Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 108 of 120
Found at i:15627270 original size:11 final size:12
Alignment explanation
Indices: 15627240--15627274 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15627230 ACTTCTGCTT
15627240 CTTCAGCATATC
1 CTTCAGCATATC
15627252 CTTCAGCATATC
1 CTTCAGCATATC
15627264 C-TCAGCATATC
1 CTTCAGCATATC
15627275 GGCGCCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (12 bp):
CTTCAGCATATC
Found at i:15631908 original size:2 final size:2
Alignment explanation
Indices: 15631901--15631955 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
15631891 GTAACCAATA
15631901 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
15631943 TC TC TC TC CC TC T
1 TC TC TC TC TC TC T
15631956 TACATGTGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:15634812 original size:2 final size:2
Alignment explanation
Indices: 15634805--15634829 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15634795 AATTGCTATT
15634805 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
15634830 CAATTCAAGA
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:15634894 original size:17 final size:17
Alignment explanation
Indices: 15634872--15634904 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15634862 GAAGTTGAAG
15634872 TCAAGCATGGAAATCGT
1 TCAAGCATGGAAATCGT
15634889 TCAAGCATGGAAATCG
1 TCAAGCATGGAAATCG
15634905 AACTAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (17 bp):
TCAAGCATGGAAATCGT
Found at i:15638292 original size:68 final size:67
Alignment explanation
Indices: 15638205--15638339 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 67
15638195 AGTTATATTT
*
15638205 ATATACAAGGTAATAATTATTTCTAATGAAAATCTATATTAATCTAATTTATACTATATTCTTTT
1 ATATACAAGGTAATAATTATTTCTAATGAAAATCTATATTAATCTAATTTATACTATACTCTTTT
15638270 GA
66 GA
* * *
15638272 ATATACAATGTTAATAATTATTTCTATTGAAAATCTATATTGATCTAATTTATACTATACTCTTT
1 ATATACAA-GGTAATAATTATTTCTAATGAAAATCTATATTAATCTAATTTATACTATACTCTTT
15638337 TGA
65 TGA
15638340 CAATTATAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 8 0.13
68 55 0.87
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.46
Consensus pattern (67 bp):
ATATACAAGGTAATAATTATTTCTAATGAAAATCTATATTAATCTAATTTATACTATACTCTTTT
GA
Found at i:15641947 original size:21 final size:20
Alignment explanation
Indices: 15641923--15641974 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15641913 ATACATCGTT
15641923 AATTTGATATTAGAAAAATAA
1 AATTTGATATTAG-AAAATAA
* **
15641944 AATTTGGTATTAGATCATAA
1 AATTTGATATTAGAAAATAA
*
15641964 AATTTAATATT
1 AATTTGATATT
15641975 TTAGACTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
AATTTGATATTAGAAAATAA
Found at i:15642085 original size:17 final size:16
Alignment explanation
Indices: 15642044--15642110 Score: 89
Period size: 17 Copynumber: 3.9 Consensus size: 16
15642034 GGTGGTTATT
*
15642044 TTTTTATTTTTTTAAA
1 TTTTTAATTTTTTAAA
15642060 TTCTTTTAATTTCTTTAAA
1 -T-TTTTAATTT-TTTAAA
15642079 TTTTTAATTTTTTAAA
1 TTTTTAATTTTTTAAA
15642095 TTTTTAAATTTTTTAA
1 TTTTT-AATTTTTTAA
15642111 TATAACATGA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
16 11 0.24
17 20 0.43
18 9 0.20
19 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTAATTTTTTAAA
Found at i:15642090 original size:8 final size:8
Alignment explanation
Indices: 15642043--15642111 Score: 75
Period size: 8 Copynumber: 8.1 Consensus size: 8
15642033 TGGTGGTTAT
*
15642043 TTTTTTAT
1 TTTTTTAA
15642051 TTTTTTAAA
1 TTTTTT-AA
15642060 TTCTTTTAA
1 TT-TTTTAA
15642069 TTTCTTTAA
1 TTT-TTTAA
*
15642078 ATTTTTAA
1 TTTTTTAA
15642086 TTTTTTAAA
1 TTTTTT-AA
*
15642095 TTTTTAAA
1 TTTTTTAA
15642103 TTTTTTAA
1 TTTTTTAA
15642111 T
1 T
15642112 ATAACATGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
8 27 0.52
9 21 0.40
10 4 0.08
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15642925 original size:2 final size:2
Alignment explanation
Indices: 15642918--15642944 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15642908 ATAAATCTAA
15642918 AT 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 A
15642945 CACATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15643877 original size:18 final size:18
Alignment explanation
Indices: 15643843--15643885 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15643833 TCGAATCGAA
*
15643843 TTATATATTTTTATTAAT
1 TTATATATTTATATTAAT
15643861 TTATATATATTAT-TTAAT
1 TTATATAT-TTATATTAAT
*
15643879 TTTTATA
1 TTATATA
15643886 AAACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATATTTATATTAAT
Found at i:15643946 original size:22 final size:20
Alignment explanation
Indices: 15643904--15643958 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
15643894 ATAAATATTT
* *
15643904 TATATAAAAAATTATTTAAA
1 TATATTAAAAATTATTAAAA
15643924 TATATTAAAAATTGCATTAAAA
1 TATATTAAAAATT--ATTAAAA
15643946 TAATATATAAAAA
1 T-ATAT-TAAAAA
15643959 GCAAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
22 7 0.24
23 4 0.14
24 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TATATTAAAAATTATTAAAA
Found at i:15644767 original size:16 final size:17
Alignment explanation
Indices: 15644746--15644778 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15644736 GAGCTCTACT
*
15644746 TTAAAAACTTA-AAATA
1 TTAAAAAATTATAAATA
15644762 TTAAAAAATTATAAATA
1 TTAAAAAATTATAAATA
15644779 ATTTTAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAATTATAAATA
Found at i:15645416 original size:21 final size:21
Alignment explanation
Indices: 15645391--15645488 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 21
15645381 ACACCTTAAT
15645391 TACAATTTTAATAACTTTTTA
1 TACAATTTTAATAACTTTTTA
* *
15645412 TACAATTTTAATAACTTATCA
1 TACAATTTTAATAACTTTTTA
* *** *
15645433 AACAATTTTGGCAA-TTTTTGG
1 TACAATTTTAATAACTTTTT-A
* * *
15645454 TATAATTTTTATAACTTTTGA
1 TACAATTTTAATAACTTTTTA
*
15645475 TACAATTTTTATAA
1 TACAATTTTAATAA
15645489 TATTTAATAT
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
20 3 0.05
21 51 0.88
22 4 0.07
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (21 bp):
TACAATTTTAATAACTTTTTA
Found at i:15645502 original size:21 final size:21
Alignment explanation
Indices: 15645454--15645502 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
15645444 CAATTTTTGG
*
15645454 TATAATTTTTATAACTTTTGA
1 TATAATTTTTATAACTTTTAA
*
15645475 TACAATTTTTATAA-TATTTAA
1 TATAATTTTTATAACT-TTTAA
15645496 TATAATT
1 TATAATT
15645503 GTGATAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TATAATTTTTATAACTTTTAA
Found at i:15647761 original size:23 final size:23
Alignment explanation
Indices: 15647726--15647771 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
15647716 ATTGATATAA
15647726 AAATATATATTT-ATTAAAAAAT
1 AAATATATATTTAATTAAAAAAT
*
15647748 AAATGATATTTTTAAATTAAAAAA
1 AAAT-ATATATTT-AATTAAAAAA
15647772 ATTATGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
25 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATATATTTAATTAAAAAAT
Found at i:15657705 original size:18 final size:18
Alignment explanation
Indices: 15657682--15657717 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15657672 ATTTTAACAT
15657682 AGTTGGTCTGTATTAAAA
1 AGTTGGTCTGTATTAAAA
15657700 AGTTGGTCTGTATTAAAA
1 AGTTGGTCTGTATTAAAA
15657718 TCATGCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
AGTTGGTCTGTATTAAAA
Found at i:15657814 original size:25 final size:25
Alignment explanation
Indices: 15657763--15657825 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
15657753 TCAATTCATG
**
15657763 AAAAGCATTTTTAGTTCTTTATGTC
1 AAAAGCATTTTTAGTTCCATATGTC
*
15657788 AAAAGTATTGTTTAGTTCCATAT-TC
1 AAAAGCATT-TTTAGTTCCATATGTC
15657813 AAACAGACATTTT
1 AAA-AG-CATTTT
15657826 GCTTCTTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 13 0.42
