Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 299 of 344
Found at i:99381909 original size:16 final size:16
Alignment explanation
Indices: 99381888--99381942 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
99381878 GAATTACTGT
* *
99381888 TTACAGCTTTATCCCA
1 TTACAGCTCTATTCCA
*
99381904 TTACAGCTCTATTCAA
1 TTACAGCTCTATTCCA
99381920 TTACAGCTCTATTCCA
1 TTACAGCTCTATTCCA
99381936 TTACAGC
1 TTACAGC
99381943 GAACCAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
TTACAGCTCTATTCCA
Found at i:99383095 original size:18 final size:18
Alignment explanation
Indices: 99383027--99383226 Score: 130
Period size: 17 Copynumber: 11.5 Consensus size: 18
99383017 TTAAACAAGA
99383027 AAAATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
* * *
99383044 AGAATTTTAG-AGACACG
1 AAAATTTTTGAAAACACG
*
99383061 AAAATTCTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
99383078 AAAATTTTTGAGAACACG
1 AAAATTTTTGAAAACACG
* *
99383096 ACAA-TTTTGAAATACGCG
1 AAAATTTTTGAAA-ACACG
**
99383114 AATTTTTTTGAAAAC-CTG
1 AAAATTTTTGAAAACAC-G
** * *
99383132 -ATTTTTTTG-AAGCGCG
1 AAAATTTTTGAAAACACG
** *
99383148 AAAATTCGTG-AAACATG
1 AAAATTTTTGAAAACACG
* *
99383165 AGAATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
**
99383183 AAAATTTTTGAAAACGTG
1 AAAATTTTTGAAAACACG
99383201 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
*
99383218 AAAGTTTTT
1 AAAATTTTT
99383227 TTTTTTTTAA
Statistics
Matches: 140, Mismatches: 34, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
16 4 0.03
17 80 0.57
18 48 0.34
19 8 0.06
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:99383227 original size:36 final size:36
Alignment explanation
Indices: 99383027--99383226 Score: 119
Period size: 35 Copynumber: 5.8 Consensus size: 36
99383017 TTAAACAAGA
* * * * *
99383027 AAAATT-TTTAAAACACGAGAATTTTAG-AGACACG
1 AAAATTGTTGAAAACACGAAAATTTTTGAAAACATG
* * *
99383061 AAAATTCTT-AAAACACGAAAATTTTTGAGAACACG
1 AAAATTGTTGAAAACACGAAAATTTTTGAAAACATG
* * ** *
99383096 ACAATT-TTGAAATACGCGAATTTTTTTGAAAACCTG
1 AAAATTGTTGAAA-ACACGAAAATTTTTGAAAACATG
** * * * **
99383132 -ATTTTTTTG-AAGCGCGAAAATTCGTG-AAACATG
1 AAAATTGTTGAAAACACGAAAATTTTTGAAAACATG
* *
99383165 AGAATTGTTGAAAACACGAAAATTTTTGAAAACGTG
1 AAAATTGTTGAAAACACGAAAATTTTTGAAAACATG
* *
99383201 AAAATTTTTG-AAACACGAAAGTTTTT
1 AAAATTGTTGAAAACACGAAAATTTTT
99383227 TTTTTTTTAA
Statistics
Matches: 126, Mismatches: 32, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
33 6 0.05
34 39 0.31
35 47 0.37
36 34 0.27
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (36 bp):
AAAATTGTTGAAAACACGAAAATTTTTGAAAACATG
Found at i:99383296 original size:19 final size:19
Alignment explanation
Indices: 99383255--99383300 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
99383245 TGAAATTTTT
* *
99383255 TTTTTGAACACGAGAAAAT
1 TTTTTGAAAACGAGAAAAA
99383274 TTTTTGAAAAC-ATGAAAAA
1 TTTTTGAAAACGA-GAAAAA
99383293 -TTTTGAAA
1 TTTTTGAAA
99383301 CACCGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACGAGAAAAA
Found at i:99383323 original size:16 final size:19
Alignment explanation
Indices: 99383298--99383337 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
99383288 AAAAATTTTG
99383298 AAACACCGAA-A-TCTTGA
1 AAACACCGAAGATTCTTGA
*
99383315 AAACA-CGAAGATTTTTGA
1 AAACACCGAAGATTCTTGA
99383333 AAACA
1 AAACA
99383338 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 6 0.30
18 10 0.50
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.20
Consensus pattern (19 bp):
AAACACCGAAGATTCTTGA
Found at i:99383334 original size:18 final size:18
Alignment explanation
Indices: 99383274--99383479 Score: 81
Period size: 17 Copynumber: 11.5 Consensus size: 18
99383264 ACGAGAAAAT
* *
99383274 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAGA
*
99383292 ATTTTG-AAACACCGAA-A
1 TTTTTGAAAACA-CGAAGA
*
99383309 -TCTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAGA
** **
99383326 TTTTTGAAAACAATTATTA
1 TTTTTGAAAAC-ACGAAGA
* * *
99383345 TTTTTTAAAAAAGACGAAAA
1 -TTTTT-GAAAACACGAAGA
*
99383365 TTTATG-AAACAC-AAGA
1 TTTTTGAAAACACGAAGA
* *
99383381 TTTTTAAAAAAAACAC-AAAA
1 TTTTT---GAAAACACGAAGA
* *
99383401 ATTTTCAAAACACTGAA-A
1 TTTTTGAAAACAC-GAAGA
*
99383419 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAGA
99383437 TTTTT-AAAACACGCAA-A
1 TTTTTGAAAACACG-AAGA
* * *
99383454 ATTTTGGAAACACGAGGA
1 TTTTTGAAAACACGAAGA
99383472 -TTTTGAAA
1 TTTTTGAAA
99383480 TACGAAATTA
Statistics
Matches: 140, Mismatches: 31, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
16 15 0.11
17 47 0.34
18 44 0.31
19 9 0.06
20 21 0.15
21 4 0.03
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (18 bp):
TTTTTGAAAACACGAAGA
Found at i:99383405 original size:20 final size:21
Alignment explanation
Indices: 99383371--99383410 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99383361 AAAATTTATG
* *
99383371 AAACAC-AAGATTTTTAAAAA
1 AAACACAAAAATTTTCAAAAA
99383391 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTCAAAA
99383411 CACTGAAATT
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:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (21 bp):
AAACACAAAAATTTTCAAAAA
Found at i:99383493 original size:35 final size:35
Alignment explanation
Indices: 99383401--99383475 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
99383391 AAACACAAAA
* *
99383401 ATTTTCAAAACACTG-AAATTTTTGAAAACACGAGG
1 ATTTTTAAAACAC-GCAAAATTTTGAAAACACGAGG
*
99383436 ATTTTTAAAACACGCAAAATTTTGGAAACACGAGG
1 ATTTTTAAAACACGCAAAATTTTGAAAACACGAGG
99383471 ATTTT
1 ATTTT
99383476 GAAATACGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (35 bp):
ATTTTTAAAACACGCAAAATTTTGAAAACACGAGG
Found at i:99383527 original size:19 final size:21
Alignment explanation
Indices: 99383472--99383527 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
99383462 AACACGAGGA
* *
99383472 TTTTGAAATACGAAATTATTT
1 TTTTGAAACACGAAATTATTC
* *
99383493 TTTTTAAACGCGGAAA-T-TTC
1 TTTTGAAACAC-GAAATTATTC
99383513 TTTTGAAACACGAAA
1 TTTTGAAACACGAAA
99383528 ACTCTTGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 9 0.32
22 4 0.14
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTTGAAACACGAAATTATTC
Found at i:99384117 original size:7 final size:7
Alignment explanation
Indices: 99384105--99384141 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
99384095 CTTTTTCTTC
99384105 CTTTTTT
1 CTTTTTT
99384112 CTTTTTT
1 CTTTTTT
99384119 CTTTTTT
1 CTTTTTT
99384126 CCTTTTTT
1 -CTTTTTT
99384134 CTTCTTTT
1 CTT-TTTT
99384142 TCTTCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 17 0.61
8 11 0.39
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Found at i:99384129 original size:22 final size:20
Alignment explanation
Indices: 99384095--99384158 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
99384085 ATTGAACCCC
*
99384095 CTTTTTCTTCCTTTTTTCTTT
1 CTTTTTTTTCCTTTTTTC-TT
*
99384116 TTTCTTTTTTCCTTTTTTCTT
1 CTT-TTTTTTCCTTTTTTCTT
* *
99384137 CTTTTTCTTCCTTTTTTTTT
1 CTTTTTTTTCCTTTTTTCTT
99384157 CT
1 CT
99384159 GCTGGGCTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.46
21 6 0.16
22 14 0.38
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTTTTCCTTTTTTCTT
Found at i:99384130 original size:15 final size:14
Alignment explanation
Indices: 99384105--99384141 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
99384095 CTTTTTCTTC
99384105 CTTTTTTCTTTTTT
1 CTTTTTTCTTTTTT
99384119 CTTTTTTCCTTTTTT
1 CTTTTTT-CTTTTTT
99384134 CTTCTTTT
1 CTT-TTTT
99384142 TCTTCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 10 0.48
16 4 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTTCTTTTTT
Found at i:99384438 original size:3 final size:3
Alignment explanation
Indices: 99384432--99384472 Score: 64
Period size: 3 Copynumber: 13.0 Consensus size: 3
99384422 TTTCTTTTTT
99384432 TTC TTC TTTC TTC TTC TTC TTC TTCC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC
99384473 AAAACCGAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:99384443 original size:16 final size:16
Alignment explanation
Indices: 99384422--99384471 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
99384412 TAAAATTTTT
* *
99384422 TTTCTTTTTTTTCTTC
1 TTTCTTCTTCTTCTTC
99384438 TTTCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
*
99384454 TTCCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
99384470 TT
1 TT
99384472 CAAAACCGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTTCTTCTTCTTC
Found at i:99384454 original size:19 final size:19
Alignment explanation
Indices: 99384432--99384472 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
99384422 TTTCTTTTTT
*
99384432 TTCTTCTTTCTTCTTCTTC
1 TTCTTCCTTCTTCTTCTTC
99384451 TTCTTCCTTCTTCTTCTTC
1 TTCTTCCTTCTTCTTCTTC
99384470 TTC
1 TTC
99384473 AAAACCGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCTTCCTTCTTCTTCTTC
Found at i:99384892 original size:30 final size:30
Alignment explanation
Indices: 99384840--99384940 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
99384830 ATTTAGGATT
*
