Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 95 of 145
Found at i:32472519 original size:166 final size:166
Alignment explanation
Indices: 32472239--32472570 Score: 601
Period size: 166 Copynumber: 2.0 Consensus size: 166
32472229 TTATTTTCAG
*
32472239 TGTGCAAATGAGTTCCAAGCAAATTAACTTCAAGGATACAATGAAGCCAATGACTATTTGCGTTT
1 TGTGCAAATGAGTTCCAAGCAAATTAACCTCAAGGATACAATGAAGCCAATGACTATTTGCGTTT
** *
32472304 TGCACTGACGAGAATAGTCCACTTGGCACTGAGTAATGTGTAACAAAAACTCAATTTCTACAAAG
66 TGCACTGACGAGAATAGTCCACTACGCACTGAGTAATGTATAACAAAAACTCAATTTCTACAAAG
32472369 GATTTCTGCAGTAATACTTTATAGAATAATCTAATA
131 GATTTCTGCAGTAATACTTTATAGAATAATCTAATA
*
32472405 TGTGCAAATGAGTTCCAAGCAAATTAACCTCGAGGATACAATGAAGCCAATGACTATTTGCGTTT
1 TGTGCAAATGAGTTCCAAGCAAATTAACCTCAAGGATACAATGAAGCCAATGACTATTTGCGTTT
* *
32472470 TGCACTGACGAGAATAGTCCACTACGCACTGAGTAATGTATAGCAAAAACTCAATTTCTATAAAG
66 TGCACTGACGAGAATAGTCCACTACGCACTGAGTAATGTATAACAAAAACTCAATTTCTACAAAG
32472535 GATTTCTGCAGTAATACTTTATAGAATAATCTAATA
131 GATTTCTGCAGTAATACTTTATAGAATAATCTAATA
32472571 ATATTAGAAA
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 159 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (166 bp):
TGTGCAAATGAGTTCCAAGCAAATTAACCTCAAGGATACAATGAAGCCAATGACTATTTGCGTTT
TGCACTGACGAGAATAGTCCACTACGCACTGAGTAATGTATAACAAAAACTCAATTTCTACAAAG
GATTTCTGCAGTAATACTTTATAGAATAATCTAATA
Found at i:32480828 original size:24 final size:21
Alignment explanation
Indices: 32480777--32480828 Score: 50
Period size: 24 Copynumber: 2.3 Consensus size: 21
32480767 TTTATACTTA
* *
32480777 TTTTTTATATAAAAATATATT
1 TTTTTTATATAAAAATAAAGT
32480798 TTCTTTTATATGAATAAATAAAGGT
1 TT-TTTTATAT-AA-AAATAAA-GT
32480823 TTTTTT
1 TTTTTT
32480829 TAAGATCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 2 0.08
22 8 0.32
23 2 0.08
24 10 0.40
25 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (21 bp):
TTTTTTATATAAAAATAAAGT
Found at i:32482944 original size:29 final size:29
Alignment explanation
Indices: 32482911--32482968 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
32482901 CAAATTGTTA
32482911 CACAATGATATTATAAAGAATAGCTATTG
1 CACAATGATATTATAAAGAATAGCTATTG
*
32482940 CACAATGATATTATAAAGAATTGCTATTG
1 CACAATGATATTATAAAGAATAGCTATTG
32482969 AGTATCCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
CACAATGATATTATAAAGAATAGCTATTG
Found at i:32483680 original size:17 final size:17
Alignment explanation
Indices: 32483658--32483693 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
32483648 GTGGATGTTC
32483658 AACCTTTCATC-TTTCTT
1 AACCTTTCA-CATTTCTT
32483675 AACCTTTCACATTTCTT
1 AACCTTTCACATTTCTT
32483692 AA
1 AA
32483694 TAAAGTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (17 bp):
AACCTTTCACATTTCTT
Found at i:32487111 original size:25 final size:24
Alignment explanation
Indices: 32487057--32487172 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 24
32487047 ATTCCGTTTT
*
32487057 ATGGCTCTCACA-AGCTTCTCGATA
1 ATGGCTCTCA-AGAGCTTCCCGATA
*
32487081 TTTGGCTCTCAAGAGCTTCCCGATTA
1 -ATGGCTCTCAAGAGCTTCCCGA-TA
** * *
32487107 ATGGCTCTCTTGAGCTTCCCGTTT
1 ATGGCTCTCAAGAGCTTCCCGATA
*
32487131 ATGGCTCAT-ATGAGCTTCCCGATA
1 ATGGCTC-TCAAGAGCTTCCCGATA
*
32487155 ATTGGCTCGCAAGAGCTT
1 A-TGGCTCTCAAGAGCTT
32487173 TTCGTTATAC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
24 22 0.30
25 50 0.68
26 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.33
Consensus pattern (24 bp):
ATGGCTCTCAAGAGCTTCCCGATA
Found at i:32487171 original size:49 final size:49
Alignment explanation
Indices: 32487093--32487224 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 49
32487083 TGGCTCTCAA
* ** ** *
32487093 GAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCGTT-TATGGCTCATAT
1 GAGCTTCCCGA-TAATGGCTCGCAAGAGCTTCCCGTTATACAGCTCACAT
** *
32487142 GAGCTTCCCGATAATTGGCTCGCAAGAGCTTTTCGTTATACAGTTCACAT
1 GAGCTTCCCGATAA-TGGCTCGCAAGAGCTTCCCGTTATACAGCTCACAT
* *
32487192 GAGCTTCCCGTTACATGGCTCGAAAGAGCTTCC
1 GAGCTTCCCGATA-ATGGCTCGCAAGAGCTTCC
32487225 TGATTACTTG
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.04
49 28 0.42
50 35 0.52
51 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (49 bp):
GAGCTTCCCGATAATGGCTCGCAAGAGCTTCCCGTTATACAGCTCACAT
Found at i:32488633 original size:8 final size:8
Alignment explanation
Indices: 32488622--32488694 Score: 78
Period size: 8 Copynumber: 9.1 Consensus size: 8
32488612 AATAAGTAAT
*
32488622 AAATAATA
1 AAATAAAA
32488630 AAATAAAA
1 AAATAAAA
*
32488638 TAAAGT-AAT
1 -AAA-TAAAA
*
32488647 AAATAAAG
1 AAATAAAA
*
32488655 TAA-AAAA
1 AAATAAAA
32488662 AAATAAAA
1 AAATAAAA
32488670 AAATAAAA
1 AAATAAAA
32488678 AAATAAAA
1 AAATAAAA
32488686 AAATAAAA
1 AAATAAAA
32488694 A
1 A
32488695 TTGGGTTGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
7 6 0.11
8 43 0.78
9 5 0.09
10 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (8 bp):
AAATAAAA
Found at i:32488636 original size:5 final size:5
Alignment explanation
Indices: 32488626--32488693 Score: 50
Period size: 5 Copynumber: 13.4 Consensus size: 5
32488616 AGTAATAAAT
* * *
32488626 AATAA AATAA AATAA AGTAATA AATAA AGTAA AAAAA AAT-A AA-AA AATAA
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AATAA AATAA
* *
32488676 AAAAA TAAAAA AATAA AA
1 AATAA -AATAA AATAA AA
32488694 ATTGGGTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 6 0.12
5 34 0.68
6 7 0.14
7 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:32488647 original size:25 final size:27
Alignment explanation
Indices: 32488611--32488688 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
32488601 ATTAATATCC
*
32488611 AAAT-AAGTAATAAAT-AA-TAAAATA
1 AAATAAAGTAATAAATAAAGTAAAAAA
32488635 AAATAAAGTAATAAATAAAGTAAAAAA
1 AAATAAAGTAATAAATAAAGTAAAAAA
** *
32488662 AAATAAAAAAATAAA-AAAATAAAAAA
1 AAATAAAGTAATAAATAAAGTAAAAAA
32488688 A
1 A
32488689 TAAAAATTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 4 0.09
25 11 0.23
26 13 0.28
27 19 0.40
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (27 bp):
AAATAAAGTAATAAATAAAGTAAAAAA
Found at i:32488693 original size:22 final size:22
Alignment explanation
Indices: 32488622--32488695 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
32488612 AATAAGTAAT
*
32488622 AAATAATAAAATAAAATAAAGTAA
1 AAATAAAAAAATAAAA-AAA-TAA
32488646 TAAATAAAGTAAAA-AAAAATAA-AA
1 -AAATAAA--AAAATAAAAA-AATAA
32488670 AAATAAAAAAATAAAAAAATAA
1 AAATAAAAAAATAAAAAAATAA
32488692 AAAT
1 AAAT
32488696 TGGGTTGCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
21 6 0.14
22 11 0.26
23 7 0.16
24 2 0.05
25 7 0.16
26 6 0.14
27 4 0.09
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.18
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAAATAA
Found at i:32489921 original size:69 final size:69
Alignment explanation
Indices: 32489810--32489950 Score: 219
Period size: 69 Copynumber: 2.0 Consensus size: 69
32489800 AAAAGATCTT
* * *
32489810 TAAGAAATTTAGCATACCGCGGTATTTTCTTGATTGCGTCCAACAGTGGAATCTTAATCTCGACA
1 TAAGAAATTTAGCATACCGCGGTATTTGCTTGATGGCGTCCAACAGCGGAATCTTAATCTCGACA
32489875 TTCC
66 TTCC
* * * *
32489879 TAAGAAATTTAGCATACTGTGGTATTTGCTTGATGGCGTCCAACAGCGGAATGTTGATCTCGACA
1 TAAGAAATTTAGCATACCGCGGTATTTGCTTGATGGCGTCCAACAGCGGAATCTTAATCTCGACA
32489944 TTCC
66 TTCC
32489948 TAA
1 TAA
32489951 ATGTTTCGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (69 bp):
TAAGAAATTTAGCATACCGCGGTATTTGCTTGATGGCGTCCAACAGCGGAATCTTAATCTCGACA
TTCC
Found at i:32492715 original size:15 final size:14
Alignment explanation
Indices: 32492694--32492729 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32492684 ATAATCGTTA
*
32492694 ATAATTATCTTAAT
1 ATAATTATCCTAAT
32492708 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
32492723 ATAATTA
1 ATAATTA
32492730 AAATAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:32497866 original size:19 final size:19
Alignment explanation
Indices: 32497834--32497873 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32497824 GTCGAAAATG
* *
32497834 ATTTTCTTTTAGAAACAAA
1 ATTTTATTTAAGAAACAAA
*
32497853 ATTTTATTTAAGAAGCAAA
1 ATTTTATTTAAGAAACAAA
32497872 AT
1 AT
32497874 GAAAAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (19 bp):
ATTTTATTTAAGAAACAAA
Found at i:32498508 original size:215 final size:216
Alignment explanation
Indices: 32498137--32498568 Score: 857
Period size: 215 Copynumber: 2.0 Consensus size: 216
32498127 CAATTGAAAA
32498137 TTACAAAAATCATATAAATTTTAGCCTTAATATTTTTGTCCAAATCCTTTCAAATTTTAGATTAA
1 TTACAAAAATCATATAAATTTTAGCCTTAATATTTTTGTCCAAATCCTTTCAAATTTTAGATTAA
32498202 CTTTTTGATAGCCAGACCTTGAATAGGTTTTTTTAAATCTACCCCTTTTTTAATTATTATATGAT
66 CTTTTTGATAGCCAGACCTTGAATAGGTTTTTTTAAATCTACCCCTTTTTTAATTATTATATGAT
32498267 ATTTATTATGTATTTTATATATAAAAATAAATATATAATCTTAGTCAAATAAAAAAATTTAATTG
131 ATTTATTATGTATTTTATATATAAAAATAAATATATAATCTTAGTCAAATAAAAAAATTTAATTG
32498332 TTTGGTTTAAT-TTTTAGATT
196 TTTGGTTTAATATTTTAGATT
32498352 TTACAAAAATCATATAAATTTTAGCCTTAATATTTTTGTCCAAATCCTTTCAAATTTTAGATTAA
1 TTACAAAAATCATATAAATTTTAGCCTTAATATTTTTGTCCAAATCCTTTCAAATTTTAGATTAA
32498417 CTTTTTGATAGCCAGACCTTGAATAGGTTTTTTTAAATCTACCCCTTTTTTAATTATTATATGAT
66 CTTTTTGATAGCCAGACCTTGAATAGGTTTTTTTAAATCTACCCCTTTTTTAATTATTATATGAT
32498482 ATTTATTATGTATTTTATATATAAAAATAAATATATAATCTTAGTCAAATAAAAAAATTTAATTG
