Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 37 of 343
Found at i:12345621 original size:17 final size:17
Alignment explanation
Indices: 12345597--12345635 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12345587 ATACAAATAG
* *
12345597 ATAT-ATAATACCTAAA
1 ATATAATAATAACAAAA
12345613 ATATAATAATAACAAAA
1 ATATAATAATAACAAAA
12345630 ATATAA
1 ATATAA
12345636 ATAGATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (17 bp):
ATATAATAATAACAAAA
Found at i:12345810 original size:3 final size:3
Alignment explanation
Indices: 12345802--12345847 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12345792 TAAGATGGTG
12345802 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12345848 CAACGACATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12345961 original size:7 final size:7
Alignment explanation
Indices: 12345943--12345976 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
12345933 TTAATAAGGA
12345943 TAATAA-
1 TAATAAT
12345949 TAATAAT
1 TAATAAT
12345956 TAATAAT
1 TAATAAT
12345963 TAATAAT
1 TAATAAT
12345970 TAATAAT
1 TAATAAT
12345977 ACTAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATAAT
Found at i:12345984 original size:14 final size:13
Alignment explanation
Indices: 12345943--12346004 Score: 70
Period size: 14 Copynumber: 4.5 Consensus size: 13
12345933 TTAATAAGGA
12345943 TAATAATAATAAT
1 TAATAATAATAAT
12345956 TAATAATTAATAAT
1 TAATAA-TAATAAT
*
12345970 TAATAATACTAAAT
1 TAATAATAAT-AAT
*
12345984 TAATTAACAATAAAT
1 TAA-TAATAAT-AAT
12345999 TAATAA
1 TAATAA
12346005 GTAAATGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 9 0.21
14 22 0.51
15 12 0.28
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:12346157 original size:18 final size:18
Alignment explanation
Indices: 12346077--12346157 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 18
12346067 AAGACTAAGA
* *
12346077 TAATAATAATAGTAAT-G
1 TAATAATAACAGAAATAG
*
12346094 ATAATAAT-ACAAAAAATAG
1 -TAATAATAAC-AGAAATAG
**
12346113 TAATAACT-ACATTAATAG
1 TAATAA-TAACAGAAATAG
*
12346131 AAATAATAACAGAAATAG
1 TAATAATAACAGAAATAG
12346149 TAATAATAA
1 TAATAATAA
12346158 TAGTGCTTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
17 2 0.04
18 44 0.88
19 4 0.08
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.27
Consensus pattern (18 bp):
TAATAATAACAGAAATAG
Found at i:12347747 original size:13 final size:14
Alignment explanation
Indices: 12347729--12347757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12347719 TTAAAATTGT
12347729 ATAAAAA-TTAAAA
1 ATAAAAACTTAAAA
12347742 ATAAAAACTTAAAA
1 ATAAAAACTTAAAA
12347756 AT
1 AT
12347758 GGAAAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAACTTAAAA
Found at i:12348267 original size:24 final size:24
Alignment explanation
Indices: 12348204--12348255 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12348194 TTTCTAGAAG
* * **
12348204 ATTTAGTATTTATGAGAATAATAT
1 ATTTAGCATTTATTAGCGTAATAT
12348228 ATTTAGCATTTATTAGCGTAATAT
1 ATTTAGCATTTATTAGCGTAATAT
12348252 ATTT
1 ATTT
12348256 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCGTAATAT
Found at i:12358045 original size:22 final size:22
Alignment explanation
Indices: 12358010--12358054 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12358000 AAATAAGTTG
* *
12358010 TTTTGTTGTTATTTCACTATTA
1 TTTTGTTATCATTTCACTATTA
**
12358032 TTTTGTTATCATTTTGCTATTA
1 TTTTGTTATCATTTCACTATTA
12358054 T
1 T
12358055 ATTAATACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTGTTATCATTTCACTATTA
Found at i:12360365 original size:23 final size:23
Alignment explanation
Indices: 12360300--12360366 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
12360290 GATTGGGTTT
*
12360300 TTGATTTTTTTTATTGCA-TTATA
1 TTGA-TTTTTTTATTGTAGTTATA
* *
12360323 TT-AATTTGTTATTGTAGTTATA
1 TTGATTTTTTTATTGTAGTTATA
*
12360345 TTGATTTTTTTAGTGTAGTTAT
1 TTGATTTTTTTATTGTAGTTAT
12360367 TAAATTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 10 0.28
22 8 0.22
23 18 0.50
ACGTcount: A:0.22, C:0.01, G:0.13, T:0.63
Consensus pattern (23 bp):
TTGATTTTTTTATTGTAGTTATA
Found at i:12364017 original size:2 final size:2
Alignment explanation
Indices: 12364010--12364034 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12364000 ACAAATACAA
12364010 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
12364035 CCTTAGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:12366951 original size:26 final size:25
Alignment explanation
Indices: 12366905--12366956 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
12366895 TTTAAATTAA
*
12366905 TAAATGAAAAATTACACTTTACCCT
1 TAAATGAAAAATTACACTTTAACCT
*
12366930 TAAATGATAAAATT-CTAGTTTAACCT
1 TAAATGA-AAAATTAC-ACTTTAACCT
12366956 T
1 T
12366957 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (25 bp):
TAAATGAAAAATTACACTTTAACCT
Found at i:12367189 original size:20 final size:21
Alignment explanation
Indices: 12367151--12367190 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12367141 CTAAAGTCTA
*
12367151 ATTAAGTAACAAAACTATTAC
1 ATTAAGTAACAAAAATATTAC
*
12367172 ATTAA-TAATAAAAATATTA
1 ATTAAGTAACAAAAATATTA
12367191 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTAAGTAACAAAAATATTAC
Found at i:12367360 original size:22 final size:22
Alignment explanation
Indices: 12367332--12367373 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12367322 TTTATATATA
*
12367332 AAAATTATA-TTTATTTAATTAC
1 AAAATTAGATTTTA-TTAATTAC
12367354 AAAATTAGATTTTATTAATT
1 AAAATTAGATTTTATTAATT
12367374 TTAATTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATTAGATTTTATTAATTAC
Found at i:12376596 original size:30 final size:31
Alignment explanation
Indices: 12376555--12376614 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
12376545 GGTACCCATA
*
12376555 TAAAAATTTTAAA-ACAAAT-AATGTATATAT
1 TAAAAAGTTTAAATACAAATGAAT-TATATAT
*
12376585 TAAAAAGTTTAAATATAAATGAATTATATA
1 TAAAAAGTTTAAATACAAATGAATTATATA
12376615 AATAAAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 11 0.42
32 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAAAAGTTTAAATACAAATGAATTATATAT
Found at i:12377246 original size:14 final size:14
Alignment explanation
Indices: 12377227--12377261 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
12377217 ATGAAACAGA
12377227 GGCAAAATCCCTGG
1 GGCAAAATCCCTGG
12377241 GGCAAAATCCCTGG
1 GGCAAAATCCCTGG
12377255 GGCAAAA
1 GGCAAAA
12377262 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.29, T:0.11
Consensus pattern (14 bp):
GGCAAAATCCCTGG
Found at i:12378043 original size:16 final size:16
Alignment explanation
Indices: 12378022--12378089 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
12378012 TTTGGTTCGC
12378022 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
12378038 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
12378054 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12378070 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12378086 TGTA
1 TGTA
12378090 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12378346 original size:18 final size:17
Alignment explanation
Indices: 12378325--12378359 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12378315 TTATTATTAA
*
12378325 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12378343 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12378360 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12378414 original size:157 final size:157
Alignment explanation
Indices: 12378212--12378683 Score: 872
Period size: 157 Copynumber: 3.0 Consensus size: 157
12378202 TAGAATACCC
* * * *
12378212 TTAGCATAAATTTGTTTTAGTAAATGATTATTTTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
12378277 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
12378342 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
12378369 TTAGTAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
12378434 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
12378499 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
12378526 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
12378591 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
12378656 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
12378683 T
1 T
12378684 CAATATTCTT
Statistics
Matches: 306, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 306 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:12378499 original size:16 final size:16
Alignment explanation
Indices: 12378462--12378503 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12378452 TTAATCATAT
*
12378462 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12378478 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12378493 TTAAAATATAT
1 TTAAAATATAT
12378504 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12378510 original size:14 final size:15
Alignment explanation
Indices: 12378471--12378512 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12378461 TTTAAACATA
*
12378471 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12378486 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12378500 A-TATAATTTAATA
