Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 27
Found at i:1758002 original size:31 final size:33
Alignment explanation
Indices: 1757963--1758027 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
1757953 TTAAGATTTT
*
1757963 AAATTTAAAT-ATTATAAA-TA-TATTAAATAA
1 AAATTTAAATAATTAAAAATTATTATTAAATAA
*
1757993 AAATATTAAATAATTAAAAATTATTTTTAAATAA
1 AAAT-TTAAATAATTAAAAATTATTATTAAATAA
1758027 A
1 A
1758028 TATTATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.14
31 6 0.21
32 7 0.24
33 2 0.07
34 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
AAATTTAAATAATTAAAAATTATTATTAAATAA
Found at i:1758027 original size:17 final size:18
Alignment explanation
Indices: 1757984--1758034 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
1757974 TTATAAATAT
1757984 ATTAAATAAAAA-TATTA
1 ATTAAATAAAAATTATTA
* *
1758001 AATAATTAAAAATTATT-
1 ATTAAATAAAAATTATTA
* *
1758018 TTTAAATAAATATTATT
1 ATTAAATAAAAATTATT
1758035 CTATACTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAATAAAAATTATTA
Found at i:1759766 original size:30 final size:30
Alignment explanation
Indices: 1759731--1759788 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
1759721 ATTTCATATT
1759731 TTCATGATAATCAC-AT-ATTCTTATATTTAA
1 TTCATGA-AATCACAATGATT-TTATATTTAA
*
1759761 TTCATGAAATTACAATGATTTTATATTT
1 TTCATGAAATCACAATGATTTTATATTT
1759789 TTAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 17 0.68
31 3 0.12
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (30 bp):
TTCATGAAATCACAATGATTTTATATTTAA
Found at i:1761513 original size:12 final size:12
Alignment explanation
Indices: 1761496--1761556 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
1761486 TTCAAAGAGG
1761496 TTTTATATTTAA
1 TTTTATATTTAA
1761508 TTTTATA-TT-A
1 TTTTATATTTAA
*
1761518 TATTATA-TTATA
1 TTTTATATTTA-A
*
1761530 TTTGAT-TTTAA
1 TTTTATATTTAA
1761541 TTTTA-ATATTAA
1 TTTTATAT-TTAA
1761553 TTTT
1 TTTT
1761557 TTAAATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 23 0.57
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:1761612 original size:64 final size:64
Alignment explanation
Indices: 1761522--1761674 Score: 256
Period size: 64 Copynumber: 2.4 Consensus size: 64
1761512 ATATTATATT
*
1761522 ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATAATAATTTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATAATAATTTTTTA
* *
1761584 GTATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTA
1 ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATAATAATTTTTTA
1761648 ATATTATATTATAGATATTTAATTTTA
1 ATATTATATTATAGATA-TTAATTTTA
1761675 TATCATATAA
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
62 9 0.11
63 1 0.01
64 65 0.77
65 9 0.11
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (64 bp):
ATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATAATAATTTTTTA
Found at i:1761729 original size:20 final size:19
Alignment explanation
Indices: 1761669--1761730 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
1761659 TAGATATTTA
*
1761669 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
1761688 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
1761706 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
1761726 ATTTT
1 ATTTT
1761731 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:1762226 original size:31 final size:31
Alignment explanation
Indices: 1762189--1762248 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1762179 TAGTTGTATG
* *
1762189 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
1762220 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
1762249 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:1770678 original size:36 final size:33
Alignment explanation
Indices: 1770605--1770678 Score: 78
Period size: 36 Copynumber: 2.2 Consensus size: 33
1770595 TAGTTTTATT
* * *
1770605 TTAAATATAAATAATTCATATTCATTTATGTTT
1 TTAAAAATAAATAATTCATACTCATTTATGTTA
1770638 TTAAAAATAAACTAATTCATTAACTCATTTAT-TTAA
1 TTAAAAATAAA-TAATTCA-T-ACTCATTTATGTT-A
1770674 TTAAA
1 TTAAA
1770679 TTTAATAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 10 0.29
34 7 0.21
35 3 0.09
36 14 0.41
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (33 bp):
TTAAAAATAAATAATTCATACTCATTTATGTTA
Found at i:1775785 original size:179 final size:179
Alignment explanation
Indices: 1775484--1775841 Score: 700
Period size: 179 Copynumber: 2.0 Consensus size: 179
1775474 ATTGGTTCTC
1775484 ACCAATCGTCCCCTGAATCGCCCTTGGGGGTAAGTAGAATCTTGCGAACGACCAGAGTCTCATGA
1 ACCAATCGTCCCCTGAATCGCCCTTGGGGGTAAGTAGAATCTTGCGAACGACCAGAGTCTCATGA
1775549 CCATCTCCATACAGCACATCATCAGTCTCATCATCGTCATACACGGGTTCGCCAATCTCTTCAGT
66 CCATCTCCATACAGCACATCATCAGTCTCATCATCGTCATACACGGGTTCGCCAATCTCTTCAGT
1775614 CTCGTCTTCCACGTTTTTCCTCAATCAACAAATTTTTGCCCTTTTGACTA
131 CTCGTCTTCCACG-TTTTCCTCAATCAACAAATTTTTGCCCTTTTGACTA
1775664 ACCAATCGTCCCCTGAATCGCCCTT-GGGGTAAGTAGAATCTTGCGAACGACCAGAGTCTCATGA
1 ACCAATCGTCCCCTGAATCGCCCTTGGGGGTAAGTAGAATCTTGCGAACGACCAGAGTCTCATGA
1775728 CCATCTCCATACAGCACATCATCAGTCTCATCATCGTCATACACGGGTTCGCCAATCTCTTCAGT
66 CCATCTCCATACAGCACATCATCAGTCTCATCATCGTCATACACGGGTTCGCCAATCTCTTCAGT
1775793 CTCGTCTTCCACGTTTTCCTCAATCAACAAATTTTTGCCCTTTTGACTA
131 CTCGTCTTCCACGTTTTCCTCAATCAACAAATTTTTGCCCTTTTGACTA
1775842 GCAGGCTTCC
Statistics
Matches: 178, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
178 36 0.20
179 117 0.66
180 25 0.14
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (179 bp):
ACCAATCGTCCCCTGAATCGCCCTTGGGGGTAAGTAGAATCTTGCGAACGACCAGAGTCTCATGA
CCATCTCCATACAGCACATCATCAGTCTCATCATCGTCATACACGGGTTCGCCAATCTCTTCAGT
CTCGTCTTCCACGTTTTCCTCAATCAACAAATTTTTGCCCTTTTGACTA
Found at i:1787192 original size:32 final size:28
Alignment explanation
Indices: 1787136--1787224 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 28
1787126 ACCTACTATC
* *
1787136 TTTTGGTCAAAATAAGTACATAAAGTTTTCAT
1 TTTTTGTCAAAATAGGTACATAAAG---T-AT
* *
1787168 TTTTTGTCAAAATAGGTGCCTAAAGTAT
1 TTTTTGTCAAAATAGGTACATAAAGTAT
* * *
1787196 TTTATGTCAAAATAGGTACTTAAATTAT
1 TTTTTGTCAAAATAGGTACATAAAGTAT
1787224 T
1 T
1787225 CAAACCTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 27 0.55
29 1 0.02
32 21 0.43
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTTTGTCAAAATAGGTACATAAAGTAT
Found at i:1787219 original size:28 final size:28
Alignment explanation
Indices: 1787166--1787224 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1787156 TAAAGTTTTC
* *
1787166 ATTTTTTGTCAAAATAGGTGCCTAAAGT
1 ATTTTATGTCAAAATAGGTACCTAAAGT
* *
1787194 ATTTTATGTCAAAATAGGTACTTAAATT
1 ATTTTATGTCAAAATAGGTACCTAAAGT
1787222 ATT
1 ATT
1787225 CAAACCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (28 bp):
ATTTTATGTCAAAATAGGTACCTAAAGT
Found at i:1790654 original size:48 final size:47
Alignment explanation
Indices: 1790582--1790676 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 47
1790572 TATTTAGGAT
1790582 TATCTTTAATTGTGGTAAGAATAAAAAGTGTTGACCCTGAAATAGTA
1 TATCTTTAATTGTGGTAAGAATAAAAAGTGTTGACCCTGAAATAGTA
1790629 TATCTTTAATTGTTGGTAAGAATAAAAAGTGTTGACCCTGAAATAGTA
1 TATCTTTAATTG-TGGTAAGAATAAAAAGTGTTGACCCTGAAATAGTA
1790677 ATTGATTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 12 0.26
48 35 0.74
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (47 bp):
TATCTTTAATTGTGGTAAGAATAAAAAGTGTTGACCCTGAAATAGTA
Found at i:1795906 original size:29 final size:29
Alignment explanation
Indices: 1795871--1795952 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1795861 AAACTAAATT
*
1795871 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1795900 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1795929 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1795953 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1800554 original size:29 final size:29
Alignment explanation
Indices: 1800519--1800600 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1800509 AAACTAAATT
*
1800519 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1800548 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1800577 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1800601 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1803049 original size:20 final size:20
