Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 73 of 91
Found at i:12000725 original size:12 final size:12
Alignment explanation
Indices: 12000710--12000783 Score: 57
Period size: 12 Copynumber: 6.0 Consensus size: 12
12000700 TCATTTTTTG
12000710 ATTTTATTTATT
1 ATTTTATTTATT
12000722 A-TTTATTT-TAT
1 ATTTTATTTAT-T
12000733 ATTTTGATTTA-T
1 ATTTT-ATTTATT
12000745 ATTTTGATTT-TT
1 ATTTT-ATTTATT
12000757 AGTTTTATTTATTT
1 A-TTTTATTTA-TT
*
12000771 CATTTTACTTATT
1 -ATTTTATTTATT
12000784 TTAATAGTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 17
0.74 0.01 0.24
Matches are distributed among these distances:
10 1 0.02
11 9 0.17
12 21 0.40
13 10 0.19
14 10 0.19
15 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (12 bp):
ATTTTATTTATT
Found at i:12000729 original size:24 final size:26
Alignment explanation
Indices: 12000702--12000769 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
12000692 TTTTAACTTC
12000702 ATTTTTTGATTTTATTTATTA-TTT-
1 ATTTTTTGATTTTATTTATTATTTTG
*
12000726 ATTTTAT-ATTTTGATTTA-TATTTTG
1 ATTTTTTGATTTT-ATTTATTATTTTG
*
12000751 ATTTTTAG-TTTTATTTATT
1 ATTTTTTGATTTTATTTATT
12000770 TCATTTTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 7 0.19
24 19 0.53
25 10 0.28
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTTTGATTTTATTTATTATTTTG
Found at i:12000750 original size:41 final size:42
Alignment explanation
Indices: 12000679--12000770 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
12000669 GAATCACAGG
* * *
12000679 TTATTT-TTTTTTATTTTAACTTCATTTTTTGA-TTTTATTT
1 TTATTTATTTTATATTTTAACTTCATATTTTGATTTTTAGTT
* *
12000719 ATTATTTATTTTATATTTTGA-TTTATATTTTGATTTTTAGTT
1 -TTATTTATTTTATATTTTAACTTCATATTTTGATTTTTAGTT
12000761 TTATTTATTT
1 TTATTTATTT
12000771 CATTTTACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 26 0.59
42 18 0.41
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (42 bp):
TTATTTATTTTATATTTTAACTTCATATTTTGATTTTTAGTT
Found at i:12001030 original size:11 final size:11
Alignment explanation
Indices: 12001016--12001045 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12001006 ATCATTTTTA
12001016 AAAAATAAAAT
1 AAAAATAAAAT
*
12001027 AAAAACAAAAT
1 AAAAATAAAAT
12001038 AAAAATAA
1 AAAAATAA
12001046 TTTTTATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:12004320 original size:17 final size:17
Alignment explanation
Indices: 12004295--12004328 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12004285 AAGTAAATTC
*
12004295 AAAATATTAAAAACTAA
1 AAAAAATTAAAAACTAA
*
12004312 AAAAAATTAAATACTAA
1 AAAAAATTAAAAACTAA
12004329 TGATGCAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATTAAAAACTAA
Found at i:12005057 original size:221 final size:216
Alignment explanation
Indices: 12004767--12005215 Score: 478
Period size: 221 Copynumber: 2.1 Consensus size: 216
12004757 AAAACTATCG
* **
12004767 TAATATAAAAATGTGAGAATAACCGTAAAATTAGTATTATTTGGTGTAAAATAAGTTAAAACAAT
1 TAATATAAAAATGTGAGAATAACCGTAAAATTAGTATCATTTGGCATAAAATAAGTTAAAACAAT
* * * *
12004832 TGTAACATCC-TAAAGAAAAGTTGTAATAATTCTAAACATAATGAAATATAAGAGCAAACATAAA
66 TGTAACA-CCTTAAA-AAAAATTGTAATAATTCTAAACATAATAAAAGATAAGAAC-AA-AT-AA
* * *
12004896 AAAAAAAAATTATTTTAATGTAAGTAATTAAGTTGACAATATAAAAGAATTATCATTATAAATAA
126 AAAAAAAAATTATTATAATGTAAGTAATTAAATTGACAA-ACAAAA-AATTATCATTATAAAT--
*
12004961 AAAAATAATT-CAATC-AAAAAATAAGTGT
187 AAAAATAATTCCAAACTAAAAAATAAGTGT
* * * * **
12004989 TTATATAAAAATGT-AGAATAATCGTAAAATTTA-TATCATTTGGCATAAAGTATA-TTAGAAGT
1 TAATATAAAAATGTGAGAATAACCGTAAAA-TTAGTATCATTTGGCATAAAATA-AGTTAAAACA
* * * * * *
12005051 ATTGTAATACCTTTAAAAAAAATTTTGATAATTTTAAACATAATAAAAGATAAGAACAAGTATAA
64 ATTGTAACACC-TTAAAAAAAATTGTAATAATTCTAAACATAATAAAAGATAAGAACAAATAAAA
* * ** * *
12005116 AAACATATTATTATAATGTAAGTAATTAAATTGGTAAACAAAAAATTATTATTATAAATAAAAGT
128 AAAAAAATTATTATAATGTAAGTAATTAAATTGACAAACAAAAAATTATCATTATAAATAAAAAT
12005181 AATTCCAAACTAAAAAATAAGTGT
193 AATTCCAAACTAAAAAATAAGTGT
*
12005205 TAACATAAAAA
1 TAATATAAAAA
12005216 CTTTAAAAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
214 9 0.05
215 4 0.02
216 37 0.19
217 5 0.03
218 34 0.18
219 1 0.01
220 4 0.02
221 75 0.39
222 21 0.11
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (216 bp):
TAATATAAAAATGTGAGAATAACCGTAAAATTAGTATCATTTGGCATAAAATAAGTTAAAACAAT
TGTAACACCTTAAAAAAAATTGTAATAATTCTAAACATAATAAAAGATAAGAACAAATAAAAAAA
AAAATTATTATAATGTAAGTAATTAAATTGACAAACAAAAAATTATCATTATAAATAAAAATAAT
TCCAAACTAAAAAATAAGTGT
Found at i:12006723 original size:21 final size:21
Alignment explanation
Indices: 12006697--12006736 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12006687 GATGCGTCTT
12006697 TTGTAGGATAAAACCGTAAAG
1 TTGTAGGATAAAACCGTAAAG
12006718 TTGTAGGATAAAACCGTAA
1 TTGTAGGATAAAACCGTAA
12006737 GGTCATGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (21 bp):
TTGTAGGATAAAACCGTAAAG
Found at i:12009371 original size:18 final size:19
Alignment explanation
Indices: 12009348--12009393 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
12009338 TTTGTCATAA
12009348 AAATAATTAATAAATTT-T
1 AAATAATTAATAAATTTAT
* *
12009366 AAATAATTTATTAATTTAT
1 AAATAATTAATAAATTTAT
12009385 AAAT-ATTAA
1 AAATAATTAA
12009394 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATTAATAAATTTAT
Found at i:12009386 original size:26 final size:26
Alignment explanation
Indices: 12009351--12009401 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
12009341 GTCATAAAAA
*
12009351 TAATTAATAAATTTTAAATAATTTAT
1 TAATTAATAAATATTAAATAATTTAT
*
12009377 TAATTTATAAATATTAAATAATTTA
1 TAATTAATAAATATTAAATAATTTA
12009402 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATTAATAAATATTAAATAATTTAT
Found at i:12011010 original size:23 final size:21
Alignment explanation
Indices: 12010970--12011022 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
12010960 TGAATTATAA
*
12010970 TAAAATATTTAATATGATATT
1 TAAAATATTTAATATGATACT
*
12010991 TAAAATAATTTTAATGTGATACT
1 TAAAAT-A-TTTAATATGATACT
*
12011014 TAAATTATT
1 TAAAATATT
12011023 AATTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.30
22 2 0.07
23 17 0.63
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
TAAAATATTTAATATGATACT
Found at i:12017715 original size:25 final size:24
Alignment explanation
Indices: 12017664--12017717 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
12017654 ATTTGTTACT
*
12017664 AACTGTGGAAAAACTAAGAAATTA
1 AACTGTGGAAAAACTAAGAAATAA
12017688 AACTGTGTGAAAAACTAAGAGAA-AA
1 AACTGTG-GAAAAACTAAGA-AATAA
12017713 AACTG
1 AACTG
12017718 AATATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.26
25 18 0.67
26 2 0.07
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.19
Consensus pattern (24 bp):
AACTGTGGAAAAACTAAGAAATAA
Found at i:12017886 original size:22 final size:22
Alignment explanation
Indices: 12017861--12017904 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12017851 ATTTTTTATC
12017861 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
12017883 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12017905 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12021672 original size:25 final size:25
Alignment explanation
Indices: 12021633--12021687 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
12021623 TAGAATGGCT
* *
12021633 ATGAAGGCCTTAACAAGGTTTGACA
1 ATGAAGGCCTAAACAAGGTTCGACA
* *
12021658 ATGAAGTCCTAAACAGGGTTCGACA
1 ATGAAGGCCTAAACAAGGTTCGACA
12021683 ATGAA
1 ATGAA
12021688 AACCTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (25 bp):
ATGAAGGCCTAAACAAGGTTCGACA
Found at i:12021693 original size:25 final size:25
Alignment explanation
Indices: 12021644--12021695 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
12021634 TGAAGGCCTT
* **
12021644 AACAAGGTTTGACAATGAAGTCCTA
1 AACAAGGTTCGACAATGAAAACCTA
*
12021669 AACAGGGTTCGACAATGAAAACCTA
1 AACAAGGTTCGACAATGAAAACCTA
12021694 AA
1 AA
12021696 ATAGAAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (25 bp):
AACAAGGTTCGACAATGAAAACCTA
Found at i:12021984 original size:22 final size:22
Alignment explanation
Indices: 12021959--12022002 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12021949 ATTTTTTATC
*
12021959 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
12021981 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12022003 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12023176 original size:22 final size:23
Alignment explanation
Indices: 12023150--12023201 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
12023140 ATTCATTGAC
12023150 AATGAC-ACATGGGCATTGTTTA
1 AATGACGACATGGGCATTGTTTA
*
12023172 AATGAACGTGCATGGGCATTGTTTA
