Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 76 of 93
Found at i:11095903 original size:20 final size:19
Alignment explanation
Indices: 11095878--11095957 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
11095868 ACCCCCAACA
11095878 CCCCACCACACCCAATCCCT
1 CCCCACC-CACCCAATCCCT
* * *
11095898 CCCCACCC-CCTACACCCCA
1 CCCCACCCACCCA-ATCCCT
*
11095917 CCCCACCCCACCAAATCCCT
1 CCCCA-CCCACCCAATCCCT
11095937 CCCCATCCCACCCAATCCCT
1 CCCCA-CCCACCCAATCCCT
11095957 C
1 C
11095958 TTCATGTGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
18 3 0.06
19 10 0.20
20 33 0.67
21 3 0.06
ACGTcount: A:0.23, C:0.68, G:0.00, T:0.10
Consensus pattern (19 bp):
CCCCACCCACCCAATCCCT
Found at i:11095914 original size:24 final size:25
Alignment explanation
Indices: 11095876--11095928 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
11095866 CCACCCCCAA
* *
11095876 CACCCCACCACACCCAATCCCTCCC
1 CACCCCACCACACCCAACCCCACCC
* *
11095901 CACCCC-CTACACCCCACCCCACCC
1 CACCCCACCACACCCAACCCCACCC
11095925 CACC
1 CACC
11095929 AAATCCCTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.23, C:0.72, G:0.00, T:0.06
Consensus pattern (25 bp):
CACCCCACCACACCCAACCCCACCC
Found at i:11097163 original size:28 final size:28
Alignment explanation
Indices: 11097124--11097180 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
11097114 CAAAAATGAT
* *
11097124 TGTCTTGGTGGGTTGTAGTTGAACTTTG
1 TGTCTTGCTGGGTTGTAATTGAACTTTG
11097152 TGTCTTGCTGGGTTGTAATTGAACTTTG
1 TGTCTTGCTGGGTTGTAATTGAACTTTG
11097180 T
1 T
11097181 TTAATGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.12, C:0.09, G:0.32, T:0.47
Consensus pattern (28 bp):
TGTCTTGCTGGGTTGTAATTGAACTTTG
Found at i:11099684 original size:71 final size:72
Alignment explanation
Indices: 11099567--11099704 Score: 242
Period size: 71 Copynumber: 1.9 Consensus size: 72
11099557 AATTAGAACA
* *
11099567 GACAATAGATACACTCAAATCATTATCAACAGAAAAAAAATTTTTTTTATTGACAGAAACAGAAG
1 GACAATAGATACACTCAAATCATTATCAACAGAAAAAAAACTTTTTTTATTAACAGAAACAGAAG
11099632 ATAAACC
66 ATAAACC
*
11099639 GACAATGGATAC-CTCAAATCATTATCAACAGAAAAAAAACTTTTTTTATTAACAGAAACAGAAG
1 GACAATAGATACACTCAAATCATTATCAACAGAAAAAAAACTTTTTTTATTAACAGAAACAGAAG
11099703 AT
66 AT
11099705 GAACAGGGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 52 0.83
72 11 0.17
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.25
Consensus pattern (72 bp):
GACAATAGATACACTCAAATCATTATCAACAGAAAAAAAACTTTTTTTATTAACAGAAACAGAAG
ATAAACC
Found at i:11100816 original size:25 final size:24
Alignment explanation
Indices: 11100792--11100838 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11100782 TGCTTTATTA
11100792 ATAAAATTTTTAAATTAAAAAATT
1 ATAAAATTTTTAAATTAAAAAATT
* * **
11100816 ATCACATTTTTTTATTAAAAAAT
1 ATAAAATTTTTAAATTAAAAAAT
11100839 ATTTATAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAAAATTTTTAAATTAAAAAATT
Found at i:11104344 original size:30 final size:31
Alignment explanation
Indices: 11104282--11104346 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
11104272 CTGAGTAATA
*
11104282 ATGCACCTTTAAATGATTAGGAATGTTTGGC
1 ATGCACCTTTAAATGATTAGGAATGTTCGGC
*
11104313 ATGCACCTTTTAATGATTAGG-ATGTTCGGC
1 ATGCACCTTTAAATGATTAGGAATGTTCGGC
11104343 ATGC
1 ATGC
11104347 TTAGCTGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (31 bp):
ATGCACCTTTAAATGATTAGGAATGTTCGGC
Found at i:11125993 original size:18 final size:19
Alignment explanation
Indices: 11125972--11126012 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
11125962 ACCACCGCTC
*
11125972 CCACTTGCTGCCG-GGCTT
1 CCACTTCCTGCCGTGGCTT
*
11125990 CCAC-TCCTGCTGTGGCTT
1 CCACTTCCTGCCGTGGCTT
11126008 CCACT
1 CCACT
11126013 GTCACTTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.07, C:0.41, G:0.22, T:0.29
Consensus pattern (19 bp):
CCACTTCCTGCCGTGGCTT
Found at i:11126020 original size:12 final size:12
Alignment explanation
Indices: 11126005--11126069 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
11125995 CCTGCTGTGG
11126005 CTTCCACTGTCA
1 CTTCCACTGTCA
*
11126017 CTTCCACTATCA
1 CTTCCACTGTCA
*
11126029 CTGCTGTCACTGTCA
1 CT--T-CCACTGTCA
*
11126044 CTAT-CACTATCA
1 CT-TCCACTGTCA
*
11126056 CTGCCACTGTCA
1 CTTCCACTGTCA
11126068 CT
1 CT
11126070 AGCACTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 31 0.74
14 2 0.05
15 9 0.21
ACGTcount: A:0.20, C:0.38, G:0.09, T:0.32
Consensus pattern (12 bp):
CTTCCACTGTCA
Found at i:11126036 original size:21 final size:21
Alignment explanation
Indices: 11126011--11126051 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11126001 GTGGCTTCCA
11126011 CTGTCACT-TCCACTATCACTG
1 CTGTCACTGT-CACTATCACTG
11126032 CTGTCACTGTCACTATCACT
1 CTGTCACTGTCACTATCACT
11126052 ATCACTGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.20, C:0.37, G:0.10, T:0.34
Consensus pattern (21 bp):
CTGTCACTGTCACTATCACTG
Found at i:11126070 original size:18 final size:18
Alignment explanation
Indices: 11126035--11126075 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11126025 ATCACTGCTG
*
11126035 TCACTGTCACTATCACTA
1 TCACTGCCACTATCACTA
*
11126053 TCACTGCCACTGTCACTA
1 TCACTGCCACTATCACTA
*
11126071 GCACT
1 TCACT
11126076 ATTTGCTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (18 bp):
TCACTGCCACTATCACTA
Found at i:11127383 original size:12 final size:12
Alignment explanation
Indices: 11127366--11127395 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11127356 TACTTATTTC
*
11127366 AGAGAGATAGAG
1 AGAGAGACAGAG
11127378 AGAGAGACAGAG
1 AGAGAGACAGAG
11127390 AGAGAG
1 AGAGAG
11127396 TAAGAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.43, T:0.03
Consensus pattern (12 bp):
AGAGAGACAGAG
Found at i:11131094 original size:11 final size:11
Alignment explanation
Indices: 11131062--11131094 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11131052 GATTGCACGA
*
11131062 ACCAAATAGAA
1 ACCAAATAGAC
11131073 ACCAAATAGAC
1 ACCAAATAGAC
11131084 ACCAAATAGAC
1 ACCAAATAGAC
11131095 CAAACTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.58, C:0.24, G:0.09, T:0.09
Consensus pattern (11 bp):
ACCAAATAGAC
Found at i:11131397 original size:68 final size:68
Alignment explanation
Indices: 11131317--11131455 Score: 251
Period size: 68 Copynumber: 2.0 Consensus size: 68
11131307 ATTTAAAGCT
* *
11131317 AAACCAGGTTGAAAAACCCTATCACGCAACTTACAGTTCCACAATCAGTTGTGAACTAAGAAGTA
1 AAACCAGGTTGAAAAACCCTATCACGCAACTTACAGTTCCACAACCAGTTGTGAAATAAGAAGTA
11131382 AAC
66 AAC
*
11131385 AAACCAGGTTGAAAAACCCTATCACGCAACTTACAGTTCCATAACCAGTTGTGAAATAAGAAGTA
1 AAACCAGGTTGAAAAACCCTATCACGCAACTTACAGTTCCACAACCAGTTGTGAAATAAGAAGTA
11131450 AAC
66 AAC
11131453 AAA
1 AAA
11131456 GTCACAAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.20
Consensus pattern (68 bp):
AAACCAGGTTGAAAAACCCTATCACGCAACTTACAGTTCCACAACCAGTTGTGAAATAAGAAGTA
AAC
Found at i:11136150 original size:3 final size:3
Alignment explanation
Indices: 11136142--11136174 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11136132 ATTCTCTAAC
11136142 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11136175 CATCAAATTA
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):
TAT
Found at i:11138896 original size:2 final size:2
Alignment explanation
Indices: 11138891--11138941 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
11138881 TCTCTCTCTC
*
11138891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
11138933 TG TA TA TA T
1 TA TA TA TA T
11138942 GTTTTACTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11141173 original size:15 final size:15
Alignment explanation
Indices: 11141153--11141183 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11141143 GTAGGATTCC
11141153 AAGTTGACAATTGCA
1 AAGTTGACAATTGCA
11141168 AAGTTGACAATTGCA
1 AAGTTGACAATTGCA
11141183 A
1 A
11141184 CAACAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (15 bp):
AAGTTGACAATTGCA
Found at i:11143355 original size:21 final size:20
Alignment explanation
Indices: 11143307--11143373 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
11143297 TGAGTTCAAA
* *
11143307 ATTT-ATTATATGTGAATTT
1 ATTTAATTATATATAAATTT
* *
11143326 AACTTAATTTTATAGTAAATTT
1 -ATTTAATTATATA-TAAATTT
*
11143348 ATTTAATTATATATTAATTT
1 ATTTAATTATATATAAATTT
11143368 ATTTAA
1 ATTTAA
