Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004352.1 Hibiscus syriacus cultivar Beakdansim tig00009538_pilon, whole genome shotgun sequence
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: 109603
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5549 original size:32 final size:32
Alignment explanation
Indices: 5508--5571 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
5498 AAAAACTGTA
* *
5508 TTTTTTGTTCAGGAATCAATGTTGGAATAGTG
1 TTTTTTGTTCAAGAATCAATGTTGGAAGAGTG
5540 TTTTTTGTTCAAGAATCAATGTTGGAAGAGTG
1 TTTTTTGTTCAAGAATCAATGTTGGAAGAGTG
5572 GTCATGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (32 bp):
TTTTTTGTTCAAGAATCAATGTTGGAAGAGTG
Found at i:14684 original size:2 final size:2
Alignment explanation
Indices: 14677--14737 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
14667 GATCTGATTC
14677 AT AT AT AT AT AT 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
14719 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
14738 AGTAAAATAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15234 original size:43 final size:43
Alignment explanation
Indices: 15183--15264 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
15173 CACTTTTTAT
* * *
15183 CTTTATAATTGAAGTCTCTAATTTTTTCAATTCCATTTTTTGC
1 CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTTTTGC
* *
15226 CTTTATAATCGAGGCCTCTAATTTTTTTAATTACATTTT
1 CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTT
15265 AAAATTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.52
Consensus pattern (43 bp):
CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTTTTGC
Found at i:15321 original size:44 final size:43
Alignment explanation
Indices: 15270--15466 Score: 174
Period size: 44 Copynumber: 4.6 Consensus size: 43
15260 ATTTTAAAAT
*
15270 TTTATAATTGAGACTCCTAAATTATTTT-AATCTTACTTTCTACC
1 TTTATAATTGAGAC-CCTAAATT-TTTTCAATCTCACTTTCTACC
* * * *
15314 TTCATAATTGA-TCCCT-AGTTTTTT-AATCTCACTTTTTACC
1 TTTATAATTGAGACCCTAAATTTTTTCAATCTCACTTTCTACC
* * * * * *
15354 TTTACAACTGAGGCCC--AATCATTTTCAATCTTACTTTCTACT
1 TTTATAATTGAGACCCTAAAT-TTTTTCAATCTCACTTTCTACC
* * *
15396 TTTATAATTAAGTCCCATAAGTTTTTTCAATCTCACTTTCTACC
1 TTTATAATTGAGACCC-TAAATTTTTTCAATCTCACTTTCTACC
15440 TTTATAATTGAGACCCCT-AATTTTTTC
1 TTTATAATTGAGA-CCCTAAATTTTTTC
15467 TGTTTCATAA
Statistics
Matches: 121, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
40 28 0.23
41 10 0.08
42 28 0.23
43 9 0.07
44 41 0.34
45 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (43 bp):
TTTATAATTGAGACCCTAAATTTTTTCAATCTCACTTTCTACC
Found at i:15351 original size:86 final size:87
Alignment explanation
Indices: 15270--15455 Score: 240
Period size: 86 Copynumber: 2.2 Consensus size: 87
15260 ATTTTAAAAT
* *
15270 TTTATAATTGAGACTCCTAAATTATTTT-AATCTTACTTTCTACCTTCATAATTGA-TCCC-T-A
1 TTTATAATTGAGAC-CCTAAATCATTTTCAATCTTACTTTCTACCTTCATAATTAAGTCCCATAA
15331 GTTTTTTAATCTCACTTTTTACC
65 GTTTTTTAATCTCACTTTTTACC
* * * * *
15354 TTTACAACTGAGGCCC--AATCATTTTCAATCTTACTTTCTACTTTTATAATTAAGTCCCATAAG
1 TTTATAATTGAGACCCTAAATCATTTTCAATCTTACTTTCTACCTTCATAATTAAGTCCCATAAG
*
15417 TTTTTTCAATCTCACTTTCTACC
66 TTTTTT-AATCTCACTTTTTACC
15440 TTTATAATTGAGACCC
1 TTTATAATTGAGACCC
15456 CTAATTTTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
81 8 0.09
82 24 0.28
83 6 0.07
84 12 0.14
85 8 0.09
86 28 0.33
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.45
Consensus pattern (87 bp):
TTTATAATTGAGACCCTAAATCATTTTCAATCTTACTTTCTACCTTCATAATTAAGTCCCATAAG
TTTTTTAATCTCACTTTTTACC
Found at i:16229 original size:2 final size:2
Alignment explanation
Indices: 16224--16284 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
16214 TTATGTTAAA
16224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16265 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
16285 CAAATATAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16968 original size:16 final size:16
Alignment explanation
Indices: 16947--16990 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
16937 TTATTTTTAT
16947 ATATCATAAATATTAA
1 ATATCATAAATATTAA
16963 ATATCATAAA-ATTAA
1 ATATCATAAATATTAA
16978 A-AT-ATAAATATTA
1 ATATCATAAATATTA
16991 TAAGTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 6 0.22
16 10 0.37
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATCATAAATATTAA
Found at i:32599 original size:54 final size:54
Alignment explanation
Indices: 32507--32729 Score: 263
Period size: 54 Copynumber: 4.1 Consensus size: 54
32497 TCTGAATGAC
** * *
32507 TTTGTTTCAGAGAGGTTGGTGACGGTTCAGGCAAAACAGATAATTGGA-GATGAT
1 TTTGTTTCAGAGAACTTGGTGACGGTTCTGGCAAAACAGATAATTGGACCA-GAT
** * * *
32561 TTTGTTTTGGAGAAGTTGGTGACGGTTCTGGCATAACAGATAATTGGATCAGAT
1 TTTGTTTCAGAGAACTTGGTGACGGTTCTGGCAAAACAGATAATTGGACCAGAT
* * *
32615 TTTGTTTCAGAGAACTTGGTGATGGTTCTGGCAAAACAGATTCA-TGGACCGGAT
1 TTTGTTTCAGAGAACTTGGTGACGGTTCTGGCAAAACAGA-TAATTGGACCAGAT
* * *
32669 TTTGTTTCAGAAAACTTGGTGATGGTTCTGGCAAAACAGAT-TTGTGGACCAGAT
1 TTTGTTTCAGAGAACTTGGTGACGGTTCTGGCAAAACAGATAAT-TGGACCAGAT
32723 TTTGTTT
1 TTTGTTT
32730 TGGAGATTCT
Statistics
Matches: 148, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 144 0.97
55 3 0.02
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (54 bp):
TTTGTTTCAGAGAACTTGGTGACGGTTCTGGCAAAACAGATAATTGGACCAGAT
Found at i:34548 original size:42 final size:42
Alignment explanation
Indices: 34501--34584 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
34491 CCTAATGCTT
*
34501 ATTTTTATTTTAATTTAATACCCGTCATTAAAAATTCGACGC
1 ATTTTTATTTTAATTTAATACCCGTCATTAAAAACTCGACGC
34543 ATTTTTATTTTAATTTAATACCCGTCATTAAAAACTCGACGC
1 ATTTTTATTTTAATTTAATACCCGTCATTAAAAACTCGACGC
34585 GTTTAGTACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (42 bp):
ATTTTTATTTTAATTTAATACCCGTCATTAAAAACTCGACGC
Found at i:40644 original size:33 final size:33
Alignment explanation
Indices: 40606--40672 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
40596 TTTTATTTTG
*
40606 ATTTTA-CACACCTCATTTTTTATGATTAATTAT
1 ATTTTATCAC-CCTCATTTTTGATGATTAATTAT
** *
40639 ATTTTATTTCCCTTATTTTTGATGATTAATTAT
1 ATTTTATCACCCTCATTTTTGATGATTAATTAT
40672 A
1 A
40673 ATTTGTCCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.55
Consensus pattern (33 bp):
ATTTTATCACCCTCATTTTTGATGATTAATTAT
Found at i:48230 original size:2 final size:2
Alignment explanation
Indices: 48223--48257 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
48213 TTTAAATTTG
*
48223 AT AT AT AT AT AT AT AC 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 A
48258 AATCAAGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:48862 original size:6 final size:6
Alignment explanation
Indices: 48834--48885 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
48824 AATAATTTTG
* * * *
48834 AAAATA GAAGTA AAAATA TAAATA AAAATA AAAATA ATAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
48882 AAAA
1 AAAA
48886 ATAGATTAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:49641 original size:3 final size:3
Alignment explanation