131 ATTTATTATGTATTTTATATATAAAAATAAATATATAATCTTAGTCAAATAAAAAAATTTAATTG
32498547 TTTGGTTTAATATTTTAGATT
196 TTTGGTTTAATATTTTAGATT
32498568 T
1 T
32498569 ATTTGTAAAA
Statistics
Matches: 216, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
215 206 0.95
216 10 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (216 bp):
TTACAAAAATCATATAAATTTTAGCCTTAATATTTTTGTCCAAATCCTTTCAAATTTTAGATTAA
CTTTTTGATAGCCAGACCTTGAATAGGTTTTTTTAAATCTACCCCTTTTTTAATTATTATATGAT
ATTTATTATGTATTTTATATATAAAAATAAATATATAATCTTAGTCAAATAAAAAAATTTAATTG
TTTGGTTTAATATTTTAGATT
Found at i:32499312 original size:31 final size:31
Alignment explanation
Indices: 32499271--32499334 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
32499261 ATCAAAATTT
* *
32499271 TATATTTATCAAATTTAGAGACCAAAATAAA
1 TATAGTTATCAAATTCAGAGACCAAAATAAA
* *
32499302 TATAGTTATCAAATTCGGATACCAAAATAAA
1 TATAGTTATCAAATTCAGAGACCAAAATAAA
32499333 TA
1 TA
32499335 AATATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (31 bp):
TATAGTTATCAAATTCAGAGACCAAAATAAA
Found at i:32499343 original size:10 final size:10
Alignment explanation
Indices: 32499328--32499366 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
32499318 GGATACCAAA
*
32499328 ATAAATAAAT
1 ATAAATATAT
32499338 ATAAATATAT
1 ATAAATATAT
*
32499348 ATATATATAT
1 ATAAATATAT
*
32499358 ATATATATA
1 ATAAATATA
32499367 CAAACTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAAATATAT
Found at i:32499349 original size:2 final size:2
Alignment explanation
Indices: 32499336--32499366 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32499326 AAATAAATAA
*
32499336 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32499367 CAAACTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:32500073 original size:20 final size:20
Alignment explanation
Indices: 32500048--32500087 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32500038 TTTAGCGTCC
32500048 CCCCCCCCCCCCCCCTTTTT
1 CCCCCCCCCCCCCCCTTTTT
32500068 CCCCCCCCCCCCCCCTTTTT
1 CCCCCCCCCCCCCCCTTTTT
32500088 GTCAATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (20 bp):
CCCCCCCCCCCCCCCTTTTT
Found at i:32502232 original size:45 final size:45
Alignment explanation
Indices: 32502183--32502275 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
32502173 TGGGCTAATT
*
32502183 CACAACAATGTGTTATAAATTATGGGTAGTGAGAGTGAATGAAAA
1 CACAACAATGTGTTATAAATTATGGGTAATGAGAGTGAATGAAAA
*
32502228 CACAACTATGTGTTATAAATTATGGGTAATGAGAGTGAATGAAAA
1 CACAACAATGTGTTATAAATTATGGGTAATGAGAGTGAATGAAAA
32502273 CAC
1 CAC
32502276 GTTCATGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.27
Consensus pattern (45 bp):
CACAACAATGTGTTATAAATTATGGGTAATGAGAGTGAATGAAAA
Found at i:32507171 original size:5 final size:5
Alignment explanation
Indices: 32507163--32507193 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
32507153 GAACTGGACT
32507163 GTTGA GTTGA GTTGA GTTGA GTTGA GTTGA G
1 GTTGA GTTGA GTTGA GTTGA GTTGA GTTGA G
32507194 GGATACTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (5 bp):
GTTGA
Found at i:32515943 original size:65 final size:65
Alignment explanation
Indices: 32515839--32515971 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
32515829 AACTTCAATT
32515839 ACATATATGCTTTCTTTGAATGCGCAGATGGTCTATAATTGCAGCACAATTGCCTGGAAGAACTG
1 ACATATATGCTTTCTTTGAATGCGCAGATGGTCTATAATTGCAGCACAATTGCCTGGAAGAACTG
32515904 ACATATATGCTTTCTTTGAATGCGCAGATGGTCTATAATTGCAGCACAATTGCCTGGAAGAACTG
1 ACATATATGCTTTCTTTGAATGCGCAGATGGTCTATAATTGCAGCACAATTGCCTGGAAGAACTG
32515969 ACA
1 ACA
32515972 ATGACATCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (65 bp):
ACATATATGCTTTCTTTGAATGCGCAGATGGTCTATAATTGCAGCACAATTGCCTGGAAGAACTG
Found at i:32530692 original size:3 final size:3
Alignment explanation
Indices: 32530684--32530710 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32530674 GACAACCGAA
32530684 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
32530711 CTTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:32533803 original size:2 final size:2
Alignment explanation
Indices: 32533796--32533828 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32533786 GAGTGCAGTT
32533796 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32533829 ACGATATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32536615 original size:25 final size:24
Alignment explanation
Indices: 32536574--32536621 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
32536564 TTTTTTTAGT
32536574 TTGAATATTGTAAGTTCAAATCAA
1 TTGAATATTGTAAGTTCAAATCAA
* * *
32536598 TTGAATTATTTTAGGTTCTAATCA
1 TTGAA-TATTGTAAGTTCAAATCA
32536622 TTTGGATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (24 bp):
TTGAATATTGTAAGTTCAAATCAA
Found at i:32537475 original size:18 final size:18
Alignment explanation
Indices: 32537415--32537491 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 18
32537405 AATGAATAAA
* *
32537415 ATTATTAAAATTACAGAT
1 ATTATTAAAATTAAAAAT
*
32537433 A-TA-TATAAATGAAAAA-
1 ATTATTA-AAATTAAAAAT
*
32537449 ATCATTTAAAATTAAAAAT
1 ATTA-TTAAAATTAAAAAT
32537468 ATTATTAAAAATATATAAAAT
1 ATTATT-AAAAT-TA-AAAAT
32537489 ATT
1 ATT
32537492 CAACATTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
16 3 0.07
17 10 0.22
18 12 0.27
19 10 0.22
20 2 0.04
21 8 0.18
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTATTAAAATTAAAAAT
Found at i:32537560 original size:27 final size:28
Alignment explanation
Indices: 32537530--32537583 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
32537520 TCTAGAAATT
*
32537530 TAAAAATTTCTTA-AAAACATAAAAAAC
1 TAAAAATTTATTATAAAACATAAAAAAC
* *
32537557 TAAAATTTTATTATAAAAGATAAAAAA
1 TAAAAATTTATTATAAAACATAAAAAA
32537584 TTAGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (28 bp):
TAAAAATTTATTATAAAACATAAAAAAC
Found at i:32540044 original size:17 final size:17
Alignment explanation
Indices: 32540022--32540056 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
32540012 GCACATTATG
32540022 TAAATTGTGACAATTTT
1 TAAATTGTGACAATTTT
32540039 TAAATTGTGACAATTTT
1 TAAATTGTGACAATTTT
32540056 T
1 T
32540057 CTCTAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TAAATTGTGACAATTTT
Found at i:32541903 original size:10 final size:10
Alignment explanation
Indices: 32541854--32541916 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
32541844 TTTAATAAAC
*
32541854 TTTTAATAAT
1 TTTTTATAAT
* *
32541864 TTTCTATATT
1 TTTTTATAAT
*
32541874 TTTTTAT-CT
1 TTTTTATAAT
*
32541883 TTTATATTAAT
1 TTTTTA-TAAT
32541894 TTTTTATAA-
1 TTTTTATAAT
32541903 TTTTTA-AAT
1 TTTTTATAAT
32541912 TTTTT
1 TTTTT
32541917 TTTATAGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.05
9 17 0.40
10 17 0.40
11 6 0.14
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:32541934 original size:21 final size:20
Alignment explanation
Indices: 32541854--32541936 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
32541844 TTTAATAAAC
* * *
32541854 TTTTAATAATTTTCTATATT
1 TTTTTATAATTTTATATTTT
* *
32541874 TTTTTAT-CTTTTATATTAAT
1 TTTTTATAATTTTATATT-TT
*
32541894 TTTTTATAATTTTTAAATTTT
1 TTTTTATAA-TTTTATATTTT
*
32541915 TTTTTATAGTTTTATGATTTT
1 TTTTTATAATTTTAT-ATTTT
32541936 T
1 T
32541937 AATAAAATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.14
20 19 0.39
21 15 0.31
22 8 0.16
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTATAATTTTATATTTT
Found at i:32542856 original size:26 final size:23
Alignment explanation
Indices: 32542826--32542873 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
32542816 CTTATGACAT
32542826 ATTTTAACCTAGTATAAAATATGAAA
1 ATTTTAA-CTA-TAT-AAATATGAAA
*
32542852 ATTTTAATTATATAAATATGAA
1 ATTTTAACTATATAAATATGAA
32542874 TACTTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 3 0.14
25 2 0.10
26 7 0.33
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (23 bp):
ATTTTAACTATATAAATATGAAA
Found at i:32547855 original size:53 final size:53
Alignment explanation
Indices: 32547785--32548041 Score: 286
Period size: 53 Copynumber: 4.8 Consensus size: 53
32547775 AAGTTCTTCT
* * *
32547785 ATATGATACGATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTTC
1 ATATGATGCTATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTCC
* ** *
32547838 ATATGATGCTATAACCCA-TCAGTGACGGTCTTACACAATATGATCTTCTTTCC
1 ATATGATGCTATAACCCACT-AGTTACGGTCTTACATGATATGGTCTTCTTTCC
* * * *
32547891 ATATGATGCCT-TAACCCACCAGTTATGGTCTTACATGATATGTTTTTCTTTCC
1 ATATGATG-CTATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTCC
* * * * *
32547944 ATATGATGCCATAACTCACCAGTTACGGTCTTACACGATATGGTCTTCATTCC
1 ATATGATGCTATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTCC
* * * *
32547997 ATATGATG-TCATAACCCACTAATTATGATTTTACATGATATGGTC
1 ATATGATGCT-ATAACCCACTAGTTACGGTCTTACATGATATGGTC
32548042 CTTTAGTGCT
Statistics
Matches: 170, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 166 0.98
54 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (53 bp):
ATATGATGCTATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTCC
Found at i:32547972 original size:106 final size:106
Alignment explanation
Indices: 32547785--32548041 Score: 343
Period size: 106 Copynumber: 2.4 Consensus size: 106
32547775 AAGTTCTTCT
* * * * *
32547785 ATATGATACGATAACCCACTAGTTACGGTCTTACATGATATGGTCTTCTTTTCATATGATGCTAT
