Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 40 of 109
Found at i:6356959 original size:59 final size:53
Alignment explanation
Indices: 6356867--6357002 Score: 161
Period size: 59 Copynumber: 2.5 Consensus size: 53
6356857 TATTAATATA
* * * *
6356867 TATTTAT-T-TTATT-TTATTATTTTTATTATTTATCTGTTGATATATATGTATTAT
1 TATTTATCTATTATTATTATTATTATTATTACTTATCTCTT--TA-A-ATATATTAT
6356921 TATTTATCTATTTATCTATTATTATTATTATTACTTATCTCTTTAAATATATTAT
1 TATTTATCTA-TTAT-TATTATTATTATTATTACTTATCTCTTTAAATATATTAT
6356976 TATTTATCTATTATTATTATTATTATT
1 TATTTATCTATTATTATTATTATTATT
6357003 TATCTATTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
53 13 0.18
54 11 0.15
55 19 0.26
56 1 0.01
57 6 0.08
58 1 0.01
59 22 0.30
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (53 bp):
TATTTATCTATTATTATTATTATTATTATTACTTATCTCTTTAAATATATTAT
Found at i:6357055 original size:8 final size:8
Alignment explanation
Indices: 6357030--6357063 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
6357020 ATTATCCTTA
6357030 TTATTATCT
1 TTATTAT-T
*
6357039 TTTTTATT
1 TTATTATT
6357047 TTATTATT
1 TTATTATT
6357055 TTATTATT
1 TTATTATT
6357063 T
1 T
6357064 ACTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:6357975 original size:21 final size:21
Alignment explanation
Indices: 6357951--6358023 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
6357941 ATTAGATTAG
6357951 ATTTGTTTAATATT-TT-TTTTT
1 ATTT-TTT-ATATTCTTATTTTT
*
6357972 ATTTTTTTTATTCTTATTTTT
1 ATTTTTTATATTCTTATTTTT
* * *
6357993 ATTTTATTTTATTTTTATTTTA
1 ATTTT-TTATATTCTTATTTTT
*
6358015 ATTTATTAT
1 ATTTTTTAT
6358024 TTTATTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.09
20 5 0.11
21 17 0.39
22 18 0.41
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (21 bp):
ATTTTTTATATTCTTATTTTT
Found at i:6357991 original size:22 final size:23
Alignment explanation
Indices: 6357966--6358013 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
6357956 TTTAATATTT
6357966 TTTTTTATTTT-TTTTATTCTTA
1 TTTTTTATTTTATTTTATTCTTA
*
6357988 -TTTTTATTTTATTTTATTTTTA
1 TTTTTTATTTTATTTTATTCTTA
6358010 TTTT
1 TTTT
6358014 AATTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 10 0.43
23 3 0.13
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTTATTTTATTTTATTCTTA
Found at i:6358004 original size:16 final size:16
Alignment explanation
Indices: 6357961--6358031 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
6357951 ATTTGTTTAA
*
6357961 TATTTTTTTTTA-TTT
1 TATTTTATTTTATTTT
6357976 T-TTTTATTCTTATTTT
1 TATTTTATT-TTATTTT
6357992 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
*
6358008 TATTTTAATTTATTATTT
1 TATTTTATTTTA-T-TTT
6358026 TATTTT
1 TATTTT
6358032 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.12
15 4 0.08
16 22 0.45
17 8 0.16
18 9 0.18
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.80
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:6358014 original size:5 final size:5
Alignment explanation
Indices: 6357961--6358031 Score: 76
Period size: 5 Copynumber: 14.2 Consensus size: 5
6357951 ATTTGTTTAA
*
6357961 TATTT TTTTT TATTT T-TTT TATTCT TATTTT TATTT TATTT TATTTT
1 TATTT TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TA-TTT
*
6358008 TATTT TAATT TA--T TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
6358032 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 37 0.65
6 11 0.19
7 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:6358116 original size:58 final size:57
Alignment explanation
Indices: 6358044--6358377 Score: 358
Period size: 58 Copynumber: 5.8 Consensus size: 57
6358034 TTAAATAAAA
6358044 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-T
* *
6358102 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAGTT
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-T
* *
6358160 TTCTAAAAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAGT
1 TTC---AAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
*** * *
6358220 CTTCAAAAATGGATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTT-AGAAACAAGTT
1 -TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAG-T
** * * *
6358279 TTCAAAAGTGA-ATTTTTGAGGAAAAGTTAAAAGTATCAATTTT--TTCGAAATTAAAAGT
1 TTCAAAA-AAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAA--ATAAGT
* *
6358337 TTC-AAAAAATA-TTTTGAGGAAAAGTTGAAAGTACCAATTTT
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
6358378 TCCTATACAA
Statistics
Matches: 239, Mismatches: 23, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
56 31 0.13
57 7 0.03
58 140 0.59
59 8 0.03
60 4 0.02
61 49 0.21
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (57 bp):
TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
Found at i:6358145 original size:28 final size:28
Alignment explanation
Indices: 6358056--6358145 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 28
6358046 CAAAAAAATA
6358056 TTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAT
* *
6358084 TTTCCTTGA-AAATAAGCTTTCAAA--A-AAAT
1 TTT--TTGAGAAA-AAG--TTGAAAGTATCAAT
6358113 ATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 -TTTTTGAGAAAAAGTTGAAAGTATCAAT
6358142 TTTT
1 TTTT
6358146 CTTTAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
26 5 0.10
28 15 0.31
29 12 0.25
30 11 0.23
32 5 0.10
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (28 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAAT
Found at i:6358193 original size:119 final size:118
Alignment explanation
Indices: 6358047--6358381 Score: 400
Period size: 119 Copynumber: 2.9 Consensus size: 118
6358037 AATAAAATTC
6358047 AAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAA
1 AAAAAAATATTTTTAGAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTCAAAAAA
* *
6358111 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTTA-AAATAAGTTTTCTAA
64 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTAGAAACAAGTTTTC-AA
* * **
6358166 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAGTCTTCAAAAATG
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT-TTCAAAAAAA
* *
6358231 GATTTTTGAGAAAAAATTGAAAGTATCAA-TTTTCCTTAGAAACAAGTTTTCAA
65 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTAGAAACAAGTTTTCAA
*** * * *
6358284 AAGTGAAT-TTTTGAG-GAAAAGTTAAAAGTATCAATTTT--TTCGAAATTAAAAGTTTC-AAAA
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAA--ATAAGTTTCAAAAA
* *
6358344 AATA-TTTTGAGGAAAAGTTGAAAGTACCAATTTTTCCT
63 AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCT
6358382 ATACAAAAGC
Statistics
Matches: 187, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
114 25 0.13
115 15 0.08
116 24 0.13
117 11 0.06
118 16 0.09
119 93 0.50
120 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCAAAAAAAT
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTAGAAACAAGTTTTCAA
Found at i:6360169 original size:12 final size:12
Alignment explanation
Indices: 6360158--6360197 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6360148 TTTATGAAAT
6360158 ATTTTAA-AAAA
1 ATTTTAATAAAA
*
6360169 TAATTTAATAAAA
1 -ATTTTAATAAAA
6360182 ATTTTAATAAAA
1 ATTTTAATAAAA
6360194 ATTT
1 ATTT
6360198 AAATTAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTTAATAAAA
Found at i:6360872 original size:2 final size:2
Alignment explanation
Indices: 6360860--6360891 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6360850 TGCCTCATTG
*
6360860 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6360892 CATGTCAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6362841 original size:10 final size:10
Alignment explanation
Indices: 6362814--6362846 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6362804 GAATGTGTTT
6362814 AATAT-ATAA
1 AATATGATAA
6362823 AATTATGATAA
1 AA-TATGATAA
6362834 AATATGATAA
1 AATATGATAA
6362844 AAT
1 AAT
6362847 GATATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 14 0.64
11 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
AATATGATAA
Found at i:6363448 original size:18 final size:19
Alignment explanation
Indices: 6363418--6363455 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6363408 ACAATTATTG
6363418 AATAATAATTAAC-AAACA
1 AATAATAATTAACTAAACA
6363436 AATAA-AATATAACTAAACA
1 AATAATAAT-TAACTAAACA
6363455 A
1 A
6363456 CCAAATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 9 0.50
19 6 0.33
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAATAATTAACTAAACA
Found at i:6366340 original size:2 final size:2
Alignment explanation
Indices: 6366333--6366358 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6366323 CATTTTCCAC
6366333 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
6366359 ACTCATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6371519 original size:24 final size:23
Alignment explanation
Indices: 6371473--6371519 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6371463 TAAATTATTA
*
6371473 TTATCACTGATAGTATATAAAAT
1 TTATCACTGATAATATATAAAAT
* *
6371496 TTATACACTGATAATGTATCAAAT
1 TTAT-CACTGATAATATATAAAAT
6371520 ATAAATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (23 bp):
TTATCACTGATAATATATAAAAT
Found at i:6372137 original size:2 final size:2
