Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 22 of 199
Found at i:6471035 original size:24 final size:24
Alignment explanation
Indices: 6471008--6471074 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
6470998 ATTACCACTG
6471008 TTTTTATTATTACTCA-TATTATTA
1 TTTTTATTATTACT-ATTATTATTA
*
6471032 TTTTTATTCTTACTATTATTATTA
1 TTTTTATTATTACTATTATTATTA
* *
6471056 TTATTATTATTATTATTAT
1 TTTTTATTATTACTATTAT
6471075 CATCATCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTATTATTACTATTATTATTA
Found at i:6471079 original size:3 final size:3
Alignment explanation
Indices: 6471073--6471104 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6471063 TATTATTATT
6471073 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
6471105 TAGTTACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:6471315 original size:12 final size:13
Alignment explanation
Indices: 6471298--6471326 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6471288 GTTTTAATAT
6471298 TATTTG-TTTGTA
1 TATTTGTTTTGTA
6471310 TATTTGTTTTGTA
1 TATTTGTTTTGTA
6471323 TATT
1 TATT
6471327 ATGGATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TATTTGTTTTGTA
Found at i:6475294 original size:13 final size:13
Alignment explanation
Indices: 6475278--6475339 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
6475268 TACAAAATGA
6475278 TTATATGAATTGG
1 TTATATGAATTGG
* *
6475291 TTATACGAAATGG
1 TTATATGAATTGG
* * *
6475304 TTATGTGAAATGA
1 TTATATGAATTGG
* *
6475317 TTAAAAGAATTGG
1 TTATATGAATTGG
6475330 TTATATGAAT
1 TTATATGAAT
6475340 AAGTTATACG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (13 bp):
TTATATGAATTGG
Found at i:6475295 original size:26 final size:26
Alignment explanation
Indices: 6475257--6475315 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
6475247 GTTAACACTT
6475257 TGAAATGGCTATACAAAATGATTATA
1 TGAAATGGCTATACAAAATGATTATA
* * * * *
6475283 TGAATTGGTTATACGAAATGGTTATG
1 TGAAATGGCTATACAAAATGATTATA
6475309 TGAAATG
1 TGAAATG
6475316 ATTAAAAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (26 bp):
TGAAATGGCTATACAAAATGATTATA
Found at i:6475393 original size:27 final size:25
Alignment explanation
Indices: 6475361--6475419 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
6475351 GAACAAATAA
*
6475361 ATGAAATACCTATATGAAGCGGTTAT
1 ATGAAATAACTATATGAAG-GGTTAT
* *
6475387 ATAGAAATAATTATATGAAGTGTTAT
1 AT-GAAATAACTATATGAAGGGTTAT
6475413 ATGAAAT
1 ATGAAAT
6475420 GTTTATATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 9 0.31
27 15 0.52
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (25 bp):
ATGAAATAACTATATGAAGGGTTAT
Found at i:6475425 original size:25 final size:27
Alignment explanation
Indices: 6475371--6475428 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
6475361 ATGAAATACC
6475371 TATATGAAGCGGTTATATAGAAATAAT
1 TATATGAAGCGGTTATATAGAAATAAT
* **
6475398 TATATGAAG-TGTTATAT-GAAATGTT
1 TATATGAAGCGGTTATATAGAAATAAT
6475423 TATATG
1 TATATG
6475429 GATAGATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.43
26 7 0.25
27 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (27 bp):
TATATGAAGCGGTTATATAGAAATAAT
Found at i:6478424 original size:13 final size:13
Alignment explanation
Indices: 6478402--6478463 Score: 106
Period size: 13 Copynumber: 4.8 Consensus size: 13
6478392 TTCTTCATTG
6478402 CTTTTGAGAAGTA
1 CTTTTGAGAAGTA
*
6478415 CTTTTCAGAAGTA
1 CTTTTGAGAAGTA
*
6478428 CTTTTGAGAAGTG
1 CTTTTGAGAAGTA
6478441 CTTTTGAGAAGTA
1 CTTTTGAGAAGTA
6478454 CTTTTGAGAA
1 CTTTTGAGAA
6478464 ATTTGAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAGTA
Found at i:6479073 original size:22 final size:21
Alignment explanation
Indices: 6479048--6479091 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
6479038 AAGCATATGA
*
6479048 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
6479070 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
6479091 A
1 A
6479092 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:6479671 original size:12 final size:12
Alignment explanation
Indices: 6479654--6479679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6479644 CTCATACTCA
6479654 TCTTCTTCGTCT
1 TCTTCTTCGTCT
6479666 TCTTCTTCGTCT
1 TCTTCTTCGTCT
6479678 TC
1 TC
6479680 CTTTGCATCT
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:0.00, C:0.35, G:0.08, T:0.58
Consensus pattern (12 bp):
TCTTCTTCGTCT
Found at i:6479695 original size:15 final size:15
Alignment explanation
Indices: 6479675--6479703 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6479665 TTCTTCTTCG
6479675 TCTTCCTTTGCATCT
1 TCTTCCTTTGCATCT
6479690 TCTTCCTTTGCATC
1 TCTTCCTTTGCATC
6479704 CCCATCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.34, G:0.07, T:0.52
Consensus pattern (15 bp):
TCTTCCTTTGCATCT
Found at i:6499171 original size:24 final size:24
Alignment explanation
Indices: 6499144--6499191 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6499134 ATTGAAATGG
6499144 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
6499168 ATTGAATTTATATTGATTGAATTT
1 ATTGAATTTATATTGATTGAATTT
6499192 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:6508446 original size:25 final size:22
Alignment explanation
Indices: 6508392--6508454 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 22
6508382 AAACAACCAT
* *
6508392 AAAAATAAAAAAATATAGTTTA
1 AAAAATAAAAAAAAATAGTCTA
*
6508414 AAATATAAAAACAAAATAAGTCTA
1 AAAAATAAAAA-AAAAT-AGTCTA
6508438 AGAAAATAAAAATAAAA
1 A-AAAATAAAAA-AAAA
6508455 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 10 0.30
23 4 0.12
24 6 0.18
25 13 0.39
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAATAAAAAAAAATAGTCTA
Found at i:6508449 original size:6 final size:6
Alignment explanation
Indices: 6508440--6508520 Score: 153
Period size: 6 Copynumber: 13.5 Consensus size: 6
6508430 TAAGTCTAAG
6508440 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
6508488 AAAATA AAAATA AAAATA AAAATA AAAACA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
6508521 TAGACTCAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.84, C:0.01, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:6510294 original size:35 final size:36
Alignment explanation
Indices: 6510248--6510326 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
6510238 AAGGACAAAT
*
6510248 GTTAAATTGAG-TTTAATGACTCATTTAATTCA-GAC
1 GTTAATTTGAGTTTTAATGACTC-TTTAATTCACGAC
*
6510283 GTTAATTTGAGTTTTTAATGGCTCTTTAATTCACGGAC
1 GTTAATTTGAG-TTTTAATGACTCTTTAATTCAC-GAC
6510321 GTTAAT
1 GTTAAT
6510327 GGCTCCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
35 10 0.26
36 9 0.24
37 10 0.26
38 9 0.24
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (36 bp):
GTTAATTTGAGTTTTAATGACTCTTTAATTCACGAC
Found at i:6511226 original size:16 final size:16
Alignment explanation
Indices: 6511205--6511235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6511195 TAATTATACA
6511205 CTTAAAACTTTAATTG
1 CTTAAAACTTTAATTG
*
6511221 CTTAAAATTTTAATT
1 CTTAAAACTTTAATT
6511236 TTGATTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (16 bp):
CTTAAAACTTTAATTG
Found at i:6516984 original size:5 final size:5
Alignment explanation
Indices: 6516974--6517033 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
6516964 AATTCAAAAT
6516974 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
6517024 TATAA TATAA
1 TATAA TATAA
6517034 ATTGTGATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:6518590 original size:72 final size:72
Alignment explanation
Indices: 6518473--6518618 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
6518463 CAAAAGAAAA
* *
6518473 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
1 TTCTATGACTTTAGAAATAATTTAATTGAGTTGATTTATTTGATGTGAAATAAAATTAGGTGGTC
*
6518538 GCGAGAT
66 ACGAGAT
6518545 TTCTATGACTTTAGAAATAATTTAATTGAGTTGATTTATTTGATGTGAAATAAAATTAGGTGGTC
1 TTCTATGACTTTAGAAATAATTTAATTGAGTTGATTTATTTGATGTGAAATAAAATTAGGTGGTC
6518610 ACGAGAT
66 ACGAGAT
6518617 TT
1 TT
6518619 GTTCGACTAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.41
Consensus pattern (72 bp):
TTCTATGACTTTAGAAATAATTTAATTGAGTTGATTTATTTGATGTGAAATAAAATTAGGTGGTC
ACGAGAT
Found at i:6535579 original size:13 final size:13
Alignment explanation
Indices: 6535544--6535576 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