Indices: 49633--49669 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49623 TCAAATCCCA
49633 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49670 TGTTTATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50590 original size:139 final size:139
Alignment explanation
Indices: 50413--50667 Score: 492
Period size: 139 Copynumber: 1.8 Consensus size: 139
50403 AGATTTAATG
*
50413 TCTAAACTATATTTTTTGTGTTGAATAGGTGTCTACGGTATTTTTTGACATATTCATGTGCCTAA
1 TCTAAACTATATTTTTTGTGTTGAATAGGTGTCTACGGTATTTTTTGACACATTCATGTGCCTAA
50478 TGTTATAAACGTGATCACTTTAAGTGCTCGAGATGTCAACGACATTAATTTAAGGTTTAATGTTT
66 TGTTATAAACGTGATCACTTTAAGTGCTCGAGATGTCAACGACATTAATTTAAGGTTTAATGTTT
50543 AAATAAATA
131 AAATAAATA
*
50552 TCTAAACTATATTTTTTGTGTTGAATAGGTGTCTACGGTATTTTTTGACACATTCATGTGCTTAA
1 TCTAAACTATATTTTTTGTGTTGAATAGGTGTCTACGGTATTTTTTGACACATTCATGTGCCTAA
50617 TGTTATAAACGTGATCACTTTAAGTGCTCGAGATGTCAACGACATTAATTT
66 TGTTATAAACGTGATCACTTTAAGTGCTCGAGATGTCAACGACATTAATTT
50668 CCTTCGATAA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 114 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (139 bp):
TCTAAACTATATTTTTTGTGTTGAATAGGTGTCTACGGTATTTTTTGACACATTCATGTGCCTAA
TGTTATAAACGTGATCACTTTAAGTGCTCGAGATGTCAACGACATTAATTTAAGGTTTAATGTTT
AAATAAATA
Found at i:51547 original size:20 final size:20
Alignment explanation
Indices: 51522--51596 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
51512 GCGAAATAAA
51522 AATCGCAACGCGATCTCAAG
1 AATCGCAACGCGATCTCAAG
** * *
51542 AATCGCAAATCAGTTC-CTAG
1 AATCGCAACGC-GATCTCAAG
* *
51562 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGA-TCTCAAG
*
51583 AATCGCAATGCGAT
1 AATCGCAACGCGAT
51597 AGTACAAATT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 1 0.02
20 23 0.56
21 17 0.41
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGATCTCAAG
Found at i:51586 original size:21 final size:21
Alignment explanation
Indices: 51560--51657 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
51550 ATCAGTTCCT
51560 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
*
51581 AGAATCGCAATGCGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
51601 CA-AATTCGCATTGCGATTTTCC
1 -AGAA-TCGCAACGCGATTATGA
*
51623 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
51644 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
51658 ACATATAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.30
21 38 0.63
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:51650 original size:20 final size:20
Alignment explanation
Indices: 51625--51880 Score: 110
Period size: 20 Copynumber: 12.7 Consensus size: 20
51615 GATTTTCCAG
51625 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
51645 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * * *
51665 AATCGTAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * *
51685 TATCGCAACGAGTATCCAT-AA
1 AATCGCAACGCGAAT--ATGAA
* * * * *
51706 AATCACAACGTGTATTTGTA
1 AATCGCAACGCGAATATGAA
*
51726 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* *
51747 AATCGCAATGC--ATATCCGTA
1 AATCGCAACGCGAATAT--GAA
* * * *
51767 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
51787 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATATGAA
* * *
51807 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
*
51827 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* ** *
51848 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
51868 AATCGCAACGCGA
1 AATCGCAACGCGA
51881 TCGATAATTT
Statistics
Matches: 176, Mismatches: 46, Indels: 28
0.70 0.18 0.11
Matches are distributed among these distances:
19 5 0.03
20 127 0.72
21 40 0.23
22 4 0.02
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:51731 original size:41 final size:41
Alignment explanation
Indices: 51625--51879 Score: 195
Period size: 41 Copynumber: 6.3 Consensus size: 41
51615 GATTTTCCAG
* * * * *
51625 AATCGCAACGCGAATATGAAAATCGCAACGCG-A-ACATATA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTA-A
* * * * *
51665 AATCGTAACGCG-ATTCTG-ACTATCGCAACGAGTATCCATAA
1 AATCGCAACGCGTA-TCTGTA-AATCGCAACGAGAATACGTAA
* * * *
51706 AATCACAACGTGTATTTGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
* * * *
51747 AATCGCAATGCATATCCGTAAATCACAACGAGAATACGT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
51787 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
* * * *
51827 AATCGCAACGAC-AATAC-GTAAAATCGCAACGCGTATCCGT-A
1 AATCGCAACG-CGTAT-CTGT-AAATCGCAACGAGAATACGTAA
51868 AATCGCAACGCG
1 AATCGCAACGCG
51880 ATCGATAATT
Statistics
Matches: 175, Mismatches: 30, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
39 2 0.01
40 76 0.43
41 91 0.52
42 6 0.03
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
Found at i:51808 original size:61 final size:61
Alignment explanation
Indices: 51763--51877 Score: 196
Period size: 61 Copynumber: 1.9 Consensus size: 61
51753 AATGCATATC
* *
51763 CGTAAATCACAACGAGAATACGT-AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATA
1 CGTAAATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATA
*
51823 CGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 CGTAAATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
51878 CGATCGATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 21 0.41
61 30 0.59
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.17
Consensus pattern (61 bp):
CGTAAATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATA
Found at i:51851 original size:81 final size:81
Alignment explanation
Indices: 51705--51879 Score: 228
Period size: 81 Copynumber: 2.2 Consensus size: 81
51695 AGTATCCATA
* * * * *
51705 AAATCACAACGTGTATTTGTAAATCGCAACGACAATACGTAAAATCGCAATGCATATCCGTAAAT
1 AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACGTAAAATCGCAACGCATATACGTAAAT
51770 CACAACGAGAATACGT
66 CACAACGAGAATACGT
*
51786 AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-AAATCGCAACGACA-ATACGTAAA
1 AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACGTAAAATCGCAACG-CATATACGT-AA
* * * *
51849 ATCGCAACGCGTATCCGT
64 ATCACAACGAGAATACGT
51867 AAATCGCAACGCG
1 AAATCGCAACGCG
51880 ATCGATAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
80 15 0.18
81 67 0.82
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (81 bp):
AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACGTAAAATCGCAACGCATATACGTAAAT
CACAACGAGAATACGT
Found at i:51978 original size:21 final size:21
Alignment explanation
Indices: 51949--52001 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51939 ATTCTGACTA
51949 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
51970 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
51991 TCGCAATGCGA
1 TCGCATTGCGA
52002 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:52016 original size:20 final size:20
Alignment explanation
Indices: 51991--52056 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
51981 TTTTCCTAAT
51991 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
52011 TCGCAACGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
