Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 197 of 221
Found at i:57629940 original size:5 final size:5
Alignment explanation
Indices: 57629930--57629958 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
57629920 GAGCATTTGT
57629930 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
57629959 CTTTCTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:57630502 original size:27 final size:24
Alignment explanation
Indices: 57630447--57630534 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 24
57630437 TAGAGTAATC
* *
57630447 ATTATTTTTTATGTATATATGT-A
1 ATTATTTTATATATATATATGTAA
57630470 ATTATTTTATATATATATATGTACA
1 ATTATTTTATATATATATATGTA-A
* *
57630495 GATTTATTATATATATGTATATGTAA
1 -A-TTATTTTATATATATATATGTAA
57630521 ATATATTGTTATAT
1 AT-TATT-TTATAT
57630535 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
23 20 0.37
24 1 0.02
25 6 0.11
26 7 0.13
27 20 0.37
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (24 bp):
ATTATTTTATATATATATATGTAA
Found at i:57632670 original size:24 final size:25
Alignment explanation
Indices: 57632643--57632689 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
57632633 ATTTAGCCTA
57632643 ATTTTCTT-AAATAT-TTTTTTATAT
1 ATTTTCTTGAAA-ATCTTTTTTATAT
57632667 ATTTTCTTGAAAATCTTTTTTAT
1 ATTTTCTTGAAAATCTTTTTTAT
57632690 TTTTGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTCTTGAAAATCTTTTTTATAT
Found at i:57633987 original size:21 final size:21
Alignment explanation
Indices: 57633963--57634013 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
57633953 GTATGTGGAG
*
57633963 TAGCCACATAGGCGTATAGGA
1 TAGCCACACAGGCGTATAGGA
* * * *
57633984 TAGCCATACGGGCGTGTGGGA
1 TAGCCACACAGGCGTATAGGA
57634005 TAGCCACAC
1 TAGCCACAC
57634014 GACCATGTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (21 bp):
TAGCCACACAGGCGTATAGGA
Found at i:57646619 original size:5 final size:5
Alignment explanation
Indices: 57646609--57646642 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
57646599 CATTGCATCA
57646609 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG ATGG
1 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG ATGG
57646643 CACAGCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.59, T:0.21
Consensus pattern (5 bp):
ATGGG
Found at i:57647830 original size:21 final size:20
Alignment explanation
Indices: 57647791--57647830 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57647781 GCTCAAGAAA
* *
57647791 CTAAACTTAAAAGACTTATC
1 CTAAACTTAAAAAAATTATC
57647811 CTAAACATTAAAAAAATTAT
1 CTAAAC-TTAAAAAAATTAT
57647831 TATTTGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (20 bp):
CTAAACTTAAAAAAATTATC
Found at i:57648292 original size:7 final size:7
Alignment explanation
Indices: 57648280--57648304 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57648270 TATTGTTATG
57648280 TAATTAA
1 TAATTAA
57648287 TAATTAA
1 TAATTAA
57648294 TAATTAA
1 TAATTAA
57648301 TAAT
1 TAAT
57648305 CATAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATTAA
Found at i:57648463 original size:19 final size:18
Alignment explanation
Indices: 57648441--57648476 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
57648431 ATAATAATTT
*
57648441 ATATTATTATTAATATTAA
1 ATATTAATATTAA-ATTAA
57648460 ATATTAATATTAAATTA
1 ATATTAATATTAAATTA
57648477 TTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAATATTAAATTAA
Found at i:57648466 original size:13 final size:13
Alignment explanation
Indices: 57648448--57648500 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
57648438 TTTATATTAT
57648448 TATTAATATTAAA
1 TATTAATATTAAA
57648461 TATTAATATTAAA
1 TATTAATATTAAA
* *
57648474 TTATT-TTTTTGAAA
1 -TATTAATATT-AAA
57648488 TA-TAATATTAAA
1 TATTAATATTAAA
57648500 T
1 T
57648501 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.15
13 21 0.64
14 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTAATATTAAA
Found at i:57648507 original size:27 final size:27
Alignment explanation
Indices: 57648458--57648509 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
57648448 TATTAATATT
57648458 AAATATTAATATTAAATTATTTTTTTG
1 AAATATTAATATTAAATTATTTTTTTG
57648485 AAATA-TAATATTAAATTATTTTTTT
1 AAATATTAATATTAAATTATTTTTTT
57648510 CATTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AAATATTAATATTAAATTATTTTTTTG
Found at i:57653895 original size:12 final size:12
Alignment explanation
Indices: 57653878--57653910 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
57653868 AGACTCGCCC
57653878 ATATTAATTTTT
1 ATATTAATTTTT
57653890 ATATT-ATTTTT
1 ATATTAATTTTT
57653901 ATA-TAATTTT
1 ATATTAATTTT
57653911 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:57654066 original size:30 final size:30
Alignment explanation
Indices: 57654032--57654093 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
57654022 CAACTTAACA
*
57654032 AACAAATGTCTCTAAAATAGTAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
* * *
57654062 AACAAATGTCTTTCAAATAATAACAAATTT
1 AACAAATGTCTCTAAAATAATAACAAAATT
57654092 AA
1 AA
57654094 TAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (30 bp):
AACAAATGTCTCTAAAATAATAACAAAATT
Found at i:57655000 original size:18 final size:19
Alignment explanation
Indices: 57654965--57655002 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
57654955 AAATATAAAC
*
57654965 ATATAATTATTATTTAATAT
1 ATATAATTACTA-TTAATAT
57654985 ATATAATTACTA-TAATAT
1 ATATAATTACTATTAATAT
57655003 TTTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATTACTATTAATAT
Found at i:57657003 original size:14 final size:14
Alignment explanation
Indices: 57656980--57657013 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57656970 TACAATATCT
57656980 AAATAATAACAATA
1 AAATAATAACAATA
*
57656994 AAATAGTAACAATA
1 AAATAATAACAATA
*
57657008 TAATAA
1 AAATAA
57657014 CAAAAAGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:57663287 original size:24 final size:25
Alignment explanation
Indices: 57663241--57663288 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
57663231 TTAAAATATT
* *
57663241 TTTAAAATACTTTTTTATTTTTATG
1 TTTAAAATACTTTTTGATGTTTATG
*
57663266 TTTAAAATA-TTTTTGGTGTTTAT
1 TTTAAAATACTTTTTGATGTTTAT
57663289 TAAAAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTAAAATACTTTTTGATGTTTATG
Found at i:57663849 original size:17 final size:17
Alignment explanation
Indices: 57663823--57663863 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
57663813 ACCTCTAACA
*
57663823 ACATCTATCAATCTATC
1 ACATCCATCAATCTATC
57663840 ACATCCATCAATCTATC
1 ACATCCATCAATCTATC
57663857 ACATCCA
1 ACATCCA
57663864 ATAGACGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (17 bp):
ACATCCATCAATCTATC
Found at i:57667485 original size:21 final size:21
Alignment explanation
Indices: 57667459--57667633 Score: 205
Period size: 21 Copynumber: 8.3 Consensus size: 21
57667449 TGAATATGTC
57667459 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTT
57667480 AACAGAAAG-TCATAAGAG-TT
1 AACAG-AAGCTCATAAGAGCTT
* *
57667500 AAACAGAAGCTCGTAAGAGCTA
1 -AACAGAAGCTCATAAGAGCTT
57667522 AACAGAAGCTCATAAGAG-TT
1 AACAGAAGCTCATAAGAGCTT
*
57667542 GAACAGAAGCTCATAAGAGCTG
1 -AACAGAAGCTCATAAGAGCTT
* *
57667564 AACAAAAGCTCGTAAGAGCTT
1 AACAGAAGCTCATAAGAGCTT
* *
57667585 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTT
* *
57667606 AACAGAAGCTCGA-AAAAGCTA
1 AACAGAAGCTC-ATAAGAGCTT
57667627 AACAGAA
1 AACAGAA
57667634 AGTAAAACAC
Statistics
Matches: 134, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
20 6 0.04
21 123 0.92
22 5 0.04
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTT
Found at i:57667539 original size:63 final size:64
Alignment explanation
Indices: 57667459--57667635 Score: 229
Period size: 63 Copynumber: 2.8 Consensus size: 64
57667449 TGAATATGTC
* *
57667459 AACAGAAGCTCATAAGAGCTTAACAGAAAG-TCATAAGAGTTAAACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTTAACAGAAAGCTCATAAGAGCTAAACAAAAGCTCGTAAGAGCTA
* *
57667522 AACAGAAGCTCATAAGAG-TTGAACAG-AAGCTCATAAGAGCTGAACAAAAGCTCGTAAGAGCTT
1 AACAGAAGCTCATAAGAGCTT-AACAGAAAGCTCATAAGAGCTAAACAAAAGCTCGTAAGAGCTA
* * *
57667585 AACAGAAGCTCGTAAGAGCTGAACAG-AAGCTCGA-AAAAGCTAAACAGAAAG
1 AACAGAAGCTCATAAGAGCTTAACAGAAAGCTC-ATAAGAGCTAAACA-AAAG
57667636 TAAAACACAA
Statistics
Matches: 101, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
62 5 0.05
63 90 0.89
64 6 0.06
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (64 bp):
AACAGAAGCTCATAAGAGCTTAACAGAAAGCTCATAAGAGCTAAACAAAAGCTCGTAAGAGCTA
Found at i:57668404 original size:42 final size:42
Alignment explanation
Indices: 57668338--57668460 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
57668328 TTTTGTTTAG
* * * *
57668338 CTCTTTTGAGCTTTAGTTTAGCTCTTACGAGCTTCTATTCAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* *
57668380 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* * * * *