99384840 AAAATGAAATTTAATG-AAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
99384869 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
99384899 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
99384929 AAAATGCAATTT
1 AAAATGAAATTT
99384941 TTATTTTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 16 0.25
30 47 0.75
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:99385329 original size:47 final size:52
Alignment explanation
Indices: 99385210--99385330 Score: 155
Period size: 47 Copynumber: 2.4 Consensus size: 52
99385200 CGTGACCAAG
*
99385210 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATTTGAAAAG
1 GCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTTGAAAACAGAA--TGAAAAA
99385265 GCTCAACTCAC-CTTCGCAATATGAGTTGA-TTTTTG-AAA-A-AA-GAAAAA
1 GCTCAACTCACTC-TCGCAATATGAGTTGATTTTTTGAAAACAGAATGAAAAA
99385312 GCTCAACTCACTCTCGCAA
1 GCTCAACTCACTCTCGCAA
99385331 AATTAAAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
47 22 0.35
48 1 0.02
50 2 0.03
51 1 0.02
52 3 0.05
53 7 0.11
54 16 0.25
55 11 0.17
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (52 bp):
GCTCAACTCACTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATGAAAAA
Found at i:99385395 original size:14 final size:14
Alignment explanation
Indices: 99385376--99385410 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
99385366 TGAGTTGATT
99385376 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
99385390 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
99385404 TTGAAAA
1 TTGAAAA
99385411 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:99386096 original size:189 final size:191
Alignment explanation
Indices: 99385709--99386500 Score: 1508
Period size: 189 Copynumber: 4.2 Consensus size: 191
99385699 CATTGAGCCA
* *
99385709 GCTCAACTCA-CTCTTGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
99385772 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCAACT
66 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
99385836 CA-TTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATA-CTCAACGTGTCTTGAG
131 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAG
99385895 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
99385960 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
66 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
99386025 CA-TTCTCGCAATATGAGTTGATTTTTTTAAAAATTT-AAAATACCTCAACGTGTCTTGAG
131 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAG
99386084 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
99386149 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
66 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
99386214 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAG
99386275 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
99386340 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
66 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
99386405 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 CACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTTGAG
99386467 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
99386501 CCTTGGAAAG
Statistics
Matches: 597, Mismatches: 2, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
186 10 0.02
187 28 0.05
188 79 0.13
189 198 0.33
190 34 0.06
191 182 0.30
192 66 0.11
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (191 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAG
Found at i:99386334 original size:380 final size:379
Alignment explanation
Indices: 99385709--99386500 Score: 1502
Period size: 380 Copynumber: 2.1 Consensus size: 379
99385699 CATTGAGCCA
* *
99385709 GCTCAACTCA-CTCTTGCAATATGAGTTGATTTTGAAAAACAAAATTAAAAGGCTTAACTCACCT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAAGGCTTAACTCACCT
99385773 CTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCA
66 CTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCA
99385838 TTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACTCAACGTGTCTTGAGGCTCAACT
131 TTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACTCAACGTGTCTTGAGGCTCAACT
99385903 CATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAA
196 CATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAA
99385968 TATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCA-TTCTC
261 TATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTC
99386032 GCAATATGAGTTGATTTTTTT-AAAAATTT-AAAATACCTCAACGTGTCTTGAG
326 GCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
99386084 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTCACC
99386149 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
65 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCAACT
99386214 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGGCTC
129 CA-TTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATA-CTCAACGTGTCTTGAGGCTC
99386279 AACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTC
192 AACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTC
99386344 GCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACT
257 GCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACT
99386409 TCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
322 TCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
99386467 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
99386501 CCTTGGAAAG
Statistics
Matches: 407, Mismatches: 2, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
375 10 0.02
376 28 0.07
377 73 0.18
378 16 0.04
379 41 0.10
380 148 0.36
381 26 0.06
382 8 0.02
383 57 0.14
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (379 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAAGGCTTAACTCACCT
CTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCA
TTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACTCAACGTGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAA
TATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTC
GCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
Found at i:99398258 original size:17 final size:16
Alignment explanation
Indices: 99398206--99398309 Score: 68
Period size: 17 Copynumber: 6.2 Consensus size: 16
99398196 ACACAATTTC
*
99398206 TTTAAAA-ACGAGAAT
1 TTTAAAACACGAAAAT
*
99398221 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAA-T
*
99398239 TTTAAAACACGACAACT
1 TTTAAAACACGA-AAAT
* *
99398256 TTTGAAGCACGAGAAATT
1 TTTAAAACACGA-AAA-T
*
99398274 TATTCAAAACAC-AAAAA
1 T-TT-AAAACACGAAAAT
*
99398291 TTTAAAACACGAACAT
1 TTTAAAACACGAAAAT
99398307 TTT
1 TTT
99398310 TTGAAACAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
15 11 0.16
16 11 0.16
17 26 0.38
18 12 0.18
19 3 0.04
20 5 0.07
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (16 bp):
TTTAAAACACGAAAAT
Found at i:99398452 original size:18 final size:19
Alignment explanation
Indices: 99398415--99398458 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
99398405 AACACGACAA
*
99398415 TTTTGAAATACGTGAATTT
1 TTTTGAAATACCTGAATTT
*
99398434 TTTTGAAA-ACCTGATTTT
1 TTTTGAAATACCTGAATTT
99398452 TTTTGAA
1 TTTTGAA
99398459 GCGCGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (19 bp):
TTTTGAAATACCTGAATTT
Found at i:99398504 original size:18 final size:18
Alignment explanation
Indices: 99398483--99398559 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
99398473 GAAACATGAG
*
99398483 AATTGTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
99398501 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
99398519 AATTTTTG-AAACATGAA
1 AATTTTTGAAAACACGAA
99398536 AATTTTTTGAAAACAC--A
1 AA-TTTTTGAAAACACGAA
99398553 AATTTTT
1 AATTTTT
99398560 TTTTGATCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.09
17 13 0.24
18 31 0.57
19 5 0.09
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:99398540 original size:35 final size:35
Alignment explanation
Indices: 99398335--99398870 Score: 148
Period size: 35 Copynumber: 14.6 Consensus size: 35
99398325 TTTTATTTTT
* * * *
99398335 AAACAAGAAAATTTTTTAAAACACGAGAATTTTAG-
1 AAACACGAAAA-TTTTTGAAACACGAAAATTTTTGA
* * *
99398370 AGACACGAAAATTCTTAAAACACGAAAA-TTTTGA
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTGA
* * * **
99398404 GAACACGACAA-TTTTGAAATACGTGAATTTTTTTGA
1 AAACACGAAAATTTTTGAAACAC--GAAAATTTTTGA
*** * * **
99398440 AAAC-CTGATTTTTTTTGAAGCGCGAAAATTCGTG-
1 AAACAC-GAAAATTTTTGAAACACGAAAATTTTTGA
* * *
99398474 AAACATGAGAATTGTTGAAAACACGAAAATTTTTGA
1 AAACACGAAAATTTTTG-AAACACGAAAATTTTTGA
*
99398510 AAACACGAAAATTTTTGAAACATGAAAATTTTTTGA
1 AAACACGAAAATTTTTGAAACACGAAAA-TTTTTGA
* * * **
99398546 AAACAC-AAATTTTTTTTTG-ATCATGGGAATTTTTGA
1 AAACACGAAA---ATTTTTGAAACACGAAAATTTTTGA
*** * *
99398582 AAATGTGAAAATTTTTGAAACACGAAAGTTTTTTTTTTTAAAA
1 AAACACGAAAATTTTTGAAACACGAAA------ATTTTT--GA
99398625 AGAACACGAAAAATTTTTTTTTG-AACACGAGAAAATTTTTTGA
1 A-AACACG-AAAA----TTTTTGAAACAC--GAAAA-TTTTTGA
* * *
99398668 AAACATGAAAAATTTTGAAACACCG-AAA-TCTTGA
1 AAACACGAAAATTTTTGAAACA-CGAAAATTTTTGA
* *
99398702 AAACAC-AAAGATTTTTGAAA-ACAATTATTATTATTTTTAA
1 AAACACGAAA-ATTTTTGAAACACGA--A--A--ATTTTTGA
* * * *
