Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 85 of 144
Found at i:19548576 original size:23 final size:23
Alignment explanation
Indices: 19548548--19548595 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
19548538 GTCTAGAGGA
*
19548548 TGTATATTTTGGTTATGGCTTAT
1 TGTATATTCTGGTTATGGCTTAT
19548571 TGTATATTCTGGTTATGGCTTAT
1 TGTATATTCTGGTTATGGCTTAT
19548594 TG
1 TG
19548596 AAGCATAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.54
Consensus pattern (23 bp):
TGTATATTCTGGTTATGGCTTAT
Found at i:19560480 original size:23 final size:23
Alignment explanation
Indices: 19560446--19560548 Score: 134
Period size: 23 Copynumber: 4.5 Consensus size: 23
19560436 TAGGCTTCAT
* *
19560446 ATTAATATTTAAGTATAAATCAC
1 ATTAATATTTAAGCACAAATCAC
*
19560469 ATTAATACTTAAGCACAAATCAC
1 ATTAATATTTAAGCACAAATCAC
* * * *
19560492 ATTAATTTTTAATCATAAATCAT
1 ATTAATATTTAAGCACAAATCAC
*
19560515 ATTAATATTTAAGCACAAATCCC
1 ATTAATATTTAAGCACAAATCAC
19560538 ATTAATATTTA
1 ATTAATATTTA
19560549 GCATAGATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTAATATTTAAGCACAAATCAC
Found at i:19560503 original size:46 final size:46
Alignment explanation
Indices: 19560446--19560548 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 46
19560436 TAGGCTTCAT
19560446 ATTAATATTTAAGT-ATAAATCACATTAATACTTAAGCACAAATCAC
1 ATTAATATTTAA-TCATAAATCACATTAATACTTAAGCACAAATCAC
* * * *
19560492 ATTAATTTTTAATCATAAATCATATTAATATTTAAGCACAAATCCC
1 ATTAATATTTAATCATAAATCACATTAATACTTAAGCACAAATCAC
19560538 ATTAATATTTA
1 ATTAATATTTA
19560549 GCATAGATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.02
46 50 0.98
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (46 bp):
ATTAATATTTAATCATAAATCACATTAATACTTAAGCACAAATCAC
Found at i:19565846 original size:85 final size:85
Alignment explanation
Indices: 19565703--19565873 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
19565693 TCCACTAATT
19565703 CTTGCCATGTATAAATTAAACTAGGTGGTAATGAATTAATCCATGCTTGTGCTCTATCTCACAAC
1 CTTGCCATGTATAAATTAAACTAGGTGGTAATGAATTAATCCATGCTTGTGCTCTATCTCACAAC
19565768 GAGTATGGAAACAACTTCAA
66 GAGTATGGAAACAACTTCAA
* *
19565788 CTTGCCATGTATAAATTGAACTAGGTGGTAATGAATTAATCCATGCTTGTGCTCTATCTCATAAC
1 CTTGCCATGTATAAATTAAACTAGGTGGTAATGAATTAATCCATGCTTGTGCTCTATCTCACAAC
19565853 GAGTATGGAAACAACTTCAA
66 GAGTATGGAAACAACTTCAA
19565873 C
1 C
19565874 CACAATGCAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (85 bp):
CTTGCCATGTATAAATTAAACTAGGTGGTAATGAATTAATCCATGCTTGTGCTCTATCTCACAAC
GAGTATGGAAACAACTTCAA
Found at i:19570160 original size:3 final size:3
Alignment explanation
Indices: 19570152--19570181 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19570142 GAAAATCCAA
19570152 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
19570182 TTCTTCTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:19570258 original size:6 final size:6
Alignment explanation
Indices: 19570247--19570290 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
19570237 ATACGGGTCG
19570247 GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GG
1 GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GGTTGA GG
19570291 GTATGGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTTGA
Found at i:19570312 original size:18 final size:18
Alignment explanation
Indices: 19570289--19570326 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19570279 TTGAGGTTGA
19570289 GGGTATGGATATGGGTAT
1 GGGTATGGATATGGGTAT
*
19570307 GGGTATTGATATGGGTAT
1 GGGTATGGATATGGGTAT
19570325 GG
1 GG
19570327 TGGCATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (18 bp):
GGGTATGGATATGGGTAT
Found at i:19570779 original size:15 final size:15
Alignment explanation
Indices: 19570759--19570794 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 15
19570749 CCTGAGGTAA
19570759 ACCACCGCCGTTTTT
1 ACCACCGCCGTTTTT
19570774 ACCA---CCGTTTTT
1 ACCACCGCCGTTTTT
19570786 ACCACCGCC
1 ACCACCGCC
19570795 ACCTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
12 12 0.67
15 6 0.33
ACGTcount: A:0.17, C:0.44, G:0.11, T:0.28
Consensus pattern (15 bp):