57668422 CTCTTGTAAGTTTCTGTTCAGCTCTTATGAACTTCTATT
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATT
57668461 GGCATATTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (42 bp):
CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
Found at i:57668457 original size:21 final size:21
Alignment explanation
Indices: 57668331--57668457 Score: 103
Period size: 21 Copynumber: 6.0 Consensus size: 21
57668321 TTTTACTTTT
* *
57668331 TGTTTAGCTCTTTTGAGCTT-
1 TGTTCAGCTCTTATGAGCTTC
* *
57668351 TAGTTTAGCTCTTACGAGCTTC
1 T-GTTCAGCTCTTATGAGCTTC
* * * *
57668373 TATTCAACTCTTATGAGTTTT
1 TGTTCAGCTCTTATGAGCTTC
*
57668394 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * * *
57668415 TGTTTAACTCTTGTAAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
*
57668436 TGTTCAGCTCTTATGAACTTC
1 TGTTCAGCTCTTATGAGCTTC
57668457 T
1 T
57668458 ATTGGCATAT
Statistics
Matches: 80, Mismatches: 25, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
20 1 0.01
21 78 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:57672161 original size:21 final size:23
Alignment explanation
Indices: 57672136--57672177 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57672126 GAAAAATATT
57672136 AAATAT-ATA-TATTTATTTTTA
1 AAATATAATAGTATTTATTTTTA
*
57672157 AAATATAATAGTTTTTATTTT
1 AAATATAATAGTATTTATTTT
57672178 AAGTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
23 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATATAATAGTATTTATTTTTA
Found at i:57672288 original size:9 final size:9
Alignment explanation
Indices: 57672274--57672301 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
57672264 TTTTGTTACA
57672274 ACAATTAAT
1 ACAATTAAT
57672283 ACAATTAAT
1 ACAATTAAT
57672292 ACAATTAAT
1 ACAATTAAT
57672301 A
1 A
57672302 ATTTGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:57672352 original size:68 final size:68
Alignment explanation
Indices: 57672243--57672444 Score: 309
Period size: 59 Copynumber: 3.1 Consensus size: 68
57672233 ATCAAGTTTG
*
57672243 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGA
1 TTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGA
57672308 TAA
66 TAA
57672311 TTTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGA
1 TTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGA
57672367 TAA
66 TAA
*
57672370 ATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGA
1 TTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGA
57672433 TAA
66 TAA
57672436 TTTTACTAA
1 TTTTACTAA
57672445 CAATTAATTT
Statistics
Matches: 122, Mismatches: 3, Indels: 20
0.84 0.02 0.14
Matches are distributed among these distances:
59 55 0.45
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 33 0.27
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.42
Consensus pattern (68 bp):
TTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGA
TAA
Found at i:57672454 original size:16 final size:16
Alignment explanation
Indices: 57672433--57672474 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
57672423 AATAATTTGA
*
57672433 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
57672449 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
57672465 TAGTTTTAAT
1 TAATTTTAAT
57672475 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:57674930 original size:17 final size:17
Alignment explanation
Indices: 57674893--57674931 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57674883 GCTTAAAATG
57674893 TTTAAAATAAAAAGTAAA
1 TTTAAAATAAAAAG-AAA
57674911 TTTAAAATATAAAA-AAA
1 TTTAAAATA-AAAAGAAA
57674928 TTTA
1 TTTA
57674932 TATTAACCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTAAAATAAAAAGAAA
Found at i:57675619 original size:19 final size:19
Alignment explanation
Indices: 57675597--57675636 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
57675587 AAAAATATTT
57675597 AAATTGGAAAAAATTATAA
1 AAATTGGAAAAAATTATAA
*
57675616 AAATTGTAAAAAATTATAA
1 AAATTGGAAAAAATTATAA
57675635 AA
1 AA
57675637 TATATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAATTGGAAAAAATTATAA
Found at i:57675635 original size:10 final size:10
Alignment explanation
Indices: 57675604--57675738 Score: 54
Period size: 10 Copynumber: 14.0 Consensus size: 10
57675594 TTTAAATTGG
57675604 AAAAAATTAT
1 AAAAAATTAT
*
57675614 -AAAAATTGT
1 AAAAAATTAT
57675623 AAAAAATTAT
1 AAAAAATTAT
*
57675633 AAAATA-TAT
1 AAAAAATTAT
* *
57675642 -AGAAATATAGA
1 AAAAAAT-TA-T
57675653 AAAAAATTAT
1 AAAAAATTAT
**
57675663 AAAATTTTAT
1 AAAAAATTAT
****
57675673 -AAGTCGTA-
1 AAAAAATTAT
57675681 AAAAAATTAT
1 AAAAAATTAT
57675691 AAAAAATGTA-
1 AAAAAAT-TAT
*
57675701 AAGAAA-TAT
1 AAAAAATTAT
* *
57675710 -AAAATTTGT
1 AAAAAATTAT
57675719 AAAAAAATTAT
1 -AAAAAATTAT
57675730 -AAAAATTAT
1 AAAAAATTAT
57675739 CGTACCAAAA
Statistics
Matches: 90, Mismatches: 23, Indels: 25
0.65 0.17 0.18
Matches are distributed among these distances:
8 8 0.09
9 31 0.34
10 35 0.39
11 11 0.12
12 5 0.06
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:57675636 original size:28 final size:28
Alignment explanation
Indices: 57675605--57675736 Score: 79
Period size: 30 Copynumber: 4.6 Consensus size: 28
57675595 TTAAATTGGA
57675605 AAAAATTATAAAAATTGTAAAAAATTAT
1 AAAAATTATAAAAATTGTAAAAAATTAT
* *
57675633 -AAAATATATAGAAATATAGAAAAAAATTAT
1 AAAAAT-TATA-AAA-ATTGTAAAAAATTAT
* * * *
57675663 -AAAATTTTATAAGTCGTAAAAAAATTAT
1 AAAAATTATAAAAATTGT-AAAAAATTAT
* * * * ** *
57675691 AAAAAATGTAAAGAAATATAAAATTTGTAA
1 AAAAATTATAAA-AATTGTAAAAAAT-TAT
57675721 AAAAATTATAAAAATT
1 AAAAATTATAAAAATT
57675737 ATCGTACCAA
Statistics
Matches: 77, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
27 7 0.09
28 16 0.21
29 22 0.29
30 32 0.42
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAATTATAAAAATTGTAAAAAATTAT
Found at i:57675712 original size:19 final size:20
Alignment explanation
Indices: 57675604--57675734 Score: 85
Period size: 19 Copynumber: 6.8 Consensus size: 20
57675594 TTTAAATTGG
*
57675604 AAAAAATTATAAAAATTGT-
1 AAAAAATTATAAAAAATGTA
* *
57675623 AAAAAATTATAAAATATATA
1 AAAAAATTATAAAAAATGTA
* * *
57675643 GAAATA-TAGAAAAAAAT-T-
1 AAAAAATTA-TAAAAAATGTA
* * * *
57675661 ATAAAATT-TTATAAGTCGTA
1 AAAAAATTATAAAAAAT-GTA
57675681 AAAAAATTATAAAAAATGTA
1 AAAAAATTATAAAAAATGTA
* **
57675701 AAGAAA-TATAAAATTTGTA
1 AAAAAATTATAAAAAATGTA
57675720 AAAAAATTATAAAAA
1 AAAAAATTATAAAAA
57675735 TTATCGTACC
Statistics
Matches: 81, Mismatches: 23, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
17 4 0.05
18 3 0.04
19 37 0.46
20 32 0.40
21 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAAAATTATAAAAAATGTA
Found at i:57675933 original size:10 final size:10
Alignment explanation
Indices: 57675918--57676002 Score: 70
Period size: 10 Copynumber: 8.6 Consensus size: 10
57675908 TTTCGTTGTA
57675918 TTTTATAATT
1 TTTTATAATT
*
57675928 TTTTATGA-T
1 TTTTATAATT
*
57675937 TTTTATAAAT
1 TTTTATAATT
*
57675947 TTTTACAATT
1 TTTTATAATT
*
57675957 TTTTATTAAAT
1 TTTTA-TAATT
*
57675968 TTTAATAA-T
1 TTTTATAATT
57675977 TTTTATAACTT
1 TTTTATAA-TT
57675988 TTATT-T-ATT
1 TT-TTATAATT
57675997 TTTTAT
1 TTTTAT
57676003 TTATTATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 2 0.03
9 21 0.34
10 25 0.41
11 11 0.18
12 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57675947 original size:20 final size:19
Alignment explanation
Indices: 57675918--57675989 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
57675908 TTTCGTTGTA
* *
57675918 TTTTATAATTTTTTATGAT
1 TTTTATAAATTTTTATAAT
*
57675937 TTTTATAAATTTTTACAATT
1 TTTTATAAATTTTTATAA-T
*
57675957 TTTTATTAAATTTTAATAAT
1 TTTTA-TAAATTTTTATAAT
*
57675977 TTTTATAACTTTT
1 TTTTATAAATTTT
57675990 ATTTATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 22 0.49
20 12 0.27
21 11 0.24
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTTTATAAT
Found at i:57675960 original size:21 final size:21
Alignment explanation
Indices: 57675936--57675980 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57675926 TTTTTTATGA
*
57675936 TTTTTA-TAAATTTTTACAAT
1 TTTTTATTAAATTTTAACAAT
*
57675956 TTTTTATTAAATTTTAATAAT
1 TTTTTATTAAATTTTAACAAT
57675977 TTTT
1 TTTT
57675981 ATAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATTAAATTTTAACAAT
Found at i:57676005 original size:15 final size:16
Alignment explanation
Indices: 57675987--57676016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57675977 TTTTATAACT
57675987 TTTATT-TATTTTTTA
1 TTTATTATATTTTTTA
57676002 TTTATTATATTTTTT
1 TTTATTATATTTTTT
57676017 TTGCCACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTATATTTTTTA
Found at i:57687650 original size:84 final size:84
Alignment explanation
Indices: 57687509--57687677 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
57687499 AGTTTTAGTA
* *
57687509 TTAGTAATCCAAAGCGCTTTTTCACTCGTTTGCACTCTCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