1 ATTATAATTAAATA
12378513 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12378656 original size:16 final size:16
Alignment explanation
Indices: 12378619--12378660 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12378609 TTAATCATAT
*
12378619 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12378635 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12378650 TTAAAATATAT
1 TTAAAATATAT
12378661 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12378667 original size:14 final size:15
Alignment explanation
Indices: 12378628--12378669 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12378618 TTTAAACATA
*
12378628 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12378643 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12378657 A-TATAATTTAATA
1 ATTATAATTAAATA
12378670 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12379018 original size:59 final size:58
Alignment explanation
Indices: 12378954--12379142 Score: 195
Period size: 59 Copynumber: 3.2 Consensus size: 58
12378944 CTAAAATCAT
12378954 AATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAATTAATAAA
1 AATATATAATACTATAAAATATAATTTAA-ATAATTATTATTAAATATAAATTAATAAA
* * * * * * * *
12379013 AATATATAA-ATTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-TTAATAAAATCAT
1 AATATATAATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATAAAT-TAATAAA
* *
12379074 AATATATAATACTATATAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTT-AAATAATTATTATTAAATATAAATTAATAAA
12379133 AATATATAAT
1 AATATATAAT
12379143 TTAATAAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
58 4 0.04
59 41 0.40
60 23 0.23
61 28 0.27
62 6 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (58 bp):
AATATATAATACTATAAAATATAATTTAAATAATTATTATTAAATATAAATTAATAAA
Found at i:12379044 original size:120 final size:120
Alignment explanation
Indices: 12378915--12379216 Score: 550
Period size: 120 Copynumber: 2.5 Consensus size: 120
12378905 TAGAAAAAAA
** *
12378915 TTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATT
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
*
12378980 TAACATAATTATTATTAAATATAAATTAATAAAAATATATAAATTAATAAAATTC
66 TAAAATAATTATTATTAAATATAAATTAATAAAAATATATAAATTAATAAAATTC
12379035 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
* *
12379100 TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
66 TAAAATAATTATTATTAAATATAAATTAATAAAAATATATAAATTAATAAAATTC
12379155 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
12379217 GATTAATAAT
Statistics
Matches: 176, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 176 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
TAAAATAATTATTATTAAATATAAATTAATAAAAATATATAAATTAATAAAATTC
Found at i:12379056 original size:37 final size:37
Alignment explanation
Indices: 12379015--12379198 Score: 131
Period size: 37 Copynumber: 4.7 Consensus size: 37
12379005 TTAATAAAAA
* *
12379015 TATATAAATTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
12379052 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
12379091 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
12379135 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
12379172 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
12379199 ATAATACTAT
Statistics
Matches: 113, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 31 0.27
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:12379121 original size:26 final size:26
Alignment explanation
Indices: 12378970--12379128 Score: 76
Period size: 26 Copynumber: 6.5 Consensus size: 26
12378960 TAATACTATA
*
12378970 AAATATAATTTAACATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
* *
12378996 AAATATAAATTAATAA-AAATA-TA-T
1 AAATATAATTTAA-AATAATTATTATT
** *
12379020 AAAT-TAA--TAAAATTCTTAATATT
1 AAATATAATTTAAAATAATTATTATT
* * *
12379043 AAATAT--TCTT-ATATGAATT-TAATA
1 AAATATAAT-TTAAAAT-AATTATTATT
* * *
12379067 AAATCATAATATATAAT-ACTA-TA-T
1 AAAT-ATAATTTAAAATAATTATTATT
12379091 -AATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
12379116 AAATATAATTTAA
1 AAATATAATTTAA
12379129 TAAAAATATA
Statistics
Matches: 94, Mismatches: 21, Indels: 36
0.62 0.14 0.24
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 12 0.13
23 14 0.15
24 17 0.18
25 11 0.12
26 29 0.31
27 4 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:12379203 original size:61 final size:61
Alignment explanation
Indices: 12379013--12379203 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
12379003 AATTAATAAA
*
12379013 AATATATAAATTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
* * * * * * ** * *
12379074 AATATATAATACT-ATATAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTAATAAAATCAT
12379133 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
12379194 AATATATAAT
1 AATATATAAT
12379204 ACTATATAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.35
60 16 0.16
61 44 0.44
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
Found at i:12393283 original size:9 final size:9
Alignment explanation
Indices: 12393254--12393303 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
12393244 TCATAATATC
12393254 CATGTAATT
1 CATGTAATT
*
12393263 CATATAATT
1 CATGTAATT
*
12393272 CATGTAAAT
1 CATGTAATT
12393281 CATGTAAGTT
1 CATGTAA-TT
12393291 -A--TAATT
1 CATGTAATT
12393297 CATGTAA
1 CATGTAA
12393304 ATCACATAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
9 26 0.79
10 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (9 bp):
CATGTAATT
Found at i:12393480 original size:25 final size:25
Alignment explanation
Indices: 12393444--12393498 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
12393434 CATCATTTTC
* * *
12393444 GCTCTTTCGAGC-CATAATCGGTAA
1 GCTCCTTCGAGCTCATAAACAGTAA
*
12393468 GCTCCTTCTGAGCTGATAAACAGTAA
1 GCTCCTTC-GAGCTCATAAACAGTAA
12393494 GCTCC
1 GCTCC
12393499 AAAGAGCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
26 14 0.56
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (25 bp):
GCTCCTTCGAGCTCATAAACAGTAA
Found at i:12393817 original size:27 final size:27
Alignment explanation
Indices: 12393779--12393834 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12393769 ATTTAAATTT
12393779 AGATTCTAATTATACGAACTTACCTCG
1 AGATTCTAATTATACGAACTTACCTCG
12393806 AGATTCTAATTATACGAACTTACCTCG
1 AGATTCTAATTATACGAACTTACCTCG
12393833 AG
1 AG
12393835 TTGCTCGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (27 bp):
AGATTCTAATTATACGAACTTACCTCG
Found at i:12396660 original size:34 final size:34
Alignment explanation
Indices: 12396608--12396703 Score: 140
Period size: 34 Copynumber: 2.8 Consensus size: 34
12396598 GTTCAGAGTT
12396608 TTTTAAA-AAATTAATTAAATTAGGTTTTAAGGG
1 TTTTAAATAAATTAATTAAATTAGGTTTTAAGGG
* *
12396641 TTTTAAATAAATAAATTAAATTAGGGTTTAAGGG
1 TTTTAAATAAATTAATTAAATTAGGTTTTAAGGG
* *
12396675 TTCTAAATAAATTAATTGAATTAAGGTTT
1 TTTTAAATAAATTAATTAAATT-AGGTTT
12396704 AATTTTTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 7 0.13
34 43 0.78
35 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTTAAATAAATTAATTAAATTAGGTTTTAAGGG
Found at i:12397069 original size:124 final size:123
Alignment explanation
Indices: 12396804--12397318 Score: 642
Period size: 125 Copynumber: 4.1 Consensus size: 123
12396794 AGGATTTTGT
* * * ** * *
12396804 TTTTTCTACAGTAGTT-TCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAATATAAAA
1 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAAACAATTCT-AAAAAATAGTATCAAA
* * * *
12396868 AACGCTTCAAGCAAGATGCATTGTCAGTAAAATTACTGAAAAAGCT-TCCACGTGGACGCTC
64 AACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCT-CACGT-GACGCTC
* * *
12396929 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATAATTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCT-AAAAAATAGTATCAAAA
* *
12396994 ACGCTTTAAGCAGGAT-CACTGTCAGCAAAATTACTGAAAAAGCTCTAATGTAGACGCTC
65 ACGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCTCACGT-GACGCTC
* * **
12397053 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAAATGATTCTCAAAAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCT-AAAAAATAGTATCAAAA
* *
12397118 ATGC-TTAAGGCAGTATGCACTGTCAGCAAAATTACTGAAAAAGGCTCTCACGTGACGCTC
65 ACGCTTTAA-GCAGGATGCACTGTCAGCAAAATTACTGAAAAA-GCTCTCACGTGACGCTC
* *
12397178 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTGAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTAAAAAATAGTATCAAAAA
* * * * *
12397243 CGCTTTAAGCATGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGAACGCTA
66 CGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAGCTCTCACGTG-ACGCTC
12397303 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
12397319 TCTGCTTGGC
Statistics
Matches: 343, Mismatches: 39, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
123 4 0.01
124 156 0.45
125 174 0.51
126 9 0.03
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (123 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTAAAAAATAGTATCAAAAA
CGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCTCACGTGACGCTC
Found at i:12397275 original size:249 final size:250
Alignment explanation
Indices: 12396804--12397318 Score: 720
Period size: 249 Copynumber: 2.1 Consensus size: 250
12396794 AGGATTTTGT
* * * * *
12396804 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAATATAAAAA
1 TTTTTCTACAGTAGTTCCAGAAAAAATAATTTTGAGAAAACGATTCTCAAAAAATAATATAAAAA
* *
12396869 ACGCTTCAAGCAAGATGCATTGTCAGTAAAATTACTGAAAAAGCTTCCACGTGGACGCTCTTTTT
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAGCTTCCACGTGGACGCTCTTTTT
* *
12396934 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATAATTCTAAAAAAATAGTGTCAAAAACGCT
131 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTAAAAAAATAGTGTCAAAAACGCT
*
12396999 TTAAGCAGGATCACTGTCAGCAAAATTACTG-AAAAAGCTCTAATGTAGACGCTC
196 TTAAGCAGGATCACTATCAGCAAAATTACTGAAAAAAGCTCTAATGTAGACGCTC
* * * * *
12397053 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAAATGATTCTCAAAAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCCAGAAAAAATAATTTTGAGAAAACGATTCTCAAAAAATAATATAAAAA
*
12397118 ATGCTT-AAGGC-AGTATGCACTGTCAGCAAAATTACTGAAAAAGGC-TCTCACGT-GACGCTCT
66 ACGCTTCAA-GCAAG-ATGCACTGTCAGCAAAATTACTGAAAAA-GCTTC-CACGTGGACGCTCT
*
12397179 TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCT-GAAAAATAGTGTCAAAAA
127 TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTAAAAAAATAGTGTCAAAAA
* * ** * *
12397243 CGCTTTAAGCATGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGT-GAACGCTA
192 CGCTTTAAGCAGGAT-CACTATCAGCAAAATTACTGAAAAAAGCTCTAATGTAG-ACGCTC
12397303 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
12397319 TCTGCTTGGC
Statistics
Matches: 235, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
248 35 0.15
249 161 0.69
250 39 0.17
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (250 bp):
TTTTTCTACAGTAGTTCCAGAAAAAATAATTTTGAGAAAACGATTCTCAAAAAATAATATAAAAA
ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAGCTTCCACGTGGACGCTCTTTTT
CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAAACAATTCTAAAAAAATAGTGTCAAAAACGCT
TTAAGCAGGATCACTATCAGCAAAATTACTGAAAAAAGCTCTAATGTAGACGCTC
Found at i:12399407 original size:21 final size:20
Alignment explanation
Indices: 12399378--12399424 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
12399368 ATATAATAAT
12399378 ATAATAACATAAAATAAAAGAA
1 ATAA-AACATAAAAT-AAAGAA
* *
12399400 ATAAAACATGAAATAAATAA
1 ATAAAACATAAAATAAAGAA
12399420 ATAAA
1 ATAAA
12399425 GAAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAACATAAAATAAAGAA
Found at i:12400655 original size:22 final size:23
Alignment explanation
Indices: 12400612--12400656 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
12400602 ATATAGTGAA
12400612 TTGAAAATAGAATGTGAAATATG
1 TTGAAAATAGAATGTGAAATATG
*
12400635 TTGACAATA-AATG-GAATATATG
1 TTGAAAATAGAATGTGAA-ATATG
12400657 AGTTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 9 0.45
23 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (23 bp):
TTGAAAATAGAATGTGAAATATG
Found at i:12403080 original size:18 final size:18
Alignment explanation
Indices: 12403057--12403097 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
12403047 CTGAGAAAAT
*
12403057 GATACATATAAGGGTTAG
1 GATACATATAAGGGCTAG
12403075 GATACATATAAGGGCTAG
1 GATACATATAAGGGCTAG
12403093 GATAC
1 GATAC
12403098 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (18 bp):
GATACATATAAGGGCTAG
Found at i:12416576 original size:23 final size:23
Alignment explanation
Indices: 12416549--12416593 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
12416539 GTAATAAATT
12416549 TGAAAAGGCAACAACTGTTTATC
1 TGAAAAGGCAACAACTGTTTATC
12416572 TGAAAAGGCAACAACTGTTTAT
1 TGAAAAGGCAACAACTGTTTAT
12416594 GAATATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (23 bp):
TGAAAAGGCAACAACTGTTTATC
Found at i:12423346 original size:27 final size:27
Alignment explanation
Indices: 12423326--12423426 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
12423316 TTCATGATTA
*
12423326 GCCATAAAGGCGTTCCTTTCATATTGC
1 GCCACAAAGGCGTTCCTTTCATATTGC
* * * *
12423353 GCCACAAAGGCTTTCTTTTTATATTGT
1 GCCACAAAGGCGTTCCTTTCATATTGC
** *
12423380 GCCACAAAGATGTTCATTTCATAATT-C
1 GCCACAAAGGCGTTCCTTTCAT-ATTGC
12423407 GCCACAAAGGCGTTCCTTTC
1 GCCACAAAGGCGTTCCTTTC
12423427 CTAATGTGTT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
27 56 0.95
28 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (27 bp):
GCCACAAAGGCGTTCCTTTCATATTGC
Found at i:12425242 original size:40 final size:40
Alignment explanation
Indices: 12425187--12425321 Score: 164
Period size: 40 Copynumber: 3.4 Consensus size: 40
12425177 CGGTTATTTG
* *
12425187 TGGCACTTTGTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* ***
12425227 TGGCACTTAGTGTGCGATTCGACATAGTTTCAAATATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
12425267 TGGCACTTAGTGT-CTGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGC-GATTCGACATAGCTTCGGCTATATA
*
12425307 TGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
12425322 TAGATATTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 77 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:12425358 original size:28 final size:28
Alignment explanation
Indices: 12425304--12425363 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
12425294 CTTCGGCTAT
*
12425304 GTATGACACTTAGTGTGCTAGATATTGA
1 GTATGACACTTAGTGTGCTAGACATTGA
* *
12425332 GTATGGCACTTAGTGTG-TAAGGCATTGA
1 GTATGACACTTAGTGTGCT-AGACATTGA
12425360 GTAT
1 GTAT
12425364 TCAACGACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (28 bp):
GTATGACACTTAGTGTGCTAGACATTGA
Found at i:12432790 original size:40 final size:40
Alignment explanation
Indices: 12432745--12432878 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
12432735 TTATTTGTGG
* *
12432745 CACTTAGTGTGCGATACGACATAGCTTCGGCTAGATATGA
1 CACTTAGTGTGCGATACGACATAGCTTCAGATAGATATGA
* * * * *
12432785 CACTTAGTGTGTGATTCGACATAGTTTCAGATATATATGG
1 CACTTAGTGTGCGATACGACATAGCTTCAGATAGATATGA
** * * *
12432825 CACTTAGTGTGCGATTTGAGATAGCTTCA-ACTATG-TACGG
1 CACTTAGTGTGCGATACGACATAGCTTCAGA-TA-GATATGA
12432865 CACTTAGTGTGCGA
1 CACTTAGTGTGCGA
12432879 GATATCGAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CACTTAGTGTGCGATACGACATAGCTTCAGATAGATATGA
Found at i:12434523 original size:35 final size:35
Alignment explanation
Indices: 12434461--12434528 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
12434451 TTTCCTCATT
*
12434461 GAAATACCATACCTACATTTTACAACTCGGTATCG
1 GAAATACCATACCTACATTTTACAACTCAGTATCG
* * *
12434496 GAAATGCCATACCTACGTTTCT-TAACTCAGTAT
1 GAAATACCATACCTACATTT-TACAACTCAGTAT
12434529 GGATTTGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTTACAACTCAGTATCG
Found at i:12434583 original size:35 final size:38
Alignment explanation
Indices: 12434503--12434591 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 38
12434493 TCGGAAATGC
* *
12434503 CATACCTACGTTTCTTAACTCAGTATGGATTTGATAATA
1 CATACCTACGTTTCTCAACTCAGTATAGA-TTGATAATA
*
12434542 CCATACCTACGTTTCTCAACTCATTATAGA-TGAT-AT-
1 -CATACCTACGTTTCTCAACTCAGTATAGATTGATAATA
12434578 CATACCTACGTTTC
1 CATACCTACGTTTC
12434592 ACACTTTTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 14 0.30
37 2 0.04
38 4 0.09
40 26 0.57
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (38 bp):
CATACCTACGTTTCTCAACTCAGTATAGATTGATAATA
Found at i:12438012 original size:21 final size:21
Alignment explanation
Indices: 12437971--12438017 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12437961 TAACAAATTT
*
12437971 AGTTAATTACATATTATATAA
1 AGTTAATTAAATATTATATAA
*
12437992 AGTTAATTATAATTTTA-ATAA
1 AGTTAATTA-AATATTATATAA
12438013 A-TTAA
1 AGTTAA
12438018 CCCTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
AGTTAATTAAATATTATATAA
Found at i:12440184 original size:20 final size:18
Alignment explanation
Indices: 12440146--12440189 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
12440136 AAACCCAAAT
12440146 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
12440163 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
12440183 TTTCCCT
1 TTTCCCT
12440190 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:12440226 original size:3 final size:3
Alignment explanation
Indices: 12440218--12440245 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12440208 CTTTCTTTCT
12440218 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12440246 GTTTTATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12440307 original size:17 final size:18
Alignment explanation
Indices: 12440286--12440328 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
12440276 AAATTATATA
12440286 ATATAATA-TATTTTACTT
1 ATATAATACTA-TTTACTT
*
12440304 -TATATTACTATTTACTT
1 ATATAATACTATTTACTT
12440321 ATATAATA
1 ATATAATA
12440329 AGTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATACTATTTACTT
Found at i:12447435 original size:6 final size:6
Alignment explanation
Indices: 12447424--12447470 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
12447414 AGGCATGGAT
12447424 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGA
12447471 TGACGAGGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (6 bp):
GATGAA
Found at i:12456248 original size:11 final size:11
Alignment explanation
Indices: 12456189--12456256 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
12456179 ATTTTAGGCG
*
12456189 ATTAATTTATA
1 ATTAATTTTTA
12456200 ATTAATTTTTAA
1 ATTAATTTTT-A
*
12456212 ATAAGATATTTT-
1 ATTA-AT-TTTTA
12456224 -TTAATTATTATA
1 ATTAATT-TT-TA
12456236 ATTAATTTTTA
1 ATTAATTTTTA
*
12456247 ATTTATTTTT
1 ATTAATTTTT
12456257 TAAATATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 23 0.50
12 6 0.13
13 8 0.17
14 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
ATTAATTTTTA
Found at i:12456254 original size:32 final size:34
Alignment explanation
Indices: 12456195--12456259 Score: 89
Period size: 36 Copynumber: 1.9 Consensus size: 34
12456185 GGCGATTAAT
12456195 TTATAATTAATTTTTAAATAAGATATTTTTTAATTA
1 TTATAATTAATTTTTAAAT-A-ATATTTTTTAATTA
*
12456231 TTATAATTAATTTTT-AAT-TTATTTTTTAA
1 TTATAATTAATTTTTAAATAATATTTTTTAA
12456260 ATATAATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.36
35 3 0.11
36 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
TTATAATTAATTTTTAAATAATATTTTTTAATTA
Found at i:12456492 original size:12 final size:12
Alignment explanation
Indices: 12456475--12456499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12456465 TATTAAAATA
12456475 TATTAATTATTT
1 TATTAATTATTT
12456487 TATTAATTATTT
1 TATTAATTATTT
12456499 T
1 T
12456500 GATAACGAGA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTAATTATTT
Found at i:12457554 original size:25 final size:28
Alignment explanation
Indices: 12457503--12457556 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
12457493 ATTAAGCTAT
12457503 AAAATAAAAAGAGTGATCGTGAATTATTAC
1 AAAATAAAAAGAGTGATC-TG-ATTATTAC
12457533 AAAAT-AAAAGAGTGAT-TG-TTATTA
1 AAAATAAAAAGAGTGATCTGATTATTA
12457557 TAACTAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 2 0.08
29 11 0.46
30 5 0.21
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.30
Consensus pattern (28 bp):
AAAATAAAAAGAGTGATCTGATTATTAC
Found at i:12459657 original size:20 final size:21
Alignment explanation
Indices: 12459623--12459676 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
12459613 TGATGATATT
*
12459623 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
12459644 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
12459664 TTTTATTATTTTA
1 TTATATTATTTTA
12459677 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:12459682 original size:11 final size:11
Alignment explanation
Indices: 12459666--12459693 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12459656 ATGAGATATT
12459666 TTATTATTTTA
1 TTATTATTTTA
12459677 TTATTATTTTA
1 TTATTATTTTA
12459688 TTATTA
1 TTATTA
12459694 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:12461978 original size:24 final size:23
Alignment explanation
Indices: 12461849--12461965 Score: 112
Period size: 23 Copynumber: 5.0 Consensus size: 23
12461839 CCCGATATAT
12461849 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
12461872 GGCTCTTTGTGAGCTTTCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * * *
12461895 GTGCTC-GCTTGAACTTCCTGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* *
12461920 TGGCTATCCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
12461943 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
12461966 TGGTTCTTTG
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
22 7 0.10
23 46 0.63
24 4 0.05
25 14 0.19
26 2 0.03
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:12462005 original size:71 final size:71
Alignment explanation
Indices: 12461843--12462009 Score: 167
Period size: 71 Copynumber: 2.3 Consensus size: 71
12461833 GAGCGTCCCG
* * * *
12461843 ATATATGGCTCTTCGTGAGCTTCCCGATAGGCTCTTTGTGAGCTTTCCGATAGTGCTCGCTTGAA
1 ATATATGGCTATAC-TGAGCTTCCCGATAGGCTCTTCGTGAGCTTCCCGATAGTGCTCGCTTGAA
* *
12461908 CTTCCTG
65 CTACCTA
* * * **
12461915 ATATATGGCTATCCGGAGCTTCCCGATAGGCTCTTCGTGAGCTTCCCGATA-TGGTTCTTTGTGA
1 ATATATGGCTATACTGAGCTTCCCGATAGGCTCTTCGTGAGCTTCCCGATAGT-GCTCGCT-TGA
12461979 ACTACCTA
64 ACTACCTA
* * *
12461987 AT-TTTGGCTCTATTGAGCTTCCC
1 ATATATGGCTATACTGAGCTTCCC
12462010 ATTATAGCCC
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
70 1 0.01
71 54 0.69
72 23 0.29
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (71 bp):
ATATATGGCTATACTGAGCTTCCCGATAGGCTCTTCGTGAGCTTCCCGATAGTGCTCGCTTGAAC
TACCTA
Found at i:12466750 original size:3 final size:3
Alignment explanation
Indices: 12466744--12466776 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12466734 ACACTACTAT
12466744 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12466777 TAGAAATGCA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12466946 original size:38 final size:37
Alignment explanation
Indices: 12466875--12466952 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
12466865 GATATACACT
* *
12466875 AATATATAATAATAGTAATAATAATAAAGTAGTAAAA
1 AATATATAATAATAGTAAAAATAACAAAGTAGTAAAA
*
12466912 AATATAATTATAATAGTAAAATATAACAAATAGTAGTAAAA
1 AATAT-ATAATAATAGTAAAA-ATAAC-AA-AGTAGTAAAA
12466953 GAAAATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.15
38 13 0.38
39 4 0.12
40 2 0.06
41 10 0.29
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (37 bp):
AATATATAATAATAGTAAAAATAACAAAGTAGTAAAA
Found at i:12468693 original size:45 final size:44
Alignment explanation
Indices: 12468586--12468884 Score: 168
Period size: 44 Copynumber: 6.8 Consensus size: 44
12468576 GATTTGTAAT
* * *** *
12468586 TTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCAA
1 TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTCGTCAA
* * * *
12468630 -TTCTGCTATGTTTCCCTACTACTTAGGGGGTTAAGATTCGTCAA
1 TTTCAGC-CTGTTACCCTACTGCTTAGGGGGTTAAGATTCGTCAA
* * * * *
12468674 TGTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAGGGCTT-GTCACC
1 T-TTCAGCCTGTTACCCTACTGCTTAGGGGGTTA-AGATTCGTCA-A
* * * * *
12468720 TTTGA-TCTGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTATGAA
1 TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTC-GTCAA
* * * * *
12468763 -TTCAACCTGTTACCCTACTGTTTAGGGGGGTAAGGTTTGTCAA
1 TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTCGTCAA
* * *
12468806 TCTTC-GACCTGCT-CCACTACTGCTTAGGGAGATAAGA-TC-TCTAA
1 T-TTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGATTCGTC-AA
* * *
12468850 TTT-GGTCTGTTACCCTACTGCTTAGGGGTTTAAGA
1 TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGA
12468885 CCCTTTGTCT
Statistics
Matches: 189, Mismatches: 50, Indels: 34
0.69 0.18 0.12
Matches are distributed among these distances:
42 26 0.14
43 41 0.22
44 60 0.32
45 53 0.28
46 9 0.05
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (44 bp):
TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTCGTCAA
Found at i:12468738 original size:89 final size:88
Alignment explanation
Indices: 12468574--12468790 Score: 253
Period size: 89 Copynumber: 2.5 Consensus size: 88
12468564 TCAGGGAGAA
* * ** *
12468574 AAGATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCAATTCTGCTAT
1 AAGATTCGTAATGTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCATCAATTCTGATAT
12468639 GTTTCCCTACTACTTAGGGGGTT
66 GTTTCCCTACTACTTAGGGGGTT
* *** *
12468662 AAGATTCGTCAATGTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAGGGCTTGTCACCTT-TGAT
1 AAGATTCGT-AATGTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCATCA-ATTCTGAT
* *
12468726 CTGTTTCCCTACTGCTTAGGGGGTT
64 ATGTTTCCCTACTACTTAGGGGGTT
*
12468751 AAGA-TC-T-ATGAATTCAACCTGTTACCCTACTGTTTAGGGG
1 AAGATTCGTAATG--TTCAGCCTGTTACCCTACTGTTTAGGGG
12468791 GGTAAGGTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
85 3 0.03
87 28 0.25
88 10 0.09
89 69 0.62
90 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (88 bp):
AAGATTCGTAATGTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCATCAATTCTGATAT
GTTTCCCTACTACTTAGGGGGTT
Found at i:12468860 original size:87 final size:87
Alignment explanation
Indices: 12468682--12469048 Score: 363
Period size: 86 Copynumber: 4.2 Consensus size: 87
12468672 AATGTTCAGC
* ** * * *
12468682 CTGTTACCCTACTGTTTAGGGGTTT-AGGGCTTGTCACCTTTGATCTGTTTCCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCTTGTCATCTTCGATCTGTCTCCCTACTGCTTAGG
* * * ****
12468746 GGGTTAAGATCTATGAATTCAAC
66 GAGATAAGATCTCT-AATTTGGT
* ** ** *
12468769 CTGTTACCCTACTGTTTAGGGGGGTAAG-GTTTGTCAATCTTCGACCTG-CTCCACTACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCTTGTC-ATCTTCGATCTGTCTCC-CTACTGCTTA
12468832 GGGAGATAAGATCTCTAATTTGGT
64 GGGAGATAAGATCTCTAATTTGGT
* *
12468856 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTT-T-GTCTTCGATCT-ACTCCACTACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGTTTAAGA-CCTTGTCATCTTCGATCTGTCTCC-CTACTGCTTA
*
12468918 GGGAGATCAGATCTGC-AATTTGGT
64 GGGAGATAAGATCT-CTAATTTGGT
* * * *
12468942 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCCTAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCTTGTCATCTTCGATCTGTCTCCCTACTGCTTAGG
* * *
12469006 GGGTTAAGATCTGTAATTTGGT
66 GAGATAAGATCTCTAATTTGGT