1 AATG-ACG-ACATGGGCATTGTTTA
12023197 AATGA
1 AATGA
12023202 ATGTGGAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 2 0.08
24 1 0.04
25 19 0.73
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (23 bp):
AATGACGACATGGGCATTGTTTA
Found at i:12025379 original size:22 final size:22
Alignment explanation
Indices: 12025351--12025394 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12025341 CTAAATCTTC
12025351 CTTAATTCTAG-GAATACAAATA
1 CTTAATTCTAGAG-ATACAAATA
12025373 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12025395 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12029087 original size:23 final size:25
Alignment explanation
Indices: 12029032--12029090 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
12029022 AAAGGGTTCG
* **
12029032 GCAATGAAGGCCTAAACAAGATTTG
1 GCAATGAAGGCCTAAACAAGAGTCA
12029057 GCAATGAAGGCCTAAA-AA-AGTCA
1 GCAATGAAGGCCTAAACAAGAGTCA
12029080 GCAATGAAGGC
1 GCAATGAAGGC
12029091 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 13 0.42
24 2 0.06
25 16 0.52
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.15
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAAGAGTCA
Found at i:12044114 original size:31 final size:31
Alignment explanation
Indices: 12044079--12044141 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12044069 TAGAGAAATG
* *
12044079 AAAATCTATAAAGCCTTTTAAATTTATAAAA
1 AAAATCCATAAAACCTTTTAAATTTATAAAA
* *
12044110 AAAATCCATAAAACCTTTTTAATTTATGAAA
1 AAAATCCATAAAACCTTTTAAATTTATAAAA
12044141 A
1 A
12044142 TTCATTTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATCCATAAAACCTTTTAAATTTATAAAA
Found at i:12045256 original size:25 final size:25
Alignment explanation
Indices: 12045209--12045256 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12045199 GTAAATTTGA
*
12045209 TAACTTATCAAATATGTATATTTAG
1 TAACTTATCAAATATCTATATTTAG
*
12045234 TAACTTATCAGATTATCTA-ATTT
1 TAACTTATCA-AATATCTATATTT
12045257 TCTTATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (25 bp):
TAACTTATCAAATATCTATATTTAG
Found at i:12048422 original size:21 final size:21
Alignment explanation
Indices: 12048384--12048424 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12048374 AGGTAAAAAT
*
12048384 AACAAAATAAATTGACATTTG
1 AACAAAATAAATTCACATTTG
12048405 AACAAATATAAA-TCACATTT
1 AACAAA-ATAAATTCACATTT
12048425 CCTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (21 bp):
AACAAAATAAATTCACATTTG
Found at i:12053050 original size:18 final size:18
Alignment explanation
Indices: 12053027--12053061 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12053017 ACGGTTAGCA
*
12053027 TGTAAATCTTTTTTTTTC
1 TGTAAAGCTTTTTTTTTC
12053045 TGTAAAGCTTTTTTTTT
1 TGTAAAGCTTTTTTTTT
12053062 TTTTTTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (18 bp):
TGTAAAGCTTTTTTTTTC
Found at i:12064259 original size:10 final size:10
Alignment explanation
Indices: 12064235--12064272 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
12064225 ATTATTTTTG
12064235 TAAATATATTT
1 TAAATATA-TT
12064246 TAAATATATT
1 TAAATATATT
*
12064256 TAAATTTATT
1 TAAATATATT
12064266 TAAATAT
1 TAAATAT
12064273 GAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAAATATATT
Found at i:12064307 original size:20 final size:20
Alignment explanation
Indices: 12064235--12064308 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
12064225 ATTATTTTTG
*
12064235 TAAATATATTTTA-AATATATT
1 TAAATTTATTTTATAA-A-ATT
*
12064256 TAAATTTATTTAAATATGAAAAAT
1 TAAATTTATTT---TAT-AAAATT
**
12064280 TATTTTTATTTTATAAAATT
1 TAAATTTATTTTATAAAATT
12064300 TAAATTTAT
1 TAAATTTAT
12064309 ATAAAAACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
20 12 0.29
21 13 0.32
24 13 0.32
25 1 0.02
26 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
TAAATTTATTTTATAAAATT
Found at i:12068639 original size:9 final size:9
Alignment explanation
Indices: 12068615--12068656 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
12068605 CAATTTGTCC
*
12068615 TGTATTATTT
1 TGTATT-TTA
12068625 TGTATTTTA
1 TGTATTTTA
12068634 TGTATTTTA
1 TGTATTTTA
12068643 TGTATTTTA
1 TGTATTTTA
12068652 T-TATT
1 TGTATT
12068657 ATGTATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 4 0.13
9 21 0.68
10 6 0.19
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:12068648 original size:18 final size:19
Alignment explanation
Indices: 12068615--12068677 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
12068605 CAATTTGTCC
*
12068615 TGTATTATTTTGTATTTTA
1 TGTATTATTATGTATTTTA
12068634 TGTATT-TTATGTATTTTA
1 TGTATTATTATGTATTTTA
*
12068652 T-TATTATGTATATA-TTTA
1 TGTATTAT-TATGTATTTTA
12068670 T-TATTATT
1 TGTATTATT
12068678 TTTTTTTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.12
18 24 0.60
19 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TGTATTATTATGTATTTTA
Found at i:12069185 original size:31 final size:31
Alignment explanation
Indices: 12069150--12069208 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
12069140 ATCCGGCGAA
*
12069150 AATTCCGGCGAA-ATTTGAATTTTTCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTTCGGCAAC
12069181 AATTCCGGCGAACATTGAAGTTTTCGGC
1 AATTCCGGCGAACATTGAAGTTTTCGGC
12069209 GACCAGTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTTCGGCAAC
Found at i:12069210 original size:19 final size:19
Alignment explanation
Indices: 12069186--12069230 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
12069176 GCAACAATTC
* *
12069186 CGGCGAACATTGAAGTTTT
1 CGGCGAACAGTCAAGTTTT
* *
12069205 CGGCGACCAGTCCAGTTTT
1 CGGCGAACAGTCAAGTTTT
12069224 CGGCGAA
1 CGGCGAA
12069231 GAATCCCAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (19 bp):
CGGCGAACAGTCAAGTTTT
Found at i:12069607 original size:1 final size:1
Alignment explanation
Indices: 12069601--12069648 Score: 69
Period size: 1 Copynumber: 48.0 Consensus size: 1
12069591 CCGCTCCAGG
* * *
12069601 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTATTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12069649 ATTTATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:12069649 original size:12 final size:11
Alignment explanation
Indices: 12069601--12069656 Score: 80
Period size: 11 Copynumber: 5.3 Consensus size: 11
12069591 CCGCTCCAGG
12069601 TTTTTTTTTT-
1 TTTTTTTTTTA
12069611 TTTTTTTTTT-
1 TTTTTTTTTTA
12069621 TTTTTTTTTTA
1 TTTTTTTTTTA
*
12069632 TTTTTATTTTA
1 TTTTTTTTTTA
*
12069643 TTTTTTATTTA
1 TTTTTTTTTTA
12069654 TTT
1 TTT
12069657 ATTAGATTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
10 20 0.48
11 22 0.52
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:12072453 original size:17 final size:16
Alignment explanation
Indices: 12072432--12072465 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
12072422 AAATAAAAAG
12072432 AAAAAGGAGAACAAAACC
1 AAAAA-GAGAA-AAAACC
12072450 AAAAAGAGAAAAAACC
1 AAAAAGAGAAAAAACC
12072466 TTACTAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.71, C:0.15, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAGAAAAAACC
Found at i:12073884 original size:31 final size:31
Alignment explanation
Indices: 12073849--12073911 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12073839 TAGAGAAATG
* *
12073849 AAAATCTATAAAGCCTTTTAAATTTATAAAA
1 AAAATCCATAAAACCTTTTAAATTTATAAAA
* *
12073880 AAAATCCATAAAACCTTTTTAATTTATGAAA
1 AAAATCCATAAAACCTTTTAAATTTATAAAA
12073911 A
1 A
12073912 TTTCATTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATCCATAAAACCTTTTAAATTTATAAAA
Found at i:12075375 original size:16 final size:16
Alignment explanation
Indices: 12075341--12075374 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12075331 AAATGTAATT
*
12075341 AAATAATTTTATTTAA
1 AAATAATTTTATTAAA
12075357 AAATAATTTT-TTAAA
1 AAATAATTTTATTAAA
12075372 AAA
1 AAA
12075375 AGTATGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAATTTTATTAAA
Found at i:12077365 original size:27 final size:27
Alignment explanation
Indices: 12077335--12077386 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
12077325 ATTGTTTAAG
12077335 ATTCTTAGA-AGAAAGTAAATTTTATAA
1 ATTCTTAGAGA-AAAGTAAATTTTATAA
12077362 ATTCTTAGAGAAAAGTAAATTTTAT
1 ATTCTTAGAGAAAAGTAAATTTTAT
12077387 CTCACTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (27 bp):
ATTCTTAGAGAAAAGTAAATTTTATAA
Found at i:12080976 original size:15 final size:15
Alignment explanation
Indices: 12080958--12080988 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12080948 TTTTTTTTCT
12080958 TTTTCATTTTGAAAG
1 TTTTCATTTTGAAAG
*
12080973 TTTTCATTTTTAAAG
1 TTTTCATTTTGAAAG
12080988 T
1 T
12080989 AAAGCATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (15 bp):