52031 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
52051 TCGCAA
1 TCGCAA
52057 CGAGATTCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:52066 original size:20 final size:20
Alignment explanation
Indices: 52006--52066 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
51996 ATGCGAATAC
* *
52006 GTAAATCGCAACGCAAATAC-
1 GTAAATCGCAACG-AGATTCT
* * *
52026 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGATTCT
52046 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGATTCT
52066 G
1 G
52067 ACTATCGCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
GTAAATCGCAACGAGATTCT
Found at i:52969 original size:24 final size:24
Alignment explanation
Indices: 52918--52971 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
52908 GTATTCAAAA
*
52918 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
52942 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
52966 TTTGAT
1 TTTGAT
52972 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:55433 original size:20 final size:21
Alignment explanation
Indices: 55408--55496 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 21
55398 CAACGTGGAA
55408 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCAGAATATGACT
** *
55428 ATCGCAATAC-GAAAATGACT
1 ATCGCAACGCAGAATATGACT
*
55448 ATCGCAATGCAGAAT-TGACT
1 ATCGCAACGCAGAATATGACT
*
55468 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCAGAATATGACT
55488 ATCGCAACG
1 ATCGCAACG
55497 ATTTTCATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCAGAATATGACT
Found at i:55467 original size:40 final size:40
Alignment explanation
Indices: 55408--55496 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
55398 CAACGTGGAA
*
55408 ATCGCAACGCGAATATGACTATCGCAATACGAAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACGAAAATGACT
* * *
55448 ATCGCAATGCAGAAT-TGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACGAAAATGACT
55488 ATCGCAACG
1 ATCGCAACG
55497 ATTTTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGAAAATGACT
Found at i:55532 original size:34 final size:34
Alignment explanation
Indices: 55494--55585 Score: 114
Period size: 33 Copynumber: 2.7 Consensus size: 34
55484 GACTATCGCA
55494 ACGATTTTCATTTTCGCATTGCGATTCACTCGTT
1 ACGATTTTCATTTTCGCATTGCGATTCACTCGTT
* *
55528 ACGATTTTCA-TTTCGCATTGCGATTCTCTTGTT
1 ACGATTTTCATTTTCGCATTGCGATTCACTCGTT
* ** * *
55561 GCGATAGTCATTTCCGCGTTGCGAT
1 ACGATTTTCATTTTCGCATTGCGAT
55586 AGTCTGTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 28 0.56
34 22 0.44
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.42
Consensus pattern (34 bp):
ACGATTTTCATTTTCGCATTGCGATTCACTCGTT
Found at i:55706 original size:14 final size:14
Alignment explanation
Indices: 55687--55723 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
55677 CATCAATTAA
55687 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
55701 ACAAATCATCTTTT
1 ACAAATCAACATTT
55715 ACAAATCAA
1 ACAAATCAA
55724 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:57185 original size:42 final size:42
Alignment explanation
Indices: 57078--57189 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
57068 TCTAAAATGT
* * *
57078 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
57120 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
*
57162 TAGGG-GATGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
57190 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:57692 original size:20 final size:20
Alignment explanation
Indices: 57669--57737 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
57659 GAAACTTAAA
57669 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
57689 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
57709 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
57729 ATCGCAACG
1 ATCGCAACG
57738 AGAGAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:57793 original size:19 final size:19
Alignment explanation
Indices: 57771--57813 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57761 AATCGCAACG
57771 CGATTATAGTTTCGCGTTA
1 CGATTATAGTTTCGCGTTA
* * *
57790 CGATTTTGGTTTCGCGTTG
1 CGATTATAGTTTCGCGTTA
57809 CGATT
1 CGATT
57814 TTGTTGTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (19 bp):
CGATTATAGTTTCGCGTTA
Found at i:57814 original size:19 final size:19
Alignment explanation
Indices: 57780--57905 Score: 122
Period size: 19 Copynumber: 6.9 Consensus size: 19
57770 GCGATTATAG
* **
57780 TTTCGCGTTACGATTTTGG
1 TTTCGCGTTGCGATTTTCA
57799 TTTCGCGTTGCGATTTT--
1 TTTCGCGTTGCGATTTTCA
*
57816 GTT---GTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
57832 TTTCGCGTTGCGATTTTTA
1 TTTCGCGTTGCGATTTTCA
*
57851 TTTCTCGTTGCGA--TTCA
1 TTTCGCGTTGCGATTTTCA
57868 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
57887 TTTTTCACGTTGCGATTTT
1 --TTTCGCGTTGCGATTTT
57906 AAGTTTCATG
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.12
16 2 0.02
17 17 0.19
19 44 0.49
21 16 0.18
ACGTcount: A:0.10, C:0.17, G:0.21, T:0.51
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:57836 original size:33 final size:35
Alignment explanation
Indices: 57785--57884 Score: 109
Period size: 33 Copynumber: 2.9 Consensus size: 35
57775 TATAGTTTCG
* **
57785 CGTTACGATTTTGGTTTCGCGTTGCGATTTTGT-T
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTTGTCT
*
57819 -GTTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGA--TTT-TGTCT
57856 CGTTGCGA--TTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
57885 CATTTTTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
33 24 0.42
34 3 0.05
35 3 0.05
36 19 0.33
37 1 0.02
38 7 0.12
ACGTcount: A:0.10, C:0.17, G:0.23, T:0.50
Consensus pattern (35 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTGTCT
Found at i:57848 original size:52 final size:54
Alignment explanation
Indices: 57780--57905 Score: 141
Period size: 52 Copynumber: 2.3 Consensus size: 54
57770 GCGATTATAG
* * *
57780 TTTCGCGTTACGATTTTGGTTTCGCGTTGCGATT-TTGT-TGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTGATTTCGCGTTGCGATTATT-TCCGTTGCGATTTTCAT
* *
57832 TTTCGCGTTGCGATTTTTATTTCTCGTTGCGATTCATTTCGCGTTGCGATTTTCATT
1 TTTCGCGTTGCGATTTTGATTTCGCGTTGCGATT-ATTTC-CGTTGCGATTTTCA-T
*
57889 TTTCACGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
57906 AAGTTTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
52 30 0.48
53 1 0.02
54 2 0.03
55 13 0.21
57 16 0.26
ACGTcount: A:0.10, C:0.17, G:0.21, T:0.51
Consensus pattern (54 bp):
TTTCGCGTTGCGATTTTGATTTCGCGTTGCGATTATTTCCGTTGCGATTTTCAT
Found at i:57876 original size:17 final size:17
Alignment explanation
Indices: 57828--57882 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
57818 TGTTGCGATT
57828 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
* *
57845 TTTTTATTTCTCGTTGCGA
1 --TTCATTTCGCGTTGCGA
57864 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
57881 TT
1 TT
57883 TTCATTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 17 0.53
19 15 0.47