12469028 CTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
12469049 AGATAAGGCT
Statistics
Matches: 240, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
85 4 0.02
86 134 0.56
87 65 0.27
88 35 0.15
89 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGACCTTGTCATCTTCGATCTGTCTCCCTACTGCTTAGG
GAGATAAGATCTCTAATTTGGT
Found at i:12468872 original size:42 final size:42
Alignment explanation
Indices: 12468822--12469055 Score: 174
Period size: 42 Copynumber: 5.5 Consensus size: 42
12468812 ACCTGCTCCA
12468822 CTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACC
* * ** * **
12468864 CTACTGCTTAGGG-GTTTAAGA-CCCTTTGTCTTCGATCTACT-CC
1 CTACTGCTTAGGGAG-ATAAGATCTC-TAAT-TT-GGTCTGTTACC
*
12468907 ACTACTGCTTAGGGAGATCAGATCTGC-AATTTGGTCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCT-CTAATTTGGTCTGTTACC
* * * * * *
12468950 CTACTGCTTAGGG-GTTTAAGACCCTTCGT-CTTCGATCTGTTTCC
1 CTACTGCTTAGGGAG-ATAAGA-TC-TC-TAATTTGGTCTGTTACC
* * * *
12468994 CTACTGCCTAGGGGGTTAAGATCTGTAATTTGGTCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACC
12469036 CTACTGCTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAG
12469056 GCTCGTGGAT
Statistics
Matches: 144, Mismatches: 32, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
41 5 0.03
42 71 0.49
43 11 0.08
44 53 0.37
45 3 0.02
46 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACC
Found at i:12468916 original size:86 final size:86
Alignment explanation
Indices: 12468806--12469048 Score: 364
Period size: 86 Copynumber: 2.8 Consensus size: 86
12468796 GGTTTGTCAA
* *
12468806 TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACCCTACTGC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACCCTACTGC
*
12468871 TTAGGGGTTTAAGACCCTTTG
66 TTAGGGGTTTAAGACCCTTCG
*
12468892 TCTTCGATCTACTCCACTACTGCTTAGGGAGATCAGATCTGC-AATTTGGTCTGTTACCCTACTG
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT-CTAATTTGGTCTGTTACCCTACTG
12468956 CTTAGGGGTTTAAGACCCTTCG
65 CTTAGGGGTTTAAGACCCTTCG
** * * * *
12468978 TCTTCGATCTGTTTCC-CTACTGCCTAGGGGGTTAAGATCTGTAATTTGGTCTGTTACCCTACTG
1 TCTTCGATCT-ACTCCACTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACCCTACTG
12469042 CTTAGGG
65 CTTAGGG
12469049 AGATAAGGCT
Statistics
Matches: 143, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
86 139 0.97
87 4 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (86 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTCTAATTTGGTCTGTTACCCTACTGC
TTAGGGGTTTAAGACCCTTCG
Found at i:12468998 original size:44 final size:44
Alignment explanation
Indices: 12468855--12469048 Score: 152
Period size: 44 Copynumber: 4.5 Consensus size: 44
12468845 TCTAATTTGG
*
12468855 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGA
** * * * * * *
12468899 TCTACT-CCACTACTGCTTAGGGAG-ATCAGA-TCTGCAAT-TT-GG
1 TCTGTTACC-CTACTGCTTAGGG-GTTTAAGACCCTTC-GTCTTCGA
12468941 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGA
* * * * * * *
12468985 TCTGTTTCCCTACTGCCTAGGGGGTTAAGA-TC-T-GTAATTTGG
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGA
12469027 TCTGTTACCCTACTGCTTAGGG
1 TCTGTTACCCTACTGCTTAGGG
12469049 AGATAAGGCT
Statistics
Matches: 115, Mismatches: 26, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
41 3 0.03
42 47 0.41
43 14 0.12
44 50 0.43
45 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (44 bp):
TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGA
Found at i:12478441 original size:19 final size:19
Alignment explanation
Indices: 12478419--12478480 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
12478409 ATATATACAC
12478419 TAATATATAATAATAGTAA
1 TAATATATAATAATAGTAA
* *
12478438 TAATA-ATAA-AGTAATAA
1 TAATATATAATAATAGTAA
* *
12478455 AAATATAATTATAATAGTAA
1 TAATAT-ATAATAATAGTAA
12478475 -AATATA
1 TAATATA
12478481 ACAAATAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 10 0.29
18 5 0.15
19 13 0.38
20 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TAATATATAATAATAGTAA
Found at i:12478452 original size:14 final size:15
Alignment explanation
Indices: 12478419--12478459 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
12478409 ATATATACAC
12478419 TAATATATAATAATAG
1 TAATA-ATAATAATAG
12478435 TAATAATAATAA-AG
1 TAATAATAATAATAG
*
12478449 TAATAAAAATA
1 TAATAATAATA
12478460 TAATTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:12479927 original size:45 final size:45
Alignment explanation
Indices: 12479876--12480004 Score: 136
Period size: 49 Copynumber: 2.8 Consensus size: 45
12479866 TCCACTCAAT
12479876 TGCAACTTCAGAGAAATAATATTTGCTATCTTCAGTCTGTTCCAC
1 TGCAACTTCAGAGAAATAATATTTGCTATCTTCAGTCTGTTCCAC
* * *
12479921 TGCAACTTCAGAGAGATAGGATCTATAATT--TAGCTTCAATCTGTTCCAC
1 TGCAACTTCAGAGAAATA--A--TAT--TTGCTATCTTCAGTCTGTTCCAC
* * *
12479970 TGCAACTTCAGGGAAATAAGATTTGCTATTTTCAG
1 TGCAACTTCAGAGAAATAATATTTGCTATCTTCAG
12480005 CCTACTCCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
43 2 0.03
45 25 0.37
47 2 0.03
49 36 0.54
51 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (45 bp):
TGCAACTTCAGAGAAATAATATTTGCTATCTTCAGTCTGTTCCAC
Found at i:12480238 original size:45 final size:45
Alignment explanation
Indices: 12480188--12480355 Score: 123
Period size: 45 Copynumber: 3.8 Consensus size: 45
12480178 TGCTATGTTT
*
12480188 CCCTACTGCTTAGGGGGTTAAGATTCGTCAATCTTCAGCCAGTTA
1 CCCTACTGCTTAGGGGGTTAAGATTCGTCAATCTTCAACCAGTTA
** * * * * * * *
12480233 CCCTACTTTTTAGGGGTTTAAGGCTT-GTC-ACCTTTGATCTA-TTT
1 CCCTACTGCTTAGGGGGTTAA-GATTCGTCAATC-TTCAACCAGTTA
* *
12480277 CCCTACTGCTTAGGGGGTTAAGA-TCTGTGAA--TTCAACCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATTC-GTCAATCTTCAACCAGTTA
* * * *
12480320 CCCTACTGTTTAGGGGGGTAAGGTTTGTCAATCTTC
1 CCCTACTGCTTAGGGGGTTAAGATTCGTCAATCTTC
12480356 GATCTGCTCC
Statistics
Matches: 90, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
42 5 0.06
43 27 0.30
44 25 0.28
45 30 0.33
46 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (45 bp):
CCCTACTGCTTAGGGGGTTAAGATTCGTCAATCTTCAACCAGTTA
Found at i:12480283 original size:89 final size:87
Alignment explanation
Indices: 12480185--12480396 Score: 241
Period size: 87 Copynumber: 2.4 Consensus size: 87
12480175 TTCTGCTATG
* *
12480185 TTTCCCTACTGCTTAGGGGGTTAAGAT-TCGTCAATCTTCAGCCAGTTACCCTACTTTTTAGGGG
1 TTTCCCTACTGCTTAGGGGGTTAAGATCT-GTCAA--TTCAACCAGTTACCCTACTGTTTAGGGG
**
12480249 TTTAAGGCTTGTCACCTTTGATCTA
63 GGTAAGGCTTGTCACCTTTGATCTA
* *
12480274 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTGTTACCCTACTGTTTAGGGGGGT
1 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTCAATTCAACCAGTTACCCTACTGTTTAGGGGGGT
* * *
12480339 AAGGTTTGTCAATCTTCGATCT-
66 AAGGCTTGTC-ACCTTTGATCTA
** * *
12480361 GCTCCACTACTGCTTAGGGTGATAAGATCTGT-AATT
1 TTTCC-CTACTGCTTAGGGGGTTAAGATCTGTCAATT
12480397 TGGTCTGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
87 42 0.39
88 33 0.31
89 31 0.29
90 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (87 bp):
TTTCCCTACTGCTTAGGGGGTTAAGATCTGTCAATTCAACCAGTTACCCTACTGTTTAGGGGGGT
AAGGCTTGTCACCTTTGATCTA
Found at i:12480333 original size:43 final size:42
Alignment explanation
Indices: 12480268--12480592 Score: 203
Period size: 44 Copynumber: 7.6 Consensus size: 42
12480258 TGTCACCTTT
* *
12480268 GATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAATTC
1 GATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AATTC
* * * * * *
12480311 AACCTGTTACCCTACTGTTTAGGGGGGTAAGGTTTGTCAATCTTC
1 GATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AA--TTC
* * * *
12480356 GATCTGCT-CCACTACTGCTTAGGGTGATAAGATCTGTAATTT
1 GATCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAATTC
* * * *
12480398 GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTC
1 GATCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAATTC
* * * *
12480442 GATCTGCT-CCACTACTGCTTAGGGAGATAAGATCTGCAATT-
1 GATCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAATTC
* * * * * * *
12480483 TAGCTTGTTACCTTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTT
1 GATC-TGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAATTC
* * * *
12480528 GATCTGTTTCTCTACTGCATAGGGGGTTAAGATCTGTAATTT
1 GATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAATTC
*
12480570 G-GCTGTTACCCTACTGCTTAGGG
1 GATCTGTTACCCTACTGCTTAGGG
12480593 AGATAAGGCT
Statistics
Matches: 209, Mismatches: 57, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
41 23 0.11
42 54 0.26
43 41 0.20
44 57 0.27
45 34 0.16
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (42 bp):
GATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAATTC
Found at i:12480459 original size:86 final size:85
Alignment explanation
Indices: 12480351--12480592 Score: 367
Period size: 86 Copynumber: 2.8 Consensus size: 85
12480341 GGTTTGTCAA
*
12480351 TCTTCGATCTGCTCCACTACTGCTTAGGGTGATAAGATCTGTAATTTGGTCTGTTACCCTACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTGG-CTGTTACCCTACTGC
12480416 TTAGGGGTTTAAGACCCTTCG
65 TTAGGGGTTTAAGACCCTTCG
* * *
12480437 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTAGCTTGTTACCTTACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTGGC-TGTTACCCTACTGC
