Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 263 of 362
Found at i:88771765 original size:16 final size:16
Alignment explanation
Indices: 88771746--88771792 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
88771736 GATTTTATTC
88771746 CAATCAGATTGATTTT
1 CAATCAGATTGATTTT
**
88771762 CAATTTGATTTGATTTT
1 CAATCAGA-TTGATTTT
*
88771779 -ATTCAGATTGATTT
1 CAATCAGATTGATTT
88771793 AAAGGCTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (16 bp):
CAATCAGATTGATTTT
Found at i:88773992 original size:63 final size:63
Alignment explanation
Indices: 88773893--88774019 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
88773883 GGTCAAACTA
**
88773893 GAGTGCTCATGGGCCGGGTCGGGCTCAACTAAAAATTTAGGCCTATTTTTTGGGCTCGGGCTG
1 GAGTGCTCATGGGCCGGGTCGGGCTCAACTAAAAATTTAGGCCTATTCATTGGGCTCGGGCTG
*
88773956 GAGTGCTCATGGGCCGGGTCGGGCTCAACTAAAAATTTAGGCTTATTCATTGGGCTCGGGCTG
1 GAGTGCTCATGGGCCGGGTCGGGCTCAACTAAAAATTTAGGCCTATTCATTGGGCTCGGGCTG
88774019 G
1 G
88774020 GCCGAGCCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (63 bp):
GAGTGCTCATGGGCCGGGTCGGGCTCAACTAAAAATTTAGGCCTATTCATTGGGCTCGGGCTG
Found at i:88774295 original size:30 final size:30
Alignment explanation
Indices: 88774261--88774320 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88774251 ACTAAAATAG
*
88774261 CAAATACCTCTAAAT-TAATAACAAAATTAA
1 CAAATACAT-TAAATATAATAACAAAATTAA
* *
88774291 CAAATGCATTTAATATAATAACAAAATTAA
1 CAAATACATTAAATATAATAACAAAATTAA
88774321 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACATTAAATATAATAACAAAATTAA
Found at i:88775557 original size:33 final size:33
Alignment explanation
Indices: 88775515--88775581 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
88775505 ACAACAACTT
88775515 TTCATCTCTATTAAAATAGTCATTAAATAAAAA
1 TTCATCTCTATTAAAATAGTCATTAAATAAAAA
88775548 TTCATCTCTATTAAAATAGTCATTAAATAAAAA
1 TTCATCTCTATTAAAATAGTCATTAAATAAAAA
88775581 T
1 T
88775582 AATAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (33 bp):
TTCATCTCTATTAAAATAGTCATTAAATAAAAA
Found at i:88775562 original size:17 final size:18
Alignment explanation
Indices: 88775515--88775570 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
88775505 ACAACAACTT
88775515 TTCATCTCTATTAAAATA
1 TTCATCTCTATTAAAATA
* * *
88775533 GTCAT-T-AAATAAAA-A
1 TTCATCTCTATTAAAATA
88775548 TTCATCTCTATTAAAATA
1 TTCATCTCTATTAAAATA
*
88775566 GTCAT
1 TTCAT
88775571 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
15 5 0.18
16 7 0.25
17 7 0.25
18 9 0.32
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (18 bp):
TTCATCTCTATTAAAATA
Found at i:88775578 original size:16 final size:16
Alignment explanation
Indices: 88775526--88775579 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
88775516 TCATCTCTAT
88775526 TAAAATAGTCATTAAA
1 TAAAATAGTCATTAAA
* * *
88775542 TAAAA-ATTCATCTCTAT
1 TAAAATAGTCAT-T-AAA
88775559 TAAAATAGTCATTAAA
1 TAAAATAGTCATTAAA
88775575 TAAAA
1 TAAAA
88775580 ATAATAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 7 0.24
18 5 0.17
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAAATAGTCATTAAA
Found at i:88775580 original size:17 final size:17
Alignment explanation
Indices: 88775527--88775582 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
88775517 CATCTCTATT
88775527 AAAATAGTCATTAAATA
1 AAAATAGTCATTAAATA
** *
88775544 AAAAT--TCATCTCTATT
1 AAAATAGTCAT-TAAATA
88775560 AAAATAGTCATTAAATA
1 AAAATAGTCATTAAATA
88775577 AAAATA
1 AAAATA
88775583 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 4 0.13
16 8 0.27
17 14 0.47
18 4 0.13
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (17 bp):
AAAATAGTCATTAAATA
Found at i:88777218 original size:67 final size:67
Alignment explanation
Indices: 88777110--88777244 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
88777100 TGTGGCCAAA
*
88777110 AATAGGCCATTTGAAAAGCCAATTTGCCACCCTACTCTCAACCATACATTTCAACCAAATTGGTA
1 AATAGGCCATTTGAAAAGCCAATTTGCCACCCTACTCTCAACCATACATTGCAACCAAATTGGTA
88777175 CC
66 CC
88777177 AATAGGCCATTTGAAAAGCCAATTTGCCACCCTACTCTCAACCATACATTGCAACCAAATTGGTA
1 AATAGGCCATTTGAAAAGCCAATTTGCCACCCTACTCTCAACCATACATTGCAACCAAATTGGTA
88777242 CC
66 CC
88777244 A
1 A
88777245 TTTCAATACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (67 bp):
AATAGGCCATTTGAAAAGCCAATTTGCCACCCTACTCTCAACCATACATTGCAACCAAATTGGTA
CC
Found at i:88778290 original size:43 final size:43
Alignment explanation
Indices: 88778140--88778307 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
88778130 ATATAGCTTG
* * * *
88778140 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-CA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCATAA
* * * * * *
88778181 TATCGATGCCACTATCCCAGACAGGGCCTTACACGTAACCGATTA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATC-ATAA
* *
88778226 -ACAATGCCAATGTACCAGACATGGTCTTACACGTAATCATAA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCATAA
* * *
88778268 TACAATGCCAATTTCCCAGACATGGTATTACATGTAATCA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCA
88778308 CATCTCAGTA
Statistics
Matches: 101, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 87 0.86
44 2 0.02
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCATAA
Found at i:88778299 original size:86 final size:85
Alignment explanation
Indices: 88778141--88778304 Score: 186
Period size: 86 Copynumber: 1.9 Consensus size: 85
88778131 TATAGCTTGT
* * * * * * *
88778141 ACAATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGACAGG
1 ACAATGCCATATACCAGACATGGTCTTACACGTAATCAAATATCAATGCCAATATCCCAGACAGG
*
88778206 GCCTTACACGTAACCGATTA
66 GCATTACACGTAACCGATTA
* *
88778226 ACAATGCCAATGTACCAGACATGGTCTTACACGTAATCATAATA-CAATGCCAATTTCCCAGACA
1 ACAATGCC-ATATACCAGACATGGTCTTACACGTAATCA-AATATCAATGCCAATATCCCAGACA
* * *
88778290 TGGTATTACATGTAA
64 GGGCATTACACGTAA
88778305 TCACATCTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
85 8 0.12
86 53 0.83
87 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (85 bp):
ACAATGCCATATACCAGACATGGTCTTACACGTAATCAAATATCAATGCCAATATCCCAGACAGG
GCATTACACGTAACCGATTA
Found at i:88781205 original size:17 final size:16
Alignment explanation
Indices: 88781183--88781216 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88781173 GGGGATGGTG
88781183 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
88781200 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
88781216 T
1 T
88781217 AATAATATTT
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:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:88786012 original size:20 final size:20
Alignment explanation
Indices: 88785987--88786028 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
88785977 GTATCAAATC
88785987 GACAAATTAAAAACATTCTT
1 GACAAATTAAAAACATTCTT
88786007 GACAAATTAAAAACATTCTT
1 GACAAATTAAAAACATTCTT
88786027 GA
1 GA
88786029 GAAGGTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (20 bp):
GACAAATTAAAAACATTCTT
Found at i:88793610 original size:19 final size:18
Alignment explanation
Indices: 88793582--88793643 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
88793572 CATTTTTCAT
* *
88793582 TTTTTCATTTTCTAATTA
1 TTTTTAATTTTTTAATTA
*
88793600 GTTTTTAATTTTTTAATATTT
1 -TTTTTAATTTTTT-A-ATTA
88793621 TTTTTGAATTTTTTAATTA
1 TTTTT-AATTTTTTAATTA
88793640 TTTT
1 TTTT
88793644 CTGACATGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 18 0.50
20 7 0.19
21 11 0.31
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTTTAATTA
Found at i:88793625 original size:21 final size:22
Alignment explanation
Indices: 88793601--88793643 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
88793591 TTCTAATTAG
88793601 TTTTT-AATTTTTTAA-TATTT
1 TTTTTGAATTTTTTAATTATTT
88793621 TTTTTGAATTTTTTAATTATTT
1 TTTTTGAATTTTTTAATTATTT
88793643 T
1 T
88793644 CTGACATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTGAATTTTTTAATTATTT
Found at i:88794524 original size:31 final size:31
Alignment explanation
Indices: 88794489--88794547 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
88794479 GTCATTGAAC
88794489 TATTCAAAAGTTTTCATTTAAGTCACTAAAA
1 TATTCAAAAGTTTTCATTTAAGTCACTAAAA
* *
88794520 TATTCAAAAGTTTTTATTTAAGTTACTA
1 TATTCAAAAGTTTTCATTTAAGTCACTA
88794548 GATTGTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTTAAGTCACTAAAA
Found at i:88798334 original size:25 final size:25
Alignment explanation
Indices: 88798303--88798370 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
88798293 TGTAAACAGT
* *
88798303 AAGCTCATGGGAGCTGAATAACGGG
1 AAGCTCATGAGAGCTGAATAACGAG
88798328 AAGCTCA-GACGAGCTGAATAACGAG
1 AAGCTCATGA-GAGCTGAATAACGAG
*
88798353 AAGCTCATAAGAGCTGAA
1 AAGCTCATGAGAGCTGAA
88798371 ATCGGTGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (25 bp):
AAGCTCATGAGAGCTGAATAACGAG
Found at i:88799888 original size:20 final size:22
Alignment explanation
Indices: 88799846--88799890 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
88799836 TTTTTTTCAT
88799846 AAAAATATTAACAAATTAGAAAA
1 AAAAATATTAACAAATTA-AAAA
*
88799869 AAAAATATTAA-ATATTAAAAA
1 AAAAATATTAACAAATTAAAAA
88799890 A
1 A
88799891 TGAAAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAATATTAACAAATTAAAAA
Found at i:88799944 original size:10 final size:10
Alignment explanation
Indices: 88799929--88800031 Score: 63
Period size: 10 Copynumber: 10.4 Consensus size: 10
88799919 ATCAAAATAT
*
88799929 AAAAATTCTA
1 AAAAATTATA
*
88799939 ATAAATTATA
1 AAAAATTATA
88799949 AAAAATTAT-
1 AAAAATTATA
88799958 -AAAATTAATA
1 AAAAATT-ATA
*
88799968 AAAAATATTTA
1 AAAAAT-TATA
*
88799979 AAATATT-TA
1 AAAAATTATA
**
88799988 AAATTTTAT-
1 AAAAATTATA
88799997 AAAAATGTAT-
1 AAAAAT-TATA
*
88800007 TAAAATTATA
1 AAAAATTATA
*
88800017 TAAAAATCATA
1 -AAAAATTATA
88800028 AAAA
1 AAAA
88800032 CTTTAACTAG
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.08
9 17 0.23
10 30 0.41
11 20 0.27
12 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAAATTATA
Found at i:88800556 original size:10 final size:9
Alignment explanation
Indices: 88800519--88800624 Score: 69
Period size: 9 Copynumber: 11.7 Consensus size: 9
88800509 AATATTTTAA
88800519 ATAA-TTTT
1 ATAATTTTT
*
88800527 ATCATTTATT
1 ATAATTT-TT
*
88800537 ATAATATTT
1 ATAATTTTT
88800546 ATAAATTTTT
1 AT-AATTTTT
88800556 ATAATTTTAT
1 ATAATTTT-T
88800566 ATCAA-TTTT
1 AT-AATTTTT
*
88800575 ATTATTTTT
1 ATAATTTTT
*
88800584 -TAGATATTT
1 ATA-ATTTTT
88800593 AT-ATTTTAT
1 ATAATTTT-T
*
88800602 ATTATTTTT
1 ATAATTTTT
*
88800611 CT-ATTTTT
1 ATAATTTTT
88800619 ATAATT
1 ATAATT
88800625 ATTTTTACAG
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
8 16 0.21
9 32 0.42
10 27 0.35
11 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:88800574 original size:11 final size:10
Alignment explanation
Indices: 88800503--88800576 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 10
88800493 TACGTTTTTT
*
88800503 ATTTTAAAT-
1 ATTTTATATA
*
88800512 ATTTTAAATA
1 ATTTTATATA
*
88800522 A-TTT-TATC
1 ATTTTATATA
88800530 A-TTTATTATA
1 ATTTTA-TATA
88800540 ATATTTATA-A
1 AT-TTTATATA
88800550 ATTTT-TATA
1 ATTTTATATA
88800559 ATTTTATATCA
1 ATTTTATAT-A
88800570 ATTTTAT
1 ATTTTAT
88800577 TATTTTTTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
8 8 0.15
9 21 0.39
10 11 0.20
11 10 0.19
12 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTATATA
Found at i:88800574 original size:19 final size:18
Alignment explanation
Indices: 88800519--88800622 Score: 70