6535534 TAATTGAAAT
6535544 AATAGTTTAATTTG
1 AATA-TTTAATTTG
6535558 AATATTTAA-TTG
1 AATATTTAATTTG
6535570 AATATTT
1 AATATTT
6535577 TAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (13 bp):
AATATTTAATTTG
Found at i:6539105 original size:33 final size:34
Alignment explanation
Indices: 6539063--6539213 Score: 113
Period size: 33 Copynumber: 4.6 Consensus size: 34
6539053 ACTCTAGCTA
*
6539063 TGTTTACTGTCCCAATGA-ACTATCTCTTTTCTG
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
* *
6539096 TGTTTACTGTCTC-ATCAGACTATCTC--TTCTT
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
* * *
6539127 TATTTACTAGT-CCACT-GGACTATCTCTGTTT-TG
1 TGTTTACT-GTCCCAATCAGACTATCTCT-TTTCTG
* * * * * *
6539160 TGTTTACTATCCCAA-CATACTATTTATGTCCTG
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
6539193 TGTTTACTGTCCCAAT-AGACT
1 TGTTTACTGTCCCAATCAGACT
6539214 GCCATTGTGG
Statistics
Matches: 89, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
31 21 0.24
32 8 0.09
33 58 0.65
34 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (34 bp):
TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
Found at i:6543188 original size:23 final size:23
Alignment explanation
Indices: 6543158--6543217 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 23
6543148 GTTATAAAAA
6543158 TATTATTTAATATATATTAGATT
1 TATTATTTAATATATATTAGATT
6543181 TATTATTTAATAATATATATTAGATT
1 TATTA-TT--TAATATATATTAGATT
6543207 TATTATTTAAT
1 TATTATTTAAT
6543218 CTTTTAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 9 0.26
24 2 0.06
25 2 0.06
26 21 0.62
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATTTAATATATATTAGATT
Found at i:6543194 original size:26 final size:26
Alignment explanation
Indices: 6543165--6543217 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6543155 AAATATTATT
6543165 TAATATATATTAGATTTATTATTTAA
1 TAATATATATTAGATTTATTATTTAA
6543191 TAATATATATTAGATTTATTATTTAA
1 TAATATATATTAGATTTATTATTTAA
6543217 T
1 T
6543218 CTTTTAATTA
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:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TAATATATATTAGATTTATTATTTAA
Found at i:6544788 original size:38 final size:38
Alignment explanation
Indices: 6544711--6544789 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
6544701 TTACTGCTCT
* *
6544711 ATTGAGTACATGTTAAACATGTCTATTATTAGTGATGA
1 ATTGAGTACATGTTAAACATATCTATTACTAGTGATGA
*
6544749 ATTGAGTACATGTTAAACATATCTATTGCTAGT-ATTGA
1 ATTGAGTACATGTTAAACATATCTATTACTAGTGA-TGA
6544787 ATT
1 ATT
6544790 ATTCTATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (38 bp):
ATTGAGTACATGTTAAACATATCTATTACTAGTGATGA
Found at i:6547948 original size:43 final size:43
Alignment explanation
Indices: 6547871--6547990 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 43
6547861 CGTACAATGC
* * * *
6547871 CAACGTCCCAGA-TGTGGTCTTACATGTGATCACAAATCGACG-
1 CAACGTCCCAGACAG-GGTCTTACACGTAAACACAAATCGACGT
* * *
6547913 CCACTGTCCCAGACAGGGTCTTACACGTAAACACAAGTCGATGT
1 CAAC-GTCCCAGACAGGGTCTTACACGTAAACACAAATCGACGT
* * **
6547957 CAACGTCCCAGACATGGTCCTACACAAAAACACA
1 CAACGTCCCAGACAGGGTCTTACACGTAAACACA
6547991 TATCAAAAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.05
43 56 0.89
44 4 0.06
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (43 bp):
CAACGTCCCAGACAGGGTCTTACACGTAAACACAAATCGACGT
Found at i:6556196 original size:66 final size:66
Alignment explanation
Indices: 6556126--6556261 Score: 218
Period size: 66 Copynumber: 2.1 Consensus size: 66
6556116 GACCACAGTT
* * *
6556126 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCAGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCAGCAGCCAGAGAAGC
6556191 A
66 A
* * *
6556192 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCAGCAGCCAGAGAAGC
6556257 A
66 A
6556258 GAGG
1 GAGG
6556262 CTGCAGCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCAGCAGCCAGAGAAGC
A
Found at i:6556672 original size:43 final size:43
Alignment explanation
Indices: 6556611--6556786 Score: 302
Period size: 43 Copynumber: 4.1 Consensus size: 43
6556601 AACAAAAAGT
6556611 GGCGTTTGTGTTAG-AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTG-TAGAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
6556654 GGCGTTTGTGTAGAAAGCGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAGAAAGCGCCGCTAAAGAACATGTTCTTTAGC
6556697 GGCGTTTGTGTA-AAATGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAGAAA-GCGCCGCTAAAGAACATGTTCTTTAGC
*
6556740 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAGAAAGCGCCGCTAAAGAACATGTTCTTTAGC
6556783 GGCG
1 GGCG
6556787 CTTTTAAAAA
Statistics
Matches: 128, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
42 6 0.05
43 119 0.93
44 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGTAGAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:6572556 original size:16 final size:16
Alignment explanation
Indices: 6572535--6572566 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6572525 GATTTGGGAG
6572535 ATTTTCTTTTTATTTT
1 ATTTTCTTTTTATTTT
6572551 ATTTTCTTTTTATTTT
1 ATTTTCTTTTTATTTT
6572567 TTCTGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTCTTTTTATTTT
Found at i:6573835 original size:29 final size:29
Alignment explanation
Indices: 6573779--6573835 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
6573769 ACCTATTTTA
*
6573779 AACATTGTTAATTCATTCAAATTTGTTTC
1 AACATTGTTAATTCATTCAAATTGGTTTC
* *
6573808 AACATT-TTAATTTATTTAAATTAGGTTT
1 AACATTGTTAATTCATTCAAATT-GGTTT
6573836 AAGCTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (29 bp):
AACATTGTTAATTCATTCAAATTGGTTTC
Found at i:6574826 original size:3 final size:3
Alignment explanation
Indices: 6574820--6574994 Score: 83
Period size: 3 Copynumber: 57.3 Consensus size: 3
6574810 TGGTTTCGAC
* *
6574820 AAT AAT AA- AAT GAT AAT AAT AAAT AAT AATT CATT AAT AA- ACA- AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T -AAT AAT AAT A-AT AAT
* * * **
6574866 AAT AA- AAGT AAAT AAAT AAAT AAG AGT AAT AAT AGT AAT AAT AAT GGT
1 AAT AAT AA-T -AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
6574914 AGT AAA AAT AA- AAT AAA AAGT AAT AGT AAT AGT AAT AAC AGT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* *
6574959 AAT AGT AAC AA- AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6574995 GGAATAAAGT
Statistics
Matches: 131, Mismatches: 29, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
2 10 0.08
3 102 0.78
4 16 0.12
5 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:6579643 original size:29 final size:31
Alignment explanation
Indices: 6579580--6579644 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 31
6579570 TCATTTTTTG
*
6579580 TAAATATATTATTTGCCTAATTTTTCTGATTT
1 TAAATATATTATTT-CCTAATTTTTCTAATTT
*
6579612 TAAATATATT-TTT-CTTATTTTT-TAATTAT
1 TAAATATATTATTTCCTAATTTTTCTAATT-T
6579641 TAAA
1 TAAA
6579645 AAATTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.13
29 13 0.43
31 3 0.10
32 10 0.33
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (31 bp):
TAAATATATTATTTCCTAATTTTTCTAATTT
Found at i:6585876 original size:25 final size:25
Alignment explanation
Indices: 6585833--6585891 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
6585823 ATTATATTTT
6585833 AAATATATA-TTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
6585857 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
6585882 AAATATATAT
1 AAATATATAT
6585892 ATTTAATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:6592706 original size:15 final size:15
Alignment explanation
Indices: 6592686--6592717 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6592676 AATTTCATTG
*
6592686 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
6592701 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
6592716 TT
1 TT
6592718 TGCATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:6596750 original size:18 final size:18
Alignment explanation
Indices: 6596724--6596793 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
6596714 ACAATAAGAA
*
6596724 AACGTTTTGAAATTGAAT
1 AACGATTTGAAATTGAAT
6596742 AACGATTTGTAAA-TGAAT
1 AACGATTTG-AAATTGAAT
* * * *
6596760 AATGTTTTGAAAATGAACG
1 AACGATTTGAAATTGAA-T
6596779 ACACGATTTGAAATT
1 A-ACGATTTGAAATT
6596794 AACATAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 3 0.07
18 24 0.59