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.49
Consensus pattern (17 bp):
TTCATTTCGCGTTGCGA
Found at i:57918 original size:20 final size:21
Alignment explanation
Indices: 57819--57921 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 21
57809 CGATTTTGTT
*
57819 GTTGCGATTTTC-A-TTTCGC
1 GTTGCGATTTTCAAGTTTCAC
* *
57838 GTTGCGATTTT-TA-TTTCTC
1 GTTGCGATTTTCAAGTTTCAC
*
57857 GTTGCGA--TTC-A-TTTCGC
1 GTTGCGATTTTCAAGTTTCAC
**
57874 GTTGCGATTTTCATTTTTCAC
1 GTTGCGATTTTCAAGTTTCAC
*
57895 GTTGCGATTTT-AAGTTTCAT
1 GTTGCGATTTTCAAGTTTCAC
57915 GTTGCGA
1 GTTGCGA
57922 AAGTAAACTA
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
17 15 0.21
19 27 0.38
20 13 0.18
21 16 0.23
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (21 bp):
GTTGCGATTTTCAAGTTTCAC
Found at i:58115 original size:94 final size:94
Alignment explanation
Indices: 57969--58348 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
57959 ATGGATTGCA
* * *
57969 TTAC-TTCAACCAAAAGACAAAACAAAGACAATTACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
58033 TTAGCAGAATTGGTAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
*
58062 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
58127 TTAGCAGAATTGGTAGTAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
58156 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
58221 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
*
58250 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
*
58314 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAATAAAT
58344 TTACT
1 TTACT
58349 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
93 23 0.08
94 250 0.92
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:60080 original size:20 final size:20
Alignment explanation
Indices: 60057--60108 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
60047 ATGAAAATCA
60057 CAACGAGAGAATGACTATCG
1 CAACGAGAGAATGACTATCG
*
60077 CAACGCG-GAAATGACTATCG
1 CAACGAGAG-AATGACTATCG
60097 CAACGAGAGAAT
1 CAACGAGAGAAT
60109 CGCAACGCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.13
Consensus pattern (20 bp):
CAACGAGAGAATGACTATCG
Found at i:60088 original size:40 final size:35
Alignment explanation
Indices: 60044--60198 Score: 169
Period size: 33 Copynumber: 4.5 Consensus size: 35
60034 TCTTTTGGTT
*
60044 GAAATGAAAATCACAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A-GA--ATCGCAACGC
**
60083 GGAAATGACTATCGCAAC--GAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
* *
60117 GAAATGAAAATCGCAAC--GAGATAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
*
60150 GAAATTAAAATCGCAAC--GAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
60183 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
60199 TGCGATTTTG
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
33 74 0.71
34 10 0.10
36 2 0.02
37 1 0.01
38 3 0.03
40 14 0.13
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
Found at i:60112 original size:14 final size:14
Alignment explanation
Indices: 60093--60186 Score: 53
Period size: 14 Copynumber: 6.0 Consensus size: 14
60083 GGAAATGACT
*
60093 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
60107 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
60126 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
60140 ATCGCAATGCGAAATTAAA
1 ATCGCAA--CG--A-GAAA
*
60159 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
*
60173 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
60187 TGAAAATCGC
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 31 0.50
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 19 0.31
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:60130 original size:33 final size:33
Alignment explanation
Indices: 60073--60198 Score: 198
Period size: 33 Copynumber: 3.8 Consensus size: 33
60063 GAGAATGACT
**
60073 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGA
*
60107 ATCGCAACGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
60140 ATCGCAATGCGAAATTAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
60173 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
60199 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 74 0.88
34 10 0.12
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:60249 original size:21 final size:20
Alignment explanation
Indices: 60230--60301 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
60220 CGATTCTCTC
*
60230 GTTGCGATTTTTATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
60250 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
60271 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
60291 GTTGCGATTTT
1 GTTGCGATTTT
60302 AAGTTTAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.12, C:0.15, G:0.19, T:0.53
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:60884 original size:20 final size:20
Alignment explanation
Indices: 60859--61092 Score: 187
Period size: 20 Copynumber: 11.6 Consensus size: 20
60849 CTTTAAAAAT
60859 CGCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACAGATA
60879 CGCGTTGCGATTTTAC-G-TA
1 CGCGTTGCGA-TTTACAGATA
* *
60898 TTGTCGTTGCGATTTACGGATA
1 -CG-CGTTGCGATTTACAGATA
* * *
60920 CGCATTGCAATTTAC-GTATT
1 CGCGTTGCGATTTACAG-ATA
*
60940 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACAGATA
*
60960 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACAGATA
*
60980 CGCATTGCGATTTTAC-G-TA
1 CGCGTTGCGA-TTTACAGATA
*
60999 TTGTCGTTGCGATTTACAGATA
1 -CG-CGTTGCGATTTACAGATA
*
61021 CGCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGAT-TTACAGATA
* *
61040 TCGCGTTGCGATTTATATG-TT
1 -CGCGTTGCGATTTACA-GATA
* * *
61061 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACAGATA
61081 CGCGTTGCGATT
1 CGCGTTGCGATT
61093 CTCGAAAATC
Statistics
Matches: 174, Mismatches: 22, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.04
20 131 0.75
21 32 0.18
22 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACAGATA
Found at i:60999 original size:61 final size:60
Alignment explanation
Indices: 60902--61031 Score: 233
Period size: 61 Copynumber: 2.1 Consensus size: 60
60892 TACGTATTGT
60902 CGTTGCGATTTACGGATACGCATTGCAATTTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACGCATTGCAATTTACGTATTCTCGTTGCGATTTACAGATACG
* *
60962 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACGCATTGC-AATTTACGTATTCTCGTTGCGATTTACAGATACG
61023 CGTTGCGAT
1 CGTTGCGAT
61032 AGTCAGAATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
60 26 0.39
61 41 0.61
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCAATTTACGTATTCTCGTTGCGATTTACAGATACG
Found at i:61014 original size:81 final size:80
Alignment explanation
Indices: 60859--61054 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 80
60849 CTTTAAAAAT
* * *
60859 CGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCA
1 CGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGGATCGTCATTGCGATTTACGGATACGCA
*
60924 TTGCAATTTAC-GTATT
65 TTGCAATTTACAG-ATA
* * *
60940 CTCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACG-CATTGCGATTTTACGTAT-TGT