Period size: 19 Copynumber: 5.7 Consensus size: 18
88800509 AATATTTTAA
*
88800519 ATAATTTTAT-CATTTATT
1 ATAATTTTATAAATTT-TT
88800537 ATAATATTTATAAATTTTT
1 ATAAT-TTTATAAATTTTT
88800556 ATAATTTTATATCAA-TTTT
1 ATAATTTTATA--AATTTTT
* * * *
88800575 ATTATTTTTTAGATATTT
1 ATAATTTTATAAATTTTT
*
88800593 AT-ATTTTATATTATTTTT
1 ATAATTTTATA-AATTTTT
* *
88800611 CTATTTTTATAA
1 ATAATTTTATAA
88800623 TTATTTTTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 8 0.12
18 22 0.32
19 32 0.47
20 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (18 bp):
ATAATTTTATAAATTTTT
Found at i:88800628 original size:36 final size:38
Alignment explanation
Indices: 88800543--88800628 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 38
88800533 TATTATAATA
88800543 TTTATAAATT-TTTATAATTTTATATCAATTTTATTATT
1 TTTAT-AATTATTTATAATTTTATATCAATTTTATTATT
*
88800581 TTT-TAGA-TATTTAT-ATTTTATAT-TATTTT-TCTATT
1 TTTATA-ATTATTTATAATTTTATATCAATTTTAT-TATT
88800616 TTTATAATTATTT
1 TTTATAATTATTT
88800629 TTACAGGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
34 1 0.02
35 13 0.31
36 18 0.43
37 7 0.17
38 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (38 bp):
TTTATAATTATTTATAATTTTATATCAATTTTATTATT
Found at i:88806800 original size:22 final size:22
Alignment explanation
Indices: 88806767--88806810 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
88806757 AATTGAATTC
*
88806767 AAATTTTAAAATATGAAATATA
1 AAATTTTAAAATATCAAATATA
*
88806789 AAATTATT-AAATTTCAAATATA
1 AAATT-TTAAAATATCAAATATA
88806811 CAAAAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTTTAAAATATCAAATATA
Found at i:88808025 original size:21 final size:21
Alignment explanation
Indices: 88808000--88808064 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
88807990 TAGCCTTCAG
88808000 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
88808021 GCTT-CAATTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
88808039 GCTTCCGTTCAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
88808060 GCTTC
1 GCTTC
88808065 AGTTAGACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 9 0.28
21 10 0.31
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:88808032 original size:39 final size:39
Alignment explanation
Indices: 88807982--88808082 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
88807972 GCTCTGGTGA
* *
88807982 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
*
88808021 GCTTCAATTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
*
88808060 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
88808083 AGATCACGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
Found at i:88808083 original size:18 final size:18
Alignment explanation
Indices: 88807982--88808084 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 18
88807972 GCTCTGGTGA
* *
88807982 GCTTCAGTTAGCCTTCAG
1 GCTTCAGTTAGACTTCGG
* * *
88808000 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
* *
88808021 GCTTCAATTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
88808039 GCTTCCGTTCAGCACTTATGT
1 GCTTCAGTT-AG-ACTT-CGG
88808060 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
88808078 GCTTCAG
1 GCTTCAG
88808085 ATCACGATGT
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
18 22 0.36
19 13 0.21
20 12 0.20
21 14 0.23
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:88817396 original size:23 final size:24
Alignment explanation
Indices: 88817305--88817398 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
88817295 TTTAATAACA
*
88817305 TTGAATTTTAGAAT-TTTTATATTT
1 TTGAATTTTA-AATATTTTTTATTT
88817329 TT-ATATTTTTAAAATATTTTTTATTT
1 TTGA-A-TTTT-AAATATTTTTTATTT
* *
88817355 TTGAATTTTAAAGAGTTTTTATTT
1 TTGAATTTTAAATATTTTTTATTT
* *
88817379 TT-CATTTTATATATTTTTTA
1 TTGAATTTTAAATATTTTTTA
88817399 CAAATTATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
23 15 0.26
24 18 0.31
25 11 0.19
26 13 0.22
27 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (24 bp):
TTGAATTTTAAATATTTTTTATTT
Found at i:88824562 original size:88 final size:87
Alignment explanation
Indices: 88824318--88824572 Score: 237
Period size: 91 Copynumber: 2.8 Consensus size: 87
88824308 TTTAAAAAAA
* * * **
88824318 AAAAAGAAAAAGTAATTAAGCCCCTATTTTTTTTACATTCAATTGGGTACTTGAACTTTTAAAAT
1 AAAAA-AAAAAGTAATTAAACCCCTATTTTTTTCAC-TT-AATTGAGTACTTGAACTACTAAAAT
* *
88824383 GCATAAAAAAATGCCCTTAAACTTTTT
63 GCATAAAAAAAAGCCCTCAAAC--TTT
* * * *
88824410 CAAAAAAAAAGTAATTAAACTTCTTCT-TTTTTTTCACTTAATT-AGGTACTTGAACTGCCAAAA
1 AAAAAAAAAAGTAATTAAAC--C-CCTATTTTTTTCACTTAATTGA-GTACTTGAACTACTAAAA
*
88824473 TGCATAAAAAAAAGAACTCTCAAAC-TT
62 TGCATAAAAAAAAG--CCCTCAAACTTT
* * * *
88824500 AAAAAAAAAAGCAATTAAACCCCTATTTTTTTCACTTAATTGAGTATTTAAACTACTAAAATGTA
1 AAAAAAAAAAGTAATTAAACCCCTATTTTTTTCACTTAATTGAGTACTTGAACTACTAAAATGCA
*
88824565 TTAAAAAA
66 TAAAAAAA
88824573 GGCTAGCGAC
Statistics
Matches: 135, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
87 2 0.01
88 41 0.30
89 1 0.01
90 20 0.15
91 46 0.34
92 6 0.04
93 17 0.13
94 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (87 bp):
AAAAAAAAAAGTAATTAAACCCCTATTTTTTTCACTTAATTGAGTACTTGAACTACTAAAATGCA
TAAAAAAAAGCCCTCAAACTTT
Found at i:88826577 original size:27 final size:27
Alignment explanation
Indices: 88826539--88826593 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
88826529 ATGGGAACAC
88826539 ACACCTTGAATAATGCATATAGCTCAA
1 ACACCTTGAATAATGCATATAGCTCAA
88826566 ACACCTTGAATAATGCATATAGCTCAA
1 ACACCTTGAATAATGCATATAGCTCAA
88826593 A
1 A
88826594 AGTTGTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (27 bp):
ACACCTTGAATAATGCATATAGCTCAA
Found at i:88828755 original size:33 final size:38
Alignment explanation
Indices: 88828718--88828796 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 38
88828708 ATTGTATTAG
88828718 TTATATTA-TATTT-TT-T-AA-AATATTTATTTATTTT
1 TTATATTATTATTTGTTGTCAATAATATTT-TTTATTTT
88828752 TATATATTATTATTTGTTGTCAATAATATTTTTTATTTT
1 T-TATATTATTATTTGTTGTCAATAATATTTTTTATTTT
88828791 TATATA
1 T-TATA
88828797 AAATTTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 1 0.03
35 7 0.18
36 5 0.13
37 2 0.05
38 1 0.03
39 16 0.41
40 7 0.18
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (38 bp):
TTATATTATTATTTGTTGTCAATAATATTTTTTATTTT
Found at i:88828764 original size:20 final size:20
Alignment explanation
Indices: 88828721--88828797 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
88828711 GTATTAGTTA
*
88828721 TATTATATTTTT-TAAAATATT
1 TATT-TATTTTTATATAATA-T
*
88828742 TATTTATTTTTATATATTAT
1 TATTTATTTTTATATAATAT
* * *
88828762 TATTTGTTGTCA-ATAATAT
1 TATTTATTTTTATATAATAT
*
88828781 TTTTTATTTTTATATAA
1 TATTTATTTTTATATAA
88828798 AATTTAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 14 0.32
20 21 0.48
21 9 0.20
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTTATTTTTATATAATAT
Found at i:88828852 original size:23 final size:22
Alignment explanation
Indices: 88828800--88828856 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
88828790 TTATATAAAA
*
88828800 TTTAAATTTATTATTATATTTT
1 TTTAAATTTTTTATTATATTTT
*
88828822 TTAAAAATATTTTTA-TATATTTCT
1 TT-TAAAT-TTTTTATTATATTT-T
88828846 TTTAAATTTTT
1 TTTAAATTTTT
88828857 AGAGTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTAAATTTTTTATTATATTTT
Found at i:88836165 original size:38 final size:38
Alignment explanation
Indices: 88836108--88836270 Score: 211
Period size: 38 Copynumber: 4.2 Consensus size: 38
88836098 TCGAAATATG
88836108 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAT
* **
88836148 ATAACCGGGTTAAATCCCGCAGGC-TCTGTTTTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTC-GTGCTGGTAAT
*
88836186 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
88836224 ATATCCGGGTTAAATCTCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
88836262 ATATTCGGG
1 ATATCCGGG
88836271 CCTTTGAGCC
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
37 2 0.02
38 96 0.87
39 4 0.04
40 8 0.07
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:88836259 original size:76 final size:78
Alignment explanation
Indices: 88836108--88836271 Score: 235
Period size: 76 Copynumber: 2.1 Consensus size: 78
88836098 TCGAAATATG
88836108 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAACCGGGTTAAATCCCGCAGGCT
1 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAACCGGGTTAAATCCCGCAGGCT
**
88836173 CTGTTTTGGTAAT
66 CTGTGCTGGTAAT
* * *
88836186 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCTCGCAGGC-
1 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAACCGGGTTAAATCCCGCAGGCT
*
88836248 CTAGTGCTGGTATT
66 CT-GTGCTGGTAAT
*
88836262 ATATTCGGGC
1 ATATCCGGGC
88836272 CTTTGAGCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
75 2 0.03
76 64 0.83
77 2 0.03
78 9 0.12
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (78 bp):
ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAACCGGGTTAAATCCCGCAGGCT
CTGTGCTGGTAAT
Found at i:88838204 original size:54 final size:54
Alignment explanation
Indices: 88838127--88838235 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
88838117 GGGTATTCAA
88838127 ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
1 ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
88838181 ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
1 ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
88838235 A
1 A
88838236 CATGCTAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (54 bp):
ATCATTTCATTTTGATACAGAAACAGTAACAATTTTCATCATTTCATTTATCAT
Found at i:88841753 original size:138 final size:137
Alignment explanation
Indices: 88841491--88841757 Score: 320
Period size: 138 Copynumber: 1.9 Consensus size: 137
88841481 ATCAAGAGCG
88841491 AAGCTCCAATAGTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAA
1 AAGCTCCAATAGTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAA
* * * * * * * *
88841556 ACAAAGCTCCCAGTTGTCAAACTAAGGTTTGCAGGCAAAGAGCCACAGCCTCTACCACAATTAGT
66 ACAAAGCTCCCAGCTGTCAAACTAAAGCTTACAAGCAAAGAGCCACAGCATCCAACACAATTAGT
88841621 GAGAGTA
131 GAGAGTA
* * ** * * *
88841628 AAGCTCCTAATTGTCATACTAAGGCTCACAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAG
1 AAGCTCC-AATAGTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAA
** * * * *
88841693 AGTAAAGCTCTCAGCTGTCATACTAAAGCTTACAAG-AGAAGAGCCGCAGTATCCAACACAATTA
65 AACAAAGCTCCCAGCTGTCAAACTAAAGCTTACAAGCA-AAGAGCCACAGCATCCAACACAATTA
88841757 G
129 G
88841758 CAGAAGCAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 8 0.07
138 99 0.93
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (137 bp):
AAGCTCCAATAGTCATACTAAGGCTCAAAGGAAAAAAGCCGCAACCTCCAACACAATTAGCGAAA
ACAAAGCTCCCAGCTGTCAAACTAAAGCTTACAAGCAAAGAGCCACAGCATCCAACACAATTAGT
GAGAGTA
Found at i:88841777 original size:69 final size:69
Alignment explanation
Indices: 88841333--88841788 Score: 274
Period size: 69 Copynumber: 6.6 Consensus size: 69
88841323 CCACAGATTT
* * * * * * * * *
88841333 CAACACAGTCAGCGAGAGCAAAGCTTCCAGCTGTCATAATAAGGCTTGCAGGCGAAAAGCCGTAG
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGGAGAAGAGCCGCAG
88841398 CCTC
66 CCTC
** * * * * * * * * * ** * *
88841402 CAACGTAGTTAGCAAAAGTAAAGCTCCTAACTATCACACTAAATCTTGTAGG-GAAAGAACTGCA
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGGAG-AAGAGCCGCA
*
88841466 ACCTC
65 GCCTC
* * * * * * * * * * * *
88841471 CATCATAGTTATCAAGAGCGAAGCT-CCA-ATAGTCATACTAAGGCTCAAAGGAAAAAAGCCGCA