1 ATATGATGCCATAACCCACTAGTTATGGTCTTACATGATATGGTCTTCTTTCCATATGATGCCAT
* *
32547850 AACCCATCAGTGACGGTCTTACACAATATGATCTTCTTTCC
66 AACCCACCAGTGACGGTCTTACACAATATGATCTTCATTCC
* * * *
32547891 ATATGATGCCTTAACCCACCAGTTATGGTCTTACATGATATGTTTTTCTTTCCATATGATGCCAT
1 ATATGATGCCATAACCCACTAGTTATGGTCTTACATGATATGGTCTTCTTTCCATATGATGCCAT
* * * *
32547956 AACTCACCAGTTACGGTCTTACACGATATGGTCTTCATTCC
66 AACCCACCAGTGACGGTCTTACACAATATGATCTTCATTCC
* * * *
32547997 ATATGATGTCATAACCCACTAATTATGATTTTACATGATATGGTC
1 ATATGATGCCATAACCCACTAGTTATGGTCTTACATGATATGGTC
32548042 CTTTAGTGCT
Statistics
Matches: 128, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 128 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (106 bp):
ATATGATGCCATAACCCACTAGTTATGGTCTTACATGATATGGTCTTCTTTCCATATGATGCCAT
AACCCACCAGTGACGGTCTTACACAATATGATCTTCATTCC
Found at i:32557414 original size:20 final size:18
Alignment explanation
Indices: 32557364--32557415 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
32557354 CTACAAGATA
32557364 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
32557381 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
32557401 AATATTAAATTAATA
1 AATATTAAATTAATA
32557416 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:32563585 original size:23 final size:23
Alignment explanation
Indices: 32563559--32563615 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
32563549 AATTGAATTG
32563559 TATATAATGAAGTGATAAGAACT
1 TATATAATGAAGTGATAAGAACT
32563582 TATATAATGAAGTGATAAGAACT
1 TATATAATGAAGTGATAAGAACT
32563605 TATATAATGAA
1 TATATAATGAA
32563616 ATTATGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.32
Consensus pattern (23 bp):
TATATAATGAAGTGATAAGAACT
Found at i:32564310 original size:3 final size:3
Alignment explanation
Indices: 32564302--32564328 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32564292 TGTGGAATGG
32564302 GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA
32564329 AAATAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:32566228 original size:2 final size:2
Alignment explanation
Indices: 32566217--32566257 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
32566207 ATAAAGAATC
32566217 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32566258 TATGTATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32569559 original size:6 final size:6
Alignment explanation
Indices: 32569541--32569590 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
32569531 TGCAAATGAA
*
32569541 TCATTT CTCATTT TCATTT TCATTT TCATTT TCATTT TCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
32569590 T
1 T
32569591 GAGAAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
TCATTT
Found at i:32592049 original size:21 final size:21
Alignment explanation
Indices: 32592025--32592066 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32592015 TACCACTAAT
**
32592025 TTTAATCTCATTACTACAATA
1 TTTAATCTCACCACTACAATA
32592046 TTTAATCTCACCACTACAATA
1 TTTAATCTCACCACTACAATA
32592067 ACCAATCGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAATCTCACCACTACAATA
Found at i:32597535 original size:41 final size:40
Alignment explanation
Indices: 32597485--32597619 Score: 166
Period size: 41 Copynumber: 3.3 Consensus size: 40
32597475 GCAGGTATAT
*
32597485 TGCCAGTGAATCAATTCAGGCTTAAAACCTAGCAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAACCTAGCAGGCTAAG
* * *
32597526 TGCCGGTGAACTGAATCAGAC-TATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAACCTAGCAGGCTAAG
*
32597567 TGCCGGTG-ATCTGAATCAGGCTTTAAACCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAACCTAGCAGGCTAAG
32597608 TGCCGGTGAATC
1 TGCCGGTGAATC
32597620 TATTTTAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 69 0.86
42 7 0.09
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAACCTAGCAGGCTAAG
Found at i:32603593 original size:19 final size:19
Alignment explanation
Indices: 32603566--32603602 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32603556 TGGTGAATTG
*
32603566 TTTTCTTATTTAATCTTGC
1 TTTTATTATTTAATCTTGC
32603585 TTTTATTATTTAATCTTG
1 TTTTATTATTTAATCTTG
32603603 GGGCTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTATTATTTAATCTTGC
Found at i:32613094 original size:13 final size:12
Alignment explanation
Indices: 32613076--32613114 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
32613066 AATAACATAA
32613076 AAATAATATAAAC
1 AAATAA-ATAAAC
32613089 AAATAAATAAAC
1 AAATAAATAAAC
32613101 GAAATAAA-AAAC
1 -AAATAAATAAAC
32613113 AA
1 AA
32613115 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:32613647 original size:26 final size:26
Alignment explanation
Indices: 32613605--32613664 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
32613595 AAAATATTTT
**
32613605 AAAAAAATAATTAAATATGAAAAATA
1 AAAAAAATAATTAAATAAAAAAAATA
32613631 AAAAAAACTAATT-AATAAAAAAAATA
1 AAAAAAA-TAATTAAATAAAAAAAATA
*
32613657 AAGAAAAT
1 AAAAAAAT
32613665 GAAAAAAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 24 0.80
27 5 0.17
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAAAAATAATTAAATAAAAAAAATA
Found at i:32614199 original size:21 final size:21
Alignment explanation
Indices: 32614173--32614229 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
32614163 AATCATATCT
32614173 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
32614194 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
32614215 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
32614230 CCTCGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:32614208 original size:19 final size:20
Alignment explanation
Indices: 32614150--32614224 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
32614140 AAATTAAATC
* *
32614150 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
32614170 TCTTCTAAGATTGTATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
32614194 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
32614215 TCTAAGATTG
1 TCTAAGATTG
32614225 TATATCCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 30 0.64
23 10 0.21
24 7 0.15
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:32618295 original size:2 final size:2
Alignment explanation
Indices: 32618288--32618317 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32618278 GAGACAGCTT
32618288 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32618318 TATGTAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32625838 original size:22 final size:22
Alignment explanation
Indices: 32625808--32625854 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
32625798 ATAACATAGA
**
32625808 TTTTATAAATG-TCAGAAAATT
1 TTTTATAAATGAAAAGAAAATT
32625829 TTTTAATAAATGAAAAGAAAATT
1 TTTT-ATAAATGAAAAGAAAATT
32625852 TTT
1 TTT
32625855 GAACTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
TTTTATAAATGAAAAGAAAATT
Found at i:32628240 original size:4 final size:4
Alignment explanation
Indices: 32628231--32628259 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
32628221 TTTTATGTTA
32628231 AGTT AGTT AGTT AGTT AGTT AGTT AGTT A
1 AGTT AGTT AGTT AGTT AGTT AGTT AGTT A
32628260 AGGTTACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
AGTT
Found at i:32634552 original size:59 final size:61
Alignment explanation
Indices: 32634437--32634554 Score: 186
Period size: 62 Copynumber: 2.0 Consensus size: 61
32634427 AGGACCTTCC
*
32634437 CCCTATAAATACCCCAAGGCACGATGATAACAGGCTCTTCTTCTTCTTTAAGCTACCCTGGG
1 CCCTATAAATACCCCAAGGCACGATGATAACAGGATCTTCTTC-TCTTTAAGCTACCCTGGG
* *
32634499 CCCTATAAATACCCTAAGGCATGATGATAACAGGATCTTC-TC-CTTTAAGCTACCCT
1 CCCTATAAATACCCCAAGGCACGATGATAACAGGATCTTCTTCTCTTTAAGCTACCCT
32634555 AGGCAAATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 14 0.26
61 2 0.04
62 37 0.70
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (61 bp):
CCCTATAAATACCCCAAGGCACGATGATAACAGGATCTTCTTCTCTTTAAGCTACCCTGGG
Found at i:32641273 original size:23 final size:23
Alignment explanation
Indices: 32641230--32641280 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
32641220 CTTTATTTGA
*
32641230 TAAAAGATTTTGATATAATAAAT
1 TAAAAGATTTTGAAATAATAAAT
* *
32641253 TAAAAGTATTTTTAAAT-ATAAGT
1 TAAAAG-ATTTTGAAATAATAAAT
32641276 TAAAA
1 TAAAA
32641281 TTGACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (23 bp):
TAAAAGATTTTGAAATAATAAAT
Found at i:32647599 original size:20 final size:20
Alignment explanation
Indices: 32647576--32647630 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
32647566 GATACCAACT
* *
32647576 TAAAAATATTGATACTATTA
1 TAAAAATATCGATACTAGTA
*
32647596 TAAAAATATCGATACTAGTG
1 TAAAAATATCGATACTAGTA
32647616 TAAAAATATCGATAC
1 TAAAAATATCGATAC
32647631 CAGAGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
TAAAAATATCGATACTAGTA
Found at i:32648529 original size:21 final size:21
Alignment explanation
Indices: 32648485--32648529 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32648475 CCACCTTCTG
* *
32648485 CGCACGCCTCTTCAGCCTCCC
1 CGCACGCCTCCTCAGCCACCC
32648506 CGCACGCCTCCT-AGCCACCAC
1 CGCACGCCTCCTCAGCCACC-C
32648527 CGC
1 CGC
32648530 TGCTCGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.13, C:0.58, G:0.16, T:0.13
Consensus pattern (21 bp):
CGCACGCCTCCTCAGCCACCC
Found at i:32654048 original size:30 final size:31