TTTTCATTTTGAAAG
Found at i:12081407 original size:15 final size:14
Alignment explanation
Indices: 12081387--12081429 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
12081377 ATTATTTGTT
12081387 AAATTTATAAATATA
1 AAATTTAT-AATATA
12081402 AAATTTAT--TATA
1 AAATTTATAATATA
12081414 AAATTTATTAATATA
1 AAATTTA-TAATATA
12081429 A
1 A
12081430 TTTTAATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.44
13 1 0.04
15 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTTATAATATA
Found at i:12081415 original size:12 final size:12
Alignment explanation
Indices: 12081398--12081423 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12081388 AATTTATAAA
12081398 TATAAAATTTAT
1 TATAAAATTTAT
12081410 TATAAAATTTAT
1 TATAAAATTTAT
12081422 TA
1 TA
12081424 ATATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATAAAATTTAT
Found at i:12081922 original size:53 final size:53
Alignment explanation
Indices: 12081865--12081967 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
12081855 CACAACCGAC
*
12081865 CCAACAACCATGAAAAGAAATGAATCTCATGCCTATATACATAACTCACAGAT
1 CCAACAACCATGAAAAGAAATGAATCTCATACCTATATACATAACTCACAGAT
12081918 CCAACAACCATGAAAAGAAATGAATCTCATACCTATATACATAACTCACA
1 CCAACAACCATGAAAAGAAATGAATCTCATACCTATATACATAACTCACA
12081968 AATCAGGAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.47, C:0.25, G:0.08, T:0.20
Consensus pattern (53 bp):
CCAACAACCATGAAAAGAAATGAATCTCATACCTATATACATAACTCACAGAT
Found at i:12082783 original size:18 final size:19
Alignment explanation
Indices: 12082742--12082785 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
12082732 TAAGCCTTTT
*
12082742 TTTTTTGCTAGTAGACTTA
1 TTTTTCGCTAGTAGACTTA
12082761 TTTTTCGCTAGTAGACTTA
1 TTTTTCGCTAGTAGACTTA
12082780 TTTTTC
1 TTTTTC
12082786 TTTCACTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (19 bp):
TTTTTCGCTAGTAGACTTA
Found at i:12094102 original size:20 final size:20
Alignment explanation
Indices: 12094074--12094112 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12094064 TATTATTTTT
* *
12094074 TTTATATTTTTTTAAATATA
1 TTTAAATTTATTTAAATATA
12094094 TTTAAATTTATTTAAATAT
1 TTTAAATTTATTTAAATAT
12094113 GAAAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAAATTTATTTAAATATA
Found at i:12094145 original size:16 final size:17
Alignment explanation
Indices: 12094121--12094154 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12094111 ATGAAAAATT
*
12094121 ATTTTTATTT-TATAAA
1 ATTTATATTTATATAAA
12094137 ATTTATATTTATATAAA
1 ATTTATATTTATATAAA
12094154 A
1 A
12094155 ATTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATATTTATATAAA
Found at i:12095559 original size:18 final size:18
Alignment explanation
Indices: 12095538--12095593 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 18
12095528 TGTGATAACT
12095538 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
12095556 GATATATTTGAGGAGGTAGAG
1 GATACATTT---GAGGTGGAG
*
12095577 GATACATTTGAGATGGA
1 GATACATTTGAGGTGGA
12095594 TAATAACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.47
21 16 0.53
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.29
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:12095577 original size:21 final size:21
Alignment explanation
Indices: 12095547--12095588 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12095537 TGATACATTT
* *
12095547 GAGGTGGAGGATATATTTGAG
1 GAGGTAGAGGATACATTTGAG
12095568 GAGGTAGAGGATACATTTGAG
1 GAGGTAGAGGATACATTTGAG
12095589 ATGGATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.40, T:0.26
Consensus pattern (21 bp):
GAGGTAGAGGATACATTTGAG
Found at i:12098887 original size:25 final size:25
Alignment explanation
Indices: 12098858--12098917 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
12098848 TTTTTTTATC
*
12098858 ACAAATAA-CTTCAAATAATTATATA
1 ACAAATAATCTTC-AATAATTACATA
12098883 ACAAATACAATCTTCAATAATTACATA
1 ACAAAT--AATCTTCAATAATTACATA
12098910 A-AAATAAT
1 ACAAATAAT
12098918 AAAAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 3 0.10
25 6 0.19
26 4 0.13
27 14 0.45
28 4 0.13
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (25 bp):
ACAAATAATCTTCAATAATTACATA
Found at i:12099251 original size:26 final size:26
Alignment explanation
Indices: 12099201--12099249 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
12099191 TTTCAAAAAT
*
12099201 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
12099227 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
12099250 TATTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:12099494 original size:19 final size:20
Alignment explanation
Indices: 12099470--12099507 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12099460 AACAACAAAA
*
12099470 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
12099489 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
12099508 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:12099759 original size:39 final size:40
Alignment explanation
Indices: 12099701--12099816 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 40
12099691 TTCAATCCCA
* * * *
12099701 CCCTCCAAACACCCTACCACACCTAATCCCTCCCCAGCTT
1 CCCTCCCAACACCCCACCACACCCAATCCCTCCCCACCTT
*
12099741 -CCTCCCAACGCCCCACCACACCCAATCCCTCCCCACCTT
1 CCCTCCCAACACCCCACCACACCCAATCCCTCCCCACCTT
* *
12099780 CCCCCCCAACACTCCACCACACCCAAT-CCTCCCCACC
1 CCCTCCCAACACCCCACCACACCCAATCCCTCCCCACC
12099817 CTATCCAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 44 0.66
40 23 0.34
ACGTcount: A:0.23, C:0.62, G:0.02, T:0.13
Consensus pattern (40 bp):
CCCTCCCAACACCCCACCACACCCAATCCCTCCCCACCTT
Found at i:12104731 original size:12 final size:12
Alignment explanation
Indices: 12104714--12104748 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12104704 TTAAAATCTT
*
12104714 ATATATAATACA
1 ATATATAATAAA
12104726 ATATATAATAAA
1 ATATATAATAAA
*
12104738 ATATAAAATAA
1 ATATATAATAA
12104749 CTTTCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:12105116 original size:13 final size:13
Alignment explanation
Indices: 12105098--12105123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12105088 TTATAAATAA
12105098 AAAAATATTTATT
1 AAAAATATTTATT
12105111 AAAAATATTTATT
1 AAAAATATTTATT
12105124 TTTTTATAAG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATATTTATT
Found at i:12118055 original size:42 final size:42
Alignment explanation
Indices: 12118004--12118502 Score: 768
Period size: 42 Copynumber: 12.0 Consensus size: 42
12117994 ATGATTGTCT
* *
12118004 AGGAG-AATTTACTTTTCCAAAGTCGTGGTACCTTTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
12118045 AGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAG
12118085 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
12118127 AGGAGCAATTTA-TTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAG--TCGTGGTGCCTCTGTTTAG
* * *
12118168 AGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
12118210 AGGAGCAATTTACTTTTCCAAAGTCGTGATACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
12118252 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
12118293 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
12118335 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
12118377 AGGAGCAATTTACTTTT-CAAAGTGCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGT-CGTGGTGCCTCTGTTTAG
*
12118419 AGGAGC-ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
12118459 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
12118501 AG
1 AG
12118503 AACTTCGGCA
Statistics
Matches: 426, Mismatches: 18, Indels: 27
0.90 0.04 0.06
Matches are distributed among these distances:
40 59 0.14
41 118 0.28
42 245 0.58
43 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:12118196 original size:83 final size:82
Alignment explanation
Indices: 12118004--12118502 Score: 731
Period size: 83 Copynumber: 6.0 Consensus size: 82
12117994 ATGATTGTCT
* * *
12118004 AGGAG-AATTTACTTTTCCAAAGTCGTGGTACCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAG-
12118068 TCGT-TGCCTCTGTTTAG
65 TCGTGTGCCTCTGTTTAG
* *
12118085 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAG-
12118150 TTCGT-TGCCTCTGTTTAG
65 -TCGTGTGCCTCTGTTTAG
* *
12118168 AGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTA-TTTTTCAAAG
* *
12118233 TCGTGATACCTCTGTTGAG
65 TCGTG-TGCCTCTGTTTAG
* * *
12118252 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTA-TTTTTCAAAG
12118316 TCGTGGTGCCTCTGTTTAG
65 TCGT-GTGCCTCTGTTTAG
*
12118335 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGT
12118400 GCGTGGTGCCTCTGTTTAG
66 -CGT-GTGCCTCTGTTTAG
*