ACCACCGCCGTTTTT
Found at i:19570783 original size:12 final size:12
Alignment explanation
Indices: 19570766--19570792 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19570756 TAAACCACCG
19570766 CCGTTTTTACCA
1 CCGTTTTTACCA
19570778 CCGTTTTTACCA
1 CCGTTTTTACCA
19570790 CCG
1 CCG
19570793 CCACCTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.37, G:0.11, T:0.37
Consensus pattern (12 bp):
CCGTTTTTACCA
Found at i:19571117 original size:9 final size:9
Alignment explanation
Indices: 19571095--19571176 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 9
19571085 GATGACGAGG
19571095 ATCATCCAAC
1 ATCAT-CAAC
*
19571105 -TCATCACC
1 ATCATCAAC
*
19571113 ATCATCAAA
1 ATCATCAAC
*
19571122 ATCATCATC
1 ATCATCAAC
*
19571131 ATCATCAAG
1 ATCATCAAC
19571140 ATCA-CAATC
1 ATCATCAA-C
19571149 ATCATCCAAGTC
1 ATCAT-CAA--C
19571161 ATCATCATA-
1 ATCATCA-AC
19571170 ATCATCA
1 ATCATCA
19571177 TCGTCACTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
8 6 0.10
9 39 0.67
11 5 0.09
12 8 0.14
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (9 bp):
ATCATCAAC
Found at i:19571127 original size:12 final size:12
Alignment explanation
Indices: 19571112--19571178 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
19571102 AACTCATCAC
19571112 CATCATCAAAAT
1 CATCATCAAAAT
**
19571124 CATCATCATCAT
1 CATCATCAAAAT
** *
19571136 CAAGATCACAAT
1 CATCATCAAAAT
* *
19571148 CATCATCCAAGT
1 CATCATCAAAAT
*
19571160 CATCATCATAAT
1 CATCATCAAAAT
19571172 CATCATC
1 CATCATC
19571179 GTCACTGAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.27
Consensus pattern (12 bp):
CATCATCAAAAT
Found at i:19571128 original size:3 final size:3
Alignment explanation
Indices: 19571105--19571178 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
19571095 ATCATCCAAC
* ** **
19571105 TCA TCA CCA TCA TCA AAA TCA TCA TCA TCA TCA AGA TCA -CAA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC-A TCA
*
19571150 TCA TCCAA GTCA TCA TCA TAA TCA TCA TC
1 TCA T-C-A -TCA TCA TCA TCA TCA TCA TC
19571179 GTCACTGAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
2 1 0.02
3 47 0.87
4 3 0.06
5 2 0.04
6 1 0.02
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.27
Consensus pattern (3 bp):
TCA
Found at i:19571149 original size:18 final size:18
Alignment explanation
Indices: 19571095--19571173 Score: 79
Period size: 18 Copynumber: 4.4 Consensus size: 18
19571085 GATGACGAGG
* * *
19571095 ATCATCCAACTCATCACC
1 ATCATCAAAATCATCATC
19571113 ATCATCAAAATCATCATC
1 ATCATCAAAATCATCATC
*
19571131 ATCATCAAGATCA-CAATC
1 ATCATCAAAATCATC-ATC
* *
19571149 ATCATCCAAGTCATCATC
1 ATCATCAAAATCATCATC
*
19571167 ATAATCA
1 ATCATCA
19571174 TCATCGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.25
Consensus pattern (18 bp):
ATCATCAAAATCATCATC
Found at i:19571374 original size:3 final size:3
Alignment explanation
Indices: 19571366--19571394 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19571356 CGGCTGGTTA
19571366 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
19571395 CCCTTTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:19571419 original size:3 final size:3
Alignment explanation
Indices: 19571411--19571448 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
19571401 CTGACCACCC
*
19571411 TTG TTG TTG TT- TTG ATTG TTG TTC TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG -TTG TTG TTG TTG TTG TTG TTG TT
19571449 TCCACCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.03, C:0.03, G:0.26, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:19572145 original size:3 final size:3
Alignment explanation
Indices: 19572137--19572169 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19572127 AATGAGAGCT
19572137 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
19572170 AGAGAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19572255 original size:5 final size:6
Alignment explanation
Indices: 19572207--19572235 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19572197 AGAGAGTGCC
19572207 GGCAAT GGCAAT GGCAAT GGCAAT GGCAA
