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 23 of 362
Found at i:6799744 original size:22 final size:21
Alignment explanation
Indices: 6799714--6799769 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
6799704 ATAATGGAGT
6799714 AAATGATGTATGTTATTGAGTTA-
1 AAAT-ATGTATG-TATT-AGTTAG
6799737 AAATATGTAATGTATTAGTTAG
1 AAATATGT-ATGTATTAGTTAG
*
6799759 TAATATGTATG
1 AAATATGTATG
6799770 CCATATACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.27
22 15 0.50
23 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATATGTATGTATTAGTTAG
Found at i:6800636 original size:36 final size:36
Alignment explanation
Indices: 6800590--6800694 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
6800580 TTCAGAGCCA
* * * *
6800590 CATTGGTGTGTTTTCGAATGGATTAACTCTTATAAG
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
* *
6800626 CATTGATGTGTTTTTGGATGAATTAGCTCTTATGAG
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
* *
6800662 AATTGATGTATTTTTGGATGGATTAGCTCTTAT
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTAT
6800695 GAGTATCTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (36 bp):
CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
Found at i:6801112 original size:26 final size:26
Alignment explanation
Indices: 6801076--6801128 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6801066 TCGGATTATA
6801076 TGGCATGTAATAGGCTTGTATGTCTT
1 TGGCATGTAATAGGCTTGTATGTCTT
6801102 TGGCATGTAATAGGCTTGTATGTCTT
1 TGGCATGTAATAGGCTTGTATGTCTT
6801128 T
1 T
6801129 ACTATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.43
Consensus pattern (26 bp):
TGGCATGTAATAGGCTTGTATGTCTT
Found at i:6809304 original size:27 final size:27
Alignment explanation
Indices: 6809266--6809319 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6809256 ATAAGATGTT
6809266 GTCATTGGGGAACAATTACTGAACTAA
1 GTCATTGGGGAACAATTACTGAACTAA
6809293 GTCATTGGGGAACAATTACTGAACTAA
1 GTCATTGGGGAACAATTACTGAACTAA
6809320 CACATTACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (27 bp):
GTCATTGGGGAACAATTACTGAACTAA
Found at i:6809325 original size:27 final size:27
Alignment explanation
Indices: 6809268--6809325 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
6809258 AAGATGTTGT
**
6809268 CATTGGGGAACAATTACTGAACTAAGT
1 CATTGGGGAACAATTACTGAACTAACA
6809295 CATTGGGGAACAATTACTGAACTAACA
1 CATTGGGGAACAATTACTGAACTAACA
6809322 CATT
1 CATT
6809326 ACGAGAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
CATTGGGGAACAATTACTGAACTAACA
Found at i:6809415 original size:81 final size:81
Alignment explanation
Indices: 6809280--6809443 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
6809270 TTGGGGAACA
*
6809280 ATTACTGAACTAAGTCATTGGGGAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
1 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
6809345 ATTATATAAAAATCAC
66 ATTATATAAAAATCAC
6809361 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
1 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
6809426 ATTATATAAAAATCAC
66 ATTATATAAAAATCAC
6809442 AT
1 AT
6809444 CAATTCTCGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (81 bp):
ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
ATTATATAAAAATCAC
Found at i:6816511 original size:18 final size:19
Alignment explanation
Indices: 6816483--6816518 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6816473 TTAAATTCCC
6816483 TTTTAATTTCTCACTCAAA
1 TTTTAATTTCTCACTCAAA
*
6816502 TTTT-ATTTCTCTCTCAA
1 TTTTAATTTCTCACTCAA
6816519 CTCTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTCTCACTCAAA
Found at i:6816525 original size:18 final size:18
Alignment explanation
Indices: 6816488--6816526 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6816478 TTCCCTTTTA
*
6816488 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATCTT
* *
6816506 ATTTCTCTCTCAACTCTT
1 ATTTCTCACTCAAATCTT
6816524 ATT
1 ATT
6816527 ATTATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCTCACTCAAATCTT
Found at i:6819414 original size:39 final size:39
Alignment explanation
Indices: 6819371--6819450 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
6819361 ATTTCGATGT
*
6819371 CTGTCCTTGAGTATTTTCTCCTTTCTACTTTGCGTCCCC
1 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
6819410 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
1 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
6819449 CT
1 CT
6819451 TTGATCATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.07, C:0.35, G:0.12, T:0.45
Consensus pattern (39 bp):
CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
Found at i:6821520 original size:6 final size:6
Alignment explanation
Indices: 6821509--6821564 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
6821499 CTTTAGAACT
* * ***
6821509 AAAATA AAAATA AAAATG AAAATG AAAATA AAGCGA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
6821556 TAAAATA AA
1 -AAAATA AA
6821565 TAGACTCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 5 0.12
6 29 0.73
7 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:6823142 original size:19 final size:21
Alignment explanation
Indices: 6823118--6823159 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6823108 AATCATAATA
6823118 AATAACA-AAT-ATAATGAAG
1 AATAACAGAATAATAATGAAG
6823137 AATAACAGTAATAATAATGAAG
1 AATAACAG-AATAATAATGAAG
6823159 A
1 A
6823160 CTAATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (21 bp):
AATAACAGAATAATAATGAAG
Found at i:6828082 original size:15 final size:15
Alignment explanation
Indices: 6828062--6828103 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
6828052 GAAGCAATTA
6828062 AAAAGAAAAATTTAG
1 AAAAGAAAAATTTAG
6828077 AAAAGAAAAATTTAG
1 AAAAGAAAAATTTAG
6828092 AAAAGAAAAATT
1 AAAAGAAAAATT
6828104 AAACTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (15 bp):
AAAAGAAAAATTTAG
Found at i:6829095 original size:39 final size:39
Alignment explanation
Indices: 6829052--6829126 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
6829042 ATTCTAATGT
*
6829052 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
1 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
6829091 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTC
1 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTC
6829127 CCCCCTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.09, C:0.31, G:0.15, T:0.45
Consensus pattern (39 bp):
CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
Found at i:6830030 original size:50 final size:50
Alignment explanation
Indices: 6829870--6830038 Score: 197
Period size: 48 Copynumber: 3.5 Consensus size: 50
6829860 CCTGTGTGCT
* ** * *
6829870 AGTGTAAGA-CATGTCTGAGACAT-GCATTGGCCAC-AT-TCTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
* * * * *
6829916 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG--AGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
*
6829964 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
6830014 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
6830039 ATATCGACTT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 9 0.09
47 13 0.13
48 46 0.46
50 32 0.32
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
Found at i:6830070 original size:98 final size:97
Alignment explanation
Indices: 6829908--6830087 Score: 222
Period size: 98 Copynumber: 1.8 Consensus size: 97
6829898 GGCCACATTC
* * * *
6829908 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCATTGAGACGAGAGCCAATATAAGA
6829973 C-TATGTCTGGGACATGGCATCAGCCTCGATATA
66 CATAT-TC-GGGACATGGCATCAGCCTCGATATA
* * * *
6830006 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGATATC-GACTTTGATG-TGTGAGCCAATATAA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAG-CATTGA-GACGAGAGCCAATATAA
6830069 GACAATATTCGGGACATGG
64 GAC-ATATTCGGGACATGG
6830088 TGTCGACATC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
97 1 0.01
98 63 0.90
99 3 0.04
100 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (97 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCATTGAGACGAGAGCCAATATAAGA
CATATTCGGGACATGGCATCAGCCTCGATATA
Found at i:6834366 original size:19 final size:19
Alignment explanation
Indices: 6834303--6834366 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
6834293 TTTATATCTC
*
6834303 AAAAAATTATAAAGAAAA-T
1 AAAAAAATATAAA-AAAACT
*
6834322 AAAGAATATATAAAAAAACT
1 AAA-AAAATATAAAAAAACT
**
6834342 TGAAAAATATAAAAAAACT
1 AAAAAAATATAAAAAAACT
6834361 AAAAAA
1 AAAAAA
6834367 CCTTAAACCT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 26 0.72
20 10 0.28
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAAAATATAAAAAAACT
Found at i:6854516 original size:131 final size:131
Alignment explanation
Indices: 6854280--6854546 Score: 347
Period size: 131 Copynumber: 2.0 Consensus size: 131
6854270 GATTATTCAC
* *
6854280 TTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTCGGCAACTCGGGAATCGTACCCTATCGT
1 TTAAAAATTCTTTAAAACAAAGGCAATGTTCGATGTTCGACAACTCGGGAATCGTACCCTATCGT