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCT-GTCATACTAAAGCTTACAGGAGAAGAGCCGCA
*
88841534 ACCTC
65 GCCTC
* * * * * * * *
88841539 CAACACAATTAGCGAAAACAAAGCTCCCAGTTGTCAAACTAAGGTTTGCAGGCA-AAGAGCCACA
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGG-AGAAGAGCCGCA
88841603 GCCTC
65 GCCTC
* * * * * ** * * *
88841608 TACCACAATTAGTGAGAGTAAAGCTCCTAATTGTCATACTAAGGCTCACAGGCGAAGAGCCGCAG
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGGAGAAGAGCCGCAG
88841673 CCTC
66 CCTC
* * *
88841677 CAACACAATTAGCGAGAGTAAAGCTCTCAGCTGTCATACTAAAGCTTACAAGAGAAGAGCCGCAG
1 CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGGAGAAGAGCCGCAG
**
88841742 TATC
66 CCTC
* *
88841746 CAACACAATTAGC-AGAAGCAAAGCTCCCAGCTGCCATATTAAA
1 CAACACAATTAGCGAG-AGCAAAGCTCCCAGCTGTCATACTAAA
88841789 ACTAGTAGGT
Statistics
Matches: 292, Mismatches: 87, Indels: 16
0.74 0.22 0.04
Matches are distributed among these distances:
67 1 0.00
68 47 0.16
69 242 0.83
70 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (69 bp):
CAACACAATTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAAGCTTACAGGAGAAGAGCCGCAG
CCTC
Found at i:88841989 original size:57 final size:57
Alignment explanation
Indices: 88841861--88842007 Score: 170
Period size: 57 Copynumber: 2.6 Consensus size: 57
88841851 ACAATCCTCT
* * * *
88841861 AAAATTTTCTAAGAATAAAAAAGTCCGCAGAGTTACATTCCCAACTTGTTACTTTAG
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
** * * *
88841918 AAAAACTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAGCTTATTATTTTTG
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
* * * *
88841975 AAAGTTTTCCAAGTATAAAATAGCTCGCA-AGTC
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTC
88842008 CAAATTTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
56 4 0.05
57 71 0.95
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (57 bp):
AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
Found at i:88857940 original size:27 final size:27
Alignment explanation
Indices: 88857902--88857959 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
88857892 CGAGGGAAAT
88857902 AAAAGTTTT-GGGGGAAAACAAAAGTAA
1 AAAAGTTTTGGGGGGAAAACAAAAG-AA
* *
88857929 AAATGTTTTGGGGGGAAAATAAAAGAA
1 AAAAGTTTTGGGGGGAAAACAAAAGAA
88857956 AAAA
1 AAAA
88857960 AAATGTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (27 bp):
AAAAGTTTTGGGGGGAAAACAAAAGAA
Found at i:88859033 original size:50 final size:50
Alignment explanation
Indices: 88858975--88859071 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
88858965 AACACAACAA
* *
88858975 AGGCTTTAGCCTCAGCATAAATAGAGCATTATGACACGTTAACAATTAGT
1 AGGCTTTAGACTCAGCATAAATAGAACATTATGACACGTTAACAATTAGT
* * *
88859025 AGGCTTTAGACTTATCATAAATAGAACATTATGACATGTTAACAATT
1 AGGCTTTAGACTCAGCATAAATAGAACATTATGACACGTTAACAATT
88859072 GACATTGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (50 bp):
AGGCTTTAGACTCAGCATAAATAGAACATTATGACACGTTAACAATTAGT
Found at i:88861225 original size:53 final size:53
Alignment explanation
Indices: 88861144--88861244 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
88861134 AATTTAGAAT
* *
88861144 AAATATTATATATATATAATAGTGTAAAATAACA-AAGTATATATAAAAACTCCA
1 AAATAATATATATATATAATAGTGTAAAATAA-ATAA-TACATATAAAAACTCCA
* * *
88861198 AAATAATA-ATATGTATGATAGTTTAAAATAAATAATACATATAAAAA
1 AAATAATATATATATATAATAGTGTAAAATAAATAATACATATAAAAA
88861245 TTAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 12 0.29
53 22 0.54
54 7 0.17
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (53 bp):
AAATAATATATATATATAATAGTGTAAAATAAATAATACATATAAAAACTCCA
Found at i:88863084 original size:45 final size:45
Alignment explanation
Indices: 88862922--88863339 Score: 162
Period size: 44 Copynumber: 9.7 Consensus size: 45
88862912 TTTCTTTCAG
* * *
88862922 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTCAAC
* * * *
88862967 T-TGCCCCACTGCAATTTTAGAGGGATAAGGACTCGTAGCTTCAAC
1 TCTGCCCCACTGCAACTTCAGAGAGATAA-GACTTGTAGCTTCAAC
* * * * * *
88863012 -CTACCCCACTACAACTTCAG-GGGATAAGATTTATAGCTTTAAC
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTCAAC
* * * * * *
88863055 TCTGCTCTACTGCAATTTCAGAGAGATAAGATTTGCTATCTTCGA-
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTG-TAGCTTCAAC
* * * *
88863100 TCCGCTCCACTGCAA--T-----AG----GACTCGTAACTTCAAC
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTCAAC
* * * * *
88863134 -CTGCCCTACTGCAACTTCAGGGAGGTAAGATTTGCTATCTTCAA-
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTG-TAGCTTCAAC
* * * * * * * * *
88863178 TCCGCTCCACTACAAATTCAGGGAGATAGGACTCGTAACTTTAAC
1 TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTCAAC
* * * * *
88863223 T-TGTCCCACTACAACTTCA-AGGGGATAAGA-TTGTTATCTTC-AG
1 TCTGCCCCACTGCAACTTCAGA-GAGATAAGACTTG-TAGCTTCAAC
* * * * ** *
88863266 TCTACTCTACTGTAACTTCAG-GAAGATAAGACTTGTAATTTCAGC
1 TCTGCCCCACTGCAACTTCAGAG-AGATAAGACTTGTAGCTTCAAC
* *
88863311 -CTGCTCCACTGCAACTTCAGGGAGATAAG
1 TCTGCCCCACTGCAACTTCAGAGAGATAAG
88863340 GTTTGTTTTG
Statistics
Matches: 272, Mismatches: 73, Indels: 57
0.68 0.18 0.14
Matches are distributed among these distances:
33 18 0.07
34 4 0.01
35 1 0.00
38 2 0.01
40 2 0.01
43 18 0.07
44 129 0.47
45 92 0.34
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
TCTGCCCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTCAAC
Found at i:88863707 original size:88 final size:87
Alignment explanation
Indices: 88863579--88863883 Score: 389
Period size: 88 Copynumber: 3.5 Consensus size: 87
88863569 GATTAGCTTT
* * * * * *
88863579 CTTCAATCTACTCCGCTGCAACTTTAGGGAGATAAG-ATTGTGGCTTCGAGCCGCTCCAATGCTA
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCA
*
88863643 TTTCATGGAAAAGGGATTTGTAG
66 TTTCA-GGAAAAGAGATTTGTAG
* * * *
88863666 CTTCGATCTATTCCGCTGGAACTTCAATGAAATACGAATTGTGGCTTCGAACCGCTCCAATGCCA
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCA
* *
88863731 TTTTAGGAAGAAGAAATTTGTAG
66 TTTCAGGAA-AAGAGATTTGTAG
* ** *
88863754 CTTCGATCTACTCCACTAAAACTTCAAGGAGATATA-AATTGTGGCTTCGAACCACTCCAATGCC
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATA-AGAATTGTGGCTTCGAACCGCTCCAATGCC
88863818 ATTTCAGGGAAAAGAGATTTGTAG
65 ATTTCA-GGAAAAGAGATTTGTAG
* *
88863842 CTTCGATCTACTCTGCTGGAACTTTAAGGAGATAAGAATTGT
1 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGT
88863884 TTATTTCAAC
Statistics
Matches: 185, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
87 33 0.18
88 148 0.80
89 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (87 bp):
CTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCA
TTTCAGGAAAAGAGATTTGTAG
Found at i:88863757 original size:44 final size:44
Alignment explanation
Indices: 88863704--88863847 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 44
88863694 GAAATACGAA
* * *
88863704 TTGTGGCTTCGAACCGCTCCAATGCCATTTTAGGAAGAAGAAAT
1 TTGTAGCTTCGAACCACTCCAATGCCATTTAAGGAAGAAGAAAT
* * * *** * *
88863748 TTGTAGCTTCGATCTACTCCACTAAAACTTCAAGG-AGATATAAA-
1 TTGTAGCTTCGAACCACTCCAATGCCA-TTTAAGGAAGA-AGAAAT
* * *
88863792 TTGTGGCTTCGAACCACTCCAATGCCATTTCAGGGAA-AAGAGAT
1 TTGTAGCTTCGAACCACTCCAATGCCATTT-AAGGAAGAAGAAAT
88863836 TTGTAGCTTCGA
1 TTGTAGCTTCGA
88863848 TCTACTCTGC
Statistics
Matches: 72, Mismatches: 23, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
43 5 0.07
44 57 0.79
45 10 0.14
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
TTGTAGCTTCGAACCACTCCAATGCCATTTAAGGAAGAAGAAAT
Found at i:88864061 original size:130 final size:130
Alignment explanation
Indices: 88863901--88864719 Score: 980
Period size: 130 Copynumber: 6.3 Consensus size: 130
88863891 AACCCGCTCT
* *
88863901 ACTACTAC-TAGGGAGATAGGATGGTAGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
1 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
***** * * * * * *
88863965 TTGTTATATTTGATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTTAGCCTACTCC
66 TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
* *
88864030 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTATTGCTTAGGGAGACAAGAT
1 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
* * ** * *
88864095 TCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTTAGTCTACTCC
66 TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
* * *
88864160 ACTACTGCTTAGGGAGATAGGATGGTGACTTAAATCCGCTCCACTACTGTTTAGGGAGACAAGAT
1 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
* * **
88864225 TCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCC
66 TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
*
88864290 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGAT
1 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
* * * * * * *
88864355 TCACCGTCTTCGATCTGCTCTACTATTGCTTAGGGAGATAAAATCTACAATTTTTAGCTTGCTCT
66 TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
* * * * * * * * *
88864420 ACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCC-CTATTACCTCT-GGAAG-TA
1 ACTACTGCTTAGGGAGA-TAGGATGGTGGCTTAAATCTGC-TCCACTACT-GCT-TAGGGAGACA
* * * * ** *
88864482 AGATTCACCATCTTCGATCTGCTCTACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTA
62 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTA
88864547 CTCC
127 CTCC
* *
88864551 ACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGAT
1 ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
* * * * * *
88864616 TCACTGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCT
66 TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
* * * * *
88864681 ACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTG
1 ACTACTGCTTAGGGAGA-TAGGATGGTGGCTTAAATCTG
88864720 TTTCCGTACT
Statistics
Matches: 596, Mismatches: 85, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.00
129 16 0.03
130 454 0.76
131 115 0.19
132 9 0.02
133 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (130 bp):
ACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT
TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTACTCC
Found at i:88864327 original size:86 final size:86
Alignment explanation
Indices: 88863977--88864355 Score: 300
Period size: 86 Copynumber: 4.4 Consensus size: 86
88863967 GTTATATTTG
* * * *
88863977 ATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTTAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGA-TTGCAATCTTTAGCCTACTCCACTACTGCTTAG
*
88864042 GGAGATAGGAT-GGTGGCTTAA
65 GGAGATAAGATCGGTGGCTTAA
* * ** * * *
88864063 ATCTACTCCACTATTGCTTAGGGAGACAAGATTCGCCGTC-TTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATT-GCAATCTTTAG-CCTACTCCACTACTGCTTA
* * *** *
88864127 GAGAGATAAGATCTGTAATATTTA
64 GGGAGATAAGATCGGT-GGCTTAA
* * * * * ** * * * *
88864151 GTCTACTCCACTACTGCTTAGGGAGATAGGATGGTGA-CTTAAATCC-GCTCCACTACTGTTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTGCAATCTT-TAGCCTACTCCACTACTGCTTAG
* ** * **
88864214 GGAGACAAGATTCGCCGTCTTCG
65 GGAGATAAGA-TCGGTGGCTTAA
* * *
88864237 ATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGAT-TGCAATCTTTAGCCTACTCCACTACTGCTTAG
*
88864302 GGAGATAGGAT-GGTGGCTTAA
65 GGAGATAAGATCGGTGGCTTAA
*
88864323 ATCTGCTCCACTACTACTTAGGGAGACAAGATT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATT
88864356 CACCGTCTTC
Statistics
Matches: 223, Mismatches: 60, Indels: 21
0.73 0.20 0.07
Matches are distributed among these distances:
85 5 0.02
86 147 0.66
87 14 0.06
88 57 0.26
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (86 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATTGCAATCTTTAGCCTACTCCACTACTGCTTAGG
GAGATAAGATCGGTGGCTTAA