Alignment explanation
Indices: 6372130--6372175 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6372120 TTCAAAGCCA
*
6372130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6372172 AT AT
1 AT AT
6372176 TCCTTAGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6375048 original size:17 final size:17
Alignment explanation
Indices: 6375022--6375054 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6375012 TTCGATATTG
6375022 CTTCTATAATTTTTTAT
1 CTTCTATAATTTTTTAT
*
6375039 CTTCTTTAATTTTTTA
1 CTTCTATAATTTTTTA
6375055 GCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTCTATAATTTTTTAT
Found at i:6382286 original size:18 final size:18
Alignment explanation
Indices: 6382259--6382305 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
6382249 CCATAACTCA
*
6382259 AAACCGCATTCCTTGAAG
1 AAACCACATTCCTTGAAG
6382277 AAACCACATTCCTTGAAG
1 AAACCACATTCCTTGAAG
6382295 AAACCACATTC
1 AAACCACATTC
6382306 AACAAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (18 bp):
AAACCACATTCCTTGAAG
Found at i:6386446 original size:23 final size:23
Alignment explanation
Indices: 6386419--6386468 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6386409 TTTTTAAACT
* *
6386419 TTATTTTGAGT-TATAAATAATTA
1 TTATTTTGA-TATAAAAATAATAA
6386442 TTATTTTGATATAAAAATAATAA
1 TTATTTTGATATAAAAATAATAA
6386465 TTAT
1 TTAT
6386469 ATTCTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
TTATTTTGATATAAAAATAATAA
Found at i:6386563 original size:16 final size:15
Alignment explanation
Indices: 6386547--6386598 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
6386537 TTTATTAAAT
6386547 AAAATAATTATATAA
1 AAAATAATTATATAA
* *
6386562 TAAATAA--AAATAA
1 AAAATAATTATATAA
6386575 AAATATAATTATAT-A
1 AAA-ATAATTATATAA
6386590 AAAATAATT
1 AAAATAATT
6386599 TTATTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 7 0.23
14 10 0.33
15 10 0.33
16 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAATTATATAA
Found at i:6386573 original size:21 final size:22
Alignment explanation
Indices: 6386540--6386598 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
6386530 CAACTTATTT
6386540 ATTAAAT-AAAATAATTATATA
1 ATTAAATAAAAATAATTATATA
**
6386561 A-TAAATAAAAATAAAAATATA
1 ATTAAATAAAAATAATTATATA
*
6386582 ATTATATAAAAATAATT
1 ATTAAATAAAAATAATT
6386599 TTATTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.16
21 14 0.45
22 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTAAATAAAAATAATTATATA
Found at i:6411998 original size:16 final size:16
Alignment explanation
Indices: 6411977--6412033 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
6411967 ACATATAAAA
6411977 TAAAAATATTAATAAT
1 TAAAAATATTAATAAT
*
6411993 TAAAAATAATAA-ATAT
1 TAAAAATATTAATA-AT
**
6412009 TATTAATAATTAATAAT
1 TAAAAAT-ATTAATAAT
*
6412026 AAAAAATA
1 TAAAAATA
6412034 AACATTGACT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 1 0.03
16 19 0.61
17 10 0.32
18 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATATTAATAAT
Found at i:6412009 original size:23 final size:22
Alignment explanation
Indices: 6411973--6412028 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
6411963 AATAACATAT
6411973 AAAATAA-AAATATTAATAATTA
1 AAAATAATAAATATTAATAA-TA
*
6411995 AAAATAATAAATATTATTAATA
1 AAAATAATAAATATTAATAATA
*
6412017 ATTAATAATAAA
1 A-AAATAATAAA
6412029 AAATAAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAATAAATATTAATAATA
Found at i:6412019 original size:26 final size:26
Alignment explanation
Indices: 6411975--6412034 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6411965 TAACATATAA
6411975 AATAAA-AATATTAATAATTAAAAAT
1 AATAAATAATATTAATAATTAAAAAT
* *
6412000 AATAAATATTATTAATAATTAATAAT
1 AATAAATAATATTAATAATTAAAAAT
*
6412026 AAAAAATAA
1 AATAAATAA
6412035 ACATTGACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAAATAATATTAATAATTAAAAAT
Found at i:6412955 original size:19 final size:19
Alignment explanation
Indices: 6412931--6412972 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6412921 ACGGAAAGTG
6412931 ATAATAATT-TAAAATTTTA
1 ATAATAATTATAAAA-TTTA
*
6412950 ATAATAATTATATAATTTA
1 ATAATAATTATAAAATTTA
6412969 ATAA
1 ATAA
6412973 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAATTATAAAATTTA
Found at i:6413529 original size:45 final size:45
Alignment explanation
Indices: 6413478--6413567 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
6413468 TTTAATCTAT
*
6413478 AACATTATGTATTAATTCAAATAATAAAATCCATATCGTTATTAC
1 AACATTATGTATTAATTCAAATAATAAAATCCATACCGTTATTAC
*
6413523 AACATTATGTATTAATTCAAATAATCAAATCCATACCGTTATTAC
1 AACATTATGTATTAATTCAAATAATAAAATCCATACCGTTATTAC
6413568 TCATAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (45 bp):
AACATTATGTATTAATTCAAATAATAAAATCCATACCGTTATTAC
Found at i:6418433 original size:8 final size:8
Alignment explanation
Indices: 6418420--6418460 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
6418410 CAAATGCATG
6418420 CATTCATA
1 CATTCATA
6418428 CATTCATA
1 CATTCATA
6418436 CATAT-ATA
1 CAT-TCATA
6418444 CATTTCATA
1 CA-TTCATA
6418453 CATTCATA
1 CATTCATA
6418461 TGCATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (8 bp):
CATTCATA
Found at i:6421569 original size:83 final size:83
Alignment explanation
Indices: 6421427--6421592 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
6421417 ATGAAGCTCG
6421427 AAGAGAAATGGTAAGAGAAATTAAGATACCATTATAGATTGGTCATTATACCTTCAACATCAAAT
1 AAGAGAAATGGTAAGAGAAATTAAGATACCATTATAGATTGGTCATTATACCTTCAACATCAAAT
6421492 TTTATGTGATGGATATTT
66 TTTATGTGATGGATATTT
*
6421510 AAGAGAAATGGTAAGAGAAATTAAGATACCATTATAGATTGGTCATTATACCTTTAACATCAAAT
1 AAGAGAAATGGTAAGAGAAATTAAGATACCATTATAGATTGGTCATTATACCTTCAACATCAAAT
6421575 TTTATGTGATGGATATTT
66 TTTATGTGATGGATATTT
6421593 TACCATCATA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (83 bp):
AAGAGAAATGGTAAGAGAAATTAAGATACCATTATAGATTGGTCATTATACCTTCAACATCAAAT
TTTATGTGATGGATATTT
Found at i:6426162 original size:15 final size:15
Alignment explanation
Indices: 6426142--6426209 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 15
6426132 TAGAGTTACA
6426142 TTCATAAACATTGCT
1 TTCATAAACATTGCT
* *
6426157 TTCAT--ACGTTGCA
1 TTCATAAACATTGCT
*
6426170 TTCATAAATATTGCT
1 TTCATAAACATTGCT
*
6426185 TTCAT--GCATTG-T
1 TTCATAAACATTGCT
6426197 ATTCATAAACATT
1 -TTCATAAACATT
6426210 ACATTCATGT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.03
13 20 0.50
15 19 0.47
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.43
Consensus pattern (15 bp):
TTCATAAACATTGCT
Found at i:6426215 original size:15 final size:15
Alignment explanation
Indices: 6426140--6426217 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 15
6426130 ATTAGAGTTA
6426140 CATTCATAAACATTG
1 CATTCATAAACATTG
* *
6426155 CTTTCAT--ACGTTG
1 CATTCATAAACATTG
*
6426168 CATTCATAAATATTG
1 CATTCATAAACATTG
* *
6426183 CTTTCAT--GCATTG
1 CATTCATAAACATTG
* *
6426196 TATTCATAAACATTA
1 CATTCATAAACATTG
6426211 CATTCAT
1 CATTCAT
6426218 GTAATTTGTT
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
13 20 0.43
15 26 0.57
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (15 bp):
CATTCATAAACATTG
Found at i:6426216 original size:28 final size:28
Alignment explanation
Indices: 6426140--6426218 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
6426130 ATTAGAGTTA
* *
6426140 CATTCATAAACATTGCTTTCATACGTTG
1 CATTCATAAACATTGCTTTCATGCATTG
*
6426168 CATTCATAAATATTGCTTTCATGCATTG
1 CATTCATAAACATTGCTTTCATGCATTG
* * *
6426196 TATTCATAAACATTACATTCATG
1 CATTCATAAACATTGCTTTCATG
6426219 TAATTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.41
Consensus pattern (28 bp):
CATTCATAAACATTGCTTTCATGCATTG
Found at i:6427080 original size:87 final size:87
Alignment explanation
Indices: 6426907--6427316 Score: 370
Period size: 87 Copynumber: 4.7 Consensus size: 87
6426897 AGCTTTTGTT
** *
6426907 AACCTTTTATATTTTTCAAAAGTTACTGAGCCTCTATTGAGA-AGAACCTTTTATA-TTTTCAAA
1 AACCTTTTATATTTTT-AAAAGTTGTTGAGCCTCTATTGAGATA-AGCCTTTTATATTTTTCAAA
* *
6426970 AATTGTTGAATCTCTATTAAGAGA
64 AGTTGTTGAACCTCTATTAAGAGA
6426994 AACCTTTTATATTTTTAAAAGTTGTTGAGCCTCTATTGAGATAAGCCTTTTATATTTTTCAAAAG
1 AACCTTTTATATTTTTAAAAGTTGTTGAGCCTCTATTGAGATAAGCCTTTTATATTTTTCAAAAG
* * *
6427059 TTGTTAAACCTCTGTTTAGAGA
66 TTGTTGAACCTCTATTAAGAGA
** * * * * *
6427081 AGTCTTTTATATTCTTCAAAAGTTGTTGAGGCC-CTGTTAAGATTAGCCCTTTATA-TTTTCAAA
1 AACCTTTTATATT-TTTAAAAGTTGTTGA-GCCTCTATTGAGATAAGCCTTTTATATTTTTCAAA
* * * *
6427144 AGTTGTTGAGCCTTTGTTTAGAG-
64 AGTTGTTGAACCTCTATTAAGAGA
* * * * *
6427167 -GCGCTTTTAATATTTTTCAAAGTTGCTGA-CCTCTATTTA-AAAGAGCCTTTTATATTTTTCAA
1 AAC-CTTTT-ATATTTTTAAAAGTTGTTGAGCCTCTATTGAGATA-AGCCTTTTATATTTTTCAA
** *
6427229 AAGTTGTTGAGTCTCTATTAAAAGA
63 AAGTTGTTGAACCTCTATTAAGAGA
* * * * * * * *
6427254 AACATTTTATATTTTCAAAAGTTATTTAGCCT-TAGTTTAGAGAAGCTTTTTATATTGTTCAAA
1 AACCTTTTATATTTTTAAAAGTTGTTGAGCCTCTA-TTGAGATAAGCCTTTTATATTTTTCAAA
6427317 GAGTCTGAGT
Statistics
Matches: 267, Mismatches: 42, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
84 3 0.01
85 16 0.06
86 93 0.35
87 117 0.44
88 35 0.13
89 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (87 bp):