Alignment explanation
Indices: 1803024--1803061 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1803014 CTTGGTTCAC
1803024 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
1803044 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
1803062 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:1803290 original size:37 final size:37
Alignment explanation
Indices: 1803217--1803291 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
1803207 GTTTGAAAAT
*
1803217 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
1803254 ATTTATATAATTTT-TTTTATAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
1803291 A
1 A
1803292 GGTTTAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:1806128 original size:2 final size:2
Alignment explanation
Indices: 1806121--1806152 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1806111 CTTCAGTTTT
1806121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1806153 ATTACTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1813774 original size:21 final size:22
Alignment explanation
Indices: 1813749--1813803 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
1813739 TTATTAACTA
1813749 AAATATATTATATAATAT-TTT
1 AAATATATTATATAATATATTT
* *
1813770 TAATAT-TTAAATAATATATTT
1 AAATATATTATATAATATATTT
1813791 AAATATAATTATA
1 AAATAT-ATTATA
1813804 AGATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
23 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATATTATATAATATATTT
Found at i:1813785 original size:20 final size:21
Alignment explanation
Indices: 1813750--1813797 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1813740 TATTAACTAA
* *
1813750 AATATATTATATAATATTTTT
1 AATATATTAAATAATATATTT
1813771 AATAT-TTAAATAATATATTT
1 AATATATTAAATAATATATTT
1813791 AAATATA
1 -AATATA
1813798 ATTATAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATATTAAATAATATATTT
Found at i:1813804 original size:21 final size:21
Alignment explanation
Indices: 1813749--1813804 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
1813739 TTATTAACTA
* *
1813749 AAATATATTATATAATATTTTT
1 AAATATAAT-TATAATATATTT
*
1813771 AATATTTAA--ATAATATATTT
1 AA-ATATAATTATAATATATTT
1813791 AAATATAATTATAA
1 AAATATAATTATAA
1813805 GATTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 4 0.15
22 2 0.07
23 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATATAATTATAATATATTT
Found at i:1816485 original size:30 final size:32
Alignment explanation
Indices: 1816417--1816504 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
1816407 AGTCGAGGGT
*
1816417 TACCTATGTCCTTCGGGACATATGGACATGAT
1 TACCTATGTCCTTCGGGACATATGGACATGAC
1816449 TACCTATGTCCTTCGGGACATATGGACA-G-C
1 TACCTATGTCCTTCGGGACATATGGACATGAC
* * *
1816479 TACCTATGTTCTTTGGAACATATGGA
1 TACCTATGTCCTTCGGGACATATGGA
1816505 TAGTGGTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.44
31 1 0.02
32 28 0.54
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (32 bp):
TACCTATGTCCTTCGGGACATATGGACATGAC
Found at i:1817450 original size:12 final size:12
Alignment explanation
Indices: 1817433--1817457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1817423 TATTGATTGC
1817433 ATTGTATAGGAG
1 ATTGTATAGGAG
1817445 ATTGTATAGGAG
1 ATTGTATAGGAG
1817457 A
1 A
1817458 AATTTATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
ATTGTATAGGAG
Found at i:1817886 original size:15 final size:15
Alignment explanation
Indices: 1817866--1817897 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1817856 AAAAGGTACA
1817866 GGTTTGATAAGAAAT
1 GGTTTGATAAGAAAT
1817881 GGTTTGATAAGAAAT
1 GGTTTGATAAGAAAT
1817896 GG
1 GG
1817898 AAATGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (15 bp):
GGTTTGATAAGAAAT
Found at i:1827638 original size:29 final size:30
Alignment explanation
Indices: 1827601--1827661 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
1827591 TGGCTTTGAG
1827601 GTCCTTTTGCTTTTATTTCC-TTTTGTGGA
1 GTCCTTTTGCTTTTATTTCCTTTTTGTGGA
1827630 GTCCTTTTGCTTTTATTTCCTTTTTGTGGA
1 GTCCTTTTGCTTTTATTTCCTTTTTGTGGA
1827660 GT
1 GT
1827662 TGTGAAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.07, C:0.16, G:0.18, T:0.59
Consensus pattern (30 bp):
GTCCTTTTGCTTTTATTTCCTTTTTGTGGA
Found at i:1827652 original size:16 final size:16
Alignment explanation
Indices: 1827602--1827653 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1827592 GGCTTTGAGG
1827602 TCCTTTTGCTTTTATT
1 TCCTTTTGCTTTTATT
** *
1827618 TCCTTTTG--TGGA-G
1 TCCTTTTGCTTTTATT
1827631 TCCTTTTGCTTTTATT
1 TCCTTTTGCTTTTATT
1827647 TCCTTTT
1 TCCTTTT
1827654 TGTGGAGTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 8 0.30
14 2 0.07
15 2 0.07
16 15 0.56
ACGTcount: A:0.06, C:0.19, G:0.12, T:0.63
Consensus pattern (16 bp):
TCCTTTTGCTTTTATT
Found at i:1835392 original size:23 final size:24
Alignment explanation
Indices: 1835341--1835392 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1835331 TAAATCTTAC
* * *
1835341 ATTATTTAGATATTAATTTTTTAA
1 ATTATTTAAATATTAATATATTAA
1835365 A-TATTTAAATA-TAATATATTAA
1 ATTATTTAAATATTAATATATTAA
1835387 ATTATT
1 ATTATT
1835393 AATAATCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.42
23 13 0.54
24 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATTTAAATATTAATATATTAA
Found at i:1835575 original size:27 final size:27
Alignment explanation
Indices: 1835517--1835569 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1835507 ATGTATATAA
1835517 CATTTTAAATATACACTTATTAACTAC
1 CATTTTAAATATACACTTATTAACTAC
* *
1835544 CATTTTGAATATGCACTTATTAACTA
1 CATTTTAAATATACACTTATTAACTA
1835570 TTATTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (27 bp):
CATTTTAAATATACACTTATTAACTAC
Found at i:1840656 original size:35 final size:34
Alignment explanation
Indices: 1840571--1840657 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
1840561 AATATAATTT
*
1840571 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
1840605 TAAATGATAA-ACAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
1840643 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1840658 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:1840735 original size:33 final size:34
Alignment explanation
Indices: 1840648--1840724 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
1840638 AATGGTAATA
* *
1840648 AACAAAATTAACCAAAATACATAAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATAAACAAAAAGTCC
1840683 AACAAATTTAACAAAATAAATAAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATAAACAA-AAAGTCC
1840716 AACCAAATT
1 AA-CAAATT
1840725 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.64, C:0.17, G:0.01, T:0.18
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATAAACAAAAAGTCC
Found at i:1843002 original size:16 final size:16
Alignment explanation
Indices: 1842983--1843040 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 16
1842973 AAAATTAATT
*
1842983 AAATAAAATATTAAAA
1 AAATTAAATATTAAAA
* *
1842999 AAATTGAATACTTAAAT
1 AAATTAAATA-TTAAAA
1843016 AAATTAAA-ATT-AAA
1 AAATTAAATATTAAAA
*
1843030 ATATTAAATAT
1 AAATTAAATAT
1843041 AATAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.26
15 4 0.12
16 9 0.26
17 12 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATTAAATATTAAAA
Found at i:1843397 original size:29 final size:29
Alignment explanation
Indices: 1843353--1843413 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
1843343 CTGCAAAGGG
*
1843353 TGTTAGATCGAGAAAAATAGTCTGAAAGA
1 TGTTAGATCGAAAAAAATAGTCTGAAAGA
*
1843382 TGTTAGATCGAAAAAAATAGTCTGAATGA
1 TGTTAGATCGAAAAAAATAGTCTGAAAGA
1843411 TGT
1 TGT
1843414 CTGACAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (29 bp):
TGTTAGATCGAAAAAAATAGTCTGAAAGA
Found at i:1844043 original size:2 final size:2
Alignment explanation
Indices: 1844036--1844089 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1844026 ATGGTTTAAG
1844036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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 TA