Alignment explanation
Indices: 32653990--32654048 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
32653980 ATGTAATATC
*
32653990 ATATACAAACTTTGATTTTGTTCGATTTTAA
1 ATATACAAACTTTGATTTTGTTCAATTTTAA
*
32654021 ATATA-AAATTTTGA-TTTGATTCAATTTT
1 ATATACAAACTTTGATTTTG-TTCAATTTT
32654049 CACAAATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.16
30 16 0.64
31 5 0.20
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (31 bp):
ATATACAAACTTTGATTTTGTTCAATTTTAA
Found at i:32663201 original size:17 final size:17
Alignment explanation
Indices: 32663165--32663437 Score: 109
Period size: 17 Copynumber: 15.1 Consensus size: 17
32663155 ATAATAATTT
*
32663165 TTTTTGAGAACACGGAAA
1 TTTTTGA-AACACGAAAA
* *
32663183 TTTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
*
32663200 TTTTAGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* * *
32663217 TTTCTAAAACATGAAAA
1 TTTTTGAAACACGAAAA
32663234 TTTTTGAAA-ACGCAAAA
1 TTTTTGAAACACG-AAAA
*
32663251 -ATTT-------GAAAA
1 TTTTTGAAACACGAAAA
*
32663260 TTTTTAAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
32663278 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
32663296 TTTTTGAAAACGCGAAAAGTCGAAAA
1 TTTTTG-AAA--C----A--CGAAAA
*
32663322 TTTTTAAAACACGAGAAAA
1 TTTTTGAAACAC--GAAAA
**
32663341 TTTTAAAAACACGAAAA
1 TTTTTGAAACACGAAAA
32663358 TTTTTGAAAACGCGAAAAGTCGAAAA
1 TTTTTG-AAA--C----A--CGAAAA
32663384 TTTTTTGAAACACGAGAAA
1 -TTTTTGAAACACGA-AAA
32663403 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
32663421 --TTTGAAACACGGAAA
1 TTTTTGAAACACGAAAA
32663436 TT
1 TT
32663438 ATTTTTTTAA
Statistics
Matches: 199, Mismatches: 21, Indels: 71
0.68 0.07 0.24
Matches are distributed among these distances:
9 4 0.02
10 4 0.02
15 10 0.05
16 9 0.05
17 57 0.29
18 43 0.22
19 36 0.18
20 3 0.02
23 1 0.01
24 3 0.02
25 3 0.02
26 20 0.10
27 6 0.03
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:32663278 original size:18 final size:19
Alignment explanation
Indices: 32663257--32663423 Score: 121
Period size: 18 Copynumber: 8.3 Consensus size: 19
32663247 AAAAATTTGA
32663257 AAATTTTT-AAAACACGAG
1 AAATTTTTGAAAACACGAG
32663275 AAATTTTTGAAAACACGA-
1 AAATTTTTGAAAACACGAG
*
32663293 AAATTTTTGAAAACGCGAAAAGTCG
1 AAATTTTTGAAAACACG---A---G
32663318 AAAATTTTT-AAAACACGAG
1 -AAATTTTTGAAAACACGAG
* *
32663337 AAAATTTTAAAAACACGA-
1 AAATTTTTGAAAACACGAG
*
32663355 AAATTTTTGAAAACGCGAAAAGTCG
1 AAATTTTTGAAAACACG---A---G
32663380 AAAATTTTTTG-AAACACGAG
1 -AAA-TTTTTGAAAACACGAG
32663400 AAATTTTTGAAAACACGA-
1 AAATTTTTGAAAACACGAG
32663418 AAATTT
1 AAATTT
32663424 GAAACACGGA
Statistics
Matches: 122, Mismatches: 7, Indels: 40
0.72 0.04 0.24
Matches are distributed among these distances:
18 57 0.47
19 30 0.25
20 1 0.01
21 2 0.02
22 1 0.01
23 1 0.01
25 7 0.06
26 17 0.14
27 6 0.05
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (19 bp):
AAATTTTTGAAAACACGAG
Found at i:32663298 original size:62 final size:62
Alignment explanation
Indices: 32663200--32663423 Score: 344
Period size: 62 Copynumber: 3.6 Consensus size: 62
32663190 AATACGAGAA
* * * * *
32663200 TTTTAGAAACACGA-AAATTTCT-AAAACATGAAAATTTTTGAAAACGCAAAAATTTGAAAAT
1 TTTTA-AAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
32663261 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
* *
32663323 TTTTAAAACACGAGAAAATTTTAAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAATT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAA-T
*
32663386 TTTTGAAACACGAGAAATTTTTGAAAACACGAAAATTT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTT
32663424 GAAACACGGA
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
60 8 0.05
61 12 0.08
62 94 0.63
63 36 0.24
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (62 bp):
TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
Found at i:32663348 original size:27 final size:26
Alignment explanation
Indices: 32663290--32663340 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
32663280 TTTGAAAACA
* *
32663290 CGAAAATTTTTGAAAACGCGAAAAGT
1 CGAAAATTTTTAAAAACGAGAAAAGT
32663316 CGAAAATTTTTAAAACACGAGAAAA
1 CGAAAATTTTTAAAA-ACGAGAAAA
32663341 TTTTAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.22
Consensus pattern (26 bp):
CGAAAATTTTTAAAAACGAGAAAAGT
Found at i:32663375 original size:27 final size:29
Alignment explanation
Indices: 32663345--32663402 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 29
32663335 AGAAAATTTT
*
32663345 AAAAACACGAAAA-TTTTTGAAA-ACGCG
1 AAAAACACGAAAATTTTTTGAAACACGAG
**
32663372 -AAAAGTCGAAAATTTTTTGAAACACGAG
1 AAAAACACGAAAATTTTTTGAAACACGAG
32663400 AAA
1 AAA
32663403 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
26 10 0.40
27 9 0.36
28 4 0.16
29 2 0.08
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.21
Consensus pattern (29 bp):
AAAAACACGAAAATTTTTTGAAACACGAG
Found at i:32663426 original size:16 final size:15
Alignment explanation
Indices: 32663387--32663437 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
32663377 TCGAAAATTT
32663387 TTTGAAACACGAGAAA
1 TTTGAAACACGA-AAA
32663403 TTTTTGAAAACACGAAAA
1 --TTTG-AAACACGAAAA
*
32663421 TTTGAAACACGGAAA
1 TTTGAAACACGAAAA
32663436 TT
1 TT
32663438 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 12 0.39
16 4 0.13
18 7 0.23
19 8 0.26
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (15 bp):
TTTGAAACACGAAAA
Found at i:32663441 original size:18 final size:18
Alignment explanation
Indices: 32663381--32663441 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
32663371 GAAAAGTCGA
*
32663381 AAATTTTTTGAAACACGAG
1 AAATTATTTGAAACACG-G
32663400 AAATT-TTTGAAAACAC-G
1 AAATTATTTG-AAACACGG
32663417 AAA--ATTTGAAACACGG
1 AAATTATTTGAAACACGG
32663433 AAATTATTT
1 AAATTATTT
32663442 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.16
16 8 0.22
17 4 0.11
18 8 0.22
19 11 0.30
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (18 bp):
AAATTATTTGAAACACGG
Found at i:32663487 original size:22 final size:22
Alignment explanation
Indices: 32663421--32663487 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
32663411 AACACGAAAA
32663421 TTTGAAACACG-GAAATTATTTT
1 TTTGAAACACGAGAAATT-TTTT
* * *
32663443 TTTAAAAAAC-ACG-AATATATTT
1 TTTGAAACACGA-GAAAT-TTTTT
32663465 TTTGAAACACGAGAAATTTTTT
1 TTTGAAACACGAGAAATTTTTT
32663487 T
1 T
32663488 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTGAAACACGAGAAATTTTTT
Found at i:32664209 original size:20 final size:20
Alignment explanation
Indices: 32664171--32664216 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32664161 TTGGGCCTGA
*
32664171 TCTGCTGCTGGAAATTTGGG
1 TCTGCTGCTGCAAATTTGGG
32664191 TCTGCTGCTGCAGAA-TTGGG
1 TCTGCTGCTGCA-AATTTGGG
32664211 T-TGCTG
1 TCTGCTG
32664217 TGCTGCTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 17 0.71
21 2 0.08
ACGTcount: A:0.13, C:0.17, G:0.35, T:0.35
Consensus pattern (20 bp):
TCTGCTGCTGCAAATTTGGG
Found at i:32664354 original size:14 final size:14
Alignment explanation
Indices: 32664335--32664382 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
32664325 TTATTTATTT
32664335 TTCTTTCCTTTTTC
1 TTCTTTCCTTTTTC
32664349 TTCTTTCCTTTTTC
1 TTCTTTCCTTTTTC
*
32664363 TTC-TTCCTTCTTC
1 TTCTTTCCTTTTTC
32664376 TTTCTTT
1 -TTCTTT
32664383 TTCTCCTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 9 0.29
14 20 0.65
15 2 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCCTTTTTC
Found at i:32664541 original size:14 final size:15
Alignment explanation
Indices: 32664513--32664555 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
32664503 CTTTTTCTTC
*
32664513 TTTGCTTGTTTTTTTG
1 TTTGCTTG-TTTTTTA
32664529 TTTGC-TGTTTTTTA
1 TTTGCTTGTTTTTTA
*
32664543 TTTTCTTGTTTTT
1 TTTGCTTGTTTTT
32664556 GCTCGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.02, C:0.07, G:0.14, T:0.77
Consensus pattern (15 bp):
TTTGCTTGTTTTTTA
Found at i:32664552 original size:15 final size:14
Alignment explanation
Indices: 32664495--32664555 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
32664485 TCTCTTTTCC
32664495 TTTTTTTTCTT-TT
1 TTTTTTTTCTTGTT
* *
32664508 TCTTCTTTGCTTGTT
1 T-TTTTTTTCTTGTT
32664523 TTTTTGTTTGC-TGTT
1 TTTTT-TTT-CTTGTT
32664538 TTTTATTTTCTTGTT
1 TTTT-TTTTCTTGTT
32664553 TTT
1 TTT
32664556 GCTCGTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 1 0.03
14 12 0.32
15 23 0.61
16 2 0.05
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.79
Consensus pattern (14 bp):
TTTTTTTTCTTGTT
Found at i:32665404 original size:5 final size:5
Alignment explanation
Indices: 32665394--32665457 Score: 62
Period size: 5 Copynumber: 13.0 Consensus size: 5
32665384 AATCATAATT
* * *
32665394 TAAAA TAAAA T--AA TAATAA TAAAA T-ACA TATATA TAAAA TAAAA TAAGA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA
32665443 TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
32665458 CACGAACTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 34 0.69
6 9 0.18
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:32665781 original size:79 final size:75
Alignment explanation
Indices: 32665575--32666113 Score: 406
Period size: 79 Copynumber: 7.1 Consensus size: 75
32665565 TTGTTAATTT
* * * * *
32665575 TTTTTTTGAAAAATAGAAATTGAAAATACATCAGCAT-GATTCC-AGGCT-AACTCACCTCTCGC
