Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 6 of 211
Found at i:2052500 original size:11 final size:11
Alignment explanation
Indices: 2052484--2052508 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2052474 TAATTAAATG
2052484 ATTATTTTATA
1 ATTATTTTATA
2052495 ATTATTTTATA
1 ATTATTTTATA
2052506 ATT
1 ATT
2052509 TAATAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTATA
Found at i:2052613 original size:19 final size:18
Alignment explanation
Indices: 2052580--2052617 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
2052570 TAATTAAATA
2052580 TATATTATTTTATATTTT
1 TATATTATTTTATATTTT
*
2052598 TATATTTTTATTATATTTT
1 TATATTATT-TTATATTTT
2052617 T
1 T
2052618 TAGTGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATATTATTTTATATTTT
Found at i:2052626 original size:19 final size:19
Alignment explanation
Indices: 2052589--2052626 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2052579 ATATATTATT
*
2052589 TTATATTTTTATATTTTTA
1 TTATATTTTTATATGTTTA
2052608 TTATATTTTT-TAGTGTTTA
1 TTATATTTTTATA-TGTTTA
2052627 CATTGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TTATATTTTTATATGTTTA
Found at i:2053373 original size:13 final size:13
Alignment explanation
Indices: 2053309--2053373 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
2053299 AAAAAAGATG
*
2053309 AAAAAAGGAAGAA
1 AAAAAAGAAAGAA
*
2053322 AAAAAATAAAGAA
1 AAAAAAGAAAGAA
* * *
2053335 GCAGAAGAGAATGAA
1 --AAAAAAGAAAGAA
2053350 AAAAGAA-AAAGAA
1 AAAA-AAGAAAGAA
2053363 AAAAAAGAAAG
1 AAAAAAGAAAG
2053374 TTATAAAAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
12 2 0.05
13 27 0.69
14 1 0.03
15 9 0.23
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAGAA
Found at i:2061121 original size:113 final size:113
Alignment explanation
Indices: 2060959--2061185 Score: 427
Period size: 113 Copynumber: 2.0 Consensus size: 113
2060949 CTTTTCATAT
*
2060959 TGAATGCAACTGTTCGATAAAAAGTTCTTTTAGAACATAAACGATCTATGCACGTTCCCTAAAGA
1 TGAATGCAACTGTTCGATAAAAAGTTCTTTTAGAACATAAACGATCTATGCAAGTTCCCTAAAGA
* *
2061024 GTGAAACTTTTGTTAAGACTATACCTTTTTGCTTTATATAAATTTTCA
66 GTGAAACTTTTGTTAAGACTATACCATTTTGCTTTATATAAAATTTCA
2061072 TGAATGCAACTGTTCGATAAAAAGTTCTTTTAGAACATAAACGATCTATGCAAGTTCCCTAAAGA
1 TGAATGCAACTGTTCGATAAAAAGTTCTTTTAGAACATAAACGATCTATGCAAGTTCCCTAAAGA
2061137 GTGAAACTTTTGTTAAGACTATACCATTTTGCTTTATATAAAATTTCA
66 GTGAAACTTTTGTTAAGACTATACCATTTTGCTTTATATAAAATTTCA
2061185 T
1 T
2061186 TTAGCTACTT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (113 bp):
TGAATGCAACTGTTCGATAAAAAGTTCTTTTAGAACATAAACGATCTATGCAAGTTCCCTAAAGA
GTGAAACTTTTGTTAAGACTATACCATTTTGCTTTATATAAAATTTCA
Found at i:2062562 original size:14 final size:14
Alignment explanation
Indices: 2062543--2062613 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
2062533 ATATTGATTT
2062543 TTAAATCTATTAAA
1 TTAAATCTATTAAA
*
2062557 TTAAAT-TAGTTCAA
1 TTAAATCTA-TTAAA
2062571 TTAAATCTATTAAA
1 TTAAATCTATTAAA
* *
2062585 TCAAAGT-AATTAAA
1 TTAAA-TCTATTAAA
*
2062599 TTAAATCTATAAAA
1 TTAAATCTATTAAA
2062613 T
1 T
2062614 AGGTTTAAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 3 0.07
14 40 0.87
15 3 0.07
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (14 bp):
TTAAATCTATTAAA
Found at i:2062575 original size:28 final size:28
Alignment explanation
Indices: 2062543--2062613 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
2062533 ATATTGATTT
* * * *
2062543 TTAAATCTATTAAATTAAATTAGTTCAA
1 TTAAATCTATTAAATCAAAGTAATTAAA
2062571 TTAAATCTATTAAATCAAAGTAATTAAA
1 TTAAATCTATTAAATCAAAGTAATTAAA
*
2062599 TTAAATCTATAAAAT
1 TTAAATCTATTAAAT
2062614 AGGTTTAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (28 bp):
TTAAATCTATTAAATCAAAGTAATTAAA
Found at i:2069711 original size:13 final size:13
Alignment explanation
Indices: 2069693--2069729 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2069683 GGTTTGGGTA
2069693 AAAATATAGGCCC
1 AAAATATAGGCCC
2069706 AAAATATAGGCCC
1 AAAATATAGGCCC
*
2069719 GAAATATAGGC
1 AAAATATAGGC
2069730 TTGGGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (13 bp):
AAAATATAGGCCC
Found at i:2069866 original size:11 final size:11
Alignment explanation
Indices: 2069850--2069875 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2069840 ATTTTTTTAA
2069850 TTTTAAAATAC
1 TTTTAAAATAC
2069861 TTTTAAAATAC
1 TTTTAAAATAC
2069872 TTTT
1 TTTT
2069876 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:2069877 original size:32 final size:32
Alignment explanation
Indices: 2069841--2069925 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
2069831 TTTATTTTTA
2069841 TTTTTTT-AA-TTTTAAAATACTTTTAAAATAC
1 TTTTTTTAAATTTTTAAAATA-TTTTAAAATAC
**
2069872 TTTTTTTAAATTTTTTTTAAT-TTTTAAAATAC
1 TTTTTTTAAA-TTTTTAAAATATTTTAAAATAC
2069904 TTTTTTTAAAATTTTTAAAATA
1 TTTTTTT-AAATTTTTAAAATA
2069926 AATTTTTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 7 0.16
32 28 0.62
33 3 0.07
34 7 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTTTTAAATTTTTAAAATATTTTAAAATAC
Found at i:2069931 original size:23 final size:23
Alignment explanation
Indices: 2069878--2069932 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
2069868 ATACTTTTTT
**
2069878 TAAATTTTTTTTAATTTTTAAAA
1 TAAATTTTTTAAAATTTTTAAAA
**
2069901 TACTTTTTTTAAAATTTTTAAAA
1 TAAATTTTTTAAAATTTTTAAAA
2069924 TAAATTTTT
1 TAAATTTTT
2069933 GGTATTTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TAAATTTTTTAAAATTTTTAAAA
Found at i:2071294 original size:3 final size:3
Alignment explanation
Indices: 2071286--2071321 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2071276 GTAGTTTACC
2071286 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2071322 CCTGAGGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2072273 original size:19 final size:20
Alignment explanation
Indices: 2072226--2072283 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
2072216 AAAATGATAA
2072226 AATCAAGTTAAAATTGTTTC
1 AATCAAGTTAAAATTGTTTC
**
2072246 AATTGAGTTAAACA-T-TTTC
1 AATCAAGTTAAA-ATTGTTTC
*
2072265 AATCAAGTTAAAACTGTTT
1 AATCAAGTTAAAATTGTTT
2072284 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 14 0.45
21 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
AATCAAGTTAAAATTGTTTC
Found at i:2072926 original size:31 final size:31
Alignment explanation
Indices: 2072888--2072949 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2072878 AGGCAAATTA
2072888 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
2072919 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
2072950 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:2074568 original size:29 final size:29
Alignment explanation
Indices: 2074494--2074570 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
2074484 TTTGGTTAAA
*
2074494 TCTATTTTCTATCAAATTACTATTTTATAT
1 TCTATTTTCTATC-AATTACAATTTTATAT
*
2074524 TCTATTTTACTTTCAATTA-AATTTTAT-T
1 TCTATTTT-CTATCAATTACAATTTTATAT
2074552 TACTATTTTCTCATCAATT
1 T-CTATTTTCT-ATCAATT
2074571 TAAACCCCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.10
29 20 0.49
30 13 0.32
31 4 0.10
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (29 bp):
TCTATTTTCTATCAATTACAATTTTATAT
Found at i:2074739 original size:32 final size:32
Alignment explanation
Indices: 2074703--2074765 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2074693 ATCATTCGAC
2074703 CATGCTTCCTATCTATTGATATTAATTTAGTA
1 CATGCTTCCTATCTATTGATATTAATTTAGTA
2074735 CATGCTTCCTATCTATTGATATTAATTTAGT
1 CATGCTTCCTATCTATTGATATTAATTTAGT
2074766 GCAGTTGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.48
Consensus pattern (32 bp):
CATGCTTCCTATCTATTGATATTAATTTAGTA
Found at i:2077540 original size:23 final size:21
Alignment explanation
Indices: 2077514--2077558 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
2077504 GTTATAAATT
*
2077514 ATATTATATATATAAATAACATA
1 ATATGATATAT-TAAA-AACATA
2077537 ATATGATATATTAAAAACATA
1 ATATGATATATTAAAAACATA
2077558 A
1 A
2077559 AAAATGAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 10 0.48
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATGATATATTAAAAACATA
Found at i:2081512 original size:15 final size:15
Alignment explanation
Indices: 2081492--2081544 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
2081482 CTAGCAAAAG
2081492 AACCCAATACCCACA
1 AACCCAATACCCACA
2081507 AACCCAATACCCACA
1 AACCCAATACCCACA
2081522 AACCCAATACCCACA
1 AACCCAATACCCACA
2081537 AACCCAAT
1 AACCCAAT