99398742 AAAAACGAAAATTTATGAAACAC-AAGATTTTTTTAAAAA
1 AAACACGAAAATTTTTGAAACACGAA-A-ATTTTT---GA
* **
99398781 AAACACAAAAATTTTCAAAACACTG-AAATTTTTGA
1 AAACACGAAAATTTTTGAAACAC-GAAAATTTTTGA
** * *
99398816 AAACACGAGGATTTTTAAAACACGCAAAA-TTTTGG
1 AAACACGAAAATTTTTGAAACACG-AAAATTTTTGA
*
99398851 AAACACTAAAATTTTTGAAA
1 AAACACGAAAATTTTTGAAA
99398871 TATGAAATTA
Statistics
Matches: 365, Mismatches: 84, Indels: 104
0.66 0.15 0.19
Matches are distributed among these distances:
32 1 0.00
33 16 0.04
34 60 0.16
35 93 0.25
36 60 0.16
37 26 0.07
38 16 0.04
39 23 0.06
40 20 0.05
41 14 0.04
42 5 0.01
43 4 0.01
44 3 0.01
45 9 0.02
48 5 0.01
49 6 0.02
50 4 0.01
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (35 bp):
AAACACGAAAATTTTTGAAACACGAAAATTTTTGA
Found at i:99398561 original size:18 final size:18
Alignment explanation
Indices: 99398335--99398559 Score: 146
Period size: 17 Copynumber: 12.9 Consensus size: 18
99398325 TTTTATTTTT
* *
99398335 AAACAAGAAAATTTTTTA
1 AAACACGAAAATTTTTGA
* *
99398353 AAACACGAGAATTTTAG-
1 AAACACGAAAATTTTTGA
* *
99398370 AGACACGAAAATTCTT-A
1 AAACACGAAAATTTTTGA
99398387 AAACACGAAAA-TTTTGA
1 AAACACGAAAATTTTTGA
* *
99398404 GAACACGACAA-TTTTGA
1 AAACACGAAAATTTTTGA
** **
99398421 AATACGTGAATTTTTTTGA
1 AA-ACACGAAAATTTTTGA
***
99398440 AAAC-CTGATTTTTTTTG-
1 AAACAC-GAAAATTTTTGA
* * **
99398457 AAGCGCGAAAATTCGTG-
1 AAACACGAAAATTTTTGA
* * *
99398474 AAACATGAGAATTGTTGA
1 AAACACGAAAATTTTTGA
99398492 AAACACGAAAATTTTTGA
1 AAACACGAAAATTTTTGA
99398510 AAACACGAAAATTTTTG-
1 AAACACGAAAATTTTTGA
*
99398527 AAACATGAAAATTTTTTGA
1 AAACACGAAAA-TTTTTGA
99398546 AAACAC--AAATTTTT
1 AAACACGAAAATTTTT
99398560 TTTTGATCAT
Statistics
Matches: 161, Mismatches: 37, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
16 8 0.05
17 72 0.45
18 68 0.42
19 13 0.08
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AAACACGAAAATTTTTGA
Found at i:99398683 original size:19 final size:19
Alignment explanation
Indices: 99398642--99398687 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
99398632 GAAAAATTTT
* *
99398642 TTTTTGAACACGAGAAAAT
1 TTTTTGAAAACGAGAAAAA
99398661 TTTTTGAAAAC-ATGAAAAA
1 TTTTTGAAAACGA-GAAAAA
99398680 -TTTTGAAA
1 TTTTTGAAA
99398688 CACCGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACGAGAAAAA
Found at i:99398802 original size:17 final size:17
Alignment explanation
Indices: 99398780--99398870 Score: 83
Period size: 18 Copynumber: 5.2 Consensus size: 17
99398770 TTTTTTAAAA
* *
99398780 AAAACACAAAAATTTTC
1 AAAACACGAAAATTTTG
*
99398797 AAAACACTGAAATTTTTG
1 AAAACAC-GAAAATTTTG
** *
99398815 AAAACACGAGGATTTTT
1 AAAACACGAAAATTTTG
99398832 AAAACACGCAAAATTTTG
1 AAAACACG-AAAATTTTG
* *
99398850 GAAACACTAAAATTTTTG
1 AAAACACGAAAA-TTTTG
99398868 AAA
1 AAA
99398871 TATGAAATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
17 25 0.43
18 33 0.57
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.27
Consensus pattern (17 bp):
AAAACACGAAAATTTTG
Found at i:99399502 original size:10 final size:10
Alignment explanation
Indices: 99399487--99399552 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
99399477 AATTGAACCC
99399487 CCTTTTTCTT
1 CCTTTTTCTT
99399497 CCTTTTTCTT
1 CCTTTTTCTT
** *
99399507 TTTTCTTTTTT
1 CCTT-TTTCTT
*
99399518 TC-TTTT-TT
1 CCTTTTTCTT
99399526 CCTTTTTTCTT
1 CC-TTTTTCTT
99399537 -CTTTTTCTT
1 CCTTTTTCTT
99399546 CCTTTTT
1 CCTTTTT
99399553 TTTTCTGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
8 3 0.07
9 11 0.24
10 24 0.52
11 8 0.17
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
CCTTTTTCTT
Found at i:99399516 original size:8 final size:8
Alignment explanation
Indices: 99399489--99399545 Score: 64
Period size: 8 Copynumber: 7.0 Consensus size: 8
99399479 TTGAACCCCC
99399489 TTTTTCTT
1 TTTTTCTT
99399497 CCTTTTTC-T
1 --TTTTTCTT
99399506 TTTTTCTT
1 TTTTTCTT
99399514 TTTTTC-T
1 TTTTTCTT
*
99399521 TTTTTCCT
1 TTTTTCTT
99399529 TTTTTCTT
1 TTTTTCTT
99399537 CTTTTTCTT
1 -TTTTTCTT
99399546 CCTTTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
7 13 0.30
8 15 0.35
9 9 0.21
10 6 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:99399517 original size:9 final size:9
Alignment explanation
Indices: 99399505--99399555 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 9
99399495 TTCCTTTTTC
99399505 TTTTTTC-T
1 TTTTTTCTT
99399513 TTTTTTC-T
1 TTTTTTCTT
*
99399521 TTTTTCCTT
1 TTTTTTCTT
99399530 TTTTCTTCTT
1 TTTT-TTCTT
*
99399540 TTTCTTCCTT
1 TTT-TTTCTT
99399550 TTTTTT
1 TTTTTT
99399556 TCTGCTGGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 14 0.39
9 7 0.19
10 14 0.39
11 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:99399517 original size:15 final size:15
Alignment explanation
Indices: 99399489--99399541 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
99399479 TTGAACCCCC
99399489 TTTTTCTTCCTTTTTCT
1 TTTTTCTT--TTTTTCT
99399506 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
*
99399521 TTTTTCCTTTTTTCT
1 TTTTTCTTTTTTTCT
99399536 TCTTTT
1 T-TTTT
99399542 TCTTCCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 22 0.65
16 4 0.12
17 8 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:99399525 original size:23 final size:24
Alignment explanation
Indices: 99399488--99399558 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 24
99399478 ATTGAACCCC
99399488 CTTTTTCTTCCTTTTTCTTTTTTCTT
1 CTTTTTCTT--TTTTTCTTTTTTCTT
*
99399514 -TTTTTCTTTTTTCCTTTTTTCTT
1 CTTTTTCTTTTTTTCTTTTTTCTT
**
99399537 CTTTTTCTTCCTTT-TTTTTTCT
1 CTTTTTCTTTTTTTCTTTTTTCT
99399559 GCTGGGCTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 22 0.55
24 10 0.25
25 8 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
CTTTTTCTTTTTTTCTTTTTTCTT
Found at i:99399835 original size:3 final size:3
Alignment explanation
Indices: 99399829--99399887 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
99399819 AATTTTTTTT
99399829 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
99399876 TTC TTC TTC TTC
1 TTC TTC TTC TTC
99399888 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:99399844 original size:10 final size:10
Alignment explanation
Indices: 99399829--99399887 Score: 72
Period size: 10 Copynumber: 6.3 Consensus size: 10
99399819 AATTTTTTTT
99399829 TTCTTCTTTC
1 TTCTTCTTTC
*
99399839 TTCTTCTCTC
1 TTCTTCTTTC
99399849 -T-TTCTTTC
1 TTCTTCTTTC
99399857 TTCTTC-TTC
1 TTCTTCTTTC
*
99399866 TTCTTCCTTC
1 TTCTTCTTTC
99399876 TTCTTC-TTC
1 TTCTTCTTTC
99399885 TTC
1 TTC
99399888 AAAACCGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
8 6 0.14
9 17 0.39
10 21 0.48
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:99399875 original size:13 final size:13
Alignment explanation
Indices: 99399829--99399884 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
99399819 AATTTTTTTT
*
99399829 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
99399842 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
99399854 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
99399866 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
99399879 TTCTTC
1 TTCTTC
99399885 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:99400010 original size:20 final size:19
Alignment explanation
Indices: 99399985--99400032 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
99399975 TTTCTCTCCC
* *
99399985 CTTTTTTCTTATTTTTGAAG
1 CTTTTTT-TTATCTTTGAAA
*
99400005 CTTTTTTTTCTCTTTGAAA
1 CTTTTTTTTATCTTTGAAA
99400024 CTTTTTTTT
1 CTTTTTTTT
99400033 TGGAGATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (19 bp):
CTTTTTTTTATCTTTGAAA
Found at i:99400301 original size:30 final size:29
Alignment explanation
Indices: 99400249--99400365 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 29
99400239 TGTAATTTTT
* * *
99400249 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* *
99400278 TGAAAGTTTAGTGGTCTAAATGAAATTTAA
1 AGAAAGTTTAG-GGTCAAAATGAAATTTAA
99400308 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* *
99400337 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
99400366 TTATTTTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
29 12 0.16
30 61 0.81
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:99404391 original size:22 final size:22
Alignment explanation
Indices: 99404363--99404408 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
99404353 ACAATTAAAG
99404363 AAAGATGAACAGTAAATATTTT
1 AAAGATGAACAGTAAATATTTT
99404385 AAAGATGAACAGTAAATATTTT
1 AAAGATGAACAGTAAATATTTT
99404407 AA
1 AA
99404409 CTCATAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.30
Consensus pattern (22 bp):
AAAGATGAACAGTAAATATTTT
Found at i:99409596 original size:27 final size:27
Alignment explanation
Indices: 99409546--99409597 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
99409536 GTTGGATTTA
* *
99409546 TAAAAAAATAATTTAATTATAATATGT
1 TAAAAAAATAATTTAATGAAAATATGT
99409573 TAAAAAAATAATTTTAA-GAAAATAT
1 TAAAAAAATAA-TTTAATGAAAATAT
99409598 TGTATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
TAAAAAAATAATTTAATGAAAATATGT
Found at i:99410193 original size:22 final size:22