11143374 ATAATTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 15 0.39
21 17 0.45
22 6 0.16
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTAATTATATATAAATTT
Found at i:11143370 original size:8 final size:9
Alignment explanation
Indices: 11143343--11143386 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
11143333 TTTTATAGTA
11143343 AATTTATTT
1 AATTTATTT
11143352 AATTATATATT
1 AATT-TAT-TT
11143363 AATTTATTT
1 AATTTATTT
* *
11143372 AAATAATTT
1 AATTTATTT
11143381 AATTTA
1 AATTTA
11143387 ATAATTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 17 0.59
10 6 0.21
11 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
AATTTATTT
Found at i:11152509 original size:15 final size:14
Alignment explanation
Indices: 11152488--11152538 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
11152478 GATCAGTAGG
11152488 AAAAACAAGAAAAA
1 AAAAACAAGAAAAA
*
11152502 ATAAAACAAGCAAAAC
1 A-AAAACAAG-AAAAA
11152518 AAAAACAA-AAAGAA
1 AAAAACAAGAAA-AA
11152532 ACAAAAC
1 A-AAAAC
11152539 CAAAACCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 3 0.10
14 3 0.10
15 20 0.65
16 5 0.16
ACGTcount: A:0.78, C:0.14, G:0.06, T:0.02
Consensus pattern (14 bp):
AAAAACAAGAAAAA
Found at i:11152527 original size:25 final size:24
Alignment explanation
Indices: 11152489--11152535 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
11152479 ATCAGTAGGA
*
11152489 AAAACAAGAAAAAATA-AAACAAGC
1 AAAACAA-AAAAAAAAGAAACAAGC
11152513 AAAACAAAAACAAAAAGAAACAA
1 AAAACAAAAA-AAAAAGAAACAA
11152536 AACCAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 11 0.55
25 6 0.30
ACGTcount: A:0.79, C:0.13, G:0.06, T:0.02
Consensus pattern (24 bp):
AAAACAAAAAAAAAAGAAACAAGC
Found at i:11152528 original size:21 final size:21
Alignment explanation
Indices: 11152504--11152544 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11152494 AAGAAAAAAT
*
11152504 AAAACAAGCAAAACAAAAACA
1 AAAACAAACAAAACAAAAACA
* *
11152525 AAAAGAAACAAAACCAAAAC
1 AAAACAAACAAAACAAAAAC
11152545 CTTGAGAGTC
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:0.76, C:0.20, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAACAAACAAAACAAAAACA
Found at i:11153294 original size:2 final size:2
Alignment explanation
Indices: 11153287--11153345 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
11153277 ATCACTAGGG
11153287 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11153329 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
11153346 TATCAGTAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11160276 original size:7 final size:7
Alignment explanation
Indices: 11160264--11160293 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11160254 ATTTTGTTTT
11160264 ATATAAA
1 ATATAAA
11160271 ATATAAA
1 ATATAAA
11160278 ATATAAA
1 ATATAAA
11160285 ATATAAA
1 ATATAAA
11160292 AT
1 AT
11160294 TATCAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:11164076 original size:7 final size:7
Alignment explanation
Indices: 11164060--11164092 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
11164050 ATCTTTGAAA
11164060 TTTA-TT
1 TTTATTT
11164066 TTTATTT
1 TTTATTT
11164073 TTTATTT
1 TTTATTT
11164080 TTTA-TT
1 TTTATTT
11164086 TTTATTT
1 TTTATTT
11164093 CTAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.40
7 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:11164076 original size:13 final size:13
Alignment explanation
Indices: 11164060--11164092 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11164050 ATCTTTGAAA
11164060 TTTA-TTTTTATTT
1 TTTATTTTTTA-TT
11164073 TTTATTTTTTATT
1 TTTATTTTTTATT
11164086 TTTATTT
1 TTTATTT
11164093 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:11164101 original size:20 final size:20
Alignment explanation
Indices: 11164060--11164102 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11164050 ATCTTTGAAA
* * *
11164060 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTTCTAAATT
11164080 TTTATTTTTATTTCTAAATT
1 TTTATTTTTATTTCTAAATT
11164100 TTT
1 TTT
11164103 CACCGTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTATTTTTATTTCTAAATT
Found at i:11165327 original size:16 final size:16
Alignment explanation
Indices: 11165308--11165341 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11165298 TGATTTTTGC
11165308 TTTTTTCTTT-TTTTTA
1 TTTTTT-TTTATTTTTA
11165324 TTTTTTTTTATTTTTA
1 TTTTTTTTTATTTTTA
11165340 TT
1 TT
11165342 AACAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTATTTTTA
Found at i:11167090 original size:284 final size:284
Alignment explanation
Indices: 11166578--11167148 Score: 1045
Period size: 284 Copynumber: 2.0 Consensus size: 284
11166568 AAGGGTGTGA
*
11166578 ACCGTGACGGTTAGGCTGATCTGGGATGCCGGATGAGTGGATGCCTGGGTCCTAGAGCTGTACGG
1 ACCGTGACGGTTAGGCTGATCTGGGATGCCGGATGAGTGGATGCCTGGGTCCTAGAGCTGCACGG
*
11166643 GTTCGGTGCTTAAGTTTCGACCTGTGACAAGTGGTATCAGAGCCAGCCCTAAACCGTTCGATCCA
66 GTTCGGTGCTTAAGTTTCGACCTGTGACAAGTAGTATCAGAGCCAGCCCTAAACCGTTCGATCCA
*
11166708 CACCAAGCACCTCGAGGGAGGTAAGTAGGGTGGCTAGCCTTCATGACAAGGGCATCACGAGGTTG
131 CACCAAGCACCTCGAGGGAGGTAAGTAGGGTGGCCAGCCTTCATGACAAGGGCATCACGAGGTTG
*
11166773 GGTAAGGGAGAATGTCACGGACCTAAGGAAGAGTCTTGAATCTCACATTGAACATAATAGGAGGG
196 GGTAAGGGAGAATGTCACGGACCTAAAGAAGAGTCTTGAATCTCACATTGAACATAATAGGAGGG
11166838 TCACTGGGGTATAAAAAGATTCAC
261 TCACTGGGGTATAAAAAGATTCAC
*
11166862 ACCGTGACGGTTAGGCTGATCTGGGATGCCGGATGAGTGGATGCCTGGGTCCTAGAG-TCGCGCG
1 ACCGTGACGGTTAGGCTGATCTGGGATGCCGGATGAGTGGATGCCTGGGTCCTAGAGCT-GCACG
11166926 GGTTCGGTGCTTAAGTTTCGACCTGTGACAAGTAGTATCAGAGCCAGCCCTAAACCGTTCGATCC
65 GGTTCGGTGCTTAAGTTTCGACCTGTGACAAGTAGTATCAGAGCCAGCCCTAAACCGTTCGATCC
* *
11166991 ACACCAAGCACCTCGAGGGAGGTAAGTAGGGTGGCCAGCCTTCGTGACAAGGGCGTCACGAGGTT
130 ACACCAAGCACCTCGAGGGAGGTAAGTAGGGTGGCCAGCCTTCATGACAAGGGCATCACGAGGTT
**
11167056 GGGTGGGGGAGAATGTCACGGACCTAAAGAAGAGTCTTGAATCTCACATTGAACATAATAGGAGG
195 GGGTAAGGGAGAATGTCACGGACCTAAAGAAGAGTCTTGAATCTCACATTGAACATAATAGGAGG
11167121 GTCACTGGGGTATAAAAAGATTCAC
260 GTCACTGGGGTATAAAAAGATTCAC
11167146 ACC
1 ACC
11167149 ACCTCTTCTT
Statistics
Matches: 277, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
283 1 0.00
284 276 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (284 bp):
ACCGTGACGGTTAGGCTGATCTGGGATGCCGGATGAGTGGATGCCTGGGTCCTAGAGCTGCACGG
GTTCGGTGCTTAAGTTTCGACCTGTGACAAGTAGTATCAGAGCCAGCCCTAAACCGTTCGATCCA
CACCAAGCACCTCGAGGGAGGTAAGTAGGGTGGCCAGCCTTCATGACAAGGGCATCACGAGGTTG
GGTAAGGGAGAATGTCACGGACCTAAAGAAGAGTCTTGAATCTCACATTGAACATAATAGGAGGG
TCACTGGGGTATAAAAAGATTCAC
Found at i:11167866 original size:30 final size:30
Alignment explanation
Indices: 11167806--11167869 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11167796 TAAAAAACCA
**
11167806 ATTTAGGTACAAATTAAATGTTGAGTGCTT
1 ATTTAGGTACAAATTAAATGTTGAAAGCTT
*
11167836 ATTTAGGTATAAATTAAATGTT-ACAAGCTT
1 ATTTAGGTACAAATTAAATGTTGA-AAGCTT
11167866 ATTT
1 ATTT
11167870 TTGCACATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (30 bp):
ATTTAGGTACAAATTAAATGTTGAAAGCTT
Found at i:11169462 original size:2 final size:2
Alignment explanation
Indices: 11169451--11169495 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
11169441 AGCAGCCGCG
*
11169451 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11169492 TA TA
1 TA TA
11169496 AAGATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11171226 original size:35 final size:35
Alignment explanation
Indices: 11171180--11171255 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
11171170 TATTTGTTGG
11171180 GCAGATCGATGCCAACACTCATCTAATGCAGAGCT
1 GCAGATCGATGCCAACACTCATCTAATGCAGAGCT
*
11171215 GCAGATCGATGCCAATACTCATCTAATGCAGAGCT
1 GCAGATCGATGCCAACACTCATCTAATGCAGAGCT
11171250 GCAGAT
1 GCAGAT
11171256 AGTTGCTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (35 bp):
GCAGATCGATGCCAACACTCATCTAATGCAGAGCT
Found at i:11172250 original size:15 final size:16
Alignment explanation
Indices: 11172205--11172252 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
11172195 ACTTAAAAAG
11172205 AATTTAAGAT-TA-TA
1 AATTTAAGATATATTA
*
11172219 ATTTTAAGATATATTA
1 AATTTAAGATATATTA
*
11172235 AATTTAA-ATATTTTA
1 AATTTAAGATATATTA
11172250 AAT
1 AAT
11172253 ATGTAATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 9 0.31
15 12 0.41
16 8 0.28