2081545 TACCATGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCAATACCCACA
Found at i:2081526 original size:8 final size:8
Alignment explanation
Indices: 2081500--2081542 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
2081490 AGAACCCAAT
2081500 ACCCACAA
1 ACCCACAA
*
2081508 ACCCA-AT
1 ACCCACAA
2081515 ACCCACAA
1 ACCCACAA
*
2081523 ACCCA-AT
1 ACCCACAA
2081530 ACCCACAA
1 ACCCACAA
2081538 ACCCA
1 ACCCA
2081543 ATTACCATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.05
Consensus pattern (8 bp):
ACCCACAA
Found at i:2082562 original size:3 final size:3
Alignment explanation
Indices: 2082554--2082579 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2082544 TTAGTCCTAC
2082554 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
2082580 CCTATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2094038 original size:29 final size:29
Alignment explanation
Indices: 2094005--2094063 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2093995 AGACTCTGTC
2094005 AAGAAATACTTCACTTGAAAGAAAGCGGA
1 AAGAAATACTTCACTTGAAAGAAAGCGGA
2094034 AAGAAATACTTCACTTGAAAGAAAGCGGA
1 AAGAAATACTTCACTTGAAAGAAAGCGGA
2094063 A
1 A
2094064 CTAAAGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (29 bp):
AAGAAATACTTCACTTGAAAGAAAGCGGA
Found at i:2095464 original size:44 final size:46
Alignment explanation
Indices: 2095350--2095464 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
2095340 ATACAGGTCT
* * *
2095350 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
2095396 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
2095440 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
2095465 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:2095619 original size:44 final size:43
Alignment explanation
Indices: 2095347--2095878 Score: 205
Period size: 44 Copynumber: 12.3 Consensus size: 43
2095337 ATTATACAGG
* * * *
2095347 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA----AGA
* * * *
2095393 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-TAGTAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAG--A
* * * * * *
2095437 TCCTATCTCCTTGAGATTACAATGGAGCGGAT--TA-A-AAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * ** * * * * *
2095476 TCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCA-TC-AGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * * *
2095517 TCTTATCTCTCTGAGGATTACAGTAGAGTAGACCGGAGA-ATTTCAGA
1 TCTTATCTCCCTGAGG-TTACAGTGGAGCAGATCGAAGACA----AGA
* *
2095564 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA-AGA
* * **
2095608 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * * * *
2095651 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CAA-GA
* ** * * *
2095695 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA-TCAAG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * *
2095736 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGA-AACCAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAA--GA
* * * * * * * *
2095780 TCCTATCTCTCTGAAGTTGCAGTAGAGCGGAT-TAAAATCACAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CA-AGA
* * * * * *
2095824 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA-TCAAG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
*
2095865 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
2095879 AGTACAATGG
Statistics
Matches: 373, Mismatches: 89, Indels: 53
0.72 0.17 0.10
Matches are distributed among these distances:
39 22 0.06
41 63 0.17
42 27 0.07
43 36 0.10
44 152 0.41
45 3 0.01
46 52 0.14
47 18 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
Found at i:2095670 original size:87 final size:86
Alignment explanation
Indices: 2095567--2095773 Score: 231
Period size: 87 Copynumber: 2.4 Consensus size: 86
2095557 TTTCAGATCT
* * *
2095567 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
*
2095631 GGAGCAGATCGAAGACACTA-TCC
66 AGAGCAGATCGAA-ACA--AGTCC
* * * * *
2095654 TATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
* * * *
2095718 AGAGTAGATCGCATCAAGTCT
66 AGAGCAGATCGAAACAAGTCC
* *
2095739 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
2095774 AACCAATCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
84 1 0.01
85 29 0.29
86 9 0.09
87 61 0.61
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (86 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
AGAGCAGATCGAAACAAGTCC
Found at i:2095813 original size:129 final size:128
Alignment explanation
Indices: 2095561--2095881 Score: 403
Period size: 129 Copynumber: 2.5 Consensus size: 128
2095551 GGAGAATTTC
* * * * *
2095561 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGAT
1 AGATCTTATCTCTCTGAGGTTACAGTAGAGCAGATCGCA-TCA-AG-TCTTATCTCCCTGAAG-T
* * * *
2095625 TACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT-
62 TACAGCGGAGCAGATAGAAGAAACAATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATC
2095689 AA
127 AA
* * *
2095691 AGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGTTGC
1 A-GATCTTATCTCTCTGAGGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTAC
* * * *
2095756 AGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAATCAC
65 AGCGGAGCAGATAGAAGAAA-CAATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATCAA
* * *
2095821 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATTTCCCTGAAGT
1 AGATCTTATCTCTCTGAGGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGT
2095882 ACAATGGATT
Statistics
Matches: 166, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
128 33 0.20
129 96 0.58
130 5 0.03
131 32 0.19
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (128 bp):
AGATCTTATCTCTCTGAGGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTACA
GCGGAGCAGATAGAAGAAACAATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATCAA
Found at i:2096095 original size:15 final size:15
Alignment explanation
Indices: 2096075--2096127 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
2096065 CTAGCAAAAG
2096075 AACCCAATACCCACA
1 AACCCAATACCCACA
2096090 AACCCAATACCCACA
1 AACCCAATACCCACA
2096105 AACCCAATACCCACA
1 AACCCAATACCCACA
2096120 AACCCAAT
1 AACCCAAT
2096128 TACCATGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCAATACCCACA
Found at i:2096109 original size:8 final size:8
Alignment explanation
Indices: 2096083--2096125 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
2096073 AGAACCCAAT
2096083 ACCCACAA
1 ACCCACAA
*
2096091 ACCCA-AT
1 ACCCACAA
2096098 ACCCACAA
1 ACCCACAA
*
2096106 ACCCA-AT
1 ACCCACAA
2096113 ACCCACAA
1 ACCCACAA
2096121 ACCCA
1 ACCCA
2096126 ATTACCATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.05
Consensus pattern (8 bp):
ACCCACAA
Found at i:2097143 original size:3 final size:3
Alignment explanation
Indices: 2097135--2097163 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2097125 TTAGTCCTAC
2097135 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2097164 CCTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2103042 original size:24 final size:23
Alignment explanation
Indices: 2103001--2103046 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2102991 TTTATAATAA
* *
2103001 AATTATTTTTTATCATTAATTAT
1 AATTATTTTTCATAATTAATTAT
2103024 AATTATTTTTCATAAATTAATTA
1 AATTATTTTTCAT-AATTAATTA
2103047 ATTTATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTATTTTTCATAATTAATTAT
Found at i:2107837 original size:41 final size:39
Alignment explanation
Indices: 2107792--2108005 Score: 266
Period size: 41 Copynumber: 5.2 Consensus size: 39
2107782 TTTACATAAT
* * *
2107792 CGCCGCTAATGCTGCGGTCTTTTGCGGCGTTTTCTAATATG
1 CGCCGCTAATGCT-CGGTCTTTAGCGGCGTTTTTTAA-AAG
2107833 CGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTACAAAG
1 CGCCGCTAATGCTC-GGTCTTTAGCGGCGTTTTTTA-AAAG
*
2107874 CGCCGCTAAGGCTACGGTCTTTAGCGGCGTTTTTTACAAAG
1 CGCCGCTAATGCT-CGGTCTTTAGCGGCGTTTTTTA-AAAG
*
2107915 CGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAG
1 CGCCGCTAATGCT-CGGTCTTTAGCGGCGTTTTTTA-AAAG
* * *
2107956 CGCCGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAG
1 CGCCGCTAATGCTC-GGTCTTTAGCGGCGTTT-TTTAAAAG
2107997 CGCCGCTAA
1 CGCCGCTAA
2108006 AAACCGCAGC
Statistics
Matches: 158, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
40 2 0.01
41 152 0.96
42 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (39 bp):
CGCCGCTAATGCTCGGTCTTTAGCGGCGTTTTTTAAAAG
Found at i:2107918 original size:82 final size:80
Alignment explanation