Alignment explanation
Indices: 99410165--99410209 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
99410155 ATACAACATT
99410165 TAAACCCTCGAAAATAAGCTTG
1 TAAACCCTCGAAAATAAGCTTG
99410187 TAAACCCTCGAAAATAAGCTTG
1 TAAACCCTCGAAAATAAGCTTG
99410209 T
1 T
99410210 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (22 bp):
TAAACCCTCGAAAATAAGCTTG
Found at i:99411011 original size:14 final size:13
Alignment explanation
Indices: 99410970--99411011 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
99410960 AGTAATGTAG
99410970 AAATAAAT-TTTA
1 AAATAAATATTTA
99410982 AAATAAATATTATA
1 AAATAAATATT-TA
*
99410996 AAGTAAATAGTTTA
1 AAATAAATA-TTTA
99411010 AA
1 AA
99411012 TGAAAGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 14 0.54
15 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
AAATAAATATTTA
Found at i:99412875 original size:24 final size:24
Alignment explanation
Indices: 99412824--99412876 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
99412814 AATTCATTGG
* * *
99412824 ATAATATTTTTTAAGTGATGTAAA
1 ATAATATTATTTAAATGATGCAAA
99412848 ATAATATTATTTAAATGAT-CAAA
1 ATAATATTATTTAAATGATGCAAA
99412871 TATAAT
1 -ATAAT
99412877 TAAAATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (24 bp):
ATAATATTATTTAAATGATGCAAA
Found at i:99413588 original size:9 final size:9
Alignment explanation
Indices: 99413576--99413613 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
99413566 AAGATAAAAA
99413576 ATAAAAGTT
1 ATAAAAGTT
99413585 ATAAAAGTT
1 ATAAAAGTT
99413594 ATAAAAGTT
1 ATAAAAGTT
99413603 ATAAAAGTT
1 ATAAAAGTT
99413612 AT
1 AT
99413614 TAAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (9 bp):
ATAAAAGTT
Found at i:99413993 original size:15 final size:15
Alignment explanation
Indices: 99413968--99414004 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
99413958 ATCTGTTTTT
*
99413968 CAGTAGTGTTGGAAA
1 CAGTGGTGTTGGAAA
*
99413983 TAGTGGTGTTGGAAA
1 CAGTGGTGTTGGAAA
99413998 CAGTGGT
1 CAGTGGT
99414005 TTCGAGGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.38, T:0.30
Consensus pattern (15 bp):
CAGTGGTGTTGGAAA
Found at i:99414601 original size:5 final size:5
Alignment explanation
Indices: 99414585--99414617 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
99414575 AAGTATTAAG
99414585 TATAT T-TAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
99414618 ATAAAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:99415855 original size:40 final size:39
Alignment explanation
Indices: 99415725--99415849 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
99415715 GACTTCGAGT
*
99415725 CGATGAGACACTGAGTGTCAATTTACTACTTCGAATTAATT
1 CGATGAGACACTGAGTGTCAATTTA-TACTTCGAATT-ATC
* * * ** *
99415766 CAATGATG-CACTGGGTGCCAA-TT-TACTTCGGTTTAGC
1 CGATGA-GACACTGAGTGTCAATTTATACTTCGAATTATC
* *
99415803 TGATGAGACATTGAGTGTCAATTTAGTACTTCGAATTATC
1 CGATGAGACACTGAGTGTCAATTTA-TACTTCGAATTATC
99415843 CGATGAG
1 CGATGAG
99415850 GCATTGGGTG
Statistics
Matches: 63, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
36 1 0.02
37 15 0.24
38 11 0.17
40 19 0.30
41 16 0.25
42 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGAGTGTCAATTTATACTTCGAATTATC
Found at i:99416774 original size:20 final size:21
Alignment explanation
Indices: 99416741--99416779 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99416731 TTTTGATGCA
* *
99416741 TTTTAT-AATTTTTTTATTAT
1 TTTTATAAAATTTTATATTAT
99416761 TTTTATAAAATTTTATATT
1 TTTTATAAAATTTTATATT
99416780 TTCCACAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATAAAATTTTATATTAT
Found at i:99422077 original size:21 final size:21
Alignment explanation
Indices: 99422036--99422078 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
99422026 ATTTGAATTT
*
99422036 TTTAATTTAAAAATATGAATA
1 TTTAATTTAAAAATATAAATA
99422057 TTTAA-TTAAAAATATCAAATA
1 TTTAATTTAAAAATAT-AAATA
99422078 T
1 T
99422079 ATATTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTAATTTAAAAATATAAATA
Found at i:99423318 original size:28 final size:29
Alignment explanation
Indices: 99423269--99423323 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
99423259 TCATCTAATG
**
99423269 AAGAAAATGAGAATATGCTCAA-AAAAGA
1 AAGAAAATGAGAATATAATCAACAAAAGA
99423297 AAGAAAATGAGAATCA-AATCAACAAAA
1 AAGAAAATGAGAAT-ATAATCAACAAAA
99423324 TTAAAAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.64, C:0.09, G:0.15, T:0.13
Consensus pattern (29 bp):
AAGAAAATGAGAATATAATCAACAAAAGA
Found at i:99424800 original size:26 final size:27
Alignment explanation
Indices: 99424764--99424903 Score: 88
Period size: 30 Copynumber: 4.9 Consensus size: 27
99424754 ATTTTTCTCA
99424764 TAAAATTTATAACAAATTA-AAAATAT
1 TAAAATTTATAACAAATTATAAAATAT
* *
99424790 TAAAATTTATAATAAATTATAAAATTT
1 TAAAATTTATAACAAATTATAAAATAT
* * *
99424817 TATAAAATTAGTAA-AACATATTTAAAATTT
1 TA-AAATTTA-TAACAA-AT-TATAAAATAT
*
99424847 TATAATGACTTATAA-AAACTTATAAATAATAT
1 TA-AA--ATTTATAACAAA-TTAT-AA-AATAT
* * *
99424879 AAAAATATCTAACAAATTATAAAAT
1 TAAAATTTATAACAAATTATAAAAT
99424904 TTATAAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
26 18 0.20
27 11 0.12
28 10 0.11
29 14 0.15
30 20 0.22
31 10 0.11
32 9 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (27 bp):
TAAAATTTATAACAAATTATAAAATAT
Found at i:99424823 original size:29 final size:28
Alignment explanation
Indices: 99424763--99424911 Score: 103
Period size: 29 Copynumber: 5.2 Consensus size: 28
99424753 TATTTTTCTC
*
99424763 ATAAAATTTATAACAAATTA-AAAA-TAT
1 ATAAAATTTATAA-AAATTATAAAATTTT
99424790 -TAAAATTTATAATAAATTATAAAATTTT
1 ATAAAATTTATAA-AAATTATAAAATTTT
*
99424818 ATAAAA-TTAGTAAAACATATTTAAAATTTT
1 ATAAAATTTA-TAAAA-AT-TATAAAATTTT
* * **
99424848 ATAATGACTTATAAAAACTTAT-AAATAAT
1 ATAA-AATTTATAAAAA-TTATAAAATTTT
* *
99424877 ATAAAAATATCTAACAAATTATAAAA-TTT
1 AT-AAAATTTATAA-AAATTATAAAATTTT
99424906 ATAAAA
1 ATAAAA
99424912 AAAGTCATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
26 18 0.19
27 4 0.04
28 11 0.11
29 29 0.30
30 25 0.26
31 7 0.07
32 3 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (28 bp):
ATAAAATTTATAAAAATTATAAAATTTT
Found at i:99424826 original size:18 final size:20
Alignment explanation
Indices: 99424790--99424832 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
99424780 TTAAAAATAT
99424790 TAAAATTTATAATAAATTA-
1 TAAAATTTATAATAAATTAG
99424809 TAAAATTT-T-ATAAAATTAG
1 TAAAATTTATAAT-AAATTAG
99424828 TAAAA
1 TAAAA
99424833 CATATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATTTATAATAAATTAG
Found at i:99424860 original size:50 final size:47
Alignment explanation
Indices: 99424781--99424912 Score: 133
Period size: 50 Copynumber: 2.7 Consensus size: 47
99424771 TATAACAAAT
**
99424781 TAAAAATATTAAAATTTATAATAAATTATAAAATTTTATAAAATTAG
1 TAAAAATATTAAAATTTATAATAAATTATAAAAACTTATAAAATTAG
* * *
99424828 TAAAACATATTTAAAATTTTATAATGACTTATAAAAACTTATAAATAATA-
1 TAAAA-ATA-TTAAAA-TTTATAATAAATTATAAAAACTTATAAA-ATTAG
* *
99424878 TAAAAATATCTAACAAATTATAA-AATTTATAAAAA
1 TAAAAATAT-TAA-AATTTATAATAAATTATAAAAA
99424913 AAGTCATTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
47 5 0.07
48 14 0.20
49 18 0.25
50 31 0.44
51 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (47 bp):
TAAAAATATTAAAATTTATAATAAATTATAAAAACTTATAAAATTAG
Found at i:99425692 original size:19 final size:20
Alignment explanation
Indices: 99425668--99425723 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
99425658 ATTAGAATTT
99425668 TTTATAAGTTTTTATAA-AA
1 TTTATAAGTTTTTATAATAA
* **
99425687 TTTATAAGCTTTTATGAATTT
1 TTTATAAGTTTTTAT-AATAA
99425708 TTTATAA-TTTTTATAA
1 TTTATAAGTTTTTATAA
99425724 GTTTATAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.52
20 8 0.26
21 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTATAAGTTTTTATAATAA
Found at i:99425827 original size:10 final size:10
Alignment explanation
Indices: 99425648--99425828 Score: 86
Period size: 10 Copynumber: 18.0 Consensus size: 10
99425638 ATTGGGATTA
99425648 TTTATAATTT
1 TTTATAATTT
* *
99425658 ATTAGAATTT
1 TTTATAATTT
*
99425668 TTTATAAGTT
1 TTTATAATTT
**
99425678 TTTATAA-AA
1 TTTATAATTT
**
99425687 TTTATAAGCT
1 TTTATAATTT
99425697 TTTATGAATTT
1 TTTAT-AATTT
99425708 TTTATAA-TT
1 TTTATAATTT
*
99425717 TTTATAAGTT
1 TTTATAATTT
* * **
99425727 TATAGAAAGT
1 TTTATAATTT
*
99425737 TTTA-AATAT
1 TTTATAATTT
99425746 TTTA-AATATGT
1 TTTATAAT-T-T
99425757 TTTAT-ATTAT
1 TTTATAATT-T
*
99425767 TTTATAATAT
1 TTTATAATTT
* *
99425777 ATTAGAATTT
1 TTTATAATTT
*
99425787 TTTATAA-TA
1 TTTATAATTT
*
99425796 TATATAAGTTTT
1 TTTATAA--TTT
*
99425808 TTTTTGAATTT
1 TTTAT-AATTT
99425819 TTTATAATTT
1 TTTATAATTT
99425829 ACAAGTTTAT
Statistics
Matches: 128, Mismatches: 32, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
9 33 0.26
10 65 0.51
11 24 0.19
12 4 0.03
13 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (10 bp):
TTTATAATTT
Found at i:99432237 original size:24 final size:23
Alignment explanation
Indices: 99432193--99432238 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
99432183 ATGCATAATC
*