1 CGCGTTGCGATTTACAGATACGCGTTGCGATTTACGGAT-CGTCATTGCGA-TTTACGGATACG-
* *
61003 CGTTGCGATTTACAGATA
63 CATTGCAATTTACAGATA
*
61021 CGCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTA
1 CGCGTTGCGAT-TTACAGATA-CGCGTTGCGATTTA
61055 TATGTTCGCG
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
80 17 0.17
81 79 0.81
82 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (80 bp):
CGCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATCGTCATTGCGATTTACGGATACGCAT
TGCAATTTACAGATA
Found at i:61047 original size:101 final size:101
Alignment explanation
Indices: 60859--61092 Score: 294
Period size: 101 Copynumber: 2.3 Consensus size: 101
60849 CTTTAAAAAT
* *
60859 CGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCA
1 CGCGTTGCGATTTACAGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCA
* * * *
60924 TTGCAATTTACGTATTCTCGTTGCGATTTACA-GATA
66 TTGCAAGTCACGTAATCGCGTTGCGATTTACATG-TA
* *
60960 CGCGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCG
1 CGCGTTGCGATTTACAGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCA
* *
61025 TTGCGATAGTCA-G-AATCGCGTTGCGATTTATATGTT
66 TTGC-A-AGTCACGTAATCGCGTTGCGATTTACATGTA
* * * *
61061 CGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTACAGATACGCATTGCGATT
61093 CTCGAAAATC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
101 109 0.95
102 3 0.03
103 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (101 bp):
CGCGTTGCGATTTACAGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCA
TTGCAAGTCACGTAATCGCGTTGCGATTTACATGTA
Found at i:61049 original size:61 final size:61
Alignment explanation
Indices: 60902--61098 Score: 215
Period size: 61 Copynumber: 3.3 Consensus size: 61
60892 TACGTATTGT
* * * *
60902 CGTTGCGATTTACGGATACGCATTGC-AATTTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTCACGAATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACG
* *
60962 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACG
1 CGTTGCGATTCACGAATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACG
* * * * * *
61023 CGTTGCGATAGTCA-GAAT-CGCGTTGCGATTTATATGT-TCG-CGTTGCGATTTTCATATTCG
1 CGTTGCGAT--TCACGAATACGCATTGCGATTT-TACGTATTGTCGTTGCGATTTACAGATACG
*
61083 CGTTGCGATTCTCGAA
1 CGTTGCGATTCACGAA
61099 AATCGCAACG
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
58 2 0.02
59 3 0.02
60 52 0.43
61 55 0.45
62 7 0.06
63 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (61 bp):
CGTTGCGATTCACGAATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACG
Found at i:61194 original size:20 final size:19
Alignment explanation
Indices: 61142--61195 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
61132 ATTCTTCATA
61142 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* ** *
61161 AACTGATTTACGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
61182 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
61196 TTTATTTCGC
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:63572 original size:15 final size:15
Alignment explanation
Indices: 63552--63580 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63542 ATACAATCGC
63552 CCAGAGGTGAAAGCG
1 CCAGAGGTGAAAGCG
63567 CCAGAGGTGAAAGC
1 CCAGAGGTGAAAGC
63581 AATAGAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.38, T:0.07
Consensus pattern (15 bp):
CCAGAGGTGAAAGCG
Found at i:64620 original size:16 final size:16
Alignment explanation
Indices: 64599--64645 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
64589 CATGACAACA
64599 TATCGACGACTAACTT
1 TATCGACGACTAACTT
*
64615 TAT---CGAC-AAC-A
1 TATCGACGACTAACTT
64626 TATCGACGACTAACTT
1 TATCGACGACTAACTT
64642 TATC
1 TATC
64646 TCAATTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
11 3 0.12
12 3 0.12
13 4 0.17
14 4 0.17
15 3 0.12
16 7 0.29
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (16 bp):
TATCGACGACTAACTT
Found at i:64622 original size:27 final size:27
Alignment explanation
Indices: 64592--64645 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
64582 AAAAGAACAT
64592 GACAACATATCGACGACTAACTTTATC
1 GACAACATATCGACGACTAACTTTATC
64619 GACAACATATCGACGACTAACTTTATC
1 GACAACATATCGACGACTAACTTTATC
64646 TCAATTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (27 bp):
GACAACATATCGACGACTAACTTTATC
Found at i:65142 original size:65 final size:66
Alignment explanation
Indices: 65037--65161 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 66
65027 TATTAAATTG
* * *
65037 GAATAATTAAAAGTTTAGGGACCAATTTAGAATGATGGTCATAGTTTAAGGATGAAATTAAACAA
1 GAATAATTAAAAGTTTAGGGACCAATTTAGAATGAGGGTCATAATTTAAGAATGAAATTAAACAA
65102 A
66 A
* * * *
65103 GAAT-ATTCAAAGTTTAGGGATCAATTTAGTATGAGGGTCATAATTTGAGAATGAAATTA
1 GAATAATTAAAAGTTTAGGGACCAATTTAGAATGAGGGTCATAATTTAAGAATGAAATTA
65162 GAATATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
65 48 0.92
66 4 0.08
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (66 bp):
GAATAATTAAAAGTTTAGGGACCAATTTAGAATGAGGGTCATAATTTAAGAATGAAATTAAACAA
A
Found at i:66970 original size:20 final size:19
Alignment explanation
Indices: 66928--66970 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
66918 GGTATTAACC
* *
66928 CTTTAGTATTGATAATTTG
1 CTTTAGTATAGATAATTTA
*
66947 CTTTAGGTATAGATACTTTA
1 CTTTA-GTATAGATAATTTA
66967 CTTT
1 CTTT
66971 TTTTTCAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (19 bp):
CTTTAGTATAGATAATTTA
Found at i:69210 original size:18 final size:18
Alignment explanation
Indices: 69187--69221 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
69177 CTGCAATCAC
*
69187 GACACCGCAACCGCGATG
1 GACACCACAACCGCGATG
69205 GACACCACAACCGCGAT
1 GACACCACAACCGCGAT
69222 TTAATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.40, G:0.23, T:0.06
Consensus pattern (18 bp):
GACACCACAACCGCGATG
Found at i:70415 original size:107 final size:107
Alignment explanation
Indices: 70293--70507 Score: 299
Period size: 107 Copynumber: 2.0 Consensus size: 107
70283 TAAGTTTTGA
* *
70293 AAAAATAGAAAGTTTAGGTACTAAAACGGACCAAAA-TAGATTGTTTAGATACTAAACGCGTTAA
1 AAAAATAGAAAGTTTAGGTACTAAAACGGACCAAAACTA-ATAGTTTAGATACTAAACGAGTTAA
* *
70357 GTTTTTAATGGCGGGTGCTAAAAT-GAAAACTAAACTAAACGTT
65 GTTTTTAATGGCGGGTACTAAAATAGAAAA-GAAACTAAACGTT
* * * * * *
70400 AAAAATTGAAAGTTTAGGTGCTAAAACTGATCAAAACTAATAGTTTAGGTACTAAATGAGTTAAG
1 AAAAATAGAAAGTTTAGGTACTAAAACGGACCAAAACTAATAGTTTAGATACTAAACGAGTTAAG
*
70465 TTTTTAATGGCGGGTACTAAAATAGAATAGAAACTAAACGTT
66 TTTTTAATGGCGGGTACTAAAATAGAAAAGAAACTAAACGTT
70507 A
1 A
70508 GATATGATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 89 0.94
108 6 0.06
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (107 bp):
AAAAATAGAAAGTTTAGGTACTAAAACGGACCAAAACTAATAGTTTAGATACTAAACGAGTTAAG
TTTTTAATGGCGGGTACTAAAATAGAAAAGAAACTAAACGTT
Found at i:72609 original size:18 final size:18
Alignment explanation
Indices: 72572--72614 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
72562 GTTTAATAAG
*
72572 TTTTTGTATTTTGTTTTT
1 TTTTTGTATTTTGTTATT
72590 TTTTTGTAATTTT-TTATT
1 TTTTTGT-ATTTTGTTATT