26 15 0.48
27 3 0.10
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (25 bp):
AAAAGCATTTTTAGTTCCATATGTC
Found at i:15659309 original size:2 final size:2
Alignment explanation
Indices: 15659302--15659338 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15659292 CTTGCATACA
15659302 AT AT AT AT AT AT 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
15659339 CTTACAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15666157 original size:25 final size:25
Alignment explanation
Indices: 15666123--15666179 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
15666113 GTTTCTGAAG
*
15666123 TTAAA-AAATTTTATTATTAATGTA
1 TTAAATAAATTTTATTATTAATATA
* *
15666147 TTAAATAAATTTTTTTATTAGTATA
1 TTAAATAAATTTTATTATTAATATA
15666172 TTAAATAA
1 TTAAATAA
15666180 TTTCTCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TTAAATAAATTTTATTATTAATATA
Found at i:15673330 original size:191 final size:191
Alignment explanation
Indices: 15673000--15673371 Score: 618
Period size: 191 Copynumber: 1.9 Consensus size: 191
15672990 TTTGTTATAG
* * * *
15673000 ATAAAGGCAAATGACTAAAGTGCAGTAGTAATTCTAACATAATTGTTCTATATAAAAGTAAAATC
1 ATAAAGGCAAAAGACTAAAATGCAATAGTAATTCCAACATAATTGTTCTATATAAAAGTAAAATC
* * *
15673065 ATGATTATTTATTTGAAATTAAGTTTTTATAATTTAATTCTTTAATAGTATAATTGTTTCTACCT
66 AAGATTATTTATTTGAAATTAAGTTTTTATAATTTAATTCTTTAATAGTATAATTGCTTCTAACT
*
15673130 TTCAAATTTATCATAAAATTCTGTGAATGGGAATTTACACCTTTTCCAAAAATTGCTACAA
131 TTCAAATTTATCATAAAATTCTGTGAATGGGAATTGACACCTTTTCCAAAAATTGCTACAA
* *
15673191 ATAAAGGCAAAAGAGTAAAATGCAATAGTAGTTCCAACATAATTGTTCTATATAAAAGTAAAATC
1 ATAAAGGCAAAAGACTAAAATGCAATAGTAATTCCAACATAATTGTTCTATATAAAAGTAAAATC
*
15673256 AAGATTATTTATTTGAAATTAAGTTTTTATAATTTAATTCTTTAATAGTATTATTGCTTCTAACT
66 AAGATTATTTATTTGAAATTAAGTTTTTATAATTTAATTCTTTAATAGTATAATTGCTTCTAACT
* * *
15673321 TTGAAATTTATTATAAAATTCTGTGAATGGGAATTGACACTTTTTCCAAAA
131 TTCAAATTTATCATAAAATTCTGTGAATGGGAATTGACACCTTTTCCAAAA
15673372 TTGAACTTTT
Statistics
Matches: 167, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
191 167 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (191 bp):
ATAAAGGCAAAAGACTAAAATGCAATAGTAATTCCAACATAATTGTTCTATATAAAAGTAAAATC
AAGATTATTTATTTGAAATTAAGTTTTTATAATTTAATTCTTTAATAGTATAATTGCTTCTAACT
TTCAAATTTATCATAAAATTCTGTGAATGGGAATTGACACCTTTTCCAAAAATTGCTACAA
Found at i:15678944 original size:3 final size:3
Alignment explanation
Indices: 15678936--15678965 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15678926 TCAAATCATT
*
15678936 TTC TTC TTC CTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
15678966 ATTTCTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:15684218 original size:22 final size:22
Alignment explanation
Indices: 15684192--15684235 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15684182 CTGTATATTT
*
15684192 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
15684214 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
15684236 GGAAGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCCTAGAATTAA
Found at i:15688102 original size:22 final size:22
Alignment explanation
Indices: 15688076--15688119 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15688066 CTGTATATTT
*
15688076 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
15688098 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCTAGAATTAA
15688120 GGAAGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCCTAGAATTAA
Found at i:15695584 original size:2 final size:2
Alignment explanation
Indices: 15695579--15695611 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15695569 GTCCCTGCAA
15695579 AT AT AT AT 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 A
15695612 AGTGTAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15699453 original size:31 final size:32
Alignment explanation
Indices: 15699418--15699510 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 32
15699408 ACAAATTATC
*
15699418 TCTATACTTATACAAAATTTGAAATTTAAT-T
1 TCTATACTTATACAAAATTTGAAATTTAATCA
* * **
15699449 TCTATAATTCTATGAAATTTGAAATTTAATCA
1 TCTATACTTATACAAAATTTGAAATTTAATCA
* *
15699481 T-TGTACTCATACAAAATTTGAAATTTAATC
1 TCTATACTTATACAAAATTTGAAATTTAATC
15699511 CCTTTAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
31 49 0.98
32 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (32 bp):
TCTATACTTATACAAAATTTGAAATTTAATCA
Found at i:15699618 original size:20 final size:19
Alignment explanation
Indices: 15699593--15699633 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15699583 TTCGTCTAGT
* *
15699593 ATTAATTTTTATTATATATA
1 ATTAATTATTACTA-ATATA
15699613 ATTAATTATTACTAATATA
1 ATTAATTATTACTAATATA
15699632 AT
1 AT
15699634 ATTAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATTATTACTAATATA
Found at i:15699628 original size:14 final size:14
Alignment explanation
Indices: 15699610--15699693 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
15699600 TTTATTATAT
15699610 ATAAT-TAATTATTA
1 ATAATATAA-TATTA
*
15699624 CTAATATAATATTA
1 ATAATATAATATTA
15699638 ATAATAT--TATT-
1 ATAATATAATATTA
* *
15699649 TTAAT-TTATATTA
1 ATAATATAATATTA
15699662 ATCAATTATAATATTA
1 AT-AA-TATAATATTA
*
15699678 ATAATCTAA-ATTA
1 ATAATATAATATTA
15699691 ATA
1 ATA
15699694 TATCAAAGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
10 1 0.02
11 4 0.07
12 8 0.14
13 8 0.14
14 21 0.37
15 6 0.11
16 9 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATATAATATTA
Found at i:15699850 original size:11 final size:11
Alignment explanation
Indices: 15699836--15699881 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15699826 ATATGAAATT
15699836 AATATAGTAAA
1 AATATAGTAAA
*
15699847 AATATA-TTAA
1 AATATAGTAAA
15699857 AATA-AGTAAA
1 AATATAGTAAA
* *
15699867 AATTTATTAAA
1 AATATAGTAAA
15699878 AATA
1 AATA
15699882 ATATAACTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
9 1 0.04
10 13 0.46
11 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
AATATAGTAAA
Found at i:15699866 original size:20 final size:21
Alignment explanation
Indices: 15699836--15699878 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
15699826 ATATGAAATT
15699836 AATATAGTAAAAATATATTAA
1 AATATAGTAAAAATATATTAA
*
15699857 AATA-AGTAAAAATTTATTAA
1 AATATAGTAAAAATATATTAA
15699877 AA
1 AA
15699879 ATAATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATAGTAAAAATATATTAA
Found at i:15703487 original size:21 final size:21
Alignment explanation
Indices: 15703458--15703497 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15703448 TTGTTAGGAG
* *
15703458 ACATTCTTGAGGATAATTTGA
1 ACATACTTGAAGATAATTTGA
15703479 ACATACTTGAAGATAATTT
1 ACATACTTGAAGATAATTT
15703498 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
ACATACTTGAAGATAATTTGA
Found at i:15705374 original size:30 final size:29
Alignment explanation
Indices: 15705318--15705381 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
15705308 AATATTTTAA
* * *
15705318 TATTTAAATAATAAATAATATTATAATAT
1 TATTTAAATAAAAAACAATATAATAATAT
*
15705347 TATTTTAATAAAAAACATATATAATAATAT
1 TATTTAAATAAAAAACA-ATATAATAATAT
15705377 T-TTTA
1 TATTTA
15705382 TTATTTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TATTTAAATAAAAAACAATATAATAATAT
Found at i:15705409 original size:21 final size:21
Alignment explanation
Indices: 15705368--15705415 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15705358 AAAACATATA
* *
15705368 TAATAA-TATTTTTATTATTT
1 TAATAATTATTGTTACTATTT
*
15705388 TAATAATTATTGTTACTCTTT
1 TAATAATTATTGTTACTATTT
15705409 TAATAAT
1 TAATAAT
15705416 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATAATTATTGTTACTATTT
Found at i:15705496 original size:17 final size:16
Alignment explanation
Indices: 15705473--15705515 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