19 4 0.10
20 10 0.24
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (18 bp):
AACGATTTGAAATTGAAT
Found at i:6597130 original size:37 final size:35
Alignment explanation
Indices: 6597067--6597135 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
6597057 ATTCCAAAAA
6597067 TAATATTATTTTAATAGTTTAATATTAAATTTAGTT
1 TAATATTATTTTAATAGTTTAATATT-AATTTAGTT
*
6597103 TAATACTTATTTTAATAGTATT-TTATTAATTTA
1 TAATA-TTATTTTAATAGT-TTAATATTAATTTA
6597136 ATATTAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 11 0.37
37 17 0.57
38 2 0.07
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (35 bp):
TAATATTATTTTAATAGTTTAATATTAATTTAGTT
Found at i:6600877 original size:20 final size:20
Alignment explanation
Indices: 6600838--6600893 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
6600828 ATTAGTGCCC
* **
6600838 CTTCGGTACCCCTGTTTGCA
1 CTTCGGTGCCCCTGAATGCA
6600858 CTTCGGTGCCCCTGAATGCA
1 CTTCGGTGCCCCTGAATGCA
* **
6600878 CATATGTGCCCCTGAA
1 CTTCGGTGCCCCTGAA
6600894 CACACATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.29
Consensus pattern (20 bp):
CTTCGGTGCCCCTGAATGCA
Found at i:6600899 original size:20 final size:20
Alignment explanation
Indices: 6600863--6600931 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
6600853 TTGCACTTCG
** *
6600863 GTGCCCCTGAATGCACATAT
1 GTGCCCCTGAACACACATTT
6600883 GTGCCCCTGAACACACATTT
1 GTGCCCCTGAACACACATTT
**
6600903 GTGCCCCTGTTCACACATTT
1 GTGCCCCTGAACACACATTT
*
6600923 ATGCCCCTG
1 GTGCCCCTG
6600932 TTCGCACTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.20, C:0.35, G:0.17, T:0.28
Consensus pattern (20 bp):
GTGCCCCTGAACACACATTT
Found at i:6600953 original size:20 final size:20
Alignment explanation
Indices: 6600924--6600988 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
6600914 CACACATTTA
*
6600924 TGCCCCTGTTCGCACTTCAG
1 TGCCCTTGTTCGCACTTCAG
* * *
6600944 TGTCCTTGTTTGCACATT-TG
1 TGCCCTTGTTCGCAC-TTCAG
6600964 TGCCCTTGTTCGCACTTCAG
1 TGCCCTTGTTCGCACTTCAG
6600984 TGCCC
1 TGCCC
6600989 CTGACCACAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.09, C:0.34, G:0.20, T:0.37
Consensus pattern (20 bp):
TGCCCTTGTTCGCACTTCAG
Found at i:6601714 original size:21 final size:19
Alignment explanation
Indices: 6601672--6601729 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
6601662 AAAGTATATT
*
6601672 TTGTAAAAAGTATAGATAC
1 TTGTGAAAAGTATAGATAC
*
6601691 TTGGTGAAAAGTATAGATGCC
1 TT-GTGAAAAGTATAGAT-AC
*
6601712 TTGTGTAAAGTATAGATA
1 TTGTGAAAAGTATAGATA
6601730 TCAAATTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (19 bp):
TTGTGAAAAGTATAGATAC
Found at i:6609009 original size:23 final size:23
Alignment explanation
Indices: 6608965--6609010 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6608955 AGGACAAAAG
**
6608965 AAAACTCAAGTACCAATTTGAAA
1 AAAACTCAAGTACCAAAGTGAAA
* *
6608988 AAAACTTAGGTACCAAAGTGAAA
1 AAAACTCAAGTACCAAAGTGAAA
6609011 CTTGAAGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (23 bp):
AAAACTCAAGTACCAAAGTGAAA
Found at i:6611628 original size:22 final size:23
Alignment explanation
Indices: 6611603--6611654 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6611593 AAAATATTAG
6611603 TATTTTTAA-ACATTTA-TACTTT
1 TATTTTTAAGA-ATTTAGTACTTT
* *
6611625 TATTTTCAAGAATTTAGTGCTTT
1 TATTTTTAAGAATTTAGTACTTT
6611648 TATTTTT
1 TATTTTT
6611655 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.60
Consensus pattern (23 bp):
TATTTTTAAGAATTTAGTACTTT
Found at i:6612056 original size:13 final size:13
Alignment explanation
Indices: 6612038--6612065 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6612028 ATTCTAAACA
6612038 AAATTTAGTATTT
1 AAATTTAGTATTT
6612051 AAATTTAGTATTT
1 AAATTTAGTATTT
6612064 AA
1 AA
6612066 TTTTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTTAGTATTT
Found at i:6613093 original size:23 final size:25
Alignment explanation
Indices: 6613056--6613105 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
6613046 TTATGAAAAT
*
6613056 TAAATCAAATCAAAATTTTA-TTTA
1 TAAATCAAATCAAAATTATAGTTTA
*
6613080 TAAATTAAA-CAAAATTATAGTTTA
1 TAAATCAAATCAAAATTATAGTTTA
6613104 TA
1 TA
6613106 TATAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCAAATCAAAATTATAGTTTA
Found at i:6618368 original size:68 final size:68
Alignment explanation
Indices: 6618259--6618539 Score: 338
Period size: 68 Copynumber: 4.2 Consensus size: 68
6618249 TCGGAATCGA
* * *
6618259 AAGTCCTCCAAGACAATAAACATAAGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAT
1 AAGTCCGCCAGGACAATAAACATAGGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAT
6618324 ATG
66 ATG
* * *
6618327 AAGTCCGCCAGGACAGTAAACATGGGATCATATTGTGTAAGACCATAGCTAGGCTATGGCAACAT
1 AAGTCCGCCAGGACAATAAACATAGGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAT
6618392 ATG
66 ATG
** * * *
6618395 GTGTCCGCTAGGACAATAAACATGGGATCATATTGTGTAAGACCATA----GGCTAT-GAAGACA
1 AAGTCCGCCAGGACAATAAACATAGGATCATATTGTGTAAGACCATAGCTGGGCTATGGCA-ACA
6618455 TATG
65 TATG
* * * * * * *
6618459 GAGTCTGCCAAGACGATAAACATAGGATCATATTGTGTAAGACCATAGATGAGCTATGGCAACAA
1 AAGTCCGCCAGGACAATAAACATAGGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAT
6618524 ATG
66 ATG
**
6618527 AAGTTTGCCAGGA
1 AAGTCCGCCAGGA
6618540 TGGTGAACCA
Statistics
Matches: 184, Mismatches: 23, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.01
64 54 0.29
68 126 0.68
69 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (68 bp):
AAGTCCGCCAGGACAATAAACATAGGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAT
ATG
Found at i:6618515 original size:132 final size:133
Alignment explanation
Indices: 6618270--6618522 Score: 352
Period size: 132 Copynumber: 1.9 Consensus size: 133
6618260 AGTCCTCCAA
*
6618270 GACAATAAACATAAGATCATATTGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCGC
1 GACAATAAACATAAGATCATATTGTGTAAGACCATA---GGGCTATGGAAACATATGAAGTCCGC
* * *
6618335 CAGGACAGTAAACATGGGATCATATTGTGTAAGACCATAGCTAGGCTATGGCAACATATGGTGTC
63 CAAGACAGTAAACATAGGATCATATTGTGTAAGACCATAGATAGGCTATGGCAACATATGGTGTC
6618400 CGCTAG
128 CGCTAG
** * *
6618406 GACAATAAACATGGGATCATATTGTGTAAGACCATA-GGCTAT-GAAGACATATGGAGTCTGCCA
1 GACAATAAACATAAGATCATATTGTGTAAGACCATAGGGCTATGGAA-ACATATGAAGTCCGCCA
6618469 AGAC-GATAAACATAGGATCATATTGTGTAAGACCATAGAT-GAGCTATGGCAACA
65 AGACAG-TAAACATAGGATCATATTGTGTAAGACCATAGATAG-GCTATGGCAACA
6618523 AATGAAGTTT
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
131 4 0.04
132 68 0.64
136 34 0.32
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (133 bp):
GACAATAAACATAAGATCATATTGTGTAAGACCATAGGGCTATGGAAACATATGAAGTCCGCCAA
GACAGTAAACATAGGATCATATTGTGTAAGACCATAGATAGGCTATGGCAACATATGGTGTCCGC
TAG
Found at i:6618860 original size:30 final size:30
Alignment explanation
Indices: 6618826--6618890 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
6618816 ACTGATTTTA
*
6618826 TTGTTAATTTTGTTATTATTTTCA-AGGCAT
1 TTGTTAATTTTGTTATTATTTT-AGAGACAT
6618856 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
6618886 TTGTT
1 TTGTT
6618891 TGTTAAGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGACAT
Found at i:6620049 original size:11 final size:11
Alignment explanation
Indices: 6620010--6620050 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6620000 ACAATTACAA
6620010 CAAAATAGTAG
1 CAAAATAGTAG
* *
6620021 CAATATAATAG
1 CAAAATAGTAG
*
6620032 TAAAATAGTAG
1 CAAAATAGTAG
6620043 CAAAATAG
1 CAAAATAG
6620051 GGATAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:6625469 original size:5 final size:5
Alignment explanation
Indices: 6625459--6625484 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6625449 ATTTAGCATC
6625459 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
6625485 TTCATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6632823 original size:46 final size:46
Alignment explanation
Indices: 6632756--6632848 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
6632746 TTCACACCTG
*
6632756 TCCAAGAGACAGAGAGACCTATTTTAGCAAAAATCTTCATTTGTAT
1 TCCAAGAGACAGAGAGACCTATTTTAGCAAAAAGCTTCATTTGTAT
6632802 TCCAAGAGACAGAGAGACCTATTTTAGCAAAAAGCTTCATTTGTAT
1 TCCAAGAGACAGAGAGACCTATTTTAGCAAAAAGCTTCATTTGTAT
6632848 T
1 T
6632849 ATCATTAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (46 bp):
TCCAAGAGACAGAGAGACCTATTTTAGCAAAAAGCTTCATTTGTAT