Indices: 2107771--2108005 Score: 303
Period size: 82 Copynumber: 2.9 Consensus size: 80
2107761 TTTGGGGCAC
* * * *
2107771 TTAGCGGCG-CTTTTACATAATCGCCGCTAATGCTGCGGTCTTTTGCGGCGTTTTCTAATATGCG
1 TTAGCGGCGTTTTTTACA-AAGCGCCGCTAATGCT-CGGTCTTTAGCGGCGTTTTCTAA-AAGCG
2107835 CCGCTAATGCT-CAGGTCT
63 CCGCTAATGCTAC-GGTCT
* *
2107853 TTAGCGGCGTTTTTTACAAAGCGCCGCTAAGGCTACGGTCTTTAGCGGCGTTTTTTACAAAGCGC
1 TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCT-CGGTCTTTAGCGGCGTTTTCTA-AAAGCGC
2107918 CGCTAATGCTACGGTCT
64 CGCTAATGCTACGGTCT
* * *
2107935 TTAGCGGCGTTTTTTACGAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGC
1 TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTC-GGTCTTTAGCGGCGTTTTCT-AAAAGCGC
2108000 CGCTAA
64 CGCTAA
2108006 AAACCGCAGC
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
81 1 0.01
82 125 0.92
83 10 0.07
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (80 bp):
TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTCGGTCTTTAGCGGCGTTTTCTAAAAGCGCCG
CTAATGCTACGGTCT
Found at i:2107997 original size:123 final size:123
Alignment explanation
Indices: 2107771--2108005 Score: 346
Period size: 123 Copynumber: 1.9 Consensus size: 123
2107761 TTTGGGGCAC
* * * * *
2107771 TTAGCGGCGCTTTTACATAATCGCCGCTAATGCTGCGGTCTTTTGCGGCGTTTTCTAATATGCGC
1 TTAGCGGCGCTTTTACATAAGCGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCGC
* ** *
2107836 CGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAGGCTACGGTCT
66 CGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAAGGCTACGGTCT
* * *
2107894 TTAGCGGCGTTTTTTACA-AAGCGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAGCG
1 TTAGCGGCG-CTTTTACATAAGCGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCG
2107958 CCGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAA
65 CCGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAA
2108006 AAACCGCAGC
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
123 92 0.93
124 7 0.07
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (123 bp):
TTAGCGGCGCTTTTACATAAGCGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCGC
CGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAAGGCTACGGTCT
Found at i:2108046 original size:123 final size:123
Alignment explanation
Indices: 2107771--2108046 Score: 304
Period size: 123 Copynumber: 2.2 Consensus size: 123
2107761 TTTGGGGCAC
* * * * * *
2107771 TTAGCGGCGC-TTTTACATAATCGCCGCTAATGCTGCGGTCTTTTGCGGCGTTTTCTAATATGCG
1 TTAGCGGCGCATATTACA-AAACGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCG
* ** * ** * * *
2107835 CCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAGGCTACGGTCT
65 CCGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAAAACCACAGTCA
** * * * *
2107894 TTAGCGGCGTTTTTTACAAAGCGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTTTACGAAGCGC
1 TTAGCGGCGCATATTACAAAACGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCGC
*
2107959 CGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAAAAACCGCAG-CA
66 CGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCT-AAAACCACAGTCA
* *
2108017 TTAGCGGCGCATATTAGAAAACGCTGCTAA
1 TTAGCGGCGCATATTACAAAACGCCGCTAA
2108047 AGACCGGAGC
Statistics
Matches: 127, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
123 115 0.91
124 12 0.09
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (123 bp):
TTAGCGGCGCATATTACAAAACGCCGCTAATGCTACGGTCTTTAGCGGCGTTTTCTAAGAAGCGC
CGCTAATGCTCAGGTCTTTAGCGGCATTTCCTAAAAAGCGCCGCTAAAACCACAGTCA
Found at i:2111019 original size:87 final size:87
Alignment explanation
Indices: 2110928--2111089 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 87
2110918 GGCAACATCG
* *
2110928 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGTAGATGCGGCA
1 AGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAACTTAAAGCAGATGCGACA
2110991 GCGAGAGAAGCAAAGGCAGCAACA
64 GCGAGAGAAGCAAAGGCAGCAACA
* *
2111015 AGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCGACAGC
1 AGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAGCAGATGCGACAGC
2111080 GAGAGAAGCA
66 GAGAGAAGCA
2111090 GAGGTTGCAG
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
86 1 0.01
87 64 0.93
88 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.28, T:0.12
Consensus pattern (87 bp):
AGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTTAAAGCAGATGCGACAGC
GAGAGAAGCAAAGGCAGCAACA
Found at i:2111100 original size:21 final size:20
Alignment explanation
Indices: 2111076--2111133 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
2111066 GCAGATGCGA
*
2111076 CAGCGAGAGAAGCAGAGGTTG
1 CAGCGAG-GAAGCAGAGGCTG
*
2111097 CAGCGAGGGAAGTAGAGGCTG
1 CAGCGA-GGAAGCAGAGGCTG
2111118 CAGCGAGGAAAGCAGA
1 CAGCGAGG-AAGCAGA
2111134 ACAACTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.07
Consensus pattern (20 bp):
CAGCGAGGAAGCAGAGGCTG
Found at i:2111525 original size:43 final size:42
Alignment explanation
Indices: 2111453--2111660 Score: 208
Period size: 43 Copynumber: 4.8 Consensus size: 42
2111443 ATTTTTCTAA
* *
2111453 AAGCGCCGCTAAAAACCATGAGCTT-TAGCGGCGTTTGT-GGT
1 AAGCGCCGCTAAAGACCATG-GTTTATAGCGGCGTTTGTGGGT
* *
2111494 GAAGGCGCCGCTAAAGACCATGGTTTATAGCGGCGTTTTTCACGGT
1 -AA-GCGCCGCTAAAGACCATGGTTTATAGCGGCGTTTGT--GGGT
* ** * *
2111540 AAGCGCTGCTAAAGGTCATTGTCTT-TCA-CGGCGTTTATTGGGT
1 AAGCGCCGCTAAAGACCATGGT-TTAT-AGCGGCGTTT-GTGGGT
*
2111583 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGT
1 AAGCGCCGCTAAAGACCATGGTTTATAGCGGCGTTTG-TGGGT
*
2111626 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTT
1 AAGCGCCGCTAAAGACCATGGTTTATAGCGGCGTT
2111661 GTAAAGAAAA
Statistics
Matches: 141, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
42 7 0.05
43 99 0.70
44 25 0.18
45 7 0.05
46 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (42 bp):
AAGCGCCGCTAAAGACCATGGTTTATAGCGGCGTTTGTGGGT
Found at i:2115698 original size:14 final size:17
Alignment explanation
Indices: 2115667--2115703 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2115657 ATTATAAAGG
2115667 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
2115684 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
2115698 ATATTA
1 ATATTA
2115704 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:2115879 original size:14 final size:14
Alignment explanation
Indices: 2115853--2115903 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2115843 GAAAACAAAA
2115853 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
2115867 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
2115881 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
2115896 G-AATAAAA
1 GAAATAAAA
2115904 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:2115914 original size:17 final size:16
Alignment explanation
Indices: 2115892--2115925 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2115882 AAGTTAAAAT
2115892 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
2115909 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
2115925 A
1 A
2115926 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:2117079 original size:37 final size:39
Alignment explanation
Indices: 2117020--2117115 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
2117010 CGGATAGATT
* * * *
2117020 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
2117057 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
2117096 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
2117116 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:2119835 original size:39 final size:40
Alignment explanation
Indices: 2119792--2119880 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
2119782 TAAAAATTAT
* * *
2119792 TTATATTAAAAAATTAC-CATAAATAT-AATAAATATTTTA
1 TTATATTAAAAAA-CACAAATAAATATAAAAAAATATTTTA
*
2119831 TTATATTACAAAACACAAATAAATATAAAAAAATATTTTA
1 TTATATTAAAAAACACAAATAAATATAAAAAAATATTTTA
*
2119871 TTGTATTAAA
1 TTATATTAAA
2119881 TATAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 20 0.48
40 20 0.48
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (40 bp):
TTATATTAAAAAACACAAATAAATATAAAAAAATATTTTA
Found at i:2120183 original size:19 final size:16
Alignment explanation
Indices: 2120143--2120187 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
2120133 TTTATCCAAA
2120143 CCTATTTTTCAAACCT
1 CCTATTTTTCAAACCT
*
2120159 CATATTTTATCTAAACCCT
1 CCTATTTT-TC-AAA-CCT
2120178 CCTATTTTTC
1 CCTATTTTTC
2120188 CGACAGGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 5 0.21
19 10 0.42
