Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 24 of 109
Found at i:4113747 original size:46 final size:47
Alignment explanation
Indices: 4113667--4113765 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 47
4113657 TTAATAAAAA
* * *
4113667 TAAAAATTTTTGAAAAAATCTAAAAATTTGAAAAAAGTTAAA-ATTT
1 TAAAAATTTTTGAAAAAATCTAAAAATTTAAAAAAACTAAAATATTT
*
4113713 TAAAAATTTTTG-AAAAAT-TAAAAATTTTCAAAAAATCTAAAATATTT
1 TAAAAATTTTTGAAAAAATCTAAAAA-TTT-AAAAAAACTAAAATATTT
4113760 TAAAAA
1 TAAAAA
4113766 ATTAAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 6 0.13
45 9 0.20
46 21 0.46
47 10 0.22
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (47 bp):
TAAAAATTTTTGAAAAAATCTAAAAATTTAAAAAAACTAAAATATTT
Found at i:4113778 original size:18 final size:19
Alignment explanation
Indices: 4113579--4113781 Score: 111
Period size: 18 Copynumber: 10.6 Consensus size: 19
4113569 ATTAAAACTG
*
4113579 AAATATTTT-AAAAATATAA
1 AAAT-TTTTAAAAAATCTAA
4113598 AAA--TTTAAAAAATCTAA
1 AAATTTTTAAAAAATCTAA
* *
4113615 AAATTTTAATAAAAATCCAA
1 AAATTTTTA-AAAAATCTAA
* * * *
4113635 AAA-ATTCAAAAAA-ATGA
1 AAATTTTTAAAAAATCTAA
*
4113652 AAA-TTTTAATAAAA-ATAA
1 AAATTTTTAA-AAAATCTAA
4113670 AAATTTTTGAAAAAATCTAA
1 AAATTTTT-AAAAAATCTAA
** *
4113690 AAATTTGAAAAAAGTTAAAATTTTAA
1 AAATTT---TTAA---AAAA-TCTAA
*
4113716 AAATTTTTGAAAAAT-TAA
1 AAATTTTTAAAAAATCTAA
*
4113734 AAATTTTCAAAAAATCT-A
1 AAATTTTTAAAAAATCTAA
4113752 AAATATTTTAAAAAAT-TAA
1 AAAT-TTTTAAAAAATCTAA
4113771 AAATTTTTAAA
1 AAATTTTTAAA
4113782 TAAAAATAAT
Statistics
Matches: 145, Mismatches: 21, Indels: 37
0.71 0.10 0.18
Matches are distributed among these distances:
16 3 0.02
17 20 0.14
18 44 0.30
19 34 0.23
20 27 0.19
22 2 0.01
23 1 0.01
25 4 0.03
26 10 0.07
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTTTTAAAAAATCTAA
Found at i:4113826 original size:17 final size:16
Alignment explanation
Indices: 4113804--4113843 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4113794 AATCTTAATT
4113804 TTAAAAAATTCAAGAAA
1 TTAAAAAATTCAA-AAA
* *
4113821 TTAAAAAGTTGAAAAA
1 TTAAAAAATTCAAAAA
4113837 TTAAAAA
1 TTAAAAA
4113844 TATATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (16 bp):
TTAAAAAATTCAAAAA
Found at i:4114006 original size:28 final size:28
Alignment explanation
Indices: 4113975--4114060 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
4113965 TAAGAAAATG
**
4113975 TAATTTTTATTAAAATTTTATCTTTTTT
1 TAATTTTTATTAAAATTTTAAATTTTTT
*
4114003 TAATTTTT-TAAAAAATTTTAAATTTTTT
1 TAATTTTTAT-TAAAATTTTAAATTTTTT
** *
4114031 GGATTTTTATTAAAGTTTTAAGATTTTTT
1 TAATTTTTATTAAAATTTTAA-ATTTTTT
4114060 T
1 T
4114061 TTGAATTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
27 1 0.02
28 38 0.81
29 8 0.17
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (28 bp):
TAATTTTTATTAAAATTTTAAATTTTTT
Found at i:4114131 original size:19 final size:19
Alignment explanation
Indices: 4114096--4114133 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4114086 TTTTTCTAGT
* *
4114096 TTTTAAAAAATATTTTAGA
1 TTTTAAAAAAAAATTTAGA
4114115 TTTTAAAAAAAAATTTAGA
1 TTTTAAAAAAAAATTTAGA
4114134 AAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTTTAAAAAAAAATTTAGA
Found at i:4120030 original size:31 final size:31
Alignment explanation
Indices: 4119993--4120054 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4119983 ATTTGAGAAT
4119993 TGAGGATATTCATATTCCTAACATGATTTGG
1 TGAGGATATTCATATTCCTAACATGATTTGG
4120024 TGAGGATATTCATATTCCTAACATGATTTGG
1 TGAGGATATTCATATTCCTAACATGATTTGG
4120055 CCAACTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (31 bp):
TGAGGATATTCATATTCCTAACATGATTTGG
Found at i:4120828 original size:26 final size:24
Alignment explanation
Indices: 4120772--4120829 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
4120762 TCTAATTTCC
4120772 ATCTTGGACAAATTTAAACTCATA
1 ATCTTGGACAAATTTAAACTCATA
*
4120796 ATTTTGGACAAATTTGAAAACT-ATGA
1 ATCTTGGACAAATTT--AAACTCAT-A
4120822 ATCTTGGA
1 ATCTTGGA
4120830 TCTCGTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 14 0.48
25 2 0.07
26 13 0.45
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (24 bp):
ATCTTGGACAAATTTAAACTCATA
Found at i:4125614 original size:24 final size:26
Alignment explanation
Indices: 4125586--4125634 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
4125576 CGTGTAAGGG
*
4125586 TTATTTAAAAAT-A-ATGATATTATT
1 TTATTAAAAAATAATATGATATTATT
4125610 TTATTAAAAAATAATATGATATTAT
1 TTATTAAAAAATAATATGATATTAT
4125635 AAGTGAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTATTAAAAAATAATATGATATTATT
Found at i:4127446 original size:2 final size:2
Alignment explanation
Indices: 4127439--4127474 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4127429 TTATTAAATG
4127439 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4127475 TTTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4131297 original size:17 final size:16
Alignment explanation
Indices: 4131271--4131318 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
4131261 AATTTTAATT
4131271 ATTTACTAAATAAATTTA
1 ATTTA-TAAA-AAATTTA
* *
4131289 TTTTATAAAATATTTA
1 ATTTATAAAAAATTTA
4131305 ATTT-TAAAAAATTT
1 ATTTATAAAAAATTT
4131319 TCAATATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
17 4 0.15
18 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATAAAAAATTTA
Found at i:4131303 original size:16 final size:17
Alignment explanation
Indices: 4131284--4131316 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4131274 TACTAAATAA
*
4131284 ATTT-ATTTTATAAAAT
1 ATTTAATTTTAAAAAAT
4131300 ATTTAATTTTAAAAAAT
1 ATTTAATTTTAAAAAAT
4131317 TTTCAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAATTTTAAAAAAT
Found at i:4136085 original size:2 final size:2
Alignment explanation
Indices: 4136078--4136107 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4136068 TATTTCTTAT
4136078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4136108 GCAATATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4138308 original size:141 final size:141
Alignment explanation
Indices: 4138054--4138338 Score: 570
Period size: 141 Copynumber: 2.0 Consensus size: 141
4138044 CTGTGAATTG
4138054 ACAAATCTCCAAGAGTTGGACATCAGCAACAATAATCTAAAGGGTTATTTGCCCGAGTGCTTCTC
1 ACAAATCTCCAAGAGTTGGACATCAGCAACAATAATCTAAAGGGTTATTTGCCCGAGTGCTTCTC
4138119 CAATCTCACATCTCTTGAAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCC
66 CAATCTCACATCTCTTGAAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCC
4138184 TAGATAGTCTA
131 TAGATAGTCTA
4138195 ACAAATCTCCAAGAGTTGGACATCAGCAACAATAATCTAAAGGGTTATTTGCCCGAGTGCTTCTC
1 ACAAATCTCCAAGAGTTGGACATCAGCAACAATAATCTAAAGGGTTATTTGCCCGAGTGCTTCTC
4138260 CAATCTCACATCTCTTGAAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCC
66 CAATCTCACATCTCTTGAAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCC
4138325 TAGATAGTCTA
131 TAGATAGTCTA
4138336 ACA
1 ACA
4138339 TCCCTTGAAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (141 bp):
ACAAATCTCCAAGAGTTGGACATCAGCAACAATAATCTAAAGGGTTATTTGCCCGAGTGCTTCTC
CAATCTCACATCTCTTGAAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCC
TAGATAGTCTA
Found at i:4138382 original size:69 final size:70
Alignment explanation
Indices: 4138267--4138481 Score: 217
Period size: 69 Copynumber: 3.1 Consensus size: 70
4138257 CTCCAATCTC
* * * * ** *
4138267 ACATCTCTTG-AAAGATTAGATCTATCTTACAATCAGTTTTATGGAAATATATCTGCCCTAGATA
1 ACATCCCTTGAAAAGTTTAGATTTATCTTCCAATCAAATTTCTGGAAATATATCTGCCCTAGATA
4138331 GTCTA
66 GTCTA
* * * * *
4138336 ACATCCCTTG-AAAGTTTA-TTTCTCTCTTCTAATCAAATTTCTGGAAATATATATGCCTTCAAG
1 ACATCCCTTGAAAAGTTTAGATT-TATCTTCCAATCAAATTTCTGGAAATATATCTGCC--CTAG
4138399 A-A-TCTA
63 ATAGTCTA
* * * *
4138405 ACATCCC-TGAAAAGTTTAGATTTATCTTCCAATCAATTTTTTGGAAATATATCTGCCTTTGATA
1 ACATCCCTTGAAAAGTTTAGATTTATCTTCCAATCAAATTTCTGGAAATATATCTGCCCTAGATA
4138469 GTCTA
66 GTCTA
4138474 ACATCCCT
1 ACATCCCT
4138482 CCAAATGTTG
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
67 2 0.02
68 4 0.03
69 104 0.89
70 3 0.03
71 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (70 bp):
ACATCCCTTGAAAAGTTTAGATTTATCTTCCAATCAAATTTCTGGAAATATATCTGCCCTAGATA
GTCTA
Found at i:4141661 original size:59 final size:59
Alignment explanation
Indices: 4141582--4141744 Score: 193
Period size: 63 Copynumber: 2.7 Consensus size: 59
4141572 TTTATTAAAG
*
4141582 GAAAATTGATATTTTTAA-TTTTTTTTAAAAAAATATTTTTTGAAAATTTTATTTTCAAA
1 GAAAATTGATACTTTTAATTTTTTTTTAAAAAAATATTTTTTGAAAATTTTATTTTC-AA
* * **
4141641 GAAAGTTGATACTTTCAATTTTTTTTTTTCAAAAAAATATTTTTTGAAGTTTTTATTTTCAA
1 GAAAATTGATACTTTTAA--TTTTTTTTT-AAAAAAATATTTTTTGAAAATTTTATTTTCAA
* ** *
4141703 GAAAAATTGATACTTTTAACTTTTCCTCAAAAAAATATTTTT
1 G-AAAATTGATACTTTTAATTTTTTTTTAAAAAAATATTTTT
4141745 GATGAAATAC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
59 15 0.17
60 14 0.16
61 5 0.06
62 11 0.12
63 43 0.49
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (59 bp):
GAAAATTGATACTTTTAATTTTTTTTTAAAAAAATATTTTTTGAAAATTTTATTTTCAA
Found at i:4141892 original size:60 final size:60
Alignment explanation
Indices: 4141777--4141899 Score: 135
Period size: 60 Copynumber: 2.0 Consensus size: 60
4141767 AATTTTATTT
* ** *
4141777 TTTAAGAAAAATTATTACTTTCAACTTTTCCTTAAAACTCCTTTTTTATTATTGAAGTTA
1 TTTAAGAAAAATTATTACTTTCAACTTTTCCTCAAAACTCCTTTTTTAAAATTGAAATTA
* **
4141837 TTTAAGAAAAATTGA-TAC-TTCAACTTTTTCTCAAAA-TTTTTTTTTGAAAATTTGAAATTA
1 TTTAAGAAAAATT-ATTACTTTCAACTTTTCCTCAAAACTCCTTTTTT-AAAA-TTGAAATTA
4141897 TTT
1 TTT
4141900 TTATTTTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
58 7 0.13
59 18 0.34
60 27 0.51
61 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (60 bp):
TTTAAGAAAAATTATTACTTTCAACTTTTCCTCAAAACTCCTTTTTTAAAATTGAAATTA
Found at i:4142358 original size:62 final size:62
Alignment explanation
Indices: 4142220--4142361 Score: 160
Period size: 62 Copynumber: 2.3 Consensus size: 62
4142210 CCCTATGATC
* * * * *
4142220 AAACCTTACTCTTTGATCGTTGTTGTTCTGTCGATGTGAGTCACAATAGAATCCTACACTTG
1 AAACCATACTCTTTGATCGTCGTCGTTCTGTCGATGTGAGTCACAATAAAATCCTACACCTG
* * * * * **
4142282 AAACCCTGCCCTTTGATTGTCGTCGTTTTGTCGATGTGAGTCACAATAAAATCCTGTACCT-
1 AAACCATACTCTTTGATCGTCGTCGTTCTGTCGATGTGAGTCACAATAAAATCCTACACCTG
4142343 AATACCATACTCTTTGATC
1 AA-ACCATACTCTTTGATC
4142362 ACCCCCATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
61 2 0.03
62 62 0.97
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (62 bp):
AAACCATACTCTTTGATCGTCGTCGTTCTGTCGATGTGAGTCACAATAAAATCCTACACCTG
Found at i:4142723 original size:14 final size:14
Alignment explanation
Indices: 4142685--4142732 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
4142675 TTTGGTTTTG
*
4142685 CTCTGTATTTTTCA
1 CTCTGTGTTTTTCA
* *
4142699 CTTTGTGTGTTTTTCG
1 C--TCTGTGTTTTTCA
4142715 CTCTGTGTTTTTCA
1 CTCTGTGTTTTTCA
4142729 CTCT