Found at i:6634248 original size:16 final size:16
Alignment explanation
Indices: 6634227--6634257 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6634217 CTGAGAAGAG
6634227 GTTTTTTCTTTTTCTT
1 GTTTTTTCTTTTTCTT
*
6634243 GTTTTTTTTTTTTCT
1 GTTTTTTCTTTTTCT
6634258 CTTTTGCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (16 bp):
GTTTTTTCTTTTTCTT
Found at i:6634272 original size:24 final size:22
Alignment explanation
Indices: 6634228--6634272 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6634218 TGAGAAGAGG
**
6634228 TTTTTTCTTTTTCTTGTTTTTT
1 TTTTTTCTTTTTCTTCCTTTTT
6634250 TTTTTTCTCTTTTGCTTCCTTTT
1 TTTTTTCT-TTTT-CTTCCTTTT
6634273 GACTGTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTTTCTTTTTCTTCCTTTTT
Found at i:6635240 original size:21 final size:21
Alignment explanation
Indices: 6635211--6635250 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6635201 TTATTTGAAC
6635211 ACCTCCAAACACATCCTACTT
1 ACCTCCAAACACATCCTACTT
* * *
6635232 ACCTTCAAACTCCTCCTAC
1 ACCTCCAAACACATCCTAC
6635251 CCGTATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
ACCTCCAAACACATCCTACTT
Found at i:6638579 original size:45 final size:42
Alignment explanation
Indices: 6638527--6638610 Score: 107
Period size: 42 Copynumber: 1.9 Consensus size: 42
6638517 ATTTAATTTA
* *
6638527 ATTTAATATTTATCTTGTAGATA-AATATTCTATTATTTTAATAAG
1 ATTTAATATTAAT-TT-TA-ATATAATATT-TATTATATTAATAAG
6638572 ATTTAATATTAATTTTAATATAATATTTATTATATTAAT
1 ATTTAATATTAATTTTAATATAATATTTATTATATTAAT
6638611 TTAATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 14 0.39
43 8 0.22
44 2 0.06
45 12 0.33
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (42 bp):
ATTTAATATTAATTTTAATATAATATTTATTATATTAATAAG
Found at i:6638586 original size:11 final size:11
Alignment explanation
Indices: 6638572--6638620 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
6638562 TTTTAATAAG
6638572 ATTTAATATTA
1 ATTTAATATTA
*
6638583 ATTTTAATATAA
1 A-TTTAATATTA
6638595 TATTTATTATATTA
1 -ATTTA--ATATTA
6638609 ATTTAATATTA
1 ATTTAATATTA
6638620 A
1 A
6638621 AGTGATTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 8 0.25
12 13 0.41
13 6 0.19
14 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTAATATTA
Found at i:6638590 original size:12 final size:12
Alignment explanation
Indices: 6638573--6638620 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 12
6638563 TTTAATAAGA
6638573 TTTAATATTAAT
1 TTTAATATTAAT
6638585 TTTAATA-TAAT
1 TTTAATATTAAT
6638596 ATTTATTATATTAA-
1 -TTTA--ATATTAAT
6638610 TTTAATATTAA
1 TTTAATATTAA
6638621 AGTGATTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 11 0.34
12 11 0.34
13 4 0.12
14 3 0.09
15 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAATATTAAT
Found at i:6643550 original size:21 final size:21
Alignment explanation
Indices: 6643524--6643563 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6643514 ACGATTGTTT
6643524 GTCGGGTTGACTCTTTTGCTC
1 GTCGGGTTGACTCTTTTGCTC
6643545 GTCGGGTTGACTCTTTTGC
1 GTCGGGTTGACTCTTTTGC
6643564 GTGTCCATTC
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:0.05, C:0.23, G:0.30, T:0.42
Consensus pattern (21 bp):
GTCGGGTTGACTCTTTTGCTC
Found at i:6645392 original size:20 final size:22
Alignment explanation
Indices: 6645353--6645397 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6645343 GTTTAAATGG
*
6645353 TTTTAAACTTAAAGATAATT-A
1 TTTTAAAATTAAAGATAATTCA
*
6645374 TTTTAAAATT-AATATAATTCA
1 TTTTAAAATTAAAGATAATTCA
6645395 TTT
1 TTT
6645398 CGATATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTAAAATTAAAGATAATTCA
Found at i:6648214 original size:30 final size:31
Alignment explanation
Indices: 6648180--6648251 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
6648170 AGTTTAGGAT
6648180 AAGTTTTCATTTTGGTCACTT-AACT-TAAAA
1 AAGTTTTCATTTTGGTCA-TTGAACTATAAAA
* * **
6648210 AAG-TTACAATTTGGTCATTGAACTATTCAA
1 AAGTTTTCATTTTGGTCATTGAACTATAAAA
6648240 AAGTTTTCATTT
1 AAGTTTTCATTT
6648252 AAGTTATTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.06
29 16 0.48
30 9 0.27
31 6 0.18
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (31 bp):
AAGTTTTCATTTTGGTCATTGAACTATAAAA
Found at i:6652686 original size:25 final size:26
Alignment explanation
Indices: 6652595--6652687 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
6652585 GTCCCGTTAT
*
6652595 ATGGCTCTTCGTGAGCTTCCTGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
** *
6652621 AAAGCTCTTTGTGAGCTTCATGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
* *
6652647 ATGGCTC-AC-TAGAGCTTCTTGATTA
1 ATGGCTCTTCGT-GAGCTTCATGATTA
6652672 ATGGCTCTTCG-GAGCT
1 ATGGCTCTTCGTGAGCT
6652688 ACCCATTATT
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCATGATTA
Found at i:6657299 original size:20 final size:20
Alignment explanation
Indices: 6657248--6657299 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
6657238 TTCAATTATG
6657248 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
6657269 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAATCACTTTAAT
6657289 ATTAAATTAAT
1 ATTAAATTAAT
6657300 AAAATACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 5 0.18
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:6660080 original size:21 final size:21
Alignment explanation
Indices: 6660048--6660125 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
6660038 CTTGGGGCAA
*
6660048 CTTCTTGGTGAGTTGAGGTAG
1 CTTCTTGATGAGTTGAGGTAG
* * *
6660069 CTTGTTGATGAGTTG-GGACAA
1 CTTCTTGATGAGTTGAGG-TAG
* *
6660090 CTTCTTGGTGAGTTGAAGTAG
1 CTTCTTGATGAGTTGAGGTAG
*
6660111 CTTCTTAATGAGTTG
1 CTTCTTGATGAGTTG
6660126 GGGCAAACAC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
20 2 0.05
21 41 0.93
22 1 0.02
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.38
Consensus pattern (21 bp):
CTTCTTGATGAGTTGAGGTAG
Found at i:6660098 original size:42 final size:42
Alignment explanation
Indices: 6660039--6660127 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
6660029 AGTTTTTCTC
* * * *
6660039 TTGGGGCAACTTCTTGGTGAGTTGAGGTAGCTTGTTGATGAG
1 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
6660081 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
1 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
6660123 TTGGG
1 TTGGG
6660128 GCAAACACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.10, G:0.35, T:0.36
Consensus pattern (42 bp):
TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
Found at i:6660139 original size:42 final size:42
Alignment explanation
Indices: 6660039--6660140 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
6660029 AGTTTTTCTC
* * * * *
6660039 TTGGGGCAACTTCTTGGTGAGTTGAGGTAGCTTGTTGATGAG
1 TTGGGACAACTACTTGGTGAGTTGAAGTAGCTTCTTAATGAG
*
6660081 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
1 TTGGGACAACTACTTGGTGAGTTGAAGTAGCTTCTTAATGAG
*
6660123 TTGGGGCAAAC-ACTTGGT
1 TTGGGAC-AACTACTTGGT
6660141 TATGAATTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 50 0.94
43 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.34
Consensus pattern (42 bp):
TTGGGACAACTACTTGGTGAGTTGAAGTAGCTTCTTAATGAG
Found at i:6662245 original size:15 final size:15
Alignment explanation
Indices: 6662227--6662258 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6662217 TATCAGAATT
6662227 ATCACTATCAGACAC
1 ATCACTATCAGACAC
*
6662242 ATCACTATTAGACAC
1 ATCACTATCAGACAC
6662257 AT
1 AT
6662259 TAAAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.25
Consensus pattern (15 bp):
ATCACTATCAGACAC
Found at i:6662518 original size:76 final size:76
Alignment explanation
Indices: 6662417--6662575 Score: 257
Period size: 76 Copynumber: 2.1 Consensus size: 76
6662407 CAATTTAATA
* * *
6662417 CAAACAAATTCATTTTTGTCGTGCACATGCCATACACTTTAATACAAAGAAATCCATTTCTG-CT
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTC-
*
6662481 ATGTATAATAAC
65 ATGTACAATAAC
*
6662493 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
6662558 TGTACAATAAC
66 TGTACAATAAC
6662569 CAAACAA
1 CAAACAA
6662576 TTTAATACAA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
76 76 0.99
77 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (76 bp):
CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
TGTACAATAAC
Found at i:6662597 original size:46 final size:44
Alignment explanation