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (16 bp):
CCTATTTTTCAAACCT
Found at i:2120652 original size:35 final size:35
Alignment explanation
Indices: 2120605--2120672 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
2120595 TCAACAACAA
*
2120605 TGCTAATCGAGATTAATAAACCATTGAATGTAATC
1 TGCTAATCGAGATCAATAAACCATTGAATGTAATC
2120640 TGCTAAAT-GAGATCAATAAACCATTGAATGTAA
1 TGCT-AATCGAGATCAATAAACCATTGAATGTAA
2120673 ACTATGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (35 bp):
TGCTAATCGAGATCAATAAACCATTGAATGTAATC
Found at i:2120953 original size:132 final size:132
Alignment explanation
Indices: 2120760--2121024 Score: 521
Period size: 132 Copynumber: 2.0 Consensus size: 132
2120750 AAATCTTTAA
2120760 AGTGTCGTTCGCAGGGCAGTTGATTGACCCCTCAATAATAAAAAGCATTGTCCCCATGGGATTTT
1 AGTGTCGTTCGCAGGGCAGTTGATTGACCCCTCAATAATAAAAAGCATTGTCCCCATGGGATTTT
2120825 GTCCCCAACCTTTGCGGAGAGTCGTGTATCTTAATTAGTGGTATCTACAAGACTTAAGAGAGGTG
66 GTCCCCAACCTTTGCGGAGAGTCGTGTATCTTAATTAGTGGTATCTACAAGACTTAAGAGAGGTG
2120890 TT
131 TT
2120892 AGTGTCGTTCGCAGGGCAGTTGATTGACCCCTCAATAATAAAAAGCATTGTCCCCATGGGATTTT
1 AGTGTCGTTCGCAGGGCAGTTGATTGACCCCTCAATAATAAAAAGCATTGTCCCCATGGGATTTT
*
2120957 GTCCCCAACCTTTGCGGAGAGTCGTGTATCTTGATTAGTGGTATCTACAAGACTTAAGAGAGGTG
66 GTCCCCAACCTTTGCGGAGAGTCGTGTATCTTAATTAGTGGTATCTACAAGACTTAAGAGAGGTG
2121022 TT
131 TT
2121024 A
1 A
2121025 ATATTGTGCA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (132 bp):
AGTGTCGTTCGCAGGGCAGTTGATTGACCCCTCAATAATAAAAAGCATTGTCCCCATGGGATTTT
GTCCCCAACCTTTGCGGAGAGTCGTGTATCTTAATTAGTGGTATCTACAAGACTTAAGAGAGGTG
TT
Found at i:2124868 original size:21 final size:21
Alignment explanation
Indices: 2124842--2124884 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2124832 CTCAAAGTTA
*
2124842 AACAGAAGTTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
2124863 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
2124884 A
1 A
2124885 TTCACCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:2126999 original size:20 final size:20
Alignment explanation
Indices: 2126970--2127016 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
2126960 ATATACTTGG
2126970 ATTAATTTATATTTTAGC-TTA
1 ATTAA-TTATATTTTA-CTTTA
*
2126991 ATTAATTATGTTTTACTTTA
1 ATTAATTATATTTTACTTTA
2127011 ATTAAT
1 ATTAAT
2127017 CAAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTAATTATATTTTACTTTA
Found at i:2132548 original size:21 final size:20
Alignment explanation
Indices: 2132524--2132566 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2132514 TGTCTAAAGC
2132524 TTCCATTCCAATTCTA-TTTTT
1 TTCC-TTCCAA-TCTACTTTTT
*
2132545 TTCCTTTCAATCTACTTTTT
1 TTCCTTCCAATCTACTTTTT
2132565 TT
1 TT
2132567 GAGGGTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCCTTCCAATCTACTTTTT
Found at i:2139046 original size:18 final size:16
Alignment explanation
Indices: 2139017--2139050 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
2139007 ACTATATTGC
2139017 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
2139033 AAAAGAAAAGAAAAAGAA
1 AAAA-AAAA-AAAAAGAA
2139051 GCCTAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAA
Found at i:2141342 original size:11 final size:11
Alignment explanation
Indices: 2141326--2141354 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2141316 GCATTTTTGC
2141326 ATTTTTAATTT
1 ATTTTTAATTT
2141337 ATTTTTAATTT
1 ATTTTTAATTT
2141348 ATTTTTA
1 ATTTTTA
2141355 TTTTGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:2145575 original size:31 final size:29
Alignment explanation
Indices: 2145523--2145582 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 29
2145513 GGACAAATCT
2145523 AATATTAATTAATCTTTAATTATTTTACA
1 AATATTAATTAATCTTTAATTATTTTACA
*
2145552 AATATTTAATTAATTTTTTAATTATTTTACA
1 AATA-TTAATTAA-TCTTTAATTATTTTACA
2145583 TTGTTGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 4 0.14
30 8 0.29
31 16 0.57
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (29 bp):
AATATTAATTAATCTTTAATTATTTTACA
Found at i:2156915 original size:71 final size:71
Alignment explanation
Indices: 2156827--2156978 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 71
2156817 AAAGTACAGA
*
2156827 GATTATATCTCAAATTCGAGAGACATACAAGGACCAATAACACATTTTAACCAAAACAAAAAAG-
1 GATTATATCCCAAATTCGAGAGACATACAAGGACCAATAACACATTTTAACCAAAA-AAAAAAGT
2156891 ATATAGG
65 ATATAGG
* * * *
2156898 GATTATATCCCAAATTCGAGAGACTTACAAGGACTAATAACACATTTTAACCAAAATAAAAAGTC
1 GATTATATCCCAAATTCGAGAGACATACAAGGACCAATAACACATTTTAACCAAAAAAAAAAGTA
2156963 TATAGG
66 TATAGG
2156969 GATTATATCC
1 GATTATATCC
2156979 TGTATTCAGG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 6 0.08
71 69 0.92
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (71 bp):
GATTATATCCCAAATTCGAGAGACATACAAGGACCAATAACACATTTTAACCAAAAAAAAAAGTA
TATAGG
Found at i:2157346 original size:3 final size:3
Alignment explanation
Indices: 2157338--2157363 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2157328 ACCAAGTCAG
2157338 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2157364 CAAAAATGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2157500 original size:29 final size:31
Alignment explanation
Indices: 2157439--2157508 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 31
2157429 TTGAAATCTG
* *
2157439 AAAAGTATATAAAATTAAATTTCTAAAAATA
1 AAAAATATATAAAATTAAATTTCCAAAAATA
* *
2157470 AAAAATATA-AAAATTAAA-TTCC-AAATTT
1 AAAAATATATAAAATTAAATTTCCAAAAATA
2157498 AAAAATATATA
1 AAAAATATATA
2157509 CATTGAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 13 0.38
29 4 0.12
30 9 0.26
31 8 0.24
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
AAAAATATATAAAATTAAATTTCCAAAAATA
Found at i:2157508 original size:30 final size:31
Alignment explanation
Indices: 2157439--2157508 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
2157429 TTGAAATCTG
* *
2157439 AAAAGTATAT-AAAATTAAATTTCTAAAAAT
1 AAAAATATATAAAAATTAAATTTCCAAAAAT
**
2157469 AAAAA-ATATAAAAATTAAA-TTCCAAATTT
1 AAAAATATATAAAAATTAAATTTCCAAAAAT
2157498 AAAAATATATA
1 AAAAATATATA
2157509 CATTGAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
AAAAATATATAAAAATTAAATTTCCAAAAAT
Found at i:2160481 original size:29 final size:30
Alignment explanation
Indices: 2160448--2160512 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
2160438 AATTATTAAA
* *
2160448 GATAAAATTGTACTTTACTCC-CTAAAAAT
1 GATAAAATTGTAATTTAATCCTCTAAAAAT
* *
2160477 GATAAAATTTTAATTTAATCCTTTAAAAAT
1 GATAAAATTGTAATTTAATCCTCTAAAAAT
*
2160507 TATAAA
1 GATAAA
2160513 TCAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (30 bp):
GATAAAATTGTAATTTAATCCTCTAAAAAT
Found at i:2162799 original size:22 final size:22
Alignment explanation
Indices: 2162771--2162814 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2162761 ACGTAATACT
2162771 TTGTATAAATGTTGGGGTGGGC
1 TTGTATAAATGTTGGGGTGGGC
2162793 TTGTATAAATGTTGGGGTGGGC
1 TTGTATAAATGTTGGGGTGGGC
2162815 GGACACTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.36
Consensus pattern (22 bp):
TTGTATAAATGTTGGGGTGGGC
Found at i:2163523 original size:8 final size:8
Alignment explanation
Indices: 2163505--2163547 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
2163495 TTTAATTTTT
2163505 TAAAATTTA
1 TAAAA-TTA
*
2163514 TAAAAATA
1 TAAAATTA
2163522 T-AAATTA
1 TAAAATTA
2163529 TTAAAATTA
1 -TAAAATTA
2163538 TAAAATTA
1 TAAAATTA
2163546 TA
1 TA
2163548 TTTTAACCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 5 0.17
8 14 0.47
9 11 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAAATTA
Found at i:2167694 original size:8 final size:8
Alignment explanation
Indices: 2167681--2167709 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2167671 AAGCATCGGA
2167681 AATAACTC
1 AATAACTC
2167689 AATAACTC
1 AATAACTC
2167697 AATAACTC
1 AATAACTC
2167705 AATAA
1 AATAA
2167710 GCTTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAACTC
Found at i:2168574 original size:24 final size:24
Alignment explanation
Indices: 2168528--2168575 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2168518 TGTTTACTTC
* **
2168528 CGGTGAGGTTAAAAATGGCGGTGG
1 CGGTGAGATTAAAAATAACGGTGG
*
2168552 CGGTGAGATTAAAAATAATGGTGG
1 CGGTGAGATTAAAAATAACGGTGG
2168576 AATGTGTGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.40, T:0.23
Consensus pattern (24 bp):
CGGTGAGATTAAAAATAACGGTGG
Found at i:2175784 original size:17 final size:17
Alignment explanation