1844078 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1844090 AAGTACGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1844219 original size:2 final size:2
Alignment explanation
Indices: 1844208--1844244 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1844198 TAAGTGTGTG
*
1844208 TA TA TG TA TA TA 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 TA TA TA TA TA TA T
1844245 TAAGTACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1853326 original size:2 final size:2
Alignment explanation
Indices: 1853315--1853372 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
1853305 ACTAGTTAGA
1853315 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A- 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
1853355 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1853373 TTTAAAAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1853867 original size:16 final size:16
Alignment explanation
Indices: 1853821--1853859 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1853811 GTTTACTTCA
* *
1853821 GAATGATT-AAGCGCT
1 GAATGATTCAAGTGTT
1853836 GAATGATTCAAGTGTT
1 GAATGATTCAAGTGTT
1853852 GAATGATT
1 GAATGATT
1853860 TAGATGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (16 bp):
GAATGATTCAAGTGTT
Found at i:1861926 original size:21 final size:20
Alignment explanation
Indices: 1861900--1861938 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1861890 TGGCTACTAC
1861900 TTTCACGTT-CATTTGTCTGCG
1 TTTCAC-TTCCATTT-TCTGCG
1861921 TTTCACTTCCATTTTCTG
1 TTTCACTTCCATTTTCTG
1861939 AAACTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.26, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTCACTTCCATTTTCTGCG
Found at i:1863869 original size:2 final size:2
Alignment explanation
Indices: 1863862--1863897 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1863852 TAATATCATA
1863862 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
1863898 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1866405 original size:26 final size:26
Alignment explanation
Indices: 1866373--1866457 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 26
1866363 TCTATCTAAT
*
1866373 AGCTTAATCCAAAAATCAACTGAATA
1 AGCTTAATCCAAAAATCAACCGAATA
*
1866399 AGCTTAATCTAAAAATCAACCGAATA
1 AGCTTAATCCAAAAATCAACCGAATA
1866425 AGCTTAATCCAAAAATCAACCGAATA
1 AGCTTAATCCAAAAATCAACCGAATA
1866451 AGCTTAA
1 AGCTTAA
1866458 AAATGAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.22
Consensus pattern (26 bp):
AGCTTAATCCAAAAATCAACCGAATA
Found at i:1877751 original size:2 final size:2
Alignment explanation
Indices: 1877744--1877774 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1877734 CAAAAACTTT
1877744 TA TA TA 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 TA TA TA T
1877775 TGAATAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1884362 original size:2 final size:2
Alignment explanation
Indices: 1884357--1884399 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1884347 AAACAAAAAT
1884357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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 TA
1884399 T
1 T
1884400 TTAAATATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1884773 original size:16 final size:18
Alignment explanation
Indices: 1884752--1884786 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1884742 TTATTTTTAT
1884752 TATATAAA-TA-TTAAAA
1 TATATAAATTATTTAAAA
1884768 TATATAAATTATTTAAAA
1 TATATAAATTATTTAAAA
1884786 T
1 T
1884787 TAATCATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATAAATTATTTAAAA
Found at i:1884842 original size:22 final size:22
Alignment explanation
Indices: 1884798--1884842 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1884788 AATCATTAGT
* *
1884798 TAGATTTTAATTTTACTTTTAA
1 TAGATTTTAATTTTAATTATAA
1884820 TAGATTTATAA-TTTAATTATAA
1 TAGATTT-TAATTTTAATTATAA
1884842 T
1 T
1884843 TTTTATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TAGATTTTAATTTTAATTATAA
Found at i:1885450 original size:120 final size:120
Alignment explanation
Indices: 1885285--1885541 Score: 315
Period size: 120 Copynumber: 2.1 Consensus size: 120
1885275 TTTGTGTGTT
* * ** * * *
1885285 ATTTTAAA-AGTTAAATTGCATGGAAACCCCCCAAAGTTTCTCCCATGTATATTTTAGACAAATG
1 ATTTTAAATAGTCAAATTTCATTAAAACCCCCCAAAGTTTCTCCCATCTAGATTTTAGACAAACG
1885349 -ATGTTTCTGTTTTAATACGACATGGCTAAATTACACTACCCCATAATTGTAT-TTTA
66 TATGTTTCTGTTTTAATA-GACATGGCTAAATTACACTACCCCATAATT-T-TGTTTA
* * *
1885405 A-TTTAAATGGTCAAATTTCATTAAAACCCCTCATAGTTTCTCCCATCTAGATTTTAGACAAACG
1 ATTTTAAATAGTCAAATTTCATTAAAACCCCCCAAAGTTTCTCCCATCTAGATTTTAGACAAACG
* * * * * *
1885469 TATGTTTTTGTTTTAATATACGTGGCTAAATTACACTATCCCGTACTTTTGTTTA
66 TATGTTTCTGTTTTAATAGACATGGCTAAATTACACTACCCCATAATTTTGTTTA
1885524 ATTTTAAATAGTCAAATT
1 ATTTTAAATAGTCAAATT
1885542 GCATGCAAAC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 12 0.10
120 87 0.75
121 16 0.14
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (120 bp):
ATTTTAAATAGTCAAATTTCATTAAAACCCCCCAAAGTTTCTCCCATCTAGATTTTAGACAAACG
TATGTTTCTGTTTTAATAGACATGGCTAAATTACACTACCCCATAATTTTGTTTA
Found at i:1903831 original size:70 final size:69
Alignment explanation
Indices: 1903683--1903843 Score: 286
Period size: 70 Copynumber: 2.3 Consensus size: 69
1903673 TGAAAAGAGT
* * *
1903683 TCAAGAAGGCATGGTGATGACGGTGAATATGAGGCTAGGGTAAAAGAAGATAGGAGGGATGGAAG
1 TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGGTAAAAGAAGATAGGAGGGATGGAAG
1903748 TAGA
66 TAGA
1903752 TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGGTAAAAAGAAGATAGGAGGGATGGAA
1 TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGGT-AAAAGAAGATAGGAGGGATGGAA
1903817 GTAGA
65 GTAGA
1903822 TCAAAAAGGCATGGTGATGATG
1 TCAAAAAGGCATGGTGATGATG
1903844 AGTTTGAGCC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 38 0.43
70 50 0.57
ACGTcount: A:0.39, C:0.06, G:0.37, T:0.18
Consensus pattern (69 bp):
TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGGTAAAAGAAGATAGGAGGGATGGAAG
TAGA
Found at i:1905245 original size:21 final size:21
Alignment explanation
Indices: 1905219--1905260 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1905209 CATAACGGGC
1905219 GCTATTACGAGTATAGCGGAT
1 GCTATTACGAGTATAGCGGAT
1905240 GCTATTACGAGTATAGCGGAT
1 GCTATTACGAGTATAGCGGAT
1905261 ATATCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTATTACGAGTATAGCGGAT
Found at i:1914241 original size:15 final size:15
Alignment explanation
Indices: 1914204--1914241 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1914194 TGAATAATTG
*
1914204 TTTATTTATTTATTA
1 TTTATTTATATATTA
1914219 -TTATTTTATATATTA
1 TTTA-TTTATATATTA
1914234 TTTATTTA
1 TTTATTTA
1914242 GCATGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 3 0.15
15 14 0.70
16 3 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATATATTA
Found at i:1916506 original size:29 final size:29
Alignment explanation
Indices: 1916471--1916552 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1916461 AAACTAAATT
*
1916471 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1916500 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1916529 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1916553 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1921149 original size:29 final size:28
Alignment explanation
Indices: 1921102--1921181 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 28
1921092 CAAACTAATT
*
1921102 GATGTCATT-ATTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAA-TAAA
*
1921130 GATGTCATTGCTTACATCATTTAATAAT
1 GATGTCATTGCTTACATCATTTAATAAA
1921158 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1921182 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
28 30 0.62
29 18 0.38
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (28 bp):
GATGTCATTGCTTACATCATTTAATAAA
Found at i:1922257 original size:19 final size:19
Alignment explanation
Indices: 1922233--1922272 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1922223 CATACTTGAA
* *
1922233 TATTTTTTTAATAAATTAT
1 TATTTTATTAATAAATAAT
1922252 TATTTTATTAATAAATAAT
1 TATTTTATTAATAAATAAT
1922271 TA
1 TA
1922273 ACAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTATTAATAAATAAT
Found at i:1925049 original size:19 final size:16
Alignment explanation
Indices: 1925014--1925044 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1925004 TACAAAATCT
1925014 AATAATTCATAATATA
1 AATAATTCATAATATA
*
1925030 AATAATTCATTATAT
1 AATAATTCATAATAT
1925045 TATAATATAT
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATTCATAATATA
Found at i:1925056 original size:2 final size:2
Alignment explanation
Indices: 1925040--1925077 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1925030 AATAATTCAT
1925040 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA 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
1925078 AACTAACCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1925514 original size:14 final size:13
Alignment explanation
Indices: 1925495--1925550 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
1925485 AAATAAATTA
1925495 AATATTGATTTTTT
1 AATATT-ATTTTTT
* *
1925509 AATATTATATTATA
1 AATATTAT-TTTTT
*
1925523 AATATTA-ATTTT
1 AATATTATTTTTT
1925535 AATATTAATTTTTT
1 AATATT-ATTTTTT
1925549 AA
1 AA
1925551 ATAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 22 0.67
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
AATATTATTTTTT
Found at i:1925525 original size:37 final size:39
Alignment explanation
Indices: 1925468--1925550 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 39
1925458 TTGATTTTGA
* *
1925468 TTTTAATATTAATTTTTAAATA-AA-TTAAATATTGATT
1 TTTTAATATTAATTTATAAATATAATTTAAATATTAATT
*
1925505 TTTTAATATT-ATATTATAAATATTAATTTTAATATTAATT
1 TTTTAATATTAAT-TTATAAATA-TAATTTAAATATTAATT
1925545 TTTTAA
1 TTTTAA
1925551 ATAAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 2 0.05
37 18 0.46
39 2 0.05
40 17 0.44
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (39 bp):
TTTTAATATTAATTTATAAATATAATTTAAATATTAATT
Found at i:1925545 original size:63 final size:64
Alignment explanation
Indices: 1925441--1925599 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 64
1925431 AGGTTTTATA
* * * * *
1925441 TTTAATTTTATATTAT-ATTGATTTTGATTTTAATATTAA-TTTTTAAATAAATTAAATATTGAT
1 TTTAATATTATATTATAAAT-A-TTTAATTTTAATATTAATTTTTTAAATAAATTAAACATT-AA
1925504 TT
63 TT
1925506 TTTAATATTATATTATAAATA-TTAATTTTAATATTAATTTTTTAAATAAATTAAACATTAATT
1 TTTAATATTATATTATAAATATTTAATTTTAATATTAATTTTTTAAATAAATTAAACATTAATT
*
1925569 TTTAATATTATATTATAGATATTTAATTTTA
1 TTTAATATTATATTATAAATATTTAATTTTA
1925600 TATCATATAA
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
63 38 0.45
64 29 0.34
65 16 0.19
66 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (64 bp):
TTTAATATTATATTATAAATATTTAATTTTAATATTAATTTTTTAAATAAATTAAACATTAATT
Found at i:1925615 original size:64 final size:64
Alignment explanation
Indices: 1925483--1925615 Score: 171
Period size: 64 Copynumber: 2.1 Consensus size: 64
1925473 ATATTAATTT
* * * ***
1925483 TTAAATAAATTAAATATTGATTTTTTAATATTATATTATAAATATTAATTTTAATATTAATTTT
1 TTAAATAAATTAAACATTGAATTTTTAATATTATATTATAAATATTAATTTTAATATCAATAAA
*
1925547 TTAAATAAATTAAACATT-AATTTTTAATATTATATTATAGATATTTAATTTT-ATATCATATAA
1 TTAAATAAATTAAACATTGAATTTTTAATATTATATTATAAATA-TTAATTTTAATATCA-ATAA
1925610 A
64 A
1925611 TTAAA
1 TTAAA
1925616 CATTAAAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
63 28 0.47
64 32 0.53
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (64 bp):
TTAAATAAATTAAACATTGAATTTTTAATATTATATTATAAATATTAATTTTAATATCAATAAA
Found at i:1926670 original size:22 final size:22
Alignment explanation
Indices: 1926645--1926736 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 22
1926635 TTAGAATACA
1926645 TTATTATAAAATATAGATTGAT
1 TTATTATAAAATATAGATTGAT
* *
1926667 TTATT-TTAAA-ATA-ATTTA-
1 TTATTATAAAATATAGATTGAT
* *
1926685 TT-TTA-AATAAT-TTGATTTAT
1 TTATTATAA-AATATAGATTGAT
* *
1926705 TTATTTTAAAATATGGATTGAT
1 TTATTATAAAATATAGATTGAT
*
1926727 TTATTTTAAA
1 TTATTATAAA
1926737 TAATTTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
17 3 0.05
18 5 0.09
19 9 0.16
20 5 0.09
21 9 0.16
22 24 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TTATTATAAAATATAGATTGAT
Found at i:1926686 original size:37 final size:38
Alignment explanation
Indices: 1926628--1926717 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 38
1926618 TTATAAAATA
*
1926628 ATTTATTTTAGAATACATTATTATAAAAT-A-TAGATTG
1 ATTTATTTTAAAATACATTATT-TAAAATAATTAGATTG
* * *
1926665 ATTTATTTTAAAATA-ATTTATTTTAAATAATTTGATTT
1 ATTTATTTTAAAATACA-TTATTTAAAATAATTAGATTG
1926703 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1926718 TGGATTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 6 0.13
37 20 0.43
38 20 0.43
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (38 bp):
ATTTATTTTAAAATACATTATTTAAAATAATTAGATTG
Found at i:1926694 original size:14 final size:15
Alignment explanation
Indices: 1926598--1926702 Score: 79
Period size: 15 Copynumber: 6.5 Consensus size: 15
1926588 TAATAAGGTT
*
1926598 ATTTATTTTAAAATT
1 ATTTATTTTAAAATA
*
1926613 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
1926628 ATTTATTTTAGAATA
1 ATTTATTTTAAAATA
*
1926643 CA-TTATTATAAAATATAGA
1 -ATTTATT-TTAAA-AT--A
1926662 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
1926680 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1926694 ATTTGATTT
1 ATTT-ATTT
1926703 ATTTATTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.12
15 44 0.60
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 5 0.07
22 5 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1926754 original size:32 final size:32
Alignment explanation
Indices: 1926716--1927524 Score: 472
Period size: 32 Copynumber: 26.7 Consensus size: 32
1926706 TATTTTAAAA
1926716 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926748 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926770 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926802 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926824 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926856 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1926878 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* * *
1926910 TATGTATTGATTTATTTTAATATGGATTGATTTA-
1 TATGGATTGATTTATTTTAA-AT-AATTTA-TTAG
* ** * * * * * *
1926944 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
1926984 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927016 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927038 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
1927070 TATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
1927102 TATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1 TATGGATTGATTTATTTT--AA-ATA-ATTTA-TTAG
*
1927139 TATTGTAGTTGTATGATTGATTTATTTTAAATAA-TTATTAG
1 TA-TG--G--A-----TTGATTTATTTTAAATAATTTATTAG
*
1927180 TATGAATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927202 TATGGATTGATTTATTTTAAATAA--TATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927232 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
1927254 TATGGATTGATTTATTTTAAAA----------
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927276 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927308 TATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 TATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--G
* *
1927350 TATGTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATT----TATTTTAAATAATTTATTAG
* *
1927386 TATGAAATGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927418 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927450 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927472 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
1927504 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1927525 ATATGGATTG
Statistics
Matches: 626, Mismatches: 39, Indels: 224
0.70 0.04 0.25
Matches are distributed among these distances:
22 118 0.19
23 28 0.04
25 7 0.01
26 21 0.03
27 4 0.01
28 15 0.02
29 9 0.01
30 17 0.03
31 28 0.04
32 227 0.36
33 2 0.00
34 21 0.03
35 8 0.01
36 27 0.04
37 12 0.02
38 12 0.02
39 1 0.00
40 22 0.04
41 6 0.01
42 13 0.02
43 3 0.00
44 5 0.01
45 2 0.00
46 6 0.01