15705463 TCAATATAAA
15705473 ATATAAATATTGTAAT
1 ATATAAATATTGTAAT
*
15705489 AGTATAAATATTTTAAT
1 A-TATAAATATTGTAAT
15705506 A-ATAAATATT
1 ATATAAATATT
15705516 ACTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (16 bp):
ATATAAATATTGTAAT
Found at i:15705528 original size:29 final size:32
Alignment explanation
Indices: 15705493--15705567 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 32
15705483 TGTAATAGTA
15705493 TAAATATTTTAATAATAAAT-AT-TACTATTT
1 TAAATATTTTAATAATAAATAATATACTATTT
*
15705523 T-AATA--TTAATAA-AAATAATATATTATTT
1 TAAATATTTTAATAATAAATAATATACTATTT
*
15705551 TAAATATTTTAAAAATA
1 TAAATATTTTAATAATA
15705568 TTAATATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 4 0.11
27 9 0.24
28 8 0.22
29 8 0.22
30 1 0.03
31 6 0.16
32 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
TAAATATTTTAATAATAAATAATATACTATTT
Found at i:15705563 original size:28 final size:29
Alignment explanation
Indices: 15705493--15705567 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
15705483 TGTAATAGTA
*
15705493 TAAATATTTTAATAATAAATATTACTATT
1 TAAATATTTTAAAAATAAATATTACTATT
* *
15705522 TTAATATTAATAAAAATAATATATTA-T-TT
1 TAAATATT-TTAAAAATAA-ATATTACTATT
15705551 TAAATATTTTAAAAATA
1 TAAATATTTTAAAAATA
15705568 TTAATATGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.21
29 16 0.41
30 9 0.23
31 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
TAAATATTTTAAAAATAAATATTACTATT
Found at i:15705632 original size:13 final size:13
Alignment explanation
Indices: 15705614--15705683 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 13
15705604 GTTTTTTATA
15705614 TTAATATAATATT
1 TTAATATAATATT
15705627 TTAATATTAAATATT
1 TTAATA-T-AATATT
15705642 ATTAACATATAATTATTTT
1 -TT-A-ATATAA-TA--TT
15705661 TTAATATTAATAATT
1 TTAATA-TAAT-ATT
15705676 TTAATATA
1 TTAATATA
15705684 TTTTAATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
13 6 0.13
14 3 0.06
15 14 0.30
16 8 0.17
17 9 0.19
18 5 0.11
19 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATATAATATT
Found at i:15705644 original size:18 final size:18
Alignment explanation
Indices: 15705606--15705682 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 18
15705596 TTTTAAGTGT
* *
15705606 TTTTTATATTAATATAATA
1 TTTTAATATTAA-ATATTA
15705625 TTTTAATATTAAATATTA
1 TTTTAATATTAAATATTA
* *
15705643 --TTAACATATAATTATT-
1 TTTTAATAT-TAAATATTA
15705659 TTTTAATATT-AATA--A
1 TTTTAATATTAAATATTA
15705674 TTTTAATAT
1 TTTTAATAT
15705683 ATTTTAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 9 0.19
16 9 0.19
17 8 0.17
18 11 0.23
19 11 0.23
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATTAAATATTA
Found at i:15705683 original size:31 final size:29
Alignment explanation
Indices: 15705612--15705709 Score: 80
Period size: 34 Copynumber: 3.3 Consensus size: 29
15705602 GTGTTTTTTA
15705612 TATTAATATAATATTTTAATATTAAATAT
1 TATTAATATAATATTTTAATATTAAATAT
15705641 TATTAACATATAATTATTTTTTAATATT-AATAAT
1 TATT-A-ATATAA-TA--TTTTAATATTAAAT-AT
*
15705675 T-TT-A-AT-ATATTTTAATAATAAATAAT
1 TATTAATATAATATTTTAATATTAAAT-AT
*
15705701 TTTTAATAT
1 TATTAATAT
15705710 TTTAATAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 20
0.73 0.01 0.25
Matches are distributed among these distances:
25 9 0.16
26 7 0.12
27 4 0.07
28 2 0.03
29 8 0.14
30 2 0.03
31 6 0.10
32 2 0.03
33 5 0.09
34 13 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TATTAATATAATATTTTAATATTAAATAT
Found at i:15705686 original size:10 final size:9
Alignment explanation
Indices: 15705662--15705719 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
15705652 AATTATTTTT
*
15705662 TAATATTAA
1 TAATTTTAA
15705671 TAATTTTAA
1 TAATTTTAA
15705680 TATATTTTAA
1 TA-ATTTTAA
*
15705690 TAA--TAAA
1 TAATTTTAA
15705697 TAATTTTTAA
1 TAA-TTTTAA
15705707 T-ATTTTAA
1 TAATTTTAA
15705715 TAATT
1 TAATT
15705720 GTATTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 6 0.15
8 7 0.17
9 15 0.37
10 13 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATTTTAA
Found at i:15705709 original size:25 final size:26
Alignment explanation
Indices: 15705659--15705718 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
15705649 TATAATTATT
*
15705659 TTTTAAT-ATTAATAATTTTAATATA
1 TTTTAATAATAAATAATTTTAATATA
*
15705684 TTTTAATAATAAATAATTTTTA-ATA
1 TTTTAATAATAAATAATTTTAATATA
15705709 TTTTAATAAT
1 TTTTAATAAT
15705719 TGTATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAATAATAAATAATTTTAATATA
Found at i:15705728 original size:20 final size:18
Alignment explanation
Indices: 15705667--15705730 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 18
15705657 TTTTTTAATA
15705667 TTAATAATTTTAAT-ATATT
1 TTAAT-ATTTTAATAAT-TT
* *
15705686 TTAATA-ATAAATAATTT
1 TTAATATTTTAATAATTT
15705703 TTAATATTTTAATAATTGT
1 TTAATATTTTAATAATT-T
15705722 ATTAATATT
1 -TTAATATT
15705731 ATTTTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.32
18 11 0.30
19 6 0.16
20 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTAATATTTTAATAATTT
Found at i:15706802 original size:62 final size:60
Alignment explanation
Indices: 15706731--15706920 Score: 204
Period size: 61 Copynumber: 3.1 Consensus size: 60
15706721 TGTCCAAAAG
* * * *
15706731 TACAAGAATATCCTTACTCCTC-TAATTGGTTAAAATTACTATAATGCTCTTCTTACCATAAT
1 TACAAGAATA-CCTTCCT-ATCATAATTGGTTAAAATTA-TATAATGCTCCTCCTACCATAAT
* * *
15706793 TACAAGAATACCATTCCTATCATAATTGGCTAAAATTATAATAATGC-CCTCCCAACATAAT
1 TACAAGAATACC-TTCCTATCATAATTGGTTAAAATTAT-ATAATGCTCCTCCTACCATAAT
* * * *
15706854 TACAAAAACACTCTTCCTATCATAATTGGTTAAAATTATTATAATGATCCACCTACCATAAT
1 TACAAGAATAC-CTTCCTATCATAATTGGTTAAAATTA-TATAATGCTCCTCCTACCATAAT
15706916 TACAA
1 TACAA
15706921 AATGACATGT
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
61 54 0.50
62 54 0.50
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.34
Consensus pattern (60 bp):
TACAAGAATACCTTCCTATCATAATTGGTTAAAATTATATAATGCTCCTCCTACCATAAT
Found at i:15712690 original size:22 final size:23
Alignment explanation
Indices: 15712665--15712730 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
15712655 ATTTTAAATG
15712665 CAATATAT-AAAAACAAAATGTA
1 CAATATATGAAAAACAAAATGTA
* *
15712687 CAAT-TATGAATATACTAATATGTA
1 CAATATATGAA-AAAC-AAAATGTA
*
15712711 -AATATATGTAAAACAAAATG
1 CAATATATGAAAAACAAAATG
15712731 AATATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.09
22 11 0.31
23 9 0.26
24 12 0.34
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (23 bp):
CAATATATGAAAAACAAAATGTA
Found at i:15712975 original size:9 final size:10
Alignment explanation
Indices: 15712948--15712987 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
15712938 ATCTAAAAAT
*
15712948 TATTTTTATA
1 TATTTTAATA
15712958 TATTATTAATA
1 TATT-TTAATA
15712969 TA-TTTAATA
1 TATTTTAATA
15712978 TATTTTAATA
1 TATTTTAATA
15712988 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 8 0.30
10 12 0.44
11 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTTAATA
Found at i:15713407 original size:16 final size:16
Alignment explanation
Indices: 15713386--15713424 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15713376 TTATTAAAAT
*
15713386 ATAATTTTGAAT-ATTA
1 ATAATTTT-AATGATAA
15713402 ATAATTTTAATGATAA
1 ATAATTTTAATGATAA
15713418 ATAATTT
1 ATAATTT
15713425 CAATATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
ATAATTTTAATGATAA
Found at i:15713508 original size:16 final size:16
Alignment explanation
Indices: 15713483--15713513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15713473 TTAATATTAT
15713483 TTTTTAAAAAAATAAA
1 TTTTTAAAAAAATAAA
*
15713499 TTTTTCAAAAAATAA
1 TTTTTAAAAAAATAA
15713514 CTACACAACA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTTTAAAAAAATAAA
Found at i:15715217 original size:16 final size:16
Alignment explanation