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
AATTTAAGATATATTA
Found at i:11172581 original size:2 final size:2
Alignment explanation
Indices: 11172570--11172599 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11172560 GAAAAATCGT
11172570 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11172600 CTATCTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11174776 original size:2 final size:2
Alignment explanation
Indices: 11174769--11174795 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11174759 TAGCTGTAAG
11174769 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11174796 ATGATATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11176524 original size:30 final size:31
Alignment explanation
Indices: 11176477--11176534 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
11176467 AATCAAGAGT
11176477 TTAATTGAACAAAAAATAAATATTTAAAAAC
1 TTAATTGAACAAAAAATAAATATTTAAAAAC
*
11176508 TTAATTGAA-TAAAAATAAATATTTAAA
1 TTAATTGAACAAAAAATAAATATTTAAA
11176535 GACTCAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (31 bp):
TTAATTGAACAAAAAATAAATATTTAAAAAC
Found at i:11180842 original size:16 final size:15
Alignment explanation
Indices: 11180817--11180847 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11180807 ATTCAATGGG
11180817 GCACTCCCAAAAAGA
1 GCACTCCCAAAAAGA
11180832 GCACATCCCAAAAAGA
1 GCAC-TCCCAAAAAGA
11180848 CAGCAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.32, G:0.13, T:0.06
Consensus pattern (15 bp):
GCACTCCCAAAAAGA
Found at i:11183232 original size:18 final size:19
Alignment explanation
Indices: 11183209--11183256 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
11183199 TTGAAAGAAA
11183209 TTTATATATATT-AATTTT
1 TTTATATATATTAAATTTT
11183227 TTTATA-ATTATTAAATTTT
1 TTTATATA-TATTAAATTTT
11183246 TTTATATATAT
1 TTTATATATAT
11183257 GATGATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 15 0.56
20 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATATATTAAATTTT
Found at i:11183266 original size:23 final size:20
Alignment explanation
Indices: 11183220--11183273 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
11183210 TTATATATAT
*
11183220 TAATTTTTTTATAATTATTA
1 TAATTTTTTTATAATTATGA
11183240 -AATTTTTTTATATATATGATGA
1 TAATTTTTTTATA-AT-T-ATGA
11183262 TAATTTTTTTAT
1 TAATTTTTTTAT
11183274 TTTGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 1 0.03
22 3 0.10
23 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TAATTTTTTTATAATTATGA
Found at i:11183806 original size:63 final size:64
Alignment explanation
Indices: 11183728--11183987 Score: 262
Period size: 63 Copynumber: 4.1 Consensus size: 64
11183718 TTAAACCTTG
* *
11183728 AAATATAAAAAGATTATTTAAAATATTTTT-TATACAAAAACGCATTAAATAATTTATTTATAA
1 AAATATAAAAAGATTATTTAAAATATTTTTCTATACAAAAACACCTTAAATAATTTATTTATAA
* * * ** * * * * *
11183791 AAATATTAAATGATTATTTAGAACGTTTCTGTATAAAAAAAATACCTTAAATAA-TAATTTTATA
1 AAATATAAAAAGATTATTTAAAATATTTTTCTAT-ACAAAAACACCTTAAATAATTTA-TTTATA
11183855 A
64 A
* * *
11183856 AAATATAAAAGGATTATTTAAAGT-TTTTTCTATACAAAAACACCTTAAATAATCTATTTATAA
1 AAATATAAAAAGATTATTTAAAATATTTTTCTATACAAAAACACCTTAAATAATTTATTTATAA
** * * *
11183919 AAATATAAAAAGATTATTTAAGGTATTTTCTGTATA-AAAATC-TCTTAAATAATCTT-TTTATA
1 AAATATAAAAAGATTATTTAAAATATTTT-TCTATACAAAAACACCTTAAATAAT-TTATTTATA
11183981 A
64 A
11183982 AAATAT
1 AAATAT
11183988 TAACCATAAA
Statistics
Matches: 162, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
63 93 0.57
64 23 0.14
65 46 0.28
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (64 bp):
AAATATAAAAAGATTATTTAAAATATTTTTCTATACAAAAACACCTTAAATAATTTATTTATAA
Found at i:11183871 original size:128 final size:126
Alignment explanation
Indices: 11183728--11183987 Score: 339
Period size: 128 Copynumber: 2.0 Consensus size: 126
11183718 TTAAACCTTG
* *
11183728 AAATATAAAAAGATTATTTAAAATATTTTT-TATACAAAAACGCATTAAATAATTTATTTATAAA
1 AAATATAAAAAGATTATTTAAAAT-TTTTTCTATACAAAAACACATTAAATAATCTATTTATAAA
* *
11183792 AATATTAAATGATTATTT-A-GAACGTTTCTGTATAAAAAAAATAC-CTTAAATAATAATTTTAT
65 AATATAAAAAGATTATTTAAGGAA-GTTTCTGTAT---AAAAAT-CTCTTAAATAATAATTTTAT
11183854 AA
125 AA
* * *
11183856 AAATATAAAAGGATTATTTAAAGTTTTTTCTATACAAAAACACCTTAAATAATCTATTTATAAAA
1 AAATATAAAAAGATTATTTAAAATTTTTTCTATACAAAAACACATTAAATAATCTATTTATAAAA
* * **
11183921 ATATAAAAAGATTATTTAAGGTATTTTCTGTATAAAAATCTCTTAAATAATCTTTTTATAA
66 ATATAAAAAGATTATTTAAGGAAGTTTCTGTATAAAAATCTCTTAAATAATAATTTTATAA
11183982 AAATAT
1 AAATAT
11183988 TAACCATAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
125 1 0.01
126 30 0.26
127 5 0.04
128 69 0.59
129 10 0.09
130 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (126 bp):
AAATATAAAAAGATTATTTAAAATTTTTTCTATACAAAAACACATTAAATAATCTATTTATAAAA
ATATAAAAAGATTATTTAAGGAAGTTTCTGTATAAAAATCTCTTAAATAATAATTTTATAA
Found at i:11184072 original size:62 final size:63
Alignment explanation
Indices: 11184002--11184133 Score: 160
Period size: 63 Copynumber: 2.1 Consensus size: 63
11183992 CATAAACCAT
** * * * *
11184002 AAAATATAAAAGGATCATTTAA-AGTATTTTTTATAC-AAAACGCCTTAAATAGTTTTTTTATA
1 AAAATATAAAAAAATCATTTAAGA-CATTTTCTATACAAAAACGCCTTAAATAATCTTTTTATA
* * *
11184064 AAAATATAAAAAAATTATTTAAGACATTTTCTATACAAAAATGCTTTAAATAATCTTTTTATA
1 AAAATATAAAAAAATCATTTAAGACATTTTCTATACAAAAACGCCTTAAATAATCTTTTTATA
11184127 AAAATAT
1 AAAATAT
11184134 TAACCATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 29 0.49
63 30 0.51
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (63 bp):
AAAATATAAAAAAATCATTTAAGACATTTTCTATACAAAAACGCCTTAAATAATCTTTTTATA
Found at i:11184120 original size:146 final size:147
Alignment explanation
Indices: 11183855--11184150 Score: 454
Period size: 146 Copynumber: 2.0 Consensus size: 147
11183845 TAATTTTATA
*
11183855 AAAATATAAAAGGATTATTTAAAGTTTTTTCTATACAAAAACACCTTAAATAATCTATTTATAAA
1 AAAATATAAAAGGATCATTTAAAGTTTTTTCTATACAAAAACACCTTAAATAATCTATTTATAAA
* ** * *
11183920 AATATAAAAAGATTATTTAAGGTATTTTCTGTATAAAAATCTCTTAAATAATCTTTTTATAAAAA
66 AATATAAAAAAATTATTTAAGACATTTTCTATACAAAAATCTCTTAAATAATCTTTTTATAAAAA
11183985 TATTAACCATAAACCAT
131 TATTAACCATAAACCAT
* * * *
11184002 AAAATATAAAAGGATCATTTAAAGTATTTTT-TATAC-AAAACGCCTTAAATAGTTTTTTTATAA
1 AAAATATAAAAGGATCATTTAAAGT-TTTTTCTATACAAAAACACCTTAAATAATCTATTTATAA
11184065 AAATATAAAAAAATTATTTAAGACATTTTCTATACAAAAATGCT-TTAAATAATCTTTTTATAAA
65 AAATATAAAAAAATTATTTAAGACATTTTCTATACAAAAAT-CTCTTAAATAATCTTTTTATAAA
*
11184129 AATATTAACCATAAACCCT
129 AATATTAACCATAAACCAT
11184148 AAA
1 AAA
11184151 CCATAAAATA
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
146 100 0.74
147 31 0.23
148 5 0.04
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (147 bp):
AAAATATAAAAGGATCATTTAAAGTTTTTTCTATACAAAAACACCTTAAATAATCTATTTATAAA
AATATAAAAAAATTATTTAAGACATTTTCTATACAAAAATCTCTTAAATAATCTTTTTATAAAAA
TATTAACCATAAACCAT
Found at i:11185175 original size:17 final size:17
Alignment explanation
Indices: 11185151--11185197 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
11185141 AAAAGAAGAG
*
11185151 AAAAAAAAGAATGAAAA
1 AAAAAAAAGAAGGAAAA
* *
11185168 AGAAAAAAGTAGGAAAA
1 AAAAAAAAGAAGGAAAA
11185185 AAAAAAGAAGAAG
1 AAAAAA-AAGAAG
11185198 AGTATGATCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (17 bp):
AAAAAAAAGAAGGAAAA
Found at i:11185981 original size:29 final size:29
Alignment explanation
Indices: 11185960--11186016 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11185950 TTTTTAACTC
**
11185960 TATGATTGTTATCTGTTTATTTTTAAAAA
1 TATGATTGTTATCTAATTATTTTTAAAAA
*
11185989 TGTGATTGTTATCTAATTATTTTTAAAA
1 TATGATTGTTATCTAATTATTTTTAAAA
11186017 TTCCTAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (29 bp):
TATGATTGTTATCTAATTATTTTTAAAAA
Found at i:11195668 original size:17 final size:18
Alignment explanation
Indices: 11195637--11195670 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11195627 TAATAATTAA
11195637 TTATAATTGTAAATTTTT
1 TTATAATTGTAAATTTTT
*
11195655 TTATATTTGT-AATTTT
1 TTATAATTGTAAATTTT
11195671 CACAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TTATAATTGTAAATTTTT
Found at i:11198249 original size:22 final size:22
Alignment explanation
Indices: 11198223--11198270 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11198213 TGAAAATAAT
*
11198223 ATTATTTA-AAATTTAAACAAAA
1 ATTATATATAAATTT-AACAAAA