Indices: 2175762--2175803 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2175752 GTCGGGTCAT
*
2175762 TCAGTCTGGCCTGAAGA
1 TCAGTCCGGCCTGAAGA
2175779 TCAGTCCGGCCTGAAGA
1 TCAGTCCGGCCTGAAGA
2175796 TCAGTCCG
1 TCAGTCCG
2175804 AAATGTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (17 bp):
TCAGTCCGGCCTGAAGA
Found at i:2176644 original size:35 final size:35
Alignment explanation
Indices: 2176600--2176757 Score: 153
Period size: 35 Copynumber: 4.6 Consensus size: 35
2176590 TTCACTTGTC
* *
2176600 TTTTCTTGCAGGGAATATTTCATGTTCACACATTA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTA
* *
2176635 TTTTGTTGCAGGG-A-GTCTCCTGTTCACACATTA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTA
* * * * *
2176668 -TTTCTTGCTGGGAATCTTTTCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTA
* * * *
2176702 TTTTGTTGCAAGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTA
* *
2176737 -TTTATTGCAGGGAATCTCTCC
1 TTTTCTTGCAGGGAATATCTCC
2176758 AGATATTATT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
32 10 0.10
33 17 0.17
34 35 0.35
35 39 0.39
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACACATTA
Found at i:2176701 original size:67 final size:70
Alignment explanation
Indices: 2176601--2176753 Score: 215
Period size: 67 Copynumber: 2.2 Consensus size: 70
2176591 TCACTTGTCT
* * *
2176601 TTTCTTGCAGGGAAT-ATTTCATGTTCACACATTATTTTGTTGC-AGGGA-GTCTCCTGTTCACA
1 TTTCTTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGCAAGGAATCTCTCCTGTTCACA
*
2176663 CATTA
66 CATCA
* *
2176668 TTTCTTGCTGGGAATCTTTTC-TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACA
1 TTTCTTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGCAAGGAATCTCTCCTGTTCACA
2176732 CATCA
66 CATCA
*
2176737 TTTATTGCAGGGAATCT
1 TTTCTTGCAGGGAATCT
2176754 CTCCAGATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
67 35 0.47
68 8 0.11
69 32 0.43
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (70 bp):
TTTCTTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGCAAGGAATCTCTCCTGTTCACA
CATCA
Found at i:2176751 original size:69 final size:68
Alignment explanation
Indices: 2176605--2176753 Score: 203
Period size: 69 Copynumber: 2.2 Consensus size: 68
2176595 TTGTCTTTTC
* * * *
2176605 TTGCAGGGAAT-ATTTCATGTTCACACATTATTTTGTTGCAGGGAGTCTCCTGTTCACACATTAT
1 TTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGCAGGAACTCTCCTGTTCACACATCAT
*
2176669 TTC
66 TTA
* *
2176672 TTGCTGGGAATCTTTTC-TGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACACATC
1 TTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGC-AGGAA-CTCTCCTGTTCACACATC
2176736 ATTTA
64 ATTTA
2176741 TTGCAGGGAATCT
1 TTGCAGGGAATCT
2176754 CTCCAGATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
67 31 0.44
68 8 0.11
69 32 0.45
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (68 bp):
TTGCAGGGAATCTTTTCATGTTCACACATTATTTTGTTGCAGGAACTCTCCTGTTCACACATCAT
TTA
Found at i:2182301 original size:19 final size:19
Alignment explanation
Indices: 2182272--2182308 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2182262 TTTTTATTCA
2182272 AACCTTTCAAATGTTAAATC
1 AACCTTTCAAAT-TTAAATC
2182292 AACC-TTCAAATTTAAAT
1 AACCTTTCAAATTTAAAT
2182309 TTTGAGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (19 bp):
AACCTTTCAAATTTAAATC
Found at i:2185511 original size:14 final size:13
Alignment explanation
Indices: 2185484--2185517 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
2185474 ATTTTTTAAA
*
2185484 TAATTTTATTTAT
1 TAATTTTATATAT
2185497 TAATTTATATATAT
1 TAATTT-TATATAT
2185511 TAATTTT
1 TAATTTT
2185518 GATAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TAATTTTATATAT
Found at i:2185748 original size:13 final size:13
Alignment explanation
Indices: 2185715--2185756 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
2185705 TTCGATTAGT
2185715 TTAAAAT-TTTTA
1 TTAAAATATTTTA
*
2185727 GTAAAATATTTTA
1 TTAAAATATTTTA
*
2185740 TTAAGATA-TTTA
1 TTAAAATATTTTA
2185752 TTAAA
1 TTAAA
2185757 GAAATTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
TTAAAATATTTTA
Found at i:2188450 original size:3 final size:3
Alignment explanation
Indices: 2188442--2188467 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2188432 ACATGGAAGC
2188442 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
2188468 TAGGATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2190510 original size:3 final size:3
Alignment explanation
Indices: 2190504--2190536 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2190494 TCTTTTGTTG
2190504 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2190537 ACCTTAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2194086 original size:15 final size:16
Alignment explanation
Indices: 2194056--2194094 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
2194046 TGATAAAAAT
2194056 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
2194073 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
2194088 ATAATTT
1 ATAATTT
2194095 TTAAAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:2194138 original size:30 final size:32
Alignment explanation
Indices: 2194079--2194150 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
2194069 TTTAATAATT
* *
2194079 TATATTTTTA-TAATTTTTAAAAAGATTAAAT
1 TATAATTTTATTAATTTTTAAAAAGATTAAAG
* *
2194110 TA-AATTTTATTAATTTTT-GAAAGGTTAAAG
1 TATAATTTTATTAATTTTTAAAAAGATTAAAG
2194140 TATAATTTTAT
1 TATAATTTTAT
2194151 CATTATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (32 bp):
TATAATTTTATTAATTTTTAAAAAGATTAAAG
Found at i:2195297 original size:14 final size:14
Alignment explanation
Indices: 2195280--2195313 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2195270 CTTAATTTTT
2195280 AATTATATAGATGA
1 AATTATATAGATGA
2195294 AATTATATAGATGA
1 AATTATATAGATGA
*
2195308 AGTTAT
1 AATTAT
2195314 CAATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (14 bp):
AATTATATAGATGA
Found at i:2214613 original size:3 final size:3
Alignment explanation
Indices: 2214605--2214643 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
2214595 ATTAATCGAT
2214605 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT
2214644 TTTTTATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:2217194 original size:31 final size:30
Alignment explanation
Indices: 2217159--2217227 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
2217149 ACTACAAAAT
*
2217159 AGTCACTGAACTACTCGAAAGTTTTCATGTA
1 AGTCACTGAACTACTCGAAAATTTT-ATGTA
* * * * *
2217190 AGTCATTAAACTATTTGAAAATTTTATTTA
1 AGTCACTGAACTACTCGAAAATTTTATGTA
2217220 AGTCACTG
1 AGTCACTG
2217228 GACTGTTAAG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (30 bp):
AGTCACTGAACTACTCGAAAATTTTATGTA
Found at i:2220352 original size:30 final size:31
Alignment explanation
Indices: 2220293--2220352 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2220283 ACAACCTATT
*
2220293 GATTTAAATAAAAACTTTCGAAGAGTTCAAC
1 GATTTAAATAAAAACTTTCGAAGAATTCAAC
* * *
2220324 GATTTAAAT-GAAATTTTCGAATAATTCAA
1 GATTTAAATAAAAACTTTCGAAGAATTCAA
2220353 TGTTTAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (31 bp):
GATTTAAATAAAAACTTTCGAAGAATTCAAC
Found at i:2231948 original size:17 final size:18
Alignment explanation
Indices: 2231915--2231948 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2231905 AGTTTCCTTT
*
2231915 AATTAATCTAGAAAATTC
1 AATTAATCTAAAAAATTC
2231933 AATTAAT-TAAAAAATT
1 AATTAATCTAAAAAATT
2231949 ACTTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAATCTAAAAAATTC
Found at i:2238486 original size:25 final size:23
Alignment explanation
Indices: 2238446--2238493 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
2238436 TACCAAATAG
* *
2238446 TAATATATATATATAAAATAACA
1 TAATACATATATATAAAAAAACA
2238469 TAATACATATAATCATAAAAAAACA
1 TAATACATAT-AT-ATAAAAAAACA
2238494 AACCAGGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
TAATACATATATATAAAAAAACA
Found at i:2239684 original size:31 final size:31
Alignment explanation
Indices: 2239646--2239710 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
2239636 AACTCAAAAC
* *
2239646 TCACTAAACTATTCGAAAGTTTTCATTTAAG
1 TCACTAAACTATTCGAAAATTTTCATTGAAG
* *
2239677 TCACTAAATTATTCGAAAATTTTTATTGAAG
1 TCACTAAACTATTCGAAAATTTTCATTGAAG
2239708 TCA
1 TCA
2239711 TTAGGTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (31 bp):
TCACTAAACTATTCGAAAATTTTCATTGAAG
Found at i:2244074 original size:13 final size:12
Alignment explanation