99432193 TTATTAAACACTAATTTATGCAG
1 TTATTAAACACTAATTCATGCAG
99432216 TTATTAAA-ACTTAATGTCATGCA
1 TTATTAAACAC-TAAT-TCATGCA
99432239 ATCAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.60
24 6 0.30
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
TTATTAAACACTAATTCATGCAG
Found at i:99433843 original size:40 final size:40
Alignment explanation
Indices: 99433780--99433875 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
99433770 ATACCGACCA
* *
99433780 GAAGCCTACTAGGGCATTAAGCCCGACA-ATTACACCGGCAC
1 GAAGCCTGCTA-GGCATTAAGCCCGACAGA-TACACCAGCAC
* *
99433821 GAAGCCTGCTAGGCATTAAGCCCGATAGATACACCAGTAC
1 GAAGCCTGCTAGGCATTAAGCCCGACAGATACACCAGCAC
99433861 GAAGCCTGCTAGGCA
1 GAAGCCTGCTAGGCA
99433876 CAAGGCTCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 39 0.78
41 11 0.22
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (40 bp):
GAAGCCTGCTAGGCATTAAGCCCGACAGATACACCAGCAC
Found at i:99433917 original size:46 final size:46
Alignment explanation
Indices: 99433865--99433970 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 46
99433855 CAGTACGAAG
* *
99433865 CCTGCTAGGCACAAGGCTCGATACATTACAGTACACCGGCATAAAA
1 CCTGCTAGGCACAAGGCCCAATACATTACAGTACACCGGCATAAAA
* * * *
99433911 CCTGCTAGGCATAAGGCCCAATACATTACAGTACACTGGTATAAAG
1 CCTGCTAGGCACAAGGCCCAATACATTACAGTACACCGGCATAAAA
*
99433957 CCTGGTAGGCACAA
1 CCTGCTAGGCACAA
99433971 AGAGCTAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (46 bp):
CCTGCTAGGCACAAGGCCCAATACATTACAGTACACCGGCATAAAA
Found at i:99436316 original size:24 final size:24
Alignment explanation
Indices: 99436222--99436308 Score: 138
Period size: 24 Copynumber: 3.6 Consensus size: 24
99436212 GAAGCTTCAT
99436222 TGTTGTGGTCAAGCCACTCAATAA
1 TGTTGTGGTCAAGCCACTCAATAA
* *
99436246 TGTTGTGGACAAGCCACTCAATAG
1 TGTTGTGGTCAAGCCACTCAATAA
*
99436270 TGTTGTGGCCAAGCCACTCAATAA
1 TGTTGTGGTCAAGCCACTCAATAA
*
99436294 CGTTGTGGTCAAGCC
1 TGTTGTGGTCAAGCC
99436309 GCCTAATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
TGTTGTGGTCAAGCCACTCAATAA
Found at i:99438389 original size:25 final size:27
Alignment explanation
Indices: 99438352--99438404 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99438342 TCAAACATGC
99438352 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99438378 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99438404 A
1 A
99438405 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99439936 original size:26 final size:26
Alignment explanation
Indices: 99439887--99439993 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
99439877 TGAAATGCCC
*
99439887 ATCATGGAACA-TTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
99439912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
99439938 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
99439964 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
99439990 ATCA
1 ATCA
99439994 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 11 0.15
26 63 0.85
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:99441679 original size:43 final size:43
Alignment explanation
Indices: 99441631--99441722 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
99441621 ATTTATTTGA
* * *
99441631 AAAAACACCGCTAAA-AGTCATGACCTTTAGTAGCGCTTTTCCT
1 AAAAACACCGCTAAAGA-CCATGACCTTTAGCAGCACTTTTCCT
* * * *
99441674 AAAAACGCCTCTAAAGACCATGACCTTTAGCGGCACTTTTTCT
1 AAAAACACCGCTAAAGACCATGACCTTTAGCAGCACTTTTCCT
99441717 AAAAAC
1 AAAAAC
99441723 GCCACTATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
AAAAACACCGCTAAAGACCATGACCTTTAGCAGCACTTTTCCT
Found at i:99447220 original size:20 final size:20
Alignment explanation
Indices: 99447195--99447232 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99447185 CTAAAAACGC
*
99447195 CAGTATAGCTTAACTTTTCA
1 CAGTATAGCTTAAATTTTCA
*
99447215 CAGTATAGTTTAAATTTT
1 CAGTATAGCTTAAATTTT
99447233 TGTGGCGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
CAGTATAGCTTAAATTTTCA
Found at i:99448033 original size:15 final size:15
Alignment explanation
Indices: 99448010--99448060 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
99448000 ATACCCATGG
*
99448010 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
99448025 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
99448040 TCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
99448054 CCTTAAA
1 CCATAAA
99448061 TATTAAACTG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:99448404 original size:40 final size:40
Alignment explanation
Indices: 99448308--99448475 Score: 185
Period size: 41 Copynumber: 4.1 Consensus size: 40
99448298 GTTATATGAC
* * * * * *
99448308 TTTTAGCGTCGTTTTATCAAAAGCGTCGCTAATGCT-TCGAC
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCT-G-T
*
99448349 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGT
* * *
99448389 TTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCACTGT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTGT
* *
99448430 TTTTAGCGGCGTTTTACTAAAAACGCCGCTATTACTCTGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGT
99448470 GTTTTA
1 -TTTTA
99448476 CAATTTTTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 36 0.32
41 74 0.67
42 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGT
Found at i:99453274 original size:51 final size:51
Alignment explanation
Indices: 99453214--99453317 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
99453204 GATTGGATCA
99453214 AACCTTAGTTTTTTTTAAACCTTGAGTTTATATAAATATATATATATATAT
1 AACCTTAGTTTTTTTTAAACCTTGAGTTTATATAAATATATATATATATAT
99453265 AACCTTAGTTTTTTTTAAACCTTGAGTTTATATAAATATATATATATATAT
1 AACCTTAGTTTTTTTTAAACCTTGAGTTTATATAAATATATATATATATAT
99453316 AA
1 AA
99453318 ACTAAGGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (51 bp):
AACCTTAGTTTTTTTTAAACCTTGAGTTTATATAAATATATATATATATAT
Found at i:99453476 original size:24 final size:23
Alignment explanation
Indices: 99453439--99453489 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
99453429 TTTCTAGAAG
* *
99453439 ATTTAGTATTATTAGTATAATAT
1 ATTTAGGATTATTAGCATAATAT
99453462 ATTTAGGATTTATTAGCATAATAT
1 ATTTAGGA-TTATTAGCATAATAT
99453486 ATTT
1 ATTT
99453490 GACATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (23 bp):
ATTTAGGATTATTAGCATAATAT
Found at i:99453500 original size:24 final size:24
Alignment explanation
Indices: 99453439--99453501 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
99453429 TTTCTAGAAG
* *
99453439 ATTTAGTATT-ATTAGTATAATAT
1 ATTTAGCATTGATTAGCATAATAT
* *
99453462 ATTTAGGATTTATTAGCATAATAT
1 ATTTAGCATTGATTAGCATAATAT
99453486 ATTT-GACATTGATTAG
1 ATTTAG-CATTGATTAG
99453502 AATTAAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCATAATAT
Found at i:99461694 original size:47 final size:45
Alignment explanation
Indices: 99461627--99461891 Score: 212
Period size: 47 Copynumber: 5.7 Consensus size: 45
99461617 GTTGTTGGCT
*
99461627 AGTGTAAGACA-GTCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCC
* * * *
99461672 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGAGAGCC
* * *
99461720 AGTGTAAGACATGTCAGGGACATGCATCGGCCTCGATACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATG-AGAGCC
* * * * * * *
99461766 AGTGTAAGACATGTCTTGTACATGCATCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATATGAGAGCC
* *** * *
99461812 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATATGAGAGCC
99461859 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
99461892 ACCTTACCCA
Statistics
Matches: 181, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
45 10 0.06
46 59 0.33
47 81 0.45
48 30 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCC
Found at i:99466212 original size:15 final size:15
Alignment explanation
Indices: 99466192--99466226 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
99466182 TAGGAAGATA
*
99466192 TTATTTTATTTTTAT
1 TTATTTTATTTTAAT
99466207 TTATTTTATTTTAAT
1 TTATTTTATTTTAAT
99466222 TTATT
1 TTATT
99466227 AAATTACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTATTTTAAT
Found at i:99466368 original size:41 final size:40
Alignment explanation
Indices: 99466311--99466394 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 40
99466301 TACTTTTGTA
* *
99466311 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTCTCTT
1 TTCCTACTTCAATTTGGAATTGAATTATTATCTCTTCT-TT
* * *
99466352 TTCCTATTTCTATTTGGAATTGAATTATTATCTTTTCTTT
1 TTCCTACTTCAATTTGGAATTGAATTATTATCTCTTCTTT
99466392 TTC
1 TTC
99466395 AATTTGACGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 5 0.13
41 33 0.87
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (40 bp):
TTCCTACTTCAATTTGGAATTGAATTATTATCTCTTCTTT
Found at i:99483176 original size:28 final size:28
Alignment explanation
Indices: 99483145--99483198 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
99483135 TATGACCCGA
*
99483145 GTTAGTATACTGAAAGTGTAAAGTTTCG
1 GTTAGTATACTAAAAGTGTAAAGTTTCG
99483173 GTTAGTATACTAAAAGTGTAAAGTTT
1 GTTAGTATACTAAAAGTGTAAAGTTT
99483199 TGGTAGTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (28 bp):
GTTAGTATACTAAAAGTGTAAAGTTTCG