57687574 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
*
57687593 TTAGTAATCCAAAGCGCTCTTTCACTTGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
57687658 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
57687677 T
1 T
57687678 AAGCTAGATC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (84 bp):
TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
TCATTATTCAGTGTTGGCT
Found at i:57689870 original size:19 final size:22
Alignment explanation
Indices: 57689848--57689895 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
57689838 AAATTTATAA
57689848 TTATTAATA-T-TA-TAAAAAC
1 TTATTAATATTGTACTAAAAAC
*
57689867 TTATTTATATTGTACTAAAAAC
1 TTATTAATATTGTACTAAAAAC
57689889 TT-TTAAT
1 TTATTAAT
57689896 TGAATTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 6 0.25
22 9 0.38
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATTAATATTGTACTAAAAAC
Found at i:57705505 original size:13 final size:13
Alignment explanation
Indices: 57705487--57705541 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
57705477 TAATATAATT
57705487 TTAATTATTATAA
1 TTAATTATTATAA
57705500 TTAATT-TT-TAA
1 TTAATTATTATAA
**
57705511 TTTTTTATTATAA
1 TTAATTATTATAA
*
57705524 TTTTAATAATTATAA
1 --TTAATTATTATAA
57705539 TTA
1 TTA
57705542 TTCTTAAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
11 7 0.21
12 4 0.12
13 12 0.36
15 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATTATAA
Found at i:57705508 original size:20 final size:19
Alignment explanation
Indices: 57705476--57705541 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
57705466 GTAATTTTAA
57705476 ATAATATAATTTTAATTATT
1 ATAAT-TAATTTTAATTATT
57705496 ATAATTAATTTTTAATT-TT
1 ATAATTAA-TTTTAATTATT
* * *
57705515 TTATTATAATTTTAATAATT
1 ATAAT-TAATTTTAATTATT
57705535 ATAATTA
1 ATAATTA
57705542 TTCTTAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAATTAATTTTAATTATT
Found at i:57705537 original size:15 final size:15
Alignment explanation
Indices: 57705467--57705540 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
57705457 AATTTTAAAG
57705467 TAATTTTAAATAA-TA
1 TAATTTT-AATAATTA
*
57705482 TAATTTTAATTATTA
1 TAATTTTAATAATTA
*
57705497 TAA--TTAAT--TTT
1 TAATTTTAATAATTA
*
57705508 TAATTTT--TTATTA
1 TAATTTTAATAATTA
57705521 TAATTTTAATAATTA
1 TAATTTTAATAATTA
57705536 TAATT
1 TAATT
57705541 ATTCTTAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
11 6 0.12
13 16 0.33
14 4 0.08
15 22 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTTTAATAATTA
Found at i:57717066 original size:25 final size:25
Alignment explanation
Indices: 57717018--57717067 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
57717008 ATCAATTTAC
* *
57717018 TTTAAATTTAATAATAATATTATTA
1 TTTAAATTTAATAATAAAAATATTA
* *
57717043 TTTAATTTTAATATTAAAAATATTA
1 TTTAAATTTAATAATAAAAATATTA
57717068 AATAATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTAAATTTAATAATAAAAATATTA
Found at i:57719589 original size:114 final size:114
Alignment explanation
Indices: 57719389--57719620 Score: 446
Period size: 114 Copynumber: 2.0 Consensus size: 114
57719379 CTCGAATCCA
* *
57719389 TATCCTTTTACACTGACAACAATGTCAATGCCAAATGAATTAAGACTCAATCGACTTATATTATA
1 TATCCTTTTACACTGACAACAATGCCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
57719454 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
66 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
57719503 TATCCTTTTACACTGACAACAATGCCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
1 TATCCTTTTACACTGACAACAATGCCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
57719568 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
66 CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
57719617 TATC
1 TATC
57719621 ATTTGAACCA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (114 bp):
TATCCTTTTACACTGACAACAATGCCAATGCCAAATGAACTAAGACTCAATCGACTTATATTATA
CAATATATTTGTTTTTAATATAAAAAACCCAAATTTTAATACTTAATTT
Found at i:57720005 original size:7 final size:7
Alignment explanation
Indices: 57719993--57720019 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57719983 TGTTCTTTTT
57719993 AATTTAA
1 AATTTAA
57720000 AATTTAA
1 AATTTAA
57720007 AATTTAA
1 AATTTAA
57720014 AATTTA
1 AATTTA
57720020 TATAAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:57730116 original size:13 final size:13
Alignment explanation
Indices: 57730100--57730126 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57730090 TTGAGTTTGA
57730100 AAATAATTATTAG
1 AAATAATTATTAG
57730113 AAATAATTATTAG
1 AAATAATTATTAG
57730126 A
1 A
57730127 CTAGTTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATAATTATTAG
Found at i:57740598 original size:17 final size:17
Alignment explanation
Indices: 57740574--57740617 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
57740564 CCTTTTCTAC
57740574 TAAAAAAA-TATTAGTAAA
1 TAAAAAAATTA-TA-TAAA
57740592 TAAAAAAATTATATAAA
1 TAAAAAAATTATATAAA
57740609 TATAAAAAA
1 TA-AAAAAA
57740618 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 16 0.67
19 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAAAAAATTATATAAA
Found at i:57740599 original size:19 final size:19
Alignment explanation
Indices: 57740574--57740649 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
57740564 CCTTTTCTAC
57740574 TAAAAAAATATTAGTAAATA
1 TAAAAAAATATTA-TAAATA
*
57740594 -AAAAAATTA-TATAAATA
1 TAAAAAAATATTATAAATA
* ** *
57740611 TAAAAAAATATTTTAGTTT
1 TAAAAAAATATTATAAATA
57740630 TGAAAAAAATA-TATAAATA
1 T-AAAAAAATATTATAAATA
57740649 T
1 T
57740650 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
17 6 0.14
18 10 0.23
19 18 0.42
20 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAAAAATATTATAAATA
Found at i:57741087 original size:11 final size:11
Alignment explanation
Indices: 57741065--57741122 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
57741055 AACTAATCCT
57741065 CTCTCAAATTTC
1 CTCTC-AATTTC
57741077 CTCTCAATTTC
1 CTCTCAATTTC
*
57741088 CTCTAAATTTC
1 CTCTCAATTTC
*
57741099 CTCTCAATTTG
1 CTCTCAATTTC
*
57741110 CTCTCAAATTC
1 CTCTCAATTTC
57741121 CT
1 CT
57741123 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:57741098 original size:22 final size:23
Alignment explanation
Indices: 57741065--57741140 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
57741055 AACTAATCCT
57741065 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
57741088 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
57741110 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
57741132 CTCTCAAAT
1 CTCTCAAAT
57741141 CCATATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.73
23 12 0.25
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:57741114 original size:33 final size:33
Alignment explanation
Indices: 57741064--57741138 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
57741054 AAACTAATCC
* *
57741064 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
57741097 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
57741131 TCTCTCAA
1 TCTCTCAA
57741139 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:57741139 original size:11 final size:11
Alignment explanation
Indices: 57741064--57741140 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
57741054 AAACTAATCC
57741064 TCTCTCAAATT
1 TCTCTCAAATT
57741075 TCCTCTC-AATT
1 T-CTCTCAAATT
57741086 TC-CTCTAAATT
1 TCTCTC-AAATT
57741097 TCCTCTC-AATT
1 T-CTCTCAAATT
57741108 TGCTCTCAAATT
1 T-CTCTCAAATT
*
57741120 CCT-TCCAAATT
1 TCTCT-CAAATT
57741131 TCTCTCAAAT
1 TCTCTCAAAT
57741141 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 36 0.65
12 11 0.20
13 3 0.05
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:57741158 original size:51 final size:51
Alignment explanation
Indices: 57741100--57741199 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
57741090 CTAAATTTCC
57741100 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * * *
57741151 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTTTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
57741200 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:57743638 original size:21 final size:21
Alignment explanation
Indices: 57743614--57743734 Score: 154
Period size: 21 Copynumber: 5.8 Consensus size: 21
57743604 AACCTAACTC
*
57743614 TAACCCTTAACTTAAAAATCG
1 TAACCCTTAACTTAAAAACCG
* *
57743635 TAACCCTTAAATTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
*
57743656 TAACCCTTAACTTTAAAACCG
1 TAACCCTTAACTTAAAAACCG
* *
57743677 TAACCCTTAAATAAAAAACAC-
1 TAACCCTTAACTTAAAAAC-CG
* *
57743698 TAACACTTAACTTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
57743719 TAACCCTTAACTTAAA
1 TAACCCTTAACTTAAA
57743735 TATAATTTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.01
21 83 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCG
Found at i:57747085 original size:124 final size:124