12480502 TTAGGGGTTTAAGACCCTTCG
65 TTAGGGGTTTAAGACCCTTCG
* * * * * * *
12480523 TCTTTGATCTGTTTCTCTACTGCATAGGGGGTTAAGATCTGTAATTTGGCTGTTACCCTACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTGGCTGTTACCCTACTGCT
12480588 TAGGG
66 TAGGG
12480593 AGATAAGGCT
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 20 0.14
86 121 0.86
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (85 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTGGCTGTTACCCTACTGCT
TAGGGGTTTAAGACCCTTCG
Found at i:12488886 original size:43 final size:43
Alignment explanation
Indices: 12488793--12488889 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
12488783 AGATGTGATT
* * * * * *
12488793 ACATGTAAGACCATGTTTGGGATATTGGCATTGTATTGTGATT
1 ACATGTAAGACCATGTCTGAGACATTGGCATCGTATTGTAATA
* *
12488836 GCGTGTAAGACCATGTCTGAGACATTGGCATCG-ATATGTAATA
1 ACATGTAAGACCATGTCTGAGACATTGGCATCGTAT-TGTAATA
12488879 ACATGTAAGAC
1 ACATGTAAGAC
12488890 TATATCTGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGAGACATTGGCATCGTATTGTAATA
Found at i:12492640 original size:18 final size:19
Alignment explanation
Indices: 12492613--12492648 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12492603 GAATGTACTA
12492613 TTCATATACA-CATATATT
1 TTCATATACATCATATATT
*
12492631 TTCATTTACATCATATAT
1 TTCATATACATCATATAT
12492649 AAATTGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCATATACATCATATATT
Found at i:12492939 original size:56 final size:56
Alignment explanation
Indices: 12492878--12493013 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
12492868 TCCCAGACAG
* * *
12492878 GGTCTTACTCGCACACATAAATTGGAATCACATATCGATGCCAACGTATTAAACTT
1 GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACATATTAAACAT
*
12492934 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACAT
1 GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACATATTAAACAT
* *
12492990 AGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATAAATCG
12493014 ATGCCATGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACATATTAAACAT
Found at i:12493941 original size:16 final size:18
Alignment explanation
Indices: 12493910--12493942 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
12493900 GAATTTTAGT
12493910 ATAACATATATTATTATA
1 ATAACATATATTATTATA
12493928 ATAACAT-T-TTATTAT
1 ATAACATATATTATTAT
12493943 TCATTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAACATATATTATTATA
Found at i:12503275 original size:5 final size:5
Alignment explanation
Indices: 12503265--12503289 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12503255 AAAACTTATA
12503265 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
12503290 CAATATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:12503951 original size:26 final size:26
Alignment explanation
Indices: 12503922--12503977 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
12503912 TGATACAAAT
12503922 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12503948 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12503974 TGAT
1 TGAT
12503978 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12504630 original size:39 final size:39
Alignment explanation
Indices: 12504576--12504656 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
12504566 AAAATCACCA
12504576 TAAATTGTGAGAGATGAGTTAGAAGGTGAATAAATTATG
1 TAAATTGTGAGAGATGAGTTAGAAGGTGAATAAATTATG
12504615 TAAATTGTGAGAGATGAGTTAGAAGGTGAATAAATTATG
1 TAAATTGTGAGAGATGAGTTAGAAGGTGAATAAATTATG
12504654 TAA
1 TAA
12504657 TTAAAGCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (39 bp):
TAAATTGTGAGAGATGAGTTAGAAGGTGAATAAATTATG
Found at i:12505596 original size:22 final size:21
Alignment explanation
Indices: 12505569--12505609 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
12505559 CATGTTTGAC
*
12505569 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTAACTG-ATGCCA
12505591 TGTTGTTATTAACTGATGC
1 TGTTGTTATTAACTGATGC
12505610 ATGGGACTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (21 bp):
TGTTGTTATTAACTGATGCCA
Found at i:12508064 original size:23 final size:23
Alignment explanation
Indices: 12507995--12508064 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
12507985 ATTATGGGAA
*
12507995 TTGAAAAAGCTAAAATAGAAA-T
1 TTGAAAAAGCTAAAGTAGAAATT
* **
12508017 TTGAAAAAGC-ATAAGGAGGTGATT
1 TTGAAAAAGCTA-AAGTA-GAAATT
*
12508041 TTGAAAAGGCTAAAGTAGAAATT
1 TTGAAAAAGCTAAAGTAGAAATT
12508064 T
1 T
12508065 GGTGTACATT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
21 1 0.03
22 13 0.36
23 7 0.19
24 14 0.39
25 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (23 bp):
TTGAAAAAGCTAAAGTAGAAATT
Found at i:12511384 original size:2 final size:2
Alignment explanation
Indices: 12511377--12511401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12511367 ACTCTGTACG
12511377 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 T
12511402 GATTAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12511479 original size:13 final size:13
Alignment explanation
Indices: 12511463--12511487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12511453 TGATTAGTTT
12511463 TATTAATTAATTC
1 TATTAATTAATTC
12511476 TATTAATTAATT
1 TATTAATTAATT
12511488 ATTTAAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTAATTAATTC
Found at i:12513126 original size:16 final size:16
Alignment explanation
Indices: 12513105--12513135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12513095 TTTGGTCCCT
12513105 GAACTTGGATTATGTC
1 GAACTTGGATTATGTC
*
12513121 GAACTTTGATTATGT
1 GAACTTGGATTATGT
12513136 GACTAATTAG
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:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (16 bp):
GAACTTGGATTATGTC
Found at i:12514314 original size:18 final size:18
Alignment explanation
Indices: 12514274--12514320 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
12514264 ATATCTAATA
*
12514274 AGTAATCAGTAACGGTAGC
1 AGTAA-CAGTAACAGTAGC
*
12514293 AGTAGCAGTAACAGTAAG-
1 AGTAACAGTAACAGT-AGC
12514311 AGTAACAGTA
1 AGTAACAGTA
12514321 TTCAACACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.19
Consensus pattern (18 bp):
AGTAACAGTAACAGTAGC
Found at i:12514374 original size:45 final size:45
Alignment explanation
Indices: 12514300--12514410 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
12514290 AGCAGTAGCA
* *
12514300 GTAACAGTAAGAGTAACAGTATTCAACACACAAAGTG-CTAAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-AAATCG
* * * *
12514345 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
12514390 GTAACAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
12514411 ACAATAGTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
Found at i:12515809 original size:20 final size:20
Alignment explanation
Indices: 12515786--12515842 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
12515776 TTAATTTATT
12515786 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
12515806 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
12515826 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
12515843 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:12518634 original size:119 final size:120
Alignment explanation
Indices: 12518458--12518680 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
12518448 TACTCGTTCA
* * * *
12518458 AATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
*
12518523 ATAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
* *
12518578 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGG
* * * *
12518640 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGA
12518681 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:12518680 original size:40 final size:40
Alignment explanation
Indices: 12518437--12518680 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
12518427 CGGAATTTAA
** *
12518437 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12518477 CTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
12518517 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12518557 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12518596 CCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
12518636 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
12518676 CCGGA
1 CCGGA
12518681 CATCATTCAA
Statistics
Matches: 175, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 130 0.74
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:12526786 original size:119 final size:120
Alignment explanation
Indices: 12526580--12526802 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
12526570 TACTCGTTCA
* *
12526580 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
12526645 ATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
12526700 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
12526762 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
12526803 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:12526802 original size:40 final size:40
Alignment explanation
Indices: 12526559--12526802 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