* * * * *
6854345 GCTGGGTTGCGATTTCCCGTTCGTTCAAAACCATCTAATATTCTTTTGGAATTTCACCCATG-TC
66 GCTGGGTTACGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTTC
6854409 T
131 T
* * * * * *
6854410 TTAAAAATTCTTTAAAACAAATGTAATGTTTGATGTTTGACAACTCGGGGAATCGTGCCCTATTG
1 TTAAAAATTCTTTAAAACAAAGGCAATGTTCGATGTTCGACAACTC-GGGAATCGTACCCTATCG
* * * * * *
6854475 TGTTGGGTTACGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTT
65 TGCTGGGTTACGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTT
6854540 CT
130 CT
6854542 TTAAA
1 TTAAA
6854547 TTCTAAAATA
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
130 40 0.34
131 68 0.59
132 8 0.07
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (131 bp):
TTAAAAATTCTTTAAAACAAAGGCAATGTTCGATGTTCGACAACTCGGGAATCGTACCCTATCGT
GCTGGGTTACGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTTC
T
Found at i:6855008 original size:19 final size:19
Alignment explanation
Indices: 6854984--6855020 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6854974 GACCAAACTG
6854984 TTGTTTTAGTAAACTAAAA
1 TTGTTTTAGTAAACTAAAA
* *
6855003 TTGTTTTATTAAAGTAAA
1 TTGTTTTAGTAAACTAAA
6855021 GGTGATCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (19 bp):
TTGTTTTAGTAAACTAAAA
Found at i:6859642 original size:36 final size:37
Alignment explanation
Indices: 6859602--6859683 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 37
6859592 AAATTTTGTC
6859602 AAAAAATATTT-AAAAACAATAAGTTTTCAAGTCAAT
1 AAAAAATATTTAAAAAACAATAAGTTTTCAAGTCAAT
6859638 AAAAAATATTTAAAAAAACAATAAGTTTTCAAGTCAAT
1 AAAAAATATTT-AAAAAACAATAAGTTTTCAAGTCAAT
6859676 AAAAAATA
1 AAAAAATA
6859684 ATCAATTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 11 0.25
38 33 0.75
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (37 bp):
AAAAAATATTTAAAAAACAATAAGTTTTCAAGTCAAT
Found at i:6863937 original size:20 final size:21
Alignment explanation
Indices: 6863912--6863952 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6863902 TTTCTTTCAC
6863912 TATTTTAAAT-ATAAAATATT
1 TATTTTAAATCATAAAATATT
*
6863932 TATTTTATATCATAAAATATT
1 TATTTTAAATCATAAAATATT
6863953 AAAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTAAATCATAAAATATT
Found at i:6871049 original size:32 final size:30
Alignment explanation
Indices: 6870975--6871056 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
6870965 GTATACAATT
* *
6870975 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
6871007 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
6871039 GCTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
6871057 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:6871329 original size:20 final size:20
Alignment explanation
Indices: 6871304--6871343 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6871294 ATAACAAACA
**
6871304 GGAAAGAAAGGAAGAAAAGG
1 GGAAAGAAAAAAAGAAAAGG
6871324 GGAAAGAAAAAAAGAAAAGG
1 GGAAAGAAAAAAAGAAAAGG
6871344 AAAAACTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
GGAAAGAAAAAAAGAAAAGG
Found at i:6872247 original size:5 final size:5
Alignment explanation
Indices: 6872237--6872264 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6872227 GTCTAGTAAA
6872237 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6872265 GTTATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6873261 original size:21 final size:20
Alignment explanation
Indices: 6873224--6873278 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6873214 TATTAAAATA
6873224 TAAAAATA-ATA-ATAGTAT
1 TAAAAATATATACATAGTAT
6873242 TAAAAAGTATATACATAGTAT
1 TAAAAA-TATATACATAGTAT
*
6873263 TAACAATATATACATA
1 TAAAAATATATACATA
6873279 ATATAGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 13 0.39
21 12 0.36
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAAATATATACATAGTAT
Found at i:6873306 original size:27 final size:26
Alignment explanation
Indices: 6873218--6873351 Score: 111
Period size: 27 Copynumber: 5.3 Consensus size: 26
6873208 TGTATATATT
*
6873218 AAAATATAAAAATAATAATAGTATT-A
1 AAAATATATAAATAAT-ATAGTATTAA
* *
6873244 AAAA-GTAT--AT-ACATAGTATT-A
1 AAAATATATAAATAATATAGTATTAA
* *
6873265 ACAATATATACATAATATAGTTATTAA
1 AAAATATATAAATAATATAG-TATTAA
* *
6873292 AAAATATATAAATAAAATAATATGTAA
1 AAAATATATAAATAATATAGTAT-TAA
* *
6873319 AATATATATATATAATATAGTATT-A
1 AAAATATATAAATAATATAGTATTAA
6873344 AAAATATA
1 AAAATATA
6873352 CATGATATAT
Statistics
Matches: 86, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
21 12 0.14
22 4 0.05
23 2 0.02
24 2 0.02
25 15 0.17
26 12 0.14
27 39 0.45
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAATATATAAATAATATAGTATTAA
Found at i:6873321 original size:12 final size:13
Alignment explanation
Indices: 6873292--6873351 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
6873282 TAGTTATTAA
**
6873292 AAAATATATAAAT
1 AAAATATATATGT
6873305 AAAATA-ATATGT
1 AAAATATATATGT
*
6873317 AAAATATATATAT
1 AAAATATATATGT
*
6873330 ATAATATAGTAT-T
1 AAAATATA-TATGT
6873343 AAAA-ATATA
1 AAAATATATA
6873352 CATGATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.05
12 13 0.32
13 22 0.55
14 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATATATATGT
Found at i:6873363 original size:27 final size:26
Alignment explanation
Indices: 6873249--6873448 Score: 106
Period size: 27 Copynumber: 7.4 Consensus size: 26
6873239 TATTAAAAAG
* *
6873249 TATATACATAGTATTAACAATATATA
1 TATATATATAGTATTAAAAATATATA
*
6873275 CATA-ATATAGTTATTAAAAA-ATATA
1 TATATATATAG-TATTAAAAATATATA
* * *
6873300 TAAATAAAATAATATGT-AAAATATATA
1 TATAT-ATATAGTAT-TAAAAATATATA
6873327 TATATAATATAGTATTAAAAATATACATGA
1 TATAT-ATATAGTATTAAAAATAT--AT-A
* * *
6873357 TATATATAAAATATAATAAAAAAGATATA
1 TATATATATAGTAT--T-AAAAATATATA
* *
6873386 TATACGTAATATA-TATAAAAAATGTATA
1 TATA--T-ATATAGTATTAAAAATATATA
* *
6873414 CATA-ATATAGTATT-AAAATATTTA
1 TATATATATAGTATTAAAAATATATA
*
6873438 CATAATATATA
1 TAT-ATATATA
6873449 CATATTAGAA
Statistics
Matches: 135, Mismatches: 21, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
24 16 0.12
25 16 0.12
26 24 0.18
27 29 0.21
28 12 0.09
29 14 0.10
30 8 0.06
31 5 0.04
32 11 0.08
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (26 bp):
TATATATATAGTATTAAAAATATATA
Found at i:6873419 original size:24 final size:24
Alignment explanation
Indices: 6873386--6873448 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
6873376 AAAAGATATA
*
6873386 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
6873409 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
6873435 T-TACATAATATATA
1 TATACATAATATATA
6873449 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:6873527 original size:21 final size:20
Alignment explanation
Indices: 6873498--6873551 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
6873488 TAATACTACA
*
6873498 TAAATATATACATATATATAT
1 TAAACATATACATATATA-AT
*
6873519 TAAAGATATATGCATATATAAT
1 TAAACATATA--CATATATAAT
*
6873541 AAAACATATAC
1 TAAACATATAC
6873552 TAATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 10 0.36
23 8 0.29
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:6875499 original size:77 final size:74
Alignment explanation
Indices: 6875400--6875595 Score: 243
Period size: 77 Copynumber: 2.6 Consensus size: 74
6875390 TCCTCAGTGT
* * * *
6875400 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACTAAAG
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA-
6875465 ATACCTCAGC
65 ATACCTCAGC
*
6875475 GTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAATTG
1 G--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAATT-
*
6875538 AAAATACCTCGGC
62 AAAATACCTCAGC
* * * *
6875551 GTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6875596 GAAACATAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
74 35 0.34
75 6 0.06
76 23 0.22
77 40 0.38
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (74 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAA
TACCTCAGC
Found at i:6875588 original size:74 final size:75
Alignment explanation
Indices: 6875408--6875836 Score: 329
Period size: 75 Copynumber: 5.5 Consensus size: 75
6875398 GTGTGACCTG
* *
6875408 AGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTG-AAAAACAGAGACTAAAGATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACTAAAGATACCTC
*
6875472 AGCGTATGACCCG
64 AGCG-ATGACCCA
* * *
6875485 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTGAAA-ATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAACT-AAAGATACCTCA
* *
6875549 GCG-TGTCTCA
65 GCGATGACCCA
* *
6875559 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACATAA-ATTGAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-AACA--G--AAAC-TAAA--G
* ** *
6875623 AAAATACCTTAGC-ATGTGAGTCG
57 ---ATACCTCAGCGA--TGACCCA
** *
6875646 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ATGAACAGAAATTAAA-ATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACTAAAGA-TACCT
* **
6875709 CAGCG-TGTCCTG