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAA
19572236 CAGCAGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.34, T:0.14
Consensus pattern (6 bp):
GGCAAT
Found at i:19572988 original size:21 final size:21
Alignment explanation
Indices: 19572964--19573003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19572954 TAAAAAAAAC
* *
19572964 TATTTTATATTTATATTTATT
1 TATTTTATAATTAAATTTATT
19572985 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
19573004 AATAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATT
Found at i:19574068 original size:19 final size:20
Alignment explanation
Indices: 19574023--19574070 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
19574013 TTGTTCTGCA
*
19574023 AAGGAATAAAAAAATGAATAG
1 AAGGAA-AAAAAAAGGAATAG
19574044 ACAGGAAAAAAAAAGGAA-AG
1 A-AGGAAAAAAAAAGGAATAG
19574064 AAGGAAA
1 AAGGAAA
19574071 CTTATGTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 11 0.44
22 5 0.20
ACGTcount: A:0.69, C:0.02, G:0.23, T:0.06
Consensus pattern (20 bp):
AAGGAAAAAAAAAGGAATAG
Found at i:19580581 original size:16 final size:18
Alignment explanation
Indices: 19580543--19580583 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
19580533 ATAATTAAAA
*
19580543 ATATTATAAAACAAATTC
1 ATATAATAAAACAAATTC
19580561 A-ATAATAAAA-AAATT-
1 ATATAATAAAACAAATTC
19580576 ATATAATA
1 ATATAATA
19580584 TGTGATGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 11 0.52
17 8 0.38
18 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAATAAAACAAATTC
Found at i:19583076 original size:46 final size:46
Alignment explanation
Indices: 19583024--19583118 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
19583014 GTAAATGATA
19583024 ACTTTTTCTAAATAAAGTATATGGAGGATTGTTTAGTTAATTAAGC
1 ACTTTTTCTAAATAAAGTATATGGAGGATTGTTTAGTTAATTAAGC
19583070 ACTTTTTCTAAATAAAGTATATGGAGGATTGTTTAGTTAATTAAGC
1 ACTTTTTCTAAATAAAGTATATGGAGGATTGTTTAGTTAATTAAGC
19583116 ACT
1 ACT
19583119 ACTCATGAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (46 bp):
ACTTTTTCTAAATAAAGTATATGGAGGATTGTTTAGTTAATTAAGC
Found at i:19584713 original size:16 final size:16
Alignment explanation
Indices: 19584675--19584713 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19584665 TATTTAAATT
19584675 TTAAAATTAATTTATA
1 TTAAAATTAATTTATA
*
19584691 TTTAAATT-ATTTATA
1 TTAAAATTAATTTATA
19584706 GTTAAAAT
1 -TTAAAAT
19584714 AGTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTAAAATTAATTTATA
Found at i:19584769 original size:22 final size:22
Alignment explanation
Indices: 19584738--19584795 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
19584728 TTCCATATAT
*
19584738 TATTATTTTTTTAAATAATTTA
1 TATTAATTTTTTAAATAATTTA
* *
19584760 TATTAGTTTTTT-AATATTTTA
1 TATTAATTTTTTAAATAATTTA
*
19584781 TATTAATTATTTAAA
1 TATTAATTTTTTAAA
19584796 ACATATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTAATTTTTTAAATAATTTA
Found at i:19588397 original size:34 final size:34
Alignment explanation
Indices: 19588328--19588397 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
19588318 TTGTAATGGC
* * *
19588328 AGATATTCCCAGATTTTTCGTTCCAGATGTCAAA
1 AGATATTCCCAGATTTTTCGTTCCACAAGTAAAA
*
19588362 AGATATTCCCAGA-TTTTCTTTCCACAAGTTAAAA
1 AGATATTCCCAGATTTTTCGTTCCACAAG-TAAAA
19588396 AG
1 AG
19588398 CTCAACTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (34 bp):
AGATATTCCCAGATTTTTCGTTCCACAAGTAAAA
Found at i:19592700 original size:30 final size:30
Alignment explanation
Indices: 19592665--19592725 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
19592655 TCTCTCCAAA
19592665 TCACTATTCACCAACTCAACAGGAAAAAAC
1 TCACTATTCACCAACTCAACAGGAAAAAAC
19592695 TCACTATTCACCAACTCAACAGGAAAAAAC
1 TCACTATTCACCAACTCAACAGGAAAAAAC
19592725 T
1 T
19592726 ATCTTCAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.30, G:0.07, T:0.18
Consensus pattern (30 bp):
TCACTATTCACCAACTCAACAGGAAAAAAC
Found at i:19594968 original size:21 final size:23
Alignment explanation
Indices: 19594933--19594984 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