12526549 CGGAATTTAA
** *
12526559 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12526599 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12526639 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
12526679 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
12526718 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
12526758 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
12526798 CCGGA
1 CCGGA
12526803 CATCATTCAA
Statistics
Matches: 181, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 134 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:12534822 original size:3 final size:3
Alignment explanation
Indices: 12534814--12534872 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
12534804 TTTATATCAT
12534814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12534862 TTA TTA TTA TT
1 TTA TTA TTA TT
12534873 CTGCTAAGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12535010 original size:17 final size:17
Alignment explanation
Indices: 12534934--12535011 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
12534924 AGTTATTTAG
*
12534934 ATTTTA-TTTAGTTTTAT
1 ATTTTATTTTTGTTTT-T
* *
12534951 GTTTTATTTTT-TTTCT
1 ATTTTATTTTTGTTTTT
* *
12534967 ATTTGTACTTTTATTTTT
1 ATTT-TATTTTTGTTTTT
* *
12534985 CTTGT-TTTTTGTTTTT
1 ATTTTATTTTTGTTTTT
12535001 ATTTTATTTTT
1 ATTTTATTTTT
12535012 TGGACTTATA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
16 16 0.36
17 20 0.44
18 9 0.20
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (17 bp):
ATTTTATTTTTGTTTTT
Found at i:12540021 original size:25 final size:26
Alignment explanation
Indices: 12539993--12540043 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12539983 CTCATTTCAT
*
12539993 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
12540018 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
12540044 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:12540035 original size:26 final size:24
Alignment explanation
Indices: 12540005--12540053 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
12539995 AATAAAAAAT
*
12540005 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
12540031 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
12540054 TAATACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:12542684 original size:47 final size:47
Alignment explanation
Indices: 12542614--12542709 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
12542604 TAATAAATAC
*
12542614 TTAGTTTCTTGTTCTCAATTATGTGTACTT-AATTTTTGATGTAAGAT
1 TTAGTTTCTTGTTCTCAAGTATGTGTACTTAAATTTTT-ATGTAAGAT
12542661 TTAGTTTCTTGTTCTCAAGTATGTGTACTTAAATTTTTATGTAAGAT
1 TTAGTTTCTTGTTCTCAAGTATGTGTACTTAAATTTTTATGTAAGAT
12542708 TT
1 TT
12542710 CTAAATTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 40 0.85
48 7 0.15
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (47 bp):
TTAGTTTCTTGTTCTCAAGTATGTGTACTTAAATTTTTATGTAAGAT
Found at i:12545183 original size:18 final size:18
Alignment explanation
Indices: 12545162--12545203 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
12545152 AAAGATAAAA
12545162 ATAATAACA-ATAATAATG
1 ATAATAA-ATATAATAATG
*
12545180 ATAATAAATATAGTAATG
1 ATAATAAATATAATAATG
12545198 ATAATA
1 ATAATA
12545204 GTAAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (18 bp):
ATAATAAATATAATAATG
Found at i:12545688 original size:23 final size:22
Alignment explanation
Indices: 12545662--12545717 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
12545652 AAAAATATAT
**
12545662 ATATACATATAATATTTATAAAA
1 ATATACATATAATATACAT-AAA
* *
12545685 ATATATACATAATATACATAAA
1 ATATACATATAATATACATAAA
*
12545707 GTATACATATA
1 ATATACATATA
12545718 TACATATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATACATATAATATACATAAA
Found at i:12547942 original size:205 final size:204
Alignment explanation
Indices: 12547573--12548055 Score: 682
Period size: 205 Copynumber: 2.4 Consensus size: 204
12547563 GGGAACATCC
* * * * *
12547573 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAGATCC-TCTTA
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCA-AACCATCTTG
* * ** *
12547637 GATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
65 GATC-TGCTTCAGCATAAACATCCGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGA
* * *
12547702 AGATGCTAGACTTCGATTTGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGTTTCA
129 AGATGCCAGACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGA-TTGCTTCA
12547767 AAGTAAACACGT
193 AAGTAAACACGT
*
12547779 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
* *
12547844 ATCCGCTTCAGCATAAACATCCGAAGG-CAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAGCATAAACATCCGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATCAAAGTGAA
* * * * **
12547908 GATGCCATACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATTATCTTAGATTGCTTCATT
130 GATGCCAGACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTGCTTCAAA
*
12547973 GTAAGCACGT
195 GTAAACACGT
* * *
12547983 GAAAGCCAAATCGGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
12548048 ATCTGCTT
66 ATCTGCTT
12548056 TAGCCAGATC
Statistics
Matches: 247, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
204 85 0.34
205 104 0.42
206 58 0.23
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (204 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGCATAAACATCCGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAG
ATGCCAGACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTGCTTCAAAG
TAAACACGT
Found at i:12560594 original size:18 final size:18
Alignment explanation
Indices: 12560573--12560614 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
12560563 AAAGATAAAA
12560573 ATAATAACA-ATAATAATG
1 ATAATAA-ATATAATAATG
*
12560591 ATAATAAATATAGTAATG
1 ATAATAAATATAATAATG
12560609 ATAATA
1 ATAATA
12560615 GTAAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (18 bp):
ATAATAAATATAATAATG
Found at i:12561080 original size:29 final size:28
Alignment explanation
Indices: 12561048--12561107 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
12561038 CACAATATGC
*
12561048 ATAATATATTA-AAAAATATATATATACAT
1 ATAATAT-TTATAAAAATATATACATA-AT
12561077 ATAATATTTATAAAAATATATACATAAT
1 ATAATATTTATAAAAATATATACATAAT
12561105 ATA
1 ATA
12561108 CATAAAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
ATAATATTTATAAAAATATATACATAAT
Found at i:12561096 original size:23 final size:22
Alignment explanation
Indices: 12561069--12561124 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
12561059 AAAAATATAT
**
12561069 ATATACATATAATATTTATAAAA
1 ATATACATATAATATACAT-AAA
* *
12561092 ATATATACATAATATACATAAA
1 ATATACATATAATATACATAAA
*
12561114 GTATACATATA
1 ATATACATATA
12561125 TACATATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATACATATAATATACATAAA
Found at i:12561107 original size:11 final size:9
Alignment explanation
Indices: 12561094--12561136 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
12561084 TTATAAAAAT
12561094 ATATACATA
1 ATATACATA
12561103 ATATACATAA
1 ATATACAT-A
12561113 AGTATACAT-
1 A-TATACATA
12561122 ATATACATA
1 ATATACATA
12561131 TATATA
1 -ATATA
12561137 ATACTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.23
9 9 0.30
10 7 0.23
11 7 0.23
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (9 bp):
ATATACATA
Found at i:12564924 original size:30 final size:29
Alignment explanation
Indices: 12564856--12564928 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
12564846 ACAAAATAAT
*
12564856 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATTGCA
12564885 AACATAAGTGACTAAAATGTAAC-TTGGGCA
1 AACATAAGTGACTAAAATGTAACATT--GCA
*
12564915 AACAAAAGTGACTA
1 AACATAAGTGACTA
12564929 TTTTTGTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATTGCA
Found at i:12565095 original size:35 final size:35
Alignment explanation
Indices: 12565029--12565094 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
12565019 AAAATAATAT
*
12565029 ACTTATTCATAAAAAAATATTATAACTTTTTTCTC
1 ACTTATTCATAAAAAAATAATATAACTTTTTTCTC
*
12565064 ACTTATTTATAAAAAAATAATAT-ACTTTTTT
1 ACTTATTCATAAAAAAATAATATAACTTTTTT
12565095 TTTATGGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (35 bp):
ACTTATTCATAAAAAAATAATATAACTTTTTTCTC
Found at i:12566810 original size:17 final size:17
Alignment explanation
Indices: 12566788--12566820 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12566778 AGGTTTATGT
12566788 TTTCT-ATACTATGTTAA
1 TTTCTAATA-TATGTTAA
12566805 TTTCTAATATATGTTA
1 TTTCTAATATATGTTA
12566821 TATATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTCTAATATATGTTAA
Found at i:12568650 original size:134 final size:135
Alignment explanation
Indices: 12568479--12568748 Score: 470
Period size: 134 Copynumber: 2.0 Consensus size: 135
12568469 CATATGGGGT
*
12568479 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGTA
1 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGCA
* *
12568544 AATTATCTGTCTGGAAGCATAGCTACAT-TTTAATAGTAACATACCACCACTTTCTGGTGTGATT
66 AATTATCTGCCTGGAAGCATAGCTACATATTTAATAGTAACATACCACCACTTTCCGGTGTGATT