Indices: 6662493--6662610 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
6662483 GTATAATAAC
* * * *
6662493 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATA
1 CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
* * *
6662537 CAAAGAAATCCATTTATGTCATGTACAATAACCAAACAATTTAATA
1 CAAACAAATTCATTTATGTCATGCAC-AT-ACCAAACAATTTAATA
*
6662583 CAAACAAATTCATTTTTGTCATGCACAT
1 CAAACAAATTCATTTATGTCATGCACAT
6662611 GGTAGACAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 22 0.36
45 4 0.07
46 35 0.57
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (44 bp):
CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
Found at i:6662754 original size:11 final size:11
Alignment explanation
Indices: 6662720--6662754 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6662710 AACTGATTTT
*
6662720 TCATATTTGAT
1 TCATATTTGAA
*
6662731 TCATATTTAAA
1 TCATATTTGAA
6662742 TCATATTTGAA
1 TCATATTTGAA
6662753 TC
1 TC
6662755 CAAAGAAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (11 bp):
TCATATTTGAA
Found at i:6663005 original size:11 final size:11
Alignment explanation
Indices: 6662989--6663024 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
6662979 CATACACAAT
6662989 TTTGAATCATA
1 TTTGAATCATA
6663000 TTTGAATCATA
1 TTTGAATCATA
6663011 TGTTTGAATCATA
1 --TTTGAATCATA
6663024 T
1 T
6663025 GTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (11 bp):
TTTGAATCATA
Found at i:6663018 original size:13 final size:13
Alignment explanation
Indices: 6662989--6663026 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
6662979 CATACACAAT
6662989 TTTGAATCATA--
1 TTTGAATCATATG
6663000 TTTGAATCATATG
1 TTTGAATCATATG
6663013 TTTGAATCATATG
1 TTTGAATCATATG
6663026 T
1 T
6663027 AACCTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (13 bp):
TTTGAATCATATG
Found at i:6663579 original size:27 final size:27
Alignment explanation
Indices: 6663525--6663580 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
6663515 TATTTTATTC
**
6663525 TCCTTAATCCCAATTGATCCTTTTTTT
1 TCCTTAATCCCAATCCATCCTTTTTTT
6663552 TCCTTAATCCCAATCCAT-CTTTTCTTT
1 TCCTTAATCCCAATCCATCCTTTT-TTT
6663579 TC
1 TC
6663581 TTTTCCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.18, C:0.30, G:0.02, T:0.50
Consensus pattern (27 bp):
TCCTTAATCCCAATCCATCCTTTTTTT
Found at i:6668846 original size:12 final size:12
Alignment explanation
Indices: 6668829--6668854 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6668819 CAAATGGACA
6668829 TGGTGTTGATGT
1 TGGTGTTGATGT
6668841 TGGTGTTGATGT
1 TGGTGTTGATGT
6668853 TG
1 TG
6668855 TGGCTGTCGG
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:0.08, C:0.00, G:0.42, T:0.50
Consensus pattern (12 bp):
TGGTGTTGATGT
Found at i:6679080 original size:26 final size:25
Alignment explanation
Indices: 6679048--6679100 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
6679038 AATATGATTT
*
6679048 AATAAATTGTATATTTATTGTATAAA
1 AATAAATTGTATATTTATT-CATAAA
*
6679074 AATAAATTTTATATTTATTCATAAA
1 AATAAATTGTATATTTATTCATAAA
6679099 AA
1 AA
6679101 ATATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AATAAATTGTATATTTATTCATAAA
Found at i:6679699 original size:22 final size:22
Alignment explanation
Indices: 6679674--6679717 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6679664 TTTTTTCTTC
*
6679674 CGATGCATGGGTTTATCATGTG
1 CGATGCATGAGTTTATCATGTG
*
6679696 CGATGCATGAGTTTATCGTGTG
1 CGATGCATGAGTTTATCATGTG
6679718 TATAAAATTA
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:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (22 bp):
CGATGCATGAGTTTATCATGTG
Found at i:6691878 original size:9 final size:9
Alignment explanation
Indices: 6691860--6691908 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
6691850 TTTGGTTAAA
6691860 AATTAACCG
1 AATTAACCG
*
6691869 AATTACCCG
1 AATTAACCG
*
6691878 AATTAACCA
1 AATTAACCG
*
6691887 AATTACCCG
1 AATTAACCG
6691896 AATTAACCG
1 AATTAACCG
6691905 AATT
1 AATT
6691909 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:6691883 original size:18 final size:18
Alignment explanation
Indices: 6691860--6691908 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
6691850 TTTGGTTAAA
6691860 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
6691878 AATTAACCAAATTACCCG
1 AATTAACCGAATTACCCG
6691896 AATTAACCGAATT
1 AATTAACCGAATT
6691909 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:6692051 original size:18 final size:18
Alignment explanation
Indices: 6692011--6692054 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6692001 AATTTTTATG
**
6692011 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
6692029 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
6692047 CTTGGGTT
1 ATTGGGTT
6692055 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:6695393 original size:5 final size:5
Alignment explanation
Indices: 6695383--6695407 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6695373 ACTCCTCCAA
6695383 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
6695408 TTGAGTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6698362 original size:26 final size:26
Alignment explanation
Indices: 6698229--6698394 Score: 107
Period size: 24 Copynumber: 6.7 Consensus size: 26
6698219 TATCCGGGCA
*
6698229 ATATAACGAGAAGCTCACAAAGAGCC
1 ATATAACGGGAAGCTCACAAAGAGCC
* * * *
6698255 -TGTAACGAGTAGCTC-CAAAGAGCA
1 ATATAACGGGAAGCTCACAAAGAGCC
* * * *
6698279 AT-TAACGGGTAGCAC-CAGATAGCC
1 ATATAACGGGAAGCTCACAAAGAGCC
** **
6698303 ATATAACGGGAAATTCA-AGCGAG-C
1 ATATAACGGGAAGCTCACAAAGAGCC
6698327 ACTA-AA-GGGAAGCTCACAAAGAGCC
1 A-TATAACGGGAAGCTCACAAAGAGCC
* *
6698352 -TTTAATCGGGAAGCTCACGAAGAGCC
1 ATATAA-CGGGAAGCTCACAAAGAGCC
*
6698378 ATATAACGGGACGCTCA
1 ATATAACGGGAAGCTCA
6698395 TAAGAGTTGC
Statistics
Matches: 108, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
23 9 0.08
24 37 0.34
25 30 0.28
26 28 0.26
27 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
ATATAACGGGAAGCTCACAAAGAGCC
Found at i:6702269 original size:20 final size:20
Alignment explanation
Indices: 6702246--6702286 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6702236 GATGTGGGTA
*
6702246 TTTTGATTTTTTGTTTTTGT
1 TTTTGATTTTTTGTTGTTGT
*
6702266 TTTTGTTTTTTTGTTGTTGT
1 TTTTGATTTTTTGTTGTTGT
6702286 T
1 T
6702287 GGAAGCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.80
Consensus pattern (20 bp):
TTTTGATTTTTTGTTGTTGT
Found at i:6707186 original size:21 final size:20
Alignment explanation
Indices: 6707145--6707194 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
6707135 TATAATCCAG
*
6707145 ATTT-TAATTTAGTCTTTAA
1 ATTTCTAATTGAGTCTTTAA
6707164 ATATTCTAATTGAGT-TTTCAA
1 AT-TTCTAATTGAGTCTTT-AA
*
6707185 ATTTTTAATT
1 ATTTCTAATT
6707195 TTAATTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.08
20 12 0.46
21 12 0.46
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTTCTAATTGAGTCTTTAA
Found at i:6709086 original size:18 final size:18
Alignment explanation
Indices: 6709063--6709097 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6709053 TTACATATAA
6709063 AAATAATAATGACATTTG
1 AAATAATAATGACATTTG
* *
6709081 AAATAATTATTACATTT
1 AAATAATAATGACATTT
6709098 TATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAATAATGACATTTG
Found at i:6710496 original size:9 final size:9
Alignment explanation
Indices: 6710482--6710522 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
6710472 TTTGGTTAAA
6710482 AATTACCCG
1 AATTACCCG
6710491 AATTACCCG
1 AATTACCCG
*
6710500 -ATTAACCG
1 AATTACCCG
*
6710508 AATTAACCG
1 AATTACCCG
6710517 AATTAC
1 AATTAC
6710523 TGAAAAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:6710508 original size:17 final size:17
Alignment explanation
Indices: 6710483--6710517 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6710473 TTGGTTAAAA
* *
6710483 ATTACCCGAATTACCCG
1 ATTAACCGAATTAACCG
6710500 ATTAACCGAATTAACCG
1 ATTAACCGAATTAACCG
6710517 A
1 A
6710518 ATTACTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAACCGAATTAACCG
Found at i:6711584 original size:5 final size:5
Alignment explanation
Indices: 6711576--6711629 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
6711566 AAATTATATT
* * * *
6711576 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAT AAAAT AAAAT AAAAT
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