Indices: 15715192--15715226 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15715182 TTTTAATAAG
* *
15715192 ATATAGAATTACCTAC
1 ATATAAAATTACCAAC
15715208 ATATAAAATTACCAAC
1 ATATAAAATTACCAAC
15715224 ATA
1 ATA
15715227 CCCTTACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAAAATTACCAAC
Found at i:15717486 original size:106 final size:105
Alignment explanation
Indices: 15717297--15717493 Score: 240
Period size: 106 Copynumber: 1.9 Consensus size: 105
15717287 GAAATTAATT
* * * *
15717297 ATTTAAAAATAATTAATAAAATCTTTTAATAGTTAGATAGAATTTTATTTTGATGCATATCACAC
1 ATTTAAAAATAATTAATAAAATATTCTAATAATTAGATAGAATTTTATTTTGATGCATACCACAC
*
15717362 AATAGTTTGGTAGGATTTTTATTTAAAAACCTTTTCATGAA
66 AATAGTTTGGTA-GAATTTTATTTAAAAACCTTTTCATGAA
* * *
15717403 ATTTAAAAAATAATT-ATTAAATATTCTAATAATTTGATA-AGATTTTATTTTGATGCATACCTC
1 ATTT-AAAAATAATTAATAAAATATTCTAATAATTAGATAGA-ATTTTATTTTGATGCATACCAC
*
15717466 CCAATAGTTTAGCG-A-AATTTTATTTAAA
64 ACAATAGTTT-G-GTAGAATTTTATTTAAA
15717494 GATTATTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
105 13 0.17
106 52 0.67
107 12 0.15
108 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (105 bp):
ATTTAAAAATAATTAATAAAATATTCTAATAATTAGATAGAATTTTATTTTGATGCATACCACAC
AATAGTTTGGTAGAATTTTATTTAAAAACCTTTTCATGAA
Found at i:15717525 original size:24 final size:24
Alignment explanation
Indices: 15717484--15717532 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15717474 TTAGCGAAAT
**
15717484 TTTATTTAAAGATTATTTATAAAA
1 TTTATTTAAAGAAAATTTATAAAA
* *
15717508 TTTATTTTAAGAAAATTTATTAAA
1 TTTATTTAAAGAAAATTTATAAAA
15717532 T
1 T
15717533 CTTTCAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTTATTTAAAGAAAATTTATAAAA
Found at i:15718906 original size:21 final size:22
Alignment explanation
Indices: 15718881--15718932 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15718871 GTTTAAAAAA
**
15718881 AAAATAAAATTTTAAGTCTAT-
1 AAAATAAAATAATAAGTCTATC
* *
15718902 AAAATAAAGTAATAAGTTTATC
1 AAAATAAAATAATAAGTCTATC
15718924 AAAATAAAA
1 AAAATAAAA
15718933 GTAAAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAATAAAATAATAAGTCTATC
Found at i:15721011 original size:102 final size:102
Alignment explanation
Indices: 15720835--15721041 Score: 414
Period size: 102 Copynumber: 2.0 Consensus size: 102
15720825 TTGCGAGTAC
15720835 TAATGTATTATTTACACTCCTAGCGCCAAGTGATGATATAAGTTGGCATTTTGGAACACCTGTTC
1 TAATGTATTATTTACACTCCTAGCGCCAAGTGATGATATAAGTTGGCATTTTGGAACACCTGTTC
15720900 CAAATACAAGAGAAAATGTTTCATGTAAACTTTATGG
66 CAAATACAAGAGAAAATGTTTCATGTAAACTTTATGG
15720937 TAATGTATTATTTACACTCCTAGCGCCAAGTGATGATATAAGTTGGCATTTTGGAACACCTGTTC
1 TAATGTATTATTTACACTCCTAGCGCCAAGTGATGATATAAGTTGGCATTTTGGAACACCTGTTC
15721002 CAAATACAAGAGAAAATGTTTCATGTAAACTTTATGG
66 CAAATACAAGAGAAAATGTTTCATGTAAACTTTATGG
15721039 TAA
1 TAA
15721042 AGTTGTAAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 105 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (102 bp):
TAATGTATTATTTACACTCCTAGCGCCAAGTGATGATATAAGTTGGCATTTTGGAACACCTGTTC
CAAATACAAGAGAAAATGTTTCATGTAAACTTTATGG
Found at i:15723810 original size:27 final size:27
Alignment explanation
Indices: 15723771--15723822 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
15723761 GTCCAACACC
15723771 AAGTCAGAGTGATGATGGTGATGGTTT
1 AAGTCAGAGTGATGATGGTGATGGTTT
15723798 AAGTCCAGA-TGATGATGGTGATGGT
1 AAGT-CAGAGTGATGATGGTGATGGT
15723823 GATGGTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.37, T:0.31
Consensus pattern (27 bp):
AAGTCAGAGTGATGATGGTGATGGTTT
Found at i:15723814 original size:6 final size:6
Alignment explanation
Indices: 15723805--15723865 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
15723795 TTTAAGTCCA
* * * *
15723805 GATGAT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGA GATAGA
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
15723853 GATGGT GATGGT G
1 GATGGT GATGGT G
15723866 CGAATTTTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.23, C:0.00, G:0.48, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:15724259 original size:18 final size:17
Alignment explanation
Indices: 15724236--15724334 Score: 78
Period size: 18 Copynumber: 5.7 Consensus size: 17
15724226 TTCCACCTCT
15724236 TCAAATGTATCATTAACC
1 TCAAATGTATCATT-ACC
*
15724254 TCAAATATATCATTTA-C
1 TCAAATGTATCA-TTACC
***
15724271 TACAAATGTATCCCCCACC
1 T-CAAATGTAT-CATTACC
*
15724290 ACAAATGTATCATT--C
1 TCAAATGTATCATTACC
*
15724305 TCAAATATATCATCTACC
1 TCAAATGTATCAT-TACC
15724323 TCAAATGTATCA
1 TCAAATGTATCA
15724335 AAAACAAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
15 12 0.19
16 1 0.02
17 3 0.05
18 42 0.68
19 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.32
Consensus pattern (17 bp):
TCAAATGTATCATTACC
Found at i:15725713 original size:13 final size:13
Alignment explanation
Indices: 15725695--15725720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15725685 GTATATAAAT
15725695 AAATAAAATCAAA
1 AAATAAAATCAAA
15725708 AAATAAAATCAAA
1 AAATAAAATCAAA
15725721 TTAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAATCAAA
Found at i:15729605 original size:29 final size:29
Alignment explanation
Indices: 15729573--15729632 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15729563 TTCCATTTAC
*
15729573 TTAGCCAAATTATAAGTATGAGTAAGGTT
1 TTAGCCAAATTATAAGCATGAGTAAGGTT
*
15729602 TTAGCCAAATTATAAGCATGAGTATGGTT
1 TTAGCCAAATTATAAGCATGAGTAAGGTT
15729631 TT
1 TT
15729633 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (29 bp):
TTAGCCAAATTATAAGCATGAGTAAGGTT
Found at i:15730836 original size:20 final size:20
Alignment explanation
Indices: 15730808--15730845 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15730798 TTTTACAAAT
* *
15730808 AAATGAATACATAAATAGTA
1 AAATAAATAAATAAATAGTA
15730828 AAATAAATAAATAAATAG
1 AAATAAATAAATAAATAG
15730846 ACAATTATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (20 bp):
AAATAAATAAATAAATAGTA
Found at i:15747136 original size:25 final size:23
Alignment explanation
Indices: 15747105--15747171 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 23
15747095 CATTTGAGAT
15747105 AAATTTTAAAAAATTTCTCACTTAA
1 AAATTTTAAAAAATTTCT-A-TTAA
*
15747130 AAATTTTATAAAAATTTACTATTTA
1 AAATTTTA-AAAAATTT-CTATTAA
15747155 AAATTTTAAAAAATTTC
1 AAATTTTAAAAAATTTC
15747172 ATCATTGGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 19 0.49
26 9 0.23
27 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTTAAAAAATTTCTATTAA
Found at i:15748201 original size:12 final size:11
Alignment explanation
Indices: 15748184--15748295 Score: 64
Period size: 12 Copynumber: 9.5 Consensus size: 11
15748174 AATTGGAGAC
15748184 AAATCAAATAAA
1 AAAT-AAATAAA
15748196 AAATCAAAGATAAA
1 AAAT--AA-ATAAA
*
15748210 AAACAAAT-AA
1 AAATAAATAAA
* * *
15748220 TAATCAACAAA
1 AAATAAATAAA
*
15748231 AAATAAATCCAA
1 AAATAAAT-AAA
*
15748243 AAATAAATAAGT
1 AAATAAATAA-A
*
15748255 AAATAGATAAA
1 AAATAAATAAA
*
15748266 TAATAAATAAA
1 AAATAAATAAA
*
15748277 TAAATAAAATATA
1 -AAAT-AAATAAA
15748290 AAATAA
1 AAATAA
15748296 TGAATGACTG
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
10 6 0.08
11 21 0.28
12 32 0.43
13 8 0.11
14 8 0.11
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:15748250 original size:4 final size:4
Alignment explanation
Indices: 15748243--15748284 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
15748233 ATAAATCCAA
* *
15748243 AAAT AAAT AAGT AAAT AGAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15748285 ATATAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:15748276 original size:19 final size:20
Alignment explanation
Indices: 15748243--15748284 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15748233 ATAAATCCAA
* *
15748243 AAATAAATAAGTAAATAGAT
1 AAATAAATAAATAAATAAAT
15748263 AAAT-AATAAATAAATAAAT