Indices: 2244058--2244096 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
2244048 TAAATTTGAG
*
2244058 TTTTAATTTATAT
1 TTTTAATTT-TAA
2244071 TTTTAAATTTTAA
1 TTTT-AATTTTAA
2244084 TTTTAATTTTAA
1 TTTTAATTTTAA
2244096 T
1 T
2244097 ATATATTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 9 0.38
13 10 0.42
14 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:2244083 original size:20 final size:19
Alignment explanation
Indices: 2244058--2244095 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2244048 TAAATTTGAG
*
2244058 TTTTAATTTATATTTTTAAA
1 TTTTAATTT-TAATTTTAAA
2244078 TTTTAATTTTAATTTTAA
1 TTTTAATTTTAATTTTAA
2244096 TATATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAATTTTAATTTTAAA
Found at i:2244085 original size:6 final size:6
Alignment explanation
Indices: 2244058--2244096 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
2244048 TAAATTTGAG
*
2244058 TTTTAA TTTATAT TTTTAAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTT-TAA TTTT-AA TTTTAA TTTTAA TTTTAA T
2244097 ATATATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:2244465 original size:21 final size:22
Alignment explanation
Indices: 2244441--2244492 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 22
2244431 TTTAAAATAC
2244441 TTTAAAAATATTTTTTT-TATT
1 TTTAAAAATATTTTTTTGTATT
*
2244462 TTT-AAAATATTTTTTTGTGTT
1 TTTAAAAATATTTTTTTGTATT
2244483 TATTAAAAAT
1 T-TTAAAAAT
2244493 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 13 0.48
21 7 0.26
22 2 0.07
23 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTAAAAATATTTTTTTGTATT
Found at i:2258906 original size:35 final size:35
Alignment explanation
Indices: 2258850--2258926 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
2258840 ATATTTAACA
* *
2258850 TTCAAGGTTTGGGTTTTGGGTTCAGAATTCAAGGG
1 TTCAAGGTTCGGGTTTCGGGTTCAGAATTCAAGGG
* * *
2258885 TTCAAGGTTACGGG-TTCGGGTTTAGGATTTAAGGG
1 TTCAAGGTT-CGGGTTTCGGGTTCAGAATTCAAGGG
*
2258920 TTTAAGG
1 TTCAAGG
2258927 GTTCAAGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.21, C:0.08, G:0.35, T:0.36
Consensus pattern (35 bp):
TTCAAGGTTCGGGTTTCGGGTTCAGAATTCAAGGG
Found at i:2267501 original size:42 final size:42
Alignment explanation
Indices: 2267437--2267517 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
2267427 TGGTGCGGGA
* * *
2267437 GGTGGTGCAGGAGGACTGGCTCTAATTGGGGCAGGAGGTGGT
1 GGTGGTGCAGGAGAACTAGCTCTAATCGGGGCAGGAGGTGGT
*
2267479 GGTGGTGGAGGAGAACTAGCTCTAATCGGGGCAGGAGGT
1 GGTGGTGCAGGAGAACTAGCTCTAATCGGGGCAGGAGGT
2267518 TCTGGAGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.12, G:0.48, T:0.20
Consensus pattern (42 bp):
GGTGGTGCAGGAGAACTAGCTCTAATCGGGGCAGGAGGTGGT
Found at i:2272758 original size:104 final size:102
Alignment explanation
Indices: 2272503--2272812 Score: 457
Period size: 104 Copynumber: 3.0 Consensus size: 102
2272493 TTTTTTTTTT
* * ** *
2272503 AAAAAAAATT-TGGGTGCTGGCCTGTTAATGGCCGGCACCACCTTTTTAATTTTTTTTTTACTTT
1 AAAAAAAATTATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAA-ATTTTTTTTACTTT
*
2272567 TTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTA
65 TTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
* * *
2272605 AAAAAAAATTA---GCGGTGGCTTGGCAATGGCCGGCACCACCTTTTAAAATTTTTTTTACTTTT
1 AAAAAAAATTATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAATTTTTTTTACTTTT
* *
2272667 TTCGTGTCAGATAAGCTATTAGTATATGAAAAAAGTAA
66 TTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGT-A
2272705 AAAAAAAATTATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAATTTTTTTTACTTT
1 AAAAAAAATTA-TTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAATTTTTTTTACTTT
*
2272770 TTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTT
65 TTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
2272808 AAAAA
1 AAAAA
2272813 TTTTTTTAAA
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
99 47 0.25
100 42 0.23
102 10 0.05
103 5 0.03
104 82 0.44
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (102 bp):
AAAAAAAATTATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAATTTTTTTTACTTTT
TTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
Found at i:2272865 original size:104 final size:98
Alignment explanation
Indices: 2272529--2272877 Score: 353
Period size: 104 Copynumber: 3.4 Consensus size: 98
2272519 CTGGCCTGTT
*
2272529 AATGGCCGGCACCACCTTTTTAATTTTTTTTTTACTTTTTTCGTGTCAGATAAGATATCAGTATA
1 AATGGCCGGCACCACC--TTT--TTTTTTTTTTACTTTTTTCGTGTCAGATAAGCTATCAGTATA
** *
2272594 CGAAAAAAGTAAAAAAAAATT-AGCGGT-G-GCTTGGC
62 CGAAAAAAGTAAAAAAAAATTAAAAGGTGGTGC-CGGC
* * *
2272629 AATGGCCGGCACCACCTTTTAAAATTTTTTTTACTTTTTTCGTGTCAGATAAGCTATTAGTATAT
1 AATGGCCGGCACCACCTTTT---TTTTTTTTTACTTTTTTCGTGTCAGATAAGCTATCAGTATAC
***
2272694 GAAAAAAGTAAAAAAAAAATTATTTGGTGGTGGCCTGGC
63 GAAAAAAGT-AAAAAAAAATTAAAAGGTGGT-GCC-GGC
2272733 AATGGCCGGCACCACCTTTTTAAATTTTTTTTACTTTTTTCGTGTCAGATAAGCTATCAGTATAC
1 AATGGCCGGCACCACCTTTTT---TTTTTTTTACTTTTTTCGTGTCAGATAAGCTATCAGTATAC
****
2272798 GAAAAAAGTTAAAAATTTTTTTAAAAGGTGGTGCCGGC
63 GAAAAAAG-TAAAAA-AAAATTAAAAGGTGGTGCCGGC
* *
2272836 CATTGCCAGGCCACCACCAATTTTTTTTTTTTTACTTTTTTC
1 AATGGCC-GG-CACCACC--TTTTTTTTTTTTTACTTTTTTC
2272878 ATATACTGAT
Statistics
Matches: 211, Mismatches: 20, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
96 1 0.00
98 3 0.01
99 47 0.22
100 27 0.13
101 3 0.01
102 1 0.00
103 8 0.04
104 99 0.47
105 17 0.08
107 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (98 bp):
AATGGCCGGCACCACCTTTTTTTTTTTTTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAA
AAAAGTAAAAAAAAATTAAAAGGTGGTGCCGGC
Found at i:2273127 original size:23 final size:23
Alignment explanation
Indices: 2273093--2273156 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
2273083 CGGCCAGGCC
*
2273093 TATTTTTAATTAAAATTAAAATTA
1 TATTTTT-ATTAAAATTAAAACTA
2273117 TATTTTTATTAAAATTAAAACTA
1 TATTTTTATTAAAATTAAAACTA
*
2273140 -ATTGTTATTAAAATTAA
1 TATTTTTATTAAAATTAA
2273157 TTGTTATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.42
23 15 0.39
24 7 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTTTATTAAAATTAAAACTA
Found at i:2273169 original size:16 final size:16
Alignment explanation
Indices: 2273130--2273170 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
2273120 TTTTATTAAA
*
2273130 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
2273146 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
2273162 ATTAAAATT
1 ATTAAAATT
2273171 GTATCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:2273286 original size:44 final size:44
Alignment explanation
Indices: 2273236--2273339 Score: 208
Period size: 44 Copynumber: 2.4 Consensus size: 44
2273226 TTGTTAATTG
2273236 TATTAATTGTTACTAAAATTATCAAATTATATCAAATTATTAAT
1 TATTAATTGTTACTAAAATTATCAAATTATATCAAATTATTAAT
2273280 TATTAATTGTTACTAAAATTATCAAATTATATCAAATTATTAAT
1 TATTAATTGTTACTAAAATTATCAAATTATATCAAATTATTAAT
2273324 TATTAATTGTTACTAA
1 TATTAATTGTTACTAA
2273340 CATTTTGTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (44 bp):
TATTAATTGTTACTAAAATTATCAAATTATATCAAATTATTAAT
Found at i:2276436 original size:34 final size:34
Alignment explanation
Indices: 2276398--2276464 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
2276388 TTTAACGCCA
*
2276398 TCAAAATACAATAAAGCCCTCTACATTTTAAACT
1 TCAAAATACAATAAAGCCCTCGACATTTTAAACT
2276432 TCAAAATACAATAAAGCCCTCGACATTTTAAAC
1 TCAAAATACAATAAAGCCCTCGACATTTTAAAC
2276465 GTAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (34 bp):
TCAAAATACAATAAAGCCCTCGACATTTTAAACT
Found at i:2276472 original size:34 final size:34
Alignment explanation
Indices: 2276400--2276472 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
2276390 TAACGCCATC
* * *
2276400 AAAATACAATAAAGCCCTCTACATTTTAAACTTC
1 AAAATACAATAAAGCCCTCGACATTTTAAACGTA
2276434 AAAATACAATAAAGCCCTCGACATTTTAAACGTA
1 AAAATACAATAAAGCCCTCGACATTTTAAACGTA
2276468 AAAAT
1 AAAAT
2276473 TATTAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.26
Consensus pattern (34 bp):
AAAATACAATAAAGCCCTCGACATTTTAAACGTA
Found at i:2279380 original size:9 final size:9
Alignment explanation
Indices: 2279366--2279395 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2279356 CGAGACAGAT
2279366 AAATAAACA
1 AAATAAACA
2279375 AAATAAACA
1 AAATAAACA
*
2279384 AAATAAATA
1 AAATAAACA
2279393 AAA
1 AAA
2279396 AGGGTCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATAAACA
Found at i:2280732 original size:23 final size:24