47 12 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:1926768 original size:54 final size:54
Alignment explanation
Indices: 1926645--1927556 Score: 1107
Period size: 54 Copynumber: 16.8 Consensus size: 54
1926635 TTAGAATACA
* * * * *
1926645 TTATTATAAAATATAGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTGATTTAT
1 TTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTA--TT-AGT-A-TGGATTGAT
1926705 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1926759 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1926813 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
1926867 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1926921 TTATTTT--AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1926973 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
1927027 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
1927081 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-
1 TTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *** *
1927138 TTATTGTAGTTGTAT-GATTGATTTATTTTAAATAA-TTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1927191 TTATTTTAAAATATGGATTGATTTATTTTAAATAA--TATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
** ** * *
1927243 TTATTTTAAAATATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGAT
* * * * * *
1927296 ATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* ** * *
1927344 TTATTGT-ATGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAAATGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1927397 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1927461 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1927515 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1927557 TTGTAGTTGT
Statistics
Matches: 760, Mismatches: 48, Indels: 94
0.84 0.05 0.10
Matches are distributed among these distances:
46 19 0.03
47 16 0.02
48 11 0.01
49 7 0.01
50 10 0.01
51 7 0.01
52 118 0.16
53 45 0.06
54 385 0.51
55 5 0.01
56 4 0.01
57 7 0.01
58 10 0.01
59 13 0.02
60 32 0.04
61 1 0.00
62 2 0.00
63 6 0.01
64 62 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:1926773 original size:22 final size:22
Alignment explanation
Indices: 1926748--1926790 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1926738 AATTTATTAG
1926748 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1926770 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1926791 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1926827 original size:22 final size:22
Alignment explanation
Indices: 1926802--1926844 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1926792 AATTTATTAG
1926802 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1926824 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1926845 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1926881 original size:22 final size:22
Alignment explanation
Indices: 1926856--1926898 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1926846 AATTTATTAG
1926856 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1926878 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1926899 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1926987 original size:22 final size:22
Alignment explanation
Indices: 1926962--1927004 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1926952 AATTTATTAG
1926962 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1926984 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1927005 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1927041 original size:22 final size:22
Alignment explanation
Indices: 1927016--1927058 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1927006 AATTTATTAG
1927016 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1927038 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1927059 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1927066 original size:14 final size:14
Alignment explanation
Indices: 1927047--1927099 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1927037 ATATGGATTG
1927047 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1927061 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
1927079 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1927093 ATTTATT
1 ATTTATT
1927100 AGTATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1927131 original size:22 final size:22
Alignment explanation
Indices: 1927106--1927374 Score: 108
Period size: 22 Copynumber: 10.8 Consensus size: 22
1927096 TATTAGTATG
1927106 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
* ** *
1927128 GATTGATTTATTATTGTAGTTGTA
1 GATTGATTTATT-TT-AAAATATA
1927152 TGATTGATTTATTTTAAATAATTATTA
1 -GATTGATTTATTTT-AA-AA-TA-TA
* *
1927179 G-TATGAATTGATTTATTTTAAAATATG
1 GAT-TG-ATT--TAT--TTTAAAATATA
1927206 GATTGATTTATTTTAAATAATATTA
1 GATTGATTTATTTT-AA-AATA-TA
* *
1927231 GTATGGATTGATTTATTTTAAAATATG
1 G-AT---TG-ATTTATTTTAAAATATA
*
1927258 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATA
1927280 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
*
1927307 GTATGGATTGATTTATTTTAAAATATA
1 G-ATTGA-T---TTATTTTAAAATATA
* ** *
1927334 GATTGATTTATTATTGTATGTATG
1 GATTGATTTATT-TT-AAAATATA
1927358 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
1927375 TAATTTATTA
Statistics
Matches: 189, Mismatches: 25, Indels: 66
0.68 0.09 0.24
Matches are distributed among these distances:
22 52 0.28
23 11 0.06
24 31 0.16
25 16 0.08
26 17 0.09
27 16 0.08
28 13 0.07
29 8 0.04
30 13 0.07
31 5 0.03
32 7 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:1927382 original size:14 final size:14
Alignment explanation
Indices: 1927363--1927447 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 14
1927353 GTATGGATTG
1927363 ATTTATTTTAAATA
1 ATTTATTTTAAATA
*
1927377 ATTTATTAGTATGAAATG
1 ATTTATT--T-T-AAATA
1927395 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
1927409 ATTTATTAGTATGGATTG
1 ATTTATT--T-T-AAATA
1927427 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1927441 ATTTATT
1 ATTTATT
1927448 AGTATGGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
14 27 0.49
15 2 0.04
16 4 0.07
17 2 0.04
18 20 0.36
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1927398 original size:18 final size:18
Alignment explanation
Indices: 1927372--1927453 Score: 72
Period size: 14 Copynumber: 5.0 Consensus size: 18
1927362 GATTTATTTT
1927372 AAATAATTTATTAGTATG
1 AAATAATTTATTAGTATG
*
1927390 AAATGATTTATT--T-T-
1 AAATAATTTATTAGTATG
1927404 AAATAATTTATTAGTATG
1 AAATAATTTATTAGTATG
* * *
1927422 GATTGATTTATT--T-T-
1 AAATAATTTATTAGTATG
1927436 AAATAATTTATTAGTATG
1 AAATAATTTATTAGTATG
1927454 GATTGATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
14 20 0.42
15 2 0.04
16 4 0.08
17 2 0.04
18 20 0.42
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
AAATAATTTATTAGTATG
Found at i:1927475 original size:22 final size:22
Alignment explanation
Indices: 1927450--1927492 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1927440 AATTTATTAG
1927450 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1927472 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1927493 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1927529 original size:22 final size:22
Alignment explanation
Indices: 1927504--1927546 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1927494 AATTTATTAG
1927504 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1927526 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1927547 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1927606 original size:31 final size:31
Alignment explanation
Indices: 1927571--1927630 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1927561 AGTTGTATGG
* * *
1927571 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCACTATTGCAAAACTAAA
1927602 ATTATTTAAATCTCACTATTGCAAAACTA
1 ATTATTTAAATCTCACTATTGCAAAACTA
1927631 TTTTAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
ATTATTTAAATCTCACTATTGCAAAACTAAA
Found at i:1928114 original size:13 final size:13
Alignment explanation
Indices: 1928096--1928136 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1928086 TTATAACATC