12118419 AGGAGC-ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTT-CAAAG
12118482 TCGTGGTGCCTCTGTTTAG
65 TCGT-GTGCCTCTGTTTAG
12118501 AG
1 AG
12118503 AACTTCGGCA
Statistics
Matches: 389, Mismatches: 20, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
81 5 0.01
82 118 0.30
83 171 0.44
84 95 0.24
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGT
CGTGTGCCTCTGTTTAG
Found at i:12118234 original size:125 final size:124
Alignment explanation
Indices: 12118004--12118502 Score: 742
Period size: 125 Copynumber: 4.0 Consensus size: 124
12117994 ATGATTGTCT
* *
12118004 AGGAG-AATTTACTTTTCCAAAG-TCGTGGTACCTTTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 AGGAGCAATTTACTTTT-CAAAGTTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
* * *
12118067 TTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
64 -TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
* *
12118127 AGGAGCAATTTATTTTTCAAAGTTTCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTCAAAG-TTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
* *
12118191 TCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGATACCTCTGTTGAG
64 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
*
12118252 AGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCAAAGTTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
*
12118316 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
64 TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
*
12118377 AGGAGCAATTTACTTTTCAAAGTGCGTGGTGCCTCTGTTTAGAGGAGC-ATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
* * *
12118441 CGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
65 CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
12118501 AG
1 AG
12118503 AACTTCGGCA
Statistics
Matches: 346, Mismatches: 21, Indels: 17
0.90 0.05 0.04
Matches are distributed among these distances:
123 45 0.13
124 79 0.23
125 198 0.57
126 24 0.07
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTCAAAGTTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
GTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAG
Found at i:12118524 original size:8 final size:8
Alignment explanation
Indices: 12118523--12118551 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
12118513 AAAAAACAAA
12118523 AAAAAAAC
1 AAAAAAAC
12118531 AAAAAAAC
1 AAAAAAAC
12118539 AAAAAAAC
1 AAAAAAAC
12118547 AAAAA
1 AAAAA
12118552 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:12118783 original size:22 final size:23
Alignment explanation
Indices: 12118736--12118789 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
12118726 ATTTGTCCTG
* *
12118736 TATTATTTTGTATTTTATGTATT
1 TATTATTATGTATTATATGTATT
*
12118759 TATTATTATGTA-TATATTTATT
1 TATTATTATGTATTATATGTATT
12118781 TATTATTAT
1 TATTATTAT
12118790 TTTTTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (23 bp):
TATTATTATGTATTATATGTATT
Found at i:12119320 original size:31 final size:31
Alignment explanation
Indices: 12119271--12119329 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12119261 ATCCGACGAA
* *
12119271 AATTCCGGCGAAATTTGAATTTTTCGGCAAC
1 AATTCCGGCGAAATTTGAAGTTTCCGGCAAC
12119302 AATTCCGGCGAACA-TTGAAGTTTCCGGC
1 AATTCCGGCGAA-ATTTGAAGTTTCCGGC
12119330 GACCAGTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (31 bp):
AATTCCGGCGAAATTTGAAGTTTCCGGCAAC
Found at i:12120105 original size:59 final size:59
Alignment explanation
Indices: 12119888--12120144 Score: 367
Period size: 59 Copynumber: 4.3 Consensus size: 59
12119878 TAAAAATTCT
* *
12119888 AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTT-C
12119952 AAAATAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAA-AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * * *
12120012 --CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAGTAAATTTC
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
12120069 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
12120128 CAAAAAAAATATTTTTA
1 AAAAAAAAATATTTTTA
12120145 CTTAAGAATA
Statistics
Matches: 178, Mismatches: 11, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
57 52 0.29
58 1 0.01
59 69 0.39
60 1 0.01
61 10 0.06
63 2 0.01
64 4 0.02
65 32 0.18
66 7 0.04
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (59 bp):
AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:12120111 original size:116 final size:121
Alignment explanation
Indices: 12119889--12120143 Score: 405
Period size: 116 Copynumber: 2.1 Consensus size: 121
12119879 AAAAATTCTA
12119889 AAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTCCTTAAAAGAAAAATAAATTTCCAA
1 AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTCCTT-AAAG-AAAATAAATTTCCAA
12119954 AATAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
63 AATAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
12120013 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T-CAG-AAGTAAATTT-CAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTCCTTAAAGAAAATAAATTTCCAAAA
12120073 -AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
65 TAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
12120129 AAAAAAAATATTTTT
1 -AAAAAAATATTTTT
12120144 ACTTAAGAAT
Statistics
Matches: 126, Mismatches: 2, Indels: 12
0.90 0.01 0.09
Matches are distributed among these distances:
116 56 0.44
117 5 0.04
118 22 0.17
120 2 0.02
122 31 0.25
123 10 0.08
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (121 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTCCTTAAAGAAAATAAATTTCCAAAAT
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:12120165 original size:91 final size:93
Alignment explanation
Indices: 12120056--12120226 Score: 301
Period size: 91 Copynumber: 1.9 Consensus size: 93
12120046 AATTTTCCTC
12120056 AGAAGTAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AGAAGTAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
12120121 AAATTTCCAAAAAAAATATTTTTACTTA
66 AAATTTCCAAAAAAAATATTTTTACTTA
* *
12120149 AGAA-TAAATTT-GAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAAT
1 AGAAGTAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
12120212 AAATTTTCAAAAAAA
66 AAATTTCCAAAAAAA
12120227 GGGTTTTTGA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 64 0.85
92 7 0.09
93 4 0.05
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (93 bp):
AGAAGTAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
AAATTTCCAAAAAAAATATTTTTACTTA
Found at i:12120183 original size:150 final size:150
Alignment explanation
Indices: 12120013--12120294 Score: 428
Period size: 150 Copynumber: 1.9 Consensus size: 150
12120003 ATAAATTTCC
* *
12120013 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAGTAAA-TTTCAAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTCAAAAAAAA
*
12120077 -ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCCAAAAAAAATA
66 GAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCC-AAAAAAATA
12120139 TTTTTACTTAAGAATAAATTTGAA
127 TTTTTACTTAAGAATAAATTTGAA
* * *
12120163 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTCAAAAAAAA
*
12120228 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAAAAAAATATTT
66 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCAAAAAAATATTT
12120293 TT
130 TT
12120295 GGGGAAAAGT
Statistics
Matches: 120, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
150 80 0.67
151 31 0.26
152 9 0.08
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (150 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTCAAAAAAAA
GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAAATATTTT
TACTTAAGAATAAATTTGAA
Found at i:12120201 original size:59 final size:56
Alignment explanation
Indices: 12120140--12120333 Score: 235
Period size: 59 Copynumber: 3.3 Consensus size: 56
12120130 AAAAAAATAT
* *
12120140 TTTTACTTAAGAATAAATTTGAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAA-AATAAATTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAA
***
12120198 TTTTCCTTATAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTA-AAATAAA-TTTCAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAA
*
12120257 TTTTCCTTGAAAATCGAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTT-AAAAT--AAATTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAA
* *
12120317 TTTTCCCTAAAAAAAAT
1 TTTTCCTTAAAATAAAT
12120334 CATTCTTTTC
Statistics
Matches: 118, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
57 4 0.03
58 15 0.13
59 52 0.44
60 43 0.36
61 4 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (56 bp):
TTTTCCTTAAAATAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAA
Found at i:12120314 original size:60 final size:58