Alignment explanation
Indices: 57746911--57747299 Score: 611
Period size: 124 Copynumber: 3.1 Consensus size: 124
57746901 CCCAAACATG
* * *
57746911 CTACTATAGCAAAAGCGTGTCCACGAGAGCGCGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
57746976 TAGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
57747035 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * **
57747100 TTGAAGCGTTTTTTTA-AATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAAAAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
*
57747159 TTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
*
57747223 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGC-GTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
57747284 CTACTGTAGCAAAAGC
1 CTACTATAGCAAAAGC
57747300 AGGTACACGT
Statistics
Matches: 239, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
123 31 0.13
124 147 0.62
125 30 0.13
126 31 0.13
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:57747340 original size:125 final size:124
Alignment explanation
Indices: 57746911--57747350 Score: 568
Period size: 124 Copynumber: 3.5 Consensus size: 124
57746901 CCCAAACATG
* * * ** *
57746911 CTACTATAGCAAAAGCGTGTCCACGAGAGCGCGATTTCACAAATTTTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
57746975 CTAGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
57747035 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCA-ATTTCACAAATTCTTCTCA-AATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGC-AAGATTTCACAAATTCTTCTCATAA-AGCATCCT
* * **
57747098 GCTTGAAGCGTTTTTT-TA-AATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAAAAC
64 GCTTGAAGC-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * **
57747159 TTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGC
57747224 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGC-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * *
57747284 CTACTGTAGCAAAAGCAG-GTACACGTGGGCAAGACTTCATAAATCCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGC-GCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTG
57747348 CTT
65 CTT
57747351 TGATTTTATT
Statistics
Matches: 277, Mismatches: 31, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
123 31 0.11
124 143 0.52
125 71 0.26
126 32 0.12
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:57747501 original size:16 final size:16
Alignment explanation
Indices: 57747479--57747516 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
57747469 CCCTAAAAAT
*
57747479 CCTAAAAATCTTAAAC
1 CCTAAAAATCCTAAAC
*
57747495 TCTAAAAATCCTAAAC
1 CCTAAAAATCCTAAAC
57747511 CCTAAA
1 CCTAAA
57747517 CTCTAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (16 bp):
CCTAAAAATCCTAAAC
Found at i:57747533 original size:23 final size:25
Alignment explanation
Indices: 57747466--57747534 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 25
57747456 TTTTTCTCTA
* * *
57747466 AAACCCTAAAAATCCTAAAAATCTT
1 AAACTCTAAAAATCCTAAAAACCCT
57747491 AAACTCTAAAAATCCT--AAACCCT
1 AAACTCTAAAAATCCTAAAAACCCT
57747514 AAACTCT-AAAAT-CTAAAAACC
1 AAACTCTAAAAATCCTAAAAACC
57747535 TAACATGGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 17 0.44
25 15 0.38
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (25 bp):
AAACTCTAAAAATCCTAAAAACCCT
Found at i:57749848 original size:31 final size:31
Alignment explanation
Indices: 57749802--57749863 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
57749792 AATAATTGGA
*
57749802 TTTAACTTAATTGAGAA-AAAGATAATAAATT
1 TTTAACTTAAATGAGAACAAA-ATAATAAATT
*
57749833 TTTATCTTAAATGAGAACAAAATAATAAATT
1 TTTAACTTAAATGAGAACAAAATAATAAATT
57749864 CTATCTGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTAACTTAAATGAGAACAAAATAATAAATT
Found at i:57764915 original size:12 final size:12
Alignment explanation
Indices: 57764885--57764914 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57764875 AATAATTTTT
57764885 ATATTTTGTTTA
1 ATATTTTGTTTA
57764897 ATATTTTGTTTA
1 ATATTTTGTTTA
57764909 AT-TTTT
1 ATATTTT
57764915 TTAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
ATATTTTGTTTA
Found at i:57767053 original size:15 final size:15
Alignment explanation
Indices: 57767025--57767067 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
57767015 TGTTTGTTTG
57767025 CTAGTAAAAT-ATTTT
1 CTAG-AAAATGATTTT
57767040 CTAGAAAATGA-TTT
1 CTAGAAAATGATTTT
*
57767054 CTGGAAAATGATTT
1 CTAGAAAATGATTT
57767068 ACTTTTCTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (15 bp):
CTAGAAAATGATTTT
Found at i:57767083 original size:19 final size:20
Alignment explanation
Indices: 57767051--57767096 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
57767041 TAGAAAATGA
57767051 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57767071 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57767090 TTTCTGG
1 TTTCTGG
57767097 TGTTTAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:57767198 original size:18 final size:18
Alignment explanation
Indices: 57767172--57767214 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
57767162 AAAAGTTGTT
*
57767172 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
57767190 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
*
57767208 ATTATAT
1 TTTATAT
57767215 TTTTAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:57770727 original size:12 final size:12
Alignment explanation
Indices: 57770706--57770735 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57770696 AGATCATAAA
*
57770706 ATATAGATATGT
1 ATATATATATGT
57770718 ATATATATATGT
1 ATATATATATGT
57770730 ATATAT
1 ATATAT
57770736 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (12 bp):
ATATATATATGT
Found at i:57772546 original size:25 final size:25
Alignment explanation
Indices: 57772518--57772567 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
57772508 GGAAGAGAAG
*
57772518 ATGAAGAATGGAAGAAGGAAAAGGA
1 ATGAAGAAGGGAAGAAGGAAAAGGA
*
57772543 ATGAAGAAGGGAAGAAGGAGAAGGA
1 ATGAAGAAGGGAAGAAGGAAAAGGA
57772568 GCCTTACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.40, T:0.06
Consensus pattern (25 bp):
ATGAAGAAGGGAAGAAGGAAAAGGA
Found at i:57773403 original size:42 final size:41
Alignment explanation
Indices: 57773327--57773410 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
57773317 TTCTGAGGTG
* * *
57773327 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGCATA
1 TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCG-ATA
* *
57773369 TGATTTCGTGTAAGACCCTGTCTGAGATAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCGATA
57773410 T
1 T
57773411 ATTATAACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGAGACAGTGGCATCGATA
Found at i:57778957 original size:48 final size:48
Alignment explanation
Indices: 57778853--57778957 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
57778843 TGATGATATG
* * * *
57778853 ATGTTGTCCAAATTGGTGCTTAATTGCTGTACATTTTTGAGTATATTA
1 ATGTTGTCCAAATTGGTGCTTAAATGCTGTACATTTTTGAGCAAATCA
* * *
57778901 ATGCTGTCCAAATTGGTGCTTAAATGTTGTCCATTTTTGTA-CAAATCA
1 ATGTTGTCCAAATTGGTGCTTAAATGCTGTACATTTTTG-AGCAAATCA
57778949 ATGTTGTCC
1 ATGTTGTCC
57778958 GAATATTGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (48 bp):
ATGTTGTCCAAATTGGTGCTTAAATGCTGTACATTTTTGAGCAAATCA
Found at i:57780177 original size:34 final size:34
Alignment explanation
Indices: 57780138--57780205 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
57780128 GTTGAAGAAA
57780138 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
57780172 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
57780206 ATAAAACCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (34 bp):
GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
Found at i:57784431 original size:17 final size:17
Alignment explanation
Indices: 57784399--57784431 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57784389 ACAAAAATTC
57784399 ATCCTAAAAAACAAAAT
1 ATCCTAAAAAACAAAAT
57784416 ATCCATAAAAAA-AAAA
1 ATCC-TAAAAAACAAAA
57784432 ACTGCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (17 bp):
ATCCTAAAAAACAAAAT
Found at i:57784432 original size:18 final size:17
Alignment explanation
Indices: 57784399--57784432 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57784389 ACAAAAATTC
*
57784399 ATCCTAAAAAACAAAAT
1 ATCCTAAAAAAAAAAAT
57784416 ATCCATAAAAAAAAAAA
1 ATCC-TAAAAAAAAAAA
57784433 CTGCTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (17 bp):
ATCCTAAAAAAAAAAAT
Found at i:57792183 original size:43 final size:42
Alignment explanation
Indices: 57792122--57792312 Score: 283
Period size: 43 Copynumber: 4.5 Consensus size: 42
57792112 AAACGCTGCT
**
57792122 TCTCTCACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC
1 TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
57792164 GTCTCTCACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