1 AAATAAATAAATAAATAAAT
15748282 AAA
1 AAA
15748285 ATATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAAATAAATAAATAAAT
Found at i:15748587 original size:44 final size:44
Alignment explanation
Indices: 15748519--15748712 Score: 212
Period size: 44 Copynumber: 4.4 Consensus size: 44
15748509 CCCCATAACT
* * * * *
15748519 TTTG-AAAAATAAATAATGCACCTCTAAGCAGAGGCTCATTGAC
1 TTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAATGAC
**
15748562 TTT-AGAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAACAAC
1 TTTGA-AAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAATGAC
* * * **
15748606 ATTGAAAAAATAACTAAGGCTTATCTAATCAAAGGCTCAATGAC
1 TTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAATGAC
* ** **
15748650 TTTGAAAAAATAAATAAAGCTCTTCTAATCAAAGATTCAACAAC
1 TTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAATGAC
15748694 TTTGAAAAAATAAATAAAG
1 TTTGAAAAAATAAATAAAG
15748713 AAGTAGACAC
Statistics
Matches: 125, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.02
44 121 0.97
45 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (44 bp):
TTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTCAATGAC
Found at i:15748618 original size:88 final size:88
Alignment explanation
Indices: 15748523--15748710 Score: 252
Period size: 88 Copynumber: 2.1 Consensus size: 88
15748513 ATAACTTTTG
* * * *
15748523 AAAAATAAATAATGCACCTCTAAGCAGAGGCTCATTGACTTT-AGAAAAATAAATAAAGCTCCTC
1 AAAAATAAATAAGGCACATCTAAGCAAAGGCTCAATGACTTTGA-AAAAATAAATAAAGCTCCTC
*
15748587 TAATCAAAGGCTCAACAACATTGA
65 TAATCAAAGACTCAACAACATTGA
* ** * *
15748611 AAAAATAACTAAGGCTTATCTAATCAAAGGCTCAATGACTTTGAAAAAATAAATAAAGCTCTTCT
1 AAAAATAAATAAGGCACATCTAAGCAAAGGCTCAATGACTTTGAAAAAATAAATAAAGCTCCTCT
* *
15748676 AATCAAAGATTCAACAACTTTGA
66 AATCAAAGACTCAACAACATTGA
15748699 AAAAATAAATAA
1 AAAAATAAATAA
15748711 AGAAGTAGAC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 85 0.99
89 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.24
Consensus pattern (88 bp):
AAAAATAAATAAGGCACATCTAAGCAAAGGCTCAATGACTTTGAAAAAATAAATAAAGCTCCTCT
AATCAAAGACTCAACAACATTGA
Found at i:15749104 original size:19 final size:18
Alignment explanation
Indices: 15749063--15749107 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15749053 TTCATATTCT
*
15749063 CAAGAATTTTTAGGTTCG
1 CAAGAATTTTTAGCTTCG
* *
15749081 TAAGAATTTTTCAGCTTTG
1 CAAGAATTTTT-AGCTTCG
15749100 CAAGAATT
1 CAAGAATT
15749108 CACAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (18 bp):
CAAGAATTTTTAGCTTCG
Found at i:15749142 original size:95 final size:95
Alignment explanation
Indices: 15748952--15749199 Score: 328
Period size: 96 Copynumber: 2.6 Consensus size: 95
15748942 TTTTACTATC
* * * *
15748952 AAAATTTCAATTTCACAAGAATTTTTAGGTTCGCAAGAATTTTACAGCTTTGTAAGAATTCACAA
1 AAAATTTCAA-TTCTCAAGAATTTTTAGGTTCGTAAGAATTTTTCAGCTTTGCAAGAATTCACAA
15749017 AAAATTTGATTATCAAAATTTCAGTTTCACA
65 AAAATTTGATTATCAAAATTTCAGTTTCACA
15749048 AAAATTTCATATTCTCAAGAATTTTTAGGTTCGTAAGAATTTTTCAGCTTTGCAAGAATTCAC-A
1 AAAATTTCA-ATTCTCAAGAATTTTTAGGTTCGTAAGAATTTTTCAGCTTTGCAAGAATTCACAA
*
15749112 AAAATTTGATTATCAAAATTTTAGTTTCACA
65 AAAATTTGATTATCAAAATTTCAGTTTCACA
* * * * * *
15749143 AGAATTT-GATTCGT-AA-AA-TTTCAGATTCGTAAG-ATTTTTTAGCTTCGCAAGAATTCA
1 AAAATTTCAATTC-TCAAGAATTTTTAGGTTCGTAAGAATTTTTCAGCTTTGCAAGAATTCA
15749200 GATTCGTAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
90 22 0.16
91 13 0.09
92 2 0.01
93 6 0.04
94 1 0.01
95 37 0.27
96 57 0.41
97 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (95 bp):
AAAATTTCAATTCTCAAGAATTTTTAGGTTCGTAAGAATTTTTCAGCTTTGCAAGAATTCACAAA
AAATTTGATTATCAAAATTTCAGTTTCACA
Found at i:15749171 original size:16 final size:17
Alignment explanation
Indices: 15749142--15749208 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
15749132 TTAGTTTCAC
15749142 AAGAATTT--GATTCGT
1 AAGAATTTCAGATTCGT
15749157 AA-AATTTCAGATTCGT
1 AAGAATTTCAGATTCGT
* * * *
15749173 AAGATTTTTTAGCTTCGC
1 AAGA-ATTTCAGATTCGT
15749191 AAGAA-TTCAGATTCGT
1 AAGAATTTCAGATTCGT
15749207 AA
1 AA
15749209 AAATCTAGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
14 5 0.12
15 2 0.05
16 19 0.47
17 1 0.03
18 13 0.32
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (17 bp):
AAGAATTTCAGATTCGT
Found at i:15749554 original size:43 final size:44
Alignment explanation
Indices: 15749461--15749545 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 44
15749451 TCCTCATTCG
* *
15749461 AGTTCAAAGATTCACATT-AATAAATCTTAGAGTTTCACATCCA
1 AGTTCAAAGATTCTCATTCAATAAATCTTAGAGGTTCACATCCA
*
15749504 AGTTCAAAGGTTCTCATTCAA-AAAT-TTAG-GGTTCACATCCA
1 AGTTCAAAGATTCTCATTCAATAAATCTTAGAGGTTCACATCCA
15749545 A
1 A
15749546 AATTTCAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 12 0.32
42 4 0.11
43 20 0.53
44 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (44 bp):
AGTTCAAAGATTCTCATTCAATAAATCTTAGAGGTTCACATCCA
Found at i:15750748 original size:21 final size:21
Alignment explanation
Indices: 15750722--15750768 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15750712 TAAGTCATTC
* **
15750722 TTTTCTCTCCTTTTGCATTTT
1 TTTTCTCTCATTTAACATTTT
*
15750743 TTTTCTTTCATTTAACATTTT
1 TTTTCTCTCATTTAACATTTT
15750764 TTTTC
1 TTTTC
15750769 ATTTTTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTCTCTCATTTAACATTTT
Found at i:15750775 original size:9 final size:10
Alignment explanation
Indices: 15750758--15750785 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15750748 TTTCATTTAA
15750758 CATTTTTTTT
1 CATTTTTTTT
15750768 CATTTTTTTT
1 CATTTTTTTT
15750778 CATTTTTT
1 CATTTTTT
15750786 CTTTTCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (10 bp):
CATTTTTTTT
Found at i:15751175 original size:14 final size:14
Alignment explanation
Indices: 15751135--15751180 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
15751125 TTTTTTTCTC
**
15751135 TTTTTTTGTTTTGC
1 TTTTTTTGTTTTTA
15751149 TTTGTTTT-TTTTTA
1 TTT-TTTTGTTTTTA
15751163 TTTTTTTGTTTTTA
1 TTTTTTTGTTTTTA
15751177 TTTT
1 TTTT
15751181 ATTTTTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTTTTA
Found at i:15751175 original size:19 final size:18
Alignment explanation
Indices: 15751125--15751186 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 18
15751115 TCGCATTCAT
* * *
15751125 TTTTTTTCTCTTTTTTTG
1 TTTTTTTGTTTTTTTTTA
15751143 TTTTGCTTTGTTTTTTTTTA
1 TTTT--TTTGTTTTTTTTTA
15751163 TTTTTTTGTTTTTATTTTA
1 TTTTTTTGTTTTT-TTTTA
15751182 TTTTT
1 TTTTT
15751187 CTATTATTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 13 0.34
19 10 0.26
20 15 0.39
ACGTcount: A:0.05, C:0.05, G:0.06, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTA
Found at i:15751185 original size:28 final size:29
Alignment explanation
Indices: 15751124--15751191 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
15751114 GTCGCATTCA
* *
15751124 TTTTTTTTCTCTTTTTTTGTTTTGCTTTG
1 TTTTTTTTCTATTTTTTTGTTTTGATTTG
*
15751153 TTTTTTTT-TATTTTTTTGTTTTTA-TT-
1 TTTTTTTTCTATTTTTTTGTTTTGATTTG
*
15751179 TTATTTTTCTATT
1 TTTTTTTTCTATT
15751192 ATTGAGACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 7 0.21
27 6 0.18
28 13 0.38
29 8 0.24
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (29 bp):
TTTTTTTTCTATTTTTTTGTTTTGATTTG
Found at i:15756383 original size:23 final size:21
Alignment explanation
Indices: 15756357--15756404 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
15756347 AATTAGAGAT
*
15756357 AAATCAAATAAAAAACCAACAAA
1 AAATCAAAGAAAAAA--AACAAA
*
15756380 AAATCAAAGATAAAAAACAAA
1 AAATCAAAGAAAAAAAACAAA
15756401 AAAT
1 AAAT
15756405 AATTAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.75, C:0.12, G:0.02, T:0.10
Consensus pattern (21 bp):
AAATCAAAGAAAAAAAACAAA
Found at i:15756907 original size:3 final size:3
Alignment explanation