Found at i:88864385 original size:86 final size:87
Alignment explanation
Indices: 88864026--88864395 Score: 295
Period size: 86 Copynumber: 4.3 Consensus size: 87
88864016 CTTTAGCCTA
* *
88864026 CTCCACTACTGCTTAGGGAGATAGGAT-GGTGGCTTAAATCTACTCCACTATTGCTTAGGGAGAC
1 CTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGAC
*
88864090 AAGATTCGCCGTCTTCGATCTG
66 AAGATTCACCGTCTTCGATCTG
* * *** * *
88864112 CTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTTAGTCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCGGT-GGCTTAAATCTACTCCACTACTGCTTAGGGAGA
* * *** * ** *
88864177 TAGGA-T-GGTGACTTAAATCCG
65 CAAGATTCACCGTCTTCGATCTG
* * ** * ** * *
88864198 CTCCACTACTGTTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGA-TCGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGA
* * * * * *
88864263 TAAGATCTGTA--ATCTT-TAGCCTA
65 CAAGAT-T-CACCGTCTTCGA-TCTG
* * *
88864286 CTCCACTACTGCTTAGGGAGATAGGAT-GGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGAC
1 CTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGAC
88864350 AAGATTCACCGTCTTCGATCTG
66 AAGATTCACCGTCTTCGATCTG
* *
88864372 CTCTACTATTGCTTAGGGAGATAA
1 CTCCACTACTGCTTAGGGAGATAA
88864396 AATCTACAAT
Statistics
Matches: 216, Mismatches: 57, Indels: 22
0.73 0.19 0.07
Matches are distributed among these distances:
84 1 0.00
85 1 0.00
86 148 0.69
87 8 0.04
88 58 0.27
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGAC
AAGATTCACCGTCTTCGATCTG
Found at i:88864387 original size:44 final size:44
Alignment explanation
Indices: 88863928--88864659 Score: 284
Period size: 44 Copynumber: 16.8 Consensus size: 44
88863918 AGGATGGTAG
* * * ***
88863928 CTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTTAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * * * * * **
88863972 ATTTGATCTGCTCCACTACTGCTTAAGGAGACAGGA-CCTACAAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGT
* * * ** *
88864016 CTTTAG-CCTACTCCACTACTGCTTAGGGAGATAGGA-T-GGTGG
1 C-TTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * *
88864058 CTTAAATCTACTCCACTATTGCTTAGGGAGACAAGATTCGCCGT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * ***
88864102 CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGA-TCTGTAAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGT
* * * ** *
88864146 ATTTAG-TCTACTCCACTACTGCTTAGGGAGATAGGA-T-GGTGA
1 -CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * *
88864188 CTTAAATCCGCTCCACTACTGTTTAGGGAGACAAGATTCGCCGT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * ***
88864232 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGA-TCTGTAAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGT
* * * ** *
88864276 CTTTAG-CCTACTCCACTACTGCTTAGGGAGATAGGA-T-GGTGG
1 C-TTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * *
88864318 CTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * * ***
88864362 CTTCGATCTGCTCTACTATTGCTTAGGGAGATAAAATCTAC-AATT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CGCCGT
* * * * * * ** * * *
88864407 TTTAGCT-TGCTCTACTGCTGCTCAGGGAGACAAGGCTAG-TGG
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * * * *
88864449 CTTAAATCTGCTTCC-CTATTACCTCT-GGAAG-TAAGATTCACCAT
1 CTTAGATCTGC-TCCACTACT-GCT-TAGGGAGATAAGATTCGCCGT
* * * * ***
88864493 CTTCGATCTGCTCTACTATTACTTAGGGAGATAAGA-TCTGTAAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGT
* * * * ** *
88864537 CTTCAG-CCTACTCCACTACTACTTAGGGAGATAGGA-T-GGTGG
1 CTT-AGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * * * *
88864579 CTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACTGT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
* * *
88864623 CTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGAT
1 CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
88864660 CTACAATCTT
Statistics
Matches: 498, Mismatches: 159, Indels: 62
0.69 0.22 0.09
Matches are distributed among these distances:
41 10 0.02
42 115 0.23
43 29 0.06
44 327 0.66
45 16 0.03
46 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTAGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGT
Found at i:88864586 original size:261 final size:262
Alignment explanation
Indices: 88863976--88864796 Score: 1098
Period size: 261 Copynumber: 3.1 Consensus size: 262
88863966 TGTTATATTT
* * * * * * **
88863976 GATCTGCTCCACTACTGCTTAAGGAGACAGGACCTACAATCTTTAGCCTACTCCACTACTGCTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
* * * *
88864041 GGGAGATAGGATGGTGGCTTAAATCTACTCCACTATTGCTTAGGGAGACAAGATTCGCCGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* * ** * * * *
88864106 GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATATTTAG-TCTACTCCACTACTGCTT
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCT-TGCTCTACTGCTGCTC
* * * * * * * * * *
88864170 AGGGAGA-TAGGATGGTGACTTAAATCCGC-T-CC-ACTACTGTTTAGGGAGACAAGATTCGCCG
195 AGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-CTCT-GGAAGATAAGATTCGCCA
88864231 TCTTC
258 TCTTC
*
88864236 GATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
88864301 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* * *
88864366 GATCTGCTCTACTATTGCTTAGGGAGATAAAATCTACAATTTTTAGCTTGCTCTACTGCTGCTCA
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
* *
88864431 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTATTACCTCTGGAAG-TAAGATTCACCATCT
196 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCATCT
88864495 TC
261 TC
* * *
88864497 GATCTGCTCTACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTACTCCACTACTACTTA
1 GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
*
88864562 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACTGTCTTC
66 GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
* * * *
88864627 GATTTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCTACTGCTGCTCA
131 GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
* * *
88864692 GGGAGACAAGGCTAGTGGCTTAAATCTGTTTCCGTACTACCTCTGAAAGATAAGATTCGCCATCT
196 GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCATCT
88864757 TC
261 TC
* * *
88864759 GATCTGCTCCATTGA-TACCTCATGGAGATAAGATCTGT
1 GATCTGCTCCACT-ATTA-CTTAGGGAGATAAGATCTGT
88864797 GAATTTACCG
Statistics
Matches: 499, Mismatches: 54, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
260 177 0.35
261 261 0.52
262 34 0.07
263 23 0.05
264 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (262 bp):
GATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTTAGCCTACTCCACTACTGCTTA
GGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGACAAGATTCACCGTCTTC
GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATATTTAGCTTGCTCTACTGCTGCTCA
GGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGGAAGATAAGATTCGCCATCT
TC
Found at i:88864670 original size:44 final size:44
Alignment explanation
Indices: 88864586--88864701 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
88864576 TGGCTTAAAT
* * ** *
88864586 CTGCTCCACTACTACTTAGGGAGACAAGATTCACTGTCTTC-GAT
1 CTGCTCTACTACTGCTTAGGGAGACAAGATTCACAATCTTCAG-C
* *
88864630 TTGCTCTACTACTGCTTAGGGAGATAAGA-TCTACAATCTTCAGC
1 CTGCTCTACTACTGCTTAGGGAGACAAGATTC-ACAATCTTCAGC
* *
88864674 CTGCTCTACTGCTGCTCAGGGAGACAAG
1 CTGCTCTACTACTGCTTAGGGAGACAAG
88864702 GCTAGTGGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.03
44 56 0.95
45 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
CTGCTCTACTACTGCTTAGGGAGACAAGATTCACAATCTTCAGC
Found at i:88866024 original size:19 final size:19
Alignment explanation
Indices: 88866002--88866044 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
88865992 CAACCTTTCC
* *
88866002 TTTTCTTTTCTTTTTTCTTT
1 TTTTATTTT-TTTTCTCTTT
88866022 TTTTATTTTTTTTCTCTTT
1 TTTTATTTTTTTTCTCTTT
88866041 TTTT
1 TTTT
88866045 TGTGAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTATTTTTTTTCTCTTT
Found at i:88871548 original size:31 final size:28
Alignment explanation
Indices: 88871482--88871562 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
88871472 AATATGAAGA
* *
88871482 AATTTAACATAAATAATATATGAAAAAT
1 AATTTAAAATAAATAATATATGAAAAAC
*
88871510 AAGTTTAAAATAAATAATATATATATATAAAC
1 AA-TTTAAAATAAATAATATAT-GA-A-AAAC
* *
88871542 AATTTAATATAAGTAATATAT
1 AATTTAAAATAAATAATATAT
88871563 CTGAAATCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 18 0.41
30 1 0.02
31 18 0.41
32 5 0.11
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
AATTTAAAATAAATAATATATGAAAAAC
Found at i:88871779 original size:25 final size:25
Alignment explanation
Indices: 88871750--88871812 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
88871740 TGTATGATAG
88871750 TTTAAAATAAACAATACATATTAAAA
1 TTTAAAATAAACAATA-ATATTAAAA
* *
88871776 -TTAAAA-AGAATAATAGTATTAAAA
1 TTTAAAATA-AACAATAATATTAAAA
88871800 TTGTAAAATAAAC
1 TT-TAAAATAAAC
88871813 TTAAAACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
24 9 0.30
25 13 0.43
26 7 0.23
27 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (25 bp):
TTTAAAATAAACAATAATATTAAAA
Found at i:88873202 original size:17 final size:17
Alignment explanation
Indices: 88873177--88873218 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
88873167 ACATCAAGTT
* *
88873177 TATTTATTTCATGAAAA
1 TATTAATTTAATGAAAA
88873194 TATTAATTTTAATGAAAA
1 TATTAA-TTTAATGAAAA
88873212 TA-TAATT
1 TATTAATT
88873219 AAAATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
TATTAATTTAATGAAAA
Found at i:88874759 original size:12 final size:12
Alignment explanation
Indices: 88874726--88874763 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
88874716 TTCAAAATTT
*
88874726 ATATTTTTTAAA
1 ATATTTTTAAAA
*
88874738 A-ATTTATAAAA
1 ATATTTTTAAAA
88874749 ATATTTTTAAAA
1 ATATTTTTAAAA
88874761 ATA
1 ATA
88874764 AAGAAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:88878707 original size:46 final size:46
Alignment explanation
Indices: 88878512--88878816 Score: 214
Period size: 46 Copynumber: 6.5 Consensus size: 46
88878502 GGCCAACGCG
* * *
88878512 ATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCT-CGAGGCCGATG-C
* * * * **
88878562 ATGTCCTAGACATGGTCTTACACTGACACCTCTAT-ACG-TTCCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGGC-TCTC-ATCTCGAGGCCGATG-C
* * * *
88878610 ATGT-CCAGACATGGTCTTACACT-G-ACACATTTC-ATAGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-GGCCGATGC
88878654 ATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGC
* * * * * *
88878700 ATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCAGATGCC
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-C
* * *
88878747 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATGC
88878794 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
88878817 AGCACACAAA
Statistics
Matches: 210, Mismatches: 31, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.01
44 18 0.09
45 15 0.07
46 60 0.29
47 47 0.22
48 38 0.18
49 2 0.01
50 26 0.12
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGC
Found at i:88878793 original size:94 final size:94
Alignment explanation
Indices: 88878409--88878819 Score: 328
Period size: 94 Copynumber: 4.4 Consensus size: 94
88878399 GGTACAATGT
* * * ** *
88878409 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTTGATGCCATATCCC-GA
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCATATCATGCCGATGCCATGTCCCAG-
* * * *
88878472 ACATGGTCTTACATTGACTATCGA-AATTGAGGC
63 ACATGGTCTTACACTGGCTCTC-ATAA-TGTGGC
* * * *
88878505 CAACGCGATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCCTA
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAGCTCT--CATAT-CATGCCGATGCCATGTCCCA
* * * *
88878570 GACATGGTCTTACACTGACACCTC-TATACGT-TC
62 GACATGGTCTTACACTGGC-TCTCATA-ATGTGGC
* * *
88878603 CGATGCCATGT-CCAGACATGGTCTTACACT-G-ACACATTTCATAGCCGATG-CATGTCCCAGA
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT-GCCGATGCCATGTCCCAGA
* *
88878664 CAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
64 CATGGTCTTACACTGGCTCT-CATAAT-GTGGC
* * * *
88878694 CGATGCATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCAGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATGCCATGTCCCAGAC
88878758 ATGGTCTTACACTGGCTCTCATAATGTGGC
65 ATGGTCTTACACTGGCTCTCATAATGTGGC
*
88878788 TGATGCATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC
88878820 ACACAAATAA
Statistics
Matches: 253, Mismatches: 39, Indels: 48
0.74 0.11 0.14
Matches are distributed among these distances:
89 1 0.00
90 16 0.06
91 28 0.11
92 26 0.10
93 27 0.11
94 51 0.20
95 5 0.02
96 32 0.13
97 20 0.08
98 10 0.04
99 33 0.13
100 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATAATGTGGC
Found at i:88878797 original size:47 final size:47
Alignment explanation
Indices: 88878409--88878816 Score: 251
Period size: 47 Copynumber: 8.7 Consensus size: 47
88878399 GGTACAATGT
88878409 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGC
* * * * * *
88878456 TGATGCCATATCCC-GAACATGGTCTTACATTGACTATCGA-AATTGAGGC
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCTC-ATAA-TG-TGC
* * * * *
88878505 CAACGCGATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGC
* * * * *
88878555 CGATGCCATGTCCTAGACATGGTCTTACACTGACACCTC-TATACGTTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGC
* * * * *
88878603 CGATGCCATGT-CCAGACATGGTCTTACACTGACACAT-TTCAT-AGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGC
* *
88878648 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TGC
* * *
88878694 CGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA--TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGC
*
88878740 AGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GC
*
88878788 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
88878817 AGCACACAAA
Statistics
Matches: 283, Mismatches: 47, Indels: 63
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 20 0.07
45 17 0.06
46 57 0.20
47 81 0.29
48 38 0.13
49 29 0.10
50 35 0.12
51 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGC
Found at i:88881853 original size:11 final size:11
Alignment explanation
Indices: 88881837--88881866 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
88881827 TGATTAGTAT
88881837 AGATTATTTTA
1 AGATTATTTTA
88881848 AGATTA-TTTA
1 AGATTATTTTA
88881858 AGATTATTT
1 AGATTATTT
88881867 GACCTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (11 bp):
AGATTATTTTA
Found at i:88885827 original size:2 final size:2
Alignment explanation
Indices: 88885820--88885844 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88885810 CAACAACATT
88885820 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
88885845 TAATTTATCC
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:88888192 original size:53 final size:53
Alignment explanation
Indices: 88888109--88888213 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
88888099 TGCCCGTGTG
* * *
88888109 ACCCATACACCCAAATTGGCCTCACTCGTGTGGCCCACAAGGCTTAACTCAAA
1 ACCCACACACCCAAATTGGCCTCACCCGTGTGGCCCACAAGGCTAAACTCAAA
* * * *
88888162 ACCCACACGCCCAACTTGGCCT-AGCCCGTGTGGCCTACACGGCTAAACTCAA
1 ACCCACACACCCAAATTGGCCTCA-CCCGTGTGGCCCACAAGGCTAAACTCAA
88888214 GCCACCACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (53 bp):
ACCCACACACCCAAATTGGCCTCACCCGTGTGGCCCACAAGGCTAAACTCAAA
Found at i:88892451 original size:29 final size:29
Alignment explanation
Indices: 88892418--88892475 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
88892408 CCTATAAAGC
88892418 TTATTAACCCGAACAAACTACCCTAACAG
1 TTATTAACCCGAACAAACTACCCTAACAG
88892447 TTATTAACCCGAACAAACTACCCTAACAG
1 TTATTAACCCGAACAAACTACCCTAACAG
88892476 ACTCAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (29 bp):
TTATTAACCCGAACAAACTACCCTAACAG
Found at i:88894421 original size:16 final size:16
Alignment explanation
Indices: 88894400--88894442 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
88894390 AAACAGTTTG
*
88894400 TATTTTTAGAAAACCT
1 TATTTTTAGAAAACCA
88894416 TA-TTTTAGTAAAACCA
1 TATTTTTAG-AAAACCA
88894432 TAGTTTTTAGA
1 TA-TTTTTAGA
88894443 GATCAGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 6 0.26
16 10 0.43
17 1 0.04
18 6 0.26
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (16 bp):
TATTTTTAGAAAACCA
Found at i:88907626 original size:41 final size:40
Alignment explanation
Indices: 88907554--88907710 Score: 113
Period size: 41 Copynumber: 3.8 Consensus size: 40
88907544 GTGATATTCG
* * * *
88907554 GGCTTTAAGCCTAGCAAGCATTGTGCTGGTGAATGTAATTG
1 GGCTTTAAGCCTAGCAGGC-TTTTGCCGGTGAATGTAATTA
* * *
88907595 GGCTTTATGCCTAGCAGGCTTATTGCCGGTGAATATAAAATCA
1 GGCTTTAAGCCTAGCAGGCTT-TTGCCGGTGAATGT--AATTA
* * **
88907638 GACTTTAAGTCTAGCAGGCCTTAAGCCGGTG--TGTAATTCA
1 GGCTTTAAGCCTAGCAGG-CTTTTGCCGGTGAATGTAATT-A
**
88907678 GGC-TTATTCCTAGCAGGCTTTATGCCGGTGAAT
1 GGCTTTAAGCCTAGCAGGCTTT-TGCCGGTGAAT
88907711 TATTAAAAGT
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
38 3 0.03
39 21 0.24
40 5 0.06
41 31 0.35
43 25 0.28
44 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GGCTTTAAGCCTAGCAGGCTTTTGCCGGTGAATGTAATTA
Found at i:88910161 original size:19 final size:18
Alignment explanation
Indices: 88910134--88910191 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
88910124 TTTTTTAAAT
88910134 AATTTTAACTTGATTGAA
1 AATTTTAACTTGATTGAA
*
88910152 AATGTTTAACTCGATTGAA
1 AAT-TTTAACTTGATTGAA
88910171 ATCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
88910190 AA
1 AA
88910192 GTTGATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 18 0.51
20 11 0.31
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:88910624 original size:31 final size:32
Alignment explanation
Indices: 88910586--88910719 Score: 129
Period size: 31 Copynumber: 4.4 Consensus size: 32
88910576 AATATATAGC
*
88910586 TTGGGTGACCAAAATGAAAGTGA-CTTAAAAT
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAT
88910617 TTGGGTGACCAAAATGAAAGT-ACCCTAAAAT
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAT
* * * *
88910648 TTAGGTGACCAAAATG--AG-AACACCT-TATT
1 TTGGGTGACCAAAATGAAAGTGAC-CCTAAAAT
* * * *
88910677 TTGGGTGACCAGAATGAAAGCG-TCCTAAAAG
1 TTGGGTGACCAAAATGAAAGTGACCCTAAAAT
88910708 TTGGGTGACCAA
1 TTGGGTGACCAA
88910720 CTAAGTAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
29 20 0.24
30 7 0.08
31 57 0.68
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (32 bp):
TTGGGTGACCAAAATGAAAGTGACCCTAAAAT
Found at i:88911468 original size:66 final size:66
Alignment explanation
Indices: 88911355--88911484 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
88911345 TGAAGAAGTT
* *
88911355 GCTGGAGTGCATCATATTTTCTTGTTGCCTCTACTTCCCTCACTGCTGCCTCCGTTTTAAGTTGT
1 GCTGAAGTGCATCATATTTTCTTGTAGCCTCTACTTCCCTCACTGCTGCCTCCGTTTTAAGTTGT
88911420 A
66 A
* * * * *
88911421 GCTGAAGTTCATCATATTTTCTT-TGAGCCTTTGCTTCTCTC-CATGCTGCCTTCGTTTTAAGTT
1 GCTGAAGTGCATCATATTTTCTTGT-AGCCTCTACTTCCCTCAC-TGCTGCCTCCGTTTTAAGTT
88911484 G
64 G
88911485 AGCAATTTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 2 0.04
66 53 0.96
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (66 bp):
GCTGAAGTGCATCATATTTTCTTGTAGCCTCTACTTCCCTCACTGCTGCCTCCGTTTTAAGTTGT
A
Found at i:88912261 original size:194 final size:194
Alignment explanation
Indices: 88911932--88912321 Score: 744
Period size: 194 Copynumber: 2.0 Consensus size: 194
88911922 GCAGCTTCAG
*
88911932 TACTCATATGAGATACATCTTCCTTTCTATGTTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
1 TACTCATATGAGATACATCTTCCTTTCTATATTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
88911997 TGACCAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
66 TGACCAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
*
88912062 TGACACAATTAATAAATTCAAAATACTTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
131 TGACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
* *
88912126 TACTCATATGAGATATATCTTTCTTTCTATATTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
1 TACTCATATGAGATACATCTTCCTTTCTATATTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
88912191 TGACCAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
66 TGACCAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
88912256 TGACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
131 TGACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
88912320 TA
1 TA
88912322 TCTGTGTGAA
Statistics
Matches: 192, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 192 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (194 bp):
TACTCATATGAGATACATCTTCCTTTCTATATTTAATGTCAAAAAGCTAAAGGCGTCCAACTTTT
TGACCAGATGACAGTTCCTATAATATAGTATAAAAAATATTATTTAGTAGAAAATAATTAATATT
TGACACAATTAATAAATTCAAAATACCTCGTCATCAGCTACACAAGCAAACTTTTCGACCTAGC
Found at i:88918283 original size:23 final size:22
Alignment explanation
Indices: 88918231--88918283 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
88918221 TCCACGTCTT
*
88918231 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
88918253 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
88918276 TTTCTTTT
1 TTTCTTTT
88918284 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:88923926 original size:21 final size:21
Alignment explanation
Indices: 88923902--88923941 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88923892 ATAAACTTTT
*
88923902 CAATTGATTGTATAAAACAAA
1 CAATAGATTGTATAAAACAAA
*
88923923 CAATAGGTTGTATAAAACA
1 CAATAGATTGTATAAAACA
88923942 GTATACTTTT
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:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (21 bp):
CAATAGATTGTATAAAACAAA
Found at i:88924655 original size:25 final size:25
Alignment explanation
Indices: 88924618--88924665 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
88924608 AAAAACTTAC
88924618 ATGGCAATACAGCAGAGGACTATCA
1 ATGGCAATACAGCAGAGGACTATCA
* *
88924643 ATGGCGATGCAGCAGAGGACTAT
1 ATGGCAATACAGCAGAGGACTAT
88924666 TGACAACGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (25 bp):
ATGGCAATACAGCAGAGGACTATCA
Found at i:88924718 original size:20 final size:21
Alignment explanation
Indices: 88924686--88924736 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
88924676 GCAGTAGATG
88924686 TTGGGGAAAAAAATAAGGGAT
1 TTGGGGAAAAAAATAAGGGAT
88924707 TTGGGGAAAAAAATAAGGGAT
1 TTGGGGAAAAAAATAAGGGAT
*
88924728 TTCGGGAAA
1 TTGGGGAAA
88924737 CTGATTTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.33, T:0.20
Consensus pattern (21 bp):
TTGGGGAAAAAAATAAGGGAT
Found at i:88924873 original size:41 final size:39
Alignment explanation
Indices: 88924828--88924993 Score: 113
Period size: 42 Copynumber: 4.0 Consensus size: 39
88924818 AAATGCCACA
*
88924828 ATTGCTTTAGCTTTAGCGGCGTTTATGAAAAAAA-CACTGCT
1 ATTGCTTTA-CTTTTGCGGCGTTTATGAAAAAAAGC-C-GCT
* *
88924869 ATTGCTTTACTGTTTGTGGCATTTATGAGAAAAAAGCCGCT
1 ATTGCTTTACT-TTTGCGGCGTTTATGA-AAAAAAGCCGCT
* * *
88924910 ATAGTTTTAACCTTTTGCGGCGTTTATGAGAAAAATA-CCACT
1 ATTGCTTT-A-CTTTTGCGGCGTTTATGA-AAAAA-AGCCGCT
* * * *
88924952 ATAG-TTATAACCTTTTGCGGCGTTTATGCATAAACGCCGCT
1 ATTGCTT-T-A-CTTTTGCGGCGTTTATGAAAAAAAGCCGCT