Found at i:99487384 original size:27 final size:27
Alignment explanation
Indices: 99487345--99487404 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
99487335 AAAAAGGTTC
* * *
99487345 TTCTTTCTTCAAGATATTATTCTCTAT
1 TTCTCTCTGCAAGATATTACTCTCTAT
99487372 TTCTCTCTGCAAGATATTACTCTCTAT
1 TTCTCTCTGCAAGATATTACTCTCTAT
99487399 TTCTCT
1 TTCTCT
99487405 TTCTTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.52
Consensus pattern (27 bp):
TTCTCTCTGCAAGATATTACTCTCTAT
Found at i:99489955 original size:12 final size:13
Alignment explanation
Indices: 99489938--99489970 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
99489928 GCAATTTAAA
99489938 TTTTATT-CTAAT
1 TTTTATTACTAAT
99489950 TTTTATTACTAAT
1 TTTTATTACTAAT
99489963 TCTTTATT
1 T-TTTATT
99489971 TTCCCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 6 0.32
14 6 0.32
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:99490801 original size:43 final size:43
Alignment explanation
Indices: 99490740--99490826 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
99490730 ACTCGAGATA
99490740 TGATTGATGCAGCCGCTGGAGGAACTATCAATAATAAGACACC
1 TGATTGATGCAGCCGCTGGAGGAACTATCAATAATAAGACACC
99490783 TGATTGATGCAGCCGCTGGAGGAACTATCAATAATAAGACACC
1 TGATTGATGCAGCCGCTGGAGGAACTATCAATAATAAGACACC
99490826 T
1 T
99490827 AAGACGGCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (43 bp):
TGATTGATGCAGCCGCTGGAGGAACTATCAATAATAAGACACC
Found at i:99502435 original size:110 final size:110
Alignment explanation
Indices: 99502312--99502511 Score: 287
Period size: 110 Copynumber: 1.8 Consensus size: 110
99502302 AAGATTGGAA
* * * * *
99502312 TGGCAGATTACGATACATGAAAGTGTGTGA-GTCCATGTGGCTAAGACCCACT-GTAAGATATGA
1 TGGCAGATCACGATACATGAAAATGTGT-ACGTCCATGTGGCTAAGA-CCAATGGCAAGATACGA
99502375 CTGCATGAATGTTCATGATGTAGCCTTTAATAGTGTGAACATTGAAC
64 CTGCATGAATGTTCATGATGTAGCCTTTAATAGTGTGAACATTGAAC
* *
99502422 TGGCAGATCACGATACATGAAAATGTGTACGTCCATGTGGCTGAGACCAATGGCAAGATACGATT
1 TGGCAGATCACGATACATGAAAATGTGTACGTCCATGTGGCTAAGACCAATGGCAAGATACGACT
* *
99502487 GTATGAATGTTCATGGTGTAGCCTT
66 GCATGAATGTTCATGATGTAGCCTT
99502512 CGATAATATG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
109 5 0.06
110 74 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (110 bp):
TGGCAGATCACGATACATGAAAATGTGTACGTCCATGTGGCTAAGACCAATGGCAAGATACGACT
GCATGAATGTTCATGATGTAGCCTTTAATAGTGTGAACATTGAAC
Found at i:99502540 original size:110 final size:110
Alignment explanation
Indices: 99502315--99502552 Score: 264
Period size: 110 Copynumber: 2.2 Consensus size: 110
99502305 ATTGGAATGG
* * * * *
99502315 CAGATTACGATACATGAAAGTGTGTGAGTCCATGTGGCTAAGACCCACTGTAAGATATGACTGCA
1 CAGATCACGATACATGAAAATGTGTGAGTCCATGTGGCTAAGACCCAATGCAAGATACGACTGCA
* * * * ***
99502380 TGAATGTTCATGATGTAGCCTTTAATAGTGTGAACATTGAACTGG
66 TGAATGTTCATGATGTAGCCTTCAATAATATGAACATAGAACAAA
* *
99502425 CAGATCACGATACATGAAAATGTGT-ACGTCCATGTGGCTGAGA-CCAATGGCAAGATACGATTG
1 CAGATCACGATACATGAAAATGTGTGA-GTCCATGTGGCTAAGACCCAAT-GCAAGATACGACTG
* * *
99502488 TATGAATGTTCATGGTGTAGCCTTCGATAATATGAACATAGAACAAA
64 CATGAATGTTCATGATGTAGCCTTCAATAATATGAACATAGAACAAA
* **
99502535 TAGATCATAATACATGAA
1 CAGATCACGATACATGAA
99502553 TTTATGTATA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
109 5 0.05
110 101 0.95
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (110 bp):
CAGATCACGATACATGAAAATGTGTGAGTCCATGTGGCTAAGACCCAATGCAAGATACGACTGCA
TGAATGTTCATGATGTAGCCTTCAATAATATGAACATAGAACAAA
Found at i:99502672 original size:23 final size:24
Alignment explanation
Indices: 99502625--99502673 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
99502615 TAAACACGTA
*
99502625 ATTTTGTATGTCGCCTTTGTAGCAT
1 ATTTTGTATG-CGCCCTTGTAGCAT
*
99502650 ATTTTGTATG-GCCCTTGTGGCAT
1 ATTTTGTATGCGCCCTTGTAGCAT
99502673 A
1 A
99502674 CTTTAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.45
Consensus pattern (24 bp):
ATTTTGTATGCGCCCTTGTAGCAT
Found at i:99516847 original size:28 final size:28
Alignment explanation
Indices: 99516810--99516873 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
99516800 CACATTTTTT
* *
99516810 CCCTTATTCCTTTTTCCTCTCTTTTTCA
1 CCCTTATTCCTTTCTCCTCTCTTTTGCA
*
99516838 CCCTTCTTCCTTTCTCCTCTCTTTTGCA
1 CCCTTATTCCTTTCTCCTCTCTTTTGCA
*
99516866 CCTTTATT
1 CCCTTATT
99516874 TATCGTCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.06, C:0.38, G:0.02, T:0.55
Consensus pattern (28 bp):
CCCTTATTCCTTTCTCCTCTCTTTTGCA
Found at i:99524044 original size:28 final size:28
Alignment explanation
Indices: 99523963--99524044 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
99523953 GGCTGCCAGA
* * *
99523963 ACAGATAAT-GTGACAGAGTCACCAGAT
1 ACAGATAATCGTGGCAGAGCCACCAGGT
99523990 ACAGATAATCGTGGCAGAGCCACCAGGT
1 ACAGATAATCGTGGCAGAGCCACCAGGT
* *
99524018 -CAGATAATTTGTGGCATAGCCACCAGG
1 ACAGATAA-TCGTGGCAGAGCCACCAGG
99524045 ACGCTTCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 16 0.33
28 32 0.67
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (28 bp):
ACAGATAATCGTGGCAGAGCCACCAGGT
Found at i:99531776 original size:27 final size:26
Alignment explanation
Indices: 99531741--99531835 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 26
99531731 AGCATGGCTG
* *
99531741 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
99531767 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
99531795 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
99531822 CCAGATCAGATAAT
1 CCAGAACAGATAAT
99531836 TTGTGGCTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.11
27 39 0.62
28 17 0.27
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:99538207 original size:27 final size:27
Alignment explanation
Indices: 99538169--99538222 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
99538159 ACTTCAACCA
*
99538169 AATTAACATTTTACTTAGAAAAATTAT
1 AATTAACATTTTACTCAGAAAAATTAT
*
99538196 AATTGACATTTTACTCAGAAAAATTAT
1 AATTAACATTTTACTCAGAAAAATTAT
99538223 CATTTCTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (27 bp):
AATTAACATTTTACTCAGAAAAATTAT
Found at i:99543760 original size:23 final size:23
Alignment explanation
Indices: 99543709--99543763 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
99543699 ACAAGTGAAT
*
99543709 TAATTAAAAATTGAATTTAAAGC
1 TAATTCAAAATTGAATTTAAAGC
99543732 TAATTCAAAATTGAATTTAAAGC
1 TAATTCAAAATTGAATTTAAAGC
99543755 TAATTCAAA
1 TAATTCAAA
99543764 TTGGGTCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (23 bp):
TAATTCAAAATTGAATTTAAAGC
Found at i:99550985 original size:34 final size:34
Alignment explanation
Indices: 99550942--99551006 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
99550932 AAAGAGTGAA
99550942 GGAAGAAGAAAGGAGTTTGTCCAAGCATTGGTTG
1 GGAAGAAGAAAGGAGTTTGTCCAAGCATTGGTTG
99550976 GGAAGAAGAAAGGAGTTTGTCCAAGCATTGG
1 GGAAGAAGAAAGGAGTTTGTCCAAGCATTGG
99551007 ATGAAAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.35, T:0.22
Consensus pattern (34 bp):
GGAAGAAGAAAGGAGTTTGTCCAAGCATTGGTTG
Found at i:99553384 original size:23 final size:23
Alignment explanation
Indices: 99553353--99553430 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
99553343 TCGTAAGAGT
* *
99553353 TTACTGTTTCAGCTCACTGGAGC
1 TTACCGTTTCAGCTCAATGGAGC
*
99553376 TTACCGTTTCAGCTCATTGGAGC
1 TTACCGTTTCAGCTCAATGGAGC
* *
99553399 TTACTGTTT-AGCTCAATAGAGC
1 TTACCGTTTCAGCTCAATGGAGC
*
99553421 TTACCATTTC
1 TTACCGTTTC
99553431 TGTAATGCGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 18 0.38
23 29 0.62
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (23 bp):
TTACCGTTTCAGCTCAATGGAGC
Found at i:99554004 original size:5 final size:5
Alignment explanation
Indices: 99553994--99554035 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
99553984 AAAAAATTGT
99553994 TATTA TATTA TATTA TATTA TATTA TA-TA T-TATA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA TATTA TAT
99554036 AAATAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.09
5 30 0.88
6 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:99554024 original size:7 final size:7
Alignment explanation
Indices: 99553997--99554036 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
99553987 AAATTGTTAT
99553997 TATATTA
1 TATATTA
99554004 TAT-TATA
1 TATAT-TA
99554011 TTATATTA
1 -TATATTA
99554019 TATATTA
1 TATATTA
99554026 TATATTA
1 TATATTA
99554033 TATA
1 TATA
99554037 AATAAGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 23 0.77
8 5 0.17
9 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:99554510 original size:24 final size:20
Alignment explanation
Indices: 99554484--99554524 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
99554474 AAGATATAAA
99554484 AGTAAGTGAATTTAGTTAGG
1 AGTAAGTGAATTTAGTTAGG
99554504 AGTAAGTGAATTTAGTTAGG
1 AGTAAGTGAATTTAGTTAGG
99554524 A
1 A
99554525 TTAAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (20 bp):
AGTAAGTGAATTTAGTTAGG
Found at i:99555245 original size:20 final size:19
Alignment explanation
Indices: 99555220--99555257 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
99555210 TCTATAATCC
99555220 GAATTTAATATTTAATTATT
