Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 121 of 163
Found at i:38945625 original size:25 final size:25
Alignment explanation
Indices: 38945597--38945658 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
38945587 ATATCAAGAA
* *
38945597 GCTCTTGAGAGCCATATAACGGGAT
1 GCTCTTGAGAGCCAAATAACGGGAC
* * * *
38945622 GCTCATAAGAGCTAAATAATGGGAC
1 GCTCTTGAGAGCCAAATAACGGGAC
*
38945647 GCTCTTGCGAGC
1 GCTCTTGAGAGC
38945659 TGTGGTGTGT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (25 bp):
GCTCTTGAGAGCCAAATAACGGGAC
Found at i:38945848 original size:21 final size:22
Alignment explanation
Indices: 38945810--38945851 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38945800 TATACATTTG
* *
38945810 ACATATATATCATTCAATTTAA
1 ACATATAAATCATACAATTTAA
38945832 ACATATAAAT-ATACAATTTA
1 ACATATAAATCATACAATTTA
38945852 GTTACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
ACATATAAATCATACAATTTAA
Found at i:38947552 original size:17 final size:18
Alignment explanation
Indices: 38947532--38947565 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38947522 GAATTACCTA
38947532 AATTAAAGTATT-AATCG
1 AATTAAAGTATTGAATCG
38947549 AATTAAAGTATTGAATC
1 AATTAAAGTATTGAATC
38947566 ACTACATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (18 bp):
AATTAAAGTATTGAATCG
Found at i:38955862 original size:18 final size:18
Alignment explanation
Indices: 38955839--38955885 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
38955829 ATTTTAAATG
38955839 ATATTTTTATTACTAATA
1 ATATTTTTATTACTAATA
* * *
38955857 ATATTTTAATAAGTAATA
1 ATATTTTTATTACTAATA
*
38955875 AGA-TTTTATTA
1 ATATTTTTATTA
38955886 ATTGATATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
ATATTTTTATTACTAATA
Found at i:38965088 original size:12 final size:12
Alignment explanation
Indices: 38965071--38965099 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
38965061 TCAACAACTT
38965071 TACTTACCTTGA
1 TACTTACCTTGA
38965083 TACTTACCTTGA
1 TACTTACCTTGA
38965095 TACTT
1 TACTT
38965100 TAAATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (12 bp):
TACTTACCTTGA
Found at i:38967092 original size:34 final size:34
Alignment explanation
Indices: 38967049--38967114 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
38967039 CATGGTGATT
38967049 CCTTTAAAAATACTTTATCACCAACATTGTATCA
1 CCTTTAAAAATACTTTATCACCAACATTGTATCA
38967083 CCTTTAAAAATACTTTATCACCAACATTGTAT
1 CCTTTAAAAATACTTTATCACCAACATTGTAT
38967115 TCAACATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (34 bp):
CCTTTAAAAATACTTTATCACCAACATTGTATCA
Found at i:38969673 original size:38 final size:38
Alignment explanation
Indices: 38969622--38969697 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
38969612 CTCGAATGAA
38969622 TGATAACCCATGCTTATACGCTATTTGACATGGATTTG
1 TGATAACCCATGCTTATACGCTATTTGACATGGATTTG
38969660 TGATAACCCATGCTTATACGCTATTTGACATGGATTTG
1 TGATAACCCATGCTTATACGCTATTTGACATGGATTTG
38969698 ATAATGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (38 bp):
TGATAACCCATGCTTATACGCTATTTGACATGGATTTG
Found at i:38972079 original size:16 final size:16
Alignment explanation
Indices: 38972058--38972091 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
38972048 GGATGAACCG
38972058 ATGAAAAAGGTAGAAA
1 ATGAAAAAGGTAGAAA
*
38972074 ATGAAATAGGTAGAAA
1 ATGAAAAAGGTAGAAA
38972090 AT
1 AT
38972092 AATGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (16 bp):
ATGAAAAAGGTAGAAA
Found at i:38972177 original size:2 final size:2
Alignment explanation
Indices: 38972172--38972208 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38972162 AAAAAGAAAA
38972172 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
38972209 AAGAAGGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38972276 original size:71 final size:71
Alignment explanation
Indices: 38972187--38972333 Score: 294
Period size: 71 Copynumber: 2.1 Consensus size: 71
38972177 GAGAGAGAGA
38972187 GAGAGAGAGAGAGAGAGAGAGAAAGAAGGAAGAGACCAAAGAGGGGAAAGAAATCTAAGAGATAG
1 GAGAGAGAGAGAGAGAGAGAGAAAGAAGGAAGAGACCAAAGAGGGGAAAGAAATCTAAGAGATAG
38972252 AAACTG
66 AAACTG
38972258 GAGAGAGAGAGAGAGAGAGAGAAAGAAGGAAGAGACCAAAGAGGGGAAAGAAATCTAAGAGATAG
1 GAGAGAGAGAGAGAGAGAGAGAAAGAAGGAAGAGACCAAAGAGGGGAAAGAAATCTAAGAGATAG
38972323 AAACTG
66 AAACTG
38972329 GAGAG
1 GAGAG
38972334 TTTCTATTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.52, C:0.05, G:0.37, T:0.05
Consensus pattern (71 bp):
GAGAGAGAGAGAGAGAGAGAGAAAGAAGGAAGAGACCAAAGAGGGGAAAGAAATCTAAGAGATAG
AAACTG
Found at i:38973951 original size:16 final size:16
Alignment explanation
Indices: 38973927--38973964 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38973917 TTTGGTTCGC
* *
38973927 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
38973943 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
38973959 TGTAAT
1 TGTAAT
38973965 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:38974170 original size:16 final size:16
Alignment explanation
Indices: 38974133--38974174 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38974123 TTAATCATAT
*
38974133 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38974149 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38974164 TTAAAATATAT
1 TTAAAATATAT
38974175 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38974181 original size:14 final size:15
Alignment explanation
Indices: 38974142--38974183 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38974132 TTTAAACATA
*
38974142 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38974157 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38974171 A-TATAATTTAATA
1 ATTATAATTAAATA
38974184 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38974395 original size:24 final size:25
Alignment explanation
Indices: 38974349--38974396 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38974339 TATGAATTTG
38974349 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
38974375 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
38974397 AATTAGCAAC
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:38974449 original size:20 final size:20
Alignment explanation
Indices: 38974424--38974463 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38974414 AAATTTACTT
38974424 AACAACATAATGAATTAGGG
1 AACAACATAATGAATTAGGG
38974444 AACAACATAATGAATTAGGG
1 AACAACATAATGAATTAGGG
38974464 TTTTTCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (20 bp):
AACAACATAATGAATTAGGG
Found at i:38977451 original size:17 final size:18
Alignment explanation
Indices: 38977431--38977464 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38977421 ACAATTTCTA
*
38977431 TTAAAT-TATAATTATTT
1 TTAAATGTATAAATATTT
38977448 TTAAATGTATAAATATT
1 TTAAATGTATAAATATT
38977465 ACACCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAAATGTATAAATATTT
Found at i:38978514 original size:18 final size:17
Alignment explanation
Indices: 38978474--38978518 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
38978464 TCATGATATT
38978474 ATATAAAATACATTTAC
1 ATATAAAATACATTTAC
* *
38978491 ACTATACAAATACTTTTGC
1 A-TATA-AAATACATTTAC
38978510 ATATAAAAT
1 ATATAAAAT
38978519 TTAAAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAAAATACATTTAC
Found at i:38980483 original size:34 final size:34
Alignment explanation
Indices: 38980406--38980517 Score: 116
Period size: 34 Copynumber: 3.3 Consensus size: 34
38980396 AACCAGCTAG
* * ** * *
38980406 CACACTAAATGCTCGTATGAGCCAATTTATCTAG
1 CACACCAAATGCTCGTATGAGTCAATCCATCCAA
38980440 CACACCAAATGCTCGTATGAGTCAATCCATCCAA
1 CACACCAAATGCTCGTATGAGTCAATCCATCCAA
* * * * * *
38980474 CACATCAAATGTTCGTATCAATAAATCCATCCAT
1 CACACCAAATGCTCGTATGAGTCAATCCATCCAA
38980508 CACACCAAAT
1 CACACCAAAT
38980518 AACACTATAA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.25
Consensus pattern (34 bp):
CACACCAAATGCTCGTATGAGTCAATCCATCCAA
Found at i:38984207 original size:6 final size:6
Alignment explanation
Indices: 38984196--38984223 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38984186 CACGTAAAGA
38984196 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
38984224 GTTAAAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:38991008 original size:17 final size:16
Alignment explanation
Indices: 38990975--38991020 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
38990965 ACATACATTT
38990975 ATTTTTATA-ATTTATA
1 ATTTTTATATA-TTATA
*
38990991 ATTTCTTTTATATTATA
1 ATTT-TTATATATTATA
38991008 ATTTTTATATATT
1 ATTTTTATATATT
38991021 TTTCTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 12 0.46
17 13 0.50
18 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTATATATTATA
Found at i:38996088 original size:25 final size:25
Alignment explanation
Indices: 38996050--38996097 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38996040 CAAGCGAGCC
38996050 ATATCAGGAAGCTCATAAAGAGCAT
1 ATATCAGGAAGCTCATAAAGAGCAT
* *
38996075 ATATCGGGATGCTCATAAAGAGC
1 ATATCAGGAAGCTCATAAAGAGC
38996098 TGCGGTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.21
Consensus pattern (25 bp):