63 CAGCGATGACCCA
* * *
6875721 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGACAGAAATTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACTAAAGATACCTC
* * ***
6875785 AACG-TGTCTTG
64 AGCGATGACCCA
6875796 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
6875837 TAGAAATAAA
Statistics
Matches: 295, Mismatches: 32, Indels: 53
0.78 0.08 0.14
Matches are distributed among these distances:
73 6 0.02
74 45 0.15
75 110 0.37
76 25 0.08
77 43 0.15
79 6 0.02
82 3 0.01
83 3 0.01
85 9 0.03
86 2 0.01
87 36 0.12
88 1 0.00
89 6 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAACTAAAGATACCTCAG
CGATGACCCA
Found at i:6875620 original size:14 final size:14
Alignment explanation
Indices: 6875597--6875626 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6875587 TTGATTTTTG
*
6875597 AAACATAAATTGAA
1 AAACAGAAATTGAA
6875611 AAACAGAAATTGAA
1 AAACAGAAATTGAA
6875625 AA
1 AA
6875627 TACCTTAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:6875624 original size:85 final size:86
Alignment explanation
Indices: 6875524--6875682 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 86
6875514 TGAATTTTGA
* * *
6875524 AAAAACAGAAATTGAAAATACCTCGGC-GTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCAGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
6875588 TGATTTTTGAAACATAAATTG
66 TGATTTTTGAAACATAAATTG
* * *
6875609 AAAAACAGAAATTGAAAATACCTTAGCATGTGAGTCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCA-GTGACTCAAGGCTCAACTCACCTCTCGCAATATGAG
6875674 TTGATTTTT
65 TTGATTTTT
6875683 TTGATGAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 25 0.38
87 41 0.62
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCAGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAACATAAATTG
Found at i:6875750 original size:162 final size:151
Alignment explanation
Indices: 6875408--6875832 Score: 500
Period size: 161 Copynumber: 2.7 Consensus size: 151
6875398 GTGTGACCTG
* * * *
6875408 AGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACTAAAGATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCA
* * *
6875473 GCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAAT
66 ACG--TGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAAT
*
6875536 TGAAAATACCTCGGCGTGTCTCA
129 TGAAAATACCTCAGCGTGTCTCA
* *
6875559 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT------T---TTGAAAAACAGAAATTAA
* * * *
6875624 AAATACCTTAGCATGTGAGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AT
56 AAATACCTCA--ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* *
6875688 GAACAGAAATT-AAAATTACCTCAGCGTGTC-CTG
119 AAACAGAAATTGAAAA-TACCTCAGCGTGTCTC-A
*
6875721 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCA
* *
6875786 ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6875833 GAAATAGAAA
Statistics
Matches: 234, Mismatches: 24, Indels: 33
0.80 0.08 0.11
Matches are distributed among these distances:
150 43 0.18
151 30 0.13
152 29 0.12
155 1 0.00
158 1 0.00
161 69 0.29
162 55 0.24
163 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (151 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCA
ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTG
AAAATACCTCAGCGTGTCTCA
Found at i:6875830 original size:237 final size:237
Alignment explanation
Indices: 6875407--6875836 Score: 668
Period size: 237 Copynumber: 1.8 Consensus size: 237
6875397 TGTGTGACCT
*
6875407 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACTAAAGATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGATACCTC
6875472 AGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATT
66 AGCG-ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATT
* ** *
6875537 GAAAATACCTCGGCGTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACA
130 AAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA
6875602 TAAATTGAAAAACAGAAATTGAAAATACCTTAGCATGTGAGTC
195 TAAATTGAAAAACAGAAATTGAAAATACCTTAGCATGTGAGTC
* ** *
6875645 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAA-ATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGA-TACCT
* * * *
6875709 CAGCG-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGACAGAAA
65 CAGCGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAA
**
6875772 TTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
128 TTAAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
6875837 TAGAAATAAA
Statistics
Matches: 174, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
236 37 0.21
237 70 0.40
238 67 0.39
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (237 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGATACCTC
AGCGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTA
AAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAT
AAATTGAAAAACAGAAATTGAAAATACCTTAGCATGTGAGTC
Found at i:6884515 original size:4 final size:4
Alignment explanation
Indices: 6884506--6884562 Score: 57
Period size: 4 Copynumber: 15.0 Consensus size: 4
6884496 ATGTACATGC
* * *
6884506 AATG AATG AATG AATG AATG AATG AA-A AATG AAT- ATTG AATA AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
*
6884552 -ACG AATG AATG
1 AATG AATG AATG
6884563 TTAGTCATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
3 6 0.14
4 36 0.86
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:6884551 original size:22 final size:23
Alignment explanation
Indices: 6884510--6884562 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6884500 ACATGCAATG
*
6884510 AATGAATGAATGAATGAATGAAA
1 AATGAATGAATGAATAAATGAAA
* **
6884533 AATGAAT-ATTGAATAAATGACG
1 AATGAATGAATGAATAAATGAAA
6884555 AATGAATG
1 AATGAATG
6884563 TTAGTCATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.25
Consensus pattern (23 bp):
AATGAATGAATGAATAAATGAAA
Found at i:6888549 original size:21 final size:20
Alignment explanation
Indices: 6888515--6888568 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
6888505 ATTAAAATAT
6888515 AAACATAATA-ATAGTATTAA
1 AAACAT-ATACATAGTATTAA
6888535 AAAGCATATACATAGTATTAA
1 AAA-CATATACATAGTATTAA
* *
6888556 CAATATATACATA
1 AAACATATACATA
6888569 ATATAGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (20 bp):
AAACATATACATAGTATTAA
Found at i:6888565 original size:20 final size:21
Alignment explanation
Indices: 6888525--6888568 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6888515 AAACATAATA
6888525 ATAGTATTAAAAAGCATATAC
1 ATAGTATTAAAAAGCATATAC
* *
6888546 ATAGTATTAACAA-TATATAC
1 ATAGTATTAAAAAGCATATAC
6888566 ATA
1 ATA
6888569 ATATAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAGTATTAAAAAGCATATAC
Found at i:6888570 original size:47 final size:46
Alignment explanation
Indices: 6888504--6888595 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 46
6888494 CATATGTATA
*
6888504 TATTAAAATATAAACATAATAATAG-TATTAAAAAGCATATACATAG
1 TATTAAAATATAAACATAAT-ATAGTTATTAAAAAACATATACATAG
* *
6888550 TATTAACAATATATACATAATATAGTTATTAAAAAATATATACATA
1 TATTAA-AATATAAACATAATATAGTTATTAAAAAACATATACATA
6888596 AAACAATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
46 10 0.24
47 31 0.76
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (46 bp):
TATTAAAATATAAACATAATATAGTTATTAAAAAACATATACATAG
Found at i:6888593 original size:27 final size:26
Alignment explanation
Indices: 6888488--6888644 Score: 116
Period size: 27 Copynumber: 6.2 Consensus size: 26
6888478 TAATGTTACC
*
6888488 TATATACATATGTATA-TATT--AAAA
1 TATATACATA-ATATAGTATTAAAAAA
* *
6888512 TATAAACATAATAATAGTATTAAAAAG
1 TATATACATAAT-ATAGTATTAAAAAA
* *
6888539 CATATAC-----ATAGTATT-AACAA
1 TATATACATAATATAGTATTAAAAAA
6888559 TATATACATAATATAGTTATTAAAAAA
1 TATATACATAATATAG-TATTAAAAAA
* * *
6888586 TATATACATAAAACAATATGTAAAAAAAA
1 TATATACATAATATAGTAT-T--AAAAAA
*
6888615 TATATAAATAATATAGTATTAAAAAA
1 TATATACATAATATAGTATTAAAAAA
6888641 TATA
1 TATA
6888645 CATGATATAT
Statistics
Matches: 103, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
20 9 0.09
21 8 0.08
23 1 0.01
24 12 0.12
25 8 0.08
26 17 0.17
27 26 0.25
28 1 0.01
29 21 0.20
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
TATATACATAATATAGTATTAAAAAA
Found at i:6888611 original size:13 final size:13
Alignment explanation
Indices: 6888580--6888644 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
6888570 TATAGTTATT
6888580 AAAAAATATATACA
1 AAAAAATATATA-A
*
6888594 TAAAACAATATGTAA
1 -AAAA-AATATATAA
6888609 AAAAAATATATAA
1 AAAAAATATATAA
* * *
6888622 ATAATATAGTAT-T
1 AAAAAATA-TATAA
6888635 AAAAAATATA
1 AAAAAATATA
6888645 CATGATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
12 2 0.05
13 20 0.49
14 7 0.17
15 5 0.12
16 7 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAAAATATATAA
Found at i:6888638 original size:24 final size:22
Alignment explanation
Indices: 6888611--6888664 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
6888601 ATATGTAAAA
6888611 AAAATATATAAATAATATAGTATT
1 AAAATATATAAATAATATA-TA-T
* * *
6888635 AAAAAATATACATGATATATAT
1 AAAATATATAAATAATATATAT