6711626 AAAA
1 AAAA
6711630 AGCCTCTACC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (5 bp):
AAAAG
Found at i:6711704 original size:47 final size:47
Alignment explanation
Indices: 6711637--6711733 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 47
6711627 AAAAGCCTCT
* * *
6711637 ACCACCCCGTACCCATCCCTCTCCTCCTCCCCCACTGGAGCTCCCCC
1 ACCACCCCGTACCCATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
* * *
6711684 ACCACCCTGT-CCCTATCCCTCTCCCCCTCCTCCACCGGACCTCCCGC
1 ACCACCCCGTACCC-ATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
6711731 ACC
1 ACC
6711734 TCCGTCCCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 3 0.07
47 40 0.93
ACGTcount: A:0.12, C:0.62, G:0.08, T:0.18
Consensus pattern (47 bp):
ACCACCCCGTACCCATCCCTCTCCCCCTCCCCCACCGGACCTCCCCC
Found at i:6722456 original size:17 final size:19
Alignment explanation
Indices: 6722421--6722457 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6722411 GTAATAACAA
6722421 TATTTA-ATATCAAATTTT
1 TATTTATATATCAAATTTT
6722439 TATTTATATAT-AAATTTT
1 TATTTATATATCAAATTTT
6722457 T
1 T
6722458 TTATTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTATATATCAAATTTT
Found at i:6722725 original size:21 final size:20
Alignment explanation
Indices: 6722687--6722726 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6722677 ATTTTGGCAC
* *
6722687 AATAACTTATTTAGCTCTTA
1 AATAAATTATTTAACTCTTA
6722707 AATAAATTATTTTAACTCTT
1 AATAAATTA-TTTAACTCTT
6722727 CATTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
AATAAATTATTTAACTCTTA
Found at i:6722961 original size:7 final size:7
Alignment explanation
Indices: 6722949--6722973 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6722939 ACCAAAAGAA
6722949 TTAATAG
1 TTAATAG
6722956 TTAATAG
1 TTAATAG
6722963 TTAATAG
1 TTAATAG
6722970 TTAA
1 TTAA
6722974 ATGTAAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TTAATAG
Found at i:6723911 original size:56 final size:55
Alignment explanation
Indices: 6723825--6723932 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 55
6723815 GTATCCATTG
*
6723825 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
6723881 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
6723933 CATTCTATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 6 0.12
56 45 0.88
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:6731018 original size:56 final size:55
Alignment explanation
Indices: 6730922--6731029 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
6730912 GTATCCATTG
* *
6730922 GATGATAAATCATCACTTTTAATTTGAACAGTGTTTATGAATAATTGAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAACAGTGCTCATGAATAATT-AATTTGTAA
*
6730978 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTG
6731030 CAATCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTGTAA
Found at i:6734735 original size:124 final size:122
Alignment explanation
Indices: 6734526--6734827 Score: 430
Period size: 124 Copynumber: 2.5 Consensus size: 122
6734516 TTTGAAGTGT
* *
6734526 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATACA--GAAAAAAGGGGTGAT
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATA-AGGGAAAAAAGGGGTAAA
* **
6734589 ATGTAAGTAAATGATTAAAGTAAA-TAATGTAAATTTTGTTTTGAAGTGTTTCAAAAAA
65 ATGTAAGTAAATGACTAAAGTAAACT-ATGTAAATTTTGTTTTGAAGAATTTCAAAAAA
* ** *
6734647 TTGGAAAACTGTGATAGAATCTTTTGGTACAATCATTTAACAAATGAAGGGGAAAAAAGGGGTAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAAT-AA-GGGAAAAAAGGGGTAA
* * *
6734712 AATGTAAGTAAATGGCTAAAGTAAACTGTGTAAATTTTGTTTTGAAGAATTTGAAAAAA
64 AATGTAAGTAAATGACTAAAGTAAACTATGTAAATTTTGTTTTGAAGAATTTCAAAAAA
6734771 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAAT-AAGGGAAAAAA
6734828 TTGAGTATGA
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
121 42 0.26
122 1 0.01
123 9 0.06
124 106 0.67
125 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (122 bp):
TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAGGGAAAAAAGGGGTAAAA
TGTAAGTAAATGACTAAAGTAAACTATGTAAATTTTGTTTTGAAGAATTTCAAAAAA
Found at i:6735752 original size:16 final size:16
Alignment explanation
Indices: 6735698--6735746 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
6735688 TGTGAAGCAA
* *
6735698 AGGAGGAAAGAAAAAT
1 AGGAGGAAAGAATAAG
*
6735714 TGGAGGAAAGAATAAG
1 AGGAGGAAAGAATAAG
6735730 AGGAGGAAAGAATAAG
1 AGGAGGAAAGAATAAG
6735746 A
1 A
6735747 TTAGGAGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.08
Consensus pattern (16 bp):
AGGAGGAAAGAATAAG
Found at i:6746000 original size:25 final size:25
Alignment explanation
Indices: 6745966--6746015 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6745956 CATTTGTTAC
*
6745966 AATTCAATTTATTTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
6745991 AATTCAATTTAATTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
6746016 TTTTAGCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTCAATTTAATTTATAATATAAT
Found at i:6750994 original size:24 final size:24
Alignment explanation
Indices: 6750967--6751031 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
6750957 TGAAAAAGCA
6750967 TCCCGTTATTAGCTCTCATGAGCT
1 TCCCGTTATTAGCTCTCATGAGCT
* * **
6750991 TCCCGTTATATGGTTCTTGTGAGCT
1 TCCCGTTAT-TAGCTCTCATGAGCT
*
6751016 TCCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
6751032 TTGGAGCATC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.40
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTCATGAGCT
Found at i:6751038 original size:24 final size:24
Alignment explanation
Indices: 6750967--6751044 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
6750957 TGAAAAAGCA
* *
6750967 TCCCGTTATTAGCTCTCAT-GAGCT
1 TCCCGTTAATAGCTCT-TTGGAGCT
* *
6750991 TCCCGTTATATGGTTC-TTGTGAGCT
1 TCCCGTTA-ATAGCTCTTTG-GAGCT
*
6751016 TCCCGTTAATAGCTCTTTGGAGCA
1 TCCCGTTAATAGCTCTTTGGAGCT
6751040 TCCCG
1 TCCCG
6751045 ATTGGTTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 22 0.51
25 20 0.47
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTTGGAGCT
Found at i:6751148 original size:27 final size:25
Alignment explanation
Indices: 6751108--6751176 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
6751098 CCGATATATA
*
6751108 GCTCTTCAGAGCTTCTTGATTAAAG
1 GCTCTTCAGAGCTTCTCGATTAAAG
*
6751133 GCTCTTTCATGAGCTTCTCGATTAATTG
1 GCTC-TTCA-GAGCTTCTCGATTAA-AG
* *
6751161 GCTCTCCGGAGCTTCT
1 GCTCTTCAGAGCTTCT
6751177 TGATATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
26 12 0.32
27 16 0.43
28 5 0.14
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCTCGATTAAAG
Found at i:6751235 original size:24 final size:24
Alignment explanation
Indices: 6751208--6751274 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
6751198 TTCCCAATAT
*
6751208 TGGCTCGTATGAGCTTCTCGTTA-A
1 TGGCTC-TATGAGCTTCCCGTTACA
*
6751232 TGGCTCTCTGGAGCTTCCCGTTACA
1 TGGCTCTAT-GAGCTTCCCGTTACA
*
6751257 TGGCTCACATGAGCTTCC
1 TGGCTC-TATGAGCTTCC
6751275 TGTTTATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.06
24 18 0.50
25 15 0.42
26 1 0.03
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (24 bp):
TGGCTCTATGAGCTTCCCGTTACA
Found at i:6751270 original size:25 final size:24
Alignment explanation
Indices: 6751216--6751301 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 24
6751206 ATTGGCTCGT
* *
6751216 ATGAGCTTCTCGTTAATGGCTCTC
1 ATGAGCTTCCCGTTAATGGCTCAC
6751240 -TGGAGCTTCCCGTTACATGGCTCAC
1 AT-GAGCTTCCCGTTA-ATGGCTCAC
*
6751265 ATGAGCTTCCTGTTTATAT-GCTCAC
1 ATGAGCTTCCCG-TTA-ATGGCTCAC
6751290 ATGAGCATTCCC
1 ATGAGC-TTCCC
6751302 TAATATGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 12 0.23
25 29 0.56
26 10 0.19
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCCGTTAATGGCTCAC
Found at i:6754159 original size:42 final size:40
Alignment explanation
Indices: 6754097--6754177 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
6754087 ACATGTTTTT
6754097 AACTAAGTACTATCGATCATGCATCATACATGCCATACATTA
1 AACTAAGTACTATCGATCATGCATCATACAT--CATACATTA
* * *
6754139 AACTGAGTACTATTGTTCATGCATCATACATCATACATT
1 AACTAAGTACTATCGATCATGCATCATACATCATACATT
6754178 CTTTTTGCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 8 0.22
42 28 0.78
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (40 bp):
AACTAAGTACTATCGATCATGCATCATACATCATACATTA
Found at i:6754229 original size:67 final size:67