Alignment explanation
Indices: 12120151--12120322 Score: 238
Period size: 59 Copynumber: 2.9 Consensus size: 58
12120141 TTTACTTAAG
** *
12120151 AATAAATTTGAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTATA
1 AATAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATA
* ** *
12120209 AATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-A
1 AATAAATTTCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-ATA
12120268 AATCGAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAT--AAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
12120323 CTAAAAAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
58 16 0.16
59 37 0.37
60 33 0.33
61 14 0.14
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (58 bp):
AATAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATA
Found at i:12121029 original size:12 final size:12
Alignment explanation
Indices: 12121012--12121046 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12121002 TTAAAATCTT
*
12121012 ATATATAATACA
1 ATATATAATAAA
12121024 ATATATAATAAA
1 ATATATAATAAA
*
12121036 ATATAAAATAA
1 ATATATAATAA
12121047 CTTTCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:12127621 original size:6 final size:6
Alignment explanation
Indices: 12127610--12127648 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
12127600 ATATACACAG
12127610 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATG
1 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATG
12127649 TACACACGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (6 bp):
ATGCAC
Found at i:12128260 original size:106 final size:106
Alignment explanation
Indices: 12128067--12128260 Score: 273
Period size: 106 Copynumber: 1.8 Consensus size: 106
12128057 GTGTTGAATT
** *
12128067 TAGACATGGTATGTTGTCTGATGTGTATAAATGTCACTGCCATATGCATCTTGGTCCATGTATAT
1 TAGACATGGTATGTTGTCTGATGCATATAAATGTCACTGCCATATGCATCTTGGTCCATATATAT
**
12128132 GATTGATTATTTTTGTTGGAATTAATTTACGCTGGGGGGTA
66 GATTGATTATTTTCCTTGGAATTAATTTACGCTGGGGGGTA
* * * ***
12128173 TAGACATGGTATGTTTTCTGATGCATATAAATGTCACTGCCATATGCGT-TTTGTTTGTATATAT
1 TAGACATGGTATGTTGTCTGATGCATATAAATGTCACTGCCATATGCATCTTGGTCCATATATAT
12128237 GATTGATTATTTTCCTTGAGAATT
66 GATTGATTATTTTCCTTG-GAATT
12128261 TGTTGGAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
105 26 0.34
106 50 0.66
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (106 bp):
TAGACATGGTATGTTGTCTGATGCATATAAATGTCACTGCCATATGCATCTTGGTCCATATATAT
GATTGATTATTTTCCTTGGAATTAATTTACGCTGGGGGGTA
Found at i:12132385 original size:23 final size:22
Alignment explanation
Indices: 12132358--12132400 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
12132348 AAAATGATAC
12132358 TAAAAAAAGGGGAAGAAACAATG
1 TAAAAAAAGGGGAA-AAACAATG
* *
12132381 TAAAAAGAGGGGGAAAACAA
1 TAAAAAAAGGGGAAAAACAA
12132401 AAAATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.60, C:0.05, G:0.28, T:0.07
Consensus pattern (22 bp):
TAAAAAAAGGGGAAAAACAATG
Found at i:12132962 original size:21 final size:21
Alignment explanation
Indices: 12132932--12132973 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12132922 ACTCTCCACG
* *
12132932 TCTCCTACGCTCTCTCCCAAC
1 TCTCCAACGCTATCTCCCAAC
*
12132953 TCTCCAACGCTATTTCCCAAC
1 TCTCCAACGCTATCTCCCAAC
12132974 CTCTTTTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.48, G:0.05, T:0.29
Consensus pattern (21 bp):
TCTCCAACGCTATCTCCCAAC
Found at i:12133974 original size:2 final size:2
Alignment explanation
Indices: 12133967--12134003 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12133957 ACTTTGTATG
12133967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12134004 CCAAAATATT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12134718 original size:25 final size:25
Alignment explanation
Indices: 12134679--12134766 Score: 97
Period size: 25 Copynumber: 3.3 Consensus size: 25
12134669 GTCATTACAC
12134679 ATTGACT-AGTTCTTGTAGCATTCT
1 ATTGACTAAGTTCTTGTAGCATTCT
12134703 ATTGACTAAGTTCTTGTAGCATTTTATTTCT
1 ATTGACTAAGTTCTTGTAGC-----A-TTCT
* *
12134734 ATTGACTAAGTTCCTGTAGCATTTT
1 ATTGACTAAGTTCTTGTAGCATTCT
12134759 ATTGACTA
1 ATTGACTA
12134767 TGTTACCTCA
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
24 7 0.13
25 23 0.42
26 1 0.02
30 1 0.02
31 23 0.42
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTGACTAAGTTCTTGTAGCATTCT
Found at i:12134737 original size:31 final size:31
Alignment explanation
Indices: 12134699--12134761 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
12134689 TCTTGTAGCA
*
12134699 TTCTATTGACTAAGTTCTTGTAGCATTTTAT
1 TTCTATTGACTAAGTTCCTGTAGCATTTTAT
12134730 TTCTATTGACTAAGTTCCTGTAGCATTTTAT
1 TTCTATTGACTAAGTTCCTGTAGCATTTTAT
12134761 T
1 T
12134762 GACTATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (31 bp):
TTCTATTGACTAAGTTCCTGTAGCATTTTAT
Found at i:12142371 original size:22 final size:23
Alignment explanation
Indices: 12142345--12142391 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12142335 TTGATCATTA
12142345 TTTT-AAAATAAAATTTAAAAAT
1 TTTTAAAAATAAAATTTAAAAAT
* *
12142367 TTTTAAAAATACAATTTATAAAT
1 TTTTAAAAATAAAATTTAAAAAT
12142390 TT
1 TT
12142392 GAGTTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTAAAAATAAAATTTAAAAAT
Found at i:12142426 original size:24 final size:24
Alignment explanation
Indices: 12142399--12142449 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
12142389 TTTGAGTTTC
12142399 AATTTT-TTCAAAATATATATTTTA
1 AATTTTATTCAAAATA-ATATTTTA
*
12142423 AATTTTAATTCAATATAATATTTTA
1 AATTTT-ATTCAAAATAATATTTTA
12142448 AA
1 AA
12142450 AAATCAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTTTATTCAAAATAATATTTTA
Found at i:12142517 original size:16 final size:16
Alignment explanation
Indices: 12142496--12142529 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12142486 TAATAAAGGC
12142496 AATTATTTTAAGACGA
1 AATTATTTTAAGACGA
*
12142512 AATTATTTTAAGATGA
1 AATTATTTTAAGACGA
12142528 AA
1 AA
12142530 GAAATACTAA
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:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (16 bp):
AATTATTTTAAGACGA
Found at i:12148434 original size:21 final size:21
Alignment explanation
Indices: 12148390--12148436 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12148380 TTATTTAAAT
* *
12148390 TTAATTATTTAATTATATTAA
1 TTAATTATTCAATTAGATTAA
12148411 TTAATTATTCAATT-GATTATA
1 TTAATTATTCAATTAGATTA-A
12148432 TTAAT
1 TTAAT
12148437 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATTATTCAATTAGATTAA
Found at i:12148459 original size:1 final size:1
Alignment explanation
Indices: 12148455--12148479 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
12148445 AATAAAACTT
12148455 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
12148480 CAATAGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12149657 original size:30 final size:30
Alignment explanation
Indices: 12149623--12149707 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
12149613 TACTAAATTT
*
12149623 TTTATTTTGAATT-AATTAATTTTTTAAATA
1 TTTATTTT-AATTCAATTAAATTTTTAAATA
*
12149653 TTTATTTTTATTCAATTAAATTTTTAAATA
1 TTTATTTTAATTCAATTAAATTTTTAAATA
* *
12149683 TTTA-TTTCACTCTAATTAAATTTTT
1 TTTATTTTAATTC-AATTAAATTTTT
12149708 TATTAAACCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.18
30 40 0.82
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTATTTTAATTCAATTAAATTTTTAAATA
Found at i:12154888 original size:20 final size:21
Alignment explanation
Indices: 12154854--12154893 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12154844 ATAATTTTCA
12154854 CGGAATTAAATTTAT-TAAAT
1 CGGAATTAAATTTATGTAAAT
12154874 CGGAATTTAAA-TTATGTAAA
1 CGGAA-TTAAATTTATGTAAA
12154894 AACCCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
CGGAATTAAATTTATGTAAAT
Found at i:12155384 original size:22 final size:23
Alignment explanation
Indices: 12155359--12155401 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
12155349 AATTTGTTAA
12155359 TTTA-ATTATTAAAA-TTAATTTT
1 TTTATATT-TTAAAATTTAATTTT
12155381 TTTATATTTTAAAATTTAATT
1 TTTATATTTTAAAATTTAATT
12155402 ATTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATATTTTAAAATTTAATTTT
Found at i:12155692 original size:23 final size:24
Alignment explanation
Indices: 12155666--12155713 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12155656 ATTTTTACTA
12155666 AAATTTTAAA-TTGTATTATTTTT
1 AAATTTTAAATTTGTATTATTTTT
*
12155689 AAATTTTAAATTTTTATTATTTTT
1 AAATTTTAAATTTGTATTATTTTT
12155713 A
1 A
12155714 TATTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATTTTAAATTTGTATTATTTTT
Found at i:12160401 original size:13 final size:13