ATATCAGGAAGCTCATAAAGAGCAT
Found at i:39001141 original size:34 final size:34
Alignment explanation
Indices: 39001077--39001141 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
39001067 AGAAATAAAC
*
39001077 AAATTTAAAAATAAAAAAGAAAACACTAAAAGAA
1 AAATTTAAAAATAAAAAAGAAAACAATAAAAGAA
* * *
39001111 AAATTTGAAAATAATAAATAAATA-AATAAAA
1 AAATTTAAAAATAAAAAAGAAA-ACAATAAAA
39001142 AAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 25 0.96
35 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (34 bp):
AAATTTAAAAATAAAAAAGAAAACAATAAAAGAA
Found at i:39002153 original size:22 final size:23
Alignment explanation
Indices: 39002114--39002161 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
39002104 TATTTCTACA
**
39002114 TAAAAATCCAGATTTTTTTC-TTG
1 TAAAAATCCAGA-AATTTTCATTG
39002137 TAAAAATCCA-AAATTTTCATTG
1 TAAAAATCCAGAAATTTTCATTG
39002159 TAA
1 TAA
39002162 TACCATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 7 0.32
23 10 0.45
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAAAATCCAGAAATTTTCATTG
Found at i:39009189 original size:46 final size:46
Alignment explanation
Indices: 39009137--39009231 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
39009127 AGCCATGTCG
39009137 AGATAAAACTGACTAACTGATAACCAACAAACCAATGTGTAGCTGA
1 AGATAAAACTGACTAACTGATAACCAACAAACCAATGTGTAGCTGA
39009183 AGATAAAACTGACTAACTGATAACCAACAAACCAATGTGTAGCTGA
1 AGATAAAACTGACTAACTGATAACCAACAAACCAATGTGTAGCTGA
39009229 AGA
1 AGA
39009232 AAATCCAACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (46 bp):
AGATAAAACTGACTAACTGATAACCAACAAACCAATGTGTAGCTGA
Found at i:39016468 original size:13 final size:13
Alignment explanation
Indices: 39016452--39016477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39016442 CTTTGCATAT
39016452 TGTCTTCAACAGG
1 TGTCTTCAACAGG
39016465 TGTCTTCAACAGG
1 TGTCTTCAACAGG
39016478 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:39020906 original size:18 final size:18
Alignment explanation
Indices: 39020883--39020925 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
39020873 ACCCAATCTA
**
39020883 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
39020901 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
39020919 AACCCAA
1 AACCCAA
39020926 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:39021068 original size:27 final size:27
Alignment explanation
Indices: 39021033--39021162 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
39021023 GTAGTGATTC
* *
39021033 AATTTGGTTAATTTGGTTAATTCGGGT
1 AATTCGGTTAATTTGGTTAATTCGAGT
*
39021060 AATTCGGTTAATTTGGTTAATTCGTGT
1 AATTCGGTTAATTTGGTTAATTCGAGT
* *
39021087 AATTCGGTTAATTCGGGTAATTCGAGT
1 AATTCGGTTAATTTGGTTAATTCGAGT
* * *
39021114 AATTCGGTTAATTCGGGTAATTCGATT
1 AATTCGGTTAATTTGGTTAATTCGAGT
39021141 AATTCGGTTAATTTGGTTAATT
1 AATTCGGTTAATTTGGTTAATT
39021163 TTTAACCAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.45
Consensus pattern (27 bp):
AATTCGGTTAATTTGGTTAATTCGAGT
Found at i:39021163 original size:9 final size:9
Alignment explanation
Indices: 39021033--39021162 Score: 156
Period size: 9 Copynumber: 14.4 Consensus size: 9
39021023 GTAGTGATTC
*
39021033 AATTTGGTT
1 AATTCGGTT
*
39021042 AATTTGGTT
1 AATTCGGTT
*
39021051 AATTCGGGT
1 AATTCGGTT
39021060 AATTCGGTT
1 AATTCGGTT
*
39021069 AATTTGGTT
1 AATTCGGTT
39021078 AATTC-GTGT
1 AATTCGGT-T
39021087 AATTCGGTT
1 AATTCGGTT
*
39021096 AATTCGGGT
1 AATTCGGTT
39021105 AATTCGAG-T
1 AATTCG-GTT
39021114 AATTCGGTT
1 AATTCGGTT
*
39021123 AATTCGGGT
1 AATTCGGTT
*
39021132 AATTCGATT
1 AATTCGGTT
39021141 AATTCGGTT
1 AATTCGGTT
*
39021150 AATTTGGTT
1 AATTCGGTT
39021159 AATT
1 AATT
39021163 TTTAACCAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
8 3 0.03
9 100 0.94
10 3 0.03
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:39024417 original size:25 final size:26
Alignment explanation
Indices: 39024383--39024436 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
39024373 ATTTTACCAC
* *
39024383 TTATTTATATA-TATTACATGATTTT
1 TTATTAATATATTATTACATAATTTT
*
39024408 TTATTAATATATTTTTACATAATTTT
1 TTATTAATATATTATTACATAATTTT
39024434 TTA
1 TTA
39024437 CCTATGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTAATATATTATTACATAATTTT
Found at i:39025732 original size:21 final size:22
Alignment explanation
Indices: 39025706--39025748 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
39025696 ACACCTGCTT
39025706 ATGTCATGAGA-TAGAACTTTA
1 ATGTCATGAGACTAGAACTTTA
*
39025727 ATGTCATGGGACTAGAACTTTA
1 ATGTCATGAGACTAGAACTTTA
39025749 GTCTAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (22 bp):
ATGTCATGAGACTAGAACTTTA
Found at i:39027363 original size:21 final size:20
Alignment explanation
Indices: 39027321--39027363 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
39027311 TCATTTGCAG
* *
39027321 CATCAATCATGCGTTAATGC
1 CATCAATCATGCGTCAAAGC
*
39027341 CATCAATTATTGCGTCAAAGC
1 CATCAATCA-TGCGTCAAAGC
39027362 CA
1 CA
39027364 GCAAACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
CATCAATCATGCGTCAAAGC
Found at i:39028155 original size:75 final size:75
Alignment explanation
Indices: 39028032--39028325 Score: 401
Period size: 75 Copynumber: 3.9 Consensus size: 75
39028022 TCAGCAAGAC
* * *
39028032 CAAGCTTCTCAAAATGGAGCTAATGGTGCCTCTTTTCCCTACAATTGGTTTCAAGAAGATCATAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
39028097 AAATGATCAG
66 AAATGATCAG
* * *
39028107 CAAGCTTCTCGAAATGGAGCCAATGGTTCCTCTTTTACCAACAGTTGGTTTCAAGAAGATCATCA
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCAT-A
*
39028172 -AAATGATCAC
65 GAAATGATCAG
* * **
39028182 CAAGCTTCTCAAAAAGGAGCCAATGGTGCCTCTTTTACAAACAATTGGTTTCAAGAAGATGTTAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
*
39028247 AAATCATCAG
66 AAATGATCAG
* * ** * * *
39028257 CAAGCTTCTCAAAATGGAACCAATGGTGTCTCTTTTACCAACAGCTGGCTCCAAGAAGATCTTAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
39028322 AAAT
66 AAAT
39028326 CAACAGGCGT
Statistics
Matches: 192, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
74 1 0.01
75 190 0.99
76 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
AAATGATCAG
Found at i:39028312 original size:150 final size:150
Alignment explanation
Indices: 39028030--39028317 Score: 443
Period size: 150 Copynumber: 1.9 Consensus size: 150
39028020 TTTCAGCAAG
* * * **
39028030 ACCAAGCTTCTCAAAATGGAGCTAATGGTGCCTCTTTTCCCTACAATTGGTTTCAAGAAGATCAT
1 ACCAAGCTTCTCAAAAAGGAGCCAATGGTGCCTCTTTTACAAACAATTGGTTTCAAGAAGATCAT
* * * * * *
39028095 AGAAATGATCAGCAAGCTTCTCGAAATGGAGCCAATGGTTCCTCTTTTACCAACAGTTGGTTTCA
66 AGAAATCATCAGCAAGCTTCTCAAAATGGAACCAATGGTTCCTCTTTTACCAACAGCTGGCTCCA
39028160 AGAAGATCATCAAAATGATC
131 AGAAGATCATCAAAATGATC
**
39028180 ACCAAGCTTCTCAAAAAGGAGCCAATGGTGCCTCTTTTACAAACAATTGGTTTCAAGAAGATGTT
1 ACCAAGCTTCTCAAAAAGGAGCCAATGGTGCCTCTTTTACAAACAATTGGTTTCAAGAAGATCAT
39028245 AGAAATCATCAGCAAGCTTCTCAAAATGGAACCAATGGTGT-CTCTTTTACCAACAGCTGGCTCC
66 AGAAATCATCAGCAAGCTTCTCAAAATGGAACCAATGGT-TCCTCTTTTACCAACAGCTGGCTCC
39028309 AAGAAGATC
130 AAGAAGATC
39028318 TTAGAAATCA
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
150 123 0.99
151 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (150 bp):
ACCAAGCTTCTCAAAAAGGAGCCAATGGTGCCTCTTTTACAAACAATTGGTTTCAAGAAGATCAT
AGAAATCATCAGCAAGCTTCTCAAAATGGAACCAATGGTTCCTCTTTTACCAACAGCTGGCTCCA
AGAAGATCATCAAAATGATC
Found at i:39029259 original size:14 final size:14
Alignment explanation
Indices: 39029213--39029260 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
39029203 TCATATGACC
*
39029213 AAATTTCACTTCAA
1 AAATTTCACTGCAA
* *
39029227 AAATATTGACCGACAA
1 AAAT-TTCACTG-CAA
39029243 AAATTTCACTGCAA
1 AAATTTCACTGCAA
39029257 AAAT
1 AAAT
39029261 GACTTTCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 11 0.41
15 9 0.33
16 7 0.26
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (14 bp):
AAATTTCACTGCAA
Found at i:39037105 original size:2 final size:2
Alignment explanation
Indices: 39037098--39037125 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39037088 TCATGTTAAA
39037098 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
39037126 TCACTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:39040018 original size:327 final size:328
Alignment explanation
Indices: 39039408--39040064 Score: 1307
Period size: 327 Copynumber: 2.0 Consensus size: 328
39039398 TAAATTTTGT
39039408 TTTATTATTAATTTTGTTACTATTTTAGAGGCATTTACTTGTTAAGTTGTACCTATGTTAGTGTT
1 TTTATTATTAATTTTGTTACTATTTTAGAGGCATTTACTTGTTAAGTTGTACCTATGTTAGTGTT
39039473 ATTTAAATATACATATTGTTTTTAAATTTGTTAGAAAATATTTATTTTAATATTTTTAGTATTTT
66 ATTTAAATATACATATTGTTTTTAAATTTGTTAGAAAATATTTATTTTAATATTTTTAGTATTTT
39039538 TAATGTATTATATATTTTTTAAAAATATATTAAAAATAATATAAAAATTAATACAAGCGGGCCGG
131 TAATGTATTATATATTTTTTAAAAATATATTAAAAATAATATAAAAATTAATACAAGCGGGCCGG
39039603 GTTTTATCATTTTAATTTGGGTCGGGTTTGGACAAAATTTTAAGCCCATTTTTCAGGTCAGGTCA
196 GTTTTATCATTTTAATTTGGGTCGGGTTTGGACAAAATTTTAAGCCCATTTTTCAGGTCAGGTCA
39039668 GGCCTAAAATATTGGTTGGGTTCGATCCGACCCATGGACACATCTAATCCTTACCCAACAACCAC