Alignment explanation
Indices: 6754116--6754245 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 67
6754106 CTATCGATCA
* * *
6754116 TGCATCATACATGCCATACATTAAACTGAGTACTATTGTTCATGCATCATACAT-CATACATTCT
1 TGCACCATACATGCCACACATTAAACTAAGTACTATTGTTCATGCATCA-ACATCCATACATTCT
6754180 TTT
65 TTT
*
6754183 TGCACCATACGTGCCACACATTAAACTAAGTACTATTGTTCATGCATCAACATGCCATACATT
1 TGCACCATACATGCCACACATTAAACTAAGTACTATTGTTCATGCATCAACAT-CCATACATT
6754246 ACGCCAAGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 4 0.07
67 45 0.79
68 8 0.14
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (67 bp):
TGCACCATACATGCCACACATTAAACTAAGTACTATTGTTCATGCATCAACATCCATACATTCTT
TT
Found at i:6755347 original size:3 final size:3
Alignment explanation
Indices: 6755339--6755385 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6755329 CTTATATGAA
6755339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6755386 ATCAATTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6759106 original size:42 final size:43
Alignment explanation
Indices: 6759025--6759175 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
6759015 TCCCAAACGA
* * *
6759025 GGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATATCCCAGACAG
* * * *
6759068 GGTCTTACACGAAATCATATA-CGATGTCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATATCCCAGACAG
* * * ** *
6759110 TGTCTTACACATAAATCTCAA-ATCGAT-CCAACGTTCCAGAC-G
1 GGTCTTACAC-GAAATC-AAATATCGATGCCAATATCCCAGACAG
*
6759152 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGAAATCAAATATC
6759176 AGAATCCTAT
Statistics
Matches: 84, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
41 1 0.01
42 34 0.40
43 44 0.52
44 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATATCCCAGACAG
Found at i:6776574 original size:31 final size:30
Alignment explanation
Indices: 6776515--6776576 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
6776505 GTTGATTGTA
* *
6776515 AATTTTCTTAAAATATTTTTTTTCTAATTT
1 AATTTTCTTAAAATATATTTTTTATAATTT
* *
6776545 AATTTTTTTAAATTAGTATTTTTTATAATTT
1 AATTTTCTTAAAATA-TATTTTTTATAATTT
6776576 A
1 A
6776577 CGTGATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
AATTTTCTTAAAATATATTTTTTATAATTT
Found at i:6781190 original size:16 final size:16
Alignment explanation
Indices: 6781169--6781203 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6781159 CCCTATTTTT
6781169 CCCTATATTATAATCA
1 CCCTATATTATAATCA
6781185 CCCTATATTATAATCA
1 CCCTATATTATAATCA
6781201 CCC
1 CCC
6781204 CATTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (16 bp):
CCCTATATTATAATCA
Found at i:6783294 original size:42 final size:42
Alignment explanation
Indices: 6783245--6783382 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 42
6783235 AGCTCTCACA
* * * * *
6783245 AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTATTG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTATTG
* * *
6783287 AGCTTCTGTTTAACCCTTATGGGTTTCTATTCAGCTCT-TACG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTAT-TG
* *
6783329 AGCTTCTATTCAACCCTTATGGGTTTCTGTTTAGCTCTCA-TG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCT-ATTG
6783371 AGCTTCTATTTA
1 AGCTTCTATTTA
6783383 GCCTTCGGGC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 80 0.99
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTATTG
Found at i:6783382 original size:21 final size:21
Alignment explanation
Indices: 6783231--6783384 Score: 85
Period size: 21 Copynumber: 7.3 Consensus size: 21
6783221 TTTACTTTAC
* **
6783231 GTTTAGCTCTCACAAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * *
6783252 GTTTAACTCATATGAGTTTCC
1 GTTTAGCTCTTATGAGCTTCT
*
6783273 GTTCAGCTC-TATTGAGCTTCT
1 GTTTAGCTCTTA-TGAGCTTCT
* * * *
6783294 GTTTAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * *
6783315 ATTCAGCTCTTACGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * * * *
6783336 ATTCAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
6783357 GTTTAGCTCTCATGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
6783378 ATTTAGC
1 GTTTAGC
6783385 CTTCGGGCTT
Statistics
Matches: 95, Mismatches: 36, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 2 0.02
21 91 0.96
22 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTCT
Found at i:6785070 original size:15 final size:15
Alignment explanation
Indices: 6785050--6785081 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6785040 TTTATGCAAG
6785050 AAAGAAATCTGGCTC
1 AAAGAAATCTGGCTC
6785065 AAAGAAATCTGGCTC
1 AAAGAAATCTGGCTC
6785080 AA
1 AA
6785082 CAACCTCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAGAAATCTGGCTC
Found at i:6790635 original size:6 final size:6
Alignment explanation
Indices: 6790624--6790651 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6790614 TGTCGAAACC
6790624 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
6790652 AAAAAACAAA
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:6791434 original size:13 final size:14
Alignment explanation
Indices: 6791415--6791452 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
6791405 CAATGGCATA
6791415 GAAATAATATAAAC
1 GAAATAATATAAAC
6791429 -AAATAA-ATAAAC
1 GAAATAATATAAAC
6791441 GAAATGAATATA
1 GAAAT-AATATA
6791453 TAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:6796016 original size:19 final size:20
Alignment explanation
Indices: 6795981--6796019 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6795971 TTATCTTTCA
6795981 AATTTTATAATTTTGCTCAG
1 AATTTTATAATTTTGCTCAG
*
6796001 AATTTTATGA-TTTGCTCAG
1 AATTTTATAATTTTGCTCAG
6796020 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTATAATTTTGCTCAG
Found at i:6796113 original size:80 final size:80
Alignment explanation
Indices: 6796026--6796185 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
6796016 TCAGTTTAGT
*
6796026 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCTGATGATATGA
1 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
6796091 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
6796106 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
1 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
6796171 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
6796186 ATGATCTGGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (80 bp):
CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
ATAATGTTATAAGTC
Found at i:6800635 original size:32 final size:33
Alignment explanation
Indices: 6800599--6800666 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
6800589 TGAACATTAC
* *
6800599 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
* *
6800631 AA-TTTGAGGTTGATCTTATTTTTGCATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
6800663 AATT
1 AATT
6800667 CGGGTCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.83
33 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:6812505 original size:15 final size:15
Alignment explanation
Indices: 6812496--6812528 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6812486 CAAATGCTAT
6812496 AATAATAAATACATC
1 AATAATAAATACATC
6812511 AATAATAAATACATC
1 AATAATAAATACATC
6812526 AAT
1 AAT
6812529 GGCATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAATACATC
Found at i:6812958 original size:18 final size:16
Alignment explanation
Indices: 6812928--6812961 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
6812918 TAATAATAAT
6812928 TACATTATAGAAAATA
1 TACATTATAGAAAATA
6812944 TACATATATAGGAAAATA
1 TACAT-TATA-GAAAATA
6812962 AATGGATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (16 bp):
TACATTATAGAAAATA
Found at i:6814950 original size:89 final size:83
Alignment explanation
Indices: 6814729--6815319 Score: 339
Period size: 89 Copynumber: 6.9 Consensus size: 83
6814719 CAGGTTTTAA
* * * * * * *
6814729 TCTGCTCCACTGCAACTTCAAGGAGATGAGATTAGATGC--GATCTGCT-CTCTGCAACTTTAGA
1 TCTGCT-CACTGCAACTTC-AGGAGATAAGATT-GCTTCTTAATCTGCTCCACTGCAACTTCAGG
* * *
6814791 GATATAAGATCTGTG-ATTTTAA
63 GAGATAAGAT-T-TGCATTTCAG
* * * **
6814813 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCT-CACTGCAACTTCA-GGAGATAAGATT-GCTTC-TTAATCTGCTCCACTGCAACTTCAG
6814878 GGAGATAAGATTTGCCATCTTCAG
62 GGAGATAAGATTTG-CAT-TTCAG
* *
6814902 TCTGCCTCACTGCAACTTCAGGATGATAAGACTTGCTTACTTAGTCTGCTCCACTGTAACTTCAG
1 TCTG-CTCACTGCAACTTCAGGA-GATAAGA-TTGCTT-CTTAATCTGCTCCACTGCAACTTCAG