19594923 TTCCAGAATA
19594933 TTTCTCTCCTATTTCTCCTTTCC
1 TTTCTCTCCTATTTCTCCTTTCC
* *
19594956 TTTCTC-CCT-TTTCTTCTTTCT
1 TTTCTCTCCTATTTCTCCTTTCC
*
19594977 TTTTTCTC
1 TTTCTCTC
19594985 ACAGCAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTCTCTCCTATTTCTCCTTTCC
Found at i:19597768 original size:22 final size:22
Alignment explanation
Indices: 19597720--19597768 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
19597710 ATATCCAAAC
*
19597720 AATAATAACAAATTAGTAGCAA
1 AATAATAACAAATTAGTAACAA
*
19597742 CATAATAACGAAATT-GTAACAA
1 AATAATAAC-AAATTAGTAACAA
19597764 AATAA
1 AATAA
19597769 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.22
Consensus pattern (22 bp):
AATAATAACAAATTAGTAACAA
Found at i:19605734 original size:61 final size:61
Alignment explanation
Indices: 19605634--19605814 Score: 245
Period size: 61 Copynumber: 3.0 Consensus size: 61
19605624 AAAGGATTGC
* * * * * * * *
19605634 CTTTGTGGTGAAACTCTGAACAGAAAAGCCTTTGTGGTGAGTACTAAATGTAAATGACAAT
1 CTTTATGGTGAAACTTTGGATAGGAAAGCCTTTGTGGTGAGTATTAAATGTAAAGGACAAA
* *
19605695 CTTTATGGTGGAACTTTGGATAGGAAAGCCTTTGTGGTGAGTATTAAATGTAAAGGATAAA
1 CTTTATGGTGAAACTTTGGATAGGAAAGCCTTTGTGGTGAGTATTAAATGTAAAGGACAAA
* * *
19605756 CTTTGTGGTGAAACTTTGGATAGGAAAACCTTTGTGGTAAGTATTAAATGTAAAGGACA
1 CTTTATGGTGAAACTTTGGATAGGAAAGCCTTTGTGGTGAGTATTAAATGTAAAGGACA
19605815 GCTTTTGTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 105 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (61 bp):
CTTTATGGTGAAACTTTGGATAGGAAAGCCTTTGTGGTGAGTATTAAATGTAAAGGACAAA
Found at i:19605760 original size:32 final size:32
Alignment explanation
Indices: 19605656--19605812 Score: 98
Period size: 29 Copynumber: 5.1 Consensus size: 32
19605646 ACTCTGAACA
* *
19605656 GAAAAGCCTTTGTGGTGAGTACTAAATGTAAAT
1 GAAAA-CCTTTGTGGTGAGTATTAAATGTAAAG
* * * * * *
19605689 GACAATCTTTATGGTG-GAACTT---TGGATAG
1 GAAAACCTTTGTGGTGAGTA-TTAAATGTAAAG
*
19605718 GAAAGCCTTTGTGGTGAGTATTAAATGTAAAG
1 GAAAACCTTTGTGGTGAGTATTAAATGTAAAG
* * *
19605750 GATAAA-CTTTGTGGTGA-AACTT---TGGATAG
1 GA-AAACCTTTGTGGTGAGTA-TTAAATGTAAAG
*
19605779 GAAAACCTTTGTGGTAAGTATTAAATGTAAAG
1 GAAAACCTTTGTGGTGAGTATTAAATGTAAAG
19605811 GA
1 GA
19605813 CAGCTTTTGT
Statistics
Matches: 89, Mismatches: 23, Indels: 25
0.65 0.17 0.18
Matches are distributed among these distances:
28 3 0.03
29 37 0.42
30 3 0.03
31 3 0.03
32 37 0.42
33 6 0.07
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (32 bp):
GAAAACCTTTGTGGTGAGTATTAAATGTAAAG
Found at i:19610263 original size:16 final size:17
Alignment explanation
Indices: 19610242--19610273 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19610232 GGAAAGTCAG
19610242 AAATTTGAA-AATAAAA
1 AAATTTGAACAATAAAA
19610258 AAATTTGAACAATAAA
1 AAATTTGAACAATAAA
19610274 GAAGAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (17 bp):
AAATTTGAACAATAAAA
Found at i:19622302 original size:15 final size:15
Alignment explanation
Indices: 19622282--19622315 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19622272 TTAATCATAA
19622282 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
19622297 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
19622312 TTAA
1 TTAA
19622316 GTGTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:19626150 original size:51 final size:51
Alignment explanation
Indices: 19626074--19626265 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 51
19626064 CTATAAACAA
*
19626074 AAAGGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
19626125 AAAGGTTCGATGACTAAGTGTCATCGTGATTATATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
19626176 -AAGAGTCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * ** * *
19626227 AAGGGTCCAATGACTTTGTGTCATCGTGAATATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
19626266 TCCTATATGG
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
50 3 0.02
51 118 0.96
52 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:19626261 original size:102 final size:102
Alignment explanation
Indices: 19626081--19626265 Score: 280