1 TTTTTTT-AAAAAAAGAAATTGAAAATACCTCGGCGTGGA-CCCGAGGCTCAACTCACCTCTCGC
*
32665637 ATTATGAGTTGA
64 AATATGAGTTGA
* * * * * *
32665649 -TTTTTGAAAAACATAAATTGAGAAAATACCTTGGCGT-GTCCCGAGGCTCAACTCACCTCTCAC
1 TTTTTTTAAAAAAAGAAATT--GAAAATACCTCGGCGTGGACCCGAGGCTCAACTCACCTCTCGC
32665712 AATATGAGTTGA
64 AATATGAGTTGA
* *
32665724 TTTTTTTTTAAATAAAGGAAATTGAAAATACCTCGGCGTGCGGCCCGAGGCTCAACTCACCTCTC
1 --TTTTTTTAAA-AAAAGAAATTGAAAATACCTCGGCGTG-GACCCGAGGCTCAACTCACCTCTC
32665789 GC-AT-T-A--TGA
62 GCAATATGAGTTGA
* *** * **
32665798 GTTTAAAAAAAAAACGGAAATTGAAAATACCTCGGCGTGCGGCTTGAGGCTCAACTCACCTCTCG
1 TTTTTTTAAAAAAA--GAAATTGAAAATACCTCGGCGTG-GACCCGAGGCTCAACTCACCTCTCG
* * *
32665863 TATTATGATTTGA
63 CAATATGAGTTGA
* * * * * * *
32665876 -TTTTTGAAAAATAA-AAATTTAAAAGAAATACCTCAGTGTGTGACCTGACGCTCAACACACCTC
1 TTTTTTTAAAAA-AAGAAA-TT--GA-AAATACCTCGGCGTG-GACCCGAGGCTCAACTCACCTC
32665939 TCGCAATATGAGTTGA
60 TCGCAATATGAGTTGA
* * * * *
32665955 -TATTTGAAAAACAGAAATTGAAAAATACCTCAGG-ATGTGACCCAAGGCTCAACTCACCTCTCG
1 TTTTTTTAAAAAAAGAAATTG-AAAATACCTC-GGCGTG-GACCCGAGGCTCAACTCACCTCTCG
*
32666018 CAATATAAGTTGA
63 CAATATGAGTTGA
* *
32666031 TTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT-GACCCGAGGCTCAACTCACCTCTC
1 ---TTTTTTT-AAAAAAAGAAATTGAAAATACCTCGGCGTGGACCCGAGGCTCAACTCACCTCTC
32666095 GCAATATGAGTTGA
62 GCAATATGAGTTGA
32666109 TTTTT
1 TTTTT
32666114 AAGAGACAAA
Statistics
Matches: 377, Mismatches: 57, Indels: 61
0.76 0.12 0.12
Matches are distributed among these distances:
71 3 0.01
72 17 0.05
73 54 0.14
74 22 0.06
75 33 0.09
76 49 0.13
77 26 0.07
78 55 0.15
79 89 0.24
80 15 0.04
81 14 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
TTTTTTTAAAAAAAGAAATTGAAAATACCTCGGCGTGGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGA
Found at i:32665850 original size:152 final size:152
Alignment explanation
Indices: 32665573--32666106 Score: 455
Period size: 152 Copynumber: 3.5 Consensus size: 152
32665563 GATTGTTAAT
* * *
32665573 TTTTTTTTTGAAA-AATAGAAATTGAAAATACATCAGCAT-GATTCC-AGGCT-AACTCACCTCT
1 TTTTTTTTT-AAATAA-AGAAATTGAAAATACCTCAGCGTGGA-CCCGAGGCTCAACTCACCTCT
* ***** * * * * *
32665634 CGCATTATGAGTTGATTTTTGAAAAACATAAATTGAGAAAATACCT-TGG-CGTGTCCCGAGGCT
63 CGCAATATGAGTT-ATAAAAAAAAAACAGAAATTGA-AAAATACCTCAGGATGCGACCCGAGGCT
*
32665697 CAACTCACCTCTCACAATATGAGTTGA
126 CAACTCACCTCTCGCAATATGAGTTGA
* *
32665724 TTTTTTTTTAAATAAAGGAAATTGAAAATACCTCGGCGTGCGGCCCGAGGCTCAACTCACCTCTC
1 TTTTTTTTTAAATAAA-GAAATTGAAAATACCTCAGCGTG-GACCCGAGGCTCAACTCACCTCTC
* * * * **
32665789 GCATTATGAGTT-TAAAAAAAAAACGGAAATTG-AAAATACCTC-GGCGTGCGGCTTGAGGCTCA
64 GCAATATGAGTTATAAAAAAAAAACAGAAATTGAAAAATACCTCAGG-ATGCGACCCGAGGCTCA
* * *
32665851 ACTCACCTCTCGTATTATGATTTGA
128 ACTCACCTCTCGCAATATGAGTTGA
*** * * * * * *
32665876 -TTTTTGAAAAATAAA-AATTTAAAAGAAATACCTCAGTGTGTGACCTGACGCTCAACACACCTC
1 TTTTTTTTTAAATAAAGAAATT--GA-AAATACCTCAGCGTG-GACCCGAGGCTCAACTCACCTC
**** * *
32665939 TCGCAATATGAGTTGATATTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCAAGGCT
62 TCGCAATATGAGTT-ATAAAAAAAAAACAGAAATTGAAAAATACCTCAGGATGCGACCCGAGGCT
*
32666004 CAACTCACCTCTCGCAATATAAGTTGA
126 CAACTCACCTCTCGCAATATGAGTTGA
32666031 TTTTTTTTTTGAAA-AACAGAAATTGAAAATACCTCAGCGT-GACCCGAGGCTCAACTCACCTCT
1 -TTTTTTTTT-AAATAA-AGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACCTCT
32666094 CGCAATATGAGTT
63 CGCAATATGAGTT
32666107 GATTTTTAAG
Statistics
Matches: 304, Mismatches: 58, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
149 4 0.01
150 15 0.05
151 43 0.14
152 91 0.30
153 6 0.02
154 72 0.24
155 42 0.14
156 15 0.05
157 8 0.03
158 4 0.01
159 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (152 bp):
TTTTTTTTTAAATAAAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTATAAAAAAAAAACAGAAATTGAAAAATACCTCAGGATGCGACCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGA
Found at i:32666094 original size:154 final size:152
Alignment explanation
Indices: 32665571--32666135 Score: 548
Period size: 154 Copynumber: 3.7 Consensus size: 152
32665561 TCGATTGTTA
* * *
32665571 ATTTTTTTTTTGAAAAATAGAAATTGAAAATACATCAGCATGATTCC-AGGCT-AACTCACCTCT
1 ATTTTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGA-CCCGAGGCTCAACTCACCTCT
* * * * * *
32665634 CGCATTATGAGTTGATTTTTGAAAAACATAAATTGAGAAAATACCTTGGCGTGTCCCGAGGCTCA
65 CGCAATATGAGTTGATATTTGAAAAACAGAAATTGA-AAAATACCTCGGTGTGACCCGAGGCTCA
* *
32665699 ACTCACCTCTCACAATATGAGTTG
129 ACTCACCTCTCGCAATATAAGTTG
* *
32665723 A-TTTTTTTTT-AAATAA-AGGAAATTGAAAATACCTCGGCGTGCGGCCCGAGGCTCAACTCACC
1 ATTTTTTTTTTGAAA-AATA-GAAATTGAAAATACCTCAGCGT--GACCCGAGGCTCAACTCACC
* **** * * *
32665785 TCTCGCATTATGAGTT--TAAAAAAAAAACGGAAATTG-AAAATACCTCGGCGTG-CGGCTTGAG
62 TCTCGCAATATGAGTTGATATTTGAAAAACAGAAATTGAAAAATACCTCGGTGTGAC--C-CGAG
*
32665846 GCTCAACTCACCTCTCG---TATTA--TG
124 GCTCAACTCACCTCTCGCAATATAAGTTG
** * * * * * *
32665870 ATTTGATTTTTGAAAAATAAAAATTTAAAAGAAATACCTCAGTGTGTGACCTGACGCTCAACACA
1 ATTTTTTTTTTGAAAAATAGAAA-TT--GA-AAATACCTCA--GCGTGACCCGAGGCTCAACTCA
*
32665935 CCTCTCGCAATATGAGTTGATATTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCAA
60 CCTCTCGCAATATGAGTTGATATTTGAAAAACAGAAATTGAAAAATACCTC-GG-TGTGACCCGA
32666000 GGCTCAACTCACCTCTCGCAATATAAGTTG
123 GGCTCAACTCACCTCTCGCAATATAAGTTG
*
32666030 ATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTC
1 ATTTTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTC
* * *
32666095 GCAATATGAGTTGAT-TTTTAAGAGACAAAAATTGAAAAATA
66 GCAATATGAGTTGATATTTGAA-AAACAGAAATTGAAAAATA
32666136 TAATTCTTGA
Statistics
Matches: 335, Mismatches: 48, Indels: 58
0.76 0.11 0.13
Matches are distributed among these distances:
147 3 0.01
148 12 0.04
149 11 0.03
150 19 0.06
151 32 0.10
152 75 0.22
153 11 0.03
154 98 0.29
155 29 0.09
156 13 0.04
157 4 0.01
158 5 0.01
159 2 0.01
160 21 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (152 bp):
ATTTTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATATTTGAAAAACAGAAATTGAAAAATACCTCGGTGTGACCCGAGGCTCAAC
TCACCTCTCGCAATATAAGTTG
Found at i:32667009 original size:15 final size:14
Alignment explanation
Indices: 32666989--32667046 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
32666979 CATCTTGATT
32666989 TTTCTTTTTCTTTTC
1 TTTCTTTTT-TTTTC
32667004 TTTCTTTTTTTTGT-
1 TTTCTTTTTTTT-TC
32667018 TTTCTTTTTTGTTTC
1 TTTCTTTTTT-TTTC
*
32667033 TTTGTTTTTGTTTT
1 TTTCTTTTT-TTTT
32667047 TGTTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 14 0.37
15 23 0.61
16 1 0.03
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:32667038 original size:20 final size:19
Alignment explanation
Indices: 32666993--32667054 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
32666983 TTGATTTTTC
* *
32666993 TTTTTCTTTTCTTTCTT-T
1 TTTTTGTTTTCTTTTTTGT
32667011 TTTTTGTTTTCTTTTTTGT
1 TTTTTGTTTTCTTTTTTGT
32667030 TTCTTTGTTTT-TGTTTTTGT
1 TT-TTTGTTTTCT-TTTTTGT
32667050 TTTTT
1 TTTTT
32667055 TTAGGCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 15 0.38
19 7 0.18
20 17 0.44
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTTGTTTTCTTTTTTGT
Found at i:32667042 original size:6 final size:6
Alignment explanation
Indices: 32667011--32667053 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
32667001 TTCTTTCTTT
32667011 TTTTTG TTTTCT- TTTTTG TTTCTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTT-TG TTTTTG -TT-TTTG TTTTTG TTTTTG TTTTT
32667054 TTTAGGCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 1 0.03
6 23 0.70
7 5 0.15
8 4 0.12
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:32678561 original size:39 final size:39
Alignment explanation
Indices: 32678518--32678613 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 39
32678508 TGATCCAATC
32678518 GAAACATGAGAATTTTTGTTTTGA-AA-ACGAGAGAA-TTTT
1 GAAACATGAGAATTTTT-TTTTGAGAACACG-GA-AATTTTT
*
32678557 GAAACATGATAATAATTTTTTTTGAGAACACGGAAATTTTT
1 GAAACATGAGAAT--TTTTTTTTGAGAACACGGAAATTTTT
* *
32678598 GAAATACGAGAATTTT
1 GAAACATGAGAATTTT
32678614 AGAAACACGA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
39 15 0.31
40 8 0.17
41 22 0.46
42 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (39 bp):
GAAACATGAGAATTTTTTTTTGAGAACACGGAAATTTTT
Found at i:32678622 original size:34 final size:34
Alignment explanation
Indices: 32678583--32678660 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
32678573 TTTTTTTGAG
* * * *
32678583 AACACGGAAATTTTTGAAATACGAGAATTTTAGA
1 AACACGGAAATTTCTAAAACACGAAAATTTTAGA
* *
32678617 AACACGAAAATTTCTAAAACACGAAAATTTTTGA
1 AACACGGAAATTTCTAAAACACGAAAATTTTAGA
32678651 AA-ACGCGAAA
1 AACACG-GAAA
32678661 AGTCGAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (34 bp):
AACACGGAAATTTCTAAAACACGAAAATTTTAGA
Found at i:32678659 original size:18 final size:18
Alignment explanation
Indices: 32678575--32678832 Score: 141
Period size: 18 Copynumber: 13.2 Consensus size: 18
32678565 ATAATAATTT
* *
32678575 TTTTTGAGAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
32678593 TTTTTG-AAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
32678610 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
32678627 TTTCT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
32678644 TTTTTGAAAACGCGAAAAGTCGAAAA
1 TTTTTGAAAA--C----A--CGAAAA
32678670 TTTTT-AAAACACGAGAAA
1 TTTTTGAAAACACGA-AAA
*
32678688 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