261 GGCCTAAAATATTGGTTGGGTTCGATCCGACCCATGGACACATCTAATCCTTACCCAACAACCAC
39039733 ATA
326 ATA
39039736 TTTATTATTAATTTT-TTACTATTTTAGAGGCATTTACTTGTTAAGTTGTACCTATGTTAGTGTT
1 TTTATTATTAATTTTGTTACTATTTTAGAGGCATTTACTTGTTAAGTTGTACCTATGTTAGTGTT
39039800 ATTTAAATATACATATTGTTTTTAAATTTGTTAGAAAATATTTATTTTAATATTTTTAGTATTTT
66 ATTTAAATATACATATTGTTTTTAAATTTGTTAGAAAATATTTATTTTAATATTTTTAGTATTTT
39039865 TAATGTATTATATATTTTTTAAAAATATATTAAAAATAATATAAAAATTAATACAAGCGGGCCGG
131 TAATGTATTATATATTTTTTAAAAATATATTAAAAATAATATAAAAATTAATACAAGCGGGCCGG
39039930 GTTTTATCATTTTAATTTGGGTCGGGTTTGGACAAAATTTTAAGCCCATTTTTCAGGTCAGGTCA
196 GTTTTATCATTTTAATTTGGGTCGGGTTTGGACAAAATTTTAAGCCCATTTTTCAGGTCAGGTCA
39039995 GGCCTAAAATATTGGTTGGGTTCGATCCGACCCATGGACACATCTAATCCTTACCCAACAACCAC
261 GGCCTAAAATATTGGTTGGGTTCGATCCGACCCATGGACACATCTAATCCTTACCCAACAACCAC
39040060 ATA
326 ATA
39040063 TT
1 TT
39040065 ATAAGTACAA
Statistics
Matches: 329, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
327 314 0.95
328 15 0.05
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (328 bp):
TTTATTATTAATTTTGTTACTATTTTAGAGGCATTTACTTGTTAAGTTGTACCTATGTTAGTGTT
ATTTAAATATACATATTGTTTTTAAATTTGTTAGAAAATATTTATTTTAATATTTTTAGTATTTT
TAATGTATTATATATTTTTTAAAAATATATTAAAAATAATATAAAAATTAATACAAGCGGGCCGG
GTTTTATCATTTTAATTTGGGTCGGGTTTGGACAAAATTTTAAGCCCATTTTTCAGGTCAGGTCA
GGCCTAAAATATTGGTTGGGTTCGATCCGACCCATGGACACATCTAATCCTTACCCAACAACCAC
ATA
Found at i:39043606 original size:23 final size:24
Alignment explanation
Indices: 39043559--39043607 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
39043549 CATTTATATG
*
39043559 TACTTACATGTTTAAATTTTGTTT
1 TACTTACATATTTAAATTTTGTTT
39043583 TACTTACA-ATTTAATATTTT-TTT
1 TACTTACATATTTAA-ATTTTGTTT
39043606 TA
1 TA
39043608 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
TACTTACATATTTAAATTTTGTTT
Found at i:39043876 original size:31 final size:31
Alignment explanation
Indices: 39043827--39043885 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
39043817 TTACTAACGT
*
39043827 TTTTAGATTATTTTTATTTTGGCCACTCACG
1 TTTTAGATTATTTCTATTTTGGCCACTCACG
* * *
39043858 TTTTAGTTTGTTTCTATTTTGGTCACTC
1 TTTTAGATTATTTCTATTTTGGCCACTC
39043886 TCTGTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.56
Consensus pattern (31 bp):
TTTTAGATTATTTCTATTTTGGCCACTCACG
Found at i:39046941 original size:48 final size:48
Alignment explanation
Indices: 39046866--39047054 Score: 306
Period size: 48 Copynumber: 3.9 Consensus size: 48
39046856 GTCTCATATT
*
39046866 GATGCCATATCCCAGATATGGTCTTATACGAAATCTCAAATCAATGCC
1 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCAATGCC
* * * * *
39046914 GATACCATATCCTAGATATGGTTTTATATGGGATCTCAAATCAATGCC
1 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCAATGCC
*
39046962 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGATGCC
1 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCAATGCC
*
39047010 GATGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCAAT
1 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCAAT
39047055 TCGATAATAT
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCAATGCC
Found at i:39047080 original size:30 final size:32
Alignment explanation
Indices: 39047046--39047126 Score: 103
Period size: 30 Copynumber: 2.6 Consensus size: 32
39047036 TACGGGATCT
* *
39047046 CAAATCAATTCGATAATATATATA-C-ATATA
1 CAAATCAATTCGACAATATATATATCTACATA
* *
39047076 CAAATCAATTCGGCAATGTATATATCTACATA
1 CAAATCAATTCGACAATATATATATCTACATA
*
39047108 TAAATCAATTCGACAATAT
1 CAAATCAATTCGACAATAT
39047127 TTAAAACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 21 0.50
31 1 0.02
32 20 0.48
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (32 bp):
CAAATCAATTCGACAATATATATATCTACATA
Found at i:39047098 original size:32 final size:31
Alignment explanation
Indices: 39047045--39047124 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
39047035 ATACGGGATC
*
39047045 TCAAATCAATTCGATAA-TATATA-TACATA
1 TCAAATCAATTCGACAATTATATACTACATA
*
39047074 TACAAATCAATTCGGCAATGTATATATCTACATA
1 T-CAAATCAATTCGACAAT-TATATA-CTACATA
39047108 T-AAATCAATTCGACAAT
1 TCAAATCAATTCGACAAT
39047125 ATTTAAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.02
30 14 0.33
32 21 0.49
34 7 0.16
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (31 bp):
TCAAATCAATTCGACAATTATATACTACATA
Found at i:39050967 original size:13 final size:13
Alignment explanation
Indices: 39050949--39050983 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
39050939 AAATAACAAA
39050949 AAGTTTAAATATT
1 AAGTTTAAATATT
39050962 AAGTTTAAATATT
1 AAGTTTAAATATT
39050975 AAGTTTAAA
1 AAGTTTAAA
39050984 AATAATACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (13 bp):
AAGTTTAAATATT
Found at i:39062272 original size:34 final size:34
Alignment explanation
Indices: 39062218--39062285 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
39062208 AACATCACAG
* *
39062218 AATAATACATTTCTAAACAATTTTAAATCAACAT
1 AATAATACATTTCTAAACAATATTAAAACAACAT
* **
39062252 AATAATACATTTTTCTACAATATTAAAACAACAT
1 AATAATACATTTCTAAACAATATTAAAACAACAT
39062286 TTAGATGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (34 bp):
AATAATACATTTCTAAACAATATTAAAACAACAT
Found at i:39069071 original size:11 final size:11
Alignment explanation
Indices: 39069057--39069099 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
39069047 AGTTAAGTAT
39069057 TATTTTATTAA
1 TATTTTATTAA
*
39069068 TATTTTGCTTAGA
1 TATTTT-ATTA-A
39069081 TA-TTTATTAA
1 TATTTTATTAA
39069091 TATTTTATT
1 TATTTTATT
39069100 TAGAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.11
11 15 0.56
12 6 0.22
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:39069102 original size:23 final size:23
Alignment explanation
Indices: 39069060--39069103 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
39069050 TAAGTATTAT
*
39069060 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
*
39069083 TTTATTAATATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
39069104 AAAATGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:39078678 original size:19 final size:19
Alignment explanation
Indices: 39078654--39078714 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
39078644 TTATGCATGA
39078654 ATGTATTTATCTAAGATGC
1 ATGTATTTATCTAAGATGC
* *
39078673 ATGTATGTA-CT-AGATAC
1 ATGTATTTATCTAAGATGC
39078690 A--TATTTAT-TATTAGATGC
1 ATGTATTTATCTA--AGATGC
39078708 ATGTATT
1 ATGTATT
39078715 GAAACTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
15 6 0.19
17 6 0.19
18 8 0.25
19 8 0.25
20 4 0.12
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (19 bp):
ATGTATTTATCTAAGATGC
Found at i:39079798 original size:40 final size:39
Alignment explanation
Indices: 39079754--39079864 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
39079744 GTTTGGACAA
* *
39079754 AAAACGCTGCTAAAAATCGAGCATTAGCGGCGCTCAACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCT-AACAG
* * **
39079794 AAAACGCCGCCAAAGATCGAGCATTAGCGGCGCTTTCAG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAACAG
39079833 AAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCG
1 AAAA-CGCCGCTAAAAATCGAGCATTAGCGGCG
39079865 TTTTTTGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 20 0.32
40 42 0.68
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.15
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAACAG
Found at i:39079875 original size:39 final size:40
Alignment explanation
Indices: 39079753--39079889 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 40
39079743 CGTTTGGACA
* * *
39079753 AAAAACGCTGCTAAAAATCGAGCATTAGCGGCGC--TCAAC
1 AAAAACGCCGCAAAAAATCGAGCATTAGCGGCGCTTTC-AG
* *
39079792 ATAAAACGCCGCCAAAGATCGAGCATTAGCGGCGCTTTCAG
1 A-AAAACGCCGCAAAAAATCGAGCATTAGCGGCGCTTTCAG
* * * **
39079833 AAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTTG
1 AAAAACGCCGCAAAAAATCGAGCATTAGCGGCGCTTTCAG
39079872 AAAAAACGCCGCAAAAAA
1 -AAAAACGCCGCAAAAAA
39079890 CCTAAGCCCA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 19 0.23
40 59 0.72
41 2 0.02
42 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCAAAAAATCGAGCATTAGCGGCGCTTTCAG
Found at i:39080073 original size:41 final size:40
Alignment explanation
Indices: 39079931--39080075 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 40
39079921 TTGGGGCTTT
* * *
39079931 GGCGTTTTCTCAAAAGCGCTGCTAATGCTCTAG-CTTTTAGC
1 GGCGTTTT-TAAAAAGCGCCGCTAATGCTC-AGACCTTTAGC
* * *
39079972 GGCGTTTTTAATAAAGCGTCGCTAATGCTCAAAGCTTTAGC
1 GGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGACCTTTAGC
* *
39080013 GGCGTTTTTAGGAATGCGCCGCTAATGCTCAGACCTTTAGC
1 GGCGTTTTTA-AAAAGCGCCGCTAATGCTCAGACCTTTAGC
*
39080054 GGCGCTTTTCAAAAAGCGCCGC
1 GGCG-TTTTTAAAAAGCGCCGC
39080076 AAAAACATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.03
41 78 0.91
42 5 0.06
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTAAAAAGCGCCGCTAATGCTCAGACCTTTAGC
Found at i:39080342 original size:87 final size:89
Alignment explanation
Indices: 39080238--39080398 Score: 240
Period size: 87 Copynumber: 1.8 Consensus size: 89
39080228 TAAGGTTTAT