AACCTTTTATATTTTTAAAAGTTGTTGAGCCTCTATTGAGATAAGCCTTTTATATTTTTCAAAAG
TTGTTGAACCTCTATTAAGAGA
Found at i:6427088 original size:44 final size:44
Alignment explanation
Indices: 6426909--6427316 Score: 381
Period size: 43 Copynumber: 9.4 Consensus size: 44
6426899 CTTTTGTTAA
** *
6426909 CCTTTTATATTTTTCAAAAGTTACTGAGCCTCTATTGAGAAGAA-
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAG-AGAAG
* ** * *
6426953 CCTTTTATA-TTTTCAAAAATTGTTGAATCTCTATTAAGAGAAA
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
* *
6426996 CCTTTTATATTTTT-AAAAGTTGTTGAGCCTCTATTGAGATAAG
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
* * *
6427039 CCTTTTATATTTTTCAAAAGTTGTTAAACCTCTGTTTAGAGAAG
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
* * * * **
6427083 TCTTTTATATTCTTCAAAAGTTGTTGAGGCC-CTGTTAAGATTAG
1 CCTTTTATATTTTTCAAAAGTTGTTGA-GCCTCTATTTAGAGAAG
* * *
6427127 CCCTTTATA-TTTTCAAAAGTTGTTGAGCCTTTGTTTAGAG--G
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
* *
6427168 CGCTTTTAATATTTTTC-AAAGTTGCTGA-CCTCTATTTA-AAAGAG
1 C-CTTTT-ATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGA-AG
* * * *
6427212 CCTTTTATATTTTTCAAAAGTTGTTGAGTCTCTATTAAAAGAAA
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
* * *
6427256 CATTTTATA-TTTTCAAAAGTTATTTAGCCT-TAGTTTAGAGAAG
1 CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTA-TTTAGAGAAG
* *
6427299 CTTTTTATATTGTTCAAA
1 CCTTTTATATTTTTCAAA
6427317 GAGTCTGAGT
Statistics
Matches: 299, Mismatches: 49, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.01
42 30 0.10
43 153 0.51
44 109 0.36
45 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (44 bp):
CCTTTTATATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGAAG
Found at i:6427922 original size:17 final size:16
Alignment explanation
Indices: 6427895--6427926 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6427885 AAAGGTTCAA
6427895 TTTTGGTTTTTTTTTT
1 TTTTGGTTTTTTTTTT
6427911 TTTTGAGTTTTTTTTT
1 TTTTG-GTTTTTTTTT
6427927 AAAAATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTGGTTTTTTTTTT
Found at i:6428377 original size:15 final size:15
Alignment explanation
Indices: 6428343--6428390 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
6428333 TTTTTCTTTG
*
6428343 ATTTT-TTGT-TTTG
1 ATTTTATTGTATTTA
*
6428356 ATTTTATTTTATTTA
1 ATTTTATTGTATTTA
*
6428371 GTTTTATTGTATTTA
1 ATTTTATTGTATTTA
6428386 ATTTT
1 ATTTT
6428391 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 5 0.18
14 3 0.11
15 20 0.71
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (15 bp):
ATTTTATTGTATTTA
Found at i:6428399 original size:29 final size:27
Alignment explanation
Indices: 6428333--6428407 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
6428323 TCCTTTTTTA
* *
6428333 TTTTTCTTTGATTTT-TTGTTTTGATT
1 TTTTTCTTTTATTTTATTGTTTTAATT
6428359 TTATTT-TATTTAGTTTTATTGTATTTAATT
1 TT-TTTCT-TTTA-TTTTATTGT-TTTAATT
6428389 TTTTTCTTTTATTTATATT
1 TTTTTCTTTTATTT-TATT
6428408 TTGATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 3 0.08
27 6 0.15
28 7 0.17
29 15 0.38
30 9 0.22
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTTTCTTTTATTTTATTGTTTTAATT
Found at i:6428507 original size:18 final size:18
Alignment explanation
Indices: 6428484--6428530 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
6428474 TGAAGCGTAA
6428484 ATAAAA-TTTCATCCAATG
1 ATAAAACTTT-ATCCAATG
6428502 ATAAAACTTTATCCAATG
1 ATAAAACTTTATCCAATG
*
6428520 ATGAAACTTTA
1 ATAAAACTTTA
6428531 AAAAAGTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAAAACTTTATCCAATG
Found at i:6440113 original size:14 final size:16
Alignment explanation
Indices: 6440083--6440115 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
6440073 ATTCATTAGC
6440083 AAAATCAATATCCCAG
1 AAAATCAATATCCCAG
6440099 AAAATCAA-A-CCCAG
1 AAAATCAATATCCCAG
6440113 AAA
1 AAA
6440116 CAGTTTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.58, C:0.24, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATCAATATCCCAG
Found at i:6440490 original size:2 final size:2
Alignment explanation
Indices: 6440483--6440513 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6440473 GATTATCATG
6440483 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6440514 GTATTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6452609 original size:26 final size:25
Alignment explanation
Indices: 6452580--6452634 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
6452570 TTAATTTTTT
*
6452580 ATTTAAATTCAAATACAAATAATTAA
1 ATTTAAAATCAAATACAAA-AATTAA
* *
6452606 ATTTAAAATCGAATACGAAAATTAA
1 ATTTAAAATCAAATACAAAAATTAA
6452631 ATTT
1 ATTT
6452635 TTTTATTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTAAAATCAAATACAAAAATTAA
Found at i:6455102 original size:25 final size:24
Alignment explanation
Indices: 6455049--6455105 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
6455039 TCATAAAAAT
*
6455049 TAATTTTAAAATATAAAAAAGTAA
1 TAATTTTAAAATATAAAAAAGGAA
* *
6455073 GAATTTT-ATATATTAAAAAAGGATA
1 TAATTTTAAAATA-TAAAAAAGGA-A
6455098 TAATTTTA
1 TAATTTTA
6455106 GGATATCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.15
24 15 0.58
25 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATTTTAAAATATAAAAAAGGAA
Found at i:6459285 original size:14 final size:15
Alignment explanation
Indices: 6459260--6459290 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6459250 TTTATATTCA
6459260 TTTAAGATTTATTTG
1 TTTAAGATTTATTTG
6459275 TTTAA-ATTTATTTG
1 TTTAAGATTTATTTG
6459289 TT
1 TT
6459291 ATGATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (15 bp):
TTTAAGATTTATTTG
Found at i:6461642 original size:18 final size:19
Alignment explanation
Indices: 6461619--6461660 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
6461609 ACTTTTTTTT
6461619 TTTATAAAAATAATTAAG-
1 TTTATAAAAATAATTAAGA
*
6461637 TTTATACAAATAATTAAGA
1 TTTATAAAAATAATTAAGA
6461656 TTTAT
1 TTTAT
6461661 TATTTGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
TTTATAAAAATAATTAAGA
Found at i:6463890 original size:20 final size:21
Alignment explanation
Indices: 6463852--6463894 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6463842 CATAGTGAAA
*
6463852 ATATTTCCTATATAAAATAAT
1 ATATTTCCTATAGAAAATAAT
6463873 ATATTTCCTAT-GAAAATAAT
1 ATATTTCCTATAGAAAATAAT
6463893 AT
1 AT
6463895 TTTTTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATTTCCTATAGAAAATAAT
Found at i:6466151 original size:27 final size:27
Alignment explanation
Indices: 6466121--6466174 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6466111 ATGATGATAA
*
6466121 GGACACGAGATCTTTTGAGAATTCTTC
1 GGACACGAGATCTTTTAAGAATTCTTC
*
6466148 GGACAGGAGATCTTTTAAGAATTCTTC
1 GGACACGAGATCTTTTAAGAATTCTTC
6466175 ACGCAATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (27 bp):
GGACACGAGATCTTTTAAGAATTCTTC
Found at i:6472909 original size:13 final size:12
Alignment explanation
Indices: 6472882--6472933 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
6472872 GATAAATTTA
*
6472882 ATAATTTAAAAT
1 ATAATATAAAAT
6472894 ATAATATAATAAT
1 ATAATATAA-AAT
*
6472907 ATAATAT-AAGT
1 ATAATATAAAAT
*
6472918 ATAATAAAAAAT
1 ATAATATAAAAT
6472930 ATAA
1 ATAA
6472934 AAATAATACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 8 0.24
12 16 0.47
13 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:6472914 original size:18 final size:18
Alignment explanation
Indices: 6472888--6472941 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
6472878 TTTAATAATT
6472888 TAAAATATAATATAATAA
1 TAAAATATAATATAATAA
*
6472906 TATAATATAAGTATAATAA
1 TAAAATATAA-TATAATAA
6472925 -AAAATATAA-A-AATAA
1 TAAAATATAATATAATAA
6472940 TA
1 TA
6472942 CGATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.16
16 2 0.06
18 17 0.53
19 8 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAATATAATATAATAA
Found at i:6482688 original size:138 final size:139
Alignment explanation
Indices: 6482435--6482716 Score: 453
Period size: 138 Copynumber: 2.0 Consensus size: 139
6482425 TTGCATCTGT
*
6482435 ATTGACAAAATTTTGATTGAAAGAAGGTCTCATTGATGAGCTAAAAGCCTCCCTTGGAGGATTCC
1 ATTGACAAAATTTTGATTGAAAGAAGGTCTCATTGATGAGCTAAAAGCCTCCCTTGAAGGATTCC
* *
6482500 TCTTTCCAGCACTTACTTTGGTCTTTAGAGCCATGAAAATGATGGGATAAT-AGAAATAGATAGG
66 TCTTTCCAACACTTACTTTGGTCTTTAGAGCCATGAAAATGATGAGATAATGA-AAATAGATAGG
6482564 TTGATGTGAA
130 TTGATGTGAA
* *
6482574 ATTG-CAAAATTTTGATTGAAAGAA-GTCCTCATTTATGAGCTAGAAGCCTCCCTTGAAGGATTC
1 ATTGACAAAATTTTGATTGAAAGAAGGT-CTCATTGATGAGCTAAAAGCCTCCCTTGAAGGATTC
* * *
6482637 CTCTTTCCAACATTTACTTTGGTCTTTGGAGCCATGAAAATGGTGAGATAATGAAAATAGATAGG
65 CTCTTTCCAACACTTACTTTGGTCTTTAGAGCCATGAAAATGATGAGATAATGAAAATAGATAGG
6482702 TTGATGTGAA
130 TTGATGTGAA
6482712 ATTGA
1 ATTGA
6482717 TGAGATAATT
Statistics
Matches: 132, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
137 2 0.02
138 125 0.95
139 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (139 bp):
ATTGACAAAATTTTGATTGAAAGAAGGTCTCATTGATGAGCTAAAAGCCTCCCTTGAAGGATTCC
TCTTTCCAACACTTACTTTGGTCTTTAGAGCCATGAAAATGATGAGATAATGAAAATAGATAGGT
TGATGTGAA
Found at i:6484385 original size:22 final size:22
Alignment explanation