Alignment explanation
Indices: 12160383--12160412 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12160373 CTTTTGGAAG
12160383 CAAAAGCAACTAC
1 CAAAAGCAACTAC
*
12160396 CAAAAGTAACTAC
1 CAAAAGCAACTAC
12160409 CAAA
1 CAAA
12160413 CAGTATCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.27, G:0.07, T:0.10
Consensus pattern (13 bp):
CAAAAGCAACTAC
Found at i:12173024 original size:174 final size:175
Alignment explanation
Indices: 12172797--12173115 Score: 514
Period size: 174 Copynumber: 1.8 Consensus size: 175
12172787 ATTCGATTTT
* * *
12172797 AAATATCGATTCGATAAATTTAAATCTAAATATGATCAATTTGATTGGATATAACATAAATTTAT
1 AAATATCAATTCGATAAATCTAAATCTAAATACGATCAATTTGATTGGATATAACATAAATTTAT
* * * * *
12172862 ATTATTAGTAAATTATTTTTTAATTATTTAACGTTGATATTTTAATTTTTATATAATTTAATTAT
66 ATTATTAATAAATTATTTTTAAATAATTTAACGATGATATTTTAATTTTTATATAACTTAATTAT
12172927 ATTTATTAAATTTTATATTTATTTTTAAAAAATTAGTCAAATCTA
131 ATTTATTAAATTTTATATTTATTTTTAAAAAATTAGTCAAATCTA
* * * *
12172972 AAATATCAATTC-ATAAATCTAAATTTAAATACGATCGATTTGATTTGATATAACATAATTTTAT
1 AAATATCAATTCGATAAATCTAAATCTAAATACGATCAATTTGATTGGATATAACATAAATTTAT
*
12173036 ATTATTAATAAATTATTTTTAAATAATTTAATGATGATATTTTAATTTTTATATAACTTAATTAT
66 ATTATTAATAAATTATTTTTAAATAATTTAACGATGATATTTTAATTTTTATATAACTTAATTAT
12173101 ATTTATTAAATTTTA
131 ATTTATTAAATTTTA
12173116 AAAATTAATA
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
174 120 0.92
175 11 0.08
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (175 bp):
AAATATCAATTCGATAAATCTAAATCTAAATACGATCAATTTGATTGGATATAACATAAATTTAT
ATTATTAATAAATTATTTTTAAATAATTTAACGATGATATTTTAATTTTTATATAACTTAATTAT
ATTTATTAAATTTTATATTTATTTTTAAAAAATTAGTCAAATCTA
Found at i:12173086 original size:30 final size:29
Alignment explanation
Indices: 12173050--12173121 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
12173040 TTAATAAATT
12173050 ATTTTTAAATAATTTAATGATGATATT-TTA
1 ATTTTTAAATAATTTAATGAT-AT-TTATTA
* * *
12173080 ATTTTTATATAACTTAATTATATTTATTA
1 ATTTTTAAATAATTTAATGATATTTATTA
*
12173109 AATTTTAAA-AATT
1 ATTTTTAAATAATT
12173122 AATAAATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 5 0.14
29 12 0.34
30 18 0.51
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
ATTTTTAAATAATTTAATGATATTTATTA
Found at i:12174464 original size:19 final size:19
Alignment explanation
Indices: 12174417--12174464 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12174407 AAATTTTTTC
*
12174417 TTAAAATTTATTAAATAATAG
1 TTAAAA-TT-TTAAATAATAA
*
12174438 TTAAAATTTTAAATATTAA
1 TTAAAATTTTAAATAATAA
*
12174457 TTATAATT
1 TTAAAATT
12174465 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 2 0.08
21 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAAATTTTAAATAATAA
Found at i:12174614 original size:29 final size:28
Alignment explanation
Indices: 12174559--12174627 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
12174549 ATAATTTTAT
12174559 TAAAAATATAATAAAATTAAAAAAAATGA
1 TAAAAA-ATAATAAAATTAAAAAAAATGA
* *
12174588 CTAAAAAATAATAAAA-TATAAATAAATTA
1 -TAAAAAATAATAAAATTA-AAAAAAATGA
12174617 -AAAAAATAATA
1 TAAAAAATAATA
12174628 TTTTAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 11 0.31
28 2 0.06
29 17 0.47
30 6 0.17
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAAAAATAATAAAATTAAAAAAAATGA
Found at i:12188705 original size:21 final size:21
Alignment explanation
Indices: 12188657--12188705 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12188647 CCTCTAACAC
*
12188657 AATTTTGGTAACCTTTAATAT
1 AATTTTGGCAACCTTTAATAT
* *
12188678 TAGTTTGGCAA-CTTATAATAT
1 AATTTTGGCAACCTT-TAATAT
12188699 AATTTTG
1 AATTTTG
12188706 ATAACTATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (21 bp):
AATTTTGGCAACCTTTAATAT
Found at i:12189091 original size:53 final size:53
Alignment explanation
Indices: 12189033--12189139 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
12189023 ACTTTAAGAA
** *
12189033 TAAAAAATTTTTTAATAATTGATAACTAAGTTATTATTGATATGCTATACTTT
1 TAAAAAAAATTTTAATAATTGATAACTAAGTTATTATTGATATACTATACTTT
* *
12189086 TAAAAAAAATTTTAATAATTGATAATTAAGTTATTATTGATATATTATACTTT
1 TAAAAAAAATTTTAATAATTGATAACTAAGTTATTATTGATATACTATACTTT
12189139 T
1 T
12189140 TTGATGGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (53 bp):
TAAAAAAAATTTTAATAATTGATAACTAAGTTATTATTGATATACTATACTTT
Found at i:12190883 original size:52 final size:52
Alignment explanation
Indices: 12190779--12190883 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
12190769 TATAACCATA
** * *
12190779 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTAACTATTAAGAATCCCTTTCCTCTTAGAAATCTTCTCTTGCAAGT
* * *
12190831 CAAACTTAACTATTAAGAATCCTCTTT-CTTTTAGAAATCTTCTTTTGTAAGT
1 CAAACTTAACTATTAAGAATCC-CTTTCCTCTTAGAAATCTTCTCTTGCAAGT
12190883 C
1 C
12190884 TTCTTGTCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.42
Consensus pattern (52 bp):
CAAACTTAACTATTAAGAATCCCTTTCCTCTTAGAAATCTTCTCTTGCAAGT
Found at i:12192906 original size:11 final size:11
Alignment explanation
Indices: 12192890--12192942 Score: 97
Period size: 11 Copynumber: 4.8 Consensus size: 11
12192880 AATCCCATAA
12192890 GAGATTTGTTT
1 GAGATTTGTTT
*
12192901 GAGATTTGTTA
1 GAGATTTGTTT
12192912 GAGATTTGTTT
1 GAGATTTGTTT
12192923 GAGATTTGTTT
1 GAGATTTGTTT
12192934 GAGATTTGT
1 GAGATTTGT
12192943 CAGATATTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:12193085 original size:52 final size:50
Alignment explanation
Indices: 12192979--12193121 Score: 162
Period size: 52 Copynumber: 2.8 Consensus size: 50
12192969 CTTGCAAAAA
* * *
12192979 AAGAATTCTAAGAGAGAGGATTCTTAATAGGTAAGTTTAACTTGCAAGAC
1 AAGAATTCTAAGAGAGAGGATTCTTAATAGGCAAGTTTGACTTACAAGAC
* * * *
12193029 AAGAATTCTAAAAGAAAAGGGATTCTTAATAGGCAAATTTGACTTAC-AGAAG
1 AAGAATTCTAAGAG-AGA-GGATTCTTAATAGGCAAGTTTGACTTACAAG-AC
*
12193081 AAGAATTCTAAGAGGAGATGGATTCTTAATGGGCAAGTTTG
1 AAGAATTCTAAGA-GAGA-GGATTCTTAATAGGCAAGTTTG
12193122 TATGGTTATA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 13 0.17
51 4 0.05
52 59 0.77
53 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGAATTCTAAGAGAGAGGATTCTTAATAGGCAAGTTTGACTTACAAGAC
Found at i:12193566 original size:12 final size:12
Alignment explanation
Indices: 12193549--12193580 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
12193539 CTCTTGTGTG
12193549 TTTGATTTATTA
1 TTTGATTTATTA
12193561 TTTGATTTATTA
1 TTTGATTTATTA
12193573 TTTGATTT
1 TTTGATTT
12193581 TGCTTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (12 bp):
TTTGATTTATTA
Found at i:12196328 original size:17 final size:17
Alignment explanation
Indices: 12196291--12196327 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12196281 TAAGTCTTCA
12196291 TTTTCATTTTTTTATAT
1 TTTTCATTTTTTTATAT
*
12196308 TTTTCTTTTTTTTA-AT
1 TTTTCATTTTTTTATAT
12196324 TTTT
1 TTTT
12196328 TTCAACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCATTTTTTTATAT
Found at i:12197999 original size:22 final size:22
Alignment explanation
Indices: 12197956--12198009 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
12197946 ACTATGCTAA
*
12197956 AATTGATTTACTAATAAGTTAT
1 AATTGATTTACTAATAAATTAT
*
12197978 CATTGATTTAC-AACTAAATTAT
1 AATTGATTTACTAA-TAAATTAT
*
12198000 AAGTGATTTA
1 AATTGATTTA
12198010 GCATTTAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
AATTGATTTACTAATAAATTAT
Found at i:12198179 original size:11 final size:11
Alignment explanation
Indices: 12198163--12198225 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
12198153 GACAATTAAG
12198163 TTATTATTGAT
1 TTATTATTGAT
*
12198174 TTATTACT-AT
1 TTATTATTGAT
* *
12198184 GTTAGTAGTGAT
1 -TTATTATTGAT
* *
12198196 TTATTATTAAA
1 TTATTATTGAT
*
12198207 TTATTAATGAT
1 TTATTATTGAT
12198218 TTATTATT
1 TTATTATT
12198226 AAGTTATGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
10 2 0.05
11 35 0.90
12 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (11 bp):
TTATTATTGAT
Found at i:12198187 original size:22 final size:22
Alignment explanation
Indices: 12198159--12198298 Score: 122
Period size: 22 Copynumber: 6.4 Consensus size: 22
12198149 GATTGACAAT
*
12198159 TAAGTTATTATTGATTTATTAC
1 TAAGTTATTAATGATTTATTAC
* * * *
12198181 TATGTTAGTAGTGATTTATTAT
1 TAAGTTATTAATGATTTATTAC
* *
12198203 TAAATTATTAATGATTTATTAT
1 TAAGTTATTAATGATTTATTAC
* * *
12198225 TAAGTTATGAATAATTTACTAC
1 TAAGTTATTAATGATTTATTAC
* *
12198247 TAAGTTATTGATGATTTAGTAC
1 TAAGTTATTAATGATTTATTAC
* *
12198269 TTAA-TTATTGATAATTTATTA-
1 -TAAGTTATTAATGATTTATTAC
12198290 TAAAGTTAT
1 T-AAGTTAT
12198299 AACTAATTTA
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.01
21 2 0.02
22 90 0.94