1 CTCT
4142733 TGAACCAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 16 0.59
16 11 0.41
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.58
Consensus pattern (14 bp):
CTCTGTGTTTTTCA
Found at i:4143430 original size:18 final size:18
Alignment explanation
Indices: 4143406--4143446 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4143396 CAGGTTTGTG
* *
4143406 AAATTTTTAGCTTCACAA
1 AAATTTTCAGATTCACAA
*
4143424 GAATTTTCAGATTCACAA
1 AAATTTTCAGATTCACAA
4143442 AAATT
1 AAATT
4143447 AAAATTCACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (18 bp):
AAATTTTCAGATTCACAA
Found at i:4143455 original size:34 final size:34
Alignment explanation
Indices: 4143417--4143538 Score: 99
Period size: 34 Copynumber: 3.6 Consensus size: 34
4143407 AATTTTTAGC
4143417 TTCACAAGAATTTTCAGATTCACAAAAATTAAAA
1 TTCACAAGAATTTTCAGATTCACAAAAATTAAAA
** * *
4143451 TTCAC-A-AATATTGAAGATTCACAAATATTGAAGA
1 TTCACAAGAAT-TTTCAGATTCACAAAAATT-AAAA
* * * *
4143485 TTCGCAAG-ATTTTCATATTCGCAAGAATTATAAA
1 TTCACAAGAATTTTCAGATTCACAAAAATTA-AAA
* *
4143519 TTCACAAAAATTAT-AGATTC
1 TTCACAAGAATTTTCAGATTC
4143539 GTAAAATTTT
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
32 3 0.05
33 18 0.27
34 38 0.58
35 7 0.11
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (34 bp):
TTCACAAGAATTTTCAGATTCACAAAAATTAAAA
Found at i:4143472 original size:17 final size:17
Alignment explanation
Indices: 4143432--4143487 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
4143422 AAGAATTTTC
*
4143432 AGATTCACAAAAATT-A
1 AGATTCACAAATATTGA
*
4143448 AAATTCACAAATATTGA
1 AGATTCACAAATATTGA
4143465 AGATTCACAAATATTGA
1 AGATTCACAAATATTGA
4143482 AGATTC
1 AGATTC
4143488 GCAAGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
16 13 0.36
17 23 0.64
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
AGATTCACAAATATTGA
Found at i:4143521 original size:17 final size:17
Alignment explanation
Indices: 4143501--4143544 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4143491 AGATTTTCAT
*
4143501 ATTCGCAAGAATTATAA
1 ATTCGCAAAAATTATAA
* *
4143518 ATTCACAAAAATTATAG
1 ATTCGCAAAAATTATAA
*
4143535 ATTCGTAAAA
1 ATTCGCAAAA
4143545 TTTTAGACTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (17 bp):
ATTCGCAAAAATTATAA
Found at i:4143563 original size:17 final size:16
Alignment explanation
Indices: 4143525--4143563 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4143515 TAAATTCACA
*
4143525 AAAATTATAGATTCGT
1 AAAATTATAGACTCGT
*
4143541 AAAATTTTAGACTCGT
1 AAAATTATAGACTCGT
4143557 AATAATT
1 AA-AATT
4143564 GGATATTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (16 bp):
AAAATTATAGACTCGT
Found at i:4143590 original size:17 final size:17
Alignment explanation
Indices: 4143568--4143682 Score: 97
Period size: 17 Copynumber: 6.8 Consensus size: 17
4143558 ATAATTGGAT
* *
4143568 ATTCACAAGATTTTTAG
1 ATTCACAAGAATTTAAG
4143585 ATTCACAAGAA-TTAGAG
1 ATTCACAAGAATTTA-AG
* * * *
4143602 GTTTACAAGATTTTCAG
1 ATTCACAAGAATTTAAG
*
4143619 ATTCACAAGAATTGAAG
1 ATTCACAAGAATTTAAG
* * *
4143636 ATTCATAAAAATTAAAG
1 ATTCACAAGAATTTAAG
* *
4143653 ATTCACAAGATTTTCAG
1 ATTCACAAGAATTTAAG
*
4143670 ATTCATAAGAATT
1 ATTCACAAGAATT
4143683 AAAAATTTGT
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
16 2 0.03
17 71 0.95
18 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (17 bp):
ATTCACAAGAATTTAAG
Found at i:4143625 original size:51 final size:51
Alignment explanation
Indices: 4143568--4143682 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 51
4143558 ATAATTGGAT
* ** * * * *
4143568 ATTCACAAGATTTTTAGATTCACAAGAATTAGAGGTTTACAAGATTTTCAG
1 ATTCACAAGAATTGAAGATTCACAAAAATTAAAGATTCACAAGATTTTCAG
*
4143619 ATTCACAAGAATTGAAGATTCATAAAAATTAAAGATTCACAAGATTTTCAG
1 ATTCACAAGAATTGAAGATTCACAAAAATTAAAGATTCACAAGATTTTCAG
*
4143670 ATTCATAAGAATT
1 ATTCACAAGAATT
4143683 AAAAATTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (51 bp):
ATTCACAAGAATTGAAGATTCACAAAAATTAAAGATTCACAAGATTTTCAG
Found at i:4143707 original size:68 final size:68
Alignment explanation
Indices: 4143628--4143782 Score: 175
Period size: 68 Copynumber: 2.3 Consensus size: 68
4143618 GATTCACAAG
* * *
4143628 AATTGAAGATTCATAAAAATTAAAGATTCACAAGATTTTCAGATTCATAAGAATTAAAAATTTGT
1 AATTAAAGATTCATAAAAATTAAAGATTCACAAGATTTTAAGATTCACAAGAATTAAAAATTTGT
4143693 AAA
66 AAA
** ** ** * ** * * *
4143696 AATTTTAGATTCGCAAAAATTGGAGGTTTGCAAGATTTTAAGATTCGCAAGAATTAGATATTTGT
1 AATTAAAGATTCATAAAAATTAAAGATTCACAAGATTTTAAGATTCACAAGAATTAAAAATTTGT
4143761 AAA
66 AAA
4143764 AATTAAAGATTCATAAAAA
1 AATTAAAGATTCATAAAAA
4143783 ATTTTAGATT
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (68 bp):
AATTAAAGATTCATAAAAATTAAAGATTCACAAGATTTTAAGATTCACAAGAATTAAAAATTTGT
AAA
Found at i:4143713 original size:17 final size:17
Alignment explanation
Indices: 4143693--4143842 Score: 59
Period size: 17 Copynumber: 8.8 Consensus size: 17
4143683 AAAAATTTGT
4143693 AAAAATTTTAGATTCGC
1 AAAAATTTTAGATTCGC
** * *
4143710 AAAAATTGGAGGTTTGC
1 AAAAATTTTAGATTCGC
*
4143727 -AAGATTTTAAGATTCGC
1 AAAAATTTT-AGATTCGC
* ** * * *
4143744 AAGAATTAGATATTTGT
1 AAAAATTTTAGATTCGC
** **
4143761 AAAAATTAAAGATTCATA
1 AAAAATTTTAGATTC-GC
*
4143779 AAAAATTTTAGATTTGC
1 AAAAATTTTAGATTCGC
** *
4143796 AAAAATTGAAGATTCGT
1 AAAAATTTTAGATTCGC
* * *
4143813 AAGATTTTTAGATTCGG
1 AAAAATTTTAGATTCGC
* *
4143830 AAGAATTTGAGAT
1 AAAAATTTTAGAT
4143843 CTTTTAGTTC
Statistics
Matches: 92, Mismatches: 38, Indels: 6
0.68 0.28 0.04
Matches are distributed among these distances:
16 5 0.05
17 71 0.77
18 16 0.17
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (17 bp):
AAAAATTTTAGATTCGC
Found at i:4143773 original size:34 final size:34
Alignment explanation
Indices: 4143676--4143775 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 34
4143666 TCAGATTCAT
* *
4143676 AAGAATTAAAAATTTGTAAAAATTTTAGATTCGC
1 AAGAATTAGAAATTTGTAAAAATTTAAGATTCGC
* * ** * * *
4143710 AAAAATTGGAGGTTTGCAAGATTTTAAGATTCGC
1 AAGAATTAGAAATTTGTAAAAATTTAAGATTCGC
* *
4143744 AAGAATTAGATATTTGTAAAAATTAAAGATTC
1 AAGAATTAGAAATTTGTAAAAATTTAAGATTC
4143776 ATAAAAAATT
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (34 bp):
AAGAATTAGAAATTTGTAAAAATTTAAGATTCGC
Found at i:4143870 original size:17 final size:17
Alignment explanation
Indices: 4143850--4143885 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4143840 GATCTTTTAG
* *
4143850 TTCACAAGATTTGAAGA
1 TTCACAAAATTTAAAGA
4143867 TTCACAAAATTTAAAGA
1 TTCACAAAATTTAAAGA
4143884 TT
1 TT
4143886 TACATTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
TTCACAAAATTTAAAGA
Found at i:4145198 original size:8 final size:8
Alignment explanation
Indices: 4145187--4145260 Score: 85
Period size: 8 Copynumber: 9.0 Consensus size: 8
4145177 TTTTTCTCTT
*
4145187 TTTTTTTA
1 TTTTTTCA
4145195 TTTTTTCA
1 TTTTTTCA
* *
4145203 CATTTCTCA
1 -TTTTTTCA
4145212 TTTTTTCA
1 TTTTTTCA
4145220 TTTTTTCA
1 TTTTTTCA
4145228 TTCTTTTCA
1 TT-TTTTCA
*
4145237 TTTTTTTA
1 TTTTTTCA
*
4145245 CTTTTTCA
1 TTTTTTCA
4145253 TTTTTTCA
1 TTTTTTCA
4145261 CATCATCTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 41 0.75
9 14 0.25
ACGTcount: A:0.14, C:0.15, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4145222 original size:25 final size:24
Alignment explanation
Indices: 4145187--4145260 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
4145177 TTTTTCTCTT
4145187 TTTTTTTATTTTTTCA-CATTTCTCA
1 TTTTTTTATTTTTTCATC-TTT-TCA
*
4145212 TTTTTTCATTTTTTCATTCTTTTCA
1 TTTTTTTATTTTTTCA-TCTTTTCA
* *
4145237 TTTTTTTACTTTTTCATTTTTTCA
1 TTTTTTTATTTTTTCATCTTTTCA
4145261 CATCATCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
24 7 0.16
25 32 0.74
26 3 0.07
27 1 0.02
ACGTcount: A:0.14, C:0.15, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTTTATTTTTTCATCTTTTCA
Found at i:4146960 original size:59 final size:59
Alignment explanation
Indices: 4146865--4146984 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
4146855 CTCCTTTTTT
*
4146865 AAGCTTGTCACTCTTAATGGCATTTTCTATTGTTTCTCCAAAGATCACCATATCGATAA
1 AAGCTTGTCACTCTTAATGGCATTTTCTATTATTTCTCCAAAGATCACCATATCGATAA
4146924 AAGCTTGTCACTCTTAATGGCATTTTCTATTATTTCTCCAAAGATCACCATATCGATAA
1 AAGCTTGTCACTCTTAATGGCATTTTCTATTATTTCTCCAAAGATCACCATATCGATAA
4146983 AA
1 AA
4146985 TTTTTAATGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
AAGCTTGTCACTCTTAATGGCATTTTCTATTATTTCTCCAAAGATCACCATATCGATAA
Found at i:4148829 original size:37 final size:37
Alignment explanation
Indices: 4148779--4148851 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
4148769 AGGTTTATGA
4148779 ATCAATCGTTAGACATTAACTTAAGGAGTCGCCATCC
1 ATCAATCGTTAGACATTAACTTAAGGAGTCGCCATCC
*
4148816 ATCAATCGTTAGACATTGACTTAAGGAGTCGCCATC
1 ATCAATCGTTAGACATTAACTTAAGGAGTCGCCATC
4148852 AATCTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (37 bp):
ATCAATCGTTAGACATTAACTTAAGGAGTCGCCATCC
Found at i:4159614 original size:21 final size:20
Alignment explanation
Indices: 4159584--4159638 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
4159574 TTTTGTATTC
*
4159584 TGACTCTTTTTTTTTAAAAT
1 TGACCCTTTTTTTTTAAAAT
4159604 TGACCCTTTTTTTTTAAAAT
1 TGACCCTTTTTTTTTAAAAT
4159624 TGACCCTTTTTTTTT
1 TGACCCTTTTTTTTT
4159639 CTTTGTACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (20 bp):
TGACCCTTTTTTTTTAAAAT
Found at i:4159990 original size:29 final size:29
Alignment explanation
Indices: 4159914--4159983 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
4159904 GGTAGAAAAT
*
4159914 GGGTGGTAGGGCATGGTGGTCAGAGGGGTG
1 GGGT-GTAGGGCATGGTGGTCAGAAGGGTG
4159944 GAGG-GTAGGGCATGGTGGTCAGAAGGGTG
1 G-GGTGTAGGGCATGGTGGTCAGAAGGGTG
4159973 GGGTGTAGGGC
1 GGGTGTAGGGC
4159984 TTAGTGGCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 2 0.05
29 32 0.86
30 1 0.03
31 2 0.05
ACGTcount: A:0.16, C:0.07, G:0.59, T:0.19
Consensus pattern (29 bp):
GGGTGTAGGGCATGGTGGTCAGAAGGGTG
Found at i:4160069 original size:19 final size:19
Alignment explanation
Indices: 4160045--4160083 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4160035 TGTTCTATTT
4160045 TTTTGTA-TATTTTTTGGTA
1 TTTTGTATTA-TTTTTGGTA
4160064 TTTTGTATTATTTTTGGTA
1 TTTTGTATTATTTTTGGTA
4160083 T
1 T
4160084 ATATTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (19 bp):
TTTTGTATTATTTTTGGTA
Found at i:4160396 original size:101 final size:101
Alignment explanation
Indices: 4160273--4160707 Score: 376
Period size: 102 Copynumber: 4.4 Consensus size: 101
4160263 TTTTTAATCG
* * * * *
4160273 AAAATGCTCATCTCACTTGAGGCTCGATAACTTTTGAAAATTTAAAATC-T-AAAAAAGACTTAT
1 AAAAAGCTCATCTCAC-AGAGGCTCAACAACTTTTAAAAATTT-AAATCTTGAAAAAAG-CTTAT
* * * * *
4160336 CTCAGCAGATGCTCAATAACTTTAAAATTTTTATCTTGA
63 CTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
* * * ** *
4160375 AAAAAGCTCCTCTCACAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTTCTCTC
1 AAAAAGCTCATCTCACAGAGGCTCAACAACTTTTAAAAATTTAAATCTTGAAAAAAGCTTATCTC
4160440 AGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
66 AGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
* * * ** * * *
4160476 AAAAAGCTCATCTTAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAA-ATTCCTT
1 AAAAAGCTCATCTCA-CAGAGGCTCAACAACTTTTAAAAATTTAAATCTTGAAAAAAGCTT-ATC
* * * *
4160540 TCAACAAAGGCTCAACAACTTTAAAAATCTCATCTTGA
64 TCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
* *
4160578 AAAAAGCTCATCTCAGCAGAGGCTCAACAA-TTTT----A---AAATCTTG-AAAAAGCTCATAT
1 AAAAAGCTCATCTCA-CAGAGGCTCAACAACTTTTAAAAATTTAAATCTTGAAAAAAGCTTATCT
* * **
4160634 CAGCAGAGGCTCAATAACTTT-AAAATCTCATCTTGG
65 CAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
** *
4160670 AAAGGGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAA
1 AAAAAGCTCATCTCA-CAGAGGCTCAACAACTTTTAAAA
4160708 TCTTAAAAAA
Statistics
Matches: 284, Mismatches: 39, Indels: 26
0.81 0.11 0.07
Matches are distributed among these distances:
92 44 0.15
93 25 0.09
94 7 0.02
97 1 0.00
100 3 0.01
101 78 0.27
102 126 0.44
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (101 bp):
AAAAAGCTCATCTCACAGAGGCTCAACAACTTTTAAAAATTTAAATCTTGAAAAAAGCTTATCTC
AGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCA
Found at i:4160417 original size:51 final size:51
Alignment explanation
Indices: 4160335--4160707 Score: 369
Period size: 50 Copynumber: 7.5 Consensus size: 51
4160325 AAAAGACTTA
* * * *
4160335 TCTCAGCAGATGCTCAATAACTTT-AAAATTTTTATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
* *
4160385 TCTCA-CAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTTC
1 TCTCAGCAGAGGCTCAACAA-TTTTAAAAATTTTCATCTTGAAAAAAGCTCC
* * * *
4160436 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTT-ATCTTCAAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
* * **
4160486 TCTTAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAATTCC
1 TCTCAGCAGAGGCTCAACAA-TTTTAAAAATTTTCATCTTGAAAAAAGCTCC
* * * * * *
4160538 TTTCAACAAAGGCTCAACAACTTTAAAAA-TCTCATCTTGAAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
*
4160588 TCTCAGCAGAGGCTCAACAATTTT--AAA-----ATCTTG-AAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
* * * * * **
4160631 TATCAGCAGAGGCTCAATAACTTT-AAAA-TCTCATCTTGGAAAGGGCTCC
1 TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
*
4160680 TCTCAGCAGAGGCTCAACAACTTTAAAA
1 TCTCAGCAGAGGCTCAACAATTTTAAAA
4160708 TCTTAAAAAA
Statistics
Matches: 269, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
43 31 0.12
44 9 0.03
48 9 0.03
49 40 0.15
50 80 0.30
51 59 0.22
52 41 0.15
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (51 bp):
TCTCAGCAGAGGCTCAACAATTTTAAAAATTTTCATCTTGAAAAAAGCTCC
Found at i:4160514 original size:102 final size:102
Alignment explanation
Indices: 4160323--4160707 Score: 438
Period size: 102 Copynumber: 3.9 Consensus size: 102
4160313 TTTAAAATCT
* * * * * *
4160323 AAAAAAGACTTATCTCAGCAGATGCTCAATAACTTTAAAATTTTTATCTTGAAAAAAGCTCCTCT
1 AAAAAAG-CTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCT
4160388 CA-CAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
65 CAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
* *
4160425 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCAAAAAAGCTCATCTT
1 AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTC
4160490 AGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
66 AGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
* * * * *
4160527 AAAAAA-ATTCCTTTCAACAAAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAAGCTCATCT
1 AAAAAAGCTT-CTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCT
*
4160591 CAGCAGAGGCTCAACAA-TTTT--AAA-----ATCTTG
65 CAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
* * * * ** *
4160621 -AAAAAGC-TCATATCAGCAGAGGCTCAATAACTTT-AAAATCTCATCTTGGAAAGGGCTCCTCT
1 AAAAAAGCTTC-TCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCT
* *
4160683 CAGCAGAGGCTCAACAA-CTTTAAAA
65 CAGCAGAGGCTTAACAATTTTTAAAA
4160708 TCTTAAAAAA
Statistics
Matches: 251, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
92 45 0.18
93 26 0.10
94 8 0.03
99 3 0.01
101 57 0.23
102 112 0.45
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (102 bp):
AAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATCTC
AGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTG
Found at i:4160637 original size:43 final size:43
Alignment explanation
Indices: 4160571--4160802 Score: 212
Period size: 43 Copynumber: 5.1 Consensus size: 43
4160561 TAAAAATCTC
*
4160571 ATCTTGAAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAA
1 ATCTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
* *
4160615 ATCTTGAAAAAGCTCATATCAGCAGAGGCTCAATAACTTTAAAA
1 ATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAA
** *
4160659 TCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
1 ----ATCTT-GAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
* * * * *
4160707 ATCTTAAAAAAGCTCATCTCAGTAAAGGCTTAATAACTTTAAAA
1 ATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAA
** * *
4160751 TCTCATCTTAGAAAGGGTTCCTCTCAGCAGAGGCTCAACAACTTTAAA
1 ----ATCTT-GAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
4160799 ATCT
1 ATCT
4160803 CATCTTTTCT
Statistics
Matches: 151, Mismatches: 25, Indels: 24
0.75 0.12 0.12
Matches are distributed among these distances:
43 58 0.38
44 21 0.14
48 16 0.11
49 56 0.37
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (43 bp):
ATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAA
Found at i:4160684 original size:92 final size:92
Alignment explanation
Indices: 4160544--4160802 Score: 392
Period size: 92 Copynumber: 2.8 Consensus size: 92
4160534 TTCCTTTCAA
* * ** * *
4160544 CAAAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAAGCTCATCTCAGCAGAGGCTCAACAAT
1 CAAAGGCTCAATAACTTT-AAAATCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAAC
*
4160609 TTTAAAATCTTGAAAAAGCTCATATCAG
65 TTTAAAATCTTAAAAAAGCTCATATCAG
*
4160637 CAGAGGCTCAATAACTTTAAAATCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACT
1 CAAAGGCTCAATAACTTTAAAATCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACT
*
4160702 TTAAAATCTTAAAAAAGCTCATCTCAG
66 TTAAAATCTTAAAAAAGCTCATATCAG
* * * *
4160729 TAAAGGCTTAATAACTTTAAAATCTCATCTTAGAAAGGGTTCCTCTCAGCAGAGGCTCAACAACT
1 CAAAGGCTCAATAACTTTAAAATCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACT
4160794 TTAAAATCT
66 TTAAAATCT
4160803 CATCTTTTCT
Statistics
Matches: 152, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 136 0.89
93 16 0.11
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (92 bp):
CAAAGGCTCAATAACTTTAAAATCTCATCTTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACT
TTAAAATCTTAAAAAAGCTCATATCAG
Found at i:4160689 original size:49 final size:49
Alignment explanation
Indices: 4160335--4160808 Score: 436
Period size: 49 Copynumber: 9.8 Consensus size: 49
4160325 AAAAGACTTA
* * * *
4160335 TCTCAGCAGATGCTCAATAACTTTAAAATTTTTATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTGAAAAAAGCTCC
* * * *
4160385 TCTCA-CAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTTC
1 TCTCAGCAGAGGCTCAACAA-CTTT-AAAA-TCTCATCTTGAAAAAAGCTCC
* * *
4160436 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTCAAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAAGCTCC
* * * * **
4160486 TCTTAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAATTCC
1 TCTCAGCAGAGGCTCAACAA-CTTT-AAAA-TCTCATCTTGAAAAAAGCTCC
* * * *
4160538 TTTCAACAAAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAAGCTCC
* *
4160588 TCTCAGCAGAGGCTCAACAA-TTTTAAA----ATCTTG-AAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
* * * **
4160631 TATCAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGGAAAGGGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
*
4160680 TCTCAGCAGAGGCTCAACAACTTT-AAA----ATCTT-AAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
* * * * ** *
4160723 TCTCAGTAAAGGCTTAATAACTTTAAAATCTCATCTT-AGAAAGGGTTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGA-AAAAAGCTCC
4160772 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
4160809 TTCTCAAAAC
Statistics
Matches: 347, Mismatches: 60, Indels: 35
0.79 0.14 0.08
Matches are distributed among these distances:
43 55 0.16
44 20 0.06
48 18 0.05
49 82 0.24
50 76 0.22
51 53 0.15
52 43 0.12
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (49 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
Found at i:4161566 original size:9 final size:8
Alignment explanation
Indices: 4161537--4161565 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4161527 TGAGTCATTA
4161537 TTTTTTA-
1 TTTTTTAC
4161544 TTTTTTAC
1 TTTTTTAC
4161552 TTTTTTAC
1 TTTTTTAC
4161560 TTTTTT
1 TTTTTT
4161566 TTTTCAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTAC
Found at i:4168381 original size:162 final size:161
Alignment explanation
Indices: 4168107--4168433 Score: 582
Period size: 162 Copynumber: 2.0 Consensus size: 161
4168097 AATCTTATCT
*
4168107 AATTAAACATACCATCTAGCTACAAAATCCATAATATTATCTTGAAATATATGCATTAATAACTT
1 AATTAAACATACCATCTAGCTACAAAACCCATAATATTATCTTGAAATATATGCATTAATAACTT
*
4168172 TTTATCATGAGCATGTGCTATTATTTTTTGACAATATATGATGATATGGGTCATCGGGCATTTTG
66 TTTATCATGAGCATGTGCTATTATCTTTTGACAATATATGATGATATGGGTCATCGGGCATTTTG
*
4168237 TGTCATCATATTTTTCAAATTCAGGGACCTTA
131 TGCCATCATATTTTTCAAATTCAGGGACC-TA
*
4168269 AATTAAACATACCATCTAGCTACAAAACCCATAATATTATCTTGAAATATGTGCATTAATAACTT
1 AATTAAACATACCATCTAGCTACAAAACCCATAATATTATCTTGAAATATATGCATTAATAACTT
* *
4168334 TTTATCATGAGCATGTGCTATTATCTTTTGACAATATATGGTGATATGGGTCATCGGGCGTTTTG
66 TTTATCATGAGCATGTGCTATTATCTTTTGACAATATATGATGATATGGGTCATCGGGCATTTTG
*
4168399 TGCCATCATATTTTTTAAATTCAGGGACCTA
131 TGCCATCATATTTTTCAAATTCAGGGACCTA
4168430 AATT
1 AATT
4168434 TAGGCGAAAT
Statistics
Matches: 158, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
161 6 0.04
162 152 0.96
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (161 bp):
AATTAAACATACCATCTAGCTACAAAACCCATAATATTATCTTGAAATATATGCATTAATAACTT
TTTATCATGAGCATGTGCTATTATCTTTTGACAATATATGATGATATGGGTCATCGGGCATTTTG
TGCCATCATATTTTTCAAATTCAGGGACCTA
Found at i:4172039 original size:23 final size:22
Alignment explanation
Indices: 4172009--4172051 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
4171999 ATATGTGTGA
4172009 ATTTTTTTGTT-TTTTATTTTCG
1 ATTTTTTTGTTCTTTT-TTTTCG
4172031 ATTTGTTTTGTTCTTTTTTTT
1 ATTT-TTTTGTTCTTTTTTTT
4172052 ACCCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.07, C:0.05, G:0.09, T:0.79
Consensus pattern (22 bp):
ATTTTTTTGTTCTTTTTTTTCG
Found at i:4172541 original size:22 final size:21
Alignment explanation
Indices: 4172514--4172558 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4172504 TTTCTTGATT
4172514 TTTATTTATTAGAGAAAAA-AAA