Indices: 6484359--6484402 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6484349 TGTATATTTA
*
6484359 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6484381 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6484403 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:6499486 original size:2 final size:2
Alignment explanation
Indices: 6499479--6499507 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6499469 GAAGCCACAA
6499479 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6499508 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6504676 original size:6 final size:6
Alignment explanation
Indices: 6504665--6504692 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6504655 AAACTTCCTC
6504665 TTTCTA TTTCTA TTTCTA TTTCTA TTTC
1 TTTCTA TTTCTA TTTCTA TTTCTA TTTC
6504693 CTTTTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCTA
Found at i:6511975 original size:3 final size:3
Alignment explanation
Indices: 6511967--6512004 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
6511957 CCTGCATCGA
6511967 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
6512005 CAACATAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6516320 original size:17 final size:17
Alignment explanation
Indices: 6516298--6516331 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6516288 TTTTTAAATT
6516298 AAAATT-AAACTTGAAAA
1 AAAATTGAAACTT-AAAA
6516315 AAAATTGAAACTTAAAA
1 AAAATTGAAACTTAAAA
6516332 TATTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAATTGAAACTTAAAA
Found at i:6523360 original size:12 final size:13
Alignment explanation
Indices: 6523327--6523364 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
6523317 TGGTATAGTC
6523327 AAATAATATAAATA
1 AAATAATAT-AATA
*
6523341 AAAAAATATAA-A
1 AAATAATATAATA
6523353 AAATAATATAAT
1 AAATAATATAAT
6523365 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 2 0.10
14 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAATATAATA
Found at i:6523398 original size:30 final size:29
Alignment explanation
Indices: 6523357--6523415 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
6523347 TATAAAAAAT
*
6523357 AATATAATTTAAAATTTTAATAAAAATTATA
1 AATATAATTTAAAATATT--TAAAAATTATA
6523388 AATA-AATTTAAAATATTTAAAAATTATA
1 AATATAATTTAAAATATTTAAAAATTATA
6523416 TTTTATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.41
30 12 0.44
31 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATATAATTTAAAATATTTAAAAATTATA
Found at i:6526123 original size:2 final size:2
Alignment explanation
Indices: 6526116--6526145 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6526106 ACAATATCTG
6526116 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6526146 GATAGAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6534235 original size:14 final size:14
Alignment explanation
Indices: 6534216--6534242 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6534206 ATTCACAATT
6534216 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
6534230 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
6534243 ATTCAAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:6534849 original size:20 final size:20
Alignment explanation
Indices: 6534813--6534856 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6534803 CTTACATATA
* *
6534813 TATTTAATAAATAAAATTTT
1 TATTAAATAAATAAAATTAT
6534833 TATTAAAT-AATATAAATTAT
1 TATTAAATAAATA-AAATTAT
6534853 TATT
1 TATT
6534857 TTGATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAAATAAATAAAATTAT
Found at i:6539170 original size:130 final size:130
Alignment explanation
Indices: 6538967--6539209 Score: 309
Period size: 130 Copynumber: 1.9 Consensus size: 130
6538957 TAAAGAAAAG
* * * *
6538967 AAAAAAGTACAAATTTTTAAATATAAAATAATATTATACCTTTTATTATTTTTTAATTTTTAAAA
1 AAAAAAGGACAAATTTTTAAATATAAAATAATATTATACCTTCTATTATTTGTTAATTTTCAAAA
* * * *
6539032 ATATATTGCAAGTTTGATAAGATATGTTAATATTTATTT-TTTTTAATAAAAACAAACAGGCCAA
66 ATACATTGCAAGCTTAACAAG-TA-G-TAATATTTATTTATTTTTAATAAAAACAAACAGGCCAA
6539096 ACA
128 ACA
6539099 AAAAAAGGACTAAATTTTTTAAATATAAAATAATATT-TACAC-TCTA-T-TTTGTT-ATTTTCA
1 AAAAAAGGAC-AAA-TTTTTAAATATAAAATAATATTATAC-CTTCTATTATTTGTTAATTTTCA
*
6539159 AAAATACATTGCAAGCTTAACAAGTAGTAATATTTATTTATTTTTATTAAA
63 AAAATACATTGCAAGCTTAACAAGTAGTAATATTTATTTATTTTTAATAAA
6539210 CTCAAACCCT
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
127 12 0.12
128 11 0.11
129 2 0.02
130 26 0.27
131 5 0.05
132 10 0.10
133 9 0.09
134 23 0.23
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (130 bp):
AAAAAAGGACAAATTTTTAAATATAAAATAATATTATACCTTCTATTATTTGTTAATTTTCAAAA
ATACATTGCAAGCTTAACAAGTAGTAATATTTATTTATTTTTAATAAAAACAAACAGGCCAAACA
Found at i:6540419 original size:28 final size:25
Alignment explanation
Indices: 6540355--6540421 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 25
6540345 TTATTTTTAC
6540355 ATGTTAAATAAATAAATAAATTTTT
1 ATGTTAAATAAATAAATAAATTTTT
*
6540380 -TATTACAA-AAATAAATAAATATTTAAT
1 ATGTTA-AATAAATAAATAAAT-TTT--T
6540407 ATGTTAAATAAATAA
1 ATGTTAAATAAATAA
6540422 TTTAACTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 16 0.47
25 5 0.15
27 3 0.09
28 10 0.29
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (25 bp):
ATGTTAAATAAATAAATAAATTTTT
Found at i:6541929 original size:89 final size:89
Alignment explanation
Indices: 6541778--6541957 Score: 333
Period size: 89 Copynumber: 2.0 Consensus size: 89
6541768 GCTTAATGGA
6541778 TTAATCTTATTACACTTTAAGCAACTGGCATTGATGGCTTCTAGCAAAAGTCTACAACATTCTCA
1 TTAATCTTATTACACTTTAAGCAACTGGCATTGATGGCTTCTAGCAAAAGTCTACAACATTCTCA
*
6541843 AAGTCAAACACAAAAACATTAATT
66 AAGTCAAACAAAAAAACATTAATT
* *
6541867 TTAATCTTATTACACTTTAAGCAACTGGCATTGATGGCTTCTAGCAAAAGTCTACAATATTCTTA
1 TTAATCTTATTACACTTTAAGCAACTGGCATTGATGGCTTCTAGCAAAAGTCTACAACATTCTCA
6541932 AAGTCAAACAAAAAAACATTAATT
66 AAGTCAAACAAAAAAACATTAATT
6541956 TT
1 TT
6541958 CTATCTTGTG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (89 bp):
TTAATCTTATTACACTTTAAGCAACTGGCATTGATGGCTTCTAGCAAAAGTCTACAACATTCTCA
AAGTCAAACAAAAAAACATTAATT
Found at i:6542969 original size:22 final size:22
Alignment explanation
Indices: 6542941--6542987 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
6542931 AATTTAAAAT
*
6542941 TTTAATAATAAT-TAAATATATA
1 TTTAATAA-AATATAAAAATATA
6542963 TTTAATAAAATATAAAAATATA
1 TTTAATAAAATATAAAAATATA
6542985 TTT
1 TTT
6542988 TAAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAATAAAATATAAAAATATA
Found at i:6543024 original size:30 final size:30
Alignment explanation
Indices: 6542990--6543057 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
6542980 ATATATTTTA
*
6542990 AATTTTTATACAATATAAAT-TATAATATAT
1 AATTTTTATACAAAATAAATAT-TAATATAT
*
6543020 AATTTTTATATAAAATAAATATTAATATAT
1 AATTTTTATACAAAATAAATATTAATATAT
*
6543050 ATTTTTTA
1 AATTTTTA
6543058 GTAGTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
AATTTTTATACAAAATAAATATTAATATAT
Found at i:6545309 original size:366 final size:368
Alignment explanation
Indices: 6544868--6545543 Score: 1072
Period size: 366 Copynumber: 1.8 Consensus size: 368
6544858 TTTATATTTA
* * ** *
6544868 AAATTGTTAAAATTAAAATTATTATTTTTATTAATAAATTACACAATTATCATCAAATTTTTTTT
1 AAATTATTAAAATTAAAATTATTATTTTTATTAATAAATTACACAACTATCATCAAATAATTTTC
* *
6544933 TTTTTGATAACGATGAAATTGACATTTAAAGTTTGCAATTAAGAAGGTAACGACTTCATAAAACC
66 TTTTTGATAACGATGAAATTGACATTCAAAGTTTGCAATTAAGAAGATAACGACTTCATAAAACC
* *
6544998 TTTTCAAAATTTCAAGATTCCATATTACAACTTGTTTGACATTCTA-T-TAATAAATATGATAAT
131 TTTTCAAAATTTCAAGATTCCATATTACAACTTGTTTGACATCCTATTATAATAAATATAATAAT
* *
6545061 TTTAAATATAATATAATAATAAATAAAAAAGTAATATAAAAAATACTACATTTAAAAGTTTTAAT
196 TTTAAATATAATATAATAATAAATAAAAAAGTAATATAAAAAATAATACATTTAAAAGTTTTAAC
* *
6545126 AAAAGTTATATGAGTTTGATAAAAATAAAAATATATATTTTGTATTTAATGTATGATAAAAATTG
261 AAAAATTATATGAGTTTGATAAAAATAAAAATATATATTTTATATTTAATGTATGATAAAAATTG
6545191 TGATATAATAATTTTTATATTTTATATATATTAAATTTAAAAT
326 TGATATAATAATTTTTATATTTTATATATATTAAATTTAAAAT
* *
6545234 AAATTATTAAAATTAAAATT-TTATTATTTTATTTATAAATTACGCAACTATCATCAAA-AATTT
1 AAATTATTAAAATTAAAATTATTA-T-TTTTATTAATAAATTACACAACTATCATCAAATAATTT
* *
6545297 TCTTTTTGATAACGATGAAATTGACATTCAAATTTTGCAATTAAGAAGATAACGACTTCGTAAAA
64 TCTTTTTGATAACGATGAAATTGACATTCAAAGTTTGCAATTAAGAAGATAACGACTTCATAAAA
* * * * *
6545362 TCTTTTCAAAATTTCAAGATTTCATATTACAACTTGTTTGATATCCTATTAGTAATAGATCTAAT
129 CCTTTTCAAAATTTCAAGATTCCATATTACAACTTGTTTGACATCCTATTA-TAATAAATATAAT
**
6545427 AATTTTAAATATGGTATAATAATAAATAAAAAAGTAATATAAAAAATAATACATTTAAAAGTTTT
193 AATTTTAAATATAATATAATAATAAATAAAAAAGTAATATAAAAAATAATACATTTAAAAGTTTT
*
6545492 AACAAAAATTATATGAGTTTGATATAAATAAAAATATATATTTTATATTTAA
258 AACAAAAATTATATGAGTTTGATAAAAATAAAAATATATATTTTATATTTAA
6545544 CATATGACAT
Statistics
Matches: 280, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
365 3 0.01
366 127 0.45
367 30 0.11
369 120 0.43
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (368 bp):
AAATTATTAAAATTAAAATTATTATTTTTATTAATAAATTACACAACTATCATCAAATAATTTTC
TTTTTGATAACGATGAAATTGACATTCAAAGTTTGCAATTAAGAAGATAACGACTTCATAAAACC
TTTTCAAAATTTCAAGATTCCATATTACAACTTGTTTGACATCCTATTATAATAAATATAATAAT