Indices: 15756899--15756939 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15756889 TATGTAAATG
15756899 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15756940 CCAAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15758995 original size:17 final size:17
Alignment explanation
Indices: 15758973--15759024 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
15758963 TAATATAAAT
15758973 AAATATTCAAATTTTAA
1 AAATATTCAAATTTTAA
* *
15758990 AAATATT-TATTTTTAA
1 AAATATTCAAATTTTAA
15759006 AAA-ATTCTAAAATTTTAA
1 AAATATTC--AAATTTTAA
15759024 A
1 A
15759025 TTTTAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 7 0.25
18 8 0.29
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATTCAAATTTTAA
Found at i:15759333 original size:17 final size:17
Alignment explanation
Indices: 15759292--15759333 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
15759282 TAGTGTAACA
15759292 AATATATTTTTTTAATTT
1 AATAT-TTTTTTTAATTT
*
15759310 AAAATTTTTTTTAAGTTT
1 AATATTTTTTTTAA-TTT
15759328 -ATATTT
1 AATATTT
15759334 AATATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATATTTTTTTTAATTT
Found at i:15765883 original size:10 final size:10
Alignment explanation
Indices: 15765867--15765904 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
15765857 TTTCATATAA
15765867 TAAAAAAT-C
1 TAAAAAATAC
15765876 TCAAAAAATAC
1 T-AAAAAATAC
15765887 TAAAAAGATAC
1 TAAAAA-ATAC
15765898 TAAAAAA
1 TAAAAAA
15765905 ATCAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.04
10 13 0.50
11 12 0.46
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (10 bp):
TAAAAAATAC
Found at i:15765892 original size:11 final size:11
Alignment explanation
Indices: 15765868--15765906 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15765858 TTCATATAAT
*
15765868 AAAAAAT-CTC
1 AAAAAATACTA
15765878 AAAAAATACTA
1 AAAAAATACTA
*
15765889 AAAAGATACTA
1 AAAAAATACTA
15765900 AAAAAAT
1 AAAAAAT
15765907 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAAATACTA
Found at i:15766136 original size:19 final size:21
Alignment explanation
Indices: 15766096--15766140 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
15766086 TCATAATATA
*
15766096 ATTTTGTTTCTTTTTTTGTTT
1 ATTTTGTTTCTTTTTCTGTTT
15766117 ATTTT-TTTCTTTTTCT-TTT
1 ATTTTGTTTCTTTTTCTGTTT
15766136 ATTTT
1 ATTTT
15766141 ATTTAGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 10 0.43
21 5 0.22
ACGTcount: A:0.07, C:0.07, G:0.04, T:0.82
Consensus pattern (21 bp):
ATTTTGTTTCTTTTTCTGTTT
Found at i:15768192 original size:8 final size:8
Alignment explanation
Indices: 15768168--15768211 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
15768158 ATTTATTTTC
15768168 AAACA-AA
1 AAACATAA
*
15768175 AAATATTAA
1 AAACA-TAA
15768184 AAACATAA
1 AAACATAA
15768192 AAAGCATAA
1 AAA-CATAA
15768201 AAACATAA
1 AAACATAA
15768209 AAA
1 AAA
15768212 AAAATTTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 4 0.12
8 14 0.44
9 14 0.44
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (8 bp):
AAACATAA
Found at i:15774524 original size:16 final size:17
Alignment explanation
Indices: 15774491--15774524 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15774481 CAATATAATT
15774491 AAATATTTCAAATTTAA
1 AAATATTTCAAATTTAA
*
15774508 AAATATTT-AATTTTAA
1 AAATATTTCAAATTTAA
15774524 A
1 A
15774525 GATTCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATTTCAAATTTAA
Found at i:15775910 original size:6 final size:7
Alignment explanation
Indices: 15775895--15775919 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15775885 TATTCCCAAA
15775895 TTTTATT
1 TTTTATT
15775902 TTTTATT
1 TTTTATT
15775909 TTTTATT
1 TTTTATT
15775916 TTTT
1 TTTT
15775920 CTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:15775966 original size:12 final size:12
Alignment explanation
Indices: 15775951--15775984 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
15775941 AAAGAAAGAA
15775951 AAAAATACTAAG
1 AAAAATACTAAG
*
15775963 AAAAA-AATAAG
1 AAAAATACTAAG
15775974 AAAAATACTAA
1 AAAAATACTAA
15775985 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAATACTAAG
Found at i:15776921 original size:5 final size:5
Alignment explanation
Indices: 15776911--15776984 Score: 60
Period size: 5 Copynumber: 13.6 Consensus size: 5
15776901 CCTATTATCT
*
15776911 TAAAA TAAAA TAAATAA TAAAA CTCAAAAA TAAAA TAAAA TAATAA -AAAG
1 TAAAA TAAAA T-AA-AA TAAAA -T--AAAA TAAAA TAAAA TAA-AA TAAAA
*
15776961 TCAAA TAGAAA TAAAA TAAAA TAA
1 TAAAA TA-AAA TAAAA TAAAA TAA
15776985 CAAATAATTG
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 1 0.02
5 36 0.63
6 12 0.21
7 4 0.07
8 4 0.07
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:15776958 original size:26 final size:26
Alignment explanation
Indices: 15776912--15776979 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
15776902 CTATTATCTT
15776912 AAAATAAAAT-AAATAAT-AAAACTC
1 AAAATAAAATAAAATAATAAAAACTC
*
15776936 AAAAATAAAATAAAATAATAAAAAGTC
1 -AAAATAAAATAAAATAATAAAAACTC
15776963 -AAATAGAAATAAAATAA
1 AAAATA-AAATAAAATAA
15776980 AATAACAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 15 0.38
26 18 0.46
27 6 0.15
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (26 bp):
AAAATAAAATAAAATAATAAAAACTC
Found at i:15782095 original size:2 final size:2
Alignment explanation
Indices: 15782088--15782120 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15782078 TTAAACCAAC
*
15782088 TA TA TA TA CA 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 TA TA TA TA T
15782121 TACCAGGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15785559 original size:77 final size:77
Alignment explanation
Indices: 15785432--15785665 Score: 398
Period size: 77 Copynumber: 3.0 Consensus size: 77
15785422 ATTTAATCCT
* * * *
15785432 TTTAAAAA-GGGAAGCCCTAAAGGGAATGGTTAGCTTTTGACTTGGAGGCACATGGAATACTTCG
1 TTTAAAAACGGG-AGCCCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGG
*
15785496 CATATGGGCCATC
65 CATATGCGCCATC
*
15785509 TTTAAAAACGGGAGCTCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGGC
1 TTTAAAAACGGGAGCCCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGGC
15785574 ATATGCGCCATC
66 ATATGCGCCATC
15785586 TTTAAAAACGGGAGCCCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGGC
1 TTTAAAAACGGGAGCCCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGGC
15785651 ATATGCGCCATC
66 ATATGCGCCATC
15785663 TTT
1 TTT
15785666 TGACGGTGAT
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
77 146 0.98
78 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (77 bp):
TTTAAAAACGGGAGCCCTAAAGGCAATGGTTAGCTTTTGACTTGGGGGCACAAGGAATACTTGGC
ATATGCGCCATC
Found at i:15786124 original size:14 final size:15
Alignment explanation
Indices: 15786105--15786145 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
15786095 GATAATGAAT
15786105 TTATTTTT-TTAAAA
1 TTATTTTTATTAAAA
15786119 TTATTTTTATTAAAA
1 TTATTTTTATTAAAA
*
15786134 TTGATTTATATT
1 TT-ATTTTTATT
15786146 TTGTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTTTATTAAAA
Found at i:15786126 original size:15 final size:16
Alignment explanation
Indices: 15786102--15786145 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
15786092 AAAGATAATG
*
15786102 AATTTATTTTT-TTAA
1 AATTGATTTTTATTAA
15786117 AATT-ATTTTTATTAA
1 AATTGATTTTTATTAA
*
15786132 AATTGATTTATATT
1 AATTGATTTTTATT
15786146 TTGTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 12 0.46
16 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
AATTGATTTTTATTAA
Found at i:15791428 original size:3 final size:3
Alignment explanation
Indices: 15791420--15791471 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
15791410 GGTTGCTGAG
* * * * *
15791420 GTT GTT GTT GTT GTT GCT GCT GCT GCT GTT GTT GTT GTT GTT GTT GAT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