*
39080238 GGATTCGGTGTCAGGTTAGGGTTTAAGG-TTTAGATTAATTAGTGTGTTTTAA-TT-TATATTAA
1 GGATTCGGTGTCAGGTTAGAGTTT-AGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAA
39080300 ATAAGGTTTAAGTGTTAGGGGTTAG
65 ATAAGGTTTAAGTGTTAGGGGTTAG
* * *
39080325 GGATTCGG-GTTAGGGTTAGAGTTTAGGATTTAGATTGATTAGTGTTTTTTAATTTATATATTAA
1 GGATTCGGTGTCA-GGTTAGAGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAA
39080389 ATAAGGTTTA
65 ATAAGGTTTA
39080399 GGGCAATTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
86 6 0.09
87 40 0.61
88 2 0.03
89 18 0.27
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (89 bp):
GGATTCGGTGTCAGGTTAGAGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAA
TAAGGTTTAAGTGTTAGGGGTTAG
Found at i:39080945 original size:14 final size:14
Alignment explanation
Indices: 39080928--39080965 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
39080918 ATAAAAATCC
39080928 AGTTTATAAAAAAT
1 AGTTTATAAAAAAT
39080942 AG-TTATAAAAAAT
1 AGTTTATAAAAAAT
*
39080955 ATTTTATAAAA
1 AGTTTATAAAA
39080966 TCACATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AGTTTATAAAAAAT
Found at i:39081337 original size:84 final size:84
Alignment explanation
Indices: 39081221--39081388 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
39081211 CCTCAGCACA
*
39081221 CTATTACTCCCTCAGCTCTGCGCGAAATCCTAAAGCAATGCCTCCCAAAGTAGCTAAATCCCTAG
1 CTATTACTCCCTCACCTCTGCGCGAAATCCTAAAGCAATGCCTCCCAAAGTAGCTAAATCCCTAG
39081286 AAACAACGAACTCGCCTTC
66 AAACAACGAACTCGCCTTC
* *
39081305 CTATTACTCCCTCTCCTCTGCGCGAAATCCTAAAGTAATGCCTCCCAAAGTAGCTAAATCCCTAG
1 CTATTACTCCCTCACCTCTGCGCGAAATCCTAAAGCAATGCCTCCCAAAGTAGCTAAATCCCTAG
39081370 AAACAACGAACTCGCCTTC
66 AAACAACGAACTCGCCTTC
39081389 AACCTTCTTC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (84 bp):
CTATTACTCCCTCACCTCTGCGCGAAATCCTAAAGCAATGCCTCCCAAAGTAGCTAAATCCCTAG
AAACAACGAACTCGCCTTC
Found at i:39085636 original size:43 final size:42
Alignment explanation
Indices: 39085601--39085808 Score: 227
Period size: 43 Copynumber: 4.8 Consensus size: 42
39085591 TTTATTGTAG
* * ** *
39085601 AAGCGTCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGTTAG
1 AAGCG-CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * * ** * *
39085644 GAGCGCTGCTAAAGATCATGACCTTTAGCGGTGTTTGTGGGAC
1 AAGCGC-GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
39085687 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
1 AAGCG-CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
39085730 AAGCGCCGCTAAAGGTCTTGGTCTTTTGCGGCGTTTGTGGAAA
1 AAGCG-CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
39085773 AAGCGCTGCTAAAGGTCTTGGTCTTTAGTGGCGTTT
1 AAGCGC-GCTAAAGGTCTTGGTCTTTAGCGGCGTTT
39085809 TTTTCAGCGA
Statistics
Matches: 142, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
42 2 0.01
43 139 0.98
44 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.31
Consensus pattern (42 bp):
AAGCGCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:39091189 original size:21 final size:21
Alignment explanation
Indices: 39091163--39091210 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
39091153 GGTCTTAAAC
39091163 AGGTGCAGGTTAGAAGATCTA
1 AGGTGCAGGTTAGAAGATCTA
*
39091184 AGGTGCAGGTTGGAAGATCTA
1 AGGTGCAGGTTAGAAGATCTA
39091205 AGGTGC
1 AGGTGC
39091211 GGTCACATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.38, T:0.23
Consensus pattern (21 bp):
AGGTGCAGGTTAGAAGATCTA
Found at i:39092816 original size:207 final size:208
Alignment explanation
Indices: 39092445--39092861 Score: 809
Period size: 207 Copynumber: 2.0 Consensus size: 208
39092435 ATGATTTCCA
*
39092445 ATGAACTCGTGTTAAGTGAAATACTTGTTCTAGTCTATTCATGTTATGTTTTATTAAATCTTGTA
1 ATGAACTCG-GTTAAATGAAATACTTGTTCTAGTCTATTCATGTTATGTTTTATTAAATCTTGTA
39092510 TTTAATCTTTTTGTTGTGATTATTTTTCTGCAATGTATATTGTTTTATTTTGTAGGTATTTGAAA
65 TTTAATCTTTTTGTTGTGATTATTTTTCTGCAATGTATATTGTTTTATTTTGTAGGTATTTGAAA
39092575 TCTGACTACATCCTTAACATTTTTTTTGTCTCTCATCAGCAAGATTTTTCTTTACTTATTTTCTA
130 TCTGACTACATCCTTAACATTTTTTTTGTCTCTCATCAGCAAGATTTTTCTTTACTTATTTTCTA
39092640 CCAAATTGTTTTAT
195 CCAAATTGTTTTAT
39092654 ATGAACTC-GTTAAATGAAATACTTGTTCTAGTCTATTCATGTTATGTTTTATTAAATCTTGTAT
1 ATGAACTCGGTTAAATGAAATACTTGTTCTAGTCTATTCATGTTATGTTTTATTAAATCTTGTAT
39092718 TTAATCTTTTTGTTGTGATTATTTTTCTGCAATGTATATTGTTTTATTTTGTAGGTATTTGAAAT
66 TTAATCTTTTTGTTGTGATTATTTTTCTGCAATGTATATTGTTTTATTTTGTAGGTATTTGAAAT
39092783 CTGACTACATCCTTAACATTTTTTTTGTCTCTCATCAGCAAGATTTTTCTTTACTTATTTTCTAC
131 CTGACTACATCCTTAACATTTTTTTTGTCTCTCATCAGCAAGATTTTTCTTTACTTATTTTCTAC
39092848 CAAATTGTTTTAT
196 CAAATTGTTTTAT
39092861 A
1 A
39092862 ATTAACTTTA
Statistics
Matches: 207, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
207 199 0.96
209 8 0.04
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (208 bp):
ATGAACTCGGTTAAATGAAATACTTGTTCTAGTCTATTCATGTTATGTTTTATTAAATCTTGTAT
TTAATCTTTTTGTTGTGATTATTTTTCTGCAATGTATATTGTTTTATTTTGTAGGTATTTGAAAT
CTGACTACATCCTTAACATTTTTTTTGTCTCTCATCAGCAAGATTTTTCTTTACTTATTTTCTAC
CAAATTGTTTTAT
Found at i:39102052 original size:24 final size:24
Alignment explanation
Indices: 39101989--39102040 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
39101979 TTTCTAGAAG
* *
39101989 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
39102013 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
39102037 ATTT
1 ATTT
39102041 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:39110470 original size:15 final size:15
Alignment explanation
Indices: 39110417--39110474 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
39110407 TATCACCACT
*
39110417 GAACAACTCTTATTCA
1 GAACAACT-TTATTGA
39110433 GAACAACTTCTACATTGA
1 GAACAACTT-T--ATTGA
*
39110451 AAACAACTTTATTGA
1 GAACAACTTTATTGA
39110466 GAACAACTT
1 GAACAACTT
39110475 ACATTTAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.39
16 9 0.25
17 1 0.03
18 12 0.33
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (15 bp):
GAACAACTTTATTGA
Found at i:39119506 original size:21 final size:21
Alignment explanation
Indices: 39119476--39119533 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
39119466 GCTTTAGTTT
*
39119476 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCATTC
* * * *
39119497 AGCTCTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCATTC
*
39119518 AACCCTTATCGGTTTC
1 AACCCTTATGGGTTTC
39119534 TGTTTAACAC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:39119511 original size:42 final size:43
Alignment explanation
Indices: 39119430--39119547 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 43
39119420 ATGAGTTTCT
* * *
39119430 GTTTAACCCTAATGGGTTTCCGTTCAACTCTTTTCAGCTT-TA
1 GTTTAACCCTTATGGGTTTCCGTTCAACTCTTATCAGCTTCCA
* *
39119472 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCCA
1 GTTTAACCCTTATGGGTTTCCGTTCAACTCTTATCAGCTTCCA
* * * * *
39119515 -TTCAACCCTTATCGGTTTCTGTTTAACACTTAT
1 GTTTAACCCTTATGGGTTTCCGTTCAACTCTTAT
39119548 GTGAAACGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 63 0.98
43 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (43 bp):
GTTTAACCCTTATGGGTTTCCGTTCAACTCTTATCAGCTTCCA
Found at i:39121382 original size:33 final size:33
Alignment explanation
Indices: 39121291--39121406 Score: 142
Period size: 33 Copynumber: 3.4 Consensus size: 33
39121281 GTGGATTCAA
**
39121291 CACTTAGCAACCACCAGGGATTCGGGGAATCAG
1 CACTTAGCAACCACCAGTAATTCGGGGAATCAG
* *
39121324 CACTTAGTAACCCCTTCACCAGTAATTCGGGGAATCAT
1 CACTTAGCAA---C--CACCAGTAATTCGGGGAATCAG
*
39121362 CACTTAGCAACCACCAGTAATTCGGGAAATCAG
1 CACTTAGCAACCACCAGTAATTCGGGGAATCAG
39121395 CACTTAGCAACC
1 CACTTAGCAACC
39121407 CCTTTCACAT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
33 41 0.58
35 1 0.01
36 1 0.01
38 28 0.39
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAGTAATTCGGGGAATCAG
Found at i:39121462 original size:75 final size:72
Alignment explanation
Indices: 39121291--39121485 Score: 250
Period size: 75 Copynumber: 2.7 Consensus size: 72
39121281 GTGGATTCAA
* * *
39121291 CACTTAGCAACCACCAGGGATTCGGGGAATCAGCACTTAGTAACCCC-TTCACCAGTAATTCGGG
1 CACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACCAGTAATACGGG
39121355 GAATCAT
66 GAATCAT
* * *
39121362 CACTTAGCAACCACCAGTAATTCGGGAAATCAGCACTTAGCAACCCCTTTCA-CATTTAAGATAC
1 CACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACCA-GT-A-ATAC
*
39121426 GGTGGGATCAT
63 GG-GGAATCAT
* * *
39121437 CACTTAGAAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
1 CACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
39121486 GGGGGAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
71 45 0.42
72 5 0.05
73 1 0.01
74 5 0.05
75 51 0.48
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (72 bp):
CACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACCAGTAATACGGG
GAATCAT
Found at i:39121575 original size:33 final size:27
Alignment explanation
Indices: 39121533--39121612 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 27
39121523 AGGATACGGT
39121533 GGAATCAGCACTTAGCAACCACTAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACT--T--G--GG
*