1 TTTA-TTATT-GAGAAAAATAAA
*
4172536 TTTATTCTTGAGAAAAATAAA
1 TTTATTATTGAGAAAAATAAA
4172557 TT
1 TT
4172559 AAAACCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTATTATTGAGAAAAATAAA
Found at i:4174293 original size:29 final size:29
Alignment explanation
Indices: 4174260--4174332 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
4174250 GAGGATGGGT
*
4174260 GGTAGGGCATGGTGGTCAGAGGGGTGGAG
1 GGTAGGGCATGGTGGTCAGAAGGGTGGAG
*
4174289 GGTAGGGCATGGTGGTTAGAAGGGTGGAG
1 GGTAGGGCATGGTGGTCAGAAGGGTGGAG
*
4174318 TGTAGGGTC-TGGTGG
1 GGTAGGG-CATGGTGG
4174333 CAGTGGTGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.56, T:0.22
Consensus pattern (29 bp):
GGTAGGGCATGGTGGTCAGAAGGGTGGAG
Found at i:4174422 original size:22 final size:21
Alignment explanation
Indices: 4174387--4174455 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
4174377 TTTTCTGTTC
*
4174387 TATTTTTTATTATTTTTTTGTA
1 TATTTTTT-GTATTTTTTTGTA
4174409 TATTTTTTGGTA---TTTTGTA
1 TATTTTTT-GTATTTTTTTGTA
4174428 TTATTTTTTGTATATATTTTT-TA
1 -TATTTTTTGTAT-T-TTTTTGTA
4174451 TATTT
1 TATTT
4174456 CATATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
22 15 0.38
23 2 0.05
24 4 0.10
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (21 bp):
TATTTTTTGTATTTTTTTGTA
Found at i:4174423 original size:32 final size:33
Alignment explanation
Indices: 4174387--4174449 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
4174377 TTTTCTGTTC
* *
4174387 TATTTTTTATTATTTTTT-TGTATATTTTTTGG
1 TATTTTGTATTATTTTTTGTATATATTTTTTGG
4174419 TATTTTGTATTATTTTTTGTATATATTTTTT
1 TATTTTGTATTATTTTTTGTATATATTTTTT
4174450 ATATTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (33 bp):
TATTTTGTATTATTTTTTGTATATATTTTTTGG
Found at i:4174447 original size:13 final size:12
Alignment explanation
Indices: 4174389--4174473 Score: 58
Period size: 12 Copynumber: 7.3 Consensus size: 12
4174379 TTCTGTTCTA
4174389 TTTTT-TATTATT
1 TTTTTGTATTA-T
4174401 TTTTTGTA-TAT
1 TTTTTGTATTAT
*
4174412 TTTTTG--GTA-
1 TTTTTGTATTAT
4174421 -TTTTGTATTAT
1 TTTTTGTATTAT
4174432 TTTTTGTATATAT
1 TTTTTGTAT-TAT
*
4174445 TTTTTATATTTCAT
1 TTTTTGTA-TT-AT
*
4174459 ATTTTGTATT-T
1 TTTTTGTATTAT
4174470 TTTT
1 TTTT
4174474 ATATTTCGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
8 5 0.08
10 4 0.07
11 11 0.19
12 15 0.25
13 15 0.25
14 9 0.15
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTGTATTAT
Found at i:4174471 original size:24 final size:24
Alignment explanation
Indices: 4174444--4174497 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4174434 TTTGTATATA
*
4174444 TTTTTTATATTTCATATTTTGTAT
1 TTTTTTATATTTCATATTTTGCAT
*
4174468 TTTTTTATATTTCGTATTTTGCAT
1 TTTTTTATATTTCATATTTTGCAT
4174492 TTTTTT
1 TTTTTT
4174498 TCTAGATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTATATTTCATATTTTGCAT
Found at i:4180334 original size:29 final size:29
Alignment explanation
Indices: 4180292--4180348 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
4180282 CCAGAGTAGA
*
4180292 TATTCTAGTAACTAGAATTACTTAATAAG
1 TATTCTAGTAACTAGAATGACTTAATAAG
4180321 TATTCTAGTAACTAGAATGACTTAATAA
1 TATTCTAGTAACTAGAATGACTTAATAA
4180349 TAATATGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (29 bp):
TATTCTAGTAACTAGAATGACTTAATAAG
Found at i:4180698 original size:2 final size:2
Alignment explanation
Indices: 4180691--4180719 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4180681 GTGAGTTGTG
4180691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4180720 GTGAGAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4188075 original size:18 final size:17
Alignment explanation
Indices: 4188036--4188081 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
4188026 TTTACATTTT
4188036 ATAAAAAA-TAATAACA
1 ATAAAAAATTAATAACA
* *
4188052 AGAAAAAATTAATTAATA
1 ATAAAAAATTAA-TAACA
4188070 ATAAAAAATTAA
1 ATAAAAAATTAA
4188082 AAATTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 15 0.60
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAAAAATTAATAACA
Found at i:4195875 original size:29 final size:30
Alignment explanation
Indices: 4195842--4195910 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
4195832 CACTTTTTTT
*
4195842 AAATAAGCCCCTGTACTTTTA-TTGTACCC
1 AAATAAGCCCCTATACTTTTATTTGTACCC
* * *
4195871 AAATAAGCCCTTATACTTTTATTTGTATCT
1 AAATAAGCCCCTATACTTTTATTTGTACCC
4195901 AAATAAGCCC
1 AAATAAGCCC
4195911 TTATTTTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATAAGCCCCTATACTTTTATTTGTACCC
Found at i:4195905 original size:30 final size:29
Alignment explanation
Indices: 4195841--4195914 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 29
4195831 CCACTTTTTT
* *
4195841 TAAATAAGCCCCTGTACTTTTATTGTACC
1 TAAATAAGCCCTTATACTTTTATTGTACC
* *
4195870 CAAATAAGCCCTTATACTTTTATTTGTATC
1 TAAATAAGCCCTTATACTTTTA-TTGTACC
4195900 TAAATAAGCCCTTAT
1 TAAATAAGCCCTTAT
4195915 TTTCAAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (29 bp):
TAAATAAGCCCTTATACTTTTATTGTACC
Found at i:4196079 original size:21 final size:21
Alignment explanation
Indices: 4196053--4196096 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4196043 TCTTATGTTA
4196053 AGGTACAAATTGAAGGTAAAG
1 AGGTACAAATTGAAGGTAAAG
4196074 AGGTACAAATTGAAGGTAAAG
1 AGGTACAAATTGAAGGTAAAG
4196095 AG
1 AG
4196097 CGTATTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.30, T:0.18
Consensus pattern (21 bp):
AGGTACAAATTGAAGGTAAAG
Found at i:4202086 original size:11 final size:11
Alignment explanation
Indices: 4202070--4202101 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
4202060 ATAAGGAAAC
4202070 AAAAAAACAAA
1 AAAAAAACAAA
4202081 AAAAAAACAAA
1 AAAAAAACAAA
4202092 AAAAGAAACA
1 AAAA-AAACA
4202102 GAAGAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:4203047 original size:709 final size:709
Alignment explanation
Indices: 4201122--4203253 Score: 4001
Period size: 719 Copynumber: 3.0 Consensus size: 709
4201112 CATTGTAGCA
*
4201122 GGACGCATATAAATCCATGCTATAATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
1 GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
4201187 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
66 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
4201252 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
131 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
4201317 TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGGAAAC-AAAAAAACAAAAAA
196 TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGGAAACAAAAAAAACAAAAAA
4201381 AGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCTCATTAAGCCA
261 AGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCTCATTAAGCCA
4201446 TAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGCTTTTTACACT
326 TAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGCTTTTTACACT
4201511 ATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAAGACT-AAAAT
391 ATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAAGACTAAAAAT
4201575 CGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAG--AAAAAAAAAAAAA-GAC
456 CGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAAAAAAAAGGAC
**
4201637 AAGGAATCAGGAATTTCATTTTAGCTA-ACTTTTTTTTTTTTATGGAATCGAACAAAGAGAGGAC
521 AAGGAATCAGGAATTTCATTTTAGCTATTTTTTTTTTTTTTTATGGAATCGAACAAAGAGAGGAC
4201701 GAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAATAAAAGAGAG
586 GAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAATAAAAGAGAG
4201766 AAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAGAGTG
651 AAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAGAGTG
4201825 GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
1 GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
4201890 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
66 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
4201955 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
131 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
4202020 TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGGAAACAAAAAAACAAAAAAA
196 TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGG--------AAAC--AAAAA
4202085 AAACAAAAAAAGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCT
251 AAACAAAAAAAGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCT
4202150 CATTAAGCCATAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGC
316 CATTAAGCCATAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGC
4202215 TTTTTACACTATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAA
381 TTTTTACACTATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAA
*
4202280 GACTAAAAATCGCTACTTAAAGAGTGCTAATGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAA
446 GACTAAAAATCGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAA
4202345 AAAAAAGGACAAGGAATCAGGAATTTCATTTTAGCTATTTTTTTTTTTTTTTATGGAATCGAACA
511 AAAAAAGGACAAGGAATCAGGAATTTCATTTTAGCTATTTTTTTTTTTTTTTATGGAATCGAACA
4202410 AAGAGAGGACGAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAA
576 AAGAGAGGACGAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAA
4202475 TAAAAGAGAGAAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAG
641 TAAAAGAGAGAAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAG
4202540 AGTG
706 AGTG
4202544 GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
1 GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
4202609 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
66 GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
4202674 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
131 ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
* *
4202739 TCATCCAGAAGCATTAATTTAGATCGACCAAAGTAACCCCATAAGGAAACAAAAAAAACAAAAAA
196 TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGGAAACAAAAAAAACAAAAAA
4202804 AGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCTCATTAAGCCA
261 AGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCTCATTAAGCCA
4202869 TAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGCTTTTTACACT
326 TAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGCTTTTTACACT
*
4202934 ATATTTACCTGTCTGTTCTGTCATCAACAAAAACAGTTCGAAATCAACTTAATAAGACTAAAAAT
391 ATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAAGACTAAAAAT
4202999 CGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAAAAAAAAGGAC
456 CGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAAAAAAAAGGAC
* *
4203064 AAGGAATCAGGAATTTCATTTTA--TCTTTTTTTTTTTTTTTATGGAATCAAACAAAGAGAGGAC
521 AAGGAATCAGGAATTTCATTTTAGCTATTTTTTTTTTTTTTTATGGAATCGAACAAAGAGAGGAC
4203127 GAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAATAAAAGAGAG
586 GAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAATAAAAGAGAG
* * * *
4203192 AAAAATACCTTAAAAAAGAGATATCATCGTCATCTGATGAGAATCAATGAATCATAGTG
651 AAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAGAGTG
4203251 GGA
1 GGA
4203254 AAAAGGAGTT
Statistics
Matches: 1399, Mismatches: 14, Indels: 28
0.97 0.01 0.02
Matches are distributed among these distances:
703 240 0.17
707 161 0.12
709 296 0.21
711 8 0.01
714 203 0.15
715 50 0.04
717 13 0.01
718 30 0.02
719 398 0.28
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (709 bp):
GGACGCATATAAATCCATGCTATCATTATTCATCTGAACATTACCAACACATAAAACTCTTATTG
GCTCCTAAAAATTTTATTAGGCAAACAGAATCAGAGTCACGGATTCATCCAAATCAATATCAGAG
ACAATTGAAAGAATCAATTACAGAGATGCTCCCGAAATCAAACTTAGAATAGTTTAGTGAATACT
TCATCCAGAAGCATTAATTTAGAACAACCAAAGTAACCCCATAAGGAAACAAAAAAAACAAAAAA
AGAAACAGAAGAAATATTCAAAACCCCATTTAAAGGATGAAGCATAAAGTTACCTCATTAAGCCA
TAAAACAATAATAAATGCAAATATATATAGTCATATGAAACAATGATCACCAAGCTTTTTACACT
ATATTTACCTGTCTGTTCTATCATCAACAAAAACAGTTCGAAATCAACTTAATAAGACTAAAAAT
CGCTACTTAAAGAGTGCTAAGGATAGTTGAATTCTCGTGTTTTTAGAAAAAAAAAAAAAAAGGAC
AAGGAATCAGGAATTTCATTTTAGCTATTTTTTTTTTTTTTTATGGAATCGAACAAAGAGAGGAC
GAAAAAAAGATTCTTGAAATAATGATCACACTATCAAATAAAGACCACATTAAAATAAAAGAGAG
AAAAATACCATAAAAAAGAGATATCATCATCATCTGATGAGAATCATTGAATCAGAGTG
Found at i:4204574 original size:31 final size:31
Alignment explanation
Indices: 4204532--4204618 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
4204522 TAAATTTATT
*
4204532 TTTTTAAATGATATAAATTTTTTACTT-AATA
1 TTTTAAAATGATATAAATTTTTTA-TTAAATA
* *
4204563 TTTTAAAATGATATAGAACTTTTTATTAAATT
1 TTTTAAAATGATATA-AATTTTTTATTAAATA
*
4204595 TTTTAAAAATGAAATGAAATTTTT
1 TTTT-AAAATGATAT-AAATTTTT
4204619 GAAAGGATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
31 16 0.34
32 15 0.32
33 15 0.32
34 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (31 bp):
TTTTAAAATGATATAAATTTTTTATTAAATA
Found at i:4204606 original size:33 final size:31
Alignment explanation
Indices: 4204529--4204602 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
4204519 TAATAAATTT
* *
4204529 ATTTTTTTAAATGATATAAATTTTTTACTTA
1 ATTTTTTAAAATGATATAAACTTTTTACTTA
*
4204560 ATATTTTAAAATGATATAGAACTTTTTA-TTAA
1 ATTTTTTAAAATGATATA-AACTTTTTACTT-A
4204592 ATTTTTTAAAA
1 ATTTTTTAAAA
4204603 ATGAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 18 0.49
32 19 0.51
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (31 bp):
ATTTTTTAAAATGATATAAACTTTTTACTTA
Found at i:4204618 original size:32 final size:31
Alignment explanation
Indices: 4204529--4204618 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 31
4204519 TAATAAATTT
*
4204529 ATTTTTTTAAATGATAT-AAATTTTTTACTTA
1 ATTTTTTAAAATGATATGAAA-TTTTTACTTA
* *
4204560 ATATTTTAAAATGATATAGAACTTTTTA-TTAA
1 ATTTTTTAAAATGATAT-GAAATTTTTACTT-A
*
4204592 ATTTTTTAAAAATGAAATGAAATTTTT
1 ATTTTTT-AAAATGATATGAAATTTTT
4204619 GAAAGGATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
31 17 0.35
32 21 0.43
33 11 0.22
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (31 bp):
ATTTTTTAAAATGATATGAAATTTTTACTTA
Found at i:4211508 original size:5 final size:5
Alignment explanation
Indices: 4211500--4211526 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4211490 AATAAAAGAC
4211500 AAGGG AAGGG AAGGG AAGGG AAGGG AA
1 AAGGG AAGGG AAGGG AAGGG AAGGG AA
4211527 AATATAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (5 bp):
AAGGG
Found at i:4214594 original size:19 final size:20
Alignment explanation
Indices: 4214576--4214611 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
4214566 TAATTAATTA
4214576 AAAT-AAAATA-TTATTATT
1 AAATAAAAATATTTATTATT
4214594 AAATAAAAATATTTATTA
1 AAATAAAAATATTTATTA
4214612 AATATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATAAAAATATTTATTATT
Found at i:4214611 original size:17 final size:19
Alignment explanation
Indices: 4214576--4214615 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
4214566 TAATTAATTA
4214576 AAAT-AAAATATTATTATT
1 AAATAAAAATATTATTATT
4214594 AAATAAAAATA-T-TTATT
1 AAATAAAAATATTATTATT
4214611 AAATA
1 AAATA
4214616 TATAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAAAATATTATTATT
Found at i:4215212 original size:2 final size:2
Alignment explanation
Indices: 4215205--4215234 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4215195 TCTTCTCTTC
4215205 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4215235 ATCTTCACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4216844 original size:15 final size:15
Alignment explanation
Indices: 4216826--4216864 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
4216816 TGATACAGAG
4216826 GAAGATGATGA-AGAT
1 GAAGATGATGACA-AT
4216841 GAAGATGATGACAAT
1 GAAGATGATGACAAT
*
4216856 GCAGATGAT
1 GAAGATGAT
4216865 CAGGATGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (15 bp):
GAAGATGATGACAAT
Found at i:4216871 original size:21 final size:21
Alignment explanation
Indices: 4216847--4216891 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4216837 AGATGAAGAT
4216847 GATGACAATGCAGATGATCAG
1 GATGACAATGCAGATGATCAG
** * *
4216868 GATGATGATGCAGGTGATGAG
1 GATGACAATGCAGATGATCAG
4216889 GAT
1 GAT
4216892 TTCTCAGCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.22
Consensus pattern (21 bp):
GATGACAATGCAGATGATCAG
Found at i:4217006 original size:15 final size:15
Alignment explanation
Indices: 4216988--4217022 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4216978 CGGCGAGGAT
*
4216988 GATGATAGGGATGAA
1 GATGACAGGGATGAA
*
4217003 GATGACAGTGATGAA
1 GATGACAGGGATGAA
4217018 GATGA
1 GATGA
4217023 GGAGGAGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.20
Consensus pattern (15 bp):
GATGACAGGGATGAA
Found at i:4219610 original size:2 final size:2
Alignment explanation
Indices: 4219605--4219635 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4219595 AAAAAAAGCA
4219605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4219636 GACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4224083 original size:2 final size:2
Alignment explanation
Indices: 4224076--4224100 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4224066 CGTCATCTTA
4224076 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4224101 CACACACACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4224195 original size:23 final size:23
Alignment explanation
Indices: 4224146--4224195 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
4224136 ATAGTTTATT
* *
4224146 TAAAAAATATGATCTAATCTAAT
1 TAAAAAATATGATATAATCTAAG
* *
4224169 TAAAAAATATGATATTATTTAAG
1 TAAAAAATATGATATAATCTAAG
4224192 TAAA
1 TAAA
4224196 TAGAATGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
TAAAAAATATGATATAATCTAAG
Found at i:4226954 original size:20 final size:20
Alignment explanation
Indices: 4226906--4226952 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4226896 TTTAATATAT
* * *
4226906 TTTATTATAATTTTTGTTAT
1 TTTATTTTACTTTTTGTTAA
4226926 TTTATTTTACTTTTT-TTAA
1 TTTATTTTACTTTTTGTTAA
4226945 TTTATTTT
1 TTTATTTT
4226953 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATTTTACTTTTTGTTAA
Found at i:4228710 original size:96 final size:91
Alignment explanation
Indices: 4228668--4228833 Score: 230
Period size: 92 Copynumber: 1.8 Consensus size: 91
4228658 AATCATTTGG
* * *
4228668 CAGCATTGAAAA-A-TTATTTTTCGAAAATTTATTATTAAATTCTCCAATTG-TTTAGTAGAATT
1 CAGCATTGAAAATATTTATTTTTCAAAAATTTATTATAAAATTCTCCAA-TGATTTGGTAGAATT
4228730 CATAATTTAAAATTAAAATCCTCAAAT
65 CATAATTTAAAATTAAAATCCTCAAAT
** * *
4228757 CATTATTGAAAATTATTTTTTTTTCAAAAATTTATTATAAAATTCTCCAATGATTTGGTGGAATT
1 CAGCATTGAAAA-TATTTATTTTTCAAAAATTTATTATAAAATTCTCCAATGATTTGGTAGAATT
4228822 CATAATTTAAAA
65 CATAATTTAAAA
4228834 ATTTTTAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 10 0.15
91 3 0.05
92 53 0.80
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (91 bp):
CAGCATTGAAAATATTTATTTTTCAAAAATTTATTATAAAATTCTCCAATGATTTGGTAGAATTC
ATAATTTAAAATTAAAATCCTCAAAT
Found at i:4229458 original size:36 final size:36
Alignment explanation
Indices: 4229362--4229458 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 36
4229352 AATAACCAAT
* *
4229362 AAAATAAATAAA-AATGATAAATAAAGTTAAATAATAA
1 AAAATAAATAAATAA--ATAAATAAAGTAAAAGAATAA
* * *
4229399 AAAATATAT-ATTAAAGTAGATAAAGTAAAAGAA-AGA
1 AAAATAAATAAATAAA-TAAATAAAGTAAAAGAATA-A
4229435 AAAATAAATAAATAAATAAATAAA
1 AAAATAAATAAATAAATAAATAAA
4229459 CGAGATAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
35 2 0.04
36 31 0.65
37 15 0.31
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (36 bp):
AAAATAAATAAATAAATAAATAAAGTAAAAGAATAA
Found at i:4229591 original size:15 final size:15
Alignment explanation
Indices: 4229552--4229592 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4229542 TTAGGCTAGG
*
4229552 ATTAGTTTGGGCTTG
1 ATTAGTTTGGGCTTA
*
4229567 ATCAGTTTGGGCTTA
1 ATTAGTTTGGGCTTA
*
4229582 ATTAGGTTGGG
1 ATTAGTTTGGG
4229593 TCTGAACCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.41
Consensus pattern (15 bp):
ATTAGTTTGGGCTTA
Found at i:4232724 original size:23 final size:23
Alignment explanation
Indices: 4232691--4232770 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
4232681 CACGCAATAA
*
4232691 ATCATGCAATAATATAAAATTAT
1 ATCATGCAATAATATAAAATCAT
* *
4232714 ATAATGCAATAA-ATAAAATCAC
1 ATCATGCAATAATATAAAATCAT
*
4232736 ATCATGCAATATTATAAAATCAT
1 ATCATGCAATAATATAAAATCAT
*
4232759 ATCATTCAATAA
1 ATCATGCAATAA
4232771 ATCATGCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.38
23 30 0.62
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (23 bp):
ATCATGCAATAATATAAAATCAT
Found at i:4232790 original size:18 final size:18
Alignment explanation
Indices: 4232736--4232790 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
4232726 ATAAAATCAC
*
4232736 ATCATGCAATATTATAAA
1 ATCATGCAATAATATAAA
* * *
4232754 ATCATATCATTCA-AT-AA
1 ATCAT-GCAATAATATAAA
4232771 ATCATGCAATAATATAAA
1 ATCATGCAATAATATAAA
4232789 AT
1 AT
4232791 TATACCATGC
Statistics
Matches: 27, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 11 0.41
19 3 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.33
Consensus pattern (18 bp):
ATCATGCAATAATATAAA
Found at i:4232818 original size:37 final size:35
Alignment explanation
Indices: 4232736--4232822 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
4232726 ATAAAATCAC
* * * *
4232736 ATCATGCAATATTATAAAATCATATCATTCAATAA
1 ATCATGCAATAATATAAAATCATACCATGCAAAAA
*
4232771 ATCATGCAATAATATAAAATTATACCATGCAAAAA
1 ATCATGCAATAATATAAAATCATACCATGCAAAAA
*
4232806 TTATTATGCAATAATAT
1 --ATCATGCAATAATAT
4232823 TAATGATCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
35 30 0.68
37 14 0.32
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (35 bp):
ATCATGCAATAATATAAAATCATACCATGCAAAAA
Found at i:4232934 original size:24 final size:24
Alignment explanation
Indices: 4232898--4233201 Score: 212
Period size: 24 Copynumber: 12.8 Consensus size: 24
4232888 ATACAATTAC
4232898 ACAAATAAATATATTAATAATCAT