6888657 AAAATATA
1 AAAATATA
6888665 ATATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 8 0.31
23 2 0.08
24 16 0.62
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATATAAATAATATATAT
Found at i:6888668 original size:64 final size:65
Alignment explanation
Indices: 6888600--6888729 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 65
6888590 TACATAAAAC
*
6888600 AATATGTAAAAA-AAATATATAAATAATATAGTATTAAAAAA-TATACATGATATA-TA-TAAAA
1 AATAT-TAAAAAGAAATATATAAATAATATA-TA-TAAAAAAGTATACATAATATAGTATTAAAA
6888661 TAT
63 TAT
* **
6888664 AATATTAAAAAGATATATATACGTAATATATATAAAAAATGTATACATAATATAGTATTAAAATA
1 AATATTAAAAAGAAATATATAAATAATATATATAAAAAA-GTATACATAATATAGTATTAAAATA
6888729 T
65 T
6888730 TTACATAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
62 7 0.12
63 8 0.14
64 32 0.56
65 2 0.04
66 8 0.14
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.34
Consensus pattern (65 bp):
AATATTAAAAAGAAATATATAAATAATATATATAAAAAAGTATACATAATATAGTATTAAAATAT
Found at i:6888708 original size:24 final size:24
Alignment explanation
Indices: 6888681--6888743 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
6888671 AAAAGATATA
*
6888681 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
6888704 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
6888730 T-TACATAATATATA
1 TATACATAATATATA
6888744 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:6891755 original size:23 final size:23
Alignment explanation
Indices: 6891725--6891769 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6891715 GGACAATTCG
6891725 ACTTCTTATTTTAATTGGATAGA
1 ACTTCTTATTTTAATTGGATAGA
6891748 ACTTCTTATTTTAATTGGATAG
1 ACTTCTTATTTTAATTGGATAG
6891770 GAGAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
ACTTCTTATTTTAATTGGATAGA
Found at i:6894702 original size:75 final size:75
Alignment explanation
Indices: 6894579--6894729 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
6894569 GTGAAGTTTA
6894579 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
1 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
6894644 GTTGATATAC
66 GTTGATATAC
* *
6894654 TATATCAAGCTGTGATAGGTCTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAGTTGTACCA
1 TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
6894719 GTTGATATAC
66 GTTGATATAC
6894729 T
1 T
6894730 CCGTTTCGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (75 bp):
TATATCAAGCTGTGATAGGACTTAGATCCATGGCGGTTGGTTTCGTTCCGGTACCAATTGTACCA
GTTGATATAC
Found at i:6896432 original size:220 final size:220
Alignment explanation
Indices: 6896120--6896563 Score: 870
Period size: 220 Copynumber: 2.0 Consensus size: 220
6896110 ACTGGGCCTT
6896120 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
6896185 CATATGCAAGCCCATTTGGGGAGACTACTCAATCCACCAACCACTACACTCCACCCATACCAGCC
66 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
6896250 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
131 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
*
6896315 CTCAGTTAACAGTAAGTTGAGGCAA
196 CTCAGTTAACAGTAAATTGAGGCAA
6896340 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
6896405 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
66 CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
6896470 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
131 ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
6896535 CTCAGTTAACAGTAAATTGAGGCAA
196 CTCAGTTAACAGTAAATTGAGGCAA
6896560 AGCC
1 AGCC
6896564 TCCAGTACGT
Statistics
Matches: 222, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 222 1.00
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (220 bp):
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCATACCAGCC
ATACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCACAGTTGCAGCCTTGCTG
CTCAGTTAACAGTAAATTGAGGCAA
Found at i:6896701 original size:26 final size:26
Alignment explanation
Indices: 6896672--6896724 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6896662 TCAAACATGC
6896672 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
6896698 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
6896724 A
1 A
6896725 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:6898245 original size:26 final size:26
Alignment explanation
Indices: 6898209--6898316 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
6898199 TGAAATTCCA
6898209 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6898235 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6898261 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6898287 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6898313 ATCA
1 ATCA
6898317 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6907972 original size:21 final size:20
Alignment explanation
Indices: 6907927--6907964 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6907917 TCAGAAACCC
6907927 TAAAAATTAGGTTTTTTGCA
1 TAAAAATTAGGTTTTTTGCA
6907947 TAAAAATTAGGTTTTTTG
1 TAAAAATTAGGTTTTTTG
6907965 GGGTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
TAAAAATTAGGTTTTTTGCA
Found at i:6910542 original size:15 final size:15
Alignment explanation
Indices: 6910510--6910552 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
6910500 ACTATTAAAA
* *
6910510 AATGATAGTAAGAGT
1 AATGATAATAATAGT
*
6910525 AATGATAATAATATT
1 AATGATAATAATAGT
*
6910540 AATGGTAATAATA
1 AATGATAATAATA
6910553 CAAGTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (15 bp):
AATGATAATAATAGT
Found at i:6910706 original size:3 final size:3
Alignment explanation
Indices: 6910680--6910730 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
6910670 AGATAGTGTG
* * *
6910680 ATA ATG ATA AT- ATG ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6910727 ATA A
1 ATA A
6910731 CACAACAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6911625 original size:9 final size:9
Alignment explanation
Indices: 6911611--6911644 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
6911601 AAAAAGTATG
6911611 TTTTTTTAT
1 TTTTTTTAT
6911620 TTTTTTTAT
1 TTTTTTTAT
6911629 TTTCTTTTAT
1 TTT-TTTTAT
6911639 ATTTTT
1 -TTTTT
6911645 ATATATATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 12 0.52
10 8 0.35
11 3 0.13
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6913986 original size:21 final size:21
Alignment explanation
Indices: 6913962--6914001 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6913952 TTTAATTTAT
6913962 ATAAAAATAAAAAATATTTCA
1 ATAAAAATAAAAAATATTTCA
* * *
6913983 ATAATAATATAAATTATTT
1 ATAAAAATAAAAAATATTT
6914002 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAATAAAAAATATTTCA
Found at i:6914931 original size:21 final size:21
Alignment explanation
Indices: 6914905--6914945 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6914895 GAGTTTTTAG
*
6914905 AAAAATTTTAGAATTTTATGA
1 AAAAATTTAAGAATTTTATGA
6914926 AAAAATTTAAGAATTTTATG
1 AAAAATTTAAGAATTTTATG
6914946 TCTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AAAAATTTAAGAATTTTATGA
Found at i:6915199 original size:17 final size:18
Alignment explanation
Indices: 6915179--6915221 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6915169 TTTTTTCGAG
*
6915179 ATTTTTTGTTTTCAAG-A
1 ATTTTTTATTTTCAAGTA
* *
6915196 ATTTTTAATTTTTAAGTA
1 ATTTTTTATTTTCAAGTA
6915214 ATTTTTTA
1 ATTTTTTA
6915222 CCACGTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (18 bp):
ATTTTTTATTTTCAAGTA
Found at i:6918023 original size:12 final size:11
Alignment explanation
Indices: 6917985--6918026 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
6917975 TGACCTAATA
6917985 ATTATTTTATT
1 ATTATTTTATT
*
6917996 ATAATTTATATT
1 ATTATTT-TATT
6918008 -TTATTTTATT
1 ATTATTTTATT
6918018 GATTATTTT
1 -ATTATTTT
6918027 TATATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
12 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:6918024 original size:17 final size:18
Alignment explanation
Indices: 6917985--6918026 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6917975 TGACCTAATA
*
6917985 ATTATTTTATTATAATTT
1 ATTATTTTATTATAATTG
*
6918003 A-TATTTTATT-TTATTG
1 ATTATTTTATTATAATTG
6918019 ATTATTTT
1 ATTATTTT
6918027 TATATGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 15 0.71
18 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTATTTTATTATAATTG
Found at i:6921507 original size:91 final size:90
Alignment explanation
Indices: 6921330--6921519 Score: 213
Period size: 91 Copynumber: 2.1 Consensus size: 90
6921320 GTAGTTTATT
* * *
6921330 TGCAAACACTGGTGGTTTATCCACAAATTTATTGGCAGCTTTTATCTGCAAACTGTTGTGCATTC
1 TGCAAACACTGGTGGCTTATCCACAAATTTACTGACAGCTTTTATCTGCAAACTGTTGTGCATTC
* *** *
6921395 ACAACCTACTGGTAACGTATTAACC
66 ACAACCTAATAACAACATATTAACC
* * * * *
6921420 TGCAAACATTTGTGGCTTATCCACAACTTTTACTGACAGCTTTTATTTGCAAACTTGTTGTGTAT
1 TGCAAACACTGGTGGCTTATCCACAA-ATTTACTGACAGCTTTTATCTGCAAAC-TGTTGTGCAT
*
6921485 TCACAA-CTAATAACAGCATATTAACC
64 TCACAACCTAATAACAACATATTAACC
*
6921511 TAC-AACACT