72608 TTATTTG
1 TT-TTTG
72615 CTCCTTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTTGTATTTTGTTATT
Found at i:74412 original size:294 final size:293
Alignment explanation
Indices: 73830--74417 Score: 1099
Period size: 294 Copynumber: 2.0 Consensus size: 293
73820 ACACACACTG
73830 TATCTCCAGTCTTCTCTGGGTCATGATTTTCCTTAAGATTCAATATCATCCAATCTTATTGACTG
1 TATCTCCAGTCTTCTCTGGGTCATGATTTTCCTTAAGATTCAATATCATCCAATCTTATTGACTG
73895 CAATATTTGTGTTTTGCATTGGTTGTGTATCTTTTAGTTCAATTATACAAAGTGTCAAGTCTGAG
66 CAATATTTGTGTTTTGCATTGGTTGTGTATCTTTTAGTTCAATTATACAAAGTGTCAAGTCTGAG
*
73960 AGTGATTATAGCAGGAAATGAATGGACAGGCAAAAGTGAGAAGAAGAGAGGGAAAGGACATTTTC
131 AGTGATTATAGCAGGAAATGAATGGACAGGCAAAAGTGAGAAGAAGAGAGGAAAAGGACATTTTC
74025 ATTGATGGTTATGATCTTTTACATATATATATATATCTTCATAGACTCGATTACTGTAGAATGAG
196 ATTGATGGTTATGATCTTTTACA-ATATATATATATCTTCATAGACTCGATTACTGTAGAATGAG
* *
74090 CTATAATTTTTCTGAGCAACAGTTTTTTTTTATA
260 CTATAATTTATCTGAGCAACAGTTTTTTTATATA
74124 TATCTCCAGTCTTCTCTGGGTCATGATTTTCCTTAAGATTCAATATCATCCAATCTTATTGACTG
1 TATCTCCAGTCTTCTCTGGGTCATGATTTTCCTTAAGATTCAATATCATCCAATCTTATTGACTG
*
74189 CAATATTTGTGTTTTGCATTGGTTGTGTATCTTTTAGTTCAATTATACAAGGTGTCATAGTCTGA
66 CAATATTTGTGTTTTGCATTGGTTGTGTATCTTTTAGTTCAATTATACAAAGTGTCA-AGTCTGA
74254 GAGTGATTATAGCAGGAAATGAATGGACAGGCAAAAGTGAGAAGAAGAGAGGAAAAGGACATTTT
130 GAGTGATTATAGCAGGAAATGAATGGACAGGCAAAAGTGAGAAGAAGAGAGGAAAAGGACATTTT
74319 CATTGATGGTTATGATCTTTTAC-ATATATATATATCTTCATAGACTCGATTACTGTAGAATGAG
195 CATTGATGGTTATGATCTTTTACAATATATATATATCTTCATAGACTCGATTACTGTAGAATGAG
*
74383 CTATAATTTATCTGAGCAACA-TTTTTTTTTATA
260 CTATAATTTATCTGAGCAACAGTTTTTTTATATA
74416 TA
1 TA
74418 GTTCTATTTA
Statistics
Matches: 290, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
292 14 0.05
293 61 0.21
294 121 0.42
295 94 0.32
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (293 bp):
TATCTCCAGTCTTCTCTGGGTCATGATTTTCCTTAAGATTCAATATCATCCAATCTTATTGACTG
CAATATTTGTGTTTTGCATTGGTTGTGTATCTTTTAGTTCAATTATACAAAGTGTCAAGTCTGAG
AGTGATTATAGCAGGAAATGAATGGACAGGCAAAAGTGAGAAGAAGAGAGGAAAAGGACATTTTC
ATTGATGGTTATGATCTTTTACAATATATATATATCTTCATAGACTCGATTACTGTAGAATGAGC
TATAATTTATCTGAGCAACAGTTTTTTTATATA
Found at i:78280 original size:21 final size:20
Alignment explanation
Indices: 78243--78281 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78233 TATGGGCGGA
*
78243 TTTTATTTTGACCATCAATC
1 TTTTATTTTGACAATCAATC
*
78263 TTTTAATTTTGTCAATCAA
1 TTTT-ATTTTGACAATCAA
78282 ATTATTTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTATTTTGACAATCAATC
Found at i:81469 original size:12 final size:12
Alignment explanation
Indices: 81452--81482 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
81442 GTTGGAAATC
81452 TGTAAATTTTTA
1 TGTAAATTTTTA
81464 TGTAAATTTTTA
1 TGTAAATTTTTA
81476 TGTAAAT
1 TGTAAAT
81483 CTCAATCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (12 bp):
TGTAAATTTTTA
Found at i:86364 original size:31 final size:31
Alignment explanation
Indices: 86317--86376 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
86307 GGGCCTAATT
86317 TAAAACTTTAAAATATTTGAAA-GTTTAAAG
1 TAAAACTTTAAAATATTTGAAAGGTTTAAAG
*
86347 TAAAATTTTCAAAATATTTGAAAGGTTTAA
1 TAAAACTTT-AAAATATTTGAAAGGTTTAA
86377 TTTATAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 8 0.30
31 13 0.48
32 6 0.22
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (31 bp):
TAAAACTTTAAAATATTTGAAAGGTTTAAAG
Found at i:87137 original size:15 final size:17
Alignment explanation
Indices: 87099--87137 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
87089 CCACTTCATT
*
87099 ATTACAACAAGTTTATC
1 ATTATAACAAGTTTATC
87116 ATTATAACAA-TTTATC
1 ATTATAACAAGTTTATC
87132 -TTATAA
1 ATTATAA
87138 AAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 9 0.43
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTATAACAAGTTTATC
Found at i:90226 original size:23 final size:21
Alignment explanation
Indices: 90192--90242 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
90182 ATGTATATAA
90192 TTTT-TTAATAAAAA-TATTAT
1 TTTTATTAATAAAAATTATT-T
90212 TTTTCATTAACTAAAAATTATTT
1 TTTT-ATTAA-TAAAAATTATTT
90235 TTTTATTA
1 TTTTATTA
90243 TTTGAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
22 8 0.30
23 11 0.41
24 4 0.15
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATTAATAAAAATTATTT
Found at i:91001 original size:22 final size:22
Alignment explanation
Indices: 90971--91012 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
90961 AGCGACACCT
*
90971 TATTTTTTATTTTTAAAAAAAA
1 TATTATTTATTTTTAAAAAAAA
90993 TATTATTTATTTTTAAAAAA
1 TATTATTTATTTTTAAAAAA
91013 TATGAACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTATTTATTTTTAAAAAAAA
Found at i:93260 original size:15 final size:15
Alignment explanation
Indices: 93240--93269 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93230 CCTACTTACT
93240 GCAGGATTTTGTCGA
1 GCAGGATTTTGTCGA
93255 GCAGGATTTTGTCGA
1 GCAGGATTTTGTCGA
93270 AGGCATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (15 bp):
GCAGGATTTTGTCGA
Found at i:94938 original size:22 final size:21
Alignment explanation
Indices: 94905--94959 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
94895 TAATATGGTG
* *
94905 ATTTTAAAAAATTTATTTAAA
1 ATTTTAAAAAAATTATATAAA
94926 ATTTTAAAAAAATTATATAAA
1 ATTTTAAAAAAATTATATAAA
*
94947 TTTTTAAGAAAAA
1 ATTTTAA-AAAAA
94960 ACATAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTTAAAAAAATTATATAAA
Found at i:98918 original size:117 final size:117
Alignment explanation
Indices: 98732--98949 Score: 364
Period size: 117 Copynumber: 1.9 Consensus size: 117
98722 TTAGTTGACT
** * *
98732 TGCAAGAATGTTTTGTGAGTTCATCATCCACCTTCGTTTCTGTTGACGAGATTTCTGATGTCCCA
1 TGCAAGAATGTTTTGTGAGTTCATCATCCACCTTCGGCTCTGTCGAAGAGATTTCTGATGTCCCA
* *
98797 TTAGGATGTGTAGCACATCTCGTTTTATCTTCAGAAGAAGCATCGGTCGACC
66 TTAGGATGTGTACCACATCTCGATTTATCTTCAGAAGAAGCATCGGTCGACC
*
98849 TGCAAGAATGTTTTGTGAGTTCATCATCCACCTTCGGCTCTGTCGAAGAGTTTTCTGATGTCCCA
1 TGCAAGAATGTTTTGTGAGTTCATCATCCACCTTCGGCTCTGTCGAAGAGATTTCTGATGTCCCA
*
98914 TTAGGATTTGTACCACATCTCGATTTATCTTCAGAA
66 TTAGGATGTGTACCACATCTCGATTTATCTTCAGAA
98950 TCATTTGAAG
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 93 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (117 bp):
TGCAAGAATGTTTTGTGAGTTCATCATCCACCTTCGGCTCTGTCGAAGAGATTTCTGATGTCCCA
TTAGGATGTGTACCACATCTCGATTTATCTTCAGAAGAAGCATCGGTCGACC
Found at i:98992 original size:63 final size:63
Alignment explanation
Indices: 98893--99018 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
98883 CGGCTCTGTC
* *
98893 GAAGAGTTTTCTGATGTCCCATTAGGATTTGTACCACATCTCGATTTATCTTCAGAATCATTT
1 GAAGAGTTTTCTGATATCCCATTAGGATTTGAACCACATCTCGATTTATCTTCAGAATCATTT
*
98956 GAAGAGTTTTCTGATATCCCATTAGGATTTGAACCACATCTCGATTTTTCTTCAGAATCATTT
1 GAAGAGTTTTCTGATATCCCATTAGGATTTGAACCACATCTCGATTTATCTTCAGAATCATTT
99019 CGATCGGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (63 bp):
GAAGAGTTTTCTGATATCCCATTAGGATTTGAACCACATCTCGATTTATCTTCAGAATCATTT