32678706 TTTTTGAAAACGTGAAAAGTCAAAAA
1 TTTTTGAAAAC------A--CGAAAA
32678732 TTTTT-AAAACACGAGAAA
1 TTTTTGAAAACACGA-AAA
32678750 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
32678768 TTTTTGAAAACGCAAAAGTCGAAAA
1 TTTTTGAAAA--C---A--CGAAAA
*
32678793 TTTTTTG-AAACATGAGAAA
1 -TTTTTGAAAACACGA-AAA
*
32678812 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
32678830 TTT
1 TTT
32678833 GAAACACGGA
Statistics
Matches: 192, Mismatches: 16, Indels: 64
0.71 0.06 0.24
Matches are distributed among these distances:
17 44 0.23
18 67 0.35
19 29 0.15
20 3 0.02
23 3 0.02
24 2 0.01
25 18 0.09
26 26 0.14
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:32678705 original size:44 final size:43
Alignment explanation
Indices: 32678621--32678829 Score: 159
Period size: 44 Copynumber: 5.0 Consensus size: 43
32678611 TTTAGAAACA
* *
32678621 CGAAAATTTCTAAAACACGAAAATTTTTGAAAACGCGAAAAGT
1 CGAAAATTTTTAAAACACGAAAATTTTTGAAAACACGAAAAGT
* *
32678664 CGAAAATTTTTAAAACACGAGAAATTTTTGAAAACATGAAAATTTT
1 CGAAAATTTTTAAAACACGA-AAATTTTTGAAAACACGAAAA--GT
* ** * ** *
32678710 TGAAAA-CGTGAAAAGTCAAAAATTTTT-AAAACACG---A--
1 CGAAAATTTTTAAAACACGAAAATTTTTGAAAACACGAAAAGT
*
32678746 -G-AAATTTTTGAAAACACGAAAATTTTTGAAAACGC-AAAAGT
1 CGAAAATTTTT-AAAACACGAAAATTTTTGAAAACACGAAAAGT
* * *
32678787 CGAAAATTTTTTGAAACATGAGAAATTTTTGAAAACAAGAAAA
1 CGAAAA-TTTTTAAAACACGA-AAATTTTTGAAAACACGAAAA
32678830 TTTGAAACAC
Statistics
Matches: 127, Mismatches: 23, Indels: 30
0.71 0.13 0.17
Matches are distributed among these distances:
34 3 0.02
35 2 0.02
36 14 0.11
37 6 0.05
39 1 0.01
40 1 0.01
42 1 0.01
43 36 0.28
44 46 0.36
45 11 0.09
46 6 0.05
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (43 bp):
CGAAAATTTTTAAAACACGAAAATTTTTGAAAACACGAAAAGT
Found at i:32678708 original size:62 final size:62
Alignment explanation
Indices: 32678610--32678832 Score: 344
Period size: 62 Copynumber: 3.6 Consensus size: 62
32678600 AATACGAGAA
*
32678610 TTTTAGAAACACGA-AAATTTCT-AAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
1 TTTTA-AAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
* * *
32678671 TTTTAAAACACGAGAAATTTTTGAAAACATGAAAATTTTTGAAAACGTGAAAAGTCAAAAAT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
32678733 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGC-AAAAGTCGAAAATT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAA-T
* * *
32678795 TTTTGAAACATGAGAAATTTTTGAAAACAAGAAAATTT
1 TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTT
32678833 GAAACACGGA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
60 8 0.05
61 23 0.15
62 118 0.79
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (62 bp):
TTTTAAAACACGAGAAATTTTTGAAAACACGAAAATTTTTGAAAACGCGAAAAGTCGAAAAT
Found at i:32678859 original size:22 final size:21
Alignment explanation
Indices: 32678834--32678889 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
32678824 AGAAAATTTG
32678834 AAACACGGAAATTATTTTTTAA
1 AAACACGGAAATTATTTTTT-A
*
32678856 AAACAC--AAATATATTTTTTG
1 AAACACGGAAAT-TATTTTTTA
32678876 AAACACGAGAAATT
1 AAACACG-GAAATT
32678890 TTATTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 10 0.34
21 8 0.28
22 7 0.24
23 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (21 bp):
AAACACGGAAATTATTTTTTA
Found at i:32678879 original size:20 final size:20
Alignment explanation
Indices: 32678830--32678883 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
32678820 AACAAGAAAA
32678830 TTTGAAACACGGAAATTATTT
1 TTTGAAACAC-GAAATTATTT
*
32678851 TTTAAAAACAC-AAATATATTT
1 TTT-GAAACACGAAAT-TATTT
32678872 TTTGAAACACGA
1 TTTGAAACACGA
32678884 GAAATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 10 0.36
21 12 0.43
22 6 0.21
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (20 bp):
TTTGAAACACGAAATTATTT
Found at i:32678890 original size:19 final size:19
Alignment explanation
Indices: 32678790--32678891 Score: 63
Period size: 21 Copynumber: 5.4 Consensus size: 19
32678780 CAAAAGTCGA
*
32678790 AAATTTTTTGAAACATGAG
1 AAATTTTTTGAAACACGAG
*
32678809 AAA-TTTTTGAAA-ACAAG
1 AAATTTTTTGAAACACGAG
*
32678826 AAA--ATTTGAAACACG-G
1 AAATTTTTTGAAACACGAG
* *
32678842 AAATTATTTTTTAAAAACAC-AA
1 -AA--ATTTTTT-GAAACACGAG
32678864 ATATATTTTTTGAAACACGAG
1 A-A-ATTTTTTGAAACACGAG
32678885 AAATTTT
1 AAATTTT
32678892 ATTATTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
16 8 0.12
17 10 0.16
18 9 0.14
19 9 0.14
20 7 0.11
21 14 0.22
22 7 0.11
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (19 bp):
AAATTTTTTGAAACACGAG
Found at i:32678927 original size:18 final size:17
Alignment explanation
Indices: 32678901--32678948 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
32678891 TATTATTATT
32678901 TTTTGAAACACGAGAAA-
1 TTTTGAAACACGA-AAAC
*
32678918 TTTTGAAAACATGAAAAC
1 TTTTG-AAACACGAAAAC
32678936 TTTTGAAACACGA
1 TTTTGAAACACGA
32678949 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
TTTTGAAACACGAAAAC
Found at i:32679474 original size:21 final size:21
Alignment explanation
Indices: 32679450--32679495 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
32679440 CCCCCCAAAA
32679450 AATTCCCCCTCATTTCTCTTC
1 AATTCCCCCTCATTTCTCTTC
****
32679471 AATTTTTTCTCATTTCTCTTC
1 AATTCCCCCTCATTTCTCTTC
32679492 AATT
1 AATT
32679496 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTCCCCCTCATTTCTCTTC
Found at i:32679502 original size:22 final size:21
Alignment explanation
Indices: 32679458--32679499 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32679448 AAAATTCCCC
32679458 CTCATTTCTCTTCAATTTTTT
1 CTCATTTCTCTTCAATTTTTT
32679479 CTCATTTCTCTTCAATTTTTT
1 CTCATTTCTCTTCAATTTTTT
32679500 TCTTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (21 bp):
CTCATTTCTCTTCAATTTTTT
Found at i:32679802 original size:30 final size:30
Alignment explanation
Indices: 32679697--32679829 Score: 85
Period size: 30 Copynumber: 4.5 Consensus size: 30
32679687 AGGAAAACAT
* * * *
32679697 GGGGCCAAAATGTAATTTCTAGAAAGTTTA
1 GGGGTCAAAATGTAAATTCAAAAAAGTTTA
* * *
32679727 --GGTCCCAAATGT-AATTTAAAAAA-TATTT
1 GGGGT-CAAAATGTAAATTCAAAAAAGT-TTA
** *
32679755 GGGGTCACGATGCAAATTCAAAAAAGTTTA
1 GGGGTCAAAATGTAAATTCAAAAAAGTTTA
***
32679785 GGGGTCAAAATGTAAATTTGGAAAAGTTTA
1 GGGGTCAAAATGTAAATTCAAAAAAGTTTA
* *
32679815 AGGGCCAAAATGTAA
1 GGGGTCAAAATGTAA
32679830 TTTATATTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.01
28 11 0.14
29 11 0.14
30 52 0.68
31 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (30 bp):
GGGGTCAAAATGTAAATTCAAAAAAGTTTA
Found at i:32679874 original size:13 final size:12
Alignment explanation
Indices: 32679856--32679893 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
32679846 TTTTCAAAAT
32679856 TTTAATATTAATA
1 TTTAA-ATTAATA
32679869 TTT-AATTAATA
1 TTTAAATTAATA
32679880 TTTAAAGTTAATA
1 TTTAAA-TTAATA
32679893 T
1 T
32679894 ATATGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.43
12 3 0.13
13 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTTAAATTAATA
Found at i:32680043 original size:5 final size:5
Alignment explanation
Indices: 32680033--32680090 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
32680023 AATAATAATT
* * * *
32680033 TAAAA TAAAA TAAAA -ATAA T-AAA T-ACA TATATA TAAAA TAAGA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA
32680081 TAAAA TAAAA
1 TAAAA TAAAA
32680091 CACGAACTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
4 9 0.21
5 30 0.70
6 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:32682605 original size:17 final size:17
Alignment explanation
Indices: 32682583--32682646 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
32682573 AATCTTAGAG
32682583 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAAC
* *
32682600 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--A-AC
*
32682619 TTTTAATTGTATACAAC
1 TTCTAATTGTATACAAC
*
32682636 TTTTAATTGTA
1 TTCTAATTGTA
32682647 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 23 0.61
18 2 0.05
19 11 0.29
20 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTAATTGTATACAAC
Found at i:32682626 original size:36 final size:36
Alignment explanation
Indices: 32682575--32682645 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
32682565 GATTATGTAA
32682575 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
32682611 TCTTAGAGTTTTAATTGTATACAACTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
32682646 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:32682925 original size:48 final size:48
Alignment explanation
Indices: 32682850--32682944 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
32682840 TAAGGGAATT
32682850 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
* *
32682898 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTT
32682945 AAGCAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
Found at i:32686316 original size:27 final size:28
Alignment explanation
Indices: 32686260--32686324 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
32686250 ATAAAAAATA
**
32686260 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTATTT
32686288 ACCAAAATATTATAA-AATTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTATTT
32686315 ACCAAAATAT
1 ACCAAAATAT