15791468 GTT G
1 GTT G
15791472 GTGGGTGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.02, C:0.08, G:0.35, T:0.56
Consensus pattern (3 bp):
GTT
Found at i:15792858 original size:16 final size:16
Alignment explanation
Indices: 15792837--15792867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15792827 TTTTGGTAAG
*
15792837 TTAAAATTTAGATATT
1 TTAAAATTTAAATATT
15792853 TTAAAATTTAAATAT
1 TTAAAATTTAAATAT
15792868 AAAATATTTG
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAAATTTAAATATT
Found at i:15793008 original size:25 final size:25
Alignment explanation
Indices: 15792980--15793028 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15792970 TTTTAAACCT
*
15792980 TATA-ATAT-TATATGTATGTGATA
1 TATATATATATATATGTATATGATA
*
15793003 TATATATATATGTATGTATATGATA
1 TATATATATATATATGTATATGATA
15793028 T
1 T
15793029 GATTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 4 0.18
25 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (25 bp):
TATATATATATATATGTATATGATA
Found at i:15793012 original size:21 final size:20
Alignment explanation
Indices: 15792984--15793028 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
15792974 AAACCTTATA
15792984 ATATTATATGTATGTGATAT-
1 ATATTATATGTATGT-ATATG
15793004 ATATATATATGTATGTATATG
1 ATAT-TATATGTATGTATATG
15793025 ATAT
1 ATAT
15793029 GATTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (20 bp):
ATATTATATGTATGTATATG
Found at i:15793177 original size:22 final size:22
Alignment explanation
Indices: 15793110--15793178 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
15793100 ACTCTATGAT
*
15793110 ATAAGTTACATGTTATATACATAT
1 ATAAGTTACATGTTATAT--ATAC
* ** *
15793134 ATAAATTATACAAATTAAATATAC
1 AT-AAGT-TACATGTTATATATAC
15793158 ATAAGTTACATGTTATATATA
1 ATAAGTTACATGTTATATATA
15793179 AATTGATTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
22 12 0.35
23 3 0.09
24 7 0.21
25 3 0.09
26 9 0.26
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (22 bp):
ATAAGTTACATGTTATATATAC
Found at i:15794059 original size:13 final size:12
Alignment explanation
Indices: 15794035--15794075 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
15794025 AAAAAGATAG
15794035 TAATAT-TATAC
1 TAATATATATAC
15794046 TAATATAGTATAC
1 TAATATA-TATAC
*
15794059 TATTATATATA-
1 TAATATATATAC
15794070 TAATAT
1 TAATAT
15794076 TAAATAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 11 0.42
12 4 0.15
13 11 0.42
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (12 bp):
TAATATATATAC
Found at i:15794160 original size:26 final size:26
Alignment explanation
Indices: 15794105--15794158 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15794095 GAATATAGAT
*
15794105 AATATATAAAATAGAAATTAAAATAA
1 AATATATAAAATAGAAATAAAAATAA
* *
15794131 AATATATAATATAGAGATAAATAATAA
1 AATATATAAAATAGAAATAAA-AATAA
15794158 A
1 A
15794159 TAATTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
AATATATAAAATAGAAATAAAAATAA
Found at i:15795047 original size:2 final size:2
Alignment explanation
Indices: 15795040--15795080 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
15795030 AGTAAATCTT
15795040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
15795081 AACACGTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15800455 original size:15 final size:14
Alignment explanation
Indices: 15800431--15800459 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15800421 TCTTAAATAA
15800431 ATTTTTAAAAATTC
1 ATTTTTAAAAATTC
15800445 ATTTTTAAAAATTC
1 ATTTTTAAAAATTC
15800459 A
1 A
15800460 GAATTACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTTAAAAATTC
Found at i:15800750 original size:14 final size:14
Alignment explanation
Indices: 15800725--15800765 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
15800715 AACTTTTAAA
15800725 ATTTTATAAAAATAT
1 ATTTT-TAAAAATAT
*
15800740 ATTTTTAAAAATGT
1 ATTTTTAAAAATAT
15800754 ATTTTTTAAAAA
1 A-TTTTTAAAAA
15800766 ATAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTTTTAAAAATAT
Found at i:15801075 original size:25 final size:25
Alignment explanation
Indices: 15801026--15801077 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15801016 TAAAATATTG
*
15801026 ATAATATTATTAAATATTCACAAAT
1 ATAATATTATTAAATATTAACAAAT
* * *
15801051 ATAATATTTTTAAATTTTAATAAAT
1 ATAATATTATTAAATATTAACAAAT
15801076 AT
1 AT
15801078 CGAACTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAATATTATTAAATATTAACAAAT
Found at i:15810223 original size:29 final size:30
Alignment explanation
Indices: 15810168--15810228 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
15810158 TCATATTGTA
*
15810168 TATTTTATTTATATATATTTTTAATATCAT
1 TATTTTATCTATATATATTTTTAATATCAT
*
15810198 TATTTT-TCTATAT-TATTATTTTATATCAT
1 TATTTTATCTATATATATT-TTTAATATCAT
15810227 TA
1 TA
15810229 AATTCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 18 0.64
30 6 0.21
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTATCTATATATATTTTTAATATCAT
Found at i:15810228 original size:16 final size:14
Alignment explanation
Indices: 15810166--15810228 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 14
15810156 ATTCATATTG
*
15810166 TATATT-TTATTTA
1 TATATTATTTTTTA
*
15810179 TATA-TATTTTTAA
1 TATATTATTTTTTA
*
15810192 TATCATTA-TTTTTC
1 TAT-ATTATTTTTTA
15810206 TATATTATTATTTTA
1 TATATTATT-TTTTA
15810221 TATCATTA
1 TAT-ATTA
15810229 AATTCTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.03
13 16 0.41
14 9 0.23
15 9 0.23
16 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTATTTTTTA
Found at i:15813190 original size:15 final size:16
Alignment explanation
Indices: 15813164--15813196 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15813154 AAACCATTAC
15813164 TTTCTTTCCTTTTCCT
1 TTTCTTTCCTTTTCCT
15813180 TTTCTTT-CTTTTCCT
1 TTTCTTTCCTTTTCCT
15813195 TT
1 TT
15813197 ATTTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTTTCCTTTTCCT
Found at i:15816393 original size:2 final size:2
Alignment explanation
Indices: 15816386--15816418 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15816376 TGAAATTTGT
*
15816386 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15816419 CTATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15816950 original size:10 final size:10
Alignment explanation
Indices: 15816935--15816959 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15816925 CTAACCAAAC
15816935 AGTTTTGACG
1 AGTTTTGACG
15816945 AGTTTTGACG
1 AGTTTTGACG
15816955 AGTTT
1 AGTTT
15816960 CTCATGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
AGTTTTGACG
Found at i:15821106 original size:52 final size:52
Alignment explanation
Indices: 15821020--15821125 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
15821010 ATTTTTTATT
* * *
15821020 TTACAAGTTTCATTTCTAAATTTTTAACAATTGGG-CTTAATTTAGAAATATC
1 TTACAAGTTTCATTTCTAAATTTTCAACAATTGGGTC-AAATTTAAAAATATC
* * **
15821072 TTACAAGTTTCATTTTTAAATTTTCACCGTTTGGGTCAAATTTAAAAATATC
1 TTACAAGTTTCATTTCTAAATTTTCAACAATTGGGTCAAATTTAAAAATATC
15821124 TT
1 TT
15821126 TCCTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (52 bp):
TTACAAGTTTCATTTCTAAATTTTCAACAATTGGGTCAAATTTAAAAATATC
Found at i:15821848 original size:22 final size:21
Alignment explanation
Indices: 15821823--15821883 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
15821813 AATATATTAC
15821823 AAATAAATAAATAATAATAATT
1 AAATAAA-AAATAATAATAATT
* * *
15821845 AAATAAAAAACTCATAAAAAAT
1 AAATAAAAAA-TAATAATAATT
15821867 AAATAAAAAA-AATAATA
1 AAATAAAAAATAATAATA
15821884 CCAAAACACC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 5 0.15
21 3 0.09
22 25 0.76
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATAATAATAATT
Found at i:15822525 original size:19 final size:19
Alignment explanation