Found at i:100563 original size:235 final size:235
Alignment explanation
Indices: 99985--101829 Score: 2344
Period size: 235 Copynumber: 7.9 Consensus size: 235
99975 AGTCAATCAC
* * * * *
99985 TACCAAAACTCAGATATTAGACTGCAAACACCACAAGTATCCGCAAACTATGTTGCTCAGACTCC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
** * * **
100050 GATAGTTGTGTCCGAGACATGGATATGAACCACAAAAATCCTTTAAGTACATGGAAAAACTTTGA
66 GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
* * * *
100115 AAATTCTGATTATAACATGTCTAAAATATACC--ACACTTATATCCGAATCCGAAAAACAAAGAT
131 AAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGAC
100178 CACAAATATGAACTACAATTATT-G---G--A-CTGTAAA
196 CACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
* * **
100211 TACCAAAACTCATATATTGGACTGAAAACACTGCAAGTAGCCACAAACTATGCTTGCTCAGACTC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGC-TGCTCAGACTC
* * * *
100276 CGATAGCAGCGTCAGACACAT-GAGTATGAACCGCAAAGATCCTCAAAGTACAT-GAAAGAAATT
65 CGATAGCAGTGTCCGACACATGGA-TATGAACCGCAAAAATCCTCAAAGTACATGGAAA-AACTT
* * *
100339 TGAAAATTCTACTTATAACATGTCTAACATATACCTCACACTTATATCCGAATCCGAATAACAAA
128 TGAAAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAA
* * *
100404 GACAACAAATATGAACTGCAATTATTGGATTGATAGCTGTAAA
193 GACCACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
* *
100447 TACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAACTATGCTGCTCAGACTCC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
* * *
100512 GATAACAGTGCCCGACACATGGATATGAACTGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
66 GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
* * *
100577 AGATTCTAATTATAACAT-TCCTAATATATACCTGACTCTTATATCCGAATCCGAAAAACAAAGA
131 AAATTCTAATTATAACATGT-CTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGA
*
100641 CCACAAATATGAACTACAATTATTGGACTGATAGTTGTAAA
195 CCACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
* *
100682 TACCAAAACTCAGGTATTGAACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
* * * * *
100747 GATAGCATTGTCTGGCACATGGATATGAACTGCAAAGATCCTCAAAGTACAT--AAAAACTTTGA
66 GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
* *
100810 AAATTCTAATCATAACATGTCTAATATATACCTGACACTT-TATTCGAATCCGAATAACAAAGAC
131 AAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGAC
100874 CACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
196 CACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
100914 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
* * * * *
100979 GATAGTCA-TGTCGGACACATGGATATGAACCACAAAGATCCTCAAAGTACATGTAAAATC-TT-
66 GATAG-CAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTG
* * *
101041 ---A---GAA--A-AACATGTCTAATATATACCTGGCACTTATATTCGAATCCGAATAACAAAGA
130 AAAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGA
*
101097 CCACAAATATGAACTACAAATATTGGACTGATAGCTGTAAA
195 CCACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
* * * *
101138 TACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAACTATGCTCCTCAGACTAC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
* *
101203 GATAACAGTGCCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
66 GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
*
101268 AAATTCTAATTATAACATGT-TGAATATATACCTGACACTTATATCCGAATCCGAGTAACAAAGA
131 AAATTCTAATTATAACATGTCT-AATATATACCTGACACTTATATCCGAATCCGAATAACAAAGA
*
101332 CCACAAATCTGAACTACAATTATTGGACTTGATAGCTGTAAA
195 CCACAAATATGAACTACAATTATTGGAC-TGATAGCTGTAAA
* * *
101374 TACCAAAACTCAAATATTGGACTGGAAACACCACAAGTAGCCACAAGCTATGTTGCTCAGAGCCT
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTA---TGCT----G-CT
* ** * * * * *
101439 CAAGACTCTGATAGTTGTGTCCAAGACATGGATATGAACTGC---ACTCCAAGTCCAAGTACATG
58 C-AGACTCCGATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCC---TCAAAGTACATG
* ** * * *
101501 AAAAAACTTCAAAAATTCTAATTACAACATGTCTAATGTATACCTGTGACACTTATATTCGAATC
119 GAAAAACTTTGAAAATTCTAATTATAACATGTCTAATATATACC--TGACACTTATATCCGAATC
* * * * *
101566 TGAATAACAAATACCACAAACATGAACTACAATTATTGGAGTGATTGCTGTAAA
182 CGAATAACAAAGACCACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
*
101620 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTTAGACTCC
1 TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
* * * * ** *
101685 GATAGCTGTGTCGGACACATGAATATGAACCGCAAAGATCCTTTAAGTACATGGAAAAACCTTGA
66 GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
* * * *
101750 AAATTCTAATTATACCATGTCTAATAAATACCCGACAC-T-TAT----A-CCGAATAACACAGAC
131 AAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGAC
*
101808 CACAAACATGAACTACAATTAT
196 CACAAATATGAACTACAATTAT
101830 CGATTTTCAG
Statistics
Matches: 1419, Mismatches: 148, Indels: 102
0.85 0.09 0.06
Matches are distributed among these distances:
223 28 0.02
224 175 0.12
225 2 0.00
226 53 0.04
227 88 0.06
228 34 0.02
229 53 0.04
230 1 0.00
232 171 0.12
233 54 0.04
234 10 0.01
235 340 0.24
236 118 0.08
237 79 0.06
238 2 0.00
239 5 0.00
240 3 0.00
242 4 0.00
243 4 0.00
244 3 0.00
245 79 0.06
246 60 0.04
247 53 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (235 bp):
TACCAAAACTCAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
GATAGCAGTGTCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTTTGA
AAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATCCGAATCCGAATAACAAAGAC
CACAAATATGAACTACAATTATTGGACTGATAGCTGTAAA
Found at i:101139 original size:691 final size:694
Alignment explanation
Indices: 99985--101743 Score: 2398
Period size: 691 Copynumber: 2.5 Consensus size: 694
99975 AGTCAATCAC
* *
99985 TACCAAAACTCAGATATT-AGACTGCAAACACCACAAGTATCCGCAAACTATGTTGCTCAGACTC
1 TACCAAAACTCAGATATTGA-ACTGCAAACACCACAAGTAGCCACAAACTATGTTGCTCAGACTC
* * ** * *
100049 CGATAGTTGTGTCCGAG-ACATGGATATGAACCACAAAAATCCTTTAAGTACATGGAAAAACTTT
65 CGATAGAT-TGTCTGAGCACATGGATATGAACTGCAAAGATCC-TCAAGTACAT-GAAAAACTTT
* * * *
100113 GAAAATTCTGATTATAACATGTCTAAAATATACC--ACACTTATATCCGAATCCGAAAAACAAAG
127 GAAAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATTCGAATCCGAATAACAAAG
* *
100176 ATCACAAATATGAACTACAATTATT-G--G--A-CTGTAAATACCAAAACTCATATATTGGACTG
192 ACCACAAATATGAACTACAATTATTGGATGATAGCTGTAAATACCAAAACTCAGATATTGGACTG
* ** * *
100235 AAAACACTGCAAGTAGCCACAAACTATGCTTGCTCAGACTCCGATAGCAGCGTCAGACACAT-GA
257 TAAACACCACAAGTAGCCACAAACTATGC-TGCTCAGACTCCGATAGCA-TGTCGGACACATGGA
100299 GTATGAACCGCAAAGATCCTCAAAGTACATGAAAGAAATTTGAAAATTCTACTTATAACATGTCT
320 -TATGAACCGCAAAGATCCTCAAAGTACATG-AA-AAATTT-AAAA---TA--TATAACATGTCT
* *
100364 AACATATACCTCACACTTATATCCGAATCCGAATAACAAAGACAACAAATATGAACTGCAATTAT
376 AACATATACCTCACACTTATATCCGAATCCGAATAACAAAGACAACAAATATGAACTACAAATAT
*
100429 TGGATTGATAGCTGTAAATACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAA
441 TGGACTGATAGCTGTAAATACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAA
* * *
100494 CTATGCTGCTCAGACTCCGATAACAGTGCCCGACACATGGATATGAACTGCAAAAATCCTCAAAG
506 CTATGCTCCTCAGACTACGATAACAGTGCCCGACACATGGATATGAACCGCAAAAATCCTCAAAG
* *
100559 TACATGGAAAAACTTTGAAGATTCTAATTATAACAT-TCCT-AATATATACCTGACTCTTATATC