39121566 GGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCACTTGGG
39121593 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
39121613 CCCTTCGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 22 0.48
29 1 0.02
31 1 0.02
33 22 0.48
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCACTTGGG
Found at i:39121656 original size:104 final size:104
Alignment explanation
Indices: 39121392--39121626 Score: 368
Period size: 104 Copynumber: 2.3 Consensus size: 104
39121382 TTCGGGAAAT
* * * * *
39121392 CAGCACTTAGCAA-CCCCTTTCACATTTAA-GATACGGTGGGATCATCACTTAGAAACCACCAAT
1 CAGCACTTAGCAACCCCCTTTCATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCACCAAT
39121455 GAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAC
66 GAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAC
* *
39121494 CAGCACTTAGCAACCCCCTTTTATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCACTAAT
1 CAGCACTTAGCAACCCCCTTTCATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCACCAAT
*
39121559 GAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
66 GAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAC
*
39121598 CAGCACTTAGCAACCCCC-TTCGTATTCAA
1 CAGCACTTAGCAACCCCCTTTCATATTCAA
39121627 TGTACTCCGG
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
102 13 0.11
103 22 0.18
104 86 0.71
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (104 bp):
CAGCACTTAGCAACCCCCTTTCATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCACCAAT
GAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAC
Found at i:39125445 original size:21 final size:21
Alignment explanation
Indices: 39125431--39125473 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39125421 TAATAGGATT
39125431 TCTAGTATTATTAATAAACTC
1 TCTAGTATTATTAATAAACTC
39125452 TCTAGTATTATTAATAAACTC
1 TCTAGTATTATTAATAAACTC
39125473 T
1 T
39125474 TTGACAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (21 bp):
TCTAGTATTATTAATAAACTC
Found at i:39127136 original size:128 final size:127
Alignment explanation
Indices: 39126856--39127427 Score: 843
Period size: 128 Copynumber: 4.5 Consensus size: 127
39126846 GATAAAATCA
* * * * * *
39126856 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * * *
39126920 TAGGTCCTAGAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAATA--CTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
* * *
39126981 AAACAGGATGCT-TTATGAGAAGAATTTGTGAAATTGTGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
39127045 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
39127109 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
39127174 AAGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
* *
39127237 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCTTCGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
39127302 AGGTCCTGGAAAAATAATTTCGAGTTGACTTTTCTGAGCAAAT-A-GT-ATAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
* * * *
39127361 TAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCACTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
39127426 AG
66 AG
39127428 CATGTTTGGG
Statistics
Matches: 415, Mismatches: 28, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
124 75 0.18
125 67 0.16
126 42 0.10
127 31 0.07
128 198 0.48
129 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (127 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
Found at i:39127308 original size:256 final size:249
Alignment explanation
Indices: 39126856--39127426 Score: 831
Period size: 252 Copynumber: 2.3 Consensus size: 249
39126846 GATAAAATCA
* * * * * *
39126856 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
39126920 TAGGTCCTAGAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAATACTTCAAAC
65 TAAGTCCTAGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATATAAAAAAAACTTCAAAC
* *
39126985 AGGATGCTTTATGAGAAGAATTTGTGAAATTGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
130 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
*
39127050 CCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTC
195 CCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAAT-A-GT-AAAAAAACGCTTC
39127109 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
39127174 AAGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATTTAAAAAAAACGCTTCAA
66 AAGTCCTAGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAATATAAAAAAAA--CTTCAA
* * *
39127239 GCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCTTCGTGGATGCGCTTTTGCTACAGTA
128 ACAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* *
39127303 GGTCCTGGAAAAATAATTTCGAGTTGACTTTTCTGAGCAAATAGTATAAAAACGCTTC
192 GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAAAAAAACGCTTC
* * * *
39127361 TAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCACTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
39127426 A
66 A
39127427 GCATGTTTGG
Statistics
Matches: 289, Mismatches: 24, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
252 74 0.26
253 66 0.23
254 44 0.15
255 31 0.11
256 72 0.25
257 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (249 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AAGTCCTAGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATATAAAAAAAACTTCAAACA
GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
CTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAAAAAAACGCTTC
Found at i:39130935 original size:21 final size:21
Alignment explanation
Indices: 39130905--39131031 Score: 128
Period size: 21 Copynumber: 6.0 Consensus size: 21
39130895 TCAAATTATA
39130905 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
39130926 TTTAACTTAAGTGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
39130947 TTTTATTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
39130968 TTAAAGTTAAAGGTTTAAGTTT
1 TTTAAGTT-AAGGGTTAGGGTT
* **
39130990 TTTAATTTAAGGGTTATCGTT
1 TTTAAGTTAAGGGTTAGGGTT
39131011 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
39131032 AGGGTTTTTA
Statistics
Matches: 82, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
21 66 0.80
22 16 0.20
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.47
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:39131004 original size:43 final size:44
Alignment explanation
Indices: 39130905--39131025 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 44
39130895 TCAAATTATA
* * *
39130905 TTTAAGTTAAGGGTTAGGGTTTTTAACTT-AA-GTGTTAGAGTTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAAGGT-TTAGAGTTT
*
39130948 TTT-ATTTAAGGGTTACGGTTTTAAAGTTAAAGGTTTA-AGTTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAAGGTTTAGAGTTT
*
39130990 TTTAATTTAAGGGTTATC-GTTTTTAAGTTAAGGGTT
1 TTTAATTTAAGGGTTA-CGGTTTTTAAGTTAAAGGTT
39131026 AGGGTTAGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 29 0.43
43 36 0.53
44 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.48
Consensus pattern (44 bp):
TTTAATTTAAGGGTTACGGTTTTTAAGTTAAAGGTTTAGAGTTT
Found at i:39131038 original size:27 final size:27
Alignment explanation
Indices: 39130999--39131052 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
39130989 TTTTAATTTA
*
39130999 AGGGTTATCGTTTTTAAGTTAAGGGTT
1 AGGGTTAGCGTTTTTAAGTTAAGGGTT
* *
39131026 AGGGTTAGGGTTTTTAGGTTAAGGGTT
1 AGGGTTAGCGTTTTTAAGTTAAGGGTT
39131053 TAAGGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (27 bp):
AGGGTTAGCGTTTTTAAGTTAAGGGTT
Found at i:39131058 original size:14 final size:14
Alignment explanation
Indices: 39131011--39131059 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
39131001 GGTTATCGTT
39131011 TTTAA-GTTAAGGG
1 TTTAAGGTTAAGGG
*
39131024 -TTAGGGTT-AGGG
1 TTTAAGGTTAAGGG
*
39131036 TTTTTAGGTTAAGGG
1 -TTTAAGGTTAAGGG
39131051 TTTAAGGTT
1 TTTAAGGTT
39131060 TGTCAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 14 0.50
15 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:39132495 original size:20 final size:20
Alignment explanation
Indices: 39132458--39132495 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39132448 TTTATTTTTA
*
39132458 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
39132478 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
39132496 TACCTCGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:39133540 original size:23 final size:23
Alignment explanation
Indices: 39133500--39133543 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
39133490 TTTTGGAAGG
39133500 AATTTGAGAGCAAATTGAGAGGA
1 AATTTGAGAGCAAATTGAGAGGA
*
39133523 AATTTG-GAGGAAATTTGAGAG
1 AATTTGAGAGCAAA-TTGAGAG
39133544 AGGATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (23 bp):
AATTTGAGAGCAAATTGAGAGGA
Found at i:39135790 original size:29 final size:29
Alignment explanation
Indices: 39135743--39135813 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
39135733 TAATAGTAGC
* * * * *
39135743 CAAATAAAAAATCCTAAACCAACATCTCA
1 CAAATTAAAAACCCCAAACCAAAATCCCA
*
39135772 CAAATTAAAAACCCCAAACTAAAATCCCA
1 CAAATTAAAAACCCCAAACCAAAATCCCA
* *
39135801 AAAATTGAAAACC
1 CAAATTAAAAACC
39135814 TTAAATAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.56, C:0.27, G:0.01, T:0.15