1 TGCAAACACT
6921520 TATTGTTCAT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
90 28 0.34
91 39 0.48
92 15 0.18
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (90 bp):
TGCAAACACTGGTGGCTTATCCACAAATTTACTGACAGCTTTTATCTGCAAACTGTTGTGCATTC
ACAACCTAATAACAACATATTAACC
Found at i:6925724 original size:29 final size:30
Alignment explanation
Indices: 6925705--6925760 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
6925695 TCAATATTTT
*
6925705 AAATTCAATA-TAAT-AAAAATATAATATTA
1 AAATTAAATATTAATGAAAAATA-AATATTA
6925734 AAATTAAATATTAATGAAAAATAAATA
1 AAATTAAATATTAATGAAAAATAAATA
6925761 CATAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 9 0.38
30 8 0.33
31 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATTAAATATTAATGAAAAATAAATATTA
Found at i:6925864 original size:33 final size:33
Alignment explanation
Indices: 6925819--6925884 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
6925809 ACTAGAGCTA
6925819 TATGATTCGTTTT-CTTCAACAAAGTCATAATAG
1 TATGATTCGTTTTCCTT-AACAAAGTCATAATAG
*
6925852 TATGATTTGTTTTCCTTAACAAAGTCATAATAG
1 TATGATTCGTTTTCCTTAACAAAGTCATAATAG
6925885 GATTTAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (33 bp):
TATGATTCGTTTTCCTTAACAAAGTCATAATAG
Found at i:6926310 original size:33 final size:33
Alignment explanation
Indices: 6926268--6926344 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
6926258 GTCCCTCACC
6926268 TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
1 TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
6926301 TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
1 TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
* *
6926334 TAACCTCGATG
1 TATCTTCGATG
6926345 ATACAATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (33 bp):
TATCTTCGATGTGCAAAAGAGTTTCAAGCAAAT
Found at i:6933267 original size:28 final size:27
Alignment explanation
Indices: 6933206--6933273 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
6933196 TATGGGTAAA
6933206 TGATTTATATCTGGGATTTATTTACAT
1 TGATTTATATCTGGGATTTATTTACAT
** *
6933233 TTTTTTATATTTGGGAATTTATTTA-AT
1 TGATTTATATCTGGG-ATTTATTTACAT
6933260 TCGATTTATATCTG
1 T-GATTTATATCTG
6933274 TTAGCAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.56
Consensus pattern (27 bp):
TGATTTATATCTGGGATTTATTTACAT
Found at i:6947401 original size:30 final size:30
Alignment explanation
Indices: 6947367--6947425 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6947357 ACTACTGTCG
* * *
6947367 CCTTGTCCTCCACCATGTCCGCCACTACCA
1 CCTTGTCCGCCACCATATCCACCACTACCA
6947397 CCTTGTCCGCCACCATATCCACCACTACC
1 CCTTGTCCGCCACCATATCCACCACTACC
6947426 GCCACCACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.51, G:0.08, T:0.22
Consensus pattern (30 bp):
CCTTGTCCGCCACCATATCCACCACTACCA
Found at i:6947430 original size:12 final size:12
Alignment explanation
Indices: 6947415--6947440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6947405 GCCACCATAT
6947415 CCACCACTACCG
1 CCACCACTACCG
6947427 CCACCACTACCG
1 CCACCACTACCG
6947439 CC
1 CC
6947441 TTTTCCTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.62, G:0.08, T:0.08
Consensus pattern (12 bp):
CCACCACTACCG
Found at i:6947441 original size:72 final size:71
Alignment explanation
Indices: 6947346--6947574 Score: 192
Period size: 72 Copynumber: 3.2 Consensus size: 71
6947336 GTCATGTCCT
* ** * * *
6947346 CCACTACCACCACTACTGTCGCCTTGTCCTCCACCATGTCCGCCACTACCACCTTGTCCGCCACC
1 CCACTACCACCACCACTACCGCCTTATCCTCCACCATG-CCGCCACTACCGCCTTGTCCACCACC
6947411 ATATCCA
65 ATATCCA
* * * * **** *
6947418 CCACTACCGCCACCACTACCGCCTTTTCCTCCACCATGCCCTCCACTACTGCCACCACTACCACC
1 CCACTACCACCACCACTACCGCCTTATCCTCCACCATG-CCGCCACTACCGCCTTGTCCACCACC
* *
6947483 GTATCCT
65 ATATCCA
** * * *
6947490 CCACTACTGCCACCACTACCACCGTATCCTCCA-C-TGCCGCCACCACTACCGCCTTGTCCTCCA
1 CCACTACCACCACCACTACCGCCTTATCCTCCACCATGCCG---CCACTACCGCCTTGTCCACCA
*
6947553 CCATGTCCA
63 CCATATCCA
6947562 CCACTACCACCAC
1 CCACTACCACCAC
6947575 TTTGTCCTCC
Statistics
Matches: 120, Mismatches: 34, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
69 2 0.02
70 2 0.02
71 1 0.01
72 115 0.96
ACGTcount: A:0.20, C:0.52, G:0.08, T:0.20
Consensus pattern (71 bp):
CCACTACCACCACCACTACCGCCTTATCCTCCACCATGCCGCCACTACCGCCTTGTCCACCACCA
TATCCA
Found at i:6947482 original size:30 final size:30
Alignment explanation
Indices: 6947448--6947573 Score: 146
Period size: 30 Copynumber: 4.2 Consensus size: 30
6947438 GCCTTTTCCT
**
6947448 CCACCATGCCCTCCACTACTGCCACCACTA
1 CCACCATATCCTCCACTACTGCCACCACTA
*
6947478 CCACCGTATCCTCCACTACTGCCACCACTA
1 CCACCATATCCTCCACTACTGCCACCACTA
* * *
6947508 CCACCGTATCCTCCACTGCCGCCACCACTA
1 CCACCATATCCTCCACTACTGCCACCACTA
* * * *
6947538 CCGCCTTGTCCTCCACCA-TGTCCACCACTA
1 CCACCATATCCTCCACTACTG-CCACCACTA
6947568 CCACCA
1 CCACCA
6947574 CTTTGTCCTC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 1 0.01
30 81 0.99
ACGTcount: A:0.21, C:0.52, G:0.08, T:0.18
Consensus pattern (30 bp):
CCACCATATCCTCCACTACTGCCACCACTA
Found at i:6947490 original size:42 final size:42
Alignment explanation
Indices: 6947388--6947509 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
6947378 ACCATGTCCG
* * *
6947388 CCACTACCACCTTGTCCGCCACCATATCCACCACTACCGCCA
1 CCACTACCACCTTATCCTCCACCATACCCACCACTACCGCCA
* * * * *
6947430 CCACTACCGCCTTTTCCTCCACCATGCCCTCCACTACTGCCA
1 CCACTACCACCTTATCCTCCACCATACCCACCACTACCGCCA
*
6947472 CCACTACCACCGTATCCTCCA-C-TACTGCCACCACTACC
1 CCACTACCACCTTATCCTCCACCATAC--CCACCACTACC
6947510 ACCGTATCCT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.03
41 1 0.02
42 62 0.95
ACGTcount: A:0.21, C:0.52, G:0.07, T:0.20
Consensus pattern (42 bp):
CCACTACCACCTTATCCTCCACCATACCCACCACTACCGCCA
Found at i:6947585 original size:33 final size:33
Alignment explanation
Indices: 6947543--6947607 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
6947533 CACTACCGCC
*
6947543 TTGTCCTCCACCATGTCCACCACTACCACCACT
1 TTGTCCTCCACCATATCCACCACTACCACCACT
* *
6947576 TTGTCCTCCACTATATCCACCACTGCCACCAC
1 TTGTCCTCCACCATATCCACCACTACCACCAC
6947608 CGCCGTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.48, G:0.06, T:0.25
Consensus pattern (33 bp):
TTGTCCTCCACCATATCCACCACTACCACCACT
Found at i:6947595 original size:102 final size:96
Alignment explanation
Indices: 6947406--6947665 Score: 261
Period size: 99 Copynumber: 2.6 Consensus size: 96
6947396 ACCTTGTCCG
* * * * * *
6947406 CCACCATATCCACCACTACCGCCACCACTACCGCCTTTTCCTCCACCATGCCCTCCACTACTGCC
1 CCACCGTATCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATG---TCCACCACTACC
* * *
6947471 ACCACTACCACCGTATCCTCCACTACTGCCACCACTA
63 ACCACTACCACCCTATCATCCACCACTGCCA-C-C-A
6947508 CCACCGTATCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACCACC
1 CCACCGTATCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACCACC
* *
6947573 ACTTTGTCCTCCACTAT-ATCCACCACTGCCACCA
66 AC--T-ACCACC-CTATCATCCACCACTGCCACCA
* * ** * * *
6947607 CCGCCGTGTCCTCTGCTGCCGCCACCACTACCTCCCTGTTCTCCACCATGTCCACCACT
1 CCACCGTATCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
6947666 GCCTCTACCA
Statistics
Matches: 136, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
99 68 0.50
100 1 0.01
101 2 0.01
102 62 0.46
103 3 0.02
ACGTcount: A:0.19, C:0.51, G:0.08, T:0.21
Consensus pattern (96 bp):
CCACCGTATCCTCCACTGCCGCCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACCACC
ACTACCACCCTATCATCCACCACTGCCACCA
Found at i:6947723 original size:72 final size:72
Alignment explanation
Indices: 6947601--6948324 Score: 337
Period size: 72 Copynumber: 10.1 Consensus size: 72
6947591 TCCACCACTG
* * *
6947601 CCACCACCGCCGTGTCCTCTGCTGCCGCCACCACTACCTCCCTGTT-CTCCACCATGTCCACCAC
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCT-CCTTTTCCTCCACCATGTCCACCAC
* * *
6947665 TGCCTCTA
65 TACCGCCA
* ** * * * *
6947673 CCACTACCGCCATGTCCTCCGCCACCGCCACCACTGCCTTCTTTTCCTCCACCATGCCCTCCACT
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
6947738 ACCGCCA
66 ACCGCCA
* * * * *
6947745 CCACTACCACCATGTCCTCTACTGCCACCACCACTACCACCTTGTCCTCCACCATGTCCACCACT
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
**
6947810 ACTACCA
66 ACCGCCA
* * * * * * * ** * *
6947817 CC-TTGCCCTCCA---CCATATTC-ACCACTGCCACTACCTCCTTGTCCACCACTACCGCCATGT
1 CCACT-ACCGCCATGTCC-TCTGCTGCCGCCACCACTACCTCCTT-T---TC-CT-CCACCATGT
* * * *
6947877 CCTCCGCCACCACCA
58 CCACCACTACCGCCA
* * * ** * * ** * * * *
6947892 CCACTACCACCTTTTCCTCCACCATG-C-CCGCCACTACCGCC-ACTACTACCGCCATGCCCTCC
1 CCACTACCGCCATGTCCT-CTGC-TGCCGCCACCACTACCTCCTTTTCCT-CCACCATGTCCACC
*
6947954 ACTGCCGCCA
63 ACTACCGCCA
** * * * * *
6947964 CCACTACCGCCATGTCCTCCACTGCCGCCACCACTACCACCACCCTGTCTTCCACCATATCCA-C
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACT---ACCTCCTTTTCCTCCACCATGTCCACC
6948028 -C-A---CCA
63 ACTACCGCCA
* * * * * *
6948033 CCACTGCCGCCATGTCCTC-CCTCGCCGCCACCAGTACCTCCCTGTCCTCCACCATGCCCACCAC
1 CCACTACCGCCATGTCCTCTGCT-GCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCAC
* *
6948097 TGCCTCCA
65 TACCGCCA
* * * ** * * * * * *
6948105 CCACTGCCTCCCTGTCCTCTGCCACCACCACTACTGCTTCCTTGTCCTCCACCATGCCCACCACT
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
*
6948170 ACCTCCA
66 ACCGCCA
* * ** * * ** * *
6948177 CCACTACTGCCATGTCCTCCGCCACCACCACCACTACCTCCCTGCCCTCCACTATGTCTACCACT
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
6948242 ACCGCCA
66 ACCGCCA
* * * * * * * * *
6948249 CCGCTACCACCATGACCTCCGTTGCCACCACCACTACCTCCTTGTCCTCCACCATGCCCGCCACT
1 CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
6948314 ACCGCCA
66 ACCGCCA
6948321 CCAC
1 CCAC
6948325 CACTACCACC
Statistics
Matches: 496, Mismatches: 126, Indels: 60
0.73 0.18 0.09
Matches are distributed among these distances:
66 21 0.04
67 1 0.00
68 3 0.01
69 50 0.10
70 5 0.01
71 8 0.02
72 344 0.69
73 3 0.01
74 3 0.01
75 38 0.08
76 3 0.01
77 1 0.00
78 15 0.03
79 1 0.00
ACGTcount: A:0.18, C:0.53, G:0.09, T:0.20
Consensus pattern (72 bp):
CCACTACCGCCATGTCCTCTGCTGCCGCCACCACTACCTCCTTTTCCTCCACCATGTCCACCACT
ACCGCCA
Found at i:6947755 original size:30 final size:30
Alignment explanation
Indices: 6947721--6948005 Score: 139
Period size: 30 Copynumber: 9.2 Consensus size: 30
6947711 TTCTTTTCCT
6947721 CCACCATGCCCTCCACTACCGCCACCACTA
1 CCACCATGCCCTCCACTACCGCCACCACTA
* * * *
6947751 CCACCATGTCCTCTACTGCCACCACCACTA
1 CCACCATGCCCTCCACTACCGCCACCACTA
* * * * *
6947781 CCACCTTGTCCTCCACCATGTCCACCACTACTA
1 CCACCATGCCCTCCA-C-T-ACCGCCACCACTA
* * *
6947814 CCACCTTGCCCTCCACCATATTCACCACTGCCACTA
1 CCACCATGCCCTCCA-C-TA-CCGCCA---CCACTA
* * * * *
6947850 CCTCCTTGTCCACCACTACCGCCATGTC-CT-
1 CCACCATGCCCTCCACTACCGCCA--CCACTA
* * * * **
6947880 CCGCCA-CCACCACCACTACCACCTTTTC-CT-
1 CCACCATGC-CCTCCACTACCGCC--ACCACTA
* *
6947910 CCACCATGCCCGCCACTACCGCCACTACTA
1 CCACCATGCCCTCCACTACCGCCACCACTA
* *
6947940 CCGCCATGCCCTCCACTGCCGCCACCACTA
1 CCACCATGCCCTCCACTACCGCCACCACTA
* * *
6947970 CCGCCATGTCCTCCACTGCCGCCACCACTA
1 CCACCATGCCCTCCACTACCGCCACCACTA
6948000 CCACCA
1 CCACCA
6948006 CCCTGTCTTC
Statistics
Matches: 205, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
29 2 0.01
30 137 0.67
31 4 0.02
32 4 0.02
33 38 0.19
34 2 0.01
35 1 0.00
36 17 0.08
ACGTcount: A:0.20, C:0.53, G:0.08, T:0.19
Consensus pattern (30 bp):
CCACCATGCCCTCCACTACCGCCACCACTA
Found at i:6947814 original size:33 final size:33
Alignment explanation
Indices: 6947742--6947865 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 33
6947732 TCCACTACCG
* *
6947742 CCACCACTACCACCATGTCCTCTA-C-TG-CCA
1 CCACCACTACCACCTTGTCCTCCACCATGTCCA
6947772 CCACCACTACCACCTTGTCCTCCACCATGTCCA
1 CCACCACTACCACCTTGTCCTCCACCATGTCCA
* * * *
6947805 CCACTACTACCACCTTGCCCTCCACCATATTCA
1 CCACCACTACCACCTTGTCCTCCACCATGTCCA
* *
6947838 CCACTGCCACTACCTCCTTGTCCACCAC
1 CCA---CCACTACCACCTTGTCCTCCAC
6947866 TACCGCCATG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
30 22 0.28
31 1 0.01
32 2 0.03
33 35 0.45
36 18 0.23
ACGTcount: A:0.22, C:0.51, G:0.06, T:0.22
Consensus pattern (33 bp):
CCACCACTACCACCTTGTCCTCCACCATGTCCA
Found at i:6947877 original size:18 final size:18
Alignment explanation
Indices: 6947844--6947878 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6947834 TTCACCACTG
* *
6947844 CCACTACCTCCTTGTCCA
1 CCACTACCGCCATGTCCA
6947862 CCACTACCGCCATGTCC
1 CCACTACCGCCATGTCC
6947879 TCCGCCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.51, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACTACCGCCATGTCCA
Found at i:6947895 original size:189 final size:188
Alignment explanation
Indices: 6947672--6948030 Score: 522
Period size: 189 Copynumber: 1.9 Consensus size: 188
6947662 CACTGCCTCT
* * ** *
6947672 ACCACTACCGCCATGTCCTCCGCCACCGCCACCACTGCCTTCTTTTCCTCCACCATGCCCTCCAC
1 ACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCGCCAC
* * *
6947737 TACCGCCACCACTACCACCATGTCCTCTACTGCCACCACCACTACCACCTTGTCCTCCACCATG-
66 TACCGCCACCACTACCACCATGCCCTCCACTGCCACCACCACTACCACCATGTCCTCCA-C-TGC
* * * *
6947801 TCCACCACTACTACCACCTTGCCCTCCACCATATTCACCACTGCCACTACCTCCTTGTCC
129 GCCACCACTACCACCACCCTGCCCTCCACCATATCCACCACTGCCACTACCTCCTTGTCC
6947861 ACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCGCCAC
1 ACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCGCCAC
* * * *
6947926 TACCGCCACTACTACCGCCATGCCCTCCACTGCCGCCACCACTACCGCCATGTCCTCCACTGCCG
66 TACCGCCACCACTACCACCATGCCCTCCACTGCCACCACCACTACCACCATGTCCTCCACTG-CG
* *
6947991 CCACCACTACCACCACCCTGTCTTCCACCATATCCACCAC
130 CCACCACTACCACCACCCTGCCCTCCACCATATCCACCAC
6948031 CACCACTGCC
Statistics
Matches: 150, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
187 2 0.01
188 1 0.01
189 147 0.98
ACGTcount: A:0.19, C:0.53, G:0.08, T:0.20
Consensus pattern (188 bp):
ACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCGCCAC
TACCGCCACCACTACCACCATGCCCTCCACTGCCACCACCACTACCACCATGTCCTCCACTGCGC
CACCACTACCACCACCCTGCCCTCCACCATATCCACCACTGCCACTACCTCCTTGTCC
Found at i:6948084 original size:21 final size:20
Alignment explanation
Indices: 6948060--6948123 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
6948050 TCCCTCGCCG
6948060 CCACCAGTACCTCCCTGTCCT
1 CCACCA-TACCTCCCTGTCCT
* *
6948081 CCACCATGCCCACCACTG-CCT
1 CCACCAT-ACCTCC-CTGTCCT
*
6948102 CCACCACTGCCTCCCTGTCCT
1 CCACCA-TACCTCCCTGTCCT
6948123 C
1 C
6948124 TGCCACCACC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.14, C:0.56, G:0.09, T:0.20
Consensus pattern (20 bp):
CCACCATACCTCCCTGTCCT
Found at i:6948105 original size:12 final size:12
Alignment explanation
Indices: 6948078--6948115 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6948068 ACCTCCCTGT
6948078 CCTCCACCA-TG
1 CCTCCACCACTG
6948089 -C-CCACCACTG
1 CCTCCACCACTG
6948099 CCTCCACCACTG
1 CCTCCACCACTG
6948111 CCTCC
1 CCTCC
6948116 CTGTCCTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.25
10 3 0.12
11 1 0.04
12 14 0.58
ACGTcount: A:0.16, C:0.61, G:0.08, T:0.16
Consensus pattern (12 bp):
CCTCCACCACTG
Found at i:6948278 original size:21 final size:21
Alignment explanation
Indices: 6948254--6948304 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6948244 CGCCACCGCT
6948254 ACCACCATGACCTCCGTTG-CC
1 ACCACCATGACCTCC-TTGTCC
6948275 ACCACCACT-ACCTCCTTGTCC
1 ACCACCA-TGACCTCCTTGTCC
*
6948296 TCCACCATG
1 ACCACCATG
6948305 CCCGCCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.20, C:0.49, G:0.10, T:0.22
Consensus pattern (21 bp):
ACCACCATGACCTCCTTGTCC
Found at i:6948325 original size:48 final size:47
Alignment explanation
Indices: 6948273--6948412 Score: 151
Period size: 48 Copynumber: 2.9 Consensus size: 47
6948263 ACCTCCGTTG
* *
6948273 CCACCACCACTACCTCCTTGTCCTCCACCATGCCCGCCACTACCGCCA
1 CCACCACCACTACCACCTTGTCCTCCACCATG-CCACCACTACCGCCA
* * *
6948321 CCACCACTACCACCACCATGTCCTCCA-C-TGCCACCATGTCCT-CCGCCA
1 CCACCACCACTACCACCTTGTCCTCCACCATGCCACCA----CTACCGCCA
*
6948369 CCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACC
1 CCACCACCACTACCACCTTGTCCTCCACCATG-CCACCACTACC
6948413 ACCCTGTCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
45 5 0.07
46 2 0.03
47 3 0.04
48 54 0.72
49 3 0.04
50 2 0.03
51 6 0.08
ACGTcount: A:0.20, C:0.55, G:0.08, T:0.17
Consensus pattern (47 bp):
CCACCACCACTACCACCTTGTCCTCCACCATGCCACCACTACCGCCA
Found at i:6948329 original size:15 final size:15
Alignment explanation
Indices: 6948309--6948338 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6948299 ACCATGCCCG
*
6948309 CCACTACCGCCACCA
1 CCACTACCACCACCA
6948324 CCACTACCACCACCA
1 CCACTACCACCACCA
6948339 TGTCCTCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.60, G:0.03, T:0.07
Consensus pattern (15 bp):
CCACTACCACCACCA
Found at i:6948348 original size:21 final size:21
Alignment explanation
Indices: 6948324--6948377 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
6948314 ACCGCCACCA
6948324 CCACTACCACCACCATGTCCT
1 CCACTACCACCACCATGTCCT
*
6948345 CCACT---GCCACCATGTCCT
1 CCACTACCACCACCATGTCCT
* *
6948363 CCGCCACCACCACCA
1 CCACTACCACCACCA
6948378 CTACCGCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 15 0.58
21 11 0.42
ACGTcount: A:0.22, C:0.56, G:0.07, T:0.15
Consensus pattern (21 bp):
CCACTACCACCACCATGTCCT
Found at i:6948372 original size:18 final size:18
Alignment explanation
Indices: 6948329--6948374 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6948319 CACCACCACT
6948329 ACCACCACCATGTCCTCC
1 ACCACCACCATGTCCTCC
**
6948347 ACTGCCACCATGTCCTCC
1 ACCACCACCATGTCCTCC
*
6948365 GCCACCACCA
1 ACCACCACCA
6948375 CCACTACCGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.54, G:0.09, T:0.15
Consensus pattern (18 bp):
ACCACCACCATGTCCTCC
Found at i:6948432 original size:30 final size:30
Alignment explanation
Indices: 6948333--6948445 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 30
6948323 ACCACTACCA
* * *
6948333 CCACCATGTCCTCCACTGCCACCATGTCCT
1 CCACCATGTCCACCACTACCACCCTGTCCT
* *** * *
6948363 CCGCCACCACCACCACTACCGCCTTGTCCT
1 CCACCATGTCCACCACTACCACCCTGTCCT