88924993 A
1 A
88924994 CTATTTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
40 2 0.02
41 42 0.40
42 57 0.54
43 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (39 bp):
ATTGCTTTACTTTTGCGGCGTTTATGAAAAAAAGCCGCT
Found at i:88924936 original size:42 final size:41
Alignment explanation
Indices: 88924838--88924979 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 41
88924828 ATTGCTTTAG
* * *
88924838 CTTTAGCGGCGTTTATGA-AAAAAACACTGCTATTGCTTT-A-
1 CTTTTGCGGCGTTTATGAGAAAAAAC-C-GCTATAGTTTTAAC
* *
88924878 CTGTTTGTGGCATTTATGAGAAAAAAGCCGCTATAGTTTTAAC
1 CT-TTTGCGGCGTTTATGAGAAAAAA-CCGCTATAGTTTTAAC
* *
88924921 CTTTTGCGGCGTTTATGAGAAAAATACCACTATAGTTATAAC
1 CTTTTGCGGCGTTTATGAGAAAAA-ACCGCTATAGTTTTAAC
88924963 CTTTTGCGGCGTTTATG
1 CTTTTGCGGCGTTTATG
88924980 CATAAACGCC
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
40 2 0.02
41 22 0.25
42 59 0.68
43 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (41 bp):
CTTTTGCGGCGTTTATGAGAAAAAACCGCTATAGTTTTAAC
Found at i:88933916 original size:40 final size:34
Alignment explanation
Indices: 88933871--88933955 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 34
88933861 CCAAAATTAT
88933871 TATTTTAGAAAATTTTTAAAATATTAACTTTATATATATA
1 TATTTTAG-AAATTTTTAAAAT-TT-A---TATATATATA
*
88933911 TATTTTAGAATTTTTTAAAATTTATATATATATA
1 TATTTTAGAAATTTTTAAAATTTATATATATATA
88933945 TATTTTA-AAAT
1 TATTTTAGAAAT
88933956 ATAAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
37 1 0.02
38 2 0.05
39 12 0.28
40 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (34 bp):
TATTTTAGAAATTTTTAAAATTTATATATATATA
Found at i:88933943 original size:38 final size:40
Alignment explanation
Indices: 88933871--88933947 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 40
88933861 CCAAAATTAT
*
88933871 TATTTTAGAAAATTTTTAAAATATTAACTTTATATATATA
1 TATTTTAGAAAATTTTTAAAATATTAACTATATATATATA
*
88933911 TATTTTAG-AATTTTTTAAAAT-TT-A-TATATATATATA
1 TATTTTAGAAAATTTTTAAAATATTAACTATATATATATA
88933947 T
1 T
88933948 TTTAAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 1 0.03
38 2 0.06
39 12 0.34
40 8 0.23
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (40 bp):
TATTTTAGAAAATTTTTAAAATATTAACTATATATATATA
Found at i:88946231 original size:46 final size:46
Alignment explanation
Indices: 88946163--88946515 Score: 229
Period size: 46 Copynumber: 7.6 Consensus size: 46
88946153 TTATTTGTGT
88946163 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGATGAGA
88946209 GCTAGTGTAAGACCATGT-TGGGACATGGCATCGG--CATTGA-GACAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTGATG---AGA
* * *
88946256 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTCGA--GATTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTGATGAGA
*
88946301 GCTAGTGTAAGATCATGTCTGGGACATGGCATCGG--CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT--GATGAGA
* * *
88946349 GCTAGTGTAAGACATGTCTGAGACATGTATCGGCCTCA-AGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGATG-AGA
* * * * * *
88946395 ACCAATGTAAGACATGTCTGGGACAT-CATCGG-CTA-CGA-GATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGATGA-GA
* *
88946438 G-TCAGTGTAAGACTATGTCTGGGACATGGCATCAGCACGGATATG-TGAGA
1 GCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-C-CAT-TGATGAGA
* *
88946488 GCTAATGTAAAACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
88946516 GTATTGGCCT
Statistics
Matches: 243, Mismatches: 27, Indels: 71
0.71 0.08 0.21
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 13 0.05
44 20 0.08
45 19 0.08
46 82 0.34
47 58 0.24
48 16 0.07
49 5 0.02
50 23 0.09
51 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGATGAGA
Found at i:88946257 original size:47 final size:47
Alignment explanation
Indices: 88946163--88946622 Score: 249
Period size: 47 Copynumber: 9.8 Consensus size: 47
88946153 TTATTTGTGT
88946163 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATG---AGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGA-GACAAGA
88946209 GCTAGTGTAAGACCATGT-TGGGACATGGCATCGGCATTGAGACAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACAAGA
* * * * **
88946256 GCTAGTGTAAGACATGTTTGGGACAT-GCATTGGCCTCGAGATTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACAAGA
*
88946301 GCTAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACAAGA
* * * ** *
88946349 GCTAGTGTAAGACATGTCTGAGACAT-GTATCGGCCTCAAGATGTAA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGA--CAAGA
* * * * *
88946396 -CCAATGTAAGACATGTCTGGGACAT--CATCGGC--T-ACGAGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGA-GACAAGA
* ** * **
88946438 G-TCAGTGTAAGACTATGTCTGGGACATGGCATCAGCACGGATATGTGAGA
1 GCT-AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATTGAGA--CAAGA
* * * * * ** *
88946488 GCTAATGTAAAACCATGTCTGGGACATGGTATTGGCCTTGATTTCAATA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGA-GACAAGA
* ** * *
88946537 G-TCAGTGTAAGACCATATCTGGGACATGGCATCAAC-TTGATG-GATGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGA-GACAAGA
* * *
88946584 GCCAGTGTAAGACCATATCTGGGACATGGCATCAGCATT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATT
88946623 ATACCTTATG
Statistics
Matches: 324, Mismatches: 60, Indels: 58
0.73 0.14 0.13
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 11 0.03
44 18 0.06
45 20 0.06
46 90 0.28
47 97 0.30
48 23 0.07
49 30 0.09
50 30 0.09
51 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACAAGA
Found at i:88946324 original size:93 final size:91
Alignment explanation
Indices: 88946163--88946427 Score: 347
Period size: 93 Copynumber: 2.9 Consensus size: 91
88946153 TTATTTGTGT
* * *
88946163 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GATTA-AGCTAGTGTAAGA-CATGTC
88946227 TGGGACATGGCATCGGCATTGAGACAAGA
63 TGGGACATGGCATCGGCATTGAGACAAGA
* *
88946256 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTCGAGATTAAGCTAGTGTAAGATCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGATTAAGCTAGTGTAAGA-CATGTCT
*
88946321 GGGACATGGCATCGGCATTGAGACGAGA
64 GGGACATGGCATCGGCATTGAGACAAGA
* * * * *
88946349 GCTAGTGTAAGACATGTCTGAGACATGTATCGGCCTCAAGATGTAAACCAATGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGAT-TAAGCTAGTGTAAGACATGTCT
88946414 GGGACAT--CATCGGC
64 GGGACATGGCATCGGC
88946428 TACGAGATGT
Statistics
Matches: 154, Mismatches: 15, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
91 7 0.05
92 18 0.12
93 116 0.75
94 13 0.08
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATTAAGCTAGTGTAAGACATGTCTGG
GACATGGCATCGGCATTGAGACAAGA
Found at i:88954677 original size:46 final size:46
Alignment explanation
Indices: 88954618--88954830 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 46
88954608 ATTGATACGA
* * * * *
88954618 AAGCTAGTG-AAGACATGTCTAGGACATACACCAGCCTGGAGATGT
1 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGT
* * *
88954663 AAGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAGACG-
1 AAGCCAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGCCTCGAGATGT
* * * *
88954710 AGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAGATTT
1 A-AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGT
*
88954757 AAGCCAGTGTAAGACATGTC-AGGGACATGCATCGG-CTATGAGATGT
1 AAGCCAGTGTAAGACATGTCTA-GGACATGCATCGGCCT-CGAGATGT
* *
88954803 --GTCAGTGTAAGACCATGTCTAGAACATG
1 AAGCCAGTGTAAGA-CATGTCTAGGACATG
88954831 ACATTGGAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 11 0.08
45 23 0.17
46 52 0.38
47 28 0.20
48 24 0.17
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGT
Found at i:88954768 original size:94 final size:93
Alignment explanation
Indices: 88954595--88954837 Score: 273
Period size: 94 Copynumber: 2.6 Consensus size: 93
88954585 CATGTATGAA
* * * * *** **
88954595 ACATGGCATCGACATTGATACGAAAGCTAGTG-AAGACATGTCTAGGACATACACCAGCCTGGAG
1 ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAG
88954659 ATGTAAGCCAGTGTAAGACTATGTCTA-GG
66 ATGTAAGCCAGTGTAAGAC-ATGTC-AGGG
88954688 ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAG
1 ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAG
*
88954753 ATTTAAGCCAGTGTAAGACATGTCAGGG
66 ATGTAAGCCAGTGTAAGACATGTCAGGG
* * * *
88954781 ACAT-GCATCGGC-TATGAGATGTG-TC-AGTGTAAGACCATGTCTAGAACATGACATTGG
1 ACATGGCATCGGCAT-TGAGACGAGAGCTAGTGTAAGA-CATGTCTAGGACATG-CATTGG
88954838 AATGTATATA
Statistics
Matches: 131, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
90 9 0.07
91 16 0.12
92 22 0.17
93 40 0.31
94 44 0.34
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (93 bp):
ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAG
ATGTAAGCCAGTGTAAGACATGTCAGGG
Found at i:88955031 original size:47 final size:47
Alignment explanation
Indices: 88954853--88955031 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 47
88954843 ATATAGGTGT
* *
88954853 TAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGAAT-ATGTGA-GAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC--TTGATG-GATGAGC
* * ** * *
88954903 TAGTGTAAGACCATGTATGGGACATTGCGCCGACCTCGATTTCGAT-AG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGA--TGGATGAGC
88954951 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGC
88954999 TAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGA
88955032 TATTATACAT
Statistics
Matches: 107, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
46 4 0.04
47 34 0.32
48 8 0.07
49 34 0.32
50 27 0.25
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGC
Found at i:88957480 original size:50 final size:50
Alignment explanation
Indices: 88957361--88957643 Score: 302
Period size: 50 Copynumber: 5.6 Consensus size: 50
88957351 GTTGTGAGAA
* * ** *
88957361 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATTGTTAGGT
* *
88957413 CACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
88957463 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGT
* * *
88957514 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCC-GATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGT
* * *
88957564 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
88957614 CGCATGTTTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
88957644 TGCATACTAG
Statistics
Matches: 195, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.02
50 118 0.61
51 43 0.22
52 30 0.15
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:88957543 original size:101 final size:101
Alignment explanation
Indices: 88957412--88957593 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 101
88957402 CGGTTTTAGG
* * *
88957412 TCACGTGTTTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCC-GATGGTTAGGTCACATGTGTAGTA
88957476 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGA
65 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGA
* *
88957513 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCCGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCGATGGTTAGGTCACATGTGTAGTAC
88957578 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
88957594 CGTATACTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
101 73 0.97
102 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGA
Found at i:88963384 original size:27 final size:27
Alignment explanation
Indices: 88963349--88963507 Score: 176
Period size: 27 Copynumber: 5.8 Consensus size: 27
88963339 CTAGTATATA
* * *
88963349 TCAACTCGCACACTTAGTGCTACGTAA
1 TCAAATCGCACACTTAGTGCTACATAG
88963376 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCTACATAG
** *
88963403 TCAAACTCGCACACTTAGTGCCGCATGG
1 TCAAA-TCGCACACTTAGTGCTACATAG
* *
88963431 TCAATTCGCACACTTAGTGC-ATCATAT
1 TCAAATCGCACACTTAGTGCTA-CATAG
** *
88963458 TCATTTCGCACACTTAGTGCAACATTAG
1 TCAAATCGCACACTTAGTGCTACA-TAG
88963486 TCAAATCGCCACACTTAGTGCT
1 TCAAATCG-CACACTTAGTGCT
88963508 GTACAATTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
27 68 0.61
28 32 0.29
29 12 0.11
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCTACATAG
Found at i:88963414 original size:55 final size:55
Alignment explanation
Indices: 88963349--88963507 Score: 187
Period size: 55 Copynumber: 2.9 Consensus size: 55
88963339 CTAGTATATA
* * *
88963349 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTA-CATAG
1 TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
** * * *
88963403 TCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATAT
1 TC-AACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
**
88963458 TCATTTCGCACACTTAGTGCAACATTAGTCAAATCGCCACACTTAGTGCT
1 TCAACTCGCACACTTAGTGCAACA-TAGTCAAATCG-CACACTTAGTGCT
88963508 GTACAATTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
54 21 0.24
55 54 0.62
56 12 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
TCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTATCATAG
Found at i:88963469 original size:82 final size:83
Alignment explanation
Indices: 88963349--88963506 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 83
88963339 CTAGTATATA
* *
88963349 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACA-TAGTCAAACTCG-
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATTAGTCAAA-TCGC
88963412 CACACTTAGTGCCGCATGG
65 CACACTTAGTGCCGCATGG
* * **
88963431 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATTAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATTAGTCAAATCGC
88963495 CACACTTAGTGC
65 CACACTTAGTGC
88963507 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 1 0.01
82 46 0.69
83 20 0.30
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (83 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATTAGTCAAATCGCC
ACACTTAGTGCCGCATGG
Found at i:88971515 original size:27 final size:27
Alignment explanation
Indices: 88971485--88971662 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88971475 ATATTGAGTC
* * * *
88971485 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
88971512 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88971539 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
88971567 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88971594 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88971621 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88971648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88971663 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88971624 original size:82 final size:81
Alignment explanation
Indices: 88971506--88971661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88971496 TGCTATATAA
* *
88971506 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
88971571 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88971588 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88971652 CACTTAGTGC
65 CACTTAGTGC
88971662 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88975909 original size:50 final size:49
Alignment explanation
Indices: 88975835--88975981 Score: 183
Period size: 50 Copynumber: 3.0 Consensus size: 49
88975825 TGTTTTAGAC
*
88975835 GATT-TTAGGTCAAGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCC-
1 GATTGTTAGGTCAA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCA
*
88975884 G-TTGGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACAACGTGTACCA
1 GATT-GTTAGGTCA-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
* * *
88975934 GATTGTTAGGCCATATGTGTAGTATTAAGTGCAGGCTACTATGTGTAC
1 GATTGTTAGGTCA-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
88975982 TAGAGAGCTT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 78 0.91
51 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (49 bp):
GATTGTTAGGTCAATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
Found at i:88978950 original size:34 final size:34
Alignment explanation
Indices: 88978907--88978975 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
88978897 AACGCCGATG
88978907 GTTAGAACTGCTAAAAGACTATAAGCTTGTGATT
1 GTTAGAACTGCTAAAAGACTATAAGCTTGTGATT
*
88978941 GTTAGAACTGCTAAAAGACTATGAGCTTGTGATT
1 GTTAGAACTGCTAAAAGACTATAAGCTTGTGATT
88978975 G
1 G
88978976 ACTATCACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (34 bp):
GTTAGAACTGCTAAAAGACTATAAGCTTGTGATT
Found at i:88981367 original size:125 final size:125
Alignment explanation
Indices: 88981216--88981465 Score: 446
Period size: 125 Copynumber: 2.0 Consensus size: 125
88981206 TGATGATGAA
*
88981216 AAATGAAAGATATGTTTTAGCTTAACATATTTTGTATTGGAATTTTTGATAATTTTGAGTAATAA
1 AAATGAAAGATATGTTTTAGCTTAACATATTTTGTATTGGAATTTTTAATAATTTTGAGTAATAA
* *
88981281 GGACTTAATTGCAAAAATAATAATTTAAGGGTCTAAAATTTGAAATTAATGAAATATATG
66 GGACTTAATTGCAAAAATAATAATTTAAGGGACTAAAATGTGAAATTAATGAAATATATG
*
88981341 AAATGAAAGATATGTTTTAGCTTAACATATTTTGTATTGGAATTTTTAATAATTTTGAGTAATTA
1 AAATGAAAGATATGTTTTAGCTTAACATATTTTGTATTGGAATTTTTAATAATTTTGAGTAATAA
* *
88981406 GGACTTAATTGCAAAAATAATAATTTGAGGGACTGAAATGTGAAATTAATGAAATATATG
66 GGACTTAATTGCAAAAATAATAATTTAAGGGACTAAAATGTGAAATTAATGAAATATATG
88981466 GACTCGTATG
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (125 bp):
AAATGAAAGATATGTTTTAGCTTAACATATTTTGTATTGGAATTTTTAATAATTTTGAGTAATAA
GGACTTAATTGCAAAAATAATAATTTAAGGGACTAAAATGTGAAATTAATGAAATATATG
Found at i:88982239 original size:39 final size:39
Alignment explanation
Indices: 88982196--88982274 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
88982186 GTAAGAATTT
88982196 ATTTGATATTTACATGAGATAAGGTAAGTAAATATTAAG
1 ATTTGATATTTACATGAGATAAGGTAAGTAAATATTAAG
88982235 ATTTGATATTTACATGAGATAAGGTAAGTAAATATTAAG
1 ATTTGATATTTACATGAGATAAGGTAAGTAAATATTAAG
88982274 A
1 A
88982275 ATATTTGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (39 bp):
ATTTGATATTTACATGAGATAAGGTAAGTAAATATTAAG
Found at i:88988330 original size:45 final size:44
Alignment explanation
Indices: 88988245--88988330 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
88988235 TATGTAATTT
* *
88988245 GAACTCATTGAGTTGTGTTTGAGTTTATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTCTGAGTTTATGATATATATGACATCC
* *
88988289 GAACTCATTGAGTTGTGGTCTGAGTTTGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTTATGATATATATGACA
88988331 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTTATGATATATATGACATCC
Found at i:88990158 original size:13 final size:13
Alignment explanation
Indices: 88990142--88990174 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
88990132 TTTAATTAAA
*
88990142 TTAGTTAATTAGT
1 TTAGATAATTAGT
88990155 TTAGATAATTAGT
1 TTAGATAATTAGT
88990168 TTA-ATAA
1 TTAGATAA
88990175 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:88995553 original size:7 final size:6
Alignment explanation
Indices: 88995497--88995580 Score: 59
Period size: 6 Copynumber: 14.7 Consensus size: 6
88995487 TCCTCCTATT
* * * * *
88995497 TTTTTA TTCTTA TTCTTA TTCTTA -TTTTA -TTTTA TTTTTC TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * *
88995543 TTTTGA TTTTTA TTTTCA -TTTCA ATTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
88995581 GAAAATATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
5 19 0.28
6 48 0.72
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:89005498 original size:15 final size:15
Alignment explanation
Indices: 89005478--89005511 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
89005468 AGGTATTTTT
89005478 GAAAGTGTCACCATG
1 GAAAGTGTCACCATG
89005493 GAAAGTGTCACCATG
1 GAAAGTGTCACCATG
89005508 GAAA
1 GAAA
89005512 AAGGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (15 bp):
GAAAGTGTCACCATG
Found at i:89009689 original size:78 final size:80
Alignment explanation
Indices: 89009559--89009774 Score: 323
Period size: 78 Copynumber: 2.7 Consensus size: 80
89009549 TCGATGATAA
*
89009559 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGT-CCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
**
89009622 GTGCGAGTTACTATAT
65 GTGCGAACTACTATAT
*
89009638 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
89009702 TGCGAACTACTATAT
66 TGCGAACTACTATAT
* * * *
89009717 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGG
89009775 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
78 46 0.37
79 41 0.33
80 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTATAT
Found at i:89009693 original size:40 final size:40
Alignment explanation
Indices: 89009559--89009774 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
89009549 TCGATGATAA
* *
89009559 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
89009599 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
89009638 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
89009677 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
89009717 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
89009757 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
89009775 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 10 0.06
39 66 0.41
40 86 0.53
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:89017904 original size:40 final size:39
Alignment explanation
Indices: 89017849--89018052 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 39
89017839 CGAATGATAA
*
89017849 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
89017889 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
89017929 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAT
*
89017969 CCGGGCTAAGTCCCGAAGGCATTTGTGCGACCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACTATAT
* *
89018009 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
89018049 CCGG
1 CCGG
89018053 TTAAAGCCCG
Statistics
Matches: 154, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
39 2 0.01
40 148 0.96
41 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:89023030 original size:3 final size:3
Alignment explanation
Indices: 89023015--89023068 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
89023005 TTATTTTCTT
* *
89023015 TAA TAA CAA TAA TAA TGA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89023062 TAA TAA T
1 TAA TAA T
89023069 GGGAAAAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:89023425 original size:23 final size:23
Alignment explanation
Indices: 89023399--89023442 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
89023389 AACATAAACA
*
89023399 AACATGTTCGTGAACGCTAAATG
1 AACATGTTCGCGAACGCTAAATG
*
89023422 AACATGTTCGCGAATGCTAAA
1 AACATGTTCGCGAACGCTAAA
89023443 CGAATCGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (23 bp):
AACATGTTCGCGAACGCTAAATG
Found at i:89028340 original size:17 final size:18
Alignment explanation
Indices: 89028305--89028340 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89028295 CAAGTAAGCA
*
89028305 CACGGGCGTGTGCCCAGG
1 CACGGGCATGTGCCCAGG
89028323 CACGGGCATGTG-CCAGG
1 CACGGGCATGTGCCCAGG
89028340 C
1 C
89028341 CATATGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.14, C:0.33, G:0.42, T:0.11
Consensus pattern (18 bp):
CACGGGCATGTGCCCAGG
Found at i:89031236 original size:42 final size:41
Alignment explanation
Indices: 89031124--89031242 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 41