Consensus pattern (29 bp):
CAAATTAAAAACCCCAAACCAAAATCCCA
Found at i:39137311 original size:15 final size:16
Alignment explanation
Indices: 39137284--39137314 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
39137274 ACTGAAAATC
39137284 ATAAATATTTTTTATA
1 ATAAATATTTTTTATA
39137300 ATAAAT-TTTTTTATA
1 ATAAATATTTTTTATA
39137315 TTTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAAATATTTTTTATA
Found at i:39143601 original size:24 final size:24
Alignment explanation
Indices: 39143569--39143624 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
39143559 AACCTAATTT
* *
39143569 TAATCAATGTCAAATATATTATGC
1 TAATAAATGTCAAATATATTATAC
*
39143593 TAATAAATGTTAAATATATTATAC
1 TAATAAATGTCAAATATATTATAC
39143617 TAATAAAT
1 TAATAAAT
39143625 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATAC
Found at i:39143630 original size:24 final size:24
Alignment explanation
Indices: 39143580--39143631 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39143570 AATCAATGTC
* **
39143580 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
39143604 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
39143628 AAAT
1 AAAT
39143632 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:39152777 original size:50 final size:50
Alignment explanation
Indices: 39152668--39152766 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
39152658 ACAACTTTAG
* * ** *
39152668 GGAAATAAGACTCGCTATGGTAGATTTAATCTGACCCACTTCAATTTCAA
1 GGAAATAAGACTCGCTATGGTAGATTTAACCCGACCCACTGAAACTTCAA
*
39152718 GGAAATAAGACTCGCTATGGTAGATTTAACCCGACCTACTGAAACTTCA
1 GGAAATAAGACTCGCTATGGTAGATTTAACCCGACCCACTGAAACTTCA
39152767 GAGGTATAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (50 bp):
GGAAATAAGACTCGCTATGGTAGATTTAACCCGACCCACTGAAACTTCAA
Found at i:39152823 original size:44 final size:44
Alignment explanation
Indices: 39152755--39153011 Score: 237
Period size: 44 Copynumber: 5.7 Consensus size: 44
39152745 AACCCGACCT
* * *
39152755 ACTGAAACTTCAGAGG-TATAAGATTTGTCGCTTCAATCTGCTCC
1 ACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * *
39152799 ATTGCAACTTCAGTGAGGTAAGATTTGTAGCTTCAATTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* *
39152843 ACTGCAGCTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * *
39152887 ACTGTAACTTCAGGGAGTTAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGA----T---TTGTAGCTTCAATCTGCTCC
* * * * *
39152938 ACTGCAACTTCAGGGAAATAAGATTTTCTATCTTCAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTGCTCC
* * *
39152983 AATGTAACTTCAGGGAGATAAAATTTGTA
1 ACTGCAACTTCAGGGAGATAAGATTTGTA
39153012 ACTTATAGCT
Statistics
Matches: 171, Mismatches: 34, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 98 0.57
45 33 0.19
48 2 0.01
51 37 0.22
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
Found at i:39152947 original size:51 final size:51
Alignment explanation
Indices: 39152867--39153058 Score: 180
Period size: 51 Copynumber: 3.9 Consensus size: 51
39152857 GAGATAAGAT
* **
39152867 TTGTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGTTAAGATTTGTAAC
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAAC
* **
39152918 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTT-T--C
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAAC
* * * * * *
39152966 ---TATCTTCAATCTACTCTAATGTAACTTCAGGGAGATAAAATTTGTAAC
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAAC
* * ** * *
39153014 TTATAGCTTTAATCTGTTCCATTACAACTTCAGGGAAATAAGATT
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATT
39153059 CGCTACGGTG
Statistics
Matches: 110, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
45 34 0.31
46 1 0.01
48 2 0.02
50 1 0.01
51 72 0.65
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (51 bp):
TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAAC
Found at i:39153012 original size:96 final size:96
Alignment explanation
Indices: 39152823--39153058 Score: 339
Period size: 96 Copynumber: 2.5 Consensus size: 96
39152813 GAGGTAAGAT
* * * * * *
39152823 TTGTAGCTTCAATTTGCTCCACTGCAGCTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTACTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTTCTAGCTTCAATCTACTCC
* * *
39152887 ACTGTAACTTCAGGGAGTTAAGATTTGTAAC
66 AATGTAACTTCAGGGAGATAAAATTTGTAAC
* *
39152918 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTTCTATCTTCAATCTACTCT
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTTCTAGCTTCAATCTACTCC
39152983 AATGTAACTTCAGGGAGATAAAATTTGTAAC
66 AATGTAACTTCAGGGAGATAAAATTTGTAAC
* * *
39153014 TTATAGCTTTAATCTGTTCCATTACAACTTCAGGGAAATAAGATT
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
39153059 CGCTACGGTG
Statistics
Matches: 126, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 38 0.30
96 88 0.70
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTTCTAGCTTCAATCTACTCC
AATGTAACTTCAGGGAGATAAAATTTGTAAC
Found at i:39164904 original size:18 final size:17
Alignment explanation
Indices: 39164861--39164904 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
39164851 ACTCTAATAC
*
39164861 TAATATAAATAATTAAA
1 TAATATAAATAATAAAA
*
39164878 TAAAAATAAATAATAACAA
1 T-AATATAAATAATAA-AA
39164897 TAATATAA
1 TAATATAA
39164905 CAACAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
TAATATAAATAATAAAA
Found at i:39165885 original size:26 final size:26
Alignment explanation
Indices: 39165856--39165908 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
39165846 AAAAGAAAAA
39165856 TAAAAAGTGAAGGAAAACCTTCGGCC
1 TAAAAAGTGAAGGAAAACCTTCGGCC
39165882 TAAAAAGTGAAGGAAAACCTTCGGCC
1 TAAAAAGTGAAGGAAAACCTTCGGCC
39165908 T
1 T
39165909 CACTGCGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (26 bp):
TAAAAAGTGAAGGAAAACCTTCGGCC
Found at i:39170302 original size:26 final size:26
Alignment explanation
Indices: 39170273--39170345 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
39170263 CCTAATATAT
39170273 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
39170299 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
39170325 GGCTC-TC-TGGAGCTTCCCGAT
1 GGCTCTTCGT-GAGCTTCCCGAT
39170346 ATGGCTCGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.02
25 12 0.29
26 28 0.68
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:39170357 original size:23 final size:23
Alignment explanation
Indices: 39170309--39170393 Score: 98
Period size: 23 Copynumber: 3.6 Consensus size: 23
39170299 GGCTCTTTGT
* *
39170309 GAGCTTCCTGATTAATGGCTCTCTG
1 GAGCTTCCCGA-T-ATGGCTCGCTG
39170334 GAGCTTCCCGATATGGCTCGCTG
1 GAGCTTCCCGATATGGCTCGCTG
* * *
39170357 GAGCTTCCCGCTATGGCTTGCTT
1 GAGCTTCCCGATATGGCTCGCTG
*
39170380 GAACTTCCCGATAT
1 GAGCTTCCCGATAT
39170394 ATAGCTATTC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
23 42 0.79
24 1 0.02
25 10 0.19
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.32
Consensus pattern (23 bp):
GAGCTTCCCGATATGGCTCGCTG
Found at i:39172269 original size:35 final size:35
Alignment explanation
Indices: 39172223--39172299 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
39172213 TAGCTGATTT
39172223 TACATGTTATTTTTCTTTTTCTTTATCTATTTCAC
1 TACATGTTATTTTTCTTTTTCTTTATCTATTTCAC
*
39172258 TACATGTTATTTTTCTTTTTCTTTCTCTATTTCAC
1 TACATGTTATTTTTCTTTTTCTTTATCTATTTCAC
39172293 TAC-TGTT
1 TACATGTT
39172300 TGGTCGCTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (35 bp):
TACATGTTATTTTTCTTTTTCTTTATCTATTTCAC
Found at i:39174607 original size:18 final size:19
Alignment explanation
Indices: 39174580--39174623 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
39174570 ATTGGTAGAT
*
39174580 GTTAAAAAAAACAATAAAA
1 GTTAAAAAAAACAAAAAAA
*
39174599 -TTAATAAAAACAAAAAAA
1 GTTAAAAAAAACAAAAAAA
39174617 GTTAAAA
1 GTTAAAA
39174624 GGGTACAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
GTTAAAAAAAACAAAAAAA
Found at i:39175669 original size:19 final size:20
Alignment explanation
Indices: 39175624--39175680 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
39175614 GAACTTGTCC
39175624 AAAAAA-TTACACTTTTTAA
1 AAAAAATTTACACTTTTTAA
** *
39175643 AATTAATTTATAC-TTTTAA
1 AAAAAATTTACACTTTTTAA
*
39175662 AAAAAATTTA-ATTTTTTAA
1 AAAAAATTTACACTTTTTAA
39175681 TTTATGTCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 1 0.03
19 24 0.80
20 5 0.17
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAAATTTACACTTTTTAA
Found at i:39177920 original size:27 final size:27
Alignment explanation
Indices: 39177897--39177955 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
39177887 TTTTTTTGGT
39177897 ATATTTTGGTAAATAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAATTTTATA
*
39177924 ATATTTTGGTAAATAAAAAA--GTATA
1 ATATTTTGGTAAATAAAAAATTTTATA
39177949 ATATTTT
1 ATATTTT
39177956 AGTTATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.35
27 20 0.65
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAATTTTATA
Found at i:39178672 original size:30 final size:31
Alignment explanation
Indices: 39178638--39178696 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
39178628 AGAAAAACCA