6948393 CCACCATGTCCACCACTACCACCCTGTCCT
1 CCACCATGTCCACCACTACCACCCTGTCCT
** *
6948423 CTGCTATGTCCACCACTACCACC
1 CCACCATGTCCACCACTACCACC
6948446 GCCACTACTG
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.19, C:0.52, G:0.09, T:0.20
Consensus pattern (30 bp):
CCACCATGTCCACCACTACCACCCTGTCCT
Found at i:6948463 original size:30 final size:30
Alignment explanation
Indices: 6948396--6948482 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
6948386 TTGTCCTCCA
*
6948396 CCATGTCCACCACTACCACCCTGTC-CT-CTG
1 CCATGTCCACCACTACCA-CC-GCCACTACTG
*
6948426 CTATGTCCACCACTACCACCGCCACTACTG
1 CCATGTCCACCACTACCACCGCCACTACTG
* * * * *
6948456 CCGTGTCCTCCGCTTCCACCACCACTA
1 CCATGTCCACCACTACCACCGCCACTA
6948483 TCACCTTGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 2 0.04
29 4 0.09
30 41 0.87
ACGTcount: A:0.18, C:0.49, G:0.10, T:0.22
Consensus pattern (30 bp):
CCATGTCCACCACTACCACCGCCACTACTG
Found at i:6948508 original size:30 final size:30
Alignment explanation
Indices: 6948474--6948535 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
6948464 TCCGCTTCCA
*
6948474 CCACCACTATCACCTTGTCCTCCACCATGT
1 CCACCACTACCACCTTGTCCTCCACCATGT
*
6948504 CCACCACTACCGCCTTGTCCTCCACCATGT
1 CCACCACTACCACCTTGTCCTCCACCATGT
6948534 CC
1 CC
6948536 TCCATTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.50, G:0.08, T:0.24
Consensus pattern (30 bp):
CCACCACTACCACCTTGTCCTCCACCATGT
Found at i:6951325 original size:37 final size:37
Alignment explanation
Indices: 6951277--6951352 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
6951267 TAGTCCAATT
6951277 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
1 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
6951314 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
1 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
6951351 AT
1 AT
6951353 CTCGAAGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (37 bp):
ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
Found at i:6951889 original size:20 final size:19
Alignment explanation
Indices: 6951864--6951902 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6951854 TCTTTTTATT
6951864 ATCTTTAAATTTAAGATTTA
1 ATCTTTAAATTTAA-ATTTA
*
6951884 ATCTTTATATTTAAATTTA
1 ATCTTTAAATTTAAATTTA
6951903 TAATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
ATCTTTAAATTTAAATTTA
Found at i:6951911 original size:26 final size:26
Alignment explanation
Indices: 6951862--6951911 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6951852 GGTCTTTTTA
* *
6951862 TTATCTTTAAATTTAAGATTTAATCT
1 TTATATTTAAATTTAAGATATAATCT
6951888 TTATATTTAAATTTATA-ATATAAT
1 TTATATTTAAATTTA-AGATATAAT
6951912 TAGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TTATATTTAAATTTAAGATATAATCT
Found at i:6951980 original size:12 final size:12
Alignment explanation
Indices: 6951963--6951991 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6951953 AGTTAATATC
6951963 ATTAACTTTTCA
1 ATTAACTTTTCA
6951975 ATTAACTTTTCA
1 ATTAACTTTTCA
6951987 ATTAA
1 ATTAA
6951992 AATGTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAACTTTTCA
Found at i:6955778 original size:18 final size:18
Alignment explanation
Indices: 6955752--6955794 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6955742 AAAAGCTATT
*
6955752 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
*
6955770 TTTATATATATTAATATA
1 TTTATATATATTAATAAA
6955788 TTTATAT
1 TTTATAT
6955795 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:6957640 original size:2 final size:2
Alignment explanation
Indices: 6957633--6957659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6957623 CTTTCTCAAA
6957633 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6957660 AACATTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6959831 original size:30 final size:30
Alignment explanation
Indices: 6959795--6959851 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6959785 AGTTTTCAGG
* *
6959795 ATCCACACTGGCAGGCCACACGCCCATGTA
1 ATCCACACGGGCAGGCCACAAGCCCATGTA
6959825 ATCCACACGGGCAGGCCACAAGCCCAT
1 ATCCACACGGGCAGGCCACAAGCCCAT
6959852 ATTGCAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.40, G:0.21, T:0.11
Consensus pattern (30 bp):
ATCCACACGGGCAGGCCACAAGCCCATGTA
Found at i:6964201 original size:22 final size:22
Alignment explanation
Indices: 6964175--6964220 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6964165 CCCAATTTTA
*
6964175 TTTTATTTTATTTATTTTTAAT
1 TTTTATATTATTTATTTTTAAT
6964197 TTTTATATTATTTATTTTTAAT
1 TTTTATATTATTTATTTTTAAT
6964219 TT
1 TT
6964221 ACTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATATTATTTATTTTTAAT
Found at i:6964276 original size:17 final size:17
Alignment explanation
Indices: 6964254--6964310 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 17
6964244 ATTCTTATAC
6964254 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
6964271 TTATA-TTTTAATTTTT
1 TTATATTTTTAATTTTT
*
6964287 TATATACTTTTATTATTTTT
1 T-TATA-TTTT-TAATTTTT
6964307 TTAT
1 TTAT
6964311 TTTGCTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 12 0.34
17 9 0.26
19 6 0.17
20 8 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:6964279 original size:8 final size:8
Alignment explanation
Indices: 6964254--6964313 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
6964244 ATTCTTATAC
6964254 TTATATTT
1 TTATATTT
*
6964262 TTAATTTTT
1 TT-ATATTT
6964271 TTATATTT
1 TTATATTT
*
6964279 TAAT-TTT
1 TTATATTT
6964286 TTATATACTT
1 TTATAT--TT
6964296 TTATTATTT
1 TTA-TATTT
*
6964305 TTTTATTT
1 TTATATTT
6964313 T
1 T
6964314 GCTATTCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
7 6 0.14
8 17 0.40
9 11 0.26
10 5 0.12
11 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATATTT
Found at i:6964401 original size:18 final size:18
Alignment explanation
Indices: 6964378--6964412 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6964368 TTACCTTTTA
6964378 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
6964396 AGTTTATTATTATTATT
1 AGTTTATTATTATTATT
6964413 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:6968218 original size:31 final size:32
Alignment explanation
Indices: 6968176--6968240 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
6968166 CAATCATTTT
*
6968176 AATATCCAACAAGCTT-AA-ACATAATAAATTC
1 AATATCCAACAA-ATTCAAGACATAATAAATTC
* *
6968207 AATATCGAACAAATTCAAGACATAATAATTTC
1 AATATCCAACAAATTCAAGACATAATAAATTC
6968239 AA
1 AA
6968241 AATCTAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 2 0.07
31 13 0.45
32 14 0.48
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (32 bp):
AATATCCAACAAATTCAAGACATAATAAATTC
Found at i:6969722 original size:15 final size:15
Alignment explanation
Indices: 6969702--6969741 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
6969692 TATCACATAT
6969702 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
6969717 ATGACTAAAGTTATC
1 ATGACTAAAGTTACC
6969732 ATGACTAAAG
1 ATGACTAAAG
6969742 GGAATGGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:6971592 original size:16 final size:16
Alignment explanation
Indices: 6971571--6971601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6971561 TTTCAAGCAC
6971571 TGTGTATATATATATG
1 TGTGTATATATATATG
*
6971587 TGTGTATGTATATAT
1 TGTGTATATATATAT
6971602 TTTTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TGTGTATATATATATG
Found at i:6972896 original size:19 final size:18
Alignment explanation
Indices: 6972858--6972906 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6972848 AAATACTTTA
6972858 AAAATAAGTATT-AAATTT
1 AAAATAA-TATTAAAATTT
**
6972876 AATTTAATATTAAAATATT
1 AAAATAATATTAAAAT-TT
6972895 AAAATAATATTA
1 AAAATAATATTA
6972907 TTTTTGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATAATATTAAAATTT
Found at i:6975458 original size:22 final size:21
Alignment explanation
Indices: 6975428--6975493 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
6975418 TACAAATTAA
6975428 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
6975450 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
6975471 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
6975490 ATCT
1 ATCT
6975494 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:6975480 original size:19 final size:19
Alignment explanation
Indices: 6975445--6975506 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
6975435 AGATTACAAG
6975445 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
6975466 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6975485 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6975504 ATC
1 ATC
6975507 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:6976681 original size:16 final size:18
Alignment explanation
Indices: 6976634--6976697 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 18
6976624 TTAGAATTTT
6976634 TTTTGAAATTTT-TATAA
1 TTTTGAAATTTTATATAA
* * *
6976651 TTTTAAAAATATATAT-A
1 TTTTGAAATTTTATATAA
*
6976668 -TTTGAAATTTTATAAATA