32686325 ACCAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ACCAAAATATTATAACAATTTTTTATTT
Found at i:32686406 original size:27 final size:27
Alignment explanation
Indices: 32686363--32686425 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
32686353 AAAAAACCTA
*
32686363 TGGCGGCACCAAAGGTGCCAAAGTGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
* *
32686390 TGGCGGCACCGATGGTGCCAAAGAGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
32686417 TGGCGGCAC
1 TGGCGGCAC
32686426 AGGACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.37, T:0.14
Consensus pattern (27 bp):
TGGCGGCACCAAAGGTGCCAAAGAGAT
Found at i:32686822 original size:16 final size:15
Alignment explanation
Indices: 32686797--32686826 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32686787 GTACTGAAAT
32686797 AATATAAAATAATAA
1 AATATAAAATAATAA
32686812 AATATTAAAATAATA
1 AATA-TAAAATAATA
32686827 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:32698084 original size:48 final size:48
Alignment explanation
Indices: 32698009--32698103 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
32697999 TAAGGGAATT
32698009 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
* *
32698057 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTT
32698104 AAGCAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
Found at i:32701450 original size:28 final size:28
Alignment explanation
Indices: 32701419--32701484 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
32701409 ATAAAAAATA
**
32701419 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAAATTTTTTTATTT
32701447 ACCAAAATATTATAAAATTTTTTTATTT
1 ACCAAAATATTATAAAATTTTTTTATTT
32701475 ACCAAAATAT
1 ACCAAAATAT
32701485 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (28 bp):
ACCAAAATATTATAAAATTTTTTTATTT
Found at i:32701674 original size:19 final size:18
Alignment explanation
Indices: 32701647--32701715 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 18
32701637 CAACTCATTT
32701647 TTTTATTTAATAACTCTA
1 TTTTATTTAATAACTCTA
*
32701665 TTTTAGTTTAATAA-ACTA
1 TTTTA-TTTAATAACTCTA
*
32701683 TTCTCATTTAATAACTCTA
1 TT-TTATTTAATAACTCTA
32701702 TTTTAATTTAATAA
1 TTTT-ATTTAATAA
32701716 ACTATTNNNN
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 19 0.44
19 24 0.56
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.52
Consensus pattern (18 bp):
TTTTATTTAATAACTCTA
Found at i:32701683 original size:18 final size:18
Alignment explanation
Indices: 32701647--32701721 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
32701637 CAACTCATTT
*
32701647 TTTTATTTAATAACTCTA
1 TTTTATTTAATAACACTA
32701665 TTTTAGTTTAATAA-ACTA
1 TTTTA-TTTAATAACACTA
* *
32701683 TTCTCATTTAATAACTCTA
1 TT-TTATTTAATAACACTA
32701702 TTTTAATTTAATAA-ACTA
1 TTTT-ATTTAATAACACTA
32701720 TT
1 TT
32701722 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 24 0.50
19 24 0.50
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.52
Consensus pattern (18 bp):
TTTTATTTAATAACACTA
Found at i:32701696 original size:37 final size:37
Alignment explanation
Indices: 32701651--32701721 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
32701641 TCATTTTTTT
*
32701651 ATTTAATAACTCTATTTTAGTTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
32701688 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
32701722 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:32702983 original size:27 final size:26
Alignment explanation
Indices: 32702949--32703011 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 26
32702939 TTTTTTTGGT
32702949 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAA-TTATA
*
32702976 ATATTTTGATAAATAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAATTATA
32703002 ATATTTTGGT
1 ATATTTTGGT
32703012 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAATTATA
Found at i:32704158 original size:75 final size:77
Alignment explanation
Indices: 32704073--32704253 Score: 251
Period size: 75 Copynumber: 2.4 Consensus size: 77
32704063 AAAAAAATTG
* *
32704073 TTCTATTGTATTTTACATAAATAATATATACTTATTTACAATCTA-AGAAAAAATTAAG-AAA-T
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTACAGAAAAAA-AAAGAAAACT
*
32704135 TATTTGTATTGTA
65 TATTTATATTGTA
** ** *
32704148 TTCTATTGTATTCCATGTCAATAATATATACTTATTTACAATCTACGGAAAAAAAAAGAAAACTT
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTACAGAAAAAAAAAGAAAACTT
32704213 ATTTATATTGTA
66 ATTTATATTGTA
*
32704225 TTCTACTGTATTTTACATCAATAATATAT
1 TTCTATTGTATTTTACATCAATAATATAT
32704254 CAATACTTAC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
75 43 0.48
76 10 0.11
77 37 0.41
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (77 bp):
TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTACAGAAAAAAAAAGAAAACTT
ATTTATATTGTA
Found at i:32704264 original size:77 final size:75
Alignment explanation
Indices: 32704073--32704283 Score: 255
Period size: 77 Copynumber: 2.8 Consensus size: 75
32704063 AAAAAAATTG
* *
32704073 TTCTATTGTATTTTACATAAATAATATATACTTATTTACAATCTAAGAAAAAATTAAG-AAATTA
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAA-TAAGAAAATTA
*
32704137 TTTGTATTGTA
65 TTTATATTGTA
** ** *
32704148 TTCTATTGTATTCCATGTCAATAATATATACTTATTTACAATCTACGGAAAAAAAAAGAAAACTT
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTAC-GAAAAAATAAGAAAA-TT
32704213 ATTTATATTGTA
64 ATTTATATTGTA
* * * * *
32704225 TTCTACTGTATTTTACATCAATAATATAT-CAATACTTACAATTTACCAAAAAATAAGAA
1 TTCTATTGTATTTTACATCAATAATATATAC-TTATTTACAATCTACGAAAAAATAAGAA
32704284 GCAATGAAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
75 43 0.38
76 22 0.19
77 49 0.43
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (75 bp):
TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAATAAGAAAATTAT
TTATATTGTA
Found at i:32715673 original size:25 final size:24
Alignment explanation
Indices: 32715640--32715690 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
32715630 AAAATAAAAA
*
32715640 AAAGACGTGCTACCAGGAGCAGAC
1 AAAGACGTGCTACCAAGAGCAGAC
*
32715664 AAAGAACGTGTTACCAAGAGCAGAC
1 AAAG-ACGTGCTACCAAGAGCAGAC
32715689 AA
1 AA
32715691 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (24 bp):
AAAGACGTGCTACCAAGAGCAGAC
Found at i:32718516 original size:29 final size:28
Alignment explanation
Indices: 32718448--32718518 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
32718438 ACTTTTGGTA
* * *
32718448 ATTTTGAAATTTTGTCCTTTTACTTTTG
1 ATTTTAAAATTTAGTCCTTCTACTTTTG
* * *
32718476 TTTTTAGGAATTTAGTTCTTCTACTTTTAG
1 ATTTTA-AAATTTAGTCCTTCTACTTTT-G
32718506 ATTTTAAAATTTA
1 ATTTTAAAATTTA
32718519 ATTTCAACTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
28 4 0.12
29 23 0.70
30 6 0.18
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (28 bp):
ATTTTAAAATTTAGTCCTTCTACTTTTG
Found at i:32720257 original size:22 final size:22
Alignment explanation
Indices: 32720232--32720319 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
32720222 ATGGGAGTAA
* *
32720232 GATATGTTCTAATATGTTATAT
1 GATATGCTCCAATATGTTATAT
* *
32720254 GATATACTCCGATATGTTATAT
1 GATATGCTCCAATATGTTATAT
32720276 GATATGCTCCAATATGTTATAT
1 GATATGCTCCAATATGTTATAT
* * **
32720298 TATATTCTCTGATATGTTATAT
1 GATATGCTCCAATATGTTATAT
32720320 AATACAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (22 bp):
GATATGCTCCAATATGTTATAT
Found at i:32720295 original size:44 final size:44
Alignment explanation
Indices: 32720232--32720319 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
32720222 ATGGGAGTAA
* *
32720232 GATATGTTCTAATATGTTATATGATATACTCCGATATGTTATAT
1 GATATGCTCCAATATGTTATATGATATACTCCGATATGTTATAT
* * *
32720276 GATATGCTCCAATATGTTATATTATATTCTCTGATATGTTATAT
1 GATATGCTCCAATATGTTATATGATATACTCCGATATGTTATAT
32720320 AATACAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (44 bp):
GATATGCTCCAATATGTTATATGATATACTCCGATATGTTATAT
Found at i:32721192 original size:29 final size:29
Alignment explanation
Indices: 32721149--32721229 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 29
32721139 GAATTGCATT
32721149 AAATCAAAATTTTATATATAAATTTATAC-A
1 AAATCAAAA-TTTATATATAAATTTA-ACTA
*
32721179 AAATCAAAATTTATATATAAAATTTAACTTT
1 AAATCAAAATTTATATAT-AAATTTAAC-TA
*
32721210 AAATCAAAATTAATATATAA
1 AAATCAAAATTTATATATAA
32721230 CTTTGAGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 11 0.24
30 18 0.39
31 17 0.37
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATCAAAATTTATATATAAATTTAACTA
Found at i:32721214 original size:31 final size:31
Alignment explanation
Indices: 32721147--32721229 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
32721137 GAGAATTGCA
32721147 TTAAATCAAAATTT-TATATATAAATTTATAC
1 TTAAATCAAAATTTATATATA-AAATTTATAC
*
32721178 -AAAATCAAAATTTATATATAAAATTTA-AC
1 TTAAATCAAAATTTATATATAAAATTTATAC
*
32721207 TTTAAATCAAAATTAATATATAA
1 -TTAAATCAAAATTTATATATAA
32721230 CTTTGAGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.04
30 19 0.41
31 25 0.54
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAAATCAAAATTTATATATAAAATTTATAC
Found at i:32726665 original size:18 final size:17
Alignment explanation
Indices: 32726637--32726671 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32726627 ATTATTAAGA
*