23 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.51
Consensus pattern (22 bp):
TAAGTTATTAATGATTTATTAC
Found at i:12198263 original size:66 final size:65
Alignment explanation
Indices: 12198157--12198330 Score: 174
Period size: 66 Copynumber: 2.6 Consensus size: 65
12198147 TCGATTGACA
* * * * * * *
12198157 ATTAAGTTATTATTGATTTATTACTATGTTAGT-AGTGATTTATTA-TTAAATTATTAATGATTT
1 ATTAAGTTA-TAATAATTTACTACTAAGTTATTGA-TGATTTAGTACTT-AATTATTAATAATTT
12198220 ATT
63 ATT
*
12198223 ATTAAGTTATGAATAATTTACTACTAAGTTATTGATGATTTAGTACTTAATTATTGATAATTTAT
1 ATTAAGTTAT-AATAATTTACTACTAAGTTATTGATGATTTAGTACTTAATTATTAATAATTTAT
12198288 T
65 T
* * *
12198289 ATAAAGTTATAACTAATTTACTA-TAAAATTATCGATGATTTA
1 ATTAAGTTATAA-TAATTTACTACT-AAGTTATTGATGATTTA
12198331 CTACAAAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
65 4 0.04
66 85 0.92
67 3 0.03
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (65 bp):
ATTAAGTTATAATAATTTACTACTAAGTTATTGATGATTTAGTACTTAATTATTAATAATTTATT
Found at i:12198848 original size:22 final size:22
Alignment explanation
Indices: 12198823--12198907 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
12198813 TAATTTTTCG
*
12198823 CTAAGTTATAGATGATTTACTA
1 CTAAGTTATAGATAATTTACTA
* * * *
12198845 CTAAGTTTTAAACAATTTATTA
1 CTAAGTTATAGATAATTTACTA
*
12198867 CTAAGTTATTGATAATTTACTA
1 CTAAGTTATAGATAATTTACTA
*
12198889 TTAAGTTATTA-ATAATTTA
1 CTAAGTTA-TAGATAATTTA
12198908 TTATGATGTT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 49 0.98
23 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (22 bp):
CTAAGTTATAGATAATTTACTA
Found at i:12198907 original size:66 final size:66
Alignment explanation
Indices: 12198824--12198971 Score: 151
Period size: 66 Copynumber: 2.2 Consensus size: 66
12198814 AATTTTTCGC
* *
12198824 TAAGTTA-TAGATGATTTACTACT-AAGTT-TTAAACAATTTATTACT-AAGTTATTGATAATTT
1 TAAGTTATTA-ATAATTTACTA-TGAAGTTATT-AACAATTTACTA-TAAAGTTATTGATAATTT
12198885 ACTAT
62 ACTAT
* * *** *
12198890 TAAGTTATTAATAATTTATTATGATGTTATTATTTATTTACTATAAAGTTATTGATGATTTACTA
1 TAAGTTATTAATAATTTACTATGAAGTTATTAACAATTTACTATAAAGTTATTGATAATTTACTA
12198955 T
66 T
*
12198956 AAAGTTATTAATAATT
1 TAAGTTATTAATAATT
12198972 AATTAATTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
65 2 0.03
66 63 0.91
67 4 0.06
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (66 bp):
TAAGTTATTAATAATTTACTATGAAGTTATTAACAATTTACTATAAAGTTATTGATAATTTACTA
T
Found at i:12198910 original size:11 final size:11
Alignment explanation
Indices: 12198858--12198910 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
12198848 AGTTTTAAAC
*
12198858 AATTTATTACT
1 AATTTATTAAT
* *
12198869 AAGTTATTGAT
1 AATTTATTAAT
* *
12198880 AATTTACTATT
1 AATTTATTAAT
*
12198891 AAGTTATTAAT
1 AATTTATTAAT
12198902 AATTTATTA
1 AATTTATTA
12198911 TGATGTTATT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (11 bp):
AATTTATTAAT
Found at i:12198918 original size:22 final size:22
Alignment explanation
Indices: 12198869--12198971 Score: 125
Period size: 22 Copynumber: 4.7 Consensus size: 22
12198859 ATTTATTACT
* *
12198869 AAGTTATTGATAATTTACTATT
1 AAGTTATTAATAATTTACTATA
* *
12198891 AAGTTATTAATAATTTATTATG
1 AAGTTATTAATAATTTACTATA
* * *
12198913 ATGTTATTATTTATTTACTATA
1 AAGTTATTAATAATTTACTATA
* *
12198935 AAGTTATTGATGATTTACTATA
1 AAGTTATTAATAATTTACTATA
12198957 AAGTTATTAATAATT
1 AAGTTATTAATAATT
12198972 AATTAATTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (22 bp):
AAGTTATTAATAATTTACTATA
Found at i:12198919 original size:44 final size:43
Alignment explanation
Indices: 12198824--12198971 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 43
12198814 AATTTTTCGC
* * * *
12198824 TAAGTTATAGATGATTTACTACTAAGTT-TTAAACAATTTATTA
1 TAAGTTATTGATAATTTACTATTAAGTTATT-AATAATTTATTA
12198867 CTAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
1 -TAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
* * * * * *
12198911 TGATGTTATT-ATTTATTTACTATAAAGTTATTGATGATTTACTA
1 T-AAGTTATTGA-TAATTTACTATTAAGTTATTAATAATTTATTA
*
12198955 TAAAGTTATTAATAATT
1 T-AAGTTATTGATAATT
12198972 AATTAATTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.02
44 82 0.94
45 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (43 bp):
TAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
Found at i:12198999 original size:22 final size:22
Alignment explanation
Indices: 12198973--12199039 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
12198963 TTAATAATTA
*
12198973 ATTAATTTACAACTAAATTATC
1 ATTAATTTATAACTAAATTATC
* *
12198995 ATTAATTTATAACAAAATTATA
1 ATTAATTTATAACTAAATTATC
* * *
12199017 ACTGATTTATAACTAAGTTATC
1 ATTAATTTATAACTAAATTATC
12199039 A
1 A
12199040 ATGTTTTACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.40
Consensus pattern (22 bp):
ATTAATTTATAACTAAATTATC
Found at i:12199058 original size:22 final size:22
Alignment explanation
Indices: 12199019--12199119 Score: 105
Period size: 22 Copynumber: 4.6 Consensus size: 22
12199009 AAATTATAAC
12199019 TGATTTA-TAACTAAGTTATCAA
1 TGATTTACT-ACTAAGTTATCAA
* * * * *
12199041 TGTTTTACTATTACGTTATTAG
1 TGATTTACTACTAAGTTATCAA
*
12199063 TGATTTACTACTAAGTTATCGA
1 TGATTTACTACTAAGTTATCAA
* * *
12199085 TAATTTACTACTAAATTATTAA
1 TGATTTACTACTAAGTTATCAA
12199107 TGATTTACTACTA
1 TGATTTACTACTA
12199120 TACTATTATG
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
22 61 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (22 bp):
TGATTTACTACTAAGTTATCAA
Found at i:12199092 original size:44 final size:44
Alignment explanation
Indices: 12198977--12199119 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 44
12198967 TAATTAATTA
* * * *
12198977 ATTTACAACTAAATTATCATTAATTTA-TAACAAAATTA-TAACTG
1 ATTTACTACTAAGTTATCAATAATTTACT-ACTAAATTATTAA-TG
** * ** *
12199021 ATTTA-TAACTAAGTTATCAATGTTTTACTATTACGTTATTAGTG
1 ATTTACT-ACTAAGTTATCAATAATTTACTACTAAATTATTAATG
*
12199065 ATTTACTACTAAGTTATCGATAATTTACTACTAAATTATTAATG
1 ATTTACTACTAAGTTATCAATAATTTACTACTAAATTATTAATG
12199109 ATTTACTACTA
1 ATTTACTACTA
12199120 TACTATTATG
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
44 74 0.95
45 4 0.05
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.43
Consensus pattern (44 bp):
ATTTACTACTAAGTTATCAATAATTTACTACTAAATTATTAATG
Found at i:12199126 original size:22 final size:22
Alignment explanation
Indices: 12199056--12199162 Score: 83
Period size: 22 Copynumber: 4.9 Consensus size: 22
12199046 TACTATTACG
*
12199056 TTATTAGTGATTTACTACTA-A
1 TTATTAATGATTTACTACTATA
** * *
12199077 GTTATCGATAATTTACTACTAAA
1 -TTATTAATGATTTACTACTATA
12199100 TTATTAATGATTTACTACTATA
1 TTATTAATGATTTACTACTATA
* * * *
12199122 CTATT-ATGCAGTTGCTACTTTA
1 TTATTAATG-ATTTACTACTATA
* *
12199144 TTATCATTGATTTACTACT
1 TTATTAATGATTTACTACT
12199163 GAGTTTTAGT
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
21 3 0.05
22 59 0.91
23 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATTAATGATTTACTACTATA
Found at i:12199373 original size:19 final size:19
Alignment explanation
Indices: 12199328--12199373 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
12199318 ATTATCAATG
*
12199328 ATTAA-TTATTAAGTTATC
1 ATTAATTTATAAAGTTATC
**
12199346 ATTTTTTTATAAAGTTATC
1 ATTAATTTATAAAGTTATC
12199365 ATTAATTTA
1 ATTAATTTA
12199374 CAACTATGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTAATTTATAAAGTTATC
Found at i:12199416 original size:22 final size:22
Alignment explanation
Indices: 12199359--12199417 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
12199349 TTTTTATAAA
* * *
12199359 GTTATCATTAATTTACAACTAT
1 GTTATAATTGATTTAAAACTAT
* *
12199381 GTTATTA-TGCATTTAAAATTAT
1 GTTATAATTG-ATTTAAAACTAT
12199403 GTTATAATTGATTTA
1 GTTATAATTGATTTA
12199418 TTATTAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.90
23 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (22 bp):
GTTATAATTGATTTAAAACTAT
Found at i:12199973 original size:22 final size:22
Alignment explanation
Indices: 12199948--12200087 Score: 167
Period size: 22 Copynumber: 6.4 Consensus size: 22
12199938 ACTGAATCTT
12199948 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
*
12199970 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
*
12199992 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
12200014 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
12200036 ATTAACTACTAAGTTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
**
12200058 ATTTTTTATTAAGTTAT-ACTTA
1 ATTTACTATTAAGTTATCA-TTA
12200080 ATTTACTA
1 ATTTACTA
12200088 ATATGTGTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
21 4 0.04
22 97 0.95