1 -TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
* * *
57792207 ATATCTCAAAAACGCCGCTAAAGGTTATGTTCTTTAGCGGCGC
1 -TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
57792250 ACATCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
1 TC-TCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
57792293 TTCTCTCACAAACGCCGCTA
1 -TCTCTCACAAACGCCGCTA
57792313 TTGTCTGATG
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
43 132 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (42 bp):
TCTCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
Found at i:57794958 original size:52 final size:48
Alignment explanation
Indices: 57794939--57795239 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
57794929 TGACAAGTGG
* *
57794939 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
57794985 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
57795033 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
57795083 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
57795135 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
57795181 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
57795227 AAAGTGATAAGTG
1 AAAGTGATAAGTG
57795240 GATACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:57795042 original size:98 final size:98
Alignment explanation
Indices: 57794873--57795228 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
57794863 TTTGAGTACT
*
57794873 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
57794938 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
57794971 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
57795036 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
57795069 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57795134 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
57795167 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
57795229 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:57795249 original size:37 final size:37
Alignment explanation
Indices: 57795203--57795348 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
57795193 GATAGCTTTA
*
57795203 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57795240 GATACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57795277 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
57795314 GCTACACTTATCTGATC-AGTGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
57795349 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:57796679 original size:58 final size:58
Alignment explanation
Indices: 57796602--57796769 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
57796592 CATGTGAACA
57796602 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
57796661 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
57796717 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
57796768 TG
1 TG
57796770 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:57796711 original size:28 final size:28
Alignment explanation
Indices: 57796621--57796711 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
57796611 GTGATTCCGT
57796621 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
57796649 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
57796678 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
57796707 GTAAG
1 GTAAG
57796712 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:57796734 original size:49 final size:49
Alignment explanation
Indices: 57796662--57796804 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
57796652 AGTGATATGT
* *
57796662 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
57796711 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
57796760 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
57796805 AGAAAACAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:57800012 original size:52 final size:48
Alignment explanation
Indices: 57799993--57800293 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
57799983 TGACAAGTGG
* *
57799993 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
57800039 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
57800087 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
57800137 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
57800189 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
57800235 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
57800281 AAAGTGATAAGTG
1 AAAGTGATAAGTG
57800294 GATACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:57800096 original size:98 final size:98
Alignment explanation
Indices: 57799927--57800282 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
57799917 TTTGAGTACT
*
57799927 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
57799992 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
57800025 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
57800090 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
57800123 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57800188 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
57800221 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
57800283 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:57800303 original size:37 final size:37
Alignment explanation
Indices: 57800259--57800365 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
57800249 TAGCTTTAGC
57800259 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGA
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGA
* * *
57800296 TACACTTATCTGATCAAGAAACAAAGTGATAGGTGGC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGA
*
57800333 TACACTTATCTGATC-AGTGAC-AAGTGATAAGTG
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTG
57800366 ATCATACGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 49 0.77
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGA
Found at i:57808465 original size:18 final size:17
Alignment explanation
Indices: 57808443--57808477 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57808433 TTATTATTAA
*
57808443 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57808461 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57808478 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:57808488 original size:54 final size:53
Alignment explanation
Indices: 57808408--57808597 Score: 192
Period size: 54 Copynumber: 3.5 Consensus size: 53
57808398 ATTGGATTAA
* * *
57808408 ATAT-TTTAATCATATTTAAATATAATTATTATTAAATATATTTTAATTAAAAT
1 ATATATTTAATAAAATTTAAA-ATAATTAATATTAAATATATTTTAATTAAAAT
* ** * * *
57808461 ATATAATTTAATAAAATTCT-TAATAATTAATATTCTTATATGAATTTACTCAAAAT
1 ATAT-ATTTAATAAAATT-TAAAATAATTAATATT-AAATAT-ATTTTAATTAAAAT
57808517 ACTATA---AATGAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAAT
1 A-TATATTTAAT-AAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAAT
57808569 ATATGATTTAATAAAATTTAAAATAATTA
1 ATAT-ATTTAATAAAATTTAAAATAATTA
57808598 TAACTAATAA
Statistics
Matches: 110, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
51 3 0.03
52 13 0.12
53 12 0.11
54 47 0.43
55 18 0.16
56 14 0.13
57 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (53 bp):
ATATATTTAATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAAT
Found at i:57808673 original size:24 final size:25
Alignment explanation
Indices: 57808627--57808674 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
57808617 TATGAATTTG
57808627 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
57808653 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
57808675 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:57808799 original size:92 final size:92
Alignment explanation
Indices: 57808617--57808810 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
57808607 AATTATATTT
* * * *
57808617 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
57808682 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
57808709 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
57808771 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
*
57808801 TATCAATTTA
1 TATGAATTTA
57808811 GTAAAATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 61 0.67
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:57812158 original size:48 final size:47
Alignment explanation
Indices: 57812121--57812591 Score: 771
Period size: 48 Copynumber: 9.8 Consensus size: 47
57812111 ATTTCTTGAT
** *
57812121 TTTTAATAAAATATTAAAGTCCTTATTTTAAAGATTAATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
57812169 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
57812217 TTTTAATAAAACATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
57812265 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
57812313 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
57812361 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
* *
57812409 TTTTAATAAAATATTCAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