**
39178638 TTTTATTTTTTA-AATTTCTTTTATTTTTAT
1 TTTTATTTTTTAGAATTGATTTTATTTTTAT
39178668 TTTTATTTTTTAGAATTGATTTTATTTTT
1 TTTTATTTTTTAGAATTGATTTTATTTTT
39178697 TTCAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (31 bp):
TTTTATTTTTTAGAATTGATTTTATTTTTAT
Found at i:39179391 original size:13 final size:13
Alignment explanation
Indices: 39179373--39179412 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
39179363 AGTTCTTCAT
*
39179373 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
39179386 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
39179399 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
39179412 T
1 T
39179413 TTAGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:39183099 original size:12 final size:12
Alignment explanation
Indices: 39183079--39183123 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
39183069 TCATTGATAA
*
39183079 ATAAGTATAGAT
1 ATAAATATAGAT
*
39183091 ATAAATATATATT
1 ATAAATATAGA-T
39183104 GATAAATATAGAT
1 -ATAAATATAGAT
39183117 ATAAATA
1 ATAAATA
39183124 AATTAATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 16 0.57
13 2 0.07
14 10 0.36
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (12 bp):
ATAAATATAGAT
Found at i:39188074 original size:21 final size:22
Alignment explanation
Indices: 39188037--39188081 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
39188027 ATAAGAAATC
39188037 TTTTATATTACAAATAAT-ATA
1 TTTTATATTACAAATAATAATA
*
39188058 TTTTATATTTA-ATATAATAATA
1 TTTTATA-TTACAAATAATAATA
39188080 TT
1 TT
39188082 ATCTCGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTATATTACAAATAATAATA
Found at i:39199987 original size:18 final size:18
Alignment explanation
Indices: 39199955--39199999 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
39199945 TTAGGTTAGG
39199955 TTTTC-TTTCTCTTTTTC
1 TTTTCTTTTCTCTTTTTC
*
39199972 TTTTCTTTTCTTTTTTTC
1 TTTTCTTTTCTCTTTTTC
39199990 TTTTCATTTT
1 TTTTC-TTTT
39200000 TAGTTTAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTCTCTTTTTC
Found at i:39201747 original size:31 final size:32
Alignment explanation
Indices: 39201693--39201757 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
39201683 CCTCTCCATA
*
39201693 TTTTCTTTCATCTCCTTCAACCAATCAAAATC
1 TTTTCATTCATCTCCTTCAACCAATCAAAATC
* * *
39201725 TTTTCATT-ATCTCTTTCCACCAATCAAACTC
1 TTTTCATTCATCTCCTTCAACCAATCAAAATC
39201756 TT
1 TT
39201758 CACCCTCCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (32 bp):
TTTTCATTCATCTCCTTCAACCAATCAAAATC
Found at i:39202882 original size:15 final size:15
Alignment explanation
Indices: 39202862--39202913 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
39202852 GAACTTGTTG
39202862 CATCGTCACGACGTC
1 CATCGTCACGACGTC
39202877 CATCGTCACGACGTC
1 CATCGTCACGACGTC
*
39202892 CATCGCCACGACGTC
1 CATCGTCACGACGTC
39202907 CATCGTC
1 CATCGTC
39202914 GTAATGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (15 bp):
CATCGTCACGACGTC
Found at i:39210634 original size:19 final size:19
Alignment explanation
Indices: 39210594--39210634 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
39210584 ATTATTTGTA
*
39210594 AAATTTAATTTAATTATAT
1 AAATTTAATTTAAATATAT
39210613 AAATTATAATTTAAATAT-T
1 AAATT-TAATTTAAATATAT
39210632 AAA
1 AAA
39210635 ATAGAACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTTAATTTAAATATAT
Found at i:39216784 original size:40 final size:39
Alignment explanation
Indices: 39216725--39216820 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 39
39216715 ATAAACTATT
* * * * * *
39216725 TACTCAAATTCTTAATGAAAAATATAATTTTCTAGCAAAA
1 TACTCAAAATCCTATTGAAAAAT-CAACTTTCTAACAAAA
* *
39216765 TACTCAAAATCCTATTGAAAACTCAACTTTCTAACCAAA
1 TACTCAAAATCCTATTGAAAAATCAACTTTCTAACAAAA
**
39216804 TACTCAATGTCCTATTG
1 TACTCAAAATCCTATTG
39216821 GAAACGTAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
39 27 0.59
40 19 0.41
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (39 bp):
TACTCAAAATCCTATTGAAAAATCAACTTTCTAACAAAA
Found at i:39216807 original size:39 final size:39
Alignment explanation
Indices: 39216753--39216833 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
39216743 AAAATATAAT
*
39216753 TTTCTAGCAAAATACTCAAAATCCTATTGAAAAC-TCAAC
1 TTTCTAACAAAATACTCAAAATCCTATTGAAAACGT-AAC
* ** *
39216792 TTTCTAACCAAATACTCAATGTCCTATTGGAAACGTAAC
1 TTTCTAACAAAATACTCAAAATCCTATTGAAAACGTAAC
39216831 TTT
1 TTT
39216834 GTAAAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.32
Consensus pattern (39 bp):
TTTCTAACAAAATACTCAAAATCCTATTGAAAACGTAAC
Found at i:39217592 original size:70 final size:69
Alignment explanation
Indices: 39217504--39217642 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 69
39217494 ATATCATCCA
*
39217504 CATATACCTCAATGTTCCTAAAAATGCTATTGACCAATCTCTGGTATGTTGCCCTTGCATTCTTA
1 CATATACCTCAATGTTCCTAAAAATGCTATTAACCAATCT-TGGTATGTTGCCCTTGCATTCTTA
39217569 AGACC
65 AGACC
39217574 CATATACCTCAATGTTCCTAAAAATGCTATTAACCAATCTTGGTATGTTGCCCTTGCATTCTTAA
1 CATATACCTCAATGTTCCTAAAAATGCTATTAACCAATCTTGGTATGTTGCCCTTGCATTCTTAA
39217639 GACC
66 GACC
39217643 AAAGGGCATC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 29 0.43
70 39 0.57
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (69 bp):
CATATACCTCAATGTTCCTAAAAATGCTATTAACCAATCTTGGTATGTTGCCCTTGCATTCTTAA
GACC
Found at i:39219964 original size:14 final size:14
Alignment explanation
Indices: 39219939--39219987 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
39219929 GCACATACAA
*
39219939 GGTTCACTCATAGG
1 GGTTCACACATAGG
* *
39219953 GGTTCGCACATATG
1 GGTTCACACATAGG
*
39219967 GGTTCACACTTAGG
1 GGTTCACACATAGG
39219981 GGTTCAC
1 GGTTCAC
39219988 TCATTATGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (14 bp):
GGTTCACACATAGG
Found at i:39219980 original size:28 final size:27
Alignment explanation
Indices: 39219925--39220017 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 27
39219915 ACATAGATGA
* *
39219925 GTTCGCACATACAAGGTTCACTCATAGGG
1 GTTCGCACAT--ATGGTTCACACATAGGG
*
39219954 GTTCGCACATATGGGTTCACACTTAGGG
1 GTTCGCACATAT-GGTTCACACATAGGG
* * * *
39219982 GTTCACTCATTATGGATCACACCTAGAGG
1 GTTCGCACA-TATGGTTCACACATAG-GG
39220011 GTTCGCA
1 GTTCGCA
39220018 TATTAGGGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.02
28 31 0.60
29 20 0.38
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (27 bp):
GTTCGCACATATGGTTCACACATAGGG
Found at i:39220062 original size:172 final size:173
Alignment explanation
Indices: 39219752--39220135 Score: 404
Period size: 172 Copynumber: 2.2 Consensus size: 173
39219742 CATAAGTCGG
* * ** * *
39219752 GTTCGCACATACAAGGGTCACACATATAAGGTT-ACACATATGGGTTTGTACACATAGGGGTTCG
1 GTTCGCACATACAAGGTTCACTCATA-GGGGTTCGCACATATGGGTTTGCACACATAGGGGTTCG
* * * * * *
39219816 ATCGTTAGGGATCGCACCTGGGGGTTCGCACATTAGGGTTCTCACACCTACGGTTTATACACCTA
65 ATCATTAGGGATCACACCTGAGGGTTCGCACATTAGGGTTCTCACACCTACGGTTCACACACCAA
* *
39219881 GAGGTTCACATAG-ATGGGTT-TGCA-TCTAGGGTTCACATAGATGA
130 GAGGTTCACA-AGAATAGGTTCT-CACT-TAGGGTTCACACAGATGA
*
39219925 GTTCGCACATACAAGGTTCACTCATAGGGGTTCGCACATATGGG-TT-CACACTTAGGGGTTC-A
1 GTTCGCACATACAAGGTTCACTCATAGGGGTTCGCACATATGGGTTTGCACACATAGGGGTTCGA
* * ** * *
39219987 CTCATTATGGATCACACCTAGAGGGTTCGCATATTAGGGTTCTTGCACCTAGGGTTCGCACACCA
66 -TCATTAGGGATCACACCT-GAGGGTTCGCACATTAGGGTTCTCACACCTACGGTTCACACACCA
* * *
39220052 AGGGGTTCACACGAATAGGTTCTCACTTAGGGTTTACACAGATGA
129 AGAGGTTCACAAGAATAGGTTCTCACTTAGGGTTCACACAGATGA
* ** * *
39220097 GTTCGTACATACAAGGTTTGCTTACAGGGGTTCGCACAT
1 GTTCGCACATACAAGGTTCACTCATAGGGGTTCGCACAT
39220136 GCAGTTTCCA
Statistics
Matches: 176, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
170 1 0.01
171 29 0.16
172 110 0.62
173 36 0.20
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (173 bp):
GTTCGCACATACAAGGTTCACTCATAGGGGTTCGCACATATGGGTTTGCACACATAGGGGTTCGA
TCATTAGGGATCACACCTGAGGGTTCGCACATTAGGGTTCTCACACCTACGGTTCACACACCAAG
AGGTTCACAAGAATAGGTTCTCACTTAGGGTTCACACAGATGA
Found at i:39222473 original size:152 final size:152
Alignment explanation
Indices: 39222197--39222492 Score: 382
Period size: 152 Copynumber: 1.9 Consensus size: 152
39222187 CAATTTGGAC
* *
39222197 TAAATTGTAAAAATGTGAAATATTAGGGGCAAAATGGTAAATTTCCCATTTATGTGTTGTTGGAC
1 TAAATTGTAAAAATGTGAAATATTAGGGGCAAAATGGTAAATTTCCCATTCATGTGTTGTTAGAC
* * * *
39222262 AAAATTGAATGAAATTATGTTTGAATGAGTTCAATTTGAATGTGTTTAGATCAAGAATTAAAGAA
66 AAAATTGAATGAAATGATGTTTAAATAAGTTCAATTTGAATATGTTTAGATCAAGAATTAAAGAA
*
39222327 ATCGGACTTGGATCAAAAGGAT
131 ATCGAACTTGGATCAAAAGGAT
* * * * * *
39222349 TAAATTGTAGAAAGTGTGAAATTTTAGGGGCAAAATTGT-AATTTGCCATTCATGTGTTTTTAGT
1 TAAATTGTA-AAAATGTGAAATATTAGGGGCAAAATGGTAAATTTCCCATTCATGTGTTGTTAGA
** * *
39222413 GTAAATTGAAT-AGAATGGTGTTTAAATAAGCTT-AATTTGAATATTTTTAGATCAAGAATTAAA
65 CAAAATTGAATGA-AATGATGTTTAAATAAG-TTCAATTTGAATATGTTTAGATCAAGAATTAAA
*
39222476 GAAATCGAATTTGGATC
128 GAAATCGAACTTGGATC
39222493 GGGGAAAGAC
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
151 1 0.01
152 94 0.76
153 28 0.23
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (152 bp):