* * *
6814967 GGAGATAAGACTAG-A-TGC-G
62 GGAGATAAGATTTGCATTTCAG
* * * * *
6814986 ATCTGCTCTCTGCAACTTCAGAGAGATAATATCTGATT-TTAAT-TCACTCCATTGCAACTTCAG
1 -TCTGCTCACTGCAACTTCAG-GAGATAAGAT-TGCTTCTTAATCT-GCTCCACTGCAACTTCAG
* *
6815049 GGAGATAGGATTATCGGC-TTT-AA
62 GGAGATAAGATT-T--GCATTTCAG
* * * * * *
6815072 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGC--GATTTGCT-CTCTGCAACTTCAGA
1 TCTGCT-CACTGCAACTTCA-GGAGATAAGATT-GCTTCTTAATCTGCTCCACTGCAACTTCAGG
* * *
6815134 GAGATAAGATCTGTG-TTTTTAA
63 GAGATAAGAT-T-TGCATTTCAG
* * * * ** *
6815156 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACTTCAG
1 TCTGCT-CACTGCAACTTCA-GGAGATAAGATT-GCTTC-TTAATCTGCTCCACTGCAACTTCAG
*
6815221 GGAGATAAGATTTTCCATCTTCAG
62 GGAGATAAGA-TTTGCAT-TTCAG
*
6815245 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAG
1 TCTG-CTCACTGCAACTTCAGGA-GATAAGA-TTGCTT-CTTAATCTGCTCCACTGCAACTTCAG
6815310 GGAGATAAGA
62 GGAGATAAGA
6815320 CTAGATGCGA
Statistics
Matches: 398, Mismatches: 68, Indels: 77
0.73 0.13 0.14
Matches are distributed among these distances:
81 1 0.00
82 29 0.07
83 6 0.02
84 113 0.28
85 22 0.06
86 28 0.07
87 17 0.04
88 52 0.13
89 120 0.30
90 10 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (83 bp):
TCTGCTCACTGCAACTTCAGGAGATAAGATTGCTTCTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCATTTCAG
Found at i:6814970 original size:133 final size:128
Alignment explanation
Indices: 6814724--6814973 Score: 301
Period size: 133 Copynumber: 1.9 Consensus size: 128
6814714 GATCCCAGGT
* * *
6814724 TTTAATCTGCTCCACTGCAACTTCAAGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTA
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAGATGCGATCTGCTCACTGCAACTTCA
6814789 GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
66 GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
* * *
6814852 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTGCCTCACTGCA
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAG--ATGC--GA-TCTG-CTCACTGCA
* * * *
6814916 ACTTCAG-GATGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATA
60 ACTTCAGAGAT-ATAAGATCTGTGATT--TTAATCCGCTCCACTGCAACTTCAGGGAGATA
6814974 AGACTAGATG
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
128 37 0.36
129 1 0.01
130 2 0.02
131 5 0.05
132 9 0.09
133 49 0.48
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (128 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAGATGCGATCTGCTCACTGCAACTTCA
GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
Found at i:6815155 original size:84 final size:84
Alignment explanation
Indices: 6814649--6815189 Score: 384
Period size: 84 Copynumber: 6.4 Consensus size: 84
6814639 CTAGGGTCTA
* *
6814649 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
***
6814714 GATCCCAGGTTTTAATCTG
66 GATCTGTGGTTTTAATCTG
* * * *
6814733 CTCCACTGCAACTTCAAGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTAGAGATATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
6814798 GATCTGTGATTTTAATCCG
66 GATCTGTGGTTTTAATCTG
* * *** * *
6814817 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA---GATGCGATCTGCT-CTCTGCAACTTCAGAGAG
* *** * *
6814882 ATAAGATTTGCCATCTTCAGTCTG
62 ATAAGATCTGTGGT-TTTAATCTG
* * * * * *
6814906 C-CTCACTGCAACTTCA-GGATGATAAGACTT-GCTTACTTAGTCTGCTCCACTGTAACTTCAGG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGA
* * ***
6814968 GAGATAAGA-C--TAGATGCGATCTG
59 GAGATAAGATCTGTGGTTTTAATCTG
* * * *** * *
6814991 CT-CTCTGCAACTTCAGAGAGATAATATCT-GATTTTAAT-T-CACTCCATTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGA-TGCGATCTGCTCT-C--TGCAACTTCAGAGA
* * *
6815052 GATAGGAT-TATCGGCTTTAATCTG
61 GATAAGATCTGT-GGTTTTAATCTG
*
6815076 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATTTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
6815141 GATCTGTGTTTTTAATCCG
66 GATCTGTGGTTTTAATCTG
* *
6815160 CTCCACTGCAACTTTAGGGAGATAGGATTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTA
6815190 TCGGCTTTAA
Statistics
Matches: 359, Mismatches: 71, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
79 1 0.00
80 2 0.01
81 1 0.00
82 20 0.06
83 2 0.01
84 181 0.50
85 24 0.07
86 27 0.08
87 13 0.04
88 30 0.08
89 56 0.16
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTGTGGTTTTAATCTG
Found at i:6815209 original size:128 final size:126
Alignment explanation
Indices: 6814946--6815232 Score: 475
Period size: 128 Copynumber: 2.3 Consensus size: 126
6814936 GCTTACTTAG
*
6814946 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
6815011 ATAATATCTGATTTTAATTCACTCCATTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATCTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
* *
6815072 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATTTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
6815137 ATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATC--TGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
6815200 TCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATT
6815233 TTCCATCTTC
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
126 69 0.46
128 80 0.54
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (126 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
Found at i:6815320 original size:44 final size:42
Alignment explanation
Indices: 6814649--6815321 Score: 357
Period size: 44 Copynumber: 15.7 Consensus size: 42
6814639 CTAGGGTCTA
* * *
6814649 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-CTTAATCTG
* * * ** * *
6814690 CT-CTCTGCAACTTTAGAGAGATAAGATCCCAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTCTTAATCTG
* * * *
6814733 CTCCACTGCAACTTCAAGGAGATGAGA-TTAGATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCT-CTTAATCTG
* * * * * * *
6814774 CT-CTCTGCAACTTTAGAGATATAAGATCTGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTCTTAATCTG
* *
6814817 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCT-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAATCTG
* *
6814861 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-C-TCTT-AATCTG
*
6814906 C-CTCACTGCAACTTCA-GGATGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-T-CTTAATCTG
* * * *
6814950 CTCCACTGTAACTTCAGGGAGATAAGACTAGATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-CTTAATCTG
* * * * * *
6814991 CT-CTCTGCAACTTCAGAGAGATAATA-TCTGATTTTAAT-TCA
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCTCTTAATCT-G
* * *
6815032 CTCCATTGCAACTTCAGGGAGATAGGATTATCGGCT-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAATCTG
* * *
6815076 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGATGC--GATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCT-CTTAATCTG
* * * * *
6815117 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTCTTAATCTG
* * *
6815160 CTCCACTGCAACTTTAGGGAGATAGGATTATCGGCT-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTCTTAATCTG
* * * *
6815204 CTCCACTGTAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTTGC-TCTT-AATCTG
*
6815249 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-T-CTTAATCTG
6815293 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
6815322 AGATGCGATC
Statistics
Matches: 489, Mismatches: 91, Indels: 101
0.72 0.13 0.15
Matches are distributed among these distances:
39 1 0.00
40 85 0.17
41 28 0.06
42 35 0.07
43 32 0.07
44 231 0.47
45 77 0.16
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTCTTAATCTG
Found at i:6826730 original size:15 final size:15
Alignment explanation
Indices: 6826721--6826753 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6826711 CAAATGCTAT
6826721 AATAATAAATACAAC
1 AATAATAAATACAAC
*
6826736 AATAATAAATACATC
1 AATAATAAATACAAC
6826751 AAT
1 AAT
6826754 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:6827140 original size:26 final size:25
Alignment explanation
Indices: 6827111--6827183 Score: 60
Period size: 27 Copynumber: 2.7 Consensus size: 25
6827101 AAACATTTGT
6827111 TAAAAATATATATACATATGTACA-TA
1 TAAAAATATATATA-ATAT-TACATTA
6827137 TAAATAATA-ATACTAATAATTACATTA
1 TAAA-AATATATA-TAAT-ATTACATTA
*
6827164 TAGAAAATATACATATATAT
1 TA-AAAATATATATA-ATAT
6827184 AGGAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
26 13 0.33
27 20 0.51
28 6 0.15
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (25 bp):
TAAAAATATATATAATATTACATTA
Done.