1 ACAAATAAATATATTAATAATCAT
* *
4232922 ACAATTAACTATATTAATAATCAT
1 ACAAATAAATATATTAATAATCAT
*
4232946 GC-AAT-AA-A-A-TAA-AATCAT
1 ACAAATAAATATATTAATAATCAT
*
4232964 ATAAATAAATATATTAATAATCA-
1 ACAAATAAATATATTAATAATCAT
*
4232987 AGCAATTAAATATATTAATAATCACGT
1 A-CAAATAAATATATTAATAATCA--T
*
4233014 AATCAAATTAA-ATATTAATAATCAT
1 -A-CAAATAAATATATTAATAATCAT
* *
4233039 GC-AATCAAAT-TA-AATATAATCAT
1 ACAAAT-AAATATATTA-ATAATCAT
*
4233062 ACAAATAAATGTATTAATAATCAT
1 ACAAATAAATATATTAATAATCAT
* *
4233086 GC----AAATATATTAATAAATCAC
1 ACAAATAAATATATTAAT-AATCAT
4233107 ACAAATAAATATA-T--TAATCAT
1 ACAAATAAATATATTAATAATCAT
* *
4233128 GCAAATAAATATATTAATAACAAACAAT
1 ACAAATAAATATATTAAT---AATC-AT
4233156 CACACACATAAATATATTAGATAATCAT
1 -ACA-A-ATAAATATATTA-ATAATCAT
*
4233184 GCAAATAAATATATTAAT
1 ACAAATAAATATATTAAT
4233202 GTGGGAAAAC
Statistics
Matches: 220, Mismatches: 27, Indels: 66
0.70 0.09 0.21
Matches are distributed among these distances:
18 6 0.03
19 6 0.03
20 14 0.06
21 25 0.11
22 8 0.04
23 24 0.11
24 66 0.30
25 21 0.10
26 1 0.00
27 18 0.08
28 11 0.05
29 5 0.02
30 1 0.00
31 12 0.05
32 2 0.01
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (24 bp):
ACAAATAAATATATTAATAATCAT
Found at i:4232948 original size:66 final size:66
Alignment explanation
Indices: 4232872--4233147 Score: 197
Period size: 66 Copynumber: 4.1 Consensus size: 66
4232862 ATAAAAATAT
* * * * * *
4232872 ATAACCATGCAGTTAAATACAATTACACAAATAAATATATTAATAATCATA-CAATTAACTATAT
1 ATAATCATGCAATAAAATAAAATCACACAAATAAATATATTAATAATCA-AGCAATTAAATATAT
4232936 TA
65 TA
* *
4232938 ATAATCATGCAATAAAATAAAATCATATAAATAAATATATTAATAATCAAGCAATTAAATATATT
1 ATAATCATGCAATAAAATAAAATCACACAAATAAATATATTAATAATCAAGCAATTAAATATATT
4233003 A
66 A
* * * * * * * *
4233004 ATAATCACGTAATCAAATTAAATATTA-ATAATCATGCAATCAAATTAAATATAATCATA-CAAA
1 ATAATCATGCAAT-AAAATAAA-ATCACACAA--AT-AAAT-ATATT--A-ATAATCA-AGCAAT
*
4233067 TAAATGTATTA
56 TAAATATATTA
* *
4233078 ATAATCATGCAAATATATTAAT-AAATCACACAAATAAATATA-T--TAATCATGCAAATAAATA
1 ATAATCATGC-AATA-A--AATAAAATCACACAAATAAATATATTAATAATCAAGCAATTAAATA
4233139 TATTA
62 TATTA
4233144 ATAA
1 ATAA
4233148 CAAACAATCA
Statistics
Matches: 168, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
65 1 0.01
66 91 0.54
67 11 0.07
68 3 0.02
69 2 0.01
70 3 0.02
71 5 0.03
72 2 0.01
73 4 0.02
74 31 0.18
75 8 0.05
76 5 0.03
77 2 0.01
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (66 bp):
ATAATCATGCAATAAAATAAAATCACACAAATAAATATATTAATAATCAAGCAATTAAATATATT
A
Found at i:4233060 original size:98 final size:89
Alignment explanation
Indices: 4232903--4233136 Score: 239
Period size: 98 Copynumber: 2.6 Consensus size: 89
4232893 ATTACACAAA
*
4232903 TAAATATATTAATAATCATACAATTAACTATATTAATAATCATGCAATAAAATAAAATCATATAA
1 TAAATATATTAATAATCATACAATTAAC-ATATTAATAATCATGCAATAAAATAAAATCATACAA
4232968 ATAAATATATTAATAATCAAGCAAT
65 ATAAATATATTAATAATCAAGCAAT
*
4232993 TAAATATATTAATAATCACGTAATCAAATTAA-ATATTAATAATCATGCAATCAAATTAAATATA
1 TAAATATATTAATAATCA--T-A-C-AATTAACATATTAATAATCATGCAAT---A--AAATAAA
* *
4233057 ATCATACAAATAAATGTATTAATAATCATGC---
56 ATCATACAAATAAATATATTAATAATCAAGCAAT
* * *
4233088 -AAATATATTAATAAATCACACAAATAA-ATA-TATTAATCATGCAAATAAA
1 TAAATATATTAAT-AATCATACAATTAACATATTAATAATCATGC-AATAAA
4233137 TATATTAATA
Statistics
Matches: 125, Mismatches: 7, Indels: 29
0.78 0.04 0.18
Matches are distributed among these distances:
85 2 0.02
87 1 0.01
89 11 0.09
90 29 0.23
91 1 0.01
92 2 0.02
93 20 0.16
94 13 0.10
95 11 0.09
96 1 0.01
98 34 0.27
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (89 bp):
TAAATATATTAATAATCATACAATTAACATATTAATAATCATGCAATAAAATAAAATCATACAAA
TAAATATATTAATAATCAAGCAAT
Found at i:4233061 original size:23 final size:27
Alignment explanation
Indices: 4232974--4233055 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
4232964 ATAAATAAAT
* *
4232974 ATATTAATAATCAAGCAATTAAA-T--
1 ATATTAATAATCATGCAATCAAATTAA
* *
4232998 ATATTAATAATCACGTAATCAAATTAA
1 ATATTAATAATCATGCAATCAAATTAA
4233025 ATATTAATAATCATGCAATCAAATTAA
1 ATATTAATAATCATGCAATCAAATTAA
4233052 ATAT
1 ATAT
4233056 AATCATACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 20 0.40
25 1 0.02
27 29 0.58
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (27 bp):
ATATTAATAATCATGCAATCAAATTAA
Found at i:4233111 original size:21 final size:20
Alignment explanation
Indices: 4233068--4233113 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4233058 TCATACAAAT
* **
4233068 AAATGTATTAATAATCATGC
1 AAATATATTAATAATCACAC
4233088 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
4233109 AAATA
1 AAATA
4233114 AATATATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:4233125 original size:21 final size:21
Alignment explanation
Indices: 4233055--4233145 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
4233045 AAATTAAATA
* *
4233055 TAATCATACAAATAAATGTAT
1 TAATCACACAAATAAATATAT
* *
4233076 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
4233100 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
**
4233121 TAATCATGCAAATAAATATAT
1 TAATCACACAAATAAATATAT
4233142 TAAT
1 TAAT
4233146 AACAAACAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 37 0.66
22 2 0.04
23 3 0.05
24 14 0.25
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:4233193 original size:140 final size:136
Alignment explanation
Indices: 4232914--4233196 Score: 299
Period size: 140 Copynumber: 2.0 Consensus size: 136
4232904 AAATATATTA
* * * *
4232914 ATAATCATACAATTAACTATATTAATAATCATGCAATAAAATAAAATCATATAAATAAATATATT
1 ATAATCATACAAATAAATATATTAATAATCATGCAATAAAATAAAATCACACAAATAAATATATT
* *** *
4232979 AATAATCAAGCAATTAAATATATTAATAATCACGTAATCAAATTAAATATTAATAATCATGCAAT
66 -ATAATCAAGCAAATAAATATATTAATAATCAAACAATCAAATAAAATATTAATAATCATG--A-
4233044 CAAATTAAAT
127 CAAATTAAAT
*
4233054 ATAATCATACAAATAAATGTATTAATAATCATGCAAATATATTAAT-AAATCACACAAATAAATA
1 ATAATCATACAAATAAATATATTAATAATCATGC-AATA-A--AATAAAATCACACAAATAAATA
*
4233118 TA-T-TAATCATGCAAATAAATATATTAATAA-CAAACAATCACACACATAAATATATTAGATAA
62 TATTATAATCAAGCAAATAAATATATTAATAATCAAACAAT--CA-A-ATAAA-ATATTA-ATAA
4233180 TCATG-CAAA-TAAAT
121 TCATGACAAATTAAAT
4233194 ATA
1 ATA
4233197 TTAATGTGGG
Statistics
Matches: 122, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
139 5 0.04
140 64 0.52
141 10 0.08
142 3 0.02
143 22 0.18
144 9 0.07
145 9 0.07
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (136 bp):
ATAATCATACAAATAAATATATTAATAATCATGCAATAAAATAAAATCACACAAATAAATATATT
ATAATCAAGCAAATAAATATATTAATAATCAAACAATCAAATAAAATATTAATAATCATGACAAA
TTAAAT
Found at i:4238397 original size:17 final size:17
Alignment explanation
Indices: 4238363--4238409 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
4238353 CATTTTTCCA
*
4238363 CAATT-AAT-AATGATG
1 CAATTAAATAAATTATG
4238378 CAATTAAATAAATTATG
1 CAATTAAATAAATTATG
* *
4238395 CAAATAAATATATTA
1 CAATTAAATAAATTA
4238410 GGAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 5 0.19
16 3 0.11
17 19 0.70
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
CAATTAAATAAATTATG
Found at i:4238416 original size:17 final size:17
Alignment explanation
Indices: 4238375--4238439 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
4238365 ATTAATAATG
* *
4238375 ATGCAATTAAATAAATT
1 ATGCAAATAAATATATT
4238392 ATGCAAATAAATATATT
1 ATGCAAATAAATATATT
* *
4238409 AGGAAAATAAAT-TATT
1 ATGCAAATAAATATATT
4238425 ATGCAAATATAATAT
1 ATGCAAATA-AATAT
4238440 TAGTCATGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
16 11 0.28
17 28 0.70
18 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.34
Consensus pattern (17 bp):
ATGCAAATAAATATATT
Found at i:4238440 original size:16 final size:16
Alignment explanation
Indices: 4238385--4238441 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
4238375 ATGCAATTAA
4238385 ATAA-ATTATGCAAAT
1 ATAATATTATGCAAAT
* * *
4238400 AAATATATTAGGAAAAT
1 ATA-ATATTATGCAAAT
4238417 A-AATTATTATGCAAAT
1 ATAA-TATTATGCAAAT
4238433 ATAATATTA
1 ATAATATTA
4238442 GTCATGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 3 0.09
16 18 0.55
17 12 0.36
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (16 bp):
ATAATATTATGCAAAT
Found at i:4238952 original size:19 final size:19
Alignment explanation
Indices: 4238899--4238978 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 19
4238889 TTTTTTTTTA
*
4238899 AAAATAAAA-CCAAAAAAT
1 AAAATAAAATCAAAAAAAT
** **
4238917 AGCATAAAAGGATAAAAAAT
1 AAAATAAAATCA-AAAAAAT
4238937 AAAATAAAATC-AAAAAAT
1 AAAATAAAATCAAAAAAAT
* *
4238955 AAAAATAAAATGAAAAAAAG
1 -AAAATAAAATCAAAAAAAT
4238975 AAAA
1 AAAA
4238979 CCTGCGATCG
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 14 0.29
19 14 0.29
20 20 0.42
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAATAAAATCAAAAAAAT
Found at i:4238972 original size:38 final size:38
Alignment explanation
Indices: 4238899--4238978 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
4238889 TTTTTTTTTA
** *
4238899 AAAATAAAACCAAAAAATAGCATAAAAGGATAAAAAAT
1 AAAATAAAACCAAAAAATAAAATAAAAGGATAAAAAAG
* *
4238937 AAAATAAAATCAAAAAATAAAAATAAAATGA-AAAAAAG
1 AAAATAAAACCAAAAAAT-AAAATAAAAGGATAAAAAAG
4238975 AAAA
1 AAAA
4238979 CCTGCGATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.12
Consensus pattern (38 bp):
AAAATAAAACCAAAAAATAAAATAAAAGGATAAAAAAG
Found at i:4239840 original size:3 final size:3
Alignment explanation
Indices: 4239834--4239861 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4239824 AAAAAACGAG
4239834 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4239862 TATACAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4240479 original size:120 final size:119
Alignment explanation
Indices: 4240305--4240536 Score: 304
Period size: 120 Copynumber: 1.9 Consensus size: 119
4240295 GACTAGAATC
* *
4240305 GAGTCGAGGTAAAAAATAAATGATCGAAATGATACCACAAATCATAAAAAATGATCTGGATTGAG
1 GAGTCGAGGTAAAAAATAAATGATCGAAATGAAACCACAAATCATAAAAAATGATCTGGACTGAG
* * * *
4240370 TCAAGACCAAGTGA-TCGGGATGAAATCACAAGTCAAAATAAAAGCAACAAAGATT
66 CCAAGACCAAGTGACT-AGAACGAAATCACAAGTCAAAAT-AAAGCAACAAAGATT
* * * ** * * *
4240425 GAGTTGAGGTAAAAAATAGATGATCGAGATGAAACCATGAATCATCAGAGATGATCTGGACTGAG
1 GAGTCGAGGTAAAAAATAAATGATCGAAATGAAACCACAAATCATAAAAAATGATCTGGACTGAG
*
4240490 CCAAGACCAAGTGACTAGAACGAAATCATAAGTCAAAATAAAGCAAC
66 CCAAGACCAAGTGACTAGAACGAAATCACAAGTCAAAATAAAGCAAC
4240537 TAGGACAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 8 0.08
120 87 0.91
121 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (119 bp):
GAGTCGAGGTAAAAAATAAATGATCGAAATGAAACCACAAATCATAAAAAATGATCTGGACTGAG
CCAAGACCAAGTGACTAGAACGAAATCACAAGTCAAAATAAAGCAACAAAGATT
Found at i:4251874 original size:131 final size:131
Alignment explanation
Indices: 4251738--4251977 Score: 453
Period size: 131 Copynumber: 1.8 Consensus size: 131