1928096 ATTTTTATAATTA
1 ATTTTTATAATTA
1928109 ATTTTTATAA-TA
1 ATTTTTATAATTA
*
1928121 TATTATT-TAATTA
1 -ATTTTTATAATTA
1928134 ATT
1 ATT
1928137 AAATAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTATAATTA
Found at i:1928129 original size:14 final size:14
Alignment explanation
Indices: 1928085--1928122 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1928075 CGAAATTAAA
* *
1928085 TTTATAACATCATT
1 TTTATAATATAATT
1928099 TTTATAAT-TAATT
1 TTTATAATATAATT
1928112 TTTATAATATA
1 TTTATAATATA
1928123 TTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATAATATAATT
Found at i:1928131 original size:25 final size:27
Alignment explanation
Indices: 1928085--1928136 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
1928075 CGAAATTAAA
*
1928085 TTTATAACATCATTTTTATAATTAATT
1 TTTATAACATCATTATTATAATTAATT
*
1928112 TTTATAATAT-ATTATT-TAATTAATT
1 TTTATAACATCATTATTATAATTAATT
1928137 AAATAAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 5 0.22
27 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTATAACATCATTATTATAATTAATT
Found at i:1929506 original size:2 final size:2
Alignment explanation
Indices: 1929499--1929541 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1929489 TTATAAAATA
*
1929499 AT AT AT AT AT AT AT AG 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
1929541 A
1 A
1929542 ATTACATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1930122 original size:19 final size:19
Alignment explanation
Indices: 1930098--1930134 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1930088 AAATTATTAA
1930098 TATTTTACTT-ATTTTTATT
1 TATTTTA-TTAATTTTTATT
1930117 TATTTTATTAATTTTTAT
1 TATTTTATTAATTTTTAT
1930135 GATGTGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTTTATTAATTTTTATT
Found at i:1930819 original size:21 final size:21
Alignment explanation
Indices: 1930794--1930833 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1930784 TGAATGAGTG
1930794 TTTAAAAAATATATTTAAATA
1 TTTAAAAAATATATTTAAATA
*
1930815 TTTAAAAAATATGTTTAAA
1 TTTAAAAAATATATTTAAA
1930834 CAACGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTAAAAAATATATTTAAATA
Found at i:1946301 original size:2 final size:2
Alignment explanation
Indices: 1946294--1946321 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1946284 CTATAATTTA
1946294 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
1946322 GAAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1959148 original size:29 final size:29
Alignment explanation
Indices: 1959114--1959283 Score: 106
Period size: 29 Copynumber: 6.0 Consensus size: 29
1959104 CATATATGTC
1959114 ATTCTGCATTGGATTATATTCATGTCCTG
1 ATTCTGCATTGGATTATATTCATGTCCTG
* *
1959143 ATTCTGTA-TGAAATTATATTTTCAT-T-CTG
1 ATTCTGCATTG-GATTATA--TTCATGTCCTG
*
1959172 ATTCTGCATTGGATTATATCCATGTCCT-
1 ATTCTGCATTGGATTATATTCATGTCCTG
* * * *
1959200 A--ATACATGGGATTATATCTCA--TCATG
1 ATTCTGCATTGGATTATAT-TCATGTCCTG
* * *
1959226 TTTCTGCATTAGATTATATTCACGATCCTG
1 ATTCTGCATTGGATTATATTCATG-TCCTG
* * *
1959256 TTTCTGTA-TGTGATTATATTCACGTCCT
1 ATTCTGCATTG-GATTATATTCATGTCCT
1959284 AATTTGTTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
25 3 0.03
26 13 0.12
27 9 0.08
28 16 0.15
29 36 0.33
30 27 0.25
31 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (29 bp):
ATTCTGCATTGGATTATATTCATGTCCTG
Found at i:1959260 original size:30 final size:29
Alignment explanation
Indices: 1959224--1959283 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
1959214 TATCTCATCA
1959224 TGTTTCTGCAT-TAGATTATATTCACGATCC
1 TGTTTCTGCATGT-GATTATATTCACG-TCC
*
1959254 TGTTTCTGTATGTGATTATATTCACGTCC
1 TGTTTCTGCATGTGATTATATTCACGTCC
1959283 T
1 T
1959284 AATTTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 4 0.14
30 23 0.82
31 1 0.04
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (29 bp):
TGTTTCTGCATGTGATTATATTCACGTCC
Found at i:1961275 original size:20 final size:19
Alignment explanation
Indices: 1961250--1961384 Score: 135
Period size: 20 Copynumber: 6.7 Consensus size: 19
1961240 AATTGGGAAA
1961250 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACT-ACT
*
1961270 ATCGCAATGTGATACTTACT
1 ATCGCAATGCGATAC-TACT
1961290 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAC-TACT
* *
1961310 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTAC--T
*
1961331 ATCGCAATGAGATACTGACT
1 ATCGCAATGCGATACT-ACT
* * *
1961351 TTCGCAACGCGATAATACAT
1 ATCGCAATGCGATACTAC-T
1961371 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1961385 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.05
20 63 0.66
21 26 0.27
22 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (19 bp):
ATCGCAATGCGATACTACT
Found at i:1961363 original size:41 final size:41
Alignment explanation
Indices: 1961247--1961384 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
1961237 GCGAATTGGG
* *
1961247 AAAATCGCAATGCGATACTGACTATCGCAATGTGATACTTAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATA-ATAC
* *
1961289 --TATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
* * *
1961328 AAAATCGCAATGAGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
*
1961369 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
1961385 TTTCAAAGCG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.04
40 32 0.39
41 48 0.58
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
Found at i:1961580 original size:22 final size:22
Alignment explanation
Indices: 1961552--1961595 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1961542 CACTCTCTCA
1961552 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1961574 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1961596 TATCTCCATC
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:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1961908 original size:20 final size:20
Alignment explanation
Indices: 1961854--1961912 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1961844 GCGATTCTCT
**
1961854 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1961874 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1961894 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
1961913 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1962103 original size:25 final size:24
Alignment explanation
Indices: 1962049--1962103 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1962039 TGTTTATTAT
* *
1962049 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1962073 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1962099 TGTTT
1 TGTTT
1962104 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1963253 original size:18 final size:18
Alignment explanation
Indices: 1963232--1963276 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1963222 TCTACTTCGG
*
1963232 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1963250 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1963268 GAGCCATCA
1 GAGCCATCA
1963277 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1963783 original size:20 final size:20
Alignment explanation
Indices: 1963758--1963803 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1963748 TAGTTTACTT
1963758 TCGCAACAC-GAAAATGACTA
1 TCGCAACACTG-AAATGACTA
* *
1963778 TCGCAACGCTGAAATGGCTA
1 TCGCAACACTGAAATGACTA
1963798 TCGCAA
1 TCGCAA
1963804 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACACTGAAATGACTA
Found at i:1963812 original size:19 final size:20
Alignment explanation
Indices: 1963769--1963824 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1963759 CGCAACACGA
1963769 AAATGACTATCGCAACGCTG
1 AAATGACTATCGCAACGCTG
* *
1963789 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCTG
**
1963808 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
1963825 ACAAAATCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCTG
Found at i:1963845 original size:33 final size:33
Alignment explanation
Indices: 1963797--1963888 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
1963787 TGAAATGGCT
1963797 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1963830 ATCGTAATGCAAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1963863 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1963889 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1963884 original size:19 final size:19