89031114 ACTAAGATGT
* *
89031124 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
1 GATT-CATGTAAGACCATGTCTGGGATA-TGGCATCGATAATC
*
89031167 GATTTCATGTAAGA-CACTGTCTGGGATAGTGGCATCGAT-GTGC
1 GA-TTCATGTAAGACCA-TGTCTGGGATA-TGGCATCGATAAT-C
* *
89031210 GATTCATGTAAGACCATATCTAGGATATGGCAT
1 GATTCATGTAAGACCATGTCTGGGATATGGCAT
89031243 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
41 6 0.09
42 23 0.35
43 35 0.53
44 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
GATTCATGTAAGACCATGTCTGGGATATGGCATCGATAATC
Found at i:89042950 original size:280 final size:280
Alignment explanation
Indices: 89042449--89043009 Score: 1095
Period size: 280 Copynumber: 2.0 Consensus size: 280
89042439 GGAAATCCTG
89042449 TTTGAACCTTAGGAATATTTTAGGATACGAATGACTTGTCACTAAGAACTATGTGATCTGAACTC
1 TTTGAACCTTAGGAATATTTTAGGATACGAATGACTTGTCACTAAGAACTATGTGATCTGAACTC
*
89042514 ATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACACATGTTTTGGCGTCTGGGTATTGGTCCCA
66 ATTGAGTTGTGGTCTGAGTTCATAATGTATGTGACACATGTTTTGGCGTCTGGGTATTGGTCCCA
89042579 CATATTCTACCTGTGGCTGGGTAGTCCGGCATGTGTTGCAGAAACCTGACAACCTATGTGAGCAG
131 CATATTCTACCTGTGGCTGGGTAGTCCGGCATGTGTTGCAGAAACCTGACAACCTATGTGAGCAG
*
89042644 ACCTGTGAGTAGCTTGAAAGCAAGCAACACGTGATATGTGATATGAGGTAGTGTTGGCTACATAT
196 ACCTGTCAGTAGCTTGAAAGCAAGCAACACGTGATATGTGATATGAGGTAGTGTTGGCTACATAT
89042709 GAGACACTTAGGTGCAAGAT
261 GAGACACTTAGGTGCAAGAT
89042729 TTTGAACCTTAGGAATATTTTAGGATACGAATGACTTGTCACTAAGAACTATGTGATCTGAACTC
1 TTTGAACCTTAGGAATATTTTAGGATACGAATGACTTGTCACTAAGAACTATGTGATCTGAACTC
89042794 ATTGAGTTGTGGTCTGAGTTCATAATGTATGTGACACATGTTTTGGCGTCTGGGTATTGGTCCCA
66 ATTGAGTTGTGGTCTGAGTTCATAATGTATGTGACACATGTTTTGGCGTCTGGGTATTGGTCCCA
89042859 CATATTCTACCTGTGGCTGGGTAGTCCGGCATGTGTTGCAGAAACCTGACAACCTATGTGAGCAG
131 CATATTCTACCTGTGGCTGGGTAGTCCGGCATGTGTTGCAGAAACCTGACAACCTATGTGAGCAG
*
89042924 ACTTGTCAGTAGCTTGAAAGCAAGCAACACGTGATATGTGATATGAGGTAGTGTTGGCTACATAT
196 ACCTGTCAGTAGCTTGAAAGCAAGCAACACGTGATATGTGATATGAGGTAGTGTTGGCTACATAT
89042989 GAGACACTTAGGTGCAAGAT
261 GAGACACTTAGGTGCAAGAT
89043009 T
1 T
89043010 CTGATGTATC
Statistics
Matches: 278, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
280 278 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (280 bp):
TTTGAACCTTAGGAATATTTTAGGATACGAATGACTTGTCACTAAGAACTATGTGATCTGAACTC
ATTGAGTTGTGGTCTGAGTTCATAATGTATGTGACACATGTTTTGGCGTCTGGGTATTGGTCCCA
CATATTCTACCTGTGGCTGGGTAGTCCGGCATGTGTTGCAGAAACCTGACAACCTATGTGAGCAG
ACCTGTCAGTAGCTTGAAAGCAAGCAACACGTGATATGTGATATGAGGTAGTGTTGGCTACATAT
GAGACACTTAGGTGCAAGAT
Found at i:89049208 original size:18 final size:19
Alignment explanation
Indices: 89049187--89049226 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
89049177 TTTTTTTTTG
89049187 AAAACA-CGAAAATTTTCA
1 AAAACACCGAAAATTTTCA
* *
89049205 AAAACACCGAAATTTTTTA
1 AAAACACCGAAAATTTTCA
89049224 AAA
1 AAA
89049227 CAAGAGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAACACCGAAAATTTTCA
Found at i:89049322 original size:16 final size:17
Alignment explanation
Indices: 89049181--89049342 Score: 132
Period size: 17 Copynumber: 9.4 Consensus size: 17
89049171 GAGATTTTTT
89049181 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
** *
89049199 TTTTCAAAAACACCGAAAT
1 TTTT-TGAAACA-CGAAAA
* * **
89049218 TTTTTAAAACAAGAGGA
1 TTTTTGAAACACGAAAA
* *
89049235 TTTTTGAAATATGAAAA
1 TTTTTGAAACACGAAAA
*
89049252 ATTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
89049270 TTTTTGAAACACGGAAA
1 TTTTTGAAACACGAAAA
89049287 TTTTTGAAA-ACGAAAA
1 TTTTTGAAACACGAAAA
89049303 TTTTTGAAACAC--AAA
1 TTTTTGAAACACGAAAA
*
89049318 TTTTTAGAAGACACTAAAA
1 TTTTT-GAA-ACACGAAAA
*
89049337 ATTTTG
1 TTTTTG
89049343 GAAAATGGAT
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
15 8 0.07
16 18 0.16
17 44 0.38
18 30 0.26
19 16 0.14
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:89049557 original size:20 final size:19
Alignment explanation
Indices: 89049519--89049565 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
89049509 GAATATATTT
89049519 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
89049539 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
89049558 -TTTTGAAA
1 TTTTTGAAA
89049566 AGTAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:89049806 original size:27 final size:24
Alignment explanation
Indices: 89049776--89049841 Score: 60
Period size: 27 Copynumber: 2.6 Consensus size: 24
89049766 ATATAAATAC
89049776 AAAAATATAAAAATATATAAAATGCA
1 AAAAATATAAAAATAT-TAAAATG-A
* * *
89049802 TAAAATTCTAATAATATTAAAATGA
1 -AAAAATATAAAAATATTAAAATGA
* *
89049827 AATAACATAAAAATA
1 AAAAATATAAAAATA
89049842 CGAGCATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 10 0.32
25 1 0.03
26 7 0.23
27 13 0.42
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (24 bp):
AAAAATATAAAAATATTAAAATGA
Found at i:89049953 original size:9 final size:9
Alignment explanation
Indices: 89049931--89050007 Score: 72
Period size: 10 Copynumber: 8.6 Consensus size: 9
89049921 TTGAACCCCC
89049931 TTTTTCTTCCT
1 TTTTTCTT--T
89049942 TTTTTC-TT
1 TTTTTCTTT
89049950 TTTTTC--T
1 TTTTTCTTT
89049957 TTTTTCTTT
1 TTTTTCTTT
89049966 TTTTTC-TT
1 TTTTTCTTT
*
89049974 TTTTCCTTT
1 TTTTTCTTT
89049983 TTTCTTCTTT
1 TTT-TTCTTT
*
89049993 TTCTTCCTTT
1 TT-TTTCTTT
89050003 TTTTT
1 TTTTT
89050008 TTCTACTGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
7 7 0.12
8 14 0.25
9 14 0.25
10 15 0.26
11 7 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:89049960 original size:15 final size:15
Alignment explanation
Indices: 89049930--89050011 Score: 85
Period size: 15 Copynumber: 5.1 Consensus size: 15
89049920 ATTGAACCCC
89049930 CTTTTTCTTCCTTTTTT
1 CTTTTT-TT-CTTTTTT
89049947 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
89049962 CTTTTTTTTCTTTTTT
1 C-TTTTTTTCTTTTTT
*
89049978 CCTTTTTTCTTCTTTTT
1 CTTTTTTTC-T-TTTTT
*
89049995 CTTCCTTTT-TTTTTT
1 CTT-TTTTTCTTTTTT
89050010 CT
1 CT
89050012 ACTGGGCTGC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
15 22 0.38
16 19 0.33
17 13 0.22
18 4 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:89049968 original size:24 final size:24
Alignment explanation
Indices: 89049931--89050011 Score: 101
Period size: 24 Copynumber: 3.3 Consensus size: 24
89049921 TTGAACCCCC
89049931 TTTTTCTTCCTTTTTTCTTTTTTTCT
1 TTTTTCTT--TTTTTTCTTTTTTTCT
*
89049957 TTTTTCTTTTTTTTCTTTTTTCCT
1 TTTTTCTTTTTTTTCTTTTTTTCT
* *
89049981 TTTTTCTTCTTTTTCTTCCTTTT-T
1 TTTTTCTTTTTTTTCTT-TTTTTCT
89050005 TTTTTCT
1 TTTTTCT
89050012 ACTGGGCTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 39 0.78
25 3 0.06
26 8 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTTTTTCTTTTTTTCT
Found at i:89050295 original size:3 final size:3
Alignment explanation
Indices: 89050289--89050347 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
89050279 TTCTTTTTTT
89050289 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
89050336 TTC TTC TTC TTC
1 TTC TTC TTC TTC
89050348 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:89050304 original size:10 final size:10
Alignment explanation
Indices: 89050279--89050347 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
89050269 AAAATTTTTT
* *
89050279 TTCTTTTTTT
1 TTCTTCTTTC
89050289 TTCTTCTTTC
1 TTCTTCTTTC
*
89050299 TTCTTCTCTC
1 TTCTTCTTTC
89050309 -T-TTCTTTC
1 TTCTTCTTTC
89050317 TTCTTC-TTC
1 TTCTTCTTTC
*
89050326 TTCTTCCTTC
1 TTCTTCTTTC
89050336 TTCTTC-TTC
1 TTCTTCTTTC
89050345 TTC
1 TTC
89050348 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.12
9 17 0.33
10 29 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:89050335 original size:13 final size:13
Alignment explanation
Indices: 89050289--89050344 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
89050279 TTCTTTTTTT
*
89050289 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
89050302 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
89050314 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
89050326 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
89050339 TTCTTC
1 TTCTTC
89050345 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:89050733 original size:29 final size:29
Alignment explanation
Indices: 89050700--89050816 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 29
89050690 TGTAATTTTT
*
89050700 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * * *
89050729 TGAAAGTTTAGGGGTTTAAGTGAAATTTAA
1 AGAAAATTTA-GGGTTAAAATGAAATTTAA
* *
89050759 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
89050788 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
89050817 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.19
30 57 0.79
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:89050755 original size:30 final size:30
Alignment explanation
Indices: 89050715--89050816 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
89050705 ATTTAGGATT
* *
89050715 AAAATGAAATTTAATGAAAGTTTAGGGGTT
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
89050745 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
89050775 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
89050805 AAAATGCAATTT
1 AAAATGAAATTT
89050817 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:89051281 original size:54 final size:55
Alignment explanation
Indices: 89051093--89051310 Score: 299
Period size: 54 Copynumber: 4.1 Consensus size: 55
89051083 CACGTGAGCC
* *
89051093 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
89051148 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAATT---
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAG-AAATTGAA
* *
89051202 ---GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
*
89051253 AAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
89051308 AAG
1 AAG
89051311 TAGAAATTGA
Statistics
Matches: 147, Mismatches: 7, Indels: 18
0.85 0.04 0.10
Matches are distributed among these distances:
49 5 0.03
50 14 0.10
51 29 0.20
54 46 0.31
55 37 0.25
56 6 0.04
57 6 0.04
58 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:89051289 original size:105 final size:104
Alignment explanation
Indices: 89051096--89051302 Score: 326
Period size: 105 Copynumber: 2.0 Consensus size: 104
89051086 GTGAGCCAAG
* *
89051096 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAACTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAACTCA
*
89051161 CCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAATT
65 CCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAAATT
* *
89051202 GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAACTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAACTCA
*
89051266 CCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
65 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
89051303 TTGAAAAGTA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
104 16 0.17
105 34 0.36
106 34 0.36
107 10 0.11
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (104 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAATT
Found at i:89051308 original size:14 final size:14
Alignment explanation
Indices: 89051289--89051323 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
89051279 GAGTTGATTT
89051289 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
89051303 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
89051317 TTGAAAA
1 TTGAAAA
89051324 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Done.