*
11198245 ATTATATATAAATTTAATAAAA
1 ATTATATATAAATTTAACAAAA
11198267 ATTA
1 ATTA
11198271 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTATATATAAATTTAACAAAA
Found at i:11199918 original size:22 final size:22
Alignment explanation
Indices: 11199875--11199919 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11199865 TTACTGAATT
*
11199875 TATTATCATTTAATTTATATAA
1 TATTATCATTTAATTTAAATAA
*
11199897 TATTAT-ATTTTATTTGAAATAA
1 TATTATCATTTAATTT-AAATAA
11199919 T
1 T
11199920 TACTACTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATCATTTAATTTAAATAA
Found at i:11201020 original size:17 final size:18
Alignment explanation
Indices: 11200965--11201021 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 18
11200955 ATTTTATTTT
*
11200965 TTAT-AATAAATATATATA
1 TTATAAATAAA-ATATACA
* *
11200983 TCA-AAATAAAAAATACA
1 TTATAAATAAAATATACA
11201000 -TATAAATAAAATATA-A
1 TTATAAATAAAATATACA
11201016 TTATAA
1 TTATAA
11201022 GTAGGTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 2 0.06
17 21 0.68
18 8 0.26
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
TTATAAATAAAATATACA
Found at i:11203416 original size:48 final size:48
Alignment explanation
Indices: 11203358--11203453 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
11203348 AACTATACCT
* * * *
11203358 AAACCTTAAAAACGAGACCACTAACTCTAAACCCTAAAACCGAAATCC
1 AAACCTTAAAAACAAAACCACTAACCCTAAACCCTAAAACCAAAATCC
* * *
11203406 AAACCTTAAAATCAAAACCATTGACCCTAAACCCTAAAACCAAAATCC
1 AAACCTTAAAAACAAAACCACTAACCCTAAACCCTAAAACCAAAATCC
11203454 TAAATTTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (48 bp):
AAACCTTAAAAACAAAACCACTAACCCTAAACCCTAAAACCAAAATCC
Found at i:11203537 original size:22 final size:21
Alignment explanation
Indices: 11203476--11203528 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
11203466 TTTGAAACTA
*
11203476 AAAAACCT-AACCCAAAATCC
1 AAAATCCTAAACCCAAAATCC
11203496 AAAATCCTAAACCCTAAAATCC
1 AAAATCCTAAACCC-AAAATCC
*
11203518 AAAATCTTAAA
1 AAAATCCTAAA
11203529 ATTCAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 17 0.59
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATCCTAAACCCAAAATCC
Found at i:11207143 original size:9 final size:9
Alignment explanation
Indices: 11207129--11207162 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11207119 TTGTTCATAC
11207129 CATCAAAAT
1 CATCAAAAT
*
11207138 CATCAATAT
1 CATCAAAAT
*
11207147 CATCAAGAT
1 CATCAAAAT
11207156 CATCAAA
1 CATCAAA
11207163 GAAAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (9 bp):
CATCAAAAT
Found at i:11207305 original size:19 final size:18
Alignment explanation
Indices: 11207277--11207317 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11207267 ATACCAATCT
11207277 CAATATCAAGCAATATAC
1 CAATATCAAGCAATATAC
* *
11207295 CAATCATCAAGTAATATAT
1 CAAT-ATCAAGCAATATAC
11207314 CAAT
1 CAAT
11207318 TTAACAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (18 bp):
CAATATCAAGCAATATAC
Found at i:11220862 original size:16 final size:16
Alignment explanation
Indices: 11220838--11220868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11220828 ATATGTGGCC
11220838 TTTGGTTATATTTTCT
1 TTTGGTTATATTTTCT
*
11220854 TTTGTTTATATTTTC
1 TTTGGTTATATTTTC
11220869 CAATGCCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTGGTTATATTTTCT
Found at i:11234552 original size:13 final size:13
Alignment explanation
Indices: 11234534--11234559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11234524 AGGAAATAAA
11234534 ACTCTTGCACCAG
1 ACTCTTGCACCAG
11234547 ACTCTTGCACCAG
1 ACTCTTGCACCAG
11234560 TTTTCCAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
ACTCTTGCACCAG
Found at i:11234620 original size:2 final size:2
Alignment explanation
Indices: 11234613--11234640 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11234603 CTATTCCAAA
11234613 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
11234641 CCAAACAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11235630 original size:13 final size:13
Alignment explanation
Indices: 11235612--11235639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11235602 AAGTTGTAAC
11235612 CAAAAGCTTCATT
1 CAAAAGCTTCATT
11235625 CAAAAGCTTCATT
1 CAAAAGCTTCATT
11235638 CA
1 CA
11235640 TAGGCCGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
CAAAAGCTTCATT
Found at i:11237879 original size:33 final size:33
Alignment explanation
Indices: 11237812--11237879 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
11237802 AAAGTAGCAC
** *
11237812 ATTTGAATAATTTTATAGTCAGCTTTAATGAAT
1 ATTTGAATAATTTTATAAACAGCTTTAATAAAT
*
11237845 ATTTGAATCATTTTATAAACAGCATTT-ATAAAT
1 ATTTGAATAATTTTATAAACAGC-TTTAATAAAT
11237878 AT
1 AT
11237880 CGTAATTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (33 bp):
ATTTGAATAATTTTATAAACAGCTTTAATAAAT
Found at i:11239436 original size:18 final size:18
Alignment explanation
Indices: 11239409--11239443 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11239399 ATATGTGAAC
*
11239409 TTAAATTTTTATATTTTA
1 TTAAAATTTTATATTTTA
*
11239427 TTAAAATTTTTTATTTT
1 TTAAAATTTTATATTTT
11239444 TTATTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAAAATTTTATATTTTA
Found at i:11247655 original size:22 final size:23
Alignment explanation
Indices: 11247611--11247656 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11247601 TTTTAAATTA
*
11247611 TTATTAAAATTTATATATAATAT
1 TTATTAAAATTTATAAATAATAT
*
11247634 TTATTAAAATTT-TAAATTATAT
1 TTATTAAAATTTATAAATAATAT
11247656 T
1 T
11247657 ATTTTTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATTAAAATTTATAAATAATAT
Found at i:11257345 original size:2 final size:2
Alignment explanation
Indices: 11257338--11257365 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11257328 TGAAATGCTT
11257338 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
11257366 ATAGTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11260773 original size:23 final size:23
Alignment explanation
Indices: 11260730--11260780 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11260720 ATAGTTTAAA
* * *
11260730 ATTTTAATAAAAATCATATATAG
1 ATTTTAATAAAAATAAAATATAC
11260753 ATTTT-ATAAAAATAAAAATATAC
1 ATTTTAATAAAAAT-AAAATATAC
11260776 ATTTT
1 ATTTT
11260781 GTATTTAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTTTAATAAAAATAAAATATAC
Found at i:11262602 original size:2 final size:2
Alignment explanation
Indices: 11262595--11262622 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11262585 TAAAAGGCTT
11262595 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
11262623 ATAGTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11263174 original size:22 final size:23
Alignment explanation
Indices: 11263138--11263183 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
11263128 TGTATATCAA
*
11263138 AAAATTTTTCTGATGGTAACTTC
1 AAAATTTTTCCGATGGTAACTTC
11263161 AAAA-TTTTCCGATGGTAACTTC
1 AAAATTTTTCCGATGGTAACTTC
11263183 A
1 A
11263184 TTATTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (23 bp):
AAAATTTTTCCGATGGTAACTTC
Found at i:11263431 original size:24 final size:24
Alignment explanation
Indices: 11263404--11263460 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
11263394 TCAACATGCA
*
11263404 ACATGCTAAATCAGTTAGCAATCT
1 ACATGCTAAATCAGTTAGCAATCC
*
11263428 ACATGCTAAATCAGTTATCAATCC
1 ACATGCTAAATCAGTTAGCAATCC
*
11263452 ACTTGCTAA
1 ACATGCTAA
11263461 CCATTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (24 bp):
ACATGCTAAATCAGTTAGCAATCC
Found at i:11270611 original size:26 final size:27
Alignment explanation
Indices: 11270566--11270617 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
11270556 TTAAACTTAA
11270566 ATAAATATTTAAACAAATTCAGATATT
1 ATAAATATTTAAACAAATTCAGATATT
* *
11270593 ATAAATA-TTAAATAGATTCAGATAT
1 ATAAATATTTAAACAAATTCAGATAT
11270618 AGATATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (27 bp):
ATAAATATTTAAACAAATTCAGATATT
Found at i:11270856 original size:22 final size:23
Alignment explanation
Indices: 11270815--11270859 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
11270805 ACATAATTTA
11270815 AAATTTTAATAAAAATTATATAT
1 AAATTTTAATAAAAATTATATAT
11270838 AAATTTT-AT-AAAATATATATAT
1 AAATTTTAATAAAAAT-TATATAT