Alignment explanation
Indices: 2280705--2280752 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
2280695 TTTCTTATAC
*
2280705 TATTTATTTTGAAA-TTTTTTATT
1 TATTTATTTTGAAACTGTTTTATT
2280728 TATTTATTTTGAAACTGTTTTATT
1 TATTTATTTTGAAACTGTTTTATT
2280752 T
1 T
2280753 TGTTTAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
TATTTATTTTGAAACTGTTTTATT
Found at i:2320201 original size:7 final size:7
Alignment explanation
Indices: 2320189--2320215 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2320179 GGTTCGGTAA
2320189 CGGTGTG
1 CGGTGTG
2320196 CGGTGTG
1 CGGTGTG
2320203 CGGTGTG
1 CGGTGTG
2320210 CGGTGT
1 CGGTGT
2320216 CAAAGTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.56, T:0.30
Consensus pattern (7 bp):
CGGTGTG
Found at i:2321363 original size:15 final size:15
Alignment explanation
Indices: 2321343--2321376 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2321333 AATTTGAATA
*
2321343 AAAAATATTAAAAAT
1 AAAAATAATAAAAAT
2321358 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
2321373 AAAA
1 AAAA
2321377 TAAATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:2323434 original size:228 final size:228
Alignment explanation
Indices: 2323081--2323752 Score: 997
Period size: 223 Copynumber: 3.0 Consensus size: 228
2323071 GTAGTGATAC
* *
2323081 AACACATGCACAAAGATGCTTCG-AATATTGATAACTAAGAAAGGCACATCCATGAGGACTCAA-
1 AACACATGCACAAAGATGCTTTGAAATATTGATAACTAAGAAAGGCACATGCATGAGGACTCAAC
*
2323144 ATGAGAC--TGGATGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTC
66 A--AGACTGTGGACGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTC
* *
2323207 ACTACCATGCCAATATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATAAAC
129 ACTACTATGCCAAAATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATAAAC
2323272 TCAATTGCGAACCATCGAGGATCTCCATATCATTA
194 TCAATTGCGAACCATCGAGGATCTCCATATCATTA
* * *
2323307 AACACATGCACAAAGATGCTTTGAAATAATGGA-AACTAAAAAAGGCACATGCATAAGGACTCAA
1 AACACATGCACAAAGATGCTTTGAAAT-ATTGATAACTAAGAAAGGCACATGCATGAGGACTCAA
* * * *
2323371 CAAGACTGTGGACGGCCAACACAAATGATATAAAGCAAGAAGAGACATATAAGATGCGAGCTTCA
65 CAAGACTGTGGACGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTCA
* *
2323436 CTACTATGCCAAAATGTAAACCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATGAACT
130 CTACTATGCCAAAATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATAAACT
*
2323501 CAATTGCGAACCATTGAGGA--T-C---TCATTA
195 CAATTGCGAACCATCGAGGATCTCCATATCATTA
* * *
2323529 AACGCATGCACAAAGATGCTTTGAAATATTGATAATTATGAAAGGCACATGCATGAGGACTCGAA
1 AACACATGCACAAAGATGCTTTGAAATATTGATAACTAAGAAAGGCACATGCATGAGGACTC-AA
2323594 CAAGACTGTGGACGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTCA
65 CAAGACTGTGGACGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTCA
* * * *
2323659 CTAGTATGCCAAAATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGACAATAATAAACA
130 CTACTATGCCAAAATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATAAACT
** * *
2323724 CAATCACAAACCTTCGAGGATCTCCATAT
195 CAATTGCGAACCATCGAGGATCTCCATAT
2323753 ACTAAAAGTG
Statistics
Matches: 397, Mismatches: 36, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
221 4 0.01
222 57 0.14
223 137 0.35
225 2 0.01
226 28 0.07
227 31 0.08
228 137 0.35
229 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (228 bp):
AACACATGCACAAAGATGCTTTGAAATATTGATAACTAAGAAAGGCACATGCATGAGGACTCAAC
AAGACTGTGGACGGCCAAAACAAATGATATAAAGCTAGAAGAGACATATAAGTTGTGAGCTTCAC
TACTATGCCAAAATGTAAATCAATCTAACTATTTAGGAGCTTAAGTTCTAGATAATGATAAACTC
AATTGCGAACCATCGAGGATCTCCATATCATTA
Found at i:2327070 original size:2 final size:2
Alignment explanation
Indices: 2327059--2327095 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2327049 TTATACAATT
2327059 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2327096 ACATGAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2327609 original size:20 final size:21
Alignment explanation
Indices: 2327567--2327609 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2327557 CTAATATAAG
**
2327567 TATTTTTCAAAATTAAATTTA
1 TATTTTTCAAAATTAAAGCTA
*
2327588 TATTTTT-ATAATTAAAGCTA
1 TATTTTTCAAAATTAAAGCTA
2327608 TA
1 TA
2327610 GATTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTTCAAAATTAAAGCTA
Found at i:2329728 original size:18 final size:18
Alignment explanation
Indices: 2329673--2329728 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
2329663 CAACCCCTTT
*
2329673 ATTTTTATAAATT-TGTA
1 ATTTTTATATATTATGTA
*
2329690 ATGTTT-TATATTATGCT-
1 ATTTTTATATATTATG-TA
2329707 ATTTTTATATATTATGTA
1 ATTTTTATATATTATGTA
2329725 ATTT
1 ATTT
2329729 ATAACACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 5 0.16
17 13 0.41
18 14 0.44
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (18 bp):
ATTTTTATATATTATGTA
Found at i:2329729 original size:16 final size:16
Alignment explanation
Indices: 2329676--2329731 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
2329666 CCCCTTTATT
*
2329676 TTTATAAATT-TGTAA
1 TTTATATATTATGTAA
* *
2329691 TGTTTTATATTATGCTATT
1 T-TTATATATTATG-TA-A
2329710 TTTATATATTATGTAA
1 TTTATATATTATGTAA
2329726 TTTATA
1 TTTATA
2329732 ACACATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 4 0.12
18 13 0.41
19 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (16 bp):
TTTATATATTATGTAA
Found at i:2346539 original size:21 final size:21
Alignment explanation
Indices: 2346506--2346545 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2346496 TTTTAAAAAT
2346506 AAAAGTTAGAAAAAAAAAGTA
1 AAAAGTTAGAAAAAAAAAGTA
*
2346527 AAAAGCTTA-AAAAGAAAAG
1 AAAAG-TTAGAAAAAAAAAG
2346546 AAATTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.03, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAAGTTAGAAAAAAAAAGTA
Found at i:2350374 original size:3 final size:3
Alignment explanation
Indices: 2350366--2350400 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2350356 GAACATTGAT
2350366 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
2350401 TACCTGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2364348 original size:24 final size:25
Alignment explanation
Indices: 2364304--2364354 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
2364294 TATTTTATTT
2364304 ATTTTTTAAGATTTAAAAAAAT-AA
1 ATTTTTTAAGATTTAAAAAAATGAA
* *
2364328 ATTTTTTATG-TTATAATAAAATGAA
1 ATTTTTTAAGATT-TAAAAAAATGAA
2364353 AT
1 AT
2364355 AAATCATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 2 0.09
24 17 0.74
25 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (25 bp):
ATTTTTTAAGATTTAAAAAAATGAA
Found at i:2364530 original size:76 final size:76
Alignment explanation
Indices: 2364404--2364557 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
2364394 GTAGAAAGAC
2364404 ACATTATTCTGTCAAAGAAAACTTGAATCTTAGAGACAATATTAATGAGAAGGACAACCATGTAT
1 ACATTATTCTGTCAAAGAAAACTTGAATCTTAGAGACAATATTAATGAGAAGGACAACCATGTAT
2364469 CTCAAATATGT
66 CTCAAATATGT
2364480 ACATTATTCTGTCAAAGAAAACTTGAATCTTAGAGACAATATTAATGAGAAGGACAACCATGTAT
1 ACATTATTCTGTCAAAGAAAACTTGAATCTTAGAGACAATATTAATGAGAAGGACAACCATGTAT
2364545 CTCAAATATGT
66 CTCAAATATGT
2364556 AC
1 AC
2364558 CATACAACCA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (76 bp):
ACATTATTCTGTCAAAGAAAACTTGAATCTTAGAGACAATATTAATGAGAAGGACAACCATGTAT
CTCAAATATGT
Found at i:2392621 original size:21 final size:21
Alignment explanation
Indices: 2392595--2392638 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2392585 GTCAGGCAGG
2392595 TAAACCATCCTCTGGTTCTGT
1 TAAACCATCCTCTGGTTCTGT
*
2392616 TAAACCATCCTCTGGTTTTGT
1 TAAACCATCCTCTGGTTCTGT
2392637 TA
1 TA
2392639 TCAGTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAACCATCCTCTGGTTCTGT
Found at i:2405085 original size:21 final size:21
Alignment explanation
Indices: 2405045--2405085 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2405035 ATCTGCTCAA
* *
2405045 ACTCCACCTGTTTTGAAGTAC
1 ACTCCACCTGCTGTGAAGTAC
*
2405066 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGAAGTA
2405086 TTGCTCGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGAAGTAC
Found at i:2408961 original size:16 final size:16
Alignment explanation
Indices: 2408928--2408961 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2408918 ATTAATTGTT
* *
2408928 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
2408944 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
2408960 AA
1 AA
2408962 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:2411733 original size:133 final size:133