571 TACATGGAAAAACTTTGAAAATTCTAATTATAACATGT--TGAATATATACCTGACACTTATATC
*
100622 CGAATCCGAAAAACAAAGACCACAAATATGAACTACAATTATTGGAC-TGATAGTTGTAAA
634 CGAATCCGAAAAACAAAGACCACAAATATGAACTACAATTATTGGACTTGATAGCTGTAAA
* * *
100682 TACCAAAACTCAGGTATTGAACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCC
1 TACCAAAACTCAGATATTGAACTGCAAACACCACAAGTAGCCACAAACTATGTTGCTCAGACTCC
100747 GATAGCATTGTCTG-GCACATGGATATGAACTGCAAAGATCCTCAAAGTACAT-AAAAACTTTGA
66 GATAG-ATTGTCTGAGCACATGGATATGAACTGCAAAGATCCTC-AAGTACATGAAAAACTTTGA
*
100810 AAATTCTAATCATAACATGTCTAATATATACCTGACACTT-TATTCGAATCCGAATAACAAAGAC
129 AAATTCTAATTATAACATGTCTAATATATACCTGACACTTATATTCGAATCCGAATAACAAAGAC
100874 CACAAATATGAACTACAATTATTGGACTGATAGCTGTAAATACCAAAACTCAGATATTGGACTGT
194 CACAAATATGAACTACAATTATTGGA-TGATAGCTGTAAATACCAAAACTCAGATATTGGACTGT
100939 AAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCCGATAGTCATGTCGGACACATGGATA
258 AAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCCGATAG-CATGTCGGACACATGGATA
* * * *
101004 TGAACCACAAAGATCCTCAAAGTACATGTAAAATCTT-AGA-A-A-AACATGTCTAATATATACC
322 TGAACCGCAAAGATCCTCAAAGTACATGAAAAAT-TTAAAATATATAACATGTCTAACATATACC
** * *
101065 TGGCACTTATATTCGAATCCGAATAACAAAGACCACAAATATGAACTACAAATATTGGACTGATA
386 TCACACTTATATCCGAATCCGAATAACAAAGACAACAAATATGAACTACAAATATTGGACTGATA
101130 GCTGTAAATACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAACTATGCTCCT
451 GCTGTAAATACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAACTATGCTCCT
101195 CAGACTACGATAACAGTGCCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAA
516 CAGACTACGATAACAGTGCCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAA
**
101260 AACTTTGAAAATTCTAATTATAACATGTTGAATATATACCTGACACTTATATCCGAATCCGAGTA
581 AACTTTGAAAATTCTAATTATAACATGTTGAATATATACCTGACACTTATATCCGAATCCGAAAA
*
101325 ACAAAGACCACAAATCTGAACTACAATTATTGGACTTGATAGCTGTAAA
646 ACAAAGACCACAAATATGAACTACAATTATTGGACTTGATAGCTGTAAA
* * * *
101374 TACCAAAACTCAAATATTGGACTGGAAACACCACAAGTAGCCACAAGCTATGTTGCTCAGAGCCT
1 TACCAAAACTCAGATATTGAACTGCAAACACCACAAGTAGCCACAAACTATGTTGCTCAGA--CT
* **
101439 CAAGACTCTGATAGTTGTGTCCAAG-ACATGGATATGAACTGCACTCCAAG-T-C-CAAGTACAT
64 -----C-C-GATAGAT-TGTCTGAGCACATGGATATGAACTGCA----AAGATCCTCAAGTACAT
** * *
101500 GAAAAAACTTCAAAAATTCTAATTACAACATGTCTAATGTATACCTGTGACACTTATATTCGAAT
117 G-AAAAACTTTGAAAATTCTAATTATAACATGTCTAATATATACC--TGACACTTATATTCGAAT
* * * *
101565 CTGAATAACAAATACCACAAACATGAACTACAATTATTGGAGTGATTGCTGTAAATACCAAAACT
179 CCGAATAACAAAGACCACAAATATGAACTACAATTATTGGA-TGATAGCTGTAAATACCAAAACT
* *
101630 CAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTTAGACTCCGATAGCTGTG
243 CAGATATTGGACTGTAAACACCACAAGTAGCCACAAACTATGCTGCTCAGACTCCGATAGC-ATG
* **
101695 TCGGACACATGAATATGAACCGCAAAGATCCTTTAAGTACATGGAAAAA
307 TCGGACACATGGATATGAACCGCAAAGATCCTCAAAGTACAT-GAAAAA
101744 CCTTGAAAAT
Statistics
Matches: 952, Mismatches: 69, Indels: 72
0.87 0.06 0.07
Matches are distributed among these distances:
690 1 0.00
691 294 0.31
692 69 0.07
694 2 0.00
695 41 0.04
696 46 0.05
697 105 0.11
698 2 0.00
699 3 0.00
700 7 0.01
701 38 0.04
702 59 0.06
703 99 0.10
704 1 0.00
705 12 0.01
706 168 0.18
707 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (694 bp):
TACCAAAACTCAGATATTGAACTGCAAACACCACAAGTAGCCACAAACTATGTTGCTCAGACTCC
GATAGATTGTCTGAGCACATGGATATGAACTGCAAAGATCCTCAAGTACATGAAAAACTTTGAAA
ATTCTAATTATAACATGTCTAATATATACCTGACACTTATATTCGAATCCGAATAACAAAGACCA
CAAATATGAACTACAATTATTGGATGATAGCTGTAAATACCAAAACTCAGATATTGGACTGTAAA
CACCACAAGTAGCCACAAACTATGCTGCTCAGACTCCGATAGCATGTCGGACACATGGATATGAA
CCGCAAAGATCCTCAAAGTACATGAAAAATTTAAAATATATAACATGTCTAACATATACCTCACA
CTTATATCCGAATCCGAATAACAAAGACAACAAATATGAACTACAAATATTGGACTGATAGCTGT
AAATACAAAAACTCAGATATTGGACTGTAAACAACACAAGTAGCCACAAACTATGCTCCTCAGAC
TACGATAACAGTGCCCGACACATGGATATGAACCGCAAAAATCCTCAAAGTACATGGAAAAACTT
TGAAAATTCTAATTATAACATGTTGAATATATACCTGACACTTATATCCGAATCCGAAAAACAAA
GACCACAAATATGAACTACAATTATTGGACTTGATAGCTGTAAA
Found at i:102598 original size:26 final size:27
Alignment explanation
Indices: 102564--102616 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
102554 AAATATTATT
*
102564 TTATTAAAT-ATC-TTAATTATTAAAAG
1 TTATAAAATAATCATTAATTA-TAAAAG
102590 TTATAAAATAATCATTTAATTATAAAA
1 TTATAAAATAATCA-TTAATTATAAAA
102617 TATTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 5 0.22
29 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
TTATAAAATAATCATTAATTATAAAAG
Found at i:102601 original size:21 final size:19
Alignment explanation
Indices: 102577--102623 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
102567 TTAAATATCT
102577 TAATTATTAAAAGTTATAAAA
1 TAATTATT-AAA-TTATAAAA
* *
102598 TAATCATTTAATTATAAAA
1 TAATTATTAAATTATAAAA
102617 T-ATTATT
1 TAATTATT
102624 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 2 0.09
21 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATTATTAAATTATAAAA
Found at i:102653 original size:59 final size:60
Alignment explanation
Indices: 102550--102671 Score: 185
Period size: 59 Copynumber: 2.0 Consensus size: 60
102540 AATTTGCGAC
*
102550 TATAAAATATTATTTTATTAAATATCTTAATTATTAAAAGTTATAAAATAATCATTTAAT
1 TATAAAATATTATTTTATTAAATATCTTAATTATTAAAAATTATAAAATAATCATTTAAT
* * *
102610 TATAAAATATTATTTT-TTAAA-ATTTTAGATTATTAAAAATTATAAAATAATTATTTGAT
1 TATAAAATATTATTTTATTAAATATCTTA-ATTATTAAAAATTATAAAATAATCATTTAAT
102669 TAT
1 TAT
102672 TAATTATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
58 5 0.09
59 36 0.63
60 16 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (60 bp):
TATAAAATATTATTTTATTAAATATCTTAATTATTAAAAATTATAAAATAATCATTTAAT
Found at i:102672 original size:29 final size:29
Alignment explanation
Indices: 102579--102674 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
102569 AAATATCTTA
* * *
102579 ATTATTAAAAGTTATAAAATAATCATTTA
1 ATTATTAAAAATTATAAAATAATTATTTG
** *
102608 ATTA-TAAAATATTATTTTTTAA-AATT-TTAG
1 ATTATTAAAA-ATTA---TAAAATAATTATTTG
102638 ATTATTAAAAATTATAAAATAATTATTTG
1 ATTATTAAAAATTATAAAATAATTATTTG
102667 ATTATTAA
1 ATTATTAA
102675 TTATATTCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
27 3 0.06
28 9 0.18
29 18 0.35
30 10 0.20
31 8 0.16
32 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTATTAAAAATTATAAAATAATTATTTG
Found at i:104898 original size:31 final size:32
Alignment explanation
Indices: 104860--104923 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
104850 AACCTAAAAA
104860 TACCAACATTTGGTTCAA-ACTCGTTGGCCTT
1 TACCAACATTTGGTTCAATACTCGTTGGCCTT
**
104891 TACCAACATTTGGTTCAATTTTCGTTGGCCTT
1 TACCAACATTTGGTTCAATACTCGTTGGCCTT
104923 T
1 T
104924 CACATCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (32 bp):
TACCAACATTTGGTTCAATACTCGTTGGCCTT
Found at i:107378 original size:14 final size:14
Alignment explanation
Indices: 107361--107387 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107351 ATATATATAT
107361 ATATACACACACAC
1 ATATACACACACAC
107375 ATATACACACACA
1 ATATACACACACA
107388 TAATTGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
ATATACACACACAC
Done.