11270860 TTGTATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTTTAATAAAAATTATATAT
Found at i:11273360 original size:2 final size:2
Alignment explanation
Indices: 11273355--11273382 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11273345 ATATGCATTC
11273355 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
11273383 GACAAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11275150 original size:2 final size:2
Alignment explanation
Indices: 11275143--11275169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11275133 GTTATCAATC
11275143 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11275170 GTGTACATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11276506 original size:20 final size:20
Alignment explanation
Indices: 11276481--11276520 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11276471 GGTTTTAAAG
11276481 TTAAAACTAGAAT-TATTAAT
1 TTAAAA-TAGAATATATTAAT
*
11276501 TTAAAATATAATATATTAAT
1 TTAAAATAGAATATATTAAT
11276521 ACGATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAAAATAGAATATATTAAT
Found at i:11278649 original size:21 final size:20
Alignment explanation
Indices: 11278625--11278663 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11278615 TAATCAATAT
11278625 AAAA-TATTTTATTTATTAATC
1 AAAATTATTTT-TTT-TTAATC
11278646 AAAATTATTTTTTTTTAA
1 AAAATTATTTTTTTTTAA
11278664 AAGTTATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAATTATTTTTTTTTAATC
Found at i:11283715 original size:18 final size:18
Alignment explanation
Indices: 11283689--11283812 Score: 53
Period size: 18 Copynumber: 6.5 Consensus size: 18
11283679 AATTATAATG
*
11283689 AAATATTAAATATAATTT
1 AAATTTTAAATATAATTT
* *
11283707 AAATTTTAAAAATATTTAAT
1 AAATTTTAAATATAATT--T
11283727 ATAATATTTAAATTATAATTT
1 A-AAT-TTTAAA-TATAATTT
11283748 --ATTAATT-AATATAATATTT
1 AAATT--TTAAATAT-A-ATTT
*
11283767 AAAATTTTAATTATAA-TT
1 -AAATTTTAAATATAATTT
11283785 -AATATTTAAAT-TATATTT
1 AAAT-TTTAAATATA-ATTT
11283803 GAAATTTTAA
1 -AAATTTTAA
11283813 TTATCAATCC
Statistics
Matches: 81, Mismatches: 7, Indels: 35
0.66 0.06 0.28
Matches are distributed among these distances:
16 5 0.06
17 11 0.14
18 23 0.28
19 12 0.15
20 8 0.10
21 8 0.10
22 9 0.11
23 5 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
AAATTTTAAATATAATTT
Found at i:11283760 original size:31 final size:30
Alignment explanation
Indices: 11283722--11283789 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 30
11283712 TTAAAAATAT
11283722 TTAATATAATATTT-AAATTATAATTTATTAA
1 TTAATATAATATTTAAAATTATAA-TTA-TAA
*
11283753 TTAATATAATATTTAAAATTTTAATTATAA
1 TTAATATAATATTTAAAATTATAATTATAA
11283783 TTAATAT
1 TTAATAT
11283790 TTAAATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 10 0.29
31 17 0.49
32 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TTAATATAATATTTAAAATTATAATTATAA
Found at i:11283796 original size:12 final size:11
Alignment explanation
Indices: 11283718--11283808 Score: 55
Period size: 12 Copynumber: 8.0 Consensus size: 11
11283708 AATTTTAAAA
*
11283718 ATATTTAATATA
1 ATATTTAA-ATT
11283730 ATATTTAAATT
1 ATATTTAAATT
11283741 ATAATTT--ATT
1 AT-ATTTAAATT
*
11283751 A-A-TTAATATA
1 ATATTTAA-ATT
11283761 ATATTTAAAATT
1 ATATTT-AAATT
* *
11283773 TTAATTATAATT
1 ATATTTA-AATT
11283785 AATATTTAAATT
1 -ATATTTAAATT
11283797 ATATTTGAAATT
1 ATATTT-AAATT
11283809 TTAATTATCA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 1 0.02
10 7 0.11
11 12 0.19
12 33 0.53
13 7 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
ATATTTAAATT
Found at i:11283814 original size:18 final size:17
Alignment explanation
Indices: 11283716--11283816 Score: 68
Period size: 18 Copynumber: 5.8 Consensus size: 17
11283706 TAAATTTTAA
11283716 AAATATTTAATATAATATTT
1 AAAT-TTTAAT-T-ATATTT
*
11283736 AAATTATAATT-TA-TT
1 AAATTTTAATTATATTT
11283751 -AA--TTAATATAATATTT
1 AAATTTTAAT-T-ATATTT
*
11283767 AAAATTTTAATTATAATT
1 -AAATTTTAATTATATTT
*
11283785 AATATTTAAATTATATTT
1 AA-ATTTTAATTATATTT
11283803 GAAATTTTAATTAT
1 -AAATTTTAATTAT
11283817 CAATCCAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
12 4 0.06
13 1 0.02
14 2 0.03
15 4 0.06
16 4 0.06
17 2 0.03
18 31 0.48
19 8 0.12
20 9 0.14
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
AAATTTTAATTATATTT
Found at i:11286292 original size:14 final size:14
Alignment explanation
Indices: 11286273--11286301 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11286263 TTTGTACTCA
11286273 TATATTGATGACCG
1 TATATTGATGACCG
11286287 TATATTGATGACCG
1 TATATTGATGACCG
11286301 T
1 T
11286302 GTTCCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TATATTGATGACCG
Found at i:11293184 original size:21 final size:20
Alignment explanation
Indices: 11293136--11293181 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
11293126 AGGTTGTTTG
11293136 TAAAAATTGAAAATATAAAA
1 TAAAAATTGAAAATATAAAA
* *
11293156 TATAAAATTGATAATAT-TAA
1 TA-AAAATTGAAAATATAAAA
11293176 TAAAAA
1 TAAAAA
11293182 AATAGAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAATTGAAAATATAAAA
Found at i:11294294 original size:32 final size:32
Alignment explanation
Indices: 11294253--11294313 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
11294243 AAGAACATTC
*
11294253 AGCATTTTGAAAAGAGTAATATTTTCATATTT
1 AGCATTTTGAAAAAAGTAATATTTTCATATTT
11294285 AGCATTTTGAAAAAAGTAATATTTTCATA
1 AGCATTTTGAAAAAAGTAATATTTTCATA
11294314 AACTTCCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (32 bp):
AGCATTTTGAAAAAAGTAATATTTTCATATTT
Found at i:11295701 original size:22 final size:19
Alignment explanation
Indices: 11295676--11295726 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 19
11295666 ACAATAAACA
11295676 TAACTCAACCAGAGTTGTATTT
1 TAACT-AACCA-A-TTGTATTT
11295698 TAACT-A-CAATTGTATTT
1 TAACTAACCAATTGTATTT
11295715 TAACTTAACCAA
1 TAAC-TAACCAA
11295727 GGTTAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 3 0.12
20 4 0.15
22 5 0.19
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
TAACTAACCAATTGTATTT
Found at i:11296620 original size:38 final size:37
Alignment explanation
Indices: 11296578--11296671 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 37
11296568 CATTTATGAT
*
11296578 ATTAACTCTTATTTATATTTTAAAAATTCATGTGTTAA-
1 ATTAACTCTTATTTATATTTTAAAAA-TCATGT-ATAAC
* * * *
11296616 ATTAAATAGTTA-TTATAATTTAAAAATGATGTATAAC
1 ATTAACT-CTTATTTATATTTTAAAAATCATGTATAAC
*
11296653 ATTAACCCTTATTTATATT
1 ATTAACTCTTATTTATATT
11296672 AAACTAAAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
36 6 0.14
37 16 0.36
38 19 0.43
39 3 0.07
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (37 bp):
ATTAACTCTTATTTATATTTTAAAAATCATGTATAAC
Found at i:11304641 original size:26 final size:26
Alignment explanation
Indices: 11304612--11304663 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11304602 TTGCTATTTT
11304612 AACTATATTTTGAAGAAATGGAAGAA
1 AACTATATTTTGAAGAAATGGAAGAA
11304638 AACTATATTTTGAAGAAATGGAAGAA
1 AACTATATTTTGAAGAAATGGAAGAA
11304664 TAATAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (26 bp):
AACTATATTTTGAAGAAATGGAAGAA
Found at i:11306634 original size:84 final size:84
Alignment explanation
Indices: 11306468--11306635 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
11306458 ATTCAGCATC
*
11306468 AAGTTTTTTTCGACAGACTACTTTGCAAGGCTGATTCTCCCTCATTTCAAACTAAAGCAAAACAA
1 AAGTTTTTTTCAACAGACTACTTTGCAAGGCTGATTCTCCCTCATTTCAAACTAAAGCAAAACAA
* *
11306533 ATGATAAATCATGAAATAA
66 ATGACAAATAATGAAATAA
*
11306552 AAGTTTTTTTCAACATG-CTACTTTGCAAGGCTGATTCTCCCTCATTTCAAACTGAAGCAAAACA
1 AAGTTTTTTTCAACA-GACTACTTTGCAAGGCTGATTCTCCCTCATTTCAAACTAAAGCAAAACA
* *
11306616 AATTACAAATAATTAAATAA
65 AATGACAAATAATGAAATAA
11306636 GCATTGTAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 76 0.99
85 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (84 bp):
AAGTTTTTTTCAACAGACTACTTTGCAAGGCTGATTCTCCCTCATTTCAAACTAAAGCAAAACAA
ATGACAAATAATGAAATAA
Found at i:11308982 original size:5 final size:5
Alignment explanation
Indices: 11308972--11309028 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
11308962 CAAGATGATA
* * * *
11308972 TTATT TTATT TAATT TTATT TATAATA TTATT TAATT TTATT TTATT ATAATT
1 TTATT TTATT TTATT TTATT T-T-ATT TTATT TTATT TTATT TTATT -TTATT
11309025 TTAT
1 TTAT
11309029 ATATAGAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