TTTAAATATAATATAATAATAAATAAAAAAGTAATATAAAAAATAATACATTTAAAAGTTTTAAC
AAAAATTATATGAGTTTGATAAAAATAAAAATATATATTTTATATTTAATGTATGATAAAAATTG
TGATATAATAATTTTTATATTTTATATATATTAAATTTAAAAT
Found at i:6554207 original size:3 final size:3
Alignment explanation
Indices: 6554199--6554245 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6554189 AGTATTCTTG
6554199 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6554246 TTGGTTCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6554475 original size:2 final size:2
Alignment explanation
Indices: 6554468--6554506 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6554458 GGCGAGGAAG
6554468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6554507 TTGGCTCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6555336 original size:16 final size:17
Alignment explanation
Indices: 6555305--6555337 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6555295 ATATTTTATT
6555305 AATTAAAATAATAAAAA
1 AATTAAAATAATAAAAA
*
6555322 AATTTAAAT-ATAAAAA
1 AATTAAAATAATAAAAA
6555338 TTCAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAAAATAATAAAAA
Found at i:6556264 original size:17 final size:16
Alignment explanation
Indices: 6556244--6556282 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6556234 ATGAATAATT
*
6556244 ATTTAATAACAAATTCA
1 ATTTAATAA-AAATTAA
*
6556261 ATTTAATAAAATTTAA
1 ATTTAATAAAAATTAA
6556277 ATTTAA
1 ATTTAA
6556283 GTATCATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAATAAAAATTAA
Found at i:6557019 original size:14 final size:14
Alignment explanation
Indices: 6557000--6557030 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6556990 CAGGCCTCAT
*
6557000 GCTTCGAGCCAGTG
1 GCTTCGACCCAGTG
6557014 GCTTCGACCCAGTG
1 GCTTCGACCCAGTG
6557028 GCT
1 GCT
6557031 GGGTTGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.23
Consensus pattern (14 bp):
GCTTCGACCCAGTG
Found at i:6559843 original size:7 final size:7
Alignment explanation
Indices: 6559831--6559856 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6559821 GAACCTTTGA
6559831 TTGGAAT
1 TTGGAAT
6559838 TTGGAAT
1 TTGGAAT
6559845 TTGGAAT
1 TTGGAAT
6559852 TTGGA
1 TTGGA
6559857 GGTGGAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (7 bp):
TTGGAAT
Found at i:6567465 original size:26 final size:26
Alignment explanation
Indices: 6567429--6567478 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6567419 CTCAGCAGCA
6567429 AATAGTATTAGTTTCATGTGACATTT
1 AATAGTATTAGTTTCATGTGACATTT
* *
6567455 AATATTATTAGTTTCATGTTACAT
1 AATAGTATTAGTTTCATGTGACAT
6567479 CATTTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (26 bp):
AATAGTATTAGTTTCATGTGACATTT
Found at i:6567580 original size:18 final size:18
Alignment explanation
Indices: 6567557--6567593 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6567547 TTTTAGTTTC
6567557 GTAGGGTACTGTTTTCTG
1 GTAGGGTACTGTTTTCTG
6567575 GTAGGGTACTGTTTTCTG
1 GTAGGGTACTGTTTTCTG
6567593 G
1 G
6567594 ATTTGCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.35, T:0.43
Consensus pattern (18 bp):
GTAGGGTACTGTTTTCTG
Found at i:6572344 original size:40 final size:41
Alignment explanation
Indices: 6572284--6572362 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 41
6572274 CTACCAGATA
6572284 TTTTCATGTTTGTAATACTTGGGATTTTGAGATTCGCATAC
1 TTTTCATGTTTGTAATACTTGGGATTTTGAGATTCGCATAC
* *
6572325 TTTT-ATGTTTGTAATACTTGGGCTTTTGCGATTCGCAT
1 TTTTCATGTTTGTAATACTTGGGATTTTGAGATTCGCAT
6572363 CAGTTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 32 0.89
41 4 0.11
ACGTcount: A:0.19, C:0.13, G:0.20, T:0.48
Consensus pattern (41 bp):
TTTTCATGTTTGTAATACTTGGGATTTTGAGATTCGCATAC
Found at i:6572998 original size:25 final size:25
Alignment explanation
Indices: 6572964--6573012 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6572954 ATCTAGGAAA
6572964 CTGCCATAATTTCTAGGTTCCTTAG
1 CTGCCATAATTTCTAGGTTCCTTAG
6572989 CTGCCATAATTTCTAGGTTCCTTA
1 CTGCCATAATTTCTAGGTTCCTTA
6573013 TCACCCCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (25 bp):
CTGCCATAATTTCTAGGTTCCTTAG
Found at i:6575008 original size:28 final size:29
Alignment explanation
Indices: 6574938--6575010 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
6574928 TGTAAGCATT
6574938 TAATTTAAAATTAAT-TAACAATATAGGA
1 TAATTTAAAATTAATATAACAATATAGGA
* **
6574966 GAGATTTAATTTTAATATAA-AATCATA-GA
1 TA-ATTTAAAATTAATATAACAAT-ATAGGA
*
6574995 TAATTTAAACTTAATA
1 TAATTTAAAATTAATA
6575011 GATATGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 13 0.36
29 17 0.47
30 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (29 bp):
TAATTTAAAATTAATATAACAATATAGGA
Found at i:6578490 original size:14 final size:14
Alignment explanation
Indices: 6578471--6578520 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
6578461 AAATATTAAT
6578471 TTTAATAAAATTTA
1 TTTAATAAAATTTA
6578485 TTTAATATAAATTT-
1 TTTAATA-AAATTTA
* *
6578499 TTTATTAAATTTTA
1 TTTAATAAAATTTA
*
6578513 ATTAATAA
1 TTTAATAA
6578521 TTTTTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.17
14 19 0.63
15 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATAAAATTTA
Found at i:6579349 original size:11 final size:12
Alignment explanation
Indices: 6579331--6579366 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6579321 TTTAATTTTT
*
6579331 ATTTTAAATTAA
1 ATTTTAAATCAA
6579343 A-TTTAAATCAA
1 ATTTTAAATCAA
6579354 ATTTTAAATCAA
1 ATTTTAAATCAA
6579366 A
1 A
6579367 CTGATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTTAAATCAA
Found at i:6579970 original size:11 final size:10
Alignment explanation
Indices: 6579954--6580006 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
6579944 AATTGAATCA
6579954 AATTAAATTT
1 AATTAAATTT
6579964 GAATTAAAATTT
1 -AATT-AAATTT
6579976 -A--AAATTT
1 AATTAAATTT
6579983 AATTTAAATTT
1 AA-TTAAATTT
6579994 AATTAAA-TT
1 AATTAAATTT
6580003 AATT
1 AATT
6580007 TTTTTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.16
8 1 0.03
9 6 0.16
10 6 0.16
11 12 0.32
12 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
AATTAAATTT
Found at i:6579986 original size:18 final size:19
Alignment explanation
Indices: 6579958--6579995 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6579948 GAATCAAATT
6579958 AAATTTGAATTAAAATTTA
1 AAATTTGAATTAAAATTTA
*
6579977 AAATTT-AATTTAAATTTA
1 AAATTTGAATTAAAATTTA
6579995 A
1 A
6579996 TTAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AAATTTGAATTAAAATTTA
Found at i:6587471 original size:35 final size:31
Alignment explanation
Indices: 6587432--6587521 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 31
6587422 AATGAAACTA
*
6587432 TTTAAAATTGAATTAATTAAATTAAATTTATGAAT
1 TTTAAAATT-AATTAATTAAATGAAA-TT-TG-AT
*
6587467 TTTAAAAATTAATTAATTGAATGAAATTTGAT
1 TTT-AAAATTAATTAATTAAATGAAATTTGAT
* *
6587499 TTTAAAATT-TTTAATTAATTGAA
1 TTTAAAATTAATTAATTAAATGAA
6587522 TAATAAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 11 0.22
31 6 0.12
32 5 0.10
33 2 0.04
34 2 0.04
35 17 0.35
36 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTAAAATTAATTAATTAAATGAAATTTGAT
Found at i:6590072 original size:14 final size:15
Alignment explanation
Indices: 6590049--6590077 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6590039 TCTCTTCTCC
6590049 TTTCTCTTTCCTTCT
1 TTTCTCTTTCCTTCT
6590064 TTTCT-TTTCCTTCT
1 TTTCTCTTTCCTTCT
6590078 CTCTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCTCTTTCCTTCT
Found at i:6590548 original size:12 final size:12
Alignment explanation
Indices: 6590510--6590608 Score: 50
Period size: 13 Copynumber: 8.3 Consensus size: 12
6590500 AAAAAAAAAT
6590510 ATAAATA-AA-A
1 ATAAATATAATA
*
6590520 ATAAAAATAATA
1 ATAAATATAATA
*
6590532 GATAAATATATTA
1 -ATAAATATAATA
6590545 ATAAATAACTAA-A
1 ATAAAT-A-TAATA
*
6590558 AGAAAT-TAAT-
1 ATAAATATAATA
*
6590568 -TAGATA-AATA
1 ATAAATATAATA
*
6590578 AAAAATATTAATA
1 ATAAATA-TAATA
6590591 GATAAATAATAATA
1 -ATAAAT-ATAATA
6590605 ATAA
1 ATAA
6590609 TAAAATTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
9 6 0.09
10 9 0.14
11 6 0.09
12 7 0.11
13 25 0.38
14 12 0.18
15 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (12 bp):
ATAAATATAATA
Found at i:6590567 original size:21 final size:21
Alignment explanation
Indices: 6590539--6590599 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
6590529 ATAGATAAAT
* *
6590539 ATATTAATAAATAACTAAAAGA
1 ATATTAATAGATAAATAAAA-A
6590561 A-ATTAATTAGATAAATAAAAA
1 ATATTAA-TAGATAAATAAAAA
6590582 ATATTAATAGATAAATAA
1 ATATTAATAGATAAATAA
6590600 TAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATTAATAGATAAATAAAAA
Found at i:6590614 original size:17 final size:17
Alignment explanation
Indices: 6590517--6590614 Score: 56
Period size: 17 Copynumber: 5.3 Consensus size: 17
6590507 AATATAAATA
*
6590517 AAAATAAAAATAATAGAT
1 AAAATAATAATAATA-AT
*
6590535 AAATATATTAATAAATAACT
1 AAA-ATAATAAT-AATAA-T
*
6590555 AAAAGAAATTAATTAGATAAAT
1 AAAA-TAA-TAA-TA-AT-AAT
*
6590577 AAAA-AATATTAATAGAT
1 AAAATAATAATAATA-AT
6590594 -AAATAATAATAATAAT
1 AAAATAATAATAATAAT
6590610 AAAAT
1 AAAAT
6590615 TAAAAAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
16 6 0.10
17 17 0.27
18 5 0.08
19 10 0.16
20 11 0.17
21 4 0.06
22 8 0.13
23 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (17 bp):
AAAATAATAATAATAAT
Found at i:6590623 original size:59 final size:60
Alignment explanation
Indices: 6590506--6590643 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 60
6590496 ACTGAAAAAA
* *
6590506 AAATATAAA-TAAAAATAAAA-A-TAATAGATAAATATATTAATAAATAACTAAAAGAAATT
1 AAAT-TAAATTAAAAA-AAAATATTAATAGATAAATATAATAATAAATAAATAAAAGAAATT
* *
6590565 -AATTAGA-TAAATAAAAAATATTAATAGATAAATAATAATAAT-AATAAAATTAAA-AAATT
1 AAATTAAATTAAA-AAAAAATATTAATAGATAAAT-ATAATAATAAAT-AAATAAAAGAAATT
6590624 AAATTAAATTAAAAAAAAAT
1 AAATTAAATTAAAAAAAAAT
6590644 GAACTCATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
57 11 0.16
58 6 0.09
59 20 0.30
60 26 0.39
61 4 0.06
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (60 bp):
AAATTAAATTAAAAAAAAATATTAATAGATAAATATAATAATAAATAAATAAAAGAAATT
Found at i:6590820 original size:10 final size:10
Alignment explanation
Indices: 6590805--6590838 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
6590795 CTTTTCTTTC
6590805 TTTTGTTTTT
1 TTTTGTTTTT
6590815 TTTTGTGTTTT
1 TTTTGT-TTTT
6590826 TTTATGTTTTT
1 TTT-TGTTTTT
6590837 TT
1 TT
6590839 GTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 13 0.59
12 3 0.14
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:6591053 original size:43 final size:43
Alignment explanation
Indices: 6590854--6591179 Score: 284
Period size: 45 Copynumber: 7.6 Consensus size: 43
6590844 AATTTTAGTC
* * *
6590854 AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGTAAAATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGA--AAAATAAAT
* * * * *
6590899 AAAGCTTCTTTAAACAGAGGCTCCACGACTTTG-AAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
* * * * *
6590941 -GA-CTCATCTAATTAGAAGCTCAATGACTTTGCAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
* * * * *
6590982 --GGTTCTTCTAATTAGAGGCTCAACGACTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
* * *
6591023 AAAGCTCCTCTAAACAGAGGGTCAATGACTTTGAAAAATAGAT
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
* ** *
6591066 GAAGCTCCTCTAATCAGAGGCTCAATGACTTAAAAGAAAATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAATGACTT-TGA-AAAATAAAT
* * *** *
6591111 AAAGCTACTCTAATCAGAAGCTCAATGACATAAAAGAAAATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAATGAC-TTTGA-AAAATAAAT
6591156 AAAGCTCCTCTAATCAGAGGCTCA
1 AAAGCTCCTCTAATCAGAGGCTCA
6591180 GCGACTTTAA
Statistics
Matches: 233, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
40 21 0.09
41 44 0.19
42 8 0.03
43 61 0.26
44 1 0.00
45 97 0.42
46 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (43 bp):
AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
Found at i:6591241 original size:43 final size:41
Alignment explanation
Indices: 6591194--6591285 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 41
6591184 CTTTAAGAAC
* *
6591194 AATAAATTACT-TCTCTAAATAGAGGTAACCACGACTTTTGAAA
1 AATAAATTACTCT-TCTAAACAGAGG-AACCACAAC-TTTGAAA
* *
6591237 AATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAAA
1 AATAAATTACTCTTCTAAACAGAGGAACCACAACTTTGAAA
6591278 AAGTAAAT
1 AA-TAAAT
6591286 GCTTCTTGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 9 0.21
42 12 0.28
43 21 0.49
44 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (41 bp):
AATAAATTACTCTTCTAAACAGAGGAACCACAACTTTGAAA
Found at i:6592316 original size:17 final size:17
Alignment explanation
Indices: 6592294--6592330 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6592284 TTGAGTCCTC
6592294 TTTTTTCATTCCCTTTT
1 TTTTTTCATTCCCTTTT
* *
6592311 TTTTTTCTTTCTCTTTT
1 TTTTTTCATTCCCTTTT
6592328 TTT
1 TTT
6592331 ACCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTCATTCCCTTTT
Found at i:6592687 original size:15 final size:15
Alignment explanation
Indices: 6592667--6592696 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6592657 TCTTGAAACC
*
6592667 ATTCAACTTTTTTTA
1 ATTCAACTTCTTTTA
6592682 ATTCAACTTCTTTTA
1 ATTCAACTTCTTTTA
6592697 GAATCCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTCAACTTCTTTTA
Found at i:6602750 original size:16 final size:16
Alignment explanation
Indices: 6602726--6602759 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6602716 AAGAAAATTC
*
6602726 AAAAAGGAAAAGAAAT
1 AAAAAGGAAAAAAAAT
*
6602742 AAAATGGAAAAAAAAT
1 AAAAAGGAAAAAAAAT
6602758 AA
1 AA
6602760 TGATTCAGCT
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:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAAAGGAAAAAAAAT
Found at i:6602960 original size:46 final size:47
Alignment explanation
Indices: 6602860--6602988 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
6602850 CATTTGAGAG
* *
6602860 TTTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTTCTTAAAACGT
1 TTTTTTTTTTAAAG-AAAATTGATACTTTCAACTTTTCCTTAAAACGT
6602907 TTTTTTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAC-T
1 TTTTTTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTTAAAACGT
* *
6602953 TTTTTTTTTTAAGGAAAATTGGTAC-TTCAAACTTTT
1 TTTTTTTTTTAAAGAAAATTGATACTTTC-AACTTTT
6602989 TTCCAAAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
45 3 0.04
46 31 0.41
47 39 0.51
48 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (47 bp):
TTTTTTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTTAAAACGT
Found at i:6603003 original size:46 final size:45
Alignment explanation
Indices: 6602859--6603003 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 45
6602849 GCATTTGAGA
* * * *
6602859 GTTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAC
1 GTTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTC-CAAAAT
*
6602905 GTTTTTTTTTTTAAAGAAAATTGATACTTTCAAC-TTTTCCTTAAAACT
1 G-TTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTCC--AAAA-T
*
6602953 -TTTTTTTTTTAAGGAAAATTGGTAC-TTCAAACTTTTTTCCAAAAT
1 GTTTTTTTTTTAAGGAAAATTGATACTTTC-AAC-TTTTTCCAAAAT
6602998 GTTTTT
1 GTTTTT
6603004 CTGAAACTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
45 4 0.05
46 41 0.49
47 33 0.39
48 6 0.07
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (45 bp):
GTTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTCCAAAAT
Found at i:6603003 original size:47 final size:45
Alignment explanation
Indices: 6602860--6603003 Score: 157
Period size: 47 Copynumber: 3.1 Consensus size: 45
6602850 CATTTGAGAG
* * *
6602860 TTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAACGT
1 TTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTC-CAAAA-GT
* *
6602907 TTTTTTTTTTAAAGAAAATTGATACTTTCAAC-TTTTCCTTAAAACT
1 TTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTCC--AAAAGT
*
6602953 TTTTTTTTTTAAGGAAAATTGGTAC-TTCAAACTTTTTTCCAAAATGT
1 TTTTTTTTTTAAGGAAAATTGATACTTTC-AAC-TTTTTCCAAAA-GT
6603000 TTTT
1 TTTT
6603004 CTGAAACTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
45 3 0.04
46 36 0.43
47 38 0.46
48 6 0.07
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (45 bp):
TTTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTTCCAAAAGT
Found at i:6603074 original size:16 final size:17
Alignment explanation
Indices: 6603055--6603087 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6603045 TCCTCAAAAA
*
6603055 TATTTTTTA-AAAAATT
1 TATTTTTAAGAAAAATT
6603071 TATTTTTAAGAAAAATT
1 TATTTTTAAGAAAAATT
6603088 GATACTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTTTTAAGAAAAATT
Found at i:6603085 original size:58 final size:59
Alignment explanation
Indices: 6603023--6603179 Score: 262
Period size: 59 Copynumber: 2.7 Consensus size: 59
6603013 TAATTTCGAA
* *
6603023 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-AAAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAACTTATTTTTAAG
* *
6603081 AAAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTTAAAAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAACTTATTTTTAAG
*
6603140 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
6603180 TAGAATCTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 37 0.41
59 54 0.59
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAACTTATTTTTAAG
Found at i:6603120 original size:59 final size:59
Alignment explanation
Indices: 6602958--6603181 Score: 260
Period size: 59 Copynumber: 3.8 Consensus size: 59
6602948 AAACTTTTTT
* * * * * * *
6602958 TTTTTAAGGAAAATTGGTAC-TTCAAACTTTTT-TCCAAAATGTTTTTCT-GAAACTTTAA
1 TTTTTAAGAAAAATTGATACTTTC-AACTTTTTCTCAAAAATATTTTTTTAAAAAATTT-A
** *
6603016 TTTCGAA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAAAAAATTTA
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTA
* * * *
6603073 TTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTTAAAAAAACTTA
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTA
*
6603132 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTA
1 TTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTA
6603182 GAATCTTATT
Statistics
Matches: 140, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
57 28 0.20
58 52 0.37
59 60 0.43
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (59 bp):
TTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTA
Found at i:6603225 original size:11 final size:11
Alignment explanation
Indices: 6603209--6603238 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6603199 AGTCATTTAA
6603209 AAAAATAAAAT
1 AAAAATAAAAT
6603220 AAAAATAAAAT
1 AAAAATAAAAT
6603231 AAAGAATA
1 AAA-AATA
6603239 CCAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6603274 original size:3 final size:3
Alignment explanation
Indices: 6603255--6603310 Score: 85
Period size: 3 Copynumber: 18.0 Consensus size: 3
6603245 TATTTTAATC
*
6603255 TAA TCAA TAA GTAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6603302 TAA TAA TAA
1 TAA TAA TAA
6603311 ATAAGAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6603762 original size:21 final size:20
Alignment explanation
Indices: 6603731--6603774 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
6603721 ATTTCACCGA
6603731 AAAAAACTTCAAAAATT-CT
1 AAAAAACTTCAAAAATTCCT
*
6603750 AAAAAACTTTTCACAAATTCCT
1 AAAAAAC--TTCAAAAATTCCT
6603772 AAA
1 AAA
6603775 GTTGTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAACTTCAAAAATTCCT
Found at i:6603837 original size:82 final size:82
Alignment explanation
Indices: 6603743--6603906 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
6603733 AAAACTTCAA
6603743 AAATTCTAAAAAACTTTTCACAAATTCCTAAAGTTGTTTCTGATGTACCAAAACCTTTTTAGCTT
1 AAATTCTAAAAAACTTTTCACAAATTCCTAAAGTTGTTTCTGATGTACCAAAACCTTTTTAGCTT
*
6603808 CTGTTTCCTTTGTGTGT
66 CTGTTTCCTCTGTGTGT
*
6603825 AAATTTTAAAAAACTTTTCACAAATTCCTAAAGTTGTTTCTGATGTACCAAAACCTTTTTAGCTT
1 AAATTCTAAAAAACTTTTCACAAATTCCTAAAGTTGTTTCTGATGTACCAAAACCTTTTTAGCTT
6603890 CTGTTTCCTCTGTGTGT
66 CTGTTTCCTCTGTGTGT
6603907 GTGTGTGTCG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (82 bp):
AAATTCTAAAAAACTTTTCACAAATTCCTAAAGTTGTTTCTGATGTACCAAAACCTTTTTAGCTT
CTGTTTCCTCTGTGTGT
Found at i:6604180 original size:34 final size:33
Alignment explanation
Indices: 6604097--6604180 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 33
6604087 AAAATATATA
* *
6604097 AATAAAAATAAAAATAATAGATAAATATATTAAT
1 AATAATAATAAAAA-AATAGATAAATATAATAAT
6604131 AGATAACTAA-AAAAAAATAGATAAATAATAATAAT
1 A-ATAA-TAATAAAAAAATAGATAAAT-ATAATAAT
*
6604166 AATAATAATGAAAAA
1 AATAATAATAAAAAA
6604181 TAATTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
33 3 0.07
34 21 0.49
35 17 0.40
36 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (33 bp):
AATAATAATAAAAAAATAGATAAATATAATAAT
Found at i:6605917 original size:62 final size:64
Alignment explanation
Indices: 6605781--6606105 Score: 214
Period size: 62 Copynumber: 5.4 Consensus size: 64
6605771 TTTTGTACGA
* * ** * * * *
6605781 GAAAAATTAATACTTTTAAC-TTTTCTTTAAAATA--TTTTTCTTGATAATCTTTAT-TTTTAA-
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTTAACAAT-TTTATATTTCAAT
* * *
6605841 GAAAAATTGGTACTTCCAACTTTTTCTCAAAAATATTTTTTTCTTTTA-AATTTTA-ATTTCAA-
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT-TTTAACAATTTTATATTTCAAT
* * * *
6605903 GGAAAATTGATACTTTCAACTTTTTCT--TAGA-A---TTTTTTTAACAATTTTATTTTTCAAT
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTTAACAATTTTATATTTCAAT
6605961 GAAAAATTGATACTTTCAACTTTTTTCTCAAAAATA----TTTTTTAGA-AATCTTTATATTT-A
1 GAAAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTTTTTTTTTA-ACAAT-TTTATATTTCA
6606020 A-
63 AT
* ** ** * *
6606021 GAGAAATTGATACTTTCAACTTTCCCTCCAAAAATAAATTTTTTTGAA-AATTTTAT-TTTTAA-
1 GAAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTTTTTAACAATTTTATATTTCAAT
6606083 -AAGAAATTGATACTTTCAACTTT
1 GAA-AAATTGATACTTTCAACTTT
6606106 CCTTTAAAAA
Statistics
Matches: 219, Mismatches: 25, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
55 4 0.02
56 11 0.05
57 6 0.03
58 19 0.09
59 13 0.06
60 45 0.21
61 30 0.14
62 70 0.32
63 12 0.05
64 9 0.04
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (64 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTTAACAATTTTATATTTCAAT
Found at i:6605924 original size:122 final size:121
Alignment explanation
Indices: 6605783--6606002 Score: 304
Period size: 120 Copynumber: 1.8 Consensus size: 121
6605773 TTGTACGAGA
* * *
6605783 AAAATTAATACTTTTAAC-TTTTCTTTAAAATATTTTTCTTGATAATCTTTATTTTT-AA-GAAA
1 AAAATTAATACTTTCAACTTTTTC-TT-AAA-ATTTTT-TTAACAAT-TTTATTTTTCAATGAAA
*
6605845 AATTGGTACTTCCAAC-TTTTTCTCAAAAATATTTTTTTCTTTTAAATTTTAATTTCAAGG
61 AATTGATACTTCCAACTTTTTTCTCAAAAATATTTTTTTCTTTTAAATTTTAATTTCAAGG
* *
6605905 AAAATTGATACTTTCAACTTTTTCTTAGAATTTTTTTAACAATTTTATTTTTCAATGAAAAATTG
1 AAAATTAATACTTTCAACTTTTTCTTAAAATTTTTTTAACAATTTTATTTTTCAATGAAAAATTG
*
6605970 ATACTTTCAACTTTTTTCTCAAAAATATTTTTT
66 ATACTTCCAACTTTTTTCTCAAAAATATTTTTT
6606003 AGAAATCTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
118 9 0.10
119 8 0.09
120 24 0.28
121 23 0.26
122 18 0.21
123 5 0.06
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.51
Consensus pattern (121 bp):
AAAATTAATACTTTCAACTTTTTCTTAAAATTTTTTTAACAATTTTATTTTTCAATGAAAAATTG
ATACTTCCAACTTTTTTCTCAAAAATATTTTTTTCTTTTAAATTTTAATTTCAAGG
Found at i:6606012 original size:180 final size:180
Alignment explanation
Indices: 6605781--6606105 Score: 426
Period size: 180 Copynumber: 1.8 Consensus size: 180
6605771 TTTTGTACGA
* * *
6605781 GAAAAATTAATACTTTTAACTTTTCTTTAAAATATTTTTCTTGATAATCTTTATTTTTAAGAAAA
1 GAAAAATTAATACTTTCAACTTTTCTTTAAAATATTTTTCTAGATAATCTTTATATTTAAGAAAA
* ** ** ** *
6605846 ATTGGTACTTCCAACTTTTTCT-CAAAAATATTTTTTTCTTTTAAATTTTAATTTC-AAGGAAAA
66 ATTGATACTTCCAACTTTCCCTCCAAAAATAAATTTTT-TTGAAAATTTTAATTTCAAAAG-AAA
6605909 TTGATACTTTCAACTTTTTCTTAGAATTTTTTTAACAATTTTATTTTTCAAT
129 TTGATACTTTCAACTTTTTCTTAGAATTTTTTTAACAATTTTATTTTTCAAT
*
6605961 GAAAAATTGATACTTTCAACTTTT-TTCTCAAAAATATTTTT-TAGA-AATCTTTATATTTAAGA
1 GAAAAATTAATACTTTCAACTTTTCTT-T--AAAATATTTTTCTAGATAATCTTTATATTTAAGA
* * * *
6606023 GAAATTGATACTTTCAACTTTCCCTCCAAAAATAAATTTTTTTGAAAATTTTATTTTTAAAAGAA
63 AAAATTGATACTTCCAACTTTCCCTCCAAAAATAAATTTTTTTGAAAATTTTAATTTCAAAAGAA
6606088 ATTGATACTTTCAACTTT
128 ATTGATACTTTCAACTTT
6606106 CCTTTAAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
179 2 0.02
180 92 0.74
181 19 0.15
182 11 0.09
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (180 bp):
GAAAAATTAATACTTTCAACTTTTCTTTAAAATATTTTTCTAGATAATCTTTATATTTAAGAAAA
ATTGATACTTCCAACTTTCCCTCCAAAAATAAATTTTTTTGAAAATTTTAATTTCAAAAGAAATT
GATACTTTCAACTTTTTCTTAGAATTTTTTTAACAATTTTATTTTTCAAT
Found at i:6606106 original size:62 final size:60
Alignment explanation
Indices: 6605933--6606142 Score: 221
Period size: 62 Copynumber: 3.4 Consensus size: 60
6605923 TTTTTCTTAG
**
6605933 AATTTTTTTAACAATTTTATTTTTCAATGAA-AAATTGATACTTTCAACTTTTTTCTCAAAAAT-
1 AATTTTTTTAA-AATTTTATTTTT-AA--AAGAAATTGATACTTTCAACTTTCCTC-CAAAAATA
* *
6605996 -A-TTTTTTAGAAATCTTTATATTTAAGAGAAATTGATACTTTCAACTTTCCCTCCAAAAATA
1 AATTTTTTTA-AAAT-TTTATTTTTAAAAGAAATTGATACTTTCAACTTT-CCTCCAAAAATA
**
6606057 AATTTTTTTGAAAATTTTATTTTTAAAAGAAATTGATACTTTCAACTTTCCTTTAAAAATA
1 AATTTTTTT-AAAATTTTATTTTTAAAAGAAATTGATACTTTCAACTTTCCTCCAAAAATA
* *
6606118 TATATATTTTAAAATTTTTATTTTT
1 AAT-TTTTTTAAAA-TTTTATTTTT
6606143 GAAGAGATCA
Statistics
Matches: 127, Mismatches: 10, Indels: 21
0.80 0.06 0.13
Matches are distributed among these distances:
59 1 0.01
60 27 0.21
61 30 0.24
62 58 0.46
63 10 0.08
64 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (60 bp):
AATTTTTTTAAAATTTTATTTTTAAAAGAAATTGATACTTTCAACTTTCCTCCAAAAATA
Found at i:6606211 original size:4 final size:4
Alignment explanation
Indices: 6606202--6606239 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
6606192 CAATTTAATC
6606202 AATA AATA AATA AATAA AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AA
6606240 ACTAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:6606223 original size:13 final size:13
Alignment explanation
Indices: 6606205--6606232 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6606195 TTTAATCAAT
6606205 AAATAAATAAATA
1 AAATAAATAAATA
6606218 AAATAAATAAATA
1 AAATAAATAAATA
6606231 AA
1 AA
6606233 TAATAAAACT
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:6606224 original size:17 final size:17
Alignment explanation
Indices: 6606202--6606235 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6606192 CAATTTAATC
6606202 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
6606219 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
6606236 TAAAACTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:6606228 original size:21 final size:21
Alignment explanation
Indices: 6606202--6606249 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6606192 CAATTTAATC
6606202 AATAAATAAATAAATAAAA-TA
1 AATAAATAAAT-AATAAAACTA
6606223 AATAAATAAATAATAAAACTA
1 AATAAATAAATAATAAAACTA
*
6606244 ATTAAA
1 AATAAA
6606250 AAAAACCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAATAAATAATAAAACTA
Found at i:6607160 original size:8 final size:8
Alignment explanation
Indices: 6607147--6607182 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
6607137 GAAGAAAAAC
6607147 AAATTAAT
1 AAATTAAT
6607155 AAATTAAT
1 AAATTAAT
6607163 AAATTAAT
1 AAATTAAT
6607171 AAATTACAT
1 AAATTA-AT
6607180 AAA
1 AAA