Period size: 102 Copynumber: 1.8 Consensus size: 102
19626071 CAAAAAGGTT
* * * *
19626081 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATGACTAAGTGT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAGGTCCAATGACTAAGTGT
*
19626146 CATCGTGATTATATGAATCCTTTACGGATTAAGAGTC
66 CATCGTGAATATATGAATCCTTTACGGATTAAGAGTC
* * * **
19626183 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTAAGGGTCCAATGACTTTGTGT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAGGTCCAATGACTAAGTGT
19626248 CATCGTGAATATATGAAT
66 CATCGTGAATATATGAAT
19626266 TCCTATATGG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 73 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (102 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATTAAAGGTCCAATGACTAAGTGT
CATCGTGAATATATGAATCCTTTACGGATTAAGAGTC
Found at i:19633330 original size:50 final size:51
Alignment explanation
Indices: 19633195--19633428 Score: 283
Period size: 51 Copynumber: 4.6 Consensus size: 51
19633185 TAAACGAAAA
* *
19633195 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGACTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAG
**
19633246 GGTCCGATGACTAAGTGTCATCGTGAGTTTATGAATCCTTTACGGATTAAG
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAG
* * * *
19633297 GGT-TGATGACTAAGTGTCATCGTGAGTAAATGAATCCATAAAGGATTAAG
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAG
** * * * * **
19633347 GGTCCGATGACTTTGTGTCATCGTGAGTATATGAATTCTTATATGAAACAAG
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTT-TACGGATTAAG
19633399 AGGTCCGATGACTATA-TGTCATCGTGAGTA
1 -GGTCCGATGACTA-AGTGTCATCGTGAGTA
19633429 TTAAATGAAA
Statistics
Matches: 156, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
50 44 0.28
51 80 0.51
52 6 0.04
53 26 0.17
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAG
Found at i:19633380 original size:101 final size:101
Alignment explanation
Indices: 19633200--19633382 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
19633190 GAAAAGGTCC
* * *
19633200 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGACTAAAGGTCCGATGACTAAGTGTC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATAAAGGACTAAAGGTCCGATGACTAAGTGTC
*
19633265 ATCGTGAGTTTATGAATCCTTTACGGATTAAGGGTT
66 ATCGTGAGTATATGAATCCTTTACGGATTAAGGGTT
* * **
19633301 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATAAAGGATTAAGGGTCCGATGACTTTGTGTC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATAAAGGACTAAAGGTCCGATGACTAAGTGTC
19633366 ATCGTGAGTATATGAAT
66 ATCGTGAGTATATGAAT
19633383 TCTTATATGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (101 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCATAAAGGACTAAAGGTCCGATGACTAAGTGTC
ATCGTGAGTATATGAATCCTTTACGGATTAAGGGTT
Found at i:19634863 original size:25 final size:23
Alignment explanation
Indices: 19634826--19634998 Score: 152
Period size: 24 Copynumber: 7.3 Consensus size: 23
19634816 ATTGAGTCTT
*
19634826 CCAGAAATTTAGCT-TATACGAGC
1 CCAGAAAATTAGCTCT-TACGAGC
* *
19634849 CCAGACCAAATTAGCTCATACTAGC
1 CCAGA--AAATTAGCTCTTACGAGC
**
19634874 CCAGATAGGTTAGCTCTTACGAGC
1 CCAGA-AAATTAGCTCTTACGAGC
*
19634898 CCAGAATATTAGCTCTTACGAGC
1 CCAGAAAATTAGCTCTTACGAGC
**
19634921 CCAGAATGGTTAGCTCTTACGAGC
1 CCAGAA-AATTAGCTCTTACGAGC
** *
19634945 CCAGAATGGTTAGATCTTACGAGC
1 CCAGAA-AATTAGCTCTTACGAGC
*
19634969 CCA-AAATGGTTAGCTCTTACGAGC
1 CCAGAAA--ATTAGCTCTTACGAGC
19634993 CCAGAA
1 CCAGAA
19634999 TCAGAGTAAC
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
23 29 0.23
24 78 0.61
25 21 0.16
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CCAGAAAATTAGCTCTTACGAGC
Found at i:19634898 original size:24 final size:24
Alignment explanation
Indices: 19634859--19634999 Score: 214
Period size: 24 Copynumber: 5.9 Consensus size: 24
19634849 CCAGACCAAA
* *
19634859 TTAGCTCATACTAGCCCAG-ATAGG
1 TTAGCTCTTACGAGCCCAGAAT-GG
*
19634883 TTAGCTCTTACGAGCCCAGAAT-A
1 TTAGCTCTTACGAGCCCAGAATGG
19634906 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
19634930 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
19634954 TTAGATCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