32726637 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32726654 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32726672 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32726918 original size:45 final size:44
Alignment explanation
Indices: 32726831--32726925 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
32726821 TTACACCTCT
*
32726831 ATTACATTAAACCAAACACAGGATTGCTAGTACGCCTCTATTCC
1 ATTACATTAAACCAAACACAGGATTGCTAGTACACCTCTATTCC
* *** *
32726875 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTAAACCAAACACAGGA-TTGCTAGTACACCTCTATTCC
32726920 ATTACA
1 ATTACA
32726926 CCTCTATTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.43
45 25 0.57
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (44 bp):
ATTACATTAAACCAAACACAGGATTGCTAGTACACCTCTATTCC
Found at i:32726925 original size:16 final size:16
Alignment explanation
Indices: 32726904--32726973 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
32726894 TTGATTTGCT
*
32726904 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
32726920 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
32726936 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
32726952 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
32726968 AATACA
1 ATTACA
32726974 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:32727468 original size:20 final size:21
Alignment explanation
Indices: 32727430--32727468 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
32727420 ACCAGTAAGT
32727430 TTCTCTCTTTCTCTCATCATA
1 TTCTCTCTTTCTCTCATCATA
* *
32727451 TTCT-TCTTTTTCTTATCA
1 TTCTCTCTTTCTCTCATCA
32727469 AAATGATAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTTCTCTCATCATA
Found at i:32728163 original size:38 final size:39
Alignment explanation
Indices: 32728115--32728242 Score: 113
Period size: 38 Copynumber: 3.3 Consensus size: 39
32728105 GTAGAGAGAA
*
32728115 AGGGACGGTGGGGGAGAGGGAGAGAAG-ATGAGT-AGGTG
1 AGGGACGGTGGGGGAGAGGGAGAGAAGTA-GAGTAAGGGG
* * * *
32728153 AGGGATGGTGGAGAAGAGAGAGAG-AGTCAGAGTAAGGGG
1 AGGGACGGTGGGGGAGAGGGAGAGAAGT-AGAGTAAGGGG
* *
32728192 AGGGACGGT-GGGGAGAAGGAGAGAA-TCGAGGTAAGGGGG
1 AGGGACGGTGGGGGAGAGGGAGAGAAGTAGA-GTAA-GGGG
*
32728231 AGGGATGGTGGG
1 AGGGACGGTGGG
32728243 AAAAAGGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
37 4 0.06
38 39 0.55
39 26 0.37
40 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.56, T:0.10
Consensus pattern (39 bp):
AGGGACGGTGGGGGAGAGGGAGAGAAGTAGAGTAAGGGG
Found at i:32728202 original size:39 final size:35
Alignment explanation
Indices: 32728127--32728241 Score: 99
Period size: 39 Copynumber: 3.1 Consensus size: 35
32728117 GGACGGTGGG
* *
32728127 GGAGAGGGAGAGAAGAT-GAGT-AGGTGAGGGATGGT
1 GGAGAAGGAGAG-A-ATCGAGTAAGGGGAGGGATGGT
*
32728162 GGAGAAGAGAGAGAGAGTCAGAGTAAGGGGAGGGACGGT
1 GGAGAAG-GAGAGA-A-TC-GAGTAAGGGGAGGGATGGT
32728201 GGGGAGAAGGAGAGAATCGAGGTAAGGGGGAGGGATGGT
1 --GGAGAAGGAGAGAATCGA-GTAA-GGGGAGGGATGGT
32728240 GG
1 GG
32728242 GAAAAAGGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
35 9 0.13
36 6 0.09
37 4 0.06
38 10 0.15
39 25 0.37
40 6 0.09
41 7 0.10
ACGTcount: A:0.32, C:0.03, G:0.55, T:0.10
Consensus pattern (35 bp):
GGAGAAGGAGAGAATCGAGTAAGGGGAGGGATGGT
Found at i:32728242 original size:39 final size:41
Alignment explanation
Indices: 32728144--32728242 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 41
32728134 GAGAGAAGAT
*
32728144 GAGT-AGGTGAGGGATGGT--GGAGAAGAGAGAGAGAGTCA
1 GAGTAAGGGGAGGGATGGTGGGGAGAAGAGAGAGAGAGTCA
*
32728182 GAGTAAGGGGAGGGACGGTGGGGAGAAG-GAGAGA-A-TC-
1 GAGTAAGGGGAGGGATGGTGGGGAGAAGAGAGAGAGAGTCA
32728219 GAGGTAAGGGGGAGGGATGGTGGG
1 GA-GTAA-GGGGAGGGATGGTGGG
32728243 AAAAAGGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
37 2 0.04
38 10 0.19
39 28 0.53
40 6 0.11
41 7 0.13
ACGTcount: A:0.30, C:0.03, G:0.56, T:0.11
Consensus pattern (41 bp):
GAGTAAGGGGAGGGATGGTGGGGAGAAGAGAGAGAGAGTCA
Found at i:32728714 original size:41 final size:41
Alignment explanation
Indices: 32728669--32728754 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
32728659 TTAAAATACT
32728669 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
32728710 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
32728751 TTTT
1 TTTT
32728755 AAAATATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:32728723 original size:31 final size:30
Alignment explanation
Indices: 32728690--32728803 Score: 133
Period size: 31 Copynumber: 3.7 Consensus size: 30
32728680 TTTAAAATAT
**
32728690 TTTTAAAATACTTTTTTTAAT-TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATATTTTTTTAA
32728720 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATA-TTTTTTTAA
*
32728751 TTTTAAAATATTTTAAAAATACTTTTTTTTAA
1 TTTTAAAATATTTTTAAAATA--TTTTTTTAA
*
32728783 TTTTTTAAA-ATTTTTAAAATA
1 -TTTTAAAATATTTTTAAAATA
32728804 AAAATGGGCC
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.11
30 10 0.14
31 29 0.39
32 20 0.27
33 7 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATATTTTTTTAA
Found at i:32728764 original size:41 final size:41
Alignment explanation
Indices: 32728676--32728777 Score: 143
Period size: 41 Copynumber: 2.4 Consensus size: 41
32728666 ACTTTTTTTT
***
32728676 TAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTT
1 TAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAA
32728717 TAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAA
1 TAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAA
32728758 -ATATTTTAAAAATACTTTTT
1 TA-ATTTT-AAAATA-TTTTT
32728778 TTTAATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.78
42 6 0.11
43 5 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (41 bp):
TAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAA
Found at i:32729460 original size:25 final size:25
Alignment explanation
Indices: 32729426--32729589 Score: 136
Period size: 25 Copynumber: 6.6 Consensus size: 25
32729416 TCCCTGAACG
*
32729426 TCTGCTGCATTGCCATCAACAGTCC
1 TCTGTTGCATTGCCATCAACAGTCC
** *
32729451 TCTGTTGCATCACCATCGACAGTCC
1 TCTGTTGCATTGCCATCAACAGTCC
** * *
32729476 TCTGCCGCATCGTCATCGAA-AGTCC
1 TCTGTTGCATTGCCATC-AACAGTCC
*
32729501 TCTGTCGCATTGCCATCGAA-AGTCC
1 TCTGTTGCATTGCCATC-AACAGTCC
* * * *
32729526 TTTGTCGCATTGCCATCGATAGTCC
1 TCTGTTGCATTGCCATCAACAGTCC
* *
32729551 TCT-TCTACATTGCCATCGACAGTCC
1 TCTGT-TGCATTGCCATCAACAGTCC
*
32729576 TCTGCTGCATTGCC
1 TCTGTTGCATTGCC
32729590 GTGTAAGTTT
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.02
25 112 0.97
26 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.30
Consensus pattern (25 bp):
TCTGTTGCATTGCCATCAACAGTCC
Found at i:32729568 original size:75 final size:75
Alignment explanation
Indices: 32729426--32729589 Score: 197
Period size: 75 Copynumber: 2.2 Consensus size: 75
32729416 TCCCTGAACG
* * *
32729426 TCTGCTGCATTGCCATCAACAGTCCTCTGTTGCATCACCATCGACAGTCCTCTGCCGCATCGTCA
1 TCTGCTGCATTGCCATCAACAGTCCTCTGTCGCATCACCATCGACAGTCCTCTGCCACATCGCCA
32729491 TCGAAAGTCC
66 TCGAAAGTCC
* ** * * * *
32729501 TCTG-TCGCATTGCCATCGAA-AGTCCTTTGTCGCATTGCCATCGATAGTCCTCTTCTACATTGC
1 TCTGCT-GCATTGCCATC-AACAGTCCTCTGTCGCATCACCATCGACAGTCCTCTGCCACATCGC
*
32729564 CATCGACAGTCC
64 CATCGAAAGTCC
32729576 TCTGCTGCATTGCC
1 TCTGCTGCATTGCC
32729590 GTGTAAGTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
74 1 0.01
75 71 0.95
76 3 0.04
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.30
Consensus pattern (75 bp):
TCTGCTGCATTGCCATCAACAGTCCTCTGTCGCATCACCATCGACAGTCCTCTGCCACATCGCCA
TCGAAAGTCC
Found at i:32729586 original size:50 final size:51
Alignment explanation
Indices: 32729426--32729589 Score: 194
Period size: 50 Copynumber: 3.3 Consensus size: 51
32729416 TCCCTGAACG
**
32729426 TCTGCTGCATTGCCATC-AACAGTCCTCTGT-TGCATCACCATCGACAGTCC
1 TCTGCTGCATTGCCATCGAA-AGTCCTCTGTCTGCATTGCCATCGACAGTCC
* * * *
32729476 TCTGCCGCATCGTCATCGAAAGTCCTCTGTC-GCATTGCCATCGAAAGTCC
1 TCTGCTGCATTGCCATCGAAAGTCCTCTGTCTGCATTGCCATCGACAGTCC
* * *
32729526 TTTG-TCGCATTGCCATCGATAGTCCTCT-TCTACATTGCCATCGACAGTCC
1 TCTGCT-GCATTGCCATCGAAAGTCCTCTGTCTGCATTGCCATCGACAGTCC
32729576 TCTGCTGCATTGCC
1 TCTGCTGCATTGCC
32729590 GTGTAAGTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
49 2 0.02
50 90 0.95
51 3 0.03
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.30
Consensus pattern (51 bp):
TCTGCTGCATTGCCATCGAAAGTCCTCTGTCTGCATTGCCATCGACAGTCC
Found at i:32729745 original size:25 final size:25
Alignment explanation
Indices: 32729707--32729765 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
32729697 CACCAGAAAC
*
32729707 AACAACCCATAAAAGAGAAAAAAAA
1 AACAACCCAGAAAAGAGAAAAAAAA
*
32729732 AACAACCCAGAAAAGAGAAAAAAAC
1 AACAACCCAGAAAAGAGAAAAAAAA
*
32729757 AGCAACCCA
1 AACAACCCA
32729766 TGCGAGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.66, C:0.22, G:0.10, T:0.02
Consensus pattern (25 bp):
AACAACCCAGAAAAGAGAAAAAAAA
Found at i:32735184 original size:44 final size:45
Alignment explanation
Indices: 32735096--32735185 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 45
32735086 AAGACTTGTA
* *
32735096 TCTTCGATCTACTTCACTACCAGTATAGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
* *
32735141 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
32735185 T
1 T
32735186 TTTAATCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 24 0.59
45 17 0.41
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTT
Done.