Alignment explanation
Indices: 2411495--2412356 Score: 1196
Period size: 133 Copynumber: 6.5 Consensus size: 133
2411485 CTATGTCAAG
*
2411495 TTTAAGTCTTTTGTTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* *
2411560 GTTATAATTGTGCTTTGCTGTAATGTGTATCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
66 GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
2411625 AGT
131 AGT
2411628 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* *
2411693 GTTATAATTGTGCTTTGCTGTAATGTGTATCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
66 GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
2411758 AGT
131 AGT
*
2411761 TTTAAGTCTTTTGCTCCAATGGGTTCAAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* *
2411826 GTTATAATTGTGCTTTGCTGTAATGTGTATCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
66 GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
2411891 AGT
131 AGT
2411894 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* * * * * * * *
2411959 GTTATAATTATACTTTGCTGTAATATGTAGATTCAAGTCTACTAAAATTCTGAGCTTTTTTTGAA
66 GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
2412024 A-T
131 AGT
* * * * **
2412026 TTCATGTCCTTTGCTCCAATAGGTTCTAAGTTTTTCTTCC-TTTTTGTTGGTTAGTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* * * * *
2412090 GTTGTAATTATACTTTGCCGTAATGTGTAGATTCAAGTCTATTGAGTTTTTGAGCTTTTTGTTGA
66 GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGC-TTTTGTTGA
2412155 AAGT
130 AAGT
** * * ** **
2412159 TTTAAGTCTTTTGCTTTAATGGGTTCTAACTCTCACTTCCTTTTTTGTTGGTTGGTATGTTCTTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
* * * * * * * *
2412224 GTGTAATAATTGTAATCTCCTGAAATGGGTAGCTTC-TGTTCTTTTAAATTTTTGAGCTTTTGTT
66 GT-T-ATAATTGTACTTTGCTGTAATGTGTAGCTTCAAG-TCTATTGAATTTTTGAGCTTTTGTT
2412288 GAAA-T
128 GAAAGT
* * * * **
2412293 TTCATGTCTTTTGCTCCAATGGGTTCTAAGTTTTCCTT-ATCTTTTTG-TGGTTGGTATGTTCTT
1 TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCT-TTTTTGTTGGTTCCTATGTTCTT
2412356 T
65 T
2412357 ATAGGTTAGG
Statistics
Matches: 661, Mismatches: 61, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
131 69 0.10
132 47 0.07
133 433 0.66
134 62 0.09
135 13 0.02
136 37 0.06
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.52
Consensus pattern (133 bp):
TTTAAGTCTTTTGCTCCAATGGGTTCTAAGTTTTTCTTCCTTTTTTGTTGGTTCCTATGTTCTTT
GTTATAATTGTACTTTGCTGTAATGTGTAGCTTCAAGTCTATTGAATTTTTGAGCTTTTGTTGAA
AGT
Found at i:2414303 original size:4 final size:4
Alignment explanation
Indices: 2414289--2414324 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
2414279 TACATGATAA
*
2414289 TATG GATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
2414325 ATCTCACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:2420827 original size:21 final size:21
Alignment explanation
Indices: 2420801--2420841 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2420791 AGACGAGCAA
* *
2420801 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2420822 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2420842 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2423993 original size:24 final size:24
Alignment explanation
Indices: 2423966--2424015 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2423956 TACTATTTTG
2423966 ATTTAATAT-TTAATAATTTTATAT
1 ATTTAATATATTAA-AATTTTATAT
* *
2423990 ATTTTATTTATTAAAATTTTATAT
1 ATTTAATATATTAAAATTTTATAT
2424014 AT
1 AT
2424016 AATTATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTAATATATTAAAATTTTATAT
Found at i:2424113 original size:17 final size:17
Alignment explanation
Indices: 2424093--2424134 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2424083 TATGTGTTAT
*
2424093 AAATTATATAATATAAA
1 AAATTACATAATATAAA
*
2424110 AAATAACATAATATAAA
1 AAATTACATAATATAAA
*
2424127 ACATTACA
1 AAATTACA
2424135 AACTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTACATAATATAAA
Found at i:2432561 original size:19 final size:19
Alignment explanation
Indices: 2432517--2432576 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
2432507 AGCATTTATT
* *
2432517 ATTAATATATTTATAATTATC
1 ATTAA-ATATTTATTATTA-A
2432538 A-TAAATATTTATTATTAA
1 ATTAAATATTTATTATTAA
*
2432556 ATTAAA-ATTTAAATATTAA
1 ATTAAATATTT-ATTATTAA
2432575 AT
1 AT
2432577 AATTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 25 0.74
20 3 0.09
21 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAAATATTTATTATTAA
Found at i:2432614 original size:16 final size:16
Alignment explanation
Indices: 2432549--2432617 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
2432539 TAAATATTTA
*
2432549 TTATTAAATTAA-AAT
1 TTATTATATTAATAAT
*
2432564 TTA-AATATTAAATAAT
1 TTATTATATT-AATAAT
2432580 TTATT-TA--AATAAT
1 TTATTATATTAATAAT
**
2432593 AAATTATATTAATAAT
1 TTATTATATTAATAAT
2432609 TTATTATAT
1 TTATTATAT
2432618 GATTAGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.22
14 6 0.15
15 5 0.12
16 21 0.51
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTATATTAATAAT
Found at i:2437267 original size:28 final size:27
Alignment explanation
Indices: 2437218--2437282 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
2437208 TTTACTGTCA
* **
2437218 TTTTACTTTATATTGTTATTGTTATTGT
1 TTTTATTTTATATAATTATTGTT-TTGT
*
2437246 TTTTATTTTATATAATTGTTGTTTTGT
1 TTTTATTTTATATAATTATTGTTTTGT
*
2437273 TGTTAATTTT
1 T-TTTATTTT
2437283 GTTATTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (27 bp):
TTTTATTTTATATAATTATTGTTTTGT
Found at i:2442841 original size:36 final size:35
Alignment explanation
Indices: 2442801--2442873 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
2442791 GTTGCTTGTG
2442801 AAATAAA-AAA-TATTATAATATCAATGTATTAAATAA
1 AAATAAATAAATTATTA-AATATCAAT-TATTAAA-AA
* *
2442837 AAATAAATAAATTATTAATTATTAATTATTAAAAA
1 AAATAAATAAATTATTAAATATCAATTATTAAAAA
2442872 AA
1 AA
2442874 TATTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 4 0.12
36 14 0.42
37 10 0.30
38 5 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (35 bp):
AAATAAATAAATTATTAAATATCAATTATTAAAAA
Found at i:2448081 original size:20 final size:22
Alignment explanation
Indices: 2448036--2448089 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
2448026 ATAATTGAAT
*
2448036 ATTATTAATTTTTTATAATGTAA
1 ATTATTAATTTTATATAA-GTAA
2448059 ATTATTAATTTTATATAA-T-A
1 ATTATTAATTTTATATAAGTAA
*
2448079 ATTATAAATTT
1 ATTATTAATTT
2448090 AATTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
23 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTATTAATTTTATATAAGTAA
Found at i:2448097 original size:20 final size:20
Alignment explanation
Indices: 2448058--2448097 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2448048 TTATAATGTA
* *
2448058 AATTATTAATTTTATATAAT
1 AATTATAAATTTAATATAAT
*
2448078 AATTATAAATTTAATTTAAT
1 AATTATAAATTTAATATAAT
2448098 TTAACTCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTATAAATTTAATATAAT
Found at i:2449109 original size:30 final size:30
Alignment explanation
Indices: 2449063--2449141 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
2449053 GGACGAGGAG
*
2449063 GAGGGGGAGGAGGATGAAAATGATGATGAT
1 GAGGAGGAGGAGGATGAAAATGATGATGAT
*
2449093 GAGGAGGAGGATGATGAAAATGATGATGAT
1 GAGGAGGAGGAGGATGAAAATGATGATGAT
* *
2449123 GATGAGGAGGAGGACGAAA
1 GAGGAGGAGGAGGATGAAA
2449142 TGGAAGAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.39, C:0.01, G:0.44, T:0.15
Consensus pattern (30 bp):
GAGGAGGAGGAGGATGAAAATGATGATGAT
Found at i:2456991 original size:26 final size:25
Alignment explanation
Indices: 2456963--2457025 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
2456953 AAAAGTTACA
*
2456963 AAAATTGTAAAAAATAAAAAAATGT
1 AAAATTGTAAAAAATAAAAAAATAT
* * **
2456988 AAAATTTTATAAAAATTATTAAATAT
1 AAAATTGTA-AAAAATAAAAAAATAT
2457014 AAAATTGTAAAA
1 AAAATTGTAAAA
2457026 TTTTATAGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
AAAATTGTAAAAAATAAAAAAATAT
Found at i:2471243 original size:36 final size:37
Alignment explanation
Indices: 2471203--2471279 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
2471193 TTTAGAATAC
*
2471203 AAATGTGT-GTTTAAAAATAATATAA-AATAA-ATAATG
1 AAATGTATGGTTTAAAAATAAT-TAATAATAACAT-ATG
* *
2471239 AAATGTATGGTTTGAAACTAATTAATAATAACATATG
1 AAATGTATGGTTTAAAAATAATTAATAATAACATATG
2471276 AAAT
1 AAAT
2471280 ATGTACGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.34
Consensus pattern (37 bp):
AAATGTATGGTTTAAAAATAATTAATAATAACATATG
Done.