 AACACATCTCATTTAACATATCAC
1 AACACATCTCATTTAACATATCAC
31999201 AACACATCTCATTTAACATATCAC
1 AACACATCTCATTTAACATATCAC
31999225 A
1 A
31999226 TTAGTAGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (24 bp):
AACACATCTCATTTAACATATCAC
Found at i:31999902 original size:48 final size:48
Alignment explanation
Indices: 31999850--32000010 Score: 214
Period size: 48 Copynumber: 3.4 Consensus size: 48
31999840 CCATGTTAAC
* * ** * * * * *
31999850 CCGCACATATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAAT
* *
31999898 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAAT
31999946 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAAT
*
31999994 TCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
32000011 AAATCATTTC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.22
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAAT
Found at i:31999922 original size:24 final size:24
Alignment explanation
Indices: 31999895--32000010 Score: 205
Period size: 24 Copynumber: 4.8 Consensus size: 24
31999885 TTGACATTCC
31999895 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
31999919 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
31999943 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
31999967 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
31999991 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
32000011 AAATCATTTC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 90 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:32001208 original size:17 final size:17
Alignment explanation
Indices: 32001186--32001219 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32001176 CCCCACTTAA
*
32001186 TATATTATAACTTATTT
1 TATATTATAACATATTT
32001203 TATATTATAACATATTT
1 TATATTATAACATATTT
32001220 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:32004447 original size:19 final size:19
Alignment explanation
Indices: 32004404--32004446 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
32004394 GGTTGTTTTC
32004404 CCTTTTGATTCATAGCCTT
1 CCTTTTGATTCATAGCCTT
*
32004423 CCTTTTGATTCGTAGCCTT
1 CCTTTTGATTCATAGCCTT
32004442 -CTTTT
1 CCTTTT
32004447 TTATCTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.51
Consensus pattern (19 bp):
CCTTTTGATTCATAGCCTT
Found at i:32017700 original size:50 final size:50
Alignment explanation
Indices: 32017631--32017765 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 50
32017621 GCAGATGTAA
* * *
32017631 AGCCTACGAGCTTAGCACTTGGTGCCTAGGTATGTTTTTAGAGGGATGTT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
* * * *
32017681 AGCCTACGGGCTTGGCACTTGGTACTTAGGCGTGTCTTTAGAGGGATGTT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
* * * *
32017731 AGTCTACGGGCTAAGCACTTGGTGCCCAAGCATGT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGT
32017766 TCTTGGTTAG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (50 bp):
AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
Done.