4251728 ATAAAAATGG
*
4251738 CAACACCCATCCAAAGAATGATACCAATTTGATTTTGAATTATCTAAGCCTTGATCATTTTTATA
1 CAACACCCATCCAAAGAATGATACCAATTTGATTTTGAATTATCCAAGCCTTGATCATTTTTATA
4251803 ATTTACAAAATAATTTAATAATAAATTATTACTTTTTTTGTTATGGAGAAGGTTGTAGCACCCCC
66 ATTTACAAAATAATTTAATAATAAATTATTACTTTTTTTGTTATGGAGAAGGTTGTAGCACCCCC
4251868 A
131 A
*
4251869 CAACACCCATCCAAAGAATGATACCAGTTTGATTTTGAATTATCCAAGCCTTGATCATTTTTATA
1 CAACACCCATCCAAAGAATGATACCAATTTGATTTTGAATTATCCAAGCCTTGATCATTTTTATA
*
4251934 ATTTACAAAATAATTTAATAATGAATTATTACTTTTTTTGTTAT
66 ATTTACAAAATAATTTAATAATAAATTATTACTTTTTTTGTTAT
4251978 TAGAATTTTT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 106 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (131 bp):
CAACACCCATCCAAAGAATGATACCAATTTGATTTTGAATTATCCAAGCCTTGATCATTTTTATA
ATTTACAAAATAATTTAATAATAAATTATTACTTTTTTTGTTATGGAGAAGGTTGTAGCACCCCC
A
Found at i:4252022 original size:15 final size:12
Alignment explanation
Indices: 4251983--4252017 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
4251973 GTTATTAGAA
4251983 TTTTTTTTT-CT
1 TTTTTTTTTACT
4251994 TTTTTTTTTACT
1 TTTTTTTTTACT
4252006 TTATTTTTTTAC
1 TT-TTTTTTTAC
4252018 CCTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.41
12 4 0.18
13 9 0.41
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTACT
Found at i:4252123 original size:29 final size:28
Alignment explanation
Indices: 4252066--4252152 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 28
4252056 CCCTTTTTAA
*
4252066 AAAAAATAAAACCAAAAAATAACAAAAAAGGTT
1 AAAAAATAAAA--ATAAAATAA-AAAAAA--TT
4252099 -AAAAAT-AAAATAAAATAAAACAAAATT
1 AAAAAATAAAAATAAAATAAAA-AAAATT
4252126 AAAAAATAAAAATAAAATAGAAAAAAA
1 AAAAAATAAAAATAAAATA-AAAAAAA
4252153 AAACTTACGA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
27 2 0.04
28 8 0.16
29 27 0.55
30 3 0.06
31 3 0.06
32 6 0.12
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (28 bp):
AAAAAATAAAAATAAAATAAAAAAAATT
Found at i:4252988 original size:3 final size:3
Alignment explanation
Indices: 4252973--4253018 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
4252963 GAAAAATGGG
*
4252973 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4253019 TAGAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4254073 original size:43 final size:42
Alignment explanation
Indices: 4253955--4254073 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 42
4253945 TCAAAGGCCC
*
4253955 CCTCACAACTGAGGCATTGAAACTTTT-AGAAAATAAAATGTT
1 CCTCACAACTGAGGCTTTGAAACTTTTGA-AAAATAAAATGTT
*
4253997 TCTC-CATGACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTT
1 CCTCACA--ACTGAGGCTTTGAAACTTTTGAAAAATAAAATG-TT
*
4254041 CCTCACAACTAAGGCTTTGAAACTTTTGAAAAA
1 CCTCACAACTGAGGCTTTGAAACTTTTGAAAAA
4254074 ATACTTCTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 55 0.81
44 6 0.09
45 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (42 bp):
CCTCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGTT
Found at i:4254167 original size:25 final size:25
Alignment explanation
Indices: 4254129--4254179 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
4254119 TCTACCAAGG
4254129 CTTCAATTTCGAAAAATAAAGAACT
1 CTTCAATTTCGAAAAATAAAGAACT
*
4254154 CTTCAACTTT-GAAAAATAAAGGACT
1 CTTCAA-TTTCGAAAAATAAAGAACT
4254179 C
1 C
4254180 CTCCACCGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (25 bp):
CTTCAATTTCGAAAAATAAAGAACT
Found at i:4254255 original size:36 final size:35
Alignment explanation
Indices: 4254194--4254312 Score: 129
Period size: 37 Copynumber: 3.3 Consensus size: 35
4254184 ACCGACTTCG
*
4254194 AAAATAAAGTACTC-CACCGAGGCTTCAACTTTG-
1 AAAATAAAATACTCTCACCGAGGCTTCAACTTTGA
*
4254227 AAAATAAAATACTCATTCACCGATGCTTCAA-TTTGGA
1 AAAATAAAATACTC--TCACCGAGGCTTCAACTTT-GA
4254264 AAAATAAAGA-ACTCCGTCACCGAGGCTTCAACTTTGAA
1 AAAATAAA-ATACT-C-TCACCGAGGCTTCAACTTTG-A
4254302 AAAATAAAATA
1 AAAATAAAATA
4254313 ATATCTAGGA
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
33 13 0.18
35 3 0.04
36 14 0.19
37 27 0.38
38 15 0.21
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (35 bp):
AAAATAAAATACTCTCACCGAGGCTTCAACTTTGA
Found at i:4254284 original size:37 final size:38
Alignment explanation
Indices: 4254208--4254312 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 38
4254198 TAAAGTACTC
*
4254208 CACCGAGGCTTCAACTTT-G-AAAATAAAATACTCATT
1 CACCGAGGCTTCAACTTTGGAAAAATAAAATACTCAGT
* *
4254244 CACCGATGCTTCAA-TTTGGAAAAATAAAGA-ACTCCGT
1 CACCGAGGCTTCAACTTTGGAAAAATAAA-ATACTCAGT
*
4254281 CACCGAGGCTTCAACTTTGAAAAAATAAAATA
1 CACCGAGGCTTCAACTTTGGAAAAATAAAATA
4254313 ATATCTAGGA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
35 3 0.05
36 14 0.24
37 27 0.46
38 15 0.25
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (38 bp):
CACCGAGGCTTCAACTTTGGAAAAATAAAATACTCAGT
Found at i:4254396 original size:48 final size:48
Alignment explanation
Indices: 4254321--4254453 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
4254311 TAATATCTAG
* * * * **
4254321 GAAAGCTATTTTTCAATAAAGGTTTGAAACTTTAAAATTCTCATTCAA
1 GAAAGCTCTTTCTCAATAAAAGCTTGAAACTTTAAAATTCTCACCCAA
* *
4254369 GAAAGCTCTTTCTCAACAAAAGCTTGAAACTTTAAAATTCTCACCCAG
1 GAAAGCTCTTTCTCAATAAAAGCTTGAAACTTTAAAATTCTCACCCAA
* *
4254417 GAAAACTCTTTCTCATTAAAAGCTTGAAACTTTAAAA
1 GAAAGCTCTTTCTCAATAAAAGCTTGAAACTTTAAAA
4254454 CAAATCAACA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (48 bp):
GAAAGCTCTTTCTCAATAAAAGCTTGAAACTTTAAAATTCTCACCCAA
Found at i:4259352 original size:58 final size:58
Alignment explanation
Indices: 4259073--4259360 Score: 299
Period size: 58 Copynumber: 4.8 Consensus size: 58
4259063 TGCTTTTGTA
* * **
4259073 CAAGAAAAATTGATATTTTCAACTTTTCCTCAAAAAAACCTTTTTTTTTTAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCT--AAAAAA--TATTTTTTAGAAAACTTATTTT
* * **
4259135 TAAGAAAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTAGAAAACTTATTTT
* * *
4259193 CAA-AGAAAATTGATACTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTTGAAAACTTATTC
1 CAAGA-AAAATTGATACTTTCAACTTTTCCT-AAAAAA------TATTTTTTAGAAAACTTATTT
4259257 T
58 T
* **
4259258 CATGAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTAGAAAACTTATTTT
* **
4259316 CAAGGAAAATTGATACTTTCAACTTTTTTTAAAAAATATTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATT-TTTT
4259361 TTTGAAAGTT
Statistics
Matches: 189, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 98 0.52
59 8 0.04
60 4 0.02
62 27 0.14
64 4 0.02
65 46 0.24
66 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTAGAAAACTTATTTT
Found at i:4259363 original size:123 final size:122
Alignment explanation
Indices: 4259078--4259351 Score: 437
Period size: 123 Copynumber: 2.3 Consensus size: 122
4259068 TTGTACAAGA
* * *
4259078 AAAATTGATATTTTCAACTTTTCCTCAAAAAAAC-C--TTTTTTTTTTAAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCT-AAAAAAACTCTTTTTTTTTTTTAAAACTTATTCTCAAGA
4259140 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
65 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
*
4259198 AAAATTGATACTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTTGAAAACTTATTCTCATGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTT-AAAACTTATTCTCAAGA
* *
4259263 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAACTTATTTTCAAGG
65 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
**
4259321 AAAATTGATACTTTCAACTTTTTTTAAAAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAA
4259352 TATTATTTTT
Statistics
Matches: 142, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 8 0.06
120 25 0.18
122 10 0.07
123 99 0.70
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (122 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTTAAAACTTATTCTCAAGAA
AAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
Found at i:4259389 original size:123 final size:121
Alignment explanation
Indices: 4259078--4259383 Score: 417
Period size: 123 Copynumber: 2.5 Consensus size: 121
4259068 TTGTACAAGA
* * *
4259078 AAAATTGATATTTTCAACTTTTCCTCAAAAAAACCT-TT-TTTTTTT-AAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCT-AAAAAAA-CTATTATTTTTTTGAAAACTTATTCTAAAGA
4259140 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
64 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
* * * *
4259198 AAAATTGATACTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTTGAAAACTTATTCTCATGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAAA--CTATTATTTTTTTGAAAACTTATTCTAAAGA
* *
4259263 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAACTTATTTTCAAGG
64 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
* * **
4259321 AAAATTGATACTTTCAACTTTT-TTTAAAAAA-TATTATTTTTTTGAAAGTTTATT-TAAAGAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAAACTATTATTTTTTTGAAAACTTATTCTAAAGAAA
4259383 A
66 A
4259384 TAAAAAAATA
Statistics
Matches: 167, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
118 7 0.04
119 26 0.16
120 26 0.16
121 2 0.01
122 14 0.08
123 92 0.55
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (121 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAAAACTATTATTTTTTTGAAAACTTATTCTAAAGAAA
AATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
Found at i:4259396 original size:5 final size:5
Alignment explanation
Indices: 4259380--4259449 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
4259370 TTATTTAAAG
4259380 AAAAT -AAA- AAAAT AAAAT AAAAAT AAAAAT AACAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AA-AAT AAA-AT -AAAAT
* *
4259428 AGACT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AA
4259450 GAAATACCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 6 0.11
5 26 0.47
6 20 0.36
7 3 0.05
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4259396 original size:6 final size:6
Alignment explanation
Indices: 4259380--4259428 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
4259370 TTATTTAAAG
* * *
4259380 AAAATA AAAAAA TAAAATA AAAATA AAAATA ACAATA AAGATA AAAATA
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
4259429 GACTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4259499 original size:19 final size:19
Alignment explanation
Indices: 4259467--4259504 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
4259457 CAAATAATTC
4259467 TAATATAATCAATAAATAA
1 TAATATAATCAATAAATAA
4259486 TAATAATAAT-AATAAATAA
1 TAAT-ATAATCAATAAATAA
4259505 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATATAATCAATAAATAA
Found at i:4260395 original size:17 final size:17
Alignment explanation
Indices: 4260369--4260430 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
4260359 TAATTAAAAG
4260369 AAAATAATTAGATAAATA
1 AAAAT-ATTAGATAAATA
4260387 AAAATATTAATAGATAAATA
1 AAAATA-T--TAGATAAATA
* *
4260407 ATAATAATAGATAAATA
1 AAAATATTAGATAAATA
*
4260424 ATAATAT
1 AAAATAT
4260431 ATAAATACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 17 0.45