Alignment explanation
Indices: 1963758--1963893 Score: 67
Period size: 19 Copynumber: 7.6 Consensus size: 19
1963748 TAGTTTACTT
* **
1963758 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
1963778 TCGCAACGCTGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
1963798 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1963817 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
* * *
1963831 TCGTAATGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1963850 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1963864 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1963883 TCGCAATGCGA
1 TCGCAACGCGA
1963894 TTTGTGTTTC
Statistics
Matches: 90, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 3 0.03
17 3 0.03
18 2 0.02
19 36 0.40
20 24 0.27
21 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1963924 original size:14 final size:14
Alignment explanation
Indices: 1963905--1963995 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
1963895 TTGTGTTTCG
1963905 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1963919 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1963935 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
1963951 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1963968 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1963984 CGTTGCGATTTT
1 CGTTGCGATTTT
1963996 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.42
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.09
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1963969 original size:33 final size:33
Alignment explanation
Indices: 1963900--1964011 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
1963890 GCGATTTGTG
*
1963900 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1963932 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1963965 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
1963998 TTTCGCATTACGAT
1 TTTCGCATTGCGAT
1964012 AGCAATCTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 26 0.34
33 51 0.66
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1964511 original size:40 final size:40
Alignment explanation
Indices: 1964416--1964502 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
1964406 GACTCACCTG
* *
1964416 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCACTA
* *
1964458 TCCTCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTA
1964498 TCATC
1 TCATC
1964503 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 20 0.50
41 2 0.05
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.21
Consensus pattern (40 bp):
TCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTA
Found at i:1966165 original size:19 final size:19
Alignment explanation
Indices: 1966092--1966158 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
1966082 TCGCAACGAG
1966092 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
1966111 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
*
1966130 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATA
1966149 AAAATCGCAA
1 AAAATCGCAA
1966159 CGAGAAAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.15
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATA
Found at i:1966211 original size:20 final size:20
Alignment explanation
Indices: 1966194--1966281 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
1966184 CGATTTTCTA
1966194 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
1966214 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
1966234 ATTGCGATAGCCAGTTTCGC
1 GTTGCGATAGCCATTTTCGC
1966254 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
1966274 GTTGCGAT
1 GTTGCGAT
1966282 TTCCCCGTTG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:1966219 original size:34 final size:36
Alignment explanation
Indices: 1966172--1966261 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 36
1966162 GAAAATCGCA
* *
1966172 ATTTTCGCATTGCGATTTTC-T-AGTTGCGATAGCC
1 ATTTTCGCGTTGCGATTTTCTTCAATTGCGATAGCC
1966206 ATTTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCC
1 ATTTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCC
*
1966246 AGTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
1966262 AGCCATTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
34 14 0.30
35 5 0.11
38 1 0.02
39 1 0.02
40 26 0.55
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (36 bp):
ATTTTCGCGTTGCGATTTTCTTCAATTGCGATAGCC
Found at i:1966520 original size:20 final size:20
Alignment explanation
Indices: 1966495--1966544 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1966485 TTGAAGATGA
1966495 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
1966515 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
1966535 TTGCGATTTT
1 TTGCGATTTT
1966545 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:1966615 original size:20 final size:21
Alignment explanation
Indices: 1966571--1966622 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1966561 ATAGTCAGTA
*
1966571 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCACAAAT
**
1966592 TCGCATTGCGATTT-ACTTAT
1 TCGCATTGCGATTTCACAAAT
1966612 TCGCATTGCGA
1 TCGCATTGCGA
1966623 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTCACAAAT
Found at i:1967438 original size:24 final size:24
Alignment explanation
Indices: 1967411--1967462 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1967401 ATTCGAAATA
*
1967411 TGATCTTGGTCAATACCCGGACTT
1 TGATATTGGTCAATACCCGGACTT
* *
1967435 TGATATTGGTCAATACTCGGATTT
1 TGATATTGGTCAATACCCGGACTT
1967459 TGAT
1 TGAT
1967463 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
TGATATTGGTCAATACCCGGACTT
Found at i:1967654 original size:12 final size:12
Alignment explanation
Indices: 1967637--1967673 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1967627 ACATAATCCT
1967637 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1967649 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1967661 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1967673 G
1 G
1967674 TTCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1969961 original size:19 final size:19
Alignment explanation
Indices: 1969939--1969997 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
1969929 GAAAATTACT
1969939 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1969958 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1969972 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1969991 ATCGCAA
1 ATCGCAA
1969998 CGCTAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1970140 original size:14 final size:14
Alignment explanation
Indices: 1970123--1970159 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1970113 CATCAATTAA
1970123 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1970137 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1970151 ACAAATCAA
1 ACAAATCAA
1970160 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1971601 original size:42 final size:42
Alignment explanation
Indices: 1971555--1971634 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
1971545 CGATGACAGT
* * *
1971555 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
1971597 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
1971635 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:1972017 original size:91 final size:88
Alignment explanation
Indices: 1971856--1972035 Score: 263
Period size: 91 Copynumber: 2.0 Consensus size: 88
1971846 ATTTCAAACT
*
1971856 TTCAACCAAAAGACAAAACAAAGACAATACTAACTTCACAGTGTTAAAGAATACACAGTTTGCAG
1 TTCAACCAAAAGACAAAACAAAGACAATACTAACTTCACAGTGTT--A-AATAAACAGTTTGCAG
1971921 AATTGGCAGCAACCGAATAAATTTAC
63 AATTGGCAGCAACCGAATAAATTTAC
*
1971947 TTCAACCAAAAGATAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGAC-AATACTAACTTCACAGTGTTAAATAAACAGTTT-GCA
*
1972011 GTATTGGCAGCAACCGAATAAATTT
62 GAATTGGCAGCAACCGAATAAATTT
1972036 TCTAAGCAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
90 11 0.13
91 45 0.55
93 6 0.07
94 20 0.24