Indices: 15822489--15822547 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
15822479 TTATCTTTTT
*
15822489 TTTTAAAATAACTAGATAAA
1 TTTTAAAA-AATTAGATAAA
15822509 TTTTAAAAAATTAGATAAA
1 TTTTAAAAAATTAGATAAA
* *
15822528 -TGTAAAGAAATTAAATAAA
1 TTTTAAA-AAATTAGATAAA
15822547 T
1 T
15822548 GCAATTAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.15
19 21 0.62
20 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (19 bp):
TTTTAAAAAATTAGATAAA
Found at i:15822600 original size:17 final size:17
Alignment explanation
Indices: 15822578--15822617 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15822568 AATAAGCAAG
*
15822578 ATAAAATAAATA-ATAA
1 ATAAAATAAAAAGATAA
15822594 TATAAAATAAAAAGATAA
1 -ATAAAATAAAAAGATAA
15822612 ATAAAA
1 ATAAAA
15822618 AATATATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAAATAAAAAGATAA
Found at i:15822921 original size:32 final size:32
Alignment explanation
Indices: 15822869--15822929 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
15822859 AATTTGGATA
* *
15822869 GAGTTAAAAGTCAAATAATGATGACTTGAACT
1 GAGTCAAAAGTCAAAAAATGATGACTTGAACT
*
15822901 GAGTCAAAAGTTAAAAAATGATGACTTGA
1 GAGTCAAAAGTCAAAAAATGATGACTTGA
15822930 TTTTAGTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (32 bp):
GAGTCAAAAGTCAAAAAATGATGACTTGAACT
Found at i:15823017 original size:35 final size:35
Alignment explanation
Indices: 15822951--15823018 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
15822941 ATAGGAAAGC
* **
15822951 AAAATGACTTGGTCTTAGCCGAAGTTGAAAAAAAT
1 AAAATGACTTGGTCTTAGCCGAAATCAAAAAAAAT
*
15822986 AAAATGACTTGGTCTTAGTCGAAATCAAAAAAA
1 AAAATGACTTGGTCTTAGCCGAAATCAAAAAAA
15823019 TTATATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (35 bp):
AAAATGACTTGGTCTTAGCCGAAATCAAAAAAAAT
Found at i:15823178 original size:33 final size:32
Alignment explanation
Indices: 15823103--15823407 Score: 172
Period size: 32 Copynumber: 9.4 Consensus size: 32
15823093 CTAACTAAAT
* * * *
15823103 CAAGGTAAAAAATGAAGGTGATCGGACTGAGC
1 CAAGATAAAAAATAAAAGTGATCGGACTGAAC
* *
15823135 CAAGATAAAAAATAAAAGTGATTGGACTTAAC
1 CAAGATAAAAAATAAAAGTGATCGGACTGAAC
* * * * * *
15823167 TAAGATAAAAAAATGAAGGTGACCGAACTAAAC
1 CAAGAT-AAAAAATAAAAGTGATCGGACTGAAC
* * * *
15823200 CAGGATAAAAAATGAAAA-TGATCAGACTAAAT
1 CAAGATAAAAAAT-AAAAGTGATCGGACTGAAC
* * * * *
15823232 CAAGGTAAAAAATGACAA-T-AACTAGACTGAGC
1 CAAGATAAAAAAT-AAAAGTGATC-GGACTGAAC
* * * *
15823264 CAAGGTAAAAAATGAAAGTGATCGAATTGAAC
1 CAAGATAAAAAATAAAAGTGATCGGACTGAAC
* *
15823296 CAAGATCAAAAAA-ATAAAGATGAACGGATTGAAC
1 CAAGAT-AAAAAATA-AAAG-TGATCGGACTGAAC
* ** * *
15823330 CGAGATCGAAAATAAAAGTCATCGGACTAAAC
1 CAAGATAAAAAATAAAAGTGATCGGACTGAAC
**
15823362 CAATG-TAGAAAAATAAAAGTGATAAGACTGAAC
1 CAA-GATA-AAAAATAAAAGTGATCGGACTGAAC
15823395 C-AGAGTAAAAAAT
1 CAAGA-TAAAAAAT
15823408 GACTAGGTCT
Statistics
Matches: 207, Mismatches: 53, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
31 5 0.02
32 114 0.55
33 70 0.34
34 18 0.09
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (32 bp):
CAAGATAAAAAATAAAAGTGATCGGACTGAAC
Found at i:15823241 original size:65 final size:64
Alignment explanation
Indices: 15823088--15823243 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 64
15823078 GAAGATAGAG
* * * *
15823088 ATGATCTA-ACTAAATCAAGGT-AAAAAATGAAGGTGATCGGACTGAGCCAAGATAAAAAATAAA
1 ATGATC-AGACTAAATCAAGGTAAAAAAATGAAGGTGACCGAACTAAACCAAGATAAAAAATAAA
** * * *
15823151 AGTGATTGGACTTAA-CTAAGATAAAAAAATGAAGGTGACCGAACTAAACCAGGATAAAAAATGA
1 A-TGATCAGACTAAATC-AAGGTAAAAAAATGAAGGTGACCGAACTAAACCAAGATAAAAAAT-A
15823215 AA
63 AA
15823217 ATGATCAGACTAAATCAAGGTAAAAAA
1 ATGATCAGACTAAATCAAGGTAAAAAA
15823244 TGACAATAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
63 2 0.03
64 13 0.18
65 54 0.73
66 5 0.07
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (64 bp):
ATGATCAGACTAAATCAAGGTAAAAAAATGAAGGTGACCGAACTAAACCAAGATAAAAAATAAA
Found at i:15823327 original size:34 final size:34
Alignment explanation
Indices: 15823270--15823341 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
15823260 GAGCCAAGGT
*
15823270 AAAAAATGAAAGTGATCGAATTGAACCAAGATCA
1 AAAAAATGAAAGTGAACGAATTGAACCAAGATCA
* * *
15823304 AAAAAAT-AAAGATGAACGGATTGAACCGAGATCG
1 AAAAAATGAAAG-TGAACGAATTGAACCAAGATCA
15823338 AAAA
1 AAAA
15823342 TAAAAGTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.54, C:0.11, G:0.19, T:0.15
Consensus pattern (34 bp):
AAAAAATGAAAGTGAACGAATTGAACCAAGATCA
Found at i:15824461 original size:18 final size:18
Alignment explanation
Indices: 15824427--15824465 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15824417 AATTTAAGTC
*
15824427 TTCTTTTTTATTTTTTCA
1 TTCTTTTTTATTCTTTCA
15824445 TTCTTTTTT-TTCCTTTCA
1 TTCTTTTTTATT-CTTTCA
15824463 TTC
1 TTC
15824466 CTCATTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTTTTATTCTTTCA
Found at i:15829352 original size:38 final size:38
Alignment explanation
Indices: 15829308--15829390 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
15829298 CAATTTTCTT
* *
15829308 AAAAAAATCAAATGAAA-TATA-TCATAAATAAATAAATA
1 AAAAAAATCAAAT-AAACAAAACTCATAAA-AAATAAATA
* *
15829346 ATAAAAATTAAATAAACAAAACTCATAAAAAATAAATA
1 AAAAAAATCAAATAAACAAAACTCATAAAAAATAAATA
15829384 AAAAAAA
1 AAAAAAA
15829391 AAAGAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
37 3 0.08
38 28 0.74
39 7 0.18
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.20
Consensus pattern (38 bp):
AAAAAAATCAAATAAACAAAACTCATAAAAAATAAATA
Found at i:15829384 original size:11 final size:11
Alignment explanation
Indices: 15829331--15829401 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
15829321 GAAATATATC
15829331 ATAAATAAATAA
1 ATAAATAAA-AA
15829343 AT-AATAAAAA
1 ATAAATAAAAA
*
15829353 TTAAATAAACAA
1 ATAAATAAA-AA
*
15829365 A-ACTCATAAAAA
1 ATA--AATAAAAA
15829377 ATAAATAAAAA
1 ATAAATAAAAA
15829388 A-AAA-AAGAAA
1 ATAAATAA-AAA
15829398 ATAA
1 ATAA
15829402 TACTAAAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
9 2 0.04
10 10 0.21
11 23 0.48
12 7 0.15
13 6 0.12
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.18
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:15830039 original size:19 final size:19
Alignment explanation
Indices: 15830015--15830055 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
15830005 TTTTTTTGTG
*
15830015 AAATAACCAGATAAATTTA
1 AAATAACCAGATAAATATA
**
15830034 AAATAATTAGATAAATATA
1 AAATAACCAGATAAATATA
15830053 AAA
1 AAA
15830056 AAATTAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATAACCAGATAAATATA
Found at i:15830069 original size:19 final size:19
Alignment explanation
Indices: 15830023--15830061 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15830013 TGAAATAACC
* *
15830023 AGATAAATTTAAAATAATT
1 AGATAAATATAAAAAAATT
15830042 AGATAAATATAAAAAAATT
1 AGATAAATATAAAAAAATT
15830061 A
1 A
15830062 ATCAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AGATAAATATAAAAAAATT
Found at i:15832534 original size:57 final size:60
Alignment explanation
Indices: 15832464--15832629 Score: 202
Period size: 57 Copynumber: 2.9 Consensus size: 60
15832454 TAAAGAAATT
15832464 AAAAAAATTTCTAAATAGGCTCAAATTGTAG-AAAATTTAGAAATTCAAAAAA-AAAA-A
1 AAAAAAATTTCTAAATAGGCTCAAATTGTAGAAAAATTTAGAAATTCAAAAAATAAAAGA
* * * * * * *
15832521 GAAAATATTTCTAAATTGACCCAAATGGT-GAAAAATTTAGAAATCCAATAAAATAAAAGA
1 AAAAAAATTTCTAAATAGGCTCAAATTGTAGAAAAATTTAGAAATTCAA-AAAATAAAAGA
15832581 AAAAAAATTT-TAAATAGGCTCAAA-TG-ATGAAAAATTTAGAAATTCAAAA
1 AAAAAAATTTCTAAATAGGCTCAAATTGTA-GAAAAATTTAGAAATTCAAAA
15832630 GAGAAAATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
56 1 0.01
57 39 0.44
58 7 0.08
59 33 0.37
60 9 0.10
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (60 bp):
AAAAAAATTTCTAAATAGGCTCAAATTGTAGAAAAATTTAGAAATTCAAAAAATAAAAGA
Done.