18 6 0.16
20 15 0.39
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
AAAATATTAGATAAATA
Found at i:4260407 original size:4 final size:4
Alignment explanation
Indices: 4260370--4260550 Score: 73
Period size: 4 Copynumber: 48.2 Consensus size: 4
4260360 AATTAAAAGA
* * * *
4260370 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
4260415 AGAT AAAT -AAT -AAT ATAT AAAT ACAT AAAT -AAT -AAT AAAT ACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * * *
4260459 ATAT ATAT TAAC AGAT AAAT -AAT -AAT ATAT AAAT AGAT AAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
4260504 AAAT ATAT ATAT TAAC AGAT AAAT -AAT AAA- AAAT AAAA AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4260550 A
1 A
4260551 TATATTAAAA
Statistics
Matches: 131, Mismatches: 37, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
3 38 0.29
4 92 0.70
5 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:4260411 original size:14 final size:13
Alignment explanation
Indices: 4260383--4260582 Score: 100
Period size: 14 Copynumber: 14.2 Consensus size: 13
4260373 TAATTAGATA
*
4260383 AATAA-AAATATT
1 AATAATAAATAAT
4260395 AATAGATAAATAAT
1 AATA-ATAAATAAT
*
4260409 AATAATAGATAAAT
1 AATAATAAAT-AAT
*
4260423 AATAATATATAAAT
1 AATAATAAAT-AAT
4260437 ACATAA-ATAATAAT
1 A-ATAATA-AATAAT
*
4260451 AAATACATATATATATT
1 -AATA-ATA-A-ATAAT
*
4260468 AACAGATAAATAAT
1 AATA-ATAAATAAT
4260482 AATATATAAATAGAT
1 AATA-ATAAATA-AT
4260497 AAATAATAAATATAT
1 -AATAATAAATA-AT
* *
4260512 ATATTAACAGATAAAT
1 A-A-TAATAAAT-AAT
*
4260528 AATAAAAAATAA-
1 AATAATAAATAAT
*
4260540 AAAAATAAATATAT
1 AATAATAAATA-AT
* * *
4260554 ATTAAAAAATAGT
1 AATAATAAATAAT
4260567 AATAATAAATACAT
1 AATAATAAATA-AT
4260581 AA
1 AA
4260583 GATACAAAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
12 13 0.09
13 19 0.13
14 66 0.45
15 22 0.15
16 22 0.15
17 5 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:4260487 original size:56 final size:54
Alignment explanation
Indices: 4260398--4260605 Score: 56
Period size: 53 Copynumber: 3.8 Consensus size: 54
4260388 AAATATTAAT
* * * * *
4260398 AGATAAATAATAATA-ATAGATAAAT-AATAAT-ATATAAATACATA-AATAAT
1 AGATAAATAATAATATATAAATAAATAAATAATAATAAAAATATATATATTAAC
* * * * *
4260448 A-ATAAATACATATATATATTAACAGATAAATAATAATATATAAATAGATAAATAATAA-
1 AGATAAATA-ATA-ATATATAAATAAATAAATAATAATA-A-AAAT--ATATATATTAAC
* * * * * * *
4260506 ATATATATATTAACAGATAAAT-AATAAAAAATAA-AAAAATAAATATATATTAAA
1 AGATAAATAATAATATATAAATAAATAAATAATAATAAAAAT--ATATATATTAAC
* * * * * *
4260560 AAAT-AGTAATAATAAATACATAAGATACAAAAAAAATAAAAATATA
1 AGATAAATAATAATATATAAATAA-ATA-AATAATAATAAAAATATA
4260606 AAATACAAAA
Statistics
Matches: 116, Mismatches: 26, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
49 7 0.06
50 4 0.03
51 3 0.03
52 6 0.05
53 31 0.27
54 8 0.07
55 7 0.06
56 21 0.18
57 12 0.10
58 6 0.05
59 11 0.09
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (54 bp):
AGATAAATAATAATATATAAATAAATAAATAATAATAAAAATATATATATTAAC
Found at i:4260529 original size:49 final size:49
Alignment explanation
Indices: 4260378--4260550 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 49
4260368 GAAAATAATT
* * * *
4260378 AGATAAATAA-AA-ATATTAATAGATAAATAAT-AATA-ATAGATAAAT
1 AGATAAATAATAATATATAAATAGATAAATAATAAATATATATATTAAC
* *
4260423 A-AT-AATATATAAATACATAAATA-AT-AATAAATACATATATATATTAAC
1 AGATAAATA-AT-AATATATAAATAGATAAAT-AATAAATATATATATTAAC
4260471 AGATAAATAATAATATATAAATAGATAAATAATAAATATATATATTAAC
1 AGATAAATAATAATATATAAATAGATAAATAATAAATATATATATTAAC
* * * *
4260520 AGATAAATAATAAAAAATAAAAAAATAAATA
1 AGATAAATAATAATATATAAATAGATAAATA
4260551 TATATTAAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.04
44 3 0.03
45 4 0.04
46 7 0.07
47 10 0.10
48 19 0.18
49 51 0.49
50 7 0.07
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (49 bp):
AGATAAATAATAATATATAAATAGATAAATAATAAATATATATATTAAC
Found at i:4260533 original size:27 final size:27
Alignment explanation
Indices: 4260452--4260533 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
4260442 AATAATAATA
*
4260452 AATACATATATATATTAACAGATAAAT
1 AATAAATATATATATTAACAGATAAAT
*
4260479 AAT--A-ATATATA--AATAGATAAAT
1 AATAAATATATATATTAACAGATAAAT
4260501 AATAAATATATATATTAACAGATAAAT
1 AATAAATATATATATTAACAGATAAAT
4260528 AATAAA
1 AATAAA
4260534 AAATAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 13 0.27
24 8 0.17
25 8 0.17
27 19 0.40
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
AATAAATATATATATTAACAGATAAAT
Found at i:4260606 original size:24 final size:25
Alignment explanation
Indices: 4260570--4260620 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
4260560 AAATAGTAAT
* *
4260570 AATAAATACATAAGATACAAAA-AA
1 AATAAAAACATAAAATACAAAATAA
*
4260594 AATAAAAATATAAAATACAAAATAA
1 AATAAAAACATAAAATACAAAATAA
4260619 AA
1 AA
4260621 ATTAAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (25 bp):
AATAAAAACATAAAATACAAAATAA
Found at i:4260918 original size:88 final size:87
Alignment explanation
Indices: 4260764--4261146 Score: 360
Period size: 84 Copynumber: 4.4 Consensus size: 87
4260754 AAAATTTGAT
* * * * * * *
4260764 CAAAACTCCTCTAAGCAGAGGCTTAACCAC-TTTGAAAAACATAAATAAAGCTCCTTTAATTAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAACATAAA-AAAACTCCTTCAATCAGA
4260828 GGCTTAACGACTTTG-AAAATAAAA
65 GGCTT-ACGACTTTGAAAAAT-AAA
* *
4260852 CAAAGCTCCTCCAATCAGAGGCTCAACGAC-TTTGAAAAACATAAACAAAACTCCTTCAATCAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAACATAAA-AAAACTCCTTCAATCAGA
4260916 GGCTCTACGACTTTGAAAAATAAA
65 GGCT-TACGACTTTGAAAAATAAA
* ** *
4260940 CAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTG--AAA-AT-AAATTACTCC-TCTAAACAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAACATAAAAAAACTCCTTC-AATCAGA
***
4261000 GGCATTGTAACTTTGAAAAATAAA
65 GGC-TTACGACTTTGAAAAATAAA
*** * *
4261024 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG--AAA-AT-AAATTGCTCC-TCTAAACATA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAACATAAAAAAACTCCTTC-AATCAGA
* **
4261084 GGCATCATAACTTTGAAAAATAAA
65 GGC-TTACGACTTTGAAAAATAAA
* *
4261108 CAAAGCTCTTCTAATCAGAGGCTCAACAATTTTTGAAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAA
4261147 TAAATTGCTC
Statistics
Matches: 263, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
83 2 0.01
84 143 0.54
85 3 0.01
86 4 0.02
87 3 0.01
88 98 0.37
89 10 0.04
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (87 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAACATAAAAAAACTCCTTCAATCAGAG
GCTTACGACTTTGAAAAATAAA
Found at i:4261012 original size:41 final size:40
Alignment explanation
Indices: 4260948--4261190 Score: 168
Period size: 41 Copynumber: 5.8 Consensus size: 40
4260938 AACAAAGCTT
* *
4260948 CTCTAATCAGAGGC-TCAACAACTTTTGAAAATAAATTACTC
1 CTCTAAACAGAGGCAT-AATAAC-TTTGAAAATAAATTACTC
** **
4260989 CTCTAAACAGAGGCATTGTAACTTTGAAAAATAAACAAAGCTC
1 CTCTAAACAGAGGCATAATAACTTTG-AAAATAAA-TTA-CTC
* * *
4261032 CTCTAATCAGAGGC-TCAACAACTTTTGAAAATAAATTGCTC
1 CTCTAAACAGAGGCAT-AATAAC-TTTGAAAATAAATTACTC
* * **
4261073 CTCTAAACATAGGCATCATAACTTTGAAAAATAAACAAAGCTC
1 CTCTAAACAGAGGCATAATAACTTTG-AAAATAAA-TTA-CTC
* * * * *
4261116 TTCTAATCAGAGGC-TCAACAATTTTTGAAAATAAATTGCTC
1 CTCTAAACAGAGGCAT-AATAA-CTTTGAAAATAAATTACTC
* * *
4261157 TTCTGAACAGAGGCATCATAACTTTGAAAATAAA
1 CTCTAAACAGAGGCATAATAACTTTGAAAATAAA
4261191 AGGCTCCTTG
Statistics
Matches: 155, Mismatches: 34, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.13
41 69 0.45
42 6 0.04
43 52 0.34
44 8 0.05
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (40 bp):
CTCTAAACAGAGGCATAATAACTTTGAAAATAAATTACTC
Found at i:4261025 original size:84 final size:84
Alignment explanation
Indices: 4260925--4261190 Score: 437
Period size: 84 Copynumber: 3.2 Consensus size: 84
4260915 AGGCTCTACG
*
4260925 ACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTACTCC
1 ACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTCC
**
4260990 TCTAAACAGAGGCATTGTA
66 TCTAAACAGAGGCATCATA
*
4261009 ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTCC
1 ACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTCC
*
4261074 TCTAAACATAGGCATCATA
66 TCTAAACAGAGGCATCATA
*
4261093 ACTTTGAAAAATAAACAAAGC-TCTTCTAATCAGAGGCTCAACAATTTTTGAAAATAAATTGCTC
1 ACTTTGAAAAATAAACAAAGCTTC-TCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTC
* *
4261157 TTCTGAACAGAGGCATCATA
65 CTCTAAACAGAGGCATCATA
4261177 ACTTTG-AAAATAAA
1 ACTTTGAAAAATAAA
4261191 AGGCTCCTTG
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
83 9 0.05
84 162 0.95
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (84 bp):
ACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTCC
TCTAAACAGAGGCATCATA
Found at i:4261149 original size:43 final size:43
Alignment explanation
Indices: 4260764--4261150 Score: 346
Period size: 43 Copynumber: 9.0 Consensus size: 43
4260754 AAAATTTGAT
* * * *
4260764 CAAAACTCCTCTAAGCAGAGGCTTAACCACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAA-ATAAA
* * * * *
4260809 TAAAGCTCCTTTAATTAGAGGCTTAACGACTTTG-AAAATAAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAT-AAA
* *
4260852 CAAAGCTCCTCCAATCAGAGGCTCAACGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAA-ATAAA
* * *
4260897 CAAAACTCCT-TCAATCAGAGGCTCTACGACTTTGAAAAATAAA
1 CAAAGCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAATAAA
*
4260940 CAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTG-AAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAA
** * ***
4260983 -TTA-CTCCTCTAAACAGAGGCAT-TGTAACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAAATAAA
4261024 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG-AAAAT-AA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAA
** * * *
4261066 -ATTGCTCCTCTAAACATAGGCATC-ATAACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAAATAAA
* *
4261108 CAAAGCTCTTCTAATCAGAGGCTCAACAATTTTTG-AAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAA-CTTTGAAAAATAAA
4261151 TTGCTCTTCT
Statistics
Matches: 280, Mismatches: 43, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
40 8 0.03
41 52 0.19
42 14 0.05
43 123 0.44
44 17 0.06
45 64 0.23
46 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (43 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAA
Found at i:4262216 original size:22 final size:21
Alignment explanation
Indices: 4262186--4262241 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
4262176 TCGCCTTGAG
*
4262186 TTCTCTTTTTTCATTCACTTTT
1 TTCTTTTTTTTCATTC-CTTTT
4262208 TTCTTTTTTTT--TTCCTTTT
1 TTCTTTTTTTTCATTCCTTTT
*
4262227 TT-TTTCATTTTCATT
1 TTCTTT-TTTTTCATT
4262242 TTTCATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 11 0.38
20 3 0.10
21 2 0.07
22 10 0.34
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (21 bp):
TTCTTTTTTTTCATTCCTTTT
Done.