12568608 GGATG
131 GGATG
*
12568613 GGGTTTGGATATGATGTAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGCA
1 GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGCA
* * *
12568678 AATTATCTGCCTGGCAGCATAGCTACATATTTAATAGTGACATACCACTACTTTCCGGTGTGATT
66 AATTATCTGCCTGGAAGCATAGCTACATATTTAATAGTAACATACCACCACTTTCCGGTGTGATT
12568743 GGATG
131 GGATG
12568748 G
1 G
12568749 ATGGACTCAT
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
134 89 0.70
135 39 0.30
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (135 bp):
GGGTTTGGATATGATGGAGGAAGTGTTTTTGGCAGTATCACTATAATTTTGGCGGTTTAACTGCA
AATTATCTGCCTGGAAGCATAGCTACATATTTAATAGTAACATACCACCACTTTCCGGTGTGATT
GGATG
Found at i:12577750 original size:19 final size:22
Alignment explanation
Indices: 12577711--12577750 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
12577701 AGAAACCCAA
12577711 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
12577733 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
12577751 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:12577849 original size:27 final size:28
Alignment explanation
Indices: 12577812--12577951 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
12577802 AGCATGGCTG
* *
12577812 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
12577838 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
12577866 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
12577893 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
12577920 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
12577947 CCAGA
1 CCAGA
12577952 ATGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:12579607 original size:26 final size:26
Alignment explanation
Indices: 12579571--12579653 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
12579561 CATGAAATTC
12579571 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12579597 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12579623 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12579649 TTATC
1 TTATC
12579654 TATTTGTATC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12583382 original size:16 final size:16
Alignment explanation
Indices: 12583361--12583398 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
12583351 TATTAGAATA
12583361 ACTTAAGTTATTAATC
1 ACTTAAGTTATTAATC
*
12583377 ACTTAAGTTATTAGTC
1 ACTTAAGTTATTAATC
12583393 ACTTAA
1 ACTTAA
12583399 TTTTTAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (16 bp):
ACTTAAGTTATTAATC
Found at i:12594696 original size:11 final size:11
Alignment explanation
Indices: 12594668--12594721 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
12594658 TAGACCTTTC
12594668 CAAGGTATGGG
1 CAAGGTATGGG
*
12594679 -TAGGTATGGG
1 CAAGGTATGGG
*
12594689 AAAGGTATGGG
1 CAAGGTATGGG
*
12594700 CAAGGGATGGG
1 CAAGGTATGGG
*
12594711 CAAGGGATGGG
1 CAAGGTATGGG
12594722 TATATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.28, C:0.06, G:0.50, T:0.17
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:12598791 original size:18 final size:18
Alignment explanation
Indices: 12598764--12598860 Score: 122
Period size: 18 Copynumber: 5.4 Consensus size: 18
12598754 CAATCCCAAT
*
12598764 TACTGTATACATGAACAG
1 TACTGTATACATGAATAG
* *
12598782 TACCGTATACGTGAATAG
1 TACTGTATACATGAATAG
*
12598800 TGCTGTATACATGAATAG
1 TACTGTATACATGAATAG
*
12598818 TACTATATACATGAATAG
1 TACTGTATACATGAATAG
* * *
12598836 TACTATATACGTAAATAG
1 TACTGTATACATGAATAG
12598854 TACTGTA
1 TACTGTA
12598861 AACTGTCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (18 bp):
TACTGTATACATGAATAG
Found at i:12599408 original size:11 final size:11
Alignment explanation
Indices: 12599392--12599435 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
12599382 TTGACCTTTC
12599392 CAAGGTATGGG
1 CAAGGTATGGG
12599403 CAAGGTATGGG
1 CAAGGTATGGG
12599414 CAAGGTATGGG
1 CAAGGTATGGG
*
12599425 CAAGGGATGGG
1 CAAGGTATGGG
12599436 TATATTCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.48, T:0.16
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:12601264 original size:33 final size:33
Alignment explanation
Indices: 12601227--12601325 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
12601217 CAATATTTTA
12601227 TATTTATGGTAAATATTATAACATTTAATAATT
1 TATTTATGGTAAATATTATAACATTTAATAATT
* ** * *
12601260 TATTTTTCTTGAAA-A--ATAGC--TT-AT-TTT
1 TATTTATGGT-AAATATTATAACATTTAATAATT
*
12601287 ATATTTATGGTTAATATTATAACATTTAATAATT
1 -TATTTATGGTAAATATTATAACATTTAATAATT
12601321 TATTT
1 TATTT
12601326 TTCTTGAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 18
0.61 0.15 0.24
Matches are distributed among these distances:
27 4 0.09
28 10 0.22
29 2 0.04
30 4 0.09
31 4 0.09
32 2 0.04
33 15 0.33
34 5 0.11
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (33 bp):
TATTTATGGTAAATATTATAACATTTAATAATT
Found at i:12601293 original size:61 final size:62
Alignment explanation
Indices: 12601220--12601349 Score: 235
Period size: 61 Copynumber: 2.1 Consensus size: 62
12601210 TATATAACAA
12601220 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTG-AAAAATAGCT
1 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAATAGCT
*
12601281 TATTTTATATTTATGGTTAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAAATAGCT
1 TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTG-AAAAAATAGCT
12601344 TATTTT
1 TATTTT
12601350 GTCGTTATGT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 50 0.76
63 16 0.24
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (62 bp):
TATTTTATATTTATGGTAAATATTATAACATTTAATAATTTATTTTTCTTGAAAAAATAGCT
Found at i:12606847 original size:59 final size:59
Alignment explanation
Indices: 12606780--12606898 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
12606770 GATTTGAGTA
12606780 AAAATTAAATTTAGCCATGCTGTTGGCGTTGCGGAACAACACCATAAAGACACCATGAC
1 AAAATTAAATTTAGCCATGCTGTTGGCGTTGCGGAACAACACCATAAAGACACCATGAC
12606839 AAAATTAAATTTAGCCATGCTGTTGGCGTTGCGGAACAACACCATAAAGACACCATGAC
1 AAAATTAAATTTAGCCATGCTGTTGGCGTTGCGGAACAACACCATAAAGACACCATGAC
12606898 A
1 A
12606899 CATTCACAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (59 bp):
AAAATTAAATTTAGCCATGCTGTTGGCGTTGCGGAACAACACCATAAAGACACCATGAC
Found at i:12609450 original size:15 final size:14
Alignment explanation
Indices: 12609382--12609510 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
12609372 TTATTCCTAT
12609382 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
12609396 TATTTATATTTAT-
1 TATTTTTATTTATC
*
12609409 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
12609425 TATTATTATTTATC
1 TATTTTTATTTATC
12609439 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
12609454 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
12609469 TATTATTATGTT-TC
1 TATTTTTAT-TTATC
*
12609483 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
12609498 TATTTCTATTTAT
1 TATTTTTATTTAT
12609511 ATACTAATAT
Statistics
Matches: 91, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 36 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:12609463 original size:29 final size:28
Alignment explanation
Indices: 12609382--12609489 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
12609372 TTATTCCTAT
12609382 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATGTTTCTATTTATATTTATC
*
12609409 T-TTGTTAT-TCTAATACTA-TTATTATTTATC
1 TATTTTTATGT-T--T-CTATTTA-TATTTATC
*
12609439 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATGTT-TCTATTTATATTTAT-C
*
12609469 TATTATTATGTTTCTATTTAT
1 TATTTTTATGTTTCTATTTAT
12609490 TATATTTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 4 0.06
29 35 0.53
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (28 bp):
TATTTTTATGTTTCTATTTATATTTATC
Found at i:12609495 original size:23 final size:23
Alignment explanation
Indices: 12609382--12609536 Score: 86
Period size: 23 Copynumber: 7.0 Consensus size: 23
12609372 TTATTCCTAT
*
12609382 TATTTTTATGTTTCTATTTA-TA-
1 TATTATTAT-TTTCTATTTATTAC
* *
12609404 T-TTATT-TTGT-TATTCTAATAC
1 TATTATTATTTTCTATT-TATTAC
12609425 TATTATTATTTATCTAATTT-TTA-
1 TATTATTATTT-TCT-ATTTATTAC
* *
12609448 T-TTATCTA-TTTATATTT-CTAC
1 TATTAT-TATTTTCTATTTATTAC
12609469 TATTATTATGTTTCTATTTATTA-
1 TATTATTAT-TTTCTATTTATTAC
*
12609492 TATTTTTA-TTTCTATTTATATAC
1 TATTATTATTTTCTATTTAT-TAC
*
12609515 TAATATTATTTTC-A-TTATTAC
1 TATTATTATTTTCTATTTATTAC
12609536 T
1 T
12609537 TTTTTCTTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 35
0.70 0.07 0.23
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 9 0.09
21 25 0.24
22 22 0.21
23 27 0.26
24 9 0.09
25 2 0.02
26 3 0.03
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTATTTTCTATTTATTAC
Found at i:12609521 original size:20 final size:21
Alignment explanation
Indices: 12609479--12609521 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
12609469 TATTATTATG
* **
12609479 TTTCTATTTATTATATTTTTA
1 TTTCTATTTATTATACTAATA
12609500 TTTCTATTTA-TATACTAATA
1 TTTCTATTTATTATACTAATA
12609520 TT
1 TT
12609522 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCTATTTATTATACTAATA
Done.