19634978 TTAGCTCTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
19635000 CAGAGTAACG
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.21
24 83 0.78
25 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:19634932 original size:47 final size:47
Alignment explanation
Indices: 19634834--19634999 Score: 219
Period size: 48 Copynumber: 3.5 Consensus size: 47
19634824 TTCCAGAAAT
* * *
19634834 TTAGCT-TATACGAGCCCAGACCAAATTAGCTCATACTAGCCCAG-ATAGG
1 TTAGCTCT-TACGAGCCCAGA--ATATTAGCTCTTACGAGCCCAGAAT-GG
19634883 TTAGCTCTTACGAGCCCAGAATATTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATATTAGCTCTTACGAGCCCAGAATGG
* * *
19634930 TTAGCTCTTACGAGCCCAGAATGGTTAGATCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAAT-ATTAGCTCTTACGAGCCCAGAATGG
19634978 TTAGCTCTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
19635000 CAGAGTAACG
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
47 43 0.40
48 46 0.43
49 18 0.17
50 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (47 bp):
TTAGCTCTTACGAGCCCAGAATATTAGCTCTTACGAGCCCAGAATGG
Found at i:19635027 original size:27 final size:26
Alignment explanation
Indices: 19634988--19635061 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 26
19634978 TTAGCTCTTA
19634988 CGAGCCCAGAATCAGAGTAACGCTATTT
1 CGAG-CCAGAATCAGA-TAACGCTATTT
* *
19635016 CGAGCCAGAATCAGAATAACGTTCTTT
1 CGAGCCAGAATCAG-ATAACGCTATTT
19635043 CGAGCCAGAATCAGATAAC
1 CGAGCCAGAATCAGATAAC
19635062 TCCTCAAGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.12
27 33 0.77
28 5 0.12
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (26 bp):
CGAGCCAGAATCAGATAACGCTATTT
Found at i:19639145 original size:23 final size:23
Alignment explanation
Indices: 19639118--19639218 Score: 96
Period size: 23 Copynumber: 4.3 Consensus size: 23
19639108 ATTGAGTCTT
19639118 CCAAAAATTTAGCTCATACGAGC
1 CCAAAAATTTAGCTCATACGAGC
*
19639141 CCAAACCAAATTAGCTCATACGAGC
1 CCAAA--AATTTAGCTCATACGAGC
** * *
19639166 CCAAATAGGTTAGTTCTTACGAG-
1 CCAAA-AATTTAGCTCATACGAGC
* *
19639189 CCAAGAATGTTAGCTCTTACGAGC
1 CCAAAAAT-TTAGCTCATACGAGC
19639213 CCAAAA
1 CCAAAA
19639219 TGGTTAGCTC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 22 0.35
24 18 0.29
25 22 0.35
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (23 bp):
CCAAAAATTTAGCTCATACGAGC
Found at i:19639186 original size:24 final size:23
Alignment explanation
Indices: 19639126--19639266 Score: 122
Period size: 24 Copynumber: 5.9 Consensus size: 23
19639116 TTCCAAAAAT
* **
19639126 TTAGCTCATACGAGCCCAAACCAAA
1 TTAGCTCTTACGAGCCCAAA--AGG
*
19639151 TTAGCTCATACGAGCCCAAATAGG
1 TTAGCTCTTACGAGCCCAAA-AGG
* *
19639175 TTAGTTCTTACGAG-CCAAGAATG
1 TTAGCTCTTACGAGCCCAA-AAGG
19639198 TTAGCTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAAAA-GG
* * * * *
19639222 TTAGCTCTTATGAACCTAGGATGG
1 TTAGCTCTTACGAGCCCA-AAAGG
19639246 TTAGCTCTTACGAGCCCAAAA
1 TTAGCTCTTACGAGCCCAAAA
19639267 TCAGAGTAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
23 22 0.23
24 51 0.54
25 21 0.22
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (23 bp):
TTAGCTCTTACGAGCCCAAAAGG
Found at i:19639210 original size:47 final size:48
Alignment explanation
Indices: 19639151--19639267 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 48
19639141 CCAAACCAAA
* * *
19639151 TTAGCTCATACGAGCCC-AAATAGGTTAGTTCTTACGAGCCAAGAAT-G
1 TTAGCTCTTACGAGCCCAAAAT-GGTTAGCTCTTACGAACCAAGAATGG
* * *
19639198 TTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTATGAACCTAGGATGG
1 TTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTACGAACCAAGAATGG
19639246 TTAGCTCTTACGAGCCCAAAAT
1 TTAGCTCTTACGAGCCCAAAAT
19639268 CAGAGTAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
47 35 0.56
48 27 0.44
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (48 bp):
TTAGCTCTTACGAGCCCAAAATGGTTAGCTCTTACGAACCAAGAATGG
Found at i:19639303 original size:27 final size:27
Alignment explanation
Indices: 19639249--19639352 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
19639239 AGGATGGTTA
* * *