TAAATTGTAAAAATGTGAAATATTAGGGGCAAAATGGTAAATTTCCCATTCATGTGTTGTTAGAC
AAAATTGAATGAAATGATGTTTAAATAAGTTCAATTTGAATATGTTTAGATCAAGAATTAAAGAA
ATCGAACTTGGATCAAAAGGAT
Found at i:39222844 original size:43 final size:43
Alignment explanation
Indices: 39222762--39222879 Score: 107
Period size: 43 Copynumber: 2.7 Consensus size: 43
39222752 GACTCCAATA
*
39222762 TGTGTTTTCGTGTAAGACTACGTCTGGGACGTCGGCATCGACT
1 TGTGTTTTCGTGTAAGACTACGTCTGGGACGTCGACATCGACT
* * *
39222805 TGTGTTTTTGTGTAAGAC-CCTGTCTGGGACAGT-GACATCG-GT
1 TGTGTTTTCGTGTAAGACTAC-GTCTGGGAC-GTCGACATCGACT
* * * * *
39222847 ATGTGATTACATGTAAGACCACGTCTAGGACGT
1 -TGTGTTTTCGTGTAAGACTACGTCTGGGACGT
39222880 TGGCATTGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
42 4 0.07
43 54 0.89
44 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACTACGTCTGGGACGTCGACATCGACT
Found at i:39228788 original size:26 final size:22
Alignment explanation
Indices: 39228733--39228792 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 22
39228723 GGTTTAAAAA
39228733 TAAATATAAATA-AATTTATTT
1 TAAATATAAATATAATTTATTT
39228754 TAAAT-TAAATATTAATTATAATTGT
1 TAAATATAAATA-TAATT-T-ATT-T
39228779 TAAATATAAATATA
1 TAAATATAAATATA
39228793 TACATAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.18
21 5 0.15
22 4 0.12
23 1 0.03
24 3 0.09
25 8 0.24
26 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATATAAATATAATTTATTT
Found at i:39232604 original size:22 final size:19
Alignment explanation
Indices: 39232561--39232604 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
39232551 AAGTCAAGAA
39232561 AATTAAGTTATTTTTTTCT
1 AATTAAGTTATTTTTTTCT
*
39232580 AATTATGTATATTTATTTTCAT
1 AATTAAGT-TATTT-TTTTC-T
39232602 AAT
1 AAT
39232605 ATATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 5 0.24
22 4 0.19
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTAAGTTATTTTTTTCT
Found at i:39232615 original size:21 final size:21
Alignment explanation
Indices: 39232574--39232635 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
39232564 TAAGTTATTT
* *
39232574 TTTTC-TAATTATGTATATTTA
1 TTTTCATAA-TATATATTTTTA
39232595 TTTTCATAATATATATTTTTA
1 TTTTCATAATATATATTTTTA
39232616 TACATTTCATAATATATATT
1 T---TTTCATAATATATATT
39232636 CTTAATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 16 0.46
22 3 0.09
24 16 0.46
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTCATAATATATATTTTTA
Found at i:39232711 original size:17 final size:18
Alignment explanation
Indices: 39232679--39232712 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39232669 ATCAGTTTTC
*
39232679 TTTATTTTATATTATATT
1 TTTATTTTACATTATATT
39232697 TTTATTTT-CATTATAT
1 TTTATTTTACATTATAT
39232713 CTAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTTACATTATATT
Found at i:39235492 original size:13 final size:13
Alignment explanation
Indices: 39235474--39235537 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
39235464 CACACCCTTC
39235474 TTTTACTTTTTTT
1 TTTTACTTTTTTT
39235487 TTTTAC-TTTTTT
1 TTTTACTTTTTTT
* * *
39235499 ATTAACTTTTGTCT
1 TTTTACTTTT-TTT
*
39235513 TTTT-CTTTAATTT
1 TTTTACTTT-TTTT
39235526 TTTT-CTTTTTTT
1 TTTTACTTTTTTT
39235538 AAGTTTTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
12 13 0.32
13 23 0.57
14 4 0.10
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTACTTTTTTT
Found at i:39235508 original size:19 final size:17
Alignment explanation
Indices: 39235486--39235552 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 17
39235476 TTACTTTTTT
39235486 TTTTTACTTTTTTATTAAC
1 TTTTT-CTTTTTT-TTAAC
39235505 TTTTGTCTTTTTCTTTAA-
1 TTTT-TCTTTTT-TTTAAC
* *
39235523 TTTTTTTCTTTTTTTAAGT
1 TTTTTCT-TTTTTTTAA-C
39235542 TTTTTCTTTTT
1 TTTTTCTTTTT
39235553 CTTATTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.17
18 12 0.29
19 20 0.49
20 2 0.05
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTTTTTTAAC
Found at i:39235544 original size:17 final size:17
Alignment explanation
Indices: 39235494--39235552 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
39235484 TTTTTTTACT
*
39235494 TTTTTATTAACTTTTGTC
1 TTTTT-TTAACTTTTTTC
*
39235512 TTTTTCTTTAATTTTTTTC
1 -TTTT-TTTAACTTTTTTC
*
39235531 TTTTTTTAAGTTTTTTC
1 TTTTTTTAACTTTTTTC
39235548 TTTTT
1 TTTTT
39235553 CTTATTTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 14 0.39
20 1 0.03
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTAACTTTTTTC
Found at i:39235701 original size:13 final size:13
Alignment explanation
Indices: 39235663--39235704 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
39235653 TTAATAACAA
39235663 AAAATAAAATAAAT
1 AAAATAAAA-AAAT
39235677 -AAATAAACAAAAT
1 AAAATAAA-AAAAT
39235690 AAAATAAGAAAAAT
1 AAAATAA-AAAAAT
39235704 A
1 A
39235705 TAAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.44
14 13 0.52
15 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:39242313 original size:28 final size:28
Alignment explanation
Indices: 39242273--39242336 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
39242263 TGAATCTAAT
39242273 ATGTGTATGTTAAACAAATGGTAAATAA
1 ATGTGTATGTTAAACAAATGGTAAATAA
*
39242301 ATGTTTATGTTAAACAAATGGTAAATAA
1 ATGTGTATGTTAAACAAATGGTAAATAA
39242329 ATGTGTAT
1 ATGTGTAT
39242337 AAATATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (28 bp):
ATGTGTATGTTAAACAAATGGTAAATAA
Found at i:39247188 original size:39 final size:40
Alignment explanation
Indices: 39247130--39247230 Score: 168
Period size: 39 Copynumber: 2.5 Consensus size: 40
39247120 TCACCAGCAC
39247130 AAAGCCTGCTAGGCACAAGGCCGAAACATTACACCG-CTT
1 AAAGCCTGCTAGGCACAAGGCCGAAACATTACACCGCCTT
*
39247169 AAAGCCTGCTAGGCTCAAGGCCGAAACATTACACCGCCTT
1 AAAGCCTGCTAGGCACAAGGCCGAAACATTACACCGCCTT
* *
39247209 ATAGCCTGCTAGGCACGAGGCC
1 AAAGCCTGCTAGGCACAAGGCC
39247231 CGTATTAGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.61
40 22 0.39
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.16
Consensus pattern (40 bp):
AAAGCCTGCTAGGCACAAGGCCGAAACATTACACCGCCTT
Found at i:39248825 original size:17 final size:18
Alignment explanation
Indices: 39248782--39248828 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
39248772 CATTATTTTA
*
39248782 ATGTTTATATTATAGTAGT
1 ATGTTTATATT-TAGTAGC
*
39248801 AT-TATATATTTAGTA-C
1 ATGTTTATATTTAGTAGC
39248817 ATGTTTATATTT
1 ATGTTTATATTT
39248829 TTAATGTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 7 0.29
19 2 0.08
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (18 bp):
ATGTTTATATTTAGTAGC
Found at i:39256574 original size:10 final size:11
Alignment explanation
Indices: 39256531--39256594 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 11
39256521 TATATATTAT
39256531 TTTTTAATA-A
1 TTTTTAATATA
**
39256541 TTTAAAATATA
1 TTTTTAATATA
*
39256552 -TTATACAT-TA
1 TTTTTA-ATATA
39256562 TTTTTAATA-A
1 TTTTTAATATA
39256572 TTTTTAATATA
1 TTTTTAATATA
*
39256583 TTTATAATATA
1 TTTTTAATATA
39256594 T
1 T
39256595 AATAATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
10 25 0.57
11 19 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:39256588 original size:32 final size:32
Alignment explanation
Indices: 39256521--39256584 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
39256511 TAGCTCTTAG
*
39256521 TATATATTATTTTTTAATAATTTAAAATATAT
1 TATACATTATTTTTTAATAATTTAAAATATAT
**
39256553 TATACATTA-TTTTTAATAATTTTTAATATAT
1 TATACATTATTTTTTAATAATTTAAAATATAT
39256584 T
1 T
39256585 TATAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TATACATTATTTTTTAATAATTTAAAATATAT
Found at i:39256602 original size:19 final size:18
Alignment explanation
Indices: 39256576--39256612 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
39256566 TAATAATTTT
*
39256576 TAATATATTTATAATATA
1 TAATATATATATAATATA
39256594 TAATAATATATATAATATA
1 TAAT-ATATATATAATATA
39256613 AGTCGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATATATATATAATATA
Found at i:39269227 original size:15 final size:16
Alignment explanation
Indices: 39269207--39269236 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39269197 TCGCTTAATT
39269207 GTATATGG-ATAGTAA
1 GTATATGGTATAGTAA
39269222 GTATATGGTATAGTA
1 GTATATGGTATAGTA
39269237 TACATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (16 bp):
GTATATGGTATAGTAA
Found at i:39277912 original size:92 final size:92
Alignment explanation
Indices: 39277804--39277988 Score: 343
Period size: 92 Copynumber: 2.0 Consensus size: 92
39277794 TATGGTATTG
*
39277804 CGGTATCCTCCTTAGGTATTTCGGTACCCACTTGTCAAGGAGCACCCCATCTCAAGATTGTCGAC
1 CGGTATCCTCCTTAGGTATTACGGTACCCACTTGTCAAGGAGCACCCCATCTCAAGATTGTCGAC
*
39277869 GATATCGCGATATCCAAACCTGGGTAT
66 GATATCGCGATATCCAAACCTAGGTAT
*
39277896 CGGTATCCTCCTTAGGTATTACGGTACCCACTTGTCAAGGAGCACTCCATCTCAAGATTGTCGAC
1 CGGTATCCTCCTTAGGTATTACGGTACCCACTTGTCAAGGAGCACCCCATCTCAAGATTGTCGAC
39277961 GATATCGCGATATCCAAACCTAGGTAT
66 GATATCGCGATATCCAAACCTAGGTAT
39277988 C
1 C
39277989 ACAATATCAC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (92 bp):
CGGTATCCTCCTTAGGTATTACGGTACCCACTTGTCAAGGAGCACCCCATCTCAAGATTGTCGAC
GATATCGCGATATCCAAACCTAGGTAT
Done.