23 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:12199980 original size:11 final size:11
Alignment explanation
Indices: 12199948--12200003 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
12199938 ACTGAATCTT
12199948 ATTTACTATTA
1 ATTTACTATTA
*
12199959 AGTTA-TCATTA
1 ATTTACT-ATTA
12199970 ATTTACTATTA
1 ATTTACTATTA
* *
12199981 AGTTA-TCATTG
1 ATTTACT-ATTA
12199992 ATTTACTATTA
1 ATTTACTATTA
12200003 A
1 A
12200004 GTTATCATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
10 2 0.06
11 31 0.89
12 2 0.06
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (11 bp):
ATTTACTATTA
Found at i:12200219 original size:22 final size:21
Alignment explanation
Indices: 12200194--12200405 Score: 65
Period size: 22 Copynumber: 9.7 Consensus size: 21
12200184 ATACATTATT
12200194 TTATCAATTATTTACTACTAAA
1 TTAT-AATTATTTACTACTAAA
* * *
12200216 TTATTATTTATTTACTATTAAG
1 TTA-TAATTATTTACTACTAAA
* * *
12200238 TTATTATTATTTTACTATTAAT
1 TTATAATTA-TTTACTACTAAA
* * * *
12200260 TTATCCATAAGTTACTA-TACAG
1 TTAT-AATTATTTACTACTA-AA
* *
12200282 TTATTATTAATTTAGTA-TAAA
1 TTATAATT-ATTTACTACTAAA
* **
12200303 GTTATTATTGATTTTGT-CTAAA
1 -TTATAATT-ATTTACTACTAAA
* * *
12200325 TTATCACTAATTTA-TAATAAAA
1 TTAT-AATTATTTACTACT-AAA
* * *
12200347 TTATCAATAATTTGCTACTATA
1 TTAT-AATTATTTACTACTAAA
*
12200369 TTATTACA-CATTTACTACTAAA
1 TTA-TA-ATTATTTACTACTAAA
12200391 TTATAATTGATTTAC
1 TTATAATT-ATTTAC
12200406 CATTAAATCT
Statistics
Matches: 145, Mismatches: 30, Indels: 30
0.71 0.15 0.15
Matches are distributed among these distances:
20 2 0.01
21 20 0.14
22 114 0.79
23 9 0.06
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (21 bp):
TTATAATTATTTACTACTAAA
Found at i:12200245 original size:11 final size:11
Alignment explanation
Indices: 12200216--12200311 Score: 52
Period size: 11 Copynumber: 8.7 Consensus size: 11
12200206 TACTACTAAA
* *
12200216 TTATTATTTAT
1 TTATTATTAAG
*
12200227 TTACTATTAAG
1 TTATTATTAAG
**
12200238 TTATTATTATT
1 TTATTATTAAG
* *
12200249 TTACTATTAAT
1 TTATTATTAAG
*
12200260 TTATCCA-TAAG
1 TTAT-TATTAAG
*
12200271 TTACTA-TACAG
1 TTATTATTA-AG
*
12200282 TTATTATTAAT
1 TTATTATTAAG
* *
12200293 TTAGTATAAAG
1 TTATTATTAAG
12200304 TTATTATT
1 TTATTATT
12200312 GATTTTGTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
10 3 0.05
11 56 0.90
12 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:12200504 original size:38 final size:36
Alignment explanation
Indices: 12200462--12200533 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
12200452 GGTGTAATAT
**
12200462 ATTATAAACACTAAATTTATTGCCATTTTTACAAATCG
1 ATTATAAACA-TAAAAGTATTGCCA-TTTTACAAATCG
**
12200500 ATTATAATGATAAAAGTATTGCCATTTTACAAAT
1 ATTATAAACATAAAAGTATTGCCATTTTACAAAT
12200534 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 10 0.33
37 12 0.40
38 8 0.27
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (36 bp):
ATTATAAACATAAAAGTATTGCCATTTTACAAATCG
Found at i:12203031 original size:34 final size:34
Alignment explanation
Indices: 12202983--12203069 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 34
12202973 GTGTCAAAGG
* * * *
12202983 TACAAACGTCGCTAATATAGCAGTGTTTTCTAGA
1 TACAAATGTCGCTAATATAACAATGTTTTCTAAA
*
12203017 TACAAATGTTGCTAATATAACAATGTTTTCTAAA
1 TACAAATGTCGCTAATATAACAATGTTTTCTAAA
**
12203051 TACAAATACCGCTAATATA
1 TACAAATGTCGCTAATATA
12203070 GTGGCATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (34 bp):
TACAAATGTCGCTAATATAACAATGTTTTCTAAA
Found at i:12203088 original size:34 final size:34
Alignment explanation
Indices: 12203050--12203125 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
12203040 TGTTTTCTAA
*
12203050 ATACAAATACCGCTAATATAGTGGCATTTTTCAT
1 ATACAAATACCGCTAATATAGTGACATTTTTCAT
** * *
12203084 ATACAAACGCTGCTAATATAGTGATATTTTTCAT
1 ATACAAATACCGCTAATATAGTGACATTTTTCAT
12203118 ATACAAAT
1 ATACAAAT
12203126 GTCACTAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (34 bp):
ATACAAATACCGCTAATATAGTGACATTTTTCAT
Found at i:12204931 original size:32 final size:32
Alignment explanation
Indices: 12204894--12204965 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
12204884 GAATTATAAA
12204894 AATTAAATAATCAAAAGCGGATGTTTACTAAT
1 AATTAAATAATCAAAAGCGGATGTTTACTAAT
* *
12204926 AATTAAATAATCAAAAGCGGGTGTTTACTGAT
1 AATTAAATAATCAAAAGCGGATGTTTACTAAT
*
12204958 AATCAAAT
1 AATTAAAT
12204966 TTTCTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (32 bp):
AATTAAATAATCAAAAGCGGATGTTTACTAAT
Found at i:12213395 original size:42 final size:41
Alignment explanation
Indices: 12213307--12213649 Score: 401
Period size: 41 Copynumber: 8.4 Consensus size: 41
12213297 CTCAATGACT
* *
12213307 TTTG-AAAATAAATTAAGCTCCTTTATACAGAGGCACCACAAC
1 TTTGAAAAATAAATT--GCTCCTCTAAACAGAGGCACCACAAC
* *
12213349 TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
*
12213390 TTTTG-AAAATAAAATGCTCCTCTAAACAGAGGCACCACAAC
1 -TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
* * * * *
12213431 TTTGGAAAATAAATTGCTCTTGTAAATAGAGGCACCATAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
* *
12213472 TTTG---AATAAATTGCTTC-CTAAACAAAGGCACCACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
12213509 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
* * * * ** *
12213550 TTTGAAAGAATAAATTGCTCCTTTAAATAAAGACAATAGAAC
1 TTTGAAA-AATAAATTGCTCCTCTAAACAGAGGCACCACAAC
* *
12213592 TTTGGAAAAATAAATTGCTCCTCTAAATAGAGGCAACACAAC
1 TTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
12213634 TTTGAAAAAATAAATT
1 TTTG-AAAAATAAATT
12213650 ACTCTTCGAC
Statistics
Matches: 261, Mismatches: 30, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
37 20 0.08
38 11 0.04
40 16 0.06
41 120 0.46
42 81 0.31
43 13 0.05
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (41 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC
Found at i:12214224 original size:11 final size:11
Alignment explanation
Indices: 12214208--12214239 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12214198 TATTCTTAAC
12214208 AATGCAGATGT
1 AATGCAGATGT
12214219 AATGC--ATGT
1 AATGCAGATGT
12214228 AATGCAGATGT
1 AATGCAGATGT
12214239 A
1 A
12214240 CATGTCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (11 bp):
AATGCAGATGT
Found at i:12214963 original size:9 final size:9
Alignment explanation
Indices: 12214949--12214985 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
12214939 TGAGTCCCCC
12214949 CTTTTTTTT
1 CTTTTTTTT
12214958 CTTTTTTTT
1 CTTTTTTTT
12214967 -TTTTTTTT
1 CTTTTTTTT
*
12214975 -TGTTTTTT
1 CTTTTTTTT
12214983 CTT
1 CTT
12214986 AAGCATAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 15 0.60
9 10 0.40
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:12221477 original size:23 final size:22
Alignment explanation
Indices: 12221449--12221495 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
12221439 CAGGAAAATA
12221449 ATGCATAGAATGAAATGATAATG
1 ATGCATAGAATGAAATGAT-ATG
*
12221472 ATGCATGGAATGAAATGATATG
1 ATGCATAGAATGAAATGATATG
12221494 AT
1 AT
12221496 AATATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.45, C:0.04, G:0.23, T:0.28
Consensus pattern (22 bp):
ATGCATAGAATGAAATGATATG
Found at i:12221525 original size:17 final size:17
Alignment explanation
Indices: 12221462--12221525 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
12221452 CATAGAATGA
*
12221462 AATGATAATGATGCATGG
1 AATGA-AATGATGCATAG
12221480 AATGAAATGATATG-ATA-
1 AATGAAATG--ATGCATAG
*
12221497 ATATAAAAATGATGCATAG
1 A-AT-GAAATGATGCATAG
12221516 AATGAAATGA
1 AATGAAATGA
12221526 AAATAATGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
17 14 0.38
18 14 0.38
19 9 0.24
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (17 bp):
AATGAAATGATGCATAG
Found at i:12222631 original size:10 final size:10
Alignment explanation
Indices: 12222612--12222640 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12222602 CTATTTAAAA
12222612 ATTA-TTTTT
1 ATTATTTTTT
12222621 ATTATTTTTT
1 ATTATTTTTT
12222631 ATTATTTTTT
1 ATTATTTTTT
12222641 TTAGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
ATTATTTTTT
Found at i:12232533 original size:21 final size:21
Alignment explanation
Indices: 12232465--12232533 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
12232455 CTTTGGATAA
* * *
12232465 AATTTT-GCAACCTCTAACAG
1 AATTTTGGCAACCTTTAATAT
*
12232485 AATTTTGGTAACCTTTAATAT
1 AATTTTGGCAACCTTTAATAT
* *
12232506 TAGTTTGGCAA-CTTATAATAT
1 AATTTTGGCAACCTT-TAATAT
12232527 AATTTTG
1 AATTTTG
12232534 ATAACTATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.24
21 29 0.76
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (21 bp):
AATTTTGGCAACCTTTAATAT
Done.