19639249 GCTCTTACGAGCCCAAAATCAGAGTAAT
1 GCTCTTTCGAG-CCAGAATCAGAATAAT
* *
19639277 GCTCTTTCGAGCTAGAATCGGAATAAT
1 GCTCTTTCGAGCCAGAATCAGAATAAT
*
19639304 GCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAT
* *
19639331 ACTCTTTTGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAGAATCAGA
19639353 TAACTCCTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 56 0.85
28 10 0.15
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAT
Found at i:19651285 original size:4 final size:4
Alignment explanation
Indices: 19651276--19651306 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
19651266 TTCATTTCAT
*
19651276 TTTA TTTA TTTA TTTA TCTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
19651307 TTATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19651319 original size:16 final size:14
Alignment explanation
Indices: 19651275--19651317 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 14
19651265 TTTCATTTCA
19651275 TTTTATTTATTTAT
1 TTTTATTTATTTAT
19651289 TTATCTATTTATTTAT
1 TT-T-TATTTATTTAT
19651305 TTTTATTTTATTT
1 TTTTA-TTTATTT
19651318 TACTAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 13 0.50
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:19653009 original size:35 final size:33
Alignment explanation
Indices: 19652953--19653025 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 33
19652943 TTTTCTTTAC
19652953 AATTTAGTCCTCTTCTATTTTAGGTAATTAAAATT
1 AATTTAGTCCTCTTCTATTTTAGGTAATT--AATT
* *
19652988 AATTTAGTCCTTTTCTGTTTTAGGTAATTAATT
1 AATTTAGTCCTCTTCTATTTTAGGTAATTAATT
19653021 AATTT
1 AATTT
19653026 TAATTGACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 9 0.25
35 27 0.75
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (33 bp):
AATTTAGTCCTCTTCTATTTTAGGTAATTAATT
Found at i:19654435 original size:22 final size:23
Alignment explanation
Indices: 19654396--19654438 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
19654386 AATGGTCAAT
19654396 GGTCAACGGGTCGAGTCGGGTTC
1 GGTCAACGGGTCGAGTCGGGTTC
*
19654419 GGTCAAC-GGTCGGGTCGGGT
1 GGTCAACGGGTCGAGTCGGGT
19654439 CGATTGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (23 bp):
GGTCAACGGGTCGAGTCGGGTTC
Found at i:19665563 original size:20 final size:20
Alignment explanation
Indices: 19665527--19665576 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
19665517 ATTAGCATGA
19665527 TTTATATTAAGTGTAAATAG-G
1 TTTA-ATTAAGTGTAAA-AGTG
19665548 TTTAATTAAGAT-TAAAAGTG
1 TTTAATTAAG-TGTAAAAGTG
*
19665568 GTTAATTAA
1 TTTAATTAA
19665577 AGCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTAATTAAGTGTAAAAGTG
Found at i:19672637 original size:20 final size:20
Alignment explanation
Indices: 19672601--19672650 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
19672591 ACTAGCATGA
19672601 TTTATATTAAGTGTAAATAG-G
1 TTTA-ATTAAGTGTAAA-AGTG
19672622 TTTAATTAAGAT-TAAAAGTG
1 TTTAATTAAG-TGTAAAAGTG
*
19672642 GTTAATTAA
1 TTTAATTAA
19672651 AGCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTAATTAAGTGTAAAAGTG
Found at i:19674419 original size:25 final size:25
Alignment explanation
Indices: 19674372--19674441 Score: 133
Period size: 25 Copynumber: 2.8 Consensus size: 25
19674362 TGTATACTAG
19674372 GTATCGGTAGTTT-TGTACTTAGAA
1 GTATCGGTAGTTTGTGTACTTAGAA
19674396 GTATCGGTAGTTTGTGTACTTAGAA
1 GTATCGGTAGTTTGTGTACTTAGAA
19674421 GTATCGGTAGTTTGTGTACTT
1 GTATCGGTAGTTTGTGTACTT
19674442 GTATTGGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 13 0.29
25 32 0.71
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (25 bp):
GTATCGGTAGTTTGTGTACTTAGAA
Found at i:19679853 original size:40 final size:40
Alignment explanation
Indices: 19679807--19679991 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
19679797 ACATCAGAAC
*
19679807 TACTGAACTTGCAGTGACACTGTAAACACTGCATCATCAT
1 TACTGAACTGGCAGTGACACTGTAAACACTGCATCATCAT
19679847 TACTGAACTGGCAGTGACACTGTAAACACTGCATCATCAT
1 TACTGAACTGGCAGTGACACTGTAAACACTGCATCATCAT
* ** * * *
19679887 TACTGAACTGGTAGTGGTACTATAAACACTACGAT-ATTAT
1 TACTGAACTGGCAGTGACACTGTAAACACTGC-ATCATCAT