57812457 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
57812505 TTTTAATAAAATATTCAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
57812553 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
57812592 GTAATTATTT
Statistics
Matches: 409, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 409 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTATCCTTA
Found at i:57812258 original size:96 final size:96
Alignment explanation
Indices: 57812121--57812591 Score: 852
Period size: 96 Copynumber: 4.9 Consensus size: 96
57812111 ATTTCTTGAT
** *
57812121 TTTTAATAAAATATTAAAGTCCTTATTTTAAAGATTAATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
57812186 AGTCCTTATTTTAATTATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
*
57812217 TTTTAATAAAACATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
*
57812282 AGTCCTTATTTTAAATATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
57812313 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
57812378 AGTCCTTATTTTAATTATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
* *
57812409 TTTTAATAAAATATTCAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
*
57812474 AGTCCTTATTTTAAATATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
* *
57812505 TTTTAATAAAATATTCAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATGAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
57812570 AGTCCTTATTTTAATTATTGAT
66 AGTCCTTATTTTAATTATTGAT
57812592 GTAATTATTT
Statistics
Matches: 362, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 362 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (96 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAA
AGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:57812346 original size:144 final size:144
Alignment explanation
Indices: 57812121--57812591 Score: 870
Period size: 144 Copynumber: 3.3 Consensus size: 144
57812111 ATTTCTTGAT
* *
57812121 TTTTAATAAAATATTAAAGTCCTTATTTTAAAGATTAATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
*
57812186 AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAACATTAAAGTCCTTATTTTAATTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCCTTATTTTAATTA
57812251 TTGATTAGTCCTTA
131 TTGATTAGTCCTTA
57812265 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
57812330 AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCCTTATTTTAATTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCCTTATTTTAATTA
57812395 TTGATTAGTCCTTA
131 TTGATTAGTCCTTA
*
57812409 TTTTAATAAAATATTCAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
* *
57812474 AGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTCAAGTCCTTATTTTAATTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCCTTATTTTAATTA
57812539 TTGATTAGTCCTTA
131 TTGATTAGTCCTTA
* *
57812553 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGAT
57812592 GTAATTATTT
Statistics
Matches: 318, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 318 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (144 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
AGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCCTTATTTTAATTA
TTGATTAGTCCTTA
Found at i:57813625 original size:23 final size:23
Alignment explanation
Indices: 57813599--57813673 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
57813589 TAAACAAATT
57813599 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
*
57813622 CAATTTCCAGCAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
57813645 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
57813668 CAATTT
1 CAATTT
57813674 TAGAACAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.21
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:57814637 original size:32 final size:34
Alignment explanation
Indices: 57814596--57814659 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
57814586 CTTTTCTATT
* *
57814596 TTCTTTTAA-GAGAATGGTTTTATAAT-GTGACA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
57814628 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
1 TTCTTTTAAGGAAAATAGTTTTATAATAGTGA
57814660 AATTATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.32
33 15 0.54
34 4 0.14
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (34 bp):
TTCTTTTAAGGAAAATAGTTTTATAATAGTGACA
Found at i:57815007 original size:17 final size:17
Alignment explanation
Indices: 57814987--57815022 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57814977 ACTCAAAGGG
*
57814987 AAATAAATAGCAAAAGA
1 AAATAAACAGCAAAAGA
*
57815004 AAATAAACAGCAATAGA
1 AAATAAACAGCAAAAGA
57815021 AA
1 AA
57815023 CATGCAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAACAGCAAAAGA
Found at i:57827378 original size:3 final size:3
Alignment explanation
Indices: 57827370--57827407 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
57827360 TTAAGAGCTG
57827370 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
57827408 GGGAATTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:57828205 original size:7 final size:7
Alignment explanation
Indices: 57828190--57828221 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
57828180 GGATTATAGA
57828190 TTTGAAGT
1 TTTG-AGT
57828198 TTTGAGT
1 TTTGAGT
57828205 TTTGAGT
1 TTTGAGT
57828212 TTTGAGT
1 TTTGAGT
57828219 TTT
1 TTT
57828222 TTATTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (7 bp):
TTTGAGT
Found at i:57844787 original size:12 final size:12
Alignment explanation
Indices: 57844770--57844794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57844760 ACTTTGGTAG
57844770 TGTTTTGGTGAT
1 TGTTTTGGTGAT
57844782 TGTTTTGGTGAT
1 TGTTTTGGTGAT
57844794 T
1 T
57844795 CTCTTTCCAT
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:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (12 bp):
TGTTTTGGTGAT
Found at i:57855155 original size:13 final size:13
Alignment explanation
Indices: 57855137--57855163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57855127 AAAGGATCTA
57855137 ATTATGGAACTTC
1 ATTATGGAACTTC
57855150 ATTATGGAACTTC
1 ATTATGGAACTTC
57855163 A
1 A
57855164 AGCGTAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTATGGAACTTC
Found at i:57880674 original size:42 final size:42
Alignment explanation
Indices: 57880575--57880677 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
57880565 CGGCTATATG
* *
57880575 AACG-GCACTAAGTGTACAAAATTAAAATGATGATGTTGAAT
1 AACGAGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
*
57880616 AA-TAGGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
1 AACGA-GCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
57880658 AACGAGCACTAAGTGTGCGA
1 AACGAGCACTAAGTGTGCGA
57880678 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.04
42 52 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (42 bp):
AACGAGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAAT
Found at i:57881482 original size:3 final size:3
Alignment explanation
Indices: 57881474--57881500 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
57881464 ATTTGATCGA
57881474 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
57881501 GAAATTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57882851 original size:40 final size:40
Alignment explanation
Indices: 57882768--57882871 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
57882758 TTTTGCGGCG
* ** * *
57882768 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGTCA
1 TTTTCCAAAAAGCACCGCTAATGCTCGACCTATAACGTCA
* * * *
57882808 TTTTCCAATAAGCGCTGCTAATGCTTGACCTATAACGGT-A
1 TTTTCCAAAAAGCACCGCTAATGCTCGACCTATAAC-GTCA
*
57882848 TTTTTCAAAAAGCACCGCTAATGC
1 TTTTCCAAAAAGCACCGCTAATGC
57882872 CACTAAAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (40 bp):
TTTTCCAAAAAGCACCGCTAATGCTCGACCTATAACGTCA
Found at i:57882983 original size:40 final size:40
Alignment explanation
Indices: 57882923--57883053 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 40
57882913 TTTTGCAGCA
** * *
57882923 TTTTTCAAAAAGCGTTGCTAATGGTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
* **
57882963 TTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAATGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
* * * *
57883003 TTTTTCAAAGAGCACCACTAATGCTCGATCTATAGCGACG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
57883043 TTTTTCAAAAA
1 TTTTTCAAAAA
57883054 TCTTCGCTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
Found at i:57890629 original size:28 final size:31
Alignment explanation
Indices: 57890598--57890666 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
57890588 ATTTTTCAAG
*
57890598 TTTTTAAAATT-TTAATTAAA-T-TTATTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
* * *
57890626 TTTTTTATATTATAAATTAAATTATTGTTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
*
57890657 TTATTAAAAT
1 TTTTTAAAAT
57890667 AAAATATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 9 0.29