1 GAATTTAATATTT-ATTATT
*
99555240 GAATTTATTATTTATTAT
1 GAATTTAATATTTATTAT
99555258 GTATGGTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
GAATTTAATATTTATTATT
Found at i:99555814 original size:12 final size:12
Alignment explanation
Indices: 99555797--99555821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99555787 GCCGACTACT
99555797 GTTACTGTTACC
1 GTTACTGTTACC
99555809 GTTACTGTTACC
1 GTTACTGTTACC
99555821 G
1 G
99555822 ATTTGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:99555849 original size:45 final size:45
Alignment explanation
Indices: 99555799--99555909 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
99555789 CGACTACTGT
* **
99555799 TACTGTTACCGTTACTGTTACCGATTTGGCACTTTGTGTGTCT-AA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGT-TGAA
* *
99555844 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTTGAA
99555889 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
99555910 TGTTACTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTTGAA
Found at i:99555900 original size:6 final size:6
Alignment explanation
Indices: 99555889--99555919 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
99555879 GTGTGTTGAA
99555889 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
99555920 CCGGATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:99556106 original size:18 final size:18
Alignment explanation
Indices: 99556083--99556285 Score: 142
Period size: 18 Copynumber: 11.3 Consensus size: 18
99556073 AAAGGTATAA
* *
99556083 AATAATTGATTATTACTG
1 AATAATTGACTGTTACTG
*
99556101 AATAATTGACTGTTACCG
1 AATAATTGACTGTTACTG
99556119 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
* * *
99556137 GATAATAGACTGTTACCG
1 AATAATTGACTGTTACTG
* * *
99556155 AATAACTGAATATTACTG
1 AATAATTGACTGTTACTG
*
99556173 AATAATTGA-TCATTACTG
1 AATAATTGACT-GTTACTG
* * * * *
99556191 AATAACTAATTGTCATTG
1 AATAATTGACTGTTACTG
* *
99556209 AATAAATGACTATTACTG
1 AATAATTGACTGTTACTG
* * * *
99556227 AATAACTTAATTGCTATTG
1 AATAA-TTGACTGTTACTG
* *
99556246 AAT-ATCTGA-TTTTACTA
1 AATAAT-TGACTGTTACTG
99556263 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
99556281 GATAA
1 AATAA
99556286 CCGATCAATT
Statistics
Matches: 140, Mismatches: 39, Indels: 12
0.73 0.20 0.06
Matches are distributed among these distances:
17 12 0.09
18 117 0.84
19 11 0.08
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:99556340 original size:18 final size:18
Alignment explanation
Indices: 99556305--99556365 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
99556295 TGATCGATAC
* *
99556305 TGAATAACTGGTTATTAT
1 TGAATAACTGATTGTTAT
*
99556323 TGAATAATTGATTGTTAT
1 TGAATAACTGATTGTTAT
* * * *
99556341 CGAATAAGTGACTGTTAC
1 TGAATAACTGATTGTTAT
99556359 TGAATAA
1 TGAATAA
99556366 ATAATTGTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:99559344 original size:22 final size:21
Alignment explanation
Indices: 99559314--99559360 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
99559304 TACAAATTAA
99559314 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
99559336 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
99559357 ATCT
1 ATCT
99559361 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:99559366 original size:19 final size:19
Alignment explanation
Indices: 99559331--99559409 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
99559321 AGATTACAAG
99559331 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
99559352 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
99559369 ATCATACCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99559388 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
99559407 ATC
1 ATC
99559410 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:99559418 original size:36 final size:35
Alignment explanation
Indices: 99559333--99559419 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
99559323 ATTACAAGAT
99559333 CATAT-CTTCAAGATTGCATATCATATCTAAGATTG
1 CATATCCTT-AAGATTGCATATCATATCTAAGATTG
*
99559368 TATCATACC-TAAGATTGCATATCATATCTAAGATTG
1 CAT-AT-CCTTAAGATTGCATATCATATCTAAGATTG
99559404 CATATCCTTAAAGATT
1 CATATCCTT-AAGATT
99559420 ATATTTCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 2 0.04
35 5 0.11
36 36 0.80
37 1 0.02
38 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (35 bp):
CATATCCTTAAGATTGCATATCATATCTAAGATTG
Found at i:99562673 original size:5 final size:5
Alignment explanation
Indices: 99562624--99562666 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
99562614 AAGAAATTGT
99562624 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
99562667 ATTATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:99564443 original size:45 final size:45
Alignment explanation
Indices: 99564391--99564501 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
99564381 CGACTACTAT
** * *
99564391 TACTGTTACCATTACTGTTACCGATT-TGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAG-CACTTTGTGCGTCGAA
* * * *
99564436 TGCTGTTACTGTTACAGTTATCGATTCAGCACTTTGTGCGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGCGTCGAA
99564481 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
99564502 TGTTCCAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGCGTCGAA
Found at i:99564492 original size:6 final size:6
Alignment explanation
Indices: 99564481--99564505 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99564471 GTGCGTTGAA
99564481 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
99564506 CCAAATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:99564708 original size:18 final size:18
Alignment explanation
Indices: 99564687--99564877 Score: 145
Period size: 18 Copynumber: 10.6 Consensus size: 18
99564677 TAACTGATTA
99564687 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
99564705 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
99564723 TTACTGGATAATAGACTG
1 TTACTGAATAATTGACTG
* * *
99564741 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
99564759 TTACTCAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
99564777 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* * * *
99564795 TCACTGAATAAATAATTG
1 TTACTGAATAATTGACTG
* * *
99564813 TTACTAAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
99564832 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
99564849 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
*
99564867 TTACTGGATAA
1 TTACTGAATAA
99564878 CCGATCAATT
Statistics
Matches: 138, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
17 13 0.09
18 111 0.80
19 14 0.10
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:99564966 original size:18 final size:18
Alignment explanation
Indices: 99564675--99564970 Score: 121
Period size: 18 Copynumber: 16.1 Consensus size: 18
99564665 AAAGGTATAA
* *
99564675 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* * *
99564693 AATAATTGACTGTTACCG
1 AATAAATGATTGTTACTG
* *
99564711 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
99564729 GAT-AATAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * * *
99564747 AATAACTGAATATTACTC
1 AATAAATGATTGTTACTG
* **
99564765 AATAATTGATCATTACTG
1 AATAAATGATTGTTACTG
* *
99564783 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
* *
99564801 AATAAATAATTGTTACTA
1 AATAAATGATTGTTACTG
* * *
99564819 AATAACTTAATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
99564838 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* *
99564855 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
99564873 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * * *
99564899 AATGACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
99564917 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
99564935 AATAAGTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
99564953 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
99564970 A
1 A
99564971 TTGTTAATAA
Statistics
Matches: 207, Mismatches: 59, Indels: 25
0.71 0.20 0.09
Matches are distributed among these distances:
17 18 0.09
18 156 0.75
19 16 0.08
21 2 0.01
22 5 0.02
23 2 0.01
26 8 0.04
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:99567862 original size:20 final size:19
Alignment explanation
Indices: 99567830--99567867 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
99567820 CGTATACGTG
99567830 GTATTTTTGAAAAACATTT
1 GTATTTTTGAAAAACATTT
99567849 GTATTTTTGAAAAACATTT
1 GTATTTTTGAAAAACATTT
99567868 ATCTTTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
GTATTTTTGAAAAACATTT
Found at i:99567878 original size:18 final size:19
Alignment explanation
Indices: 99567830--99567879 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
99567820 CGTATACGTG
*
99567830 GTATTTTTGAAAAACATTT
1 GTATTTTCGAAAAACATTT
*
99567849 GTATTTTTGAAAAACA-TT
1 GTATTTTCGAAAAACATTT
99567867 -TATCTTTCGAAAA
1 GTAT-TTTCGAAAA
99567880 CCCGTGCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 3 0.10
18 10 0.34
19 16 0.55
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (19 bp):
GTATTTTCGAAAAACATTT
Found at i:99569511 original size:27 final size:27