5 32 0.78
6 6 0.15
7 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTATT
Found at i:11309453 original size:12 final size:12
Alignment explanation
Indices: 11309438--11309462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11309428 AAGGTTTTTT
11309438 TTTTAAATTAAA
1 TTTTAAATTAAA
11309450 TTTTAAATTAAA
1 TTTTAAATTAAA
11309462 T
1 T
11309463 CAGATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAAATTAAA
Found at i:11309603 original size:21 final size:21
Alignment explanation
Indices: 11309579--11309631 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
11309569 GTATAATTTT
11309579 ATATTTATTTTTTAAAAAATA
1 ATATTTATTTTTTAAAAAATA
*
11309600 ATATTT-TATATTTAAAAAATA
1 ATATTTAT-TTTTTAAAAAATA
11309621 ATATTTTATTT
1 ATA-TTTATTT
11309632 ATTTCAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 21 0.78
22 4 0.15
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTATTTTTTAAAAAATA
Found at i:11309632 original size:19 final size:21
Alignment explanation
Indices: 11309589--11309629 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11309579 ATATTTATTT
11309589 TTTAAAAAATAATATTTTATA
1 TTTAAAAAATAATATTTTATA
11309610 TTTAAAAAATAATATTTTAT
1 TTTAAAAAATAATATTTTAT
11309630 TTATTTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAAAATAATATTTTATA
Found at i:11312662 original size:13 final size:13
Alignment explanation
Indices: 11312644--11312670 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11312634 CATCTTTAAC
11312644 AAAAAAAAAAGTA
1 AAAAAAAAAAGTA
11312657 AAAAAAAAAAGTA
1 AAAAAAAAAAGTA
11312670 A
1 A
11312671 TGGTAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAAAAAAGTA
Found at i:11314187 original size:12 final size:12
Alignment explanation
Indices: 11314150--11314191 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
11314140 ACACAATTAC
11314150 AATAAAATA-AT
1 AATAAAATATAT
11314161 -ATAAAA-ATAT
1 AATAAAATATAT
*
11314171 AATAAAATATTT
1 AATAAAATATAT
11314183 AATAAAATA
1 AATAAAATA
11314192 AAAAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 1 0.04
10 8 0.30
11 6 0.22
12 12 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAAATATAT
Found at i:11316728 original size:9 final size:8
Alignment explanation
Indices: 11316714--11316757 Score: 70
Period size: 8 Copynumber: 5.4 Consensus size: 8
11316704 TTTTGTTAAT
11316714 AAAAAATAA
1 AAAAAAT-A
11316723 AAAAAATA
1 AAAAAATA
11316731 AAAAAATA
1 AAAAAATA
*
11316739 AAAAAACA
1 AAAAAATA
11316747 AAAAAATA
1 AAAAAATA
11316755 AAA
1 AAA
11316758 TATGGTAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.89, C:0.02, G:0.00, T:0.09
Consensus pattern (8 bp):
AAAAAATA
Found at i:11316743 original size:24 final size:24
Alignment explanation
Indices: 11316711--11316757 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11316701 TGATTTTGTT
11316711 AATAAAAAATA-AAAAAAATAAAAA
1 AATAAAAAA-ACAAAAAAATAAAAA
11316735 AATAAAAAAACAAAAAAATAAAA
1 AATAAAAAAACAAAAAAATAAAA
11316758 TATGGTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (24 bp):
AATAAAAAAACAAAAAAATAAAAA
Found at i:11316814 original size:19 final size:19
Alignment explanation
Indices: 11316792--11316830 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11316782 ATTGTGTGTG
11316792 TGGACTGAAGAATTT-AAGT
1 TGGACTGAA-AATTTGAAGT
*
11316811 TGGACTTAAAATTTGAAGT
1 TGGACTGAAAATTTGAAGT
11316830 T
1 T
11316831 AAAACTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (19 bp):
TGGACTGAAAATTTGAAGT
Found at i:11316985 original size:21 final size:21
Alignment explanation
Indices: 11316945--11316985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11316935 AAAATAAATA
*
11316945 TCAGAGAAAGTATATAGAAAG
1 TCAGAGAAAATATATAGAAAG
11316966 TCAGAGAAAA-ATATATGAAA
1 TCAGAGAAAATATATA-GAAA
11316986 CATTAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAGAGAAAATATATAGAAAG
Found at i:11317591 original size:18 final size:18
Alignment explanation
Indices: 11317570--11317613 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11317560 TTGGTATTTT
11317570 TTATTTTTTA-TTTACTTA
1 TTATTTTTTATTTTA-TTA
11317588 TTA-TTTTTATTTTATTA
1 TTATTTTTTATTTTATTA
*
11317605 GTATTTTTT
1 TTATTTTTT
11317614 TTGCATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTATTTTTTATTTTATTA
Found at i:11317594 original size:17 final size:17
Alignment explanation
Indices: 11317574--11317612 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11317564 TATTTTTTAT
*
11317574 TTTTTA-TTTACTTATTA
1 TTTTTATTTTA-TTAGTA
11317591 TTTTTATTTTATTAGTA
1 TTTTTATTTTATTAGTA
11317608 TTTTT
1 TTTTT
11317613 TTTGCATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTATTAGTA
Found at i:11318090 original size:25 final size:27
Alignment explanation
Indices: 11318040--11318090 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
11318030 AAATTTTGGC
*
11318040 TGAAAATATTTGACAATTATCCAATGA
1 TGAAAATATTTGACAATTATCAAATGA
11318067 TGAAAAT-TTTAGA-AATT-TCAAATG
1 TGAAAATATTT-GACAATTATCAAATG
11318091 GTAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 9 0.41
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (27 bp):
TGAAAATATTTGACAATTATCAAATGA
Found at i:11318224 original size:12 final size:12
Alignment explanation
Indices: 11318207--11318233 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11318197 TTCAAAGATA
11318207 AAAAAAATTTTT
1 AAAAAAATTTTT
11318219 AAAAAAATTTTT
1 AAAAAAATTTTT
11318231 AAA
1 AAA
11318234 TAGACCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAAAAATTTTT
Found at i:11318277 original size:44 final size:44
Alignment explanation
Indices: 11318218--11318313 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
11318208 AAAAAATTTT
** * *
11318218 TAAAAAAATTTTTAAATAGACCAAAATGGT-GAAAATTTTGAAAA
1 TAAAAAAAAATTTAAATAGACCAAAATGGTAAAAAATTTAG-AAA
* *
11318262 TAAAAAAAAATTTAAATTGACCTAAATGGTAAAAAATTTAGAAA
1 TAAAAAAAAATTTAAATAGACCAAAATGGTAAAAAATTTAGAAA
11318306 TAAAAAAA
1 TAAAAAAA
11318314 TATAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 37 0.82
45 8 0.18
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.27
Consensus pattern (44 bp):
TAAAAAAAAATTTAAATAGACCAAAATGGTAAAAAATTTAGAAA
Found at i:11318313 original size:16 final size:15
Alignment explanation
Indices: 11318292--11318326 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11318282 CCTAAATGGT
*
11318292 AAAAAATTTAGAAATA
1 AAAAAATATA-AAATA
11318308 AAAAAATATAAAATA
1 AAAAAATATAAAATA
11318323 AAAA
1 AAAA
11318327 TAAAATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAAAATATAAAATA
Found at i:11322533 original size:17 final size:17
Alignment explanation
Indices: 11322511--11322572 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
11322501 TATCACTGGG
11322511 TGAAAAAATAAAAAAAA
1 TGAAAAAATAAAAAAAA
11322528 TG-AAAAATGAAAAAAAA
1 TGAAAAAAT-AAAAAAAA
* *
11322545 T-AAGAAAT-GAAAAAA
1 TGAAAAAATAAAAAAAA
*
11322560 TGAAAAAGTAAAA
1 TGAAAAAATAAAA
11322573 GTAAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 7 0.19
16 11 0.31
17 18 0.50
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (17 bp):
TGAAAAAATAAAAAAAA
Found at i:11322552 original size:24 final size:25
Alignment explanation
Indices: 11322511--11322572 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
11322501 TATCACTGGG
11322511 TGAAAAAATAAAAAAAATG-AAAAA
1 TGAAAAAATAAAAAAAATGAAAAAA
*
11322535 TGAAAAAA-AATAAGAAATGAAAAAA
1 TGAAAAAATAA-AAAAAATGAAAAAA
*
11322560 TGAAAAAGTAAAA
1 TGAAAAAATAAAA
11322573 GTAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 15 0.45
25 14 0.42
26 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (25 bp):
TGAAAAAATAAAAAAAATGAAAAAA
Found at i:11322590 original size:25 final size:24
Alignment explanation
Indices: 11322513--11322597 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
11322503 TCACTGGGTG
*
11322513 AAAAAA-TAAAAAAAATGAAAAATGA
1 AAAAAAGTAAAAATAA--AAAAATGA
* *
11322538 AAAAAAATAAGAAATGAAAAAATG-
1 AAAAAAGTAA-AAATAAAAAAATGA
*
11322562 -AAAAAGTAAAAGTAAAAAAATTGA
1 AAAAAAGTAAAAATAAAAAAA-TGA
*
11322586 AAAAATGTAAAA
1 AAAAAAGTAAAA
11322598 TAAGAGAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
22 9 0.18
23 10 0.20
25 23 0.47
26 3 0.06
27 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (24 bp):
AAAAAAGTAAAAATAAAAAAATGA