29 8 0.26
30 1 0.03
31 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTTTAAAATTATAAATTAAATTATTATTAA
Found at i:57897103 original size:2 final size:2
Alignment explanation
Indices: 57897096--57897129 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57897086 AATTCACCAT
57897096 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
57897130 GCATACATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:57905908 original size:19 final size:20
Alignment explanation
Indices: 57905862--57905913 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
57905852 AAAGAAAAAA
* *
57905862 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATTATT
57905882 ATTATTTATTTTTACTATT-TT
1 A-T-TTTATTTTTACTATTATT
57905903 ATTTTATTTTT
1 ATTTTATTTTT
57905914 GTAGGAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 4 0.14
22 13 0.46
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTTACTATTATT
Found at i:57919782 original size:25 final size:25
Alignment explanation
Indices: 57919748--57919796 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
57919738 CACAAAGCAA
**
57919748 ATTAATTTTTTTTATTAAAATTTTC
1 ATTAATTTTTACTATTAAAATTTTC
57919773 ATTAATTTTTACTATTAAAATTTT
1 ATTAATTTTTACTATTAAAATTTT
57919797 ACATAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTAATTTTTACTATTAAAATTTTC
Found at i:57925756 original size:11 final size:11
Alignment explanation
Indices: 57925740--57925779 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
57925730 TTATTTTTAA
57925740 TTTTAAAATAT
1 TTTTAAAATAT
57925751 TTTTAAAATACT
1 TTTTAAAATA-T
* *
57925763 TTTTTAAATTT
1 TTTTAAAATAT
57925774 TTTTAA
1 TTTTAA
57925780 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:57928525 original size:41 final size:42
Alignment explanation
Indices: 57928361--57928530 Score: 161
Period size: 41 Copynumber: 4.1 Consensus size: 42
57928351 ATTTAAACAG
** * * *
57928361 ATTCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATT-C
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
* * * * **
57928401 AGTACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGT
1 A-TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATTAC
*
57928444 A-TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
* *
57928485 -TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTAC
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
57928526 ATTCA
1 ATTCA
57928531 ATCACTTTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
40 3 0.03
41 94 0.89
42 8 0.08
43 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
Found at i:57936002 original size:41 final size:40
Alignment explanation
Indices: 57935915--57936077 Score: 143
Period size: 41 Copynumber: 4.0 Consensus size: 40
57935905 TTAAACAGAT
** * * * *
57935915 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-AC
* *
57935955 TACACCGACACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-
1 T-CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
*
57935997 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* * *
57936037 TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTAC
1 -TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
57936078 ATTCAATCAC
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.06
41 88 0.85
42 3 0.03
43 3 0.03
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:57941484 original size:44 final size:46
Alignment explanation
Indices: 57941399--57941491 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
57941389 GGTTCGCTGA
* *
57941399 AATGAAATAGAGGCGTAATGGGTAATTCTTTTATTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATGAGTAATTCTTGTATTTGGTTGAATGG
* *
57941445 AATGGAATAGAGGCGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATGAGTAATTCTTGTATTTGGTTGAATGG
57941489 AAT
1 AAT
57941492 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAGGCGTAATGAGTAATTCTTGTATTTGGTTGAATGG
Found at i:57953788 original size:6 final size:6
Alignment explanation
Indices: 57953777--57953805 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57953767 AAAGACTAAC
57953777 CTCCTG CTCCTG CTCCTG CTCCTG CTCCT
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCT
57953806 ACTACTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.14, T:0.34
Consensus pattern (6 bp):
CTCCTG
Found at i:57956606 original size:21 final size:21
Alignment explanation
Indices: 57956581--57956624 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57956571 ATCTTCGAGG
57956581 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
57956602 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
57956623 AT
1 AT
57956625 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:57956630 original size:19 final size:19
Alignment explanation
Indices: 57956580--57956635 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
57956570 AATCTTCGAG
57956580 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57956599 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
57956620 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
57956636 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57956642 original size:22 final size:23
Alignment explanation
Indices: 57956593--57956658 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
57956583 ATGCAATCTT
*
57956593 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
57956614 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
57956636 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
57956659 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:57956668 original size:22 final size:23
Alignment explanation
Indices: 57956624--57956668 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57956614 AGATATGATA
*
57956624 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
57956647 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
57956669 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:57956855 original size:19 final size:21
Alignment explanation
Indices: 57956831--57956869 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57956821 GGCTTACTGT
*
57956831 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
57956850 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
57956870 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:57957145 original size:12 final size:11
Alignment explanation
Indices: 57957076--57957147 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
57957066 GCCTTTACTA
*
57957076 ATTAATTTATT
1 ATTATTTTATT
*
57957087 ATTATTAT-TT
1 ATTATTTTATT
**
57957097 ATTAATCCTATT
1 ATT-ATTTTATT
*
57957109 ATTATTTGTACT
1 ATTATTT-TATT
57957121 ATTATTGTTATT
1 ATTATT-TTATT
57957133 ATTATTTTCATT
1 ATTATTTT-ATT
57957145 ATT
1 ATT
57957148 TCTTCTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 5 0.10
11 13 0.27
12 29 0.60
13 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:57973487 original size:93 final size:92
Alignment explanation
Indices: 57973328--57973496 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 92
57973318 AACTATTTTT
* * * * * *
57973328 ATAAAATGTCTAATGTGGCATTTTTATTTTGAAAATGTTCAATGTGGTACTTGAATTATAAATAT
1 ATAAAATGTCCAATATGGCATATGTATTTTGAAAATGTCCAATGTAGTACTTGAATTATAAATAT
57973393 GTGTTTTTATTATGGTACCTATACTTTC
66 GTG-TTTTATTATGGTACCTATACTTTC
* *
57973421 ATAAAATGTCCAATATGGTATATGTATTTT-ACAAATGTCCAATGTAGTACTTGAACTT-TCAAT
1 ATAAAATGTCCAATATGGCATATGTATTTTGA-AAATGTCCAATGTAGTACTTGAA-TTATAAAT
57973484 ATGTGTTTTATTA
64 ATGTGTTTTATTA
57973497 CGGCACATGG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.14
93 55 0.83
94 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (92 bp):
ATAAAATGTCCAATATGGCATATGTATTTTGAAAATGTCCAATGTAGTACTTGAATTATAAATAT
GTGTTTTATTATGGTACCTATACTTTC
Found at i:57975156 original size:16 final size:18
Alignment explanation
Indices: 57975127--57975159 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
57975117 TCGATGAGAT
57975127 ATAACAAAATATTAAAAA
1 ATAACAAAATATTAAAAA
57975145 ATAA-AAAA-ATTAAAA
1 ATAACAAAATATTAAAA
57975160 TCATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAACAAAATATTAAAAA
Found at i:57976584 original size:19 final size:20
Alignment explanation
Indices: 57976556--57976594 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
57976546 TACTAGTGAT
*
57976556 TACATGTGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
57976575 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
57976595 AAATAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:57977378 original size:12 final size:13
Alignment explanation
Indices: 57977361--57977390 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
57977351 AATAAACATT
57977361 TACAAATAT-ATA
1 TACAAATATAATA
57977373 TACAAATATAATA
1 TACAAATATAATA
57977386 TACAA
1 TACAA
57977391 GTAAATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (13 bp):
TACAAATATAATA
Found at i:57977476 original size:21 final size:21