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (88 bp):
TTCAACCAAAAGACAAAACAAAGACAATACTAACTTCACAGTGTTAAATAAACAGTTTGCAGAAT
TGGCAGCAACCGAATAAATTTAC
Found at i:1973786 original size:14 final size:14
Alignment explanation
Indices: 1973767--1973822 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1973757 GGAAATGACT
1973767 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1973781 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
1973798 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
1973814 ATCGCAACG
1 ATCGCAACG
1973823 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1973800 original size:33 final size:33
Alignment explanation
Indices: 1973743--1973841 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
1973733 ACGAGATAAT
1973743 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
1973777 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
1973810 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1973842 CGAAATGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 49 0.78
34 14 0.22
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1973805 original size:19 final size:19
Alignment explanation
Indices: 1973719--1973939 Score: 239
Period size: 19 Copynumber: 12.1 Consensus size: 19
1973709 TCTTTTGGTT
*
1973719 GAAATG-AAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1973737 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1973757 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1973775 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
1973791 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1973808 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1973824 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1973843 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1973862 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1973881 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1973900 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1973919 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1973938 GA
1 GA
1973940 TTTGGTTTCG
Statistics
Matches: 176, Mismatches: 14, Indels: 25
0.82 0.07 0.12
Matches are distributed among these distances:
14 18 0.10
15 2 0.01
16 4 0.02
17 3 0.02
18 5 0.03
19 120 0.68
20 22 0.12
21 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1973956 original size:18 final size:17
Alignment explanation
Indices: 1973935--1973998 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 17
1973925 AAAATCGCAA
*
1973935 TGCGATTTGGTTTCGCGT
1 TGCGATTT-ATTTCGCGT
1973953 TGCGATTTTATTTCGCGT
1 TGCGA-TTTATTTCGCGT
1973971 TGCGATAGTTATTTCCGCGT
1 TGCGAT--TTATTT-CGCGT
1973991 TGCGATTT
1 TGCGATTT
1973999 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 1 0.02
18 20 0.49
19 9 0.22
20 11 0.27
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (17 bp):
TGCGATTTATTTCGCGT
Found at i:1973991 original size:20 final size:18
Alignment explanation
Indices: 1973945--1973996 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
1973935 TGCGATTTGG
*
1973945 TTTCGCGTTGCGATTTTA
1 TTTCGCGTTGCGATGTTA
1973963 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGAT-GTTA
1973982 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
1973997 TTCATTCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 14 0.45
19 6 0.19
20 11 0.35
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (18 bp):
TTTCGCGTTGCGATGTTA
Found at i:1974536 original size:20 final size:20
Alignment explanation
Indices: 1974511--1974563 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1974501 GCACTATGTA
1974511 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
1974531 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
1974551 TATCTCGTTGCGA
1 AATCGCGTTGCGA
1974564 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:1974597 original size:20 final size:20
Alignment explanation
Indices: 1974572--1974625 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1974562 GATTTTGTAT
1974572 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1974592 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1974612 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1974626 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1974610 original size:61 final size:61
Alignment explanation
Indices: 1974512--1974628 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1974502 CACTATGTAA
* * * * *
1974512 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
1974573 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
1974629 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:1974644 original size:61 final size:61
Alignment explanation
Indices: 1974512--1974646 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
1974502 CACTATGTAA
* * * * * ** *
1974512 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
1974573 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
1974635 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1974647 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:1974736 original size:21 final size:21
Alignment explanation
Indices: 1974696--1974736 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1974686 ACTGTAGACC
** *
1974696 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
1974717 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
1974737 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:1987503 original size:20 final size:20
Alignment explanation
Indices: 1987483--1987596 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
1987473 CGCGTTGCAT
* * *
1987483 TTCGCATTGCGGTTTTCCAT
1 TTCGCGTTGCGATTTTCCAG
1987503 TTCGCGTTGCGATTTTCCAG
1 TTCGCGTTGCGATTTTCCAG
1987523 TTCGCGTTGCGATTTTCCAG
1 TTCGCGTTGCGATTTTCCAG
* ** *
1987543 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAG
* *
1987564 ATCGTGTTGCGATTTTCCAG
1 TTCGCGTTGCGATTTTCCAG
1987584 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1987597 AGTTGAAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 64 0.82
21 14 0.18
ACGTcount: A:0.13, C:0.22, G:0.25, T:0.39
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAG
Found at i:1987574 original size:21 final size:21
Alignment explanation
Indices: 1987548--1987617 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
1987538 TCCAGTTCGC
1987548 GTTGCGATAGTTGAAAATCGT
1 GTTGCGATAGTTGAAAATCGT
* ** ** *
1987569 GTTGCGAT-TTTCCAGTTCGC
1 GTTGCGATAGTTGAAAATCGT
1987589 GTTGCGATAGTTGAAAATCGT
1 GTTGCGATAGTTGAAAATCGT
1987610 GTTGCGAT
1 GTTGCGAT
1987618 TTTTCATTTT
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (21 bp):
GTTGCGATAGTTGAAAATCGT
Found at i:1987635 original size:42 final size:41
Alignment explanation
Indices: 1987528--1987641 Score: 201
Period size: 41 Copynumber: 2.8 Consensus size: 41
1987518 TCCAGTTCGC
1987528 GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGT
1 GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGT
1987569 GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGT
1 GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGT
* *
1987610 GTTGCGATTTTTCATTTTCGCGTTGCGATAGT
1 GTTGCGATTTTCCA-GTTCGCGTTGCGATAGT
1987642 CTACAGTTGT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 54 0.77
42 16 0.23
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (41 bp):
GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGT
Found at i:1987745 original size:6 final size:6
Alignment explanation
Indices: 1987734--1987787 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
1987724 GACACGTATT
1987734 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1987780 ACC-CG ACC
1 ACCACG ACC
1987788 CGAGACGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.32
6 32 0.68
ACGTcount: A:0.30, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1988307 original size:6 final size:6
Alignment explanation
Indices: 1988285--1988316 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1988275 GTCTCGGGTA
1988285 TGGTCG -GGTCG -GGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1988317 AATACATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
TGGTCG
Done.