Found at i:11322597 original size:8 final size:8
Alignment explanation
Indices: 11322511--11322597 Score: 56
Period size: 7 Copynumber: 10.8 Consensus size: 8
11322501 TATCACTGGG
11322511 TGAAAAAA
1 TGAAAAAA
*
11322519 TAAAAAAAA
1 T-GAAAAAA
11322528 TG-AAAAA
1 TGAAAAAA
11322535 TGAAAAAAAA
1 TG--AAAAAA
*
11322545 T-AAGAAA
1 TGAAAAAA
11322552 TGAAAAAA
1 TGAAAAAA
11322560 TG-AAAAA
1 TGAAAAAA
* *
11322567 -GTAAAAG
1 TGAAAAAA
*
11322574 TAAAAAAA
1 TGAAAAAA
11322582 TTGAAAAAA
1 -TGAAAAAA
11322591 TGTAAAA
1 TG-AAAA
11322598 TAAGAGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
6 1 0.02
7 22 0.36
8 14 0.23
9 18 0.30
10 6 0.10
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (8 bp):
TGAAAAAA
Found at i:11322614 original size:32 final size:30
Alignment explanation
Indices: 11322513--11322615 Score: 84
Period size: 32 Copynumber: 3.3 Consensus size: 30
11322503 TCACTGGGTG
**
11322513 AAAAAATAAAAAAAATGAAAAATGAAA-AAA
1 AAAAAATTGAAAAAATGAAAAAT-AAAGAAA
* *
11322543 AATAAGAAATGAAAAAATGAAAAAGTAAA-AGTA
1 AA-AA-AATTGAAAAAATGAAAAA-TAAAGA-AA
*
11322576 AAAAAATTGAAAAAATGTAAAATAAGAGAAA
1 AAAAAATTGAAAAAATGAAAAATAA-AGAAA
11322607 AAGAAAATT
1 AA-AAAATT
11322616 CAAATTGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
30 5 0.08
31 22 0.37
32 28 0.47
33 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (30 bp):
AAAAAATTGAAAAAATGAAAAATAAAGAAA
Found at i:11324083 original size:44 final size:44
Alignment explanation
Indices: 11324030--11324162 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 44
11324020 AGTCACGAGT
* * *
11324030 CTCTGTTTAGAGGAGCCTTAGTTTGTTTTTAAAAGTTGTTAAGC
1 CTCTGTTTAGAGAAGCCTTAGTTTATTTTTAAAAGTTGTTGAGC
* *
11324074 CTCTGTTTAGAGTAA-TCTTA-TTTATTTTTCAAAGTTGTTGAGC
1 CTCTGTTTAGAG-AAGCCTTAGTTTATTTTTAAAAGTTGTTGAGC
* * * *
11324117 CTCTATTTAAAGAAGCCTTAGTTTATTTTTTAAAGTTATTGAGC
1 CTCTGTTTAGAGAAGCCTTAGTTTATTTTTAAAAGTTGTTGAGC
11324161 CT
1 CT
11324163 TTGCTTTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 34 0.45
44 39 0.51
45 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (44 bp):
CTCTGTTTAGAGAAGCCTTAGTTTATTTTTAAAAGTTGTTGAGC
Found at i:11324342 original size:86 final size:86
Alignment explanation
Indices: 11324203--11324662 Score: 452
Period size: 86 Copynumber: 5.3 Consensus size: 86
11324193 TAGAGGATCT
* * * *
11324203 TTATTTATTTTCCAAAGTCATGT--GTCTCTGTTTAGAAGAG-CTTTATTTTTTTTTAAAAGTTG
1 TTATTTATTTTTCAAAGTCAT-TAAGCCTCTATTTAGAAGAGTC-TTATTTATTTTTAAAAGTTG
*
11324265 TTGGGCCTTTGTTTAGAGAAGCC
64 TTGAGCCTTTGTTTAGAGAAGCC
* ** * *
11324288 TTATTTATTTTTCAAAGTTATTAAGCCTCTGCTTAGAGGAGTCTTATTTATTTTTCAAAGTTGTT
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTAGAAGAGTCTTATTTATTTTTAAAAGTTGTT
11324353 GAGCCTTTGTTTAGAGAAGCC
66 GAGCCTTTGTTTAGAGAAGCC
** * * * * *
11324374 TTATTTATTTTTCAAAGTCATTAAGCCTCTACATAGATGAGCCTTATTTATTTTTCAACGTCGTT
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTAGAAGAGTCTTATTTATTTTTAAAAGTTGTT
* * *
11324439 G-GGCTTCTATTTAGA-AGAGCT
66 GAGCCTT-TGTTTAGAGA-AGCC
* * **
11324460 TTATTT-TTTTTCAAAGTCATTGAGCCTCTATTTAGATA-AGTTTTATTTATTTTTTAAAAGTCA
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTAGA-AGAGTCTTATTTA-TTTTTAAAAGTTG
* *
11324523 TTAAGCCTCTGTTTAGA-AGAGCC
64 TTGAGCCTTTGTTTAGAGA-AGCC
* * * * *
11324546 TTATTTATTTTTCAAAAATCGTTGAGCCTCTATTTAAAAGAGTCTTATTTATTTTTCAAAAGCTG
1 TTATTTATTTTTC-AAAGTCATTAAGCCTCTATTTAGAAGAGTCTTATTTATTTTT-AAAAGTTG
* * *
11324611 TTGAGCCTCTATTTAGAGGAGCC
64 TTGAGCCTTTGTTTAGAGAAGCC
11324634 TTATTTATTTTTCAAAAGT-AGTTAAGCCT
1 TTATTTATTTTTC-AAAGTCA-TTAAGCCT
11324663 TTGTTTAAAG
Statistics
Matches: 316, Mismatches: 45, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.00
85 60 0.19
86 159 0.50
87 16 0.05
88 80 0.25
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (86 bp):
TTATTTATTTTTCAAAGTCATTAAGCCTCTATTTAGAAGAGTCTTATTTATTTTTAAAAGTTGTT
GAGCCTTTGTTTAGAGAAGCC
Found at i:11324524 original size:44 final size:44
Alignment explanation
Indices: 11324167--11324649 Score: 336
Period size: 43 Copynumber: 11.2 Consensus size: 44
11324157 GAGCCTTTGC
* * * * * * *
11324167 TTTTTCAAAATCGTTAAGTCTCTATTTAGAGGATCTTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
* * * * *
11324210 TTTTCCAAAGTCA-TGTGTCTCTGTTTAGA-AGAGCTTTATTT-T
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGA-AGCCTTATTTAT
* ** * * *
11324252 TTTTTAAAAGTTGTTGGGCCTTTGTTTAGAGAAGCCTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
* * ** * *
11324295 TTTTTCAAAGTTATTAAGCCTCTGCTTAGAGGAGTCTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
** * *
11324338 TTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGAAGCCTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
* **
11324381 TTTTTCAAAGTCATTAAGCCTCTACATAGATG-AGCCTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGA-GAAGCCTTATTTAT
* * * * *
11324424 TTTTTCAACGTCGTTGGGCTTCTATTTAGA-AGAGCTTTA-TT-T
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGA-AGCCTTATTTAT
* **
11324466 TTTTTCAAAGTCATTGAGCCTCTATTTAGATAAGTTTTATTTAT
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
* * *
11324510 TTTTTAAAAGTCATTAAGCCTCTGTTTAGA-AGAGCCTTATTTA-
1 TTTTTCAAAGTCATTGAGCCTCTATTTAGAGA-AGCCTTATTTAT
* * * *
11324553 TTTTTCAAAAATCGTTGAGCCTCTATTTA-AAAGAGTCTTATTTA-
1 TTTTTC-AAAGTCATTGAGCCTCTATTTAGAGA-AGCCTTATTTAT
* *
11324597 TTTTTCAAAAG-CTGTTGAGCCTCTATTTAGAGGAGCCTTATTTA-
1 TTTTTC-AAAGTC-ATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
11324641 TTTTTCAAA
1 TTTTTCAAA
11324650 AGTAGTTAAG
Statistics
Matches: 358, Mismatches: 65, Indels: 34
0.78 0.14 0.07
Matches are distributed among these distances:
42 65 0.18
43 181 0.51
44 111 0.31
45 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (44 bp):
TTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTAT
Found at i:11324662 original size:44 final size:44
Alignment explanation
Indices: 11324167--11324740 Score: 410
Period size: 44 Copynumber: 13.3 Consensus size: 44
11324157 GAGCCTTTGC
* * * * * *
11324167 TTTTTCAAAA-TCGTTAAGTCTCTATTTAGAGGATCTTTATTTA
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * * * *
11324210 -TTTTCCAAAGTCA--TGTGTCTCTGTTTAGAAGAGCTTTATTT-
1 TTTTTCAAAAGT-AGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * * * *
11324251 TTTTTTAAAAGTTGTTGGGCCTTTGTTTAGAGAAGCCTTATTTA
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * *
11324295 TTTTTC-AAAGTTA-TTAAGCCTCTGCTTAGAGGAGTCTTATTTA
1 TTTTTCAAAAG-TAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * *
11324338 TTTTTC-AAAGTTGTTGAGCCTTTGTTTAGAGAAGCCTTATTTA
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* *** *
11324381 TTTTTC-AAAGTCA-TTAAGCCTCTACATAGATGAGCCTTATTTA
1 TTTTTCAAAAGT-AGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * * * * * *
11324424 TTTTTC-AACGTCGTTGGGCTTCTATTTAGAAGAGCTTTATTT-
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* ** **
11324466 TTTTTC-AAAGTCA-TTGAGCCTCTATTTAGATAAGTTTTATTTA
1 TTTTTCAAAAGT-AGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * *
11324509 TTTTTTAAAAGTCA-TTAAGCCTCTGTTTAGAAGAGCCTTATTTA
1 TTTTTCAAAAGT-AGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * * * * *
11324553 TTTTTCAAAAATCGTTGAGCCTCTATTTAAAAGAGTCTTATTTA
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
*
11324597 TTTTTCAAAAGCT-GTTGAGCCTCTATTTAGAGGAGCCTTATTTA
1 TTTTTCAAAAG-TAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
* * * * *
11324641 TTTTTCAAAAGTAGTTAAGCCTTTGTTTAAAGAAACCTTAGTTTA
1 TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTA-TTTA
* * * * *
11324686 -CTTTCAAAAGTAGTTG-GACTTCTGCTTAGAAGAGCTTTATTTA
1 TTTTTCAAAAGTAGTTGAG-CCTCTGTTTAGAGGAGCCTTATTTA
*
11324729 TTTTTTAAAAGT
1 TTTTTCAAAAGT
11324741 TATGGAGGCT
Statistics
Matches: 422, Mismatches: 90, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
42 75 0.18
43 163 0.39
44 179 0.42
45 5 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (44 bp):
TTTTTCAAAAGTAGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA
Found at i:11324691 original size:88 final size:88
Alignment explanation
Indices: 11324257--11324740 Score: 338
Period size: 86 Copynumber: 5.6 Consensus size: 88
11324247 ATTTTTTTTT
* * * *
11324257 AAAAGTTGTTGGGCCTTTGTTTAG-AGAAGCCTTATTTATTTTTC-AAAGTTA-TTAAGCCTCTG