Alignment explanation
Indices: 99569481--99569545 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
99569471 ATTACCAAAG
* * *
99569481 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
99569508 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
99569535 TACCCTCGATT
1 TACCCTCGATT
99569546 GTGAAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:99569669 original size:27 final size:26
Alignment explanation
Indices: 99569577--99569755 Score: 153
Period size: 27 Copynumber: 6.7 Consensus size: 26
99569567 TGTAGGATAG
* * **
99569577 AATTACCAAAACACCCCTATTTTACAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
99569604 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
99569631 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
** * *
99569658 AATTACTGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* * * *
99569685 AATTATCGAAATACCTTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
* **
99569712 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
99569739 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
99569756 CGACTTTCTA
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
26 9 0.07
27 116 0.91
28 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:99569688 original size:81 final size:81
Alignment explanation
Indices: 99569603--99569753 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
99569593 CTATTTTACA
* * * ** *
99569603 AAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAATTACTGA
1 AAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGA
99569667 AATACCACTGGTTTGTG
65 AATACCACTGGTTTGTG
* * *
99569684 AAATTATCGAAATACCTTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
99569749 ATACC
66 ATACC
99569754 CTCGACTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 59 0.98
82 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
ATACCACTGGTTTGTG
Found at i:99569805 original size:27 final size:27
Alignment explanation
Indices: 99569766--99569817 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
99569756 CGACTTTCTA
99569766 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
99569793 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
99569818 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:99570776 original size:25 final size:25
Alignment explanation
Indices: 99570743--99570812 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
99570733 AAGGAGTGCT
* *
99570743 AAAAGGGCTCTACCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
**
99570768 AAAAGGGCTTTGCCCCAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
99570793 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
99570813 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:99570825 original size:24 final size:23
Alignment explanation
Indices: 99570768--99570839 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 23
99570758 CAGTTTACCA
99570768 AAAAGGGCTTTGCCCCAGTTTATT
1 AAAAGGGCTTTGCCCCAG-TTATT
99570792 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATT
**
99570816 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
99570840 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 4 0.09
24 14 0.33
25 25 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:99571019 original size:42 final size:42
Alignment explanation
Indices: 99570960--99571051 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
99570950 TAGTCTCCCC
* **
99570960 AAATGGGCTTGCATACATTTATTGACATTACATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
*
99571002 AAATGGGCTTACATACATCCATTGGCATTACATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
99571044 AAATGGGC
1 AAATGGGC
99571052 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
Found at i:99571110 original size:31 final size:31
Alignment explanation
Indices: 99571075--99571220 Score: 251
Period size: 31 Copynumber: 4.7 Consensus size: 31
99571065 CGTTTACAGT
99571075 AAAGGCTTCGGCCCAGTGATAT-AGTTTATGA
1 AAAGGCTTCGGCCCAGTGATATGA-TTTATGA
*
99571106 AAAGGCTTCGGCCCAGTGATATGGTTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
99571137 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
99571168 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
99571199 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
99571221 TCAAGACTAA
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:99573539 original size:27 final size:27
Alignment explanation
Indices: 99573509--99573600 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
99573499 ATTACCAAAG
* *
99573509 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
99573536 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* **
99573563 TACACTC-AGTTTGCAAAATTACCGTTT
1 TACCCTCGA-TTTATAAAATTACCGTTT
99573590 TACCCTCGATT
1 TACCCTCGATT
99573601 GTGAAATTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:99573725 original size:81 final size:81
Alignment explanation
Indices: 99573632--99573809 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 81
99573622 TGTAGGATAG
* *
99573632 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAA
1 AATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAA
* * **
99573696 ATATCCCTAGTTTGTAA
65 ATACCCCTAATTTACAA
* * * *
99573713 AATTACCGAAATACCACTGGTTTGTGAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAA
1 AATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
99573778 TACCCCTAATTTACAA
66 TACCCCTAATTTACAA
* *
99573794 AATTGCAGAAATACCC
1 AATTACCGAAATACCC
99573810 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
TACCCCTAATTTACAA
Found at i:99573797 original size:27 final size:27
Alignment explanation
Indices: 99573632--99573785 Score: 229
Period size: 27 Copynumber: 5.7 Consensus size: 27
99573622 TGTAGGATAG
99573632 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
99573659 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
99573686 AATTACCAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
99573713 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
99573740 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
99573767 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
99573786 ATTTACAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.03
27 105 0.94
28 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:99573806 original size:54 final size:52
Alignment explanation
Indices: 99573632--99573810 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 52
99573622 TGTAGGATAG
*
99573632 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTA-CAAAATA-CCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
* * * * *
99573686 AATTACCAAAATATCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTGA
1 AATTA-CAAAATA-CCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
* **
99573740 AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTAC-AAAATACCCT-AATTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
*
99573794 AATTGCAGAAATACCCT
1 AATTACA-AAATACCCT
99573811 TGACTTTCTA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.06
54 102 0.94
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (52 bp):
AATTACAAAATACCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:99573860 original size:27 final size:27
Alignment explanation
Indices: 99573821--99573872 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
99573811 TGACTTTCTA
99573821 AAAATTATAGAAATACTATTGGTTTAC
1 AAAATTATAGAAATACTATTGGTTTAC
*
99573848 AAAATTACT-GAAATACTCTTGGTTT
1 AAAATTA-TAGAAATACTATTGGTTT
99573873 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTATAGAAATACTATTGGTTTAC
Found at i:99574833 original size:25 final size:25
Alignment explanation
Indices: 99574800--99574869 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
99574790 AAGGAGTGCT
* *
99574800 AAAAGGGCTCTACCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
**
99574825 AAAAGGGCTTTGCCCCAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
99574850 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
99574870 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:99574882 original size:24 final size:23
Alignment explanation
Indices: 99574825--99574896 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 23
99574815 CAGTTTACCA
99574825 AAAAGGGCTTTGCCCCAGTTTATT
1 AAAAGGGCTTTGCCCCAG-TTATT
99574849 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATT
**
99574873 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
99574897 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 4 0.09
24 14 0.33
25 25 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:99575076 original size:42 final size:42
Alignment explanation
Indices: 99575017--99575150 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
99575007 TAGTCTCCCC
99575017 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
99575059 AAATGGGCTTGCATACATTCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
99575101 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
99575143 AAATGGGC
1 AAATGGGC
99575151 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Done.