** * * *
19679927 TACTGAACTGGTGGCGACACTGTAAATACTGCATTAT-AGT
1 TACTGAACTGGCAGTGACACTGTAAACACTGCATCATCA-T
* * * *
19679967 TACTAAATTAGCTGTGACACTGTAA
1 TACTGAACTGGCAGTGACACTGTAA
19679992 CCACAGCTAG
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.96
41 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (40 bp):
TACTGAACTGGCAGTGACACTGTAAACACTGCATCATCAT
Found at i:19684619 original size:17 final size:17
Alignment explanation
Indices: 19684599--19684646 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
19684589 CACATTCCCG
* *
19684599 TTGTCATTTCATTTTAA
1 TTGTCATTGCATTTGAA
*
19684616 TTGTCATTGCATTTGCA
1 TTGTCATTGCATTTGAA
19684633 TTGTCATTGCATTT
1 TTGTCATTGCATTT
19684647 CCATCTGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (17 bp):
TTGTCATTGCATTTGAA
Found at i:19685753 original size:26 final size:26
Alignment explanation
Indices: 19685700--19685757 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
19685690 CACTGTAGAA
* * *
19685700 AGAATTATTGCTGCATGACTATGTCC
1 AGAATTATCGCTGCATGACTAGGACC
19685726 AGAATTATCGCTGCATGAAC-AGGACC
1 AGAATTATCGCTGCATG-ACTAGGACC
19685752 AGAATT
1 AGAATT
19685758 GCCCCTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (26 bp):
AGAATTATCGCTGCATGACTAGGACC
Found at i:19687541 original size:25 final size:25
Alignment explanation
Indices: 19687465--19687564 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 25
19687455 ATATTTTATC
* * * * *
19687465 TGGCTTGTAAAAGCGATATTTTATC
1 TGGCTCGTAAGAGCGATACTCTATT
* * ** *
19687490 TGGCTCATAAGAGCAATGTTCTGTT
1 TGGCTCGTAAGAGCGATACTCTATT
19687515 TGGCTCGTAAGAGCGATACTCTATT
1 TGGCTCGTAAGAGCGATACTCTATT
* *
19687540 TGGGCTCGTAAGAGCTAAACTCTAT
1 T-GGCTCGTAAGAGCGATACTCTAT
19687565 CTGGGCTCAT
Statistics
Matches: 59, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
25 38 0.64
26 21 0.36
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (25 bp):
TGGCTCGTAAGAGCGATACTCTATT
Found at i:19687552 original size:26 final size:26
Alignment explanation
Indices: 19687516--19687572 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
19687506 TGTTCTGTTT
* *
19687516 GGCTCGTAAGAGCGATACTCTATTTG
1 GGCTCGTAAGAGCGAAACTCTATCTG
*
19687542 GGCTCGTAAGAGCTAAACTCTATCTG
1 GGCTCGTAAGAGCGAAACTCTATCTG
19687568 GGCTC
1 GGCTC
19687573 ATTTCAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (26 bp):
GGCTCGTAAGAGCGAAACTCTATCTG
Found at i:19688776 original size:20 final size:20
Alignment explanation
Indices: 19688749--19688799 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
19688739 TAGGCGTAAA
*
19688749 TATATATATGTGTTTGTGTATG
1 TATATATATGTG--TATGTATG
19688771 TATATATATGTGTATGTATG
1 TATATATATGTGTATGTATG
19688791 TATAT-TATG
1 TATATATATG
19688800 GGAAAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
22 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (20 bp):
TATATATATGTGTATGTATG
Found at i:19688784 original size:16 final size:16
Alignment explanation
Indices: 19688763--19688795 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19688753 TATATGTGTT
19688763 TGTGTATGTATATATA
1 TGTGTATGTATATATA
*
19688779 TGTGTATGTATGTATA
1 TGTGTATGTATATATA
19688795 T
1 T
19688796 TATGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (16 bp):
TGTGTATGTATATATA
Found at i:19689306 original size:128 final size:128
Alignment explanation
Indices: 19689154--19689412 Score: 405
Period size: 128 Copynumber: 2.0 Consensus size: 128
19689144 TGAACTATGG
*
19689154 CATGAGATTTAGGATTTAGATTTGCTTTATTTTACATGACATTTTATTTG-TACTTTTAAGATTT
1 CATGAGATTTAGGATTTAGATTTGCTTTATTTTACATGACATTTTATTTGAT-CTTTTAAGATAT
* * *
19689218 TATGCTATGAGAATTATTTAGTATGCATGAA-CCCTCGGTTTTTATTACAAACATAAGCAAATAT
65 TATGCTATGAGAATTATTTAGTATGCATGAACCCCT-GATTTTTATTAAAAACACAAGCAAATAT
* * *
19689282 CATGAGATTTAGGGTTTAGGTTTGCTTTATTTTGCATGACATTTTATTTGATCTTTTAAGATATT
1 CATGAGATTTAGGATTTAGATTTGCTTTATTTTACATGACATTTTATTTGATCTTTTAAGATATT
* *
19689347 ATGCTATGAGTATTATTTAGTATGCATGAACCCCTGATTTTTATTAAAAACACAAGTAAATAT
66 ATGCTATGAGAATTATTTAGTATGCATGAACCCCTGATTTTTATTAAAAACACAAGCAAATAT
19689410 CAT
1 CAT