1 AAAAGTAGTTGAGCCTCTGTTTAGAAG-AGCCTTATTTATTTTTCAAAAG-TAGTTAAGCCTCTA
* * * ** *
11324319 CTTAGAGGAGTCTTATTTATTTTTC
64 TTTAAAAGAACCTTATTTATCTTTC
* *
11324344 -AAAGTTGTTGAGCCTTTGTTTAG-AGAAGCCTTATTTATTTTTC-AAAGTCA-TTAAGCCTCTA
1 AAAAGTAGTTGAGCCTCTGTTTAGAAG-AGCCTTATTTATTTTTCAAAAGT-AGTTAAGCCTCTA
** * * * *
11324405 CATAGATGAGCCTTATTTATTTTTC
64 TTTAAAAGAACCTTATTTATCTTTC
* * * * * * *
11324430 -AACGTCGTTGGGCTTCTATTTAGAAGAGCTTTATTT-TTTTTC-AAAGTCA-TTGAGCCTCTAT
1 AAAAGTAGTTGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGT-AGTTAAGCCTCTAT
** * *
11324491 TTAGATAAG--TTTTATTTATTTTTT
65 TTA-A-AAGAACCTTATTTATCTTTC
* * * *
11324515 AAAAGTCA-TTAAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAATCGTTGAGCCTCTAT
1 AAAAGT-AGTTGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTAGTTAAGCCTCTAT
** *
11324579 TTAAAAGAGTCTTATTTATTTTTC
65 TTAAAAGAACCTTATTTATCTTTC
* * * *
11324603 AAAAGCT-GTTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCAAAAGTAGTTAAGCCTTTGT
1 AAAAG-TAGTTGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTAGTTAAGCCTCTAT
11324667 TT-AAAGAAACCTTAGTTTA-CTTTC
65 TTAAAAG-AACCTTA-TTTATCTTTC
* * * *
11324691 AAAAGTAGTTG-GACTTCTGCTTAGAAGAGCTTTATTTATTTTTTAAAAGT
1 AAAAGTAGTTGAG-CCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGT
11324741 TATGGAGGCT
Statistics
Matches: 332, Mismatches: 48, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
85 38 0.11
86 136 0.41
87 17 0.05
88 136 0.41
89 5 0.02
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (88 bp):
AAAAGTAGTTGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTAGTTAAGCCTCTATT
TAAAAGAACCTTATTTATCTTTC
Found at i:11326003 original size:15 final size:15
Alignment explanation
Indices: 11325979--11326014 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11325969 TTTAATTTAG
* *
11325979 AAAAACAAAAAAATA
1 AAAAATAAAAAAACA
11325994 AAAAATAAAAAAACA
1 AAAAATAAAAAAACA
11326009 AAAAAT
1 AAAAAT
11326015 TTGATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (15 bp):
AAAAATAAAAAAACA
Found at i:11326441 original size:41 final size:42
Alignment explanation
Indices: 11326368--11326462 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 42
11326358 CAAAGATAAA
*
11326368 AAAAAATTTAAATAGACTAAAATGGTAAAAAATTTAAAAAT-
1 AAAAAATTTAAATAGACCAAAATGGTAAAAAATTTAAAAATG
* * *
11326409 AAAAAATTCTAAATTGACCCAAATGGT-GAAAATTTAAAAATG
1 AAAAAATT-TAAATAGACCAAAATGGTAAAAAATTTAAAAATG
*
11326451 AAAAAATATAAA
1 AAAAAATTTAAA
11326463 ATAAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 25 0.53
42 22 0.47
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.25
Consensus pattern (42 bp):
AAAAAATTTAAATAGACCAAAATGGTAAAAAATTTAAAAATG
Found at i:11326838 original size:112 final size:112
Alignment explanation
Indices: 11326695--11326919 Score: 450
Period size: 112 Copynumber: 2.0 Consensus size: 112
11326685 TACCAGATTG
11326695 ATGGAGAAATTTTAAAAGTTACTTTCAATATTCAATATTAAAATTAAAACTATTAGAATTAAATT
1 ATGGAGAAATTTTAAAAGTTACTTTCAATATTCAATATTAAAATTAAAACTATTAGAATTAAATT
11326760 TTAGGATAATTTAAAATAAAATGGTACCATCTTTTGAATGGGCATAT
66 TTAGGATAATTTAAAATAAAATGGTACCATCTTTTGAATGGGCATAT
11326807 ATGGAGAAATTTTAAAAGTTACTTTCAATATTCAATATTAAAATTAAAACTATTAGAATTAAATT
1 ATGGAGAAATTTTAAAAGTTACTTTCAATATTCAATATTAAAATTAAAACTATTAGAATTAAATT
11326872 TTAGGATAATTTAAAATAAAATGGTACCATCTTTTGAATGGGCATAT
66 TTAGGATAATTTAAAATAAAATGGTACCATCTTTTGAATGGGCATAT
11326919 A
1 A
11326920 GGGGTGTTAT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (112 bp):
ATGGAGAAATTTTAAAAGTTACTTTCAATATTCAATATTAAAATTAAAACTATTAGAATTAAATT
TTAGGATAATTTAAAATAAAATGGTACCATCTTTTGAATGGGCATAT
Found at i:11327686 original size:21 final size:20
Alignment explanation
Indices: 11327660--11327712 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
11327650 TATATATTTA
11327660 AATATTTATATTTAAAAAAGT
1 AATATTTATATTTAAAAAA-T
*
11327681 AATATTTTATATTTTAAAAAT
1 AATA-TTTATATTTAAAAAAT
11327702 AATATTT-TATT
1 AATATTTATATT
11327713 AATTTTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 9 0.30
22 14 0.47
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:11327719 original size:23 final size:22
Alignment explanation
Indices: 11327660--11327711 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
11327650 TATATATTTA
*
11327660 AATA-TTTATATTTAAAAAAGT
1 AATATTTTATATTTTAAAAAGT
11327681 AATATTTTATATTTTAAAAA-T
1 AATATTTTATATTTTAAAAAGT
11327702 AATATTTTAT
1 AATATTTTAT
11327712 TAATTTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAGT
Found at i:11330633 original size:24 final size:24
Alignment explanation
Indices: 11330601--11330647 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11330591 CTTTTTTTTG
* *
11330601 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
11330626 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
11330648 GATATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:11332444 original size:64 final size:63
Alignment explanation
Indices: 11332347--11332469 Score: 140
Period size: 64 Copynumber: 1.9 Consensus size: 63
11332337 AACTCATTGT
* * * * *
11332347 AAAATTTTTTGTATGGATTATTGAAGGAATTTTTTGCCGAAAATAC-CTTTAATAATCCCTCTTC
1 AAAAATTTTTGAATGGATTATTAAAGGAATTTTTGGCC-AAAA-ACGCTTCAATAATCCCTCTTC
* **
11332411 AAAAATTTTTGAATGGGTTATTAAAGGCGTTTTTGGCCAAAAACGTCTTCAATAATCCC
1 AAAAATTTTTGAATGGATTATTAAAGGAATTTTTGGCCAAAAACG-CTTCAATAATCCC
11332470 ATTCAATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
62 2 0.04
63 4 0.08
64 43 0.88
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (63 bp):
AAAAATTTTTGAATGGATTATTAAAGGAATTTTTGGCCAAAAACGCTTCAATAATCCCTCTTC
Found at i:11332949 original size:61 final size:61
Alignment explanation
Indices: 11332879--11332994 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
11332869 TAGTAAAAAT
* *
11332879 CTCATAAATTCTCATCATAAATAATAGAATTATAAAATACATAAAA-TATAGTAAATTCAAA
1 CTCACAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACT-TAGTAAATTCAAA
* * * * * *
11332940 CTCACAAATTGTTACCATAAATGATGGAATTATGAAATATATAAAACTTAGTAAA
1 CTCACAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACTTAGTAAA
11332995 CTAAAATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 45 0.98
62 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (61 bp):
CTCACAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACTTAGTAAATTCAAA
Found at i:11333269 original size:15 final size:15
Alignment explanation
Indices: 11333249--11333306 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
11333239 TAAATCTCAT
11333249 AAAATAATATATTTA
1 AAAATAATATATTTA
*
11333264 AAAATAATA-ATATA
1 AAAATAATATATTTA
*
11333278 AAAATGAAT-TAATTA
1 AAAAT-AATATATTTA
*
11333293 AAAAAAATAATATT
1 AAAATAAT-ATATT
11333307 ATTTACCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 12 0.35
15 19 0.56
16 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATAATATATTTA
Found at i:11339785 original size:2 final size:2
Alignment explanation
Indices: 11339767--11339806 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
11339757 AGTCTTCATT
* *
11339767 TA TA TG TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11339807 AACAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11346186 original size:15 final size:15
Alignment explanation
Indices: 11346168--11346201 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11346158 AATGTTATCA
* *
11346168 TATCATATTTTATAT
1 TATCATATCTAATAT
11346183 TATCATATCTAATAT
1 TATCATATCTAATAT
11346198 TATC
1 TATC
11346202 TGTATTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
TATCATATCTAATAT
Found at i:11346200 original size:20 final size:20
Alignment explanation
Indices: 11346162--11346200 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11346152 TTGTGAAATG
*
11346162 TTATCATATCATATTTTATA
1 TTATCATATCATATATTATA
11346182 TTATCATATC-TAATATTAT
1 TTATCATATCAT-ATATTAT
11346201 CTGTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATCATATCATATATTATA
Found at i:11369165 original size:21 final size:22
Alignment explanation
Indices: 11369141--11369182 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11369131 CCATTCTCTT
*
11369141 TTTTC-TCTTTATTTTTTTGGA
1 TTTTCTTCTTTATTTTCTTGGA
*
11369162 TTTTCTTCTTTCTTTTCTTGG
1 TTTTCTTCTTTATTTTCTTGG
11369183 TTTGCGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTCTTCTTTATTTTCTTGGA
Done.