Alignment explanation
Indices: 57977438--57977480 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
57977428 AAATAAAAAC
*
57977438 AAATAGAAATACATGTATTAAA
1 AAATAGAAATACAAGTA-TAAA
*
57977460 AAATAG-AATAGAAGTATAAA
1 AAATAGAAATACAAGTATAAA
57977480 A
1 A
57977481 GTATGCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (21 bp):
AAATAGAAATACAAGTATAAA
Found at i:57977739 original size:17 final size:17
Alignment explanation
Indices: 57977710--57977744 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57977700 TAAAGTATAT
57977710 AAAGAAAATTAAAAAAA
1 AAAGAAAATTAAAAAAA
57977727 AAAGTAAAA-TAAAAAAA
1 AAAG-AAAATTAAAAAAA
57977744 A
1 A
57977745 GTATGCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAGAAAATTAAAAAAA
Found at i:57977741 original size:18 final size:17
Alignment explanation
Indices: 57977710--57977744 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57977700 TAAAGTATAT
*
57977710 AAAGAAAATTAAAAAAA
1 AAAGAAAATAAAAAAAA
57977727 AAAGTAAAATAAAAAAAA
1 AAAG-AAAATAAAAAAAA
57977745 GTATGCATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAGAAAATAAAAAAAA
Found at i:57977889 original size:19 final size:19
Alignment explanation
Indices: 57977862--57977902 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57977852 AATAGAGAAC
57977862 AATGCAACAATAATAATA-T
1 AATGCAAC-ATAATAATAGT
*
57977881 AATGTAACATAATAATAGT
1 AATGCAACATAATAATAGT
57977900 AAT
1 AAT
57977903 AAGGATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (19 bp):
AATGCAACATAATAATAGT
Found at i:57979864 original size:132 final size:132
Alignment explanation
Indices: 57979555--57980856 Score: 1592
Period size: 132 Copynumber: 9.8 Consensus size: 132
57979545 GCTGACTGGA
* ** * *
57979555 GGAA-TAGAATTACTGGCTTCAATATACTCCACTACAACCTCAGGGAGGTAAAA-TCTGCCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCT
* *
57979618 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAA-CTATTCCACTGCTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
57979682 CAG
130 CAG
*
57979685 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
* * * * *
57979750 TGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTTATTCTATTTCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
57979815 AG
131 AG
*
57979817 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
* *
57979882 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
57979947 AG
131 AG
* *
57979949 GGAAGTAGAATTACTGGTTTCAATGTACTCCACTGTAACCACAGGGATGTAAAATTCACCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
* * *
57980014 TGATCTGCCCCACTACTGCTTAGGGCGACAAGATTTGAAATCTTCAATCTATTCCGCTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
57980079 AG
131 AG
* * *
57980081 AGAAGTAGAATTTCTGGCTCCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
* * * *
57980146 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCTC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
*
57980211 AA
131 AG
* **
57980213 GGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGTCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCT
* * * * * * *
57980277 TTGATATGCTTCGCTGTCTA-TGC--ATGAAGGCAATATCTGAAATCTTCAACCTATTCCGCTGC
65 TTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
*
57980339 TGTCCAG
126 TGCCCAG
* **
57980346 GGAAGTAGAATTACTGGTTTCAATGTACTCTGCTGTAACCACAGGGAGGTAAAA-TCTACCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCT
* * * * * * ** *
57980410 TCGATCTGCTTCGCTGTCT-ATGTAGGAATG-CAAGATCTGTTATCTTCAATCTATTCCGCTGTT
65 TTGATCTGCTCCACT-ACTGCT-TAGGGA-GACAAGATCTGAAATCTTCAATCTATTCCGCTGCT
*
57980473 GTCCAG
127 GCCCAG
* *
57980479 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATTCACCATCT
* * * * * * * ** *
57980543 TCGATCTGCTTCGCTGTCT-ATGTAGGAAGGCAAGATCTGCTATATTCAATCTATTCCGCTGCTG
65 TTGATCTGCTCCACT-ACTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG
57980607 CCCAG
128 CCCAG
* *
57980612 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATTCACCATCT
* * * * * * * ** *
57980676 TCGATCTGCTTCGCTGTCT-ATGTAGGAAGGCAAGATCTGCTATCTTCAATCTATTCCGCTACTG
65 TTGATCTGCTCCACT-ACTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG
*
57980740 CCCAT
128 CCCAG
* * *
57980745 GGAAGTAGAATTACTGGCTTCAATCTACTCCACTGTAACCAC-GAGGAGGTAAAA-TCTGCCATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATTC-ACCATC
*
57980808 TTTGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
64 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
57980857 CCTGCTCCAC
Statistics
Matches: 1056, Mismatches: 97, Indels: 36
0.89 0.08 0.03
Matches are distributed among these distances:
129 2 0.00
130 3 0.00
131 101 0.10
132 482 0.46
133 459 0.43
134 3 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
AG
Found at i:57980558 original size:266 final size:262
Alignment explanation
Indices: 57979555--57980856 Score: 1509
Period size: 266 Copynumber: 4.9 Consensus size: 262
57979545 GCTGACTGGA
* ** * *
57979555 GGAA-TAGAATTACTGGCTTCAATATACTCCACTACAACCTCAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTT
* *
57979619 TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAA-CTATTCCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGAAG-CAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
* * *
57979683 AGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATC
130 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
* * * * * * *
57979748 TTTGATCTGCTCC-ACTACTGCTTGGGGAGACAAGATCTGAAATCTTTATTCTATTTCACTGCTG
195 TTTGATCTGCTCCGACTACTGCAT--GAAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTG
57979812 CCCAG
258 CCCAG
*
57979817 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCATCT
* *
57979881 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACC
65 TTGATCTGCTCCACTACTGCTTAGGAAG-CAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
* * * *
57979946 CAGGGAAGTAGAATTACTGGTTTCAATGTACTCCACTGTAACCACAGGGATGTAAAATTCACCAT
129 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCAT
* * * *
57980011 CTTTGATCTGC-CCCACTACTGC-TTAGGGCGACAAGATTTGAAATCTTCAATCTATTCCGCTGC
194 CTTTGATCTGCTCCGACTACTGCATGA-AG-G-CAAGATCTGAAATCTTCAATCTATTCCGCTGC
57980074 TGCCCAG
256 TGCCCAG
* * *
57980081 AGAAGTAGAATTTCTGGCTCCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCATCT
* * * *
57980145 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCT
65 TTGATCTGCTCCACTACTGCTTAGGAAG-CAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
* * * *
57980210 CAAGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCAT
129 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCAT
* * * *
57980275 CTTTGATATGCTTCGCTGTCTA-TGCATGAAGGCAATATCTGAAATCTTCAACCTATTCCGCTGC
194 CTTTGATCTGC-TC-C-GACTACTGCATGAAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGC
*
57980339 TGTCCAG
256 TGCCCAG
* **
57980346 GGAAGTAGAATTACTGGTTTCAATGTACTCTGCTGTAACCACAGGGAGGTAAAATCTACCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTT
* * * * * ** * * *
57980411 CGATCTGCTTCGCTGTCT-ATGTAGGAATGCAAGATCTGTTATCTTCAATCTATTCCGCTGTTGT
66 TGATCTGCTCCACT-ACTGCT-TAGGAA-GCAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
57980475 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCC
128 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCCGCC
* * * * ** *
57980539 ATCTTCGATCTGCTTCGCTGTCTA-TGTAGGAAGGCAAGATCTGCTATATTCAATCTATTCCGCT
192 ATCTTTGATCTGC-TC-C-GACTACTGCATGAAGGCAAGATCTGAAATCTTCAATCTATTCCGCT
57980603 GCTGCCCAG
254 GCTGCCCAG
**
57980612 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCTACCATCT
* * * * * ** * *
57980676 TCGATCTGCTTCGCTGTCT-ATGTAGGAAGGCAAGATCTGCTATCTTCAATCTATTCCGCTACTG
65 TTGATCTGCTCCACT-ACTGCT-TAGGAA-GCAAGATCTGAAATCTTCAATCTATTCCACTGCTG
* * *
57980740 CCCATGGAAGTAGAATTACTGGCTTCAATCTACTCCACTGTAACCAC-GAGGAGGTAAAATCTGC
127 CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCCGC
* * * * *
57980804 CATTTTTGATCTACTCC-ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
191 CATCTTTGATCTGCTCCGACTACTGC--ATGAAGGCAAGATCTGAAATCTTCAA
57980857 CCTGCTCCAC
Statistics
Matches: 917, Mismatches: 102, Indels: 39
0.87 0.10 0.04
Matches are distributed among these distances:
262 8 0.01
263 104 0.11
264 319 0.35
265 129 0.14
266 346 0.38
267 6 0.01
268 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (262 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTT
TGATCTGCTCCACTACTGCTTAGGAAGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
TTGATCTGCTCCGACTACTGCATGAAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
AG
Found at i:57981972 original size:18 final size:17
Alignment explanation
Indices: 57981939--57981977 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57981929 TTGTATAAAT
57981939 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
57981957 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
57981974 TGTG
1 TGTG
57981978 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.