6607183 AAAAAAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTAAT
Found at i:6607463 original size:52 final size:52
Alignment explanation
Indices: 6607407--6607563 Score: 136
Period size: 52 Copynumber: 3.2 Consensus size: 52
6607397 CATCCTTTTT
* *
6607407 AAAATAAAAAATAAACAAGGCTCTTCTAATCAGAGACTTCAATGACTTTTGA
1 AAAATAAAAAATAAACAAGGCTCCTCTAATCAGAGACTTCAATCACTTTTGA
* * * *
6607459 AAAAT---AAGT--A-AA-GCTCCTCTAAAT-AGAGGC-TCAACCACCCTTTTTA
1 AAAATAAAAAATAAACAAGGCTCCTCT-AATCAGAGACTTCAATCA--CTTTTGA
* * *
6607505 AAAA-AATAAATAAACAAGGCTCCTATAATCAGAGACTTCAATTACTTTTGA
1 AAAATAAAAAATAAACAAGGCTCCTCTAATCAGAGACTTCAATCACTTTTGA
6607556 AAAATAAA
1 AAAATAAA
6607564 CAAAGCTCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
44 5 0.06
45 12 0.15
46 15 0.19
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
51 15 0.19
52 19 0.24
53 5 0.06
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.26
Consensus pattern (52 bp):
AAAATAAAAAATAAACAAGGCTCCTCTAATCAGAGACTTCAATCACTTTTGA
Found at i:6607519 original size:97 final size:96
Alignment explanation
Indices: 6607377--6607611 Score: 309
Period size: 97 Copynumber: 2.5 Consensus size: 96
6607367 TGAATAAAAA
* * * *
6607377 CCTCTAAACATAGGCTCAACCATCCTTTTTAAAATAAA-AAATAAACAAGGCTCTTCTAATCAGA
1 CCTCTAAATAGAGGCTCAACCA-CCTTTTTAAAA-AAATAAATAAACAAGGCTCCTATAATCAGA
**
6607441 GACTTCAATGACTTTTGAAAAATAAGTAAAGCT
64 GACTTCAATGACTTTTGAAAAATAAACAAAGCT
6607474 CCTCTAAATAGAGGCTCAACCACCCTTTTTAAAAAAATAAATAAACAAGGCTCCTATAATCAGAG
1 CCTCTAAATAGAGGCTCAACCA-CCTTTTTAAAAAAATAAATAAACAAGGCTCCTATAATCAGAG
*
6607539 ACTTCAATTACTTTTGAAAAATAAACAAAGCT
65 ACTTCAATGACTTTTGAAAAATAAACAAAGCT
* * *
6607571 CATCT-AATCAGAGGCTTAACGA-C-TTTT-AAAAAATAAATAAA
1 CCTCTAAAT-AGAGGCTCAACCACCTTTTTAAAAAAATAAATAAA
6607612 ACTCATCTAA
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
93 14 0.11
94 4 0.03
95 1 0.01
96 6 0.05
97 100 0.80
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (96 bp):
CCTCTAAATAGAGGCTCAACCACCTTTTTAAAAAAATAAATAAACAAGGCTCCTATAATCAGAGA
CTTCAATGACTTTTGAAAAATAAACAAAGCT
Found at i:6607617 original size:44 final size:44
Alignment explanation
Indices: 6607411--6607759 Score: 308
Period size: 44 Copynumber: 7.7 Consensus size: 44
6607401 CTTTTTAAAA
* * * * *
6607411 TAAAAAATAAACAAGGCTCTTCTAATCAGAGACTTCAATGACTTT
1 TAAAAAATAAATAAAGCTCATCTAATCAGAGGCTT-AACGACTTT
* * * * *
6607456 TGAAAAATAAGTAAAGCTCCTCTAAAT-AGAGGCTCAACCACCCTTTT
1 TAAAAAATAAATAAAGCTCATCT-AATCAGAGGCTTAACGA--C-TTT
* * * **
6607503 TAAAAAAATAAATAAACAAGGCTCCTATAATCAGAGACTTCAATTACTTT
1 T-AAAAAATAAAT--A-AA-GCTCATCTAATCAGAGGCTT-AACGACTTT
* *
6607553 TGAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACTTT
1 TAAAAAATAAATAAAGCTCATCTAATCAGAGGCTTAACGACTTT
* *
6607597 TAAAAAATAAATAAAACTCATCTAAAT-AGAGGCTCAACGA-TTT
1 TAAAAAATAAATAAAGCTCATCT-AATCAGAGGCTTAACGACTTT
* * * *
6607640 TTAAAAATAAACAAAGTTTATCTAATCAGAGGCTTAACGACTTT
1 TAAAAAATAAATAAAGCTCATCTAATCAGAGGCTTAACGACTTT
* * *
6607684 TAAAAAATAAATAAAGCTCATCTAAACAAAGGCTCAACGACTTT
1 TAAAAAATAAATAAAGCTCATCTAATCAGAGGCTTAACGACTTT
* * *
6607728 GAAAAAATAAATAAAGCTCCTCTAAACAGAGG
1 TAAAAAATAAATAAAGCTCATCTAATCAGAGG
6607760 TCAACGCCTT
Statistics
Matches: 247, Mismatches: 43, Indels: 29
0.77 0.13 0.09
Matches are distributed among these distances:
42 3 0.01
43 33 0.13
44 111 0.45
45 44 0.18
46 6 0.02
47 5 0.02
48 9 0.04
49 9 0.04
50 5 0.02
51 6 0.02
52 13 0.05
53 3 0.01
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (44 bp):
TAAAAAATAAATAAAGCTCATCTAATCAGAGGCTTAACGACTTT
Found at i:6607663 original size:87 final size:88
Alignment explanation
Indices: 6607548--6607759 Score: 318
Period size: 87 Copynumber: 2.4 Consensus size: 88
6607538 GACTTCAATT
*
6607548 ACTTTTGAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAA
1 ACTTTTAAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAA
* *
6607613 CTCATCTAAATAGAGGCTCAACG
66 CTCATCTAAACAAAGGCTCAACG
* * * *
6607636 A-TTTTTAAAAATAAACAAAGTTTATCTAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAG
1 ACTTTTAAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAA
6607700 CTCATCTAAACAAAGGCTCAACG
66 CTCATCTAAACAAAGGCTCAACG
* * * *
6607723 ACTTTGAAAAAATAAATAAAGCTCCTCTAAACAGAGG
1 ACTTTTAAAAAATAAACAAAGCTCATCTAATCAGAGG
6607760 TCAACGCCTT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 81 0.74
88 29 0.26
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (88 bp):
ACTTTTAAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAA
CTCATCTAAACAAAGGCTCAACG
Found at i:6607782 original size:44 final size:44
Alignment explanation
Indices: 6607551--6607783 Score: 274
Period size: 44 Copynumber: 5.3 Consensus size: 44
6607541 TTCAATTACT
* * *
6607551 TTTG-AAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGAC
1 TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
* * *
6607594 TTTTAAAAAATAAATAAAACTCATCTAAATAGAGGCTCAACGA-
1 TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
** * * * * *
6607637 TTTTTAAAAATAAACAAAGTTTATCTAATCAGAGGCTTAACGAC
1 TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
* *
6607681 TTTTAAAAAATAAATAAAGCTCATCTAAACAAAGGCTCAACGAC
1 TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
* *
6607725 TTTGAAAAAATAAATAAAGCTCCTCTAAACAGAGG-TCAACGCC
1 TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
*
6607768 TTTGAGAAACATAAAT
1 TTTGA-AAAAATAAAT
6607784 GCTCGTTGAC
Statistics
Matches: 161, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
43 50 0.31
44 111 0.69
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (44 bp):
TTTGAAAAAATAAATAAAGCTCATCTAAACAGAGGCTCAACGAC
Found at i:6607798 original size:131 final size:131
Alignment explanation
Indices: 6607530--6607782 Score: 328
Period size: 131 Copynumber: 1.9 Consensus size: 131
6607520 AAGGCTCCTA
* ** * * * *
6607530 TAATCAGAGACTTCAATTACTTTTGAAAAATAAACAAAGCTCATCTAATCAGAGGCTTAACGACT
1 TAATCAGAGGCTT-AACGACTTTTAAAAAATAAACAAAGCTCATCTAAACAAAGGCTCAACGACT
* * * * *
6607595 TTTAAAAAATAAATAAAACTCATCTAAATAGAGGCTCAACGATTTTTAAAAATAAACAAAGTTTA
65 TTGAAAAAATAAATAAAACTCATCTAAACAGAGGCTCAACGACTTTGAAAAATAAACAAAGTTGA
6607660 TC
130 TC
*
6607662 TAATCAGAGGCTTAACGACTTTTAAAAAATAAATAAAGCTCATCTAAACAAAGGCTCAACGACTT
1 TAATCAGAGGCTTAACGACTTTTAAAAAATAAACAAAGCTCATCTAAACAAAGGCTCAACGACTT
* * *
6607727 TGAAAAAATAAATAAAGCTCCTCTAAACAGAGG-TCAACGCCTTTGAGAAACATAAA
66 TGAAAAAATAAATAAAACTCATCTAAACAGAGGCTCAACGACTTTGA-AAA-ATAAA
6607783 TGCTCGTTGA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 10 0.10
131 77 0.74
132 17 0.16
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (131 bp):
TAATCAGAGGCTTAACGACTTTTAAAAAATAAACAAAGCTCATCTAAACAAAGGCTCAACGACTT
TGAAAAAATAAATAAAACTCATCTAAACAGAGGCTCAACGACTTTGAAAAATAAACAAAGTTGAT
C
Found at i:6608810 original size:1 final size:1
Alignment explanation
Indices: 6608800--6608876 Score: 73
Period size: 1 Copynumber: 77.0 Consensus size: 1
6608790 TGAGTCTTCC
* * ** * * * *
6608800 TTTTTATTTTTTTTTTTTGTTTTTTCATTTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
6608865 TTTATTTTTTTT
1 TTTTTTTTTTTT
6608877 AAGCATAGCA
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.09, C:0.01, G:0.01, T:0.88
Consensus pattern (1 bp):
T
Found at i:6608817 original size:8 final size:8
Alignment explanation
Indices: 6608806--6608875 Score: 97
Period size: 8 Copynumber: 8.6 Consensus size: 8
6608796 TTCCTTTTTA
6608806 TTTTT-TT
1 TTTTTATT
*
6608813 TTTTTGTT
1 TTTTTATT
*
6608821 TTTTCATT
1 TTTTTATT
6608829 TTTTTATT
1 TTTTTATT
6608837 TTTTTATT
1 TTTTTATT
6608845 TTTTTATT
1 TTTTTATT
6608853 TTTTTATTTT
1 TTTTTA--TT
6608863 TTTTTATT
1 TTTTTATT
6608871 TTTTT
1 TTTTT
6608876 TAAGCATAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
7 5 0.09
8 44 0.77
10 8 0.14
ACGTcount: A:0.09, C:0.01, G:0.01, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:6619576 original size:118 final size:118
Alignment explanation
Indices: 6619330--6619600 Score: 329
Period size: 118 Copynumber: 2.3 Consensus size: 118
6619320 GCTTTTGTAT
* * * *
6619330 AAGAAAATTTGATATTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATCTTTATTTTTAAGAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAA-GTTTTTCTTAACAATCTTTATTTTTAAGAA
*
6619395 AAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTTAATTTC
65 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTTAATTTC
* *
6619449 AAGAAAAATTGATACTTTCAACTTTTTCTTAGAA-TTTTT-TTAACAAT-TTTATTTTTCAAGAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAGTTTTTCTTAACAATCTTTATTTTT-AAG-A
* *
6619511 AAAATTGATACTTTCAATTTTTTCCTCAAAAATA-TTTTTTAGAAATCTTT-ATCTTC
64 AAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTTAAAAAT-TTTAAT-TTC
* * *
6619567 AA-AGGAAATTGATACTTTCAACTTTCCCTCAAAA
1 AAGA-AAAATTGATACTTTCAACTTTTCCTTAAAA
6619601 AATAATTTTT
Statistics
Matches: 132, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
115 9 0.07
116 9 0.07
117 36 0.27
118 48 0.36
119 30 0.23
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.46
Consensus pattern (118 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAGTTTTTCTTAACAATCTTTATTTTTAAGAAA
AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTTAATTTC
Done.