1 TTTTGAAATTTTATATA-A
6976686 TTTTG-AATTTTA
1 TTTTGAAATTTTA
6976698 AAAATTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 11 0.31
17 10 0.28
18 11 0.31
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTGAAATTTTATATAA
Found at i:6976681 original size:18 final size:18
Alignment explanation
Indices: 6976635--6976697 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
6976625 TAGAATTTTT
6976635 TTTGAAATTTT-TATA-A
1 TTTGAAATTTTATATATA
* **
6976651 TTTTAAA-AATATATATA
1 TTTGAAATTTTATATATA
*
6976668 TTTGAAATTTTATAAATA
1 TTTGAAATTTTATATATA
6976686 TTTTG-AATTTTA
1 -TTTGAAATTTTA
6976698 AAAATTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
15 1 0.03
16 10 0.28
17 7 0.19
18 14 0.39
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTGAAATTTTATATATA
Found at i:6976692 original size:19 final size:19
Alignment explanation
Indices: 6976663--6976710 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
6976653 TTAAAAATAT
*
6976663 ATATATTTGAAATTTTATAA
1 ATAT-TTTGAAATTTTAAAA
6976683 ATATTTTG-AATTTTAAAA
1 ATATTTTGAAATTTTAAAA
6976701 ATTATTTTGA
1 A-TATTTTGA
6976711 TTTTTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
ATATTTTGAAATTTTAAAA
Found at i:6976715 original size:19 final size:18
Alignment explanation
Indices: 6976663--6976714 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
6976653 TTAAAAATAT
*
6976663 ATATATTTGAAATTTTATAA
1 ATAT-TTTG-AATTTTAAAA
6976683 ATATTTTGAATTTTAAAA
1 ATATTTTGAATTTTAAAA
6976701 ATTATTTTG-ATTTT
1 A-TATTTTGAATTTT
6976715 TTTTGTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.50
19 11 0.37
20 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATTTTGAATTTTAAAA
Found at i:6978053 original size:2 final size:2
Alignment explanation
Indices: 6978046--6978080 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6978036 TTATTGACTT
6978046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6978081 GCGTGTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6980396 original size:21 final size:21
Alignment explanation
Indices: 6980372--6980419 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6980362 TCCTGTTCTG
*
6980372 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTACTGC
6980393 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCTCGCTACTGC
6980414 CTCCGC
1 CTCCGC
6980420 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.58, G:0.17, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTACTGC
Found at i:6981007 original size:18 final size:18
Alignment explanation
Indices: 6980975--6981012 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6980965 TACAATATAG
6980975 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
6980994 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
6981011 TA
1 TA
6981013 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:6984526 original size:15 final size:15
Alignment explanation
Indices: 6984506--6984537 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6984496 AAATAATAAT
*
6984506 TTATATATATTTATC
1 TTATATACATTTATC
6984521 TTATATACATTTATC
1 TTATATACATTTATC
6984536 TT
1 TT
6984538 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:6985732 original size:81 final size:81
Alignment explanation
Indices: 6985567--6985823 Score: 340
Period size: 81 Copynumber: 3.2 Consensus size: 81
6985557 GTTATATGAC
*** * *
6985567 TTTTAGCGGCGTTTTACCAAAAATGCCTCTAATGCTCCGG-TTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
*
6985631 GCCGCTAATGCTCCGGT
66 GCCGCTAATGCT-CTGT
6985648 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
*
6985713 GCCGCTAATGCTCTAT
66 GCCGCTAATGCTCTGT
* * * ** *
6985729 TTTTAGCGGTGTTTTACCTAAAGCACCGCTATTGCTCT-GTTTTTAGCGGTTTTTTTACTAAAA-
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCGG-CGTTTTACCAAAAG
*
6985792 CGCCGCTATTGCTCTGT
65 CGCCGCTAATGCTCTGT
*
6985809 TTTTAGCAGCGTTTT
1 TTTTAGCGGCGTTTT
6985824 TTTAAAACGC
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 39 0.25
81 82 0.52
82 36 0.23
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCTGT
Found at i:6985824 original size:40 final size:39
Alignment explanation
Indices: 6985567--6985853 Score: 313
Period size: 40 Copynumber: 7.1 Consensus size: 39
6985557 GTTATATGAC
* * * *
6985567 TTTTAGCGGCGTTTTACCAAAAATGCCTCTAATGCTCCGG
1 TTTTAGCGGCGTTTTACC-AAAACGCCGCTAATGCTCTGT
*
6985607 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCT-CTGT
*
6985648 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCT-GT
*
6985689 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCTGT
* * * *
6985729 TTTTAGCGGTGTTTTACCTAAAGCACCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACC-AAAACGCCGCTAATGCTCTGT
** * *
6985769 TTTTAGCGGTTTTTTTACTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGG-CGTTTTACCAAAACGCCGCTAATGCTCTGT
* *** *
6985809 TTTTAGCAGCGTTTTTTTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCTGT
6985848 ATTTTA
1 -TTTTA
6985854 AAATTTTTGC
Statistics
Matches: 219, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
39 30 0.14
40 103 0.47
41 86 0.39
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCTGT
Found at i:6988495 original size:22 final size:23
Alignment explanation
Indices: 6988443--6988496 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
6988433 CTATATAGTC
*
6988443 TTAAAATTAATAATAATAAAGGT
1 TTAAAATAAATAATAATAAAGGT
*
6988466 TTACAATAAATAAT-A-AAAGAGT
1 TTAAAATAAATAATAATAAAG-GT
6988488 TTAAAATAA
1 TTAAAATAA
6988497 TTTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 11 0.41
23 12 0.44
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAATAAATAATAATAAAGGT
Found at i:6988808 original size:3 final size:3
Alignment explanation
Indices: 6988800--6988869 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
6988790 AAATAAATAC
*
6988800 AAT AAT AAT AAT AAT AAT AAT AAT AAT -GT AGAT AAAT ACAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT A-AT AAT AAT
*
6988845 AAT GAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6988870 ACTAAGGAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
2 7 0.12
3 44 0.76
4 6 0.10
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6993413 original size:17 final size:17
Alignment explanation
Indices: 6993383--6993415 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6993373 AAAAGTAATG
6993383 ATATGTAAATAAAATAA
1 ATATGTAAATAAAATAA
6993400 ATATGCTAAA-AAAATA
1 ATATG-TAAATAAAATA
6993416 TACAGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATGTAAATAAAATAA
Found at i:6993488 original size:22 final size:23
Alignment explanation
Indices: 6993463--6993527 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
6993453 ATAAGTAAAG
6993463 AAAATATAATAACAATAATAG-A
1 AAAATATAATAACAATAATAGTA
* * *
6993485 AAAATACAACAATAATAATAGTA
1 AAAATATAATAACAATAATAGTA
6993508 AAAGATATAATAAC-ATAATA
1 AAA-ATATAATAACAATAATA
6993528 ATATAATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 18 0.51
23 10 0.29
24 7 0.20
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (23 bp):
AAAATATAATAACAATAATAGTA
Found at i:6993501 original size:3 final size:3
Alignment explanation
Indices: 6993495--6993711 Score: 69
Period size: 3 Copynumber: 73.3 Consensus size: 3
6993485 AAAATACAAC
* * * *
6993495 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
6993538 AAT AGT AAC AAT -AT GAC CAT AAT AGT AA- AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
6993581 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
6993626 -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT
1 AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
6993671 AAT AAT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
6993712 GTGATGAGAA
Statistics
Matches: 155, Mismatches: 40, Indels: 38
0.67 0.17 0.16
Matches are distributed among these distances:
2 20 0.13
3 118 0.76
4 17 0.11
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6993648 original size:36 final size:35
Alignment explanation
Indices: 6993601--6993711 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 35
6993591 AAAGTAGTGC
* *
6993601 TAATAATAATAATAATAATAATAATCTATTA-AGTTA
1 TAATAA-AATAATAATAATAATAATATATTAGA-TAA
* * *
6993637 TAATGAAAATAATGATAATGATGATATATTAGATAA
1 TAAT-AAAATAATAATAATAATAATATATTAGATAA
* *
6993673 TAATAAAATAATAAGTAACAATAATAAATT--ATAA
1 TAATAAAATAATAA-TAATAATAATATATTAGATAA
6993707 TAATA
1 TAATA
6993712 GTGATGAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
34 9 0.15
35 9 0.15
36 41 0.66
37 3 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (35 bp):
TAATAAAATAATAATAATAATAATATATTAGATAA
Found at i:6993730 original size:16 final size:16
Alignment explanation
Indices: 6993711--6993742 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6993701 TTATAATAAT
6993711 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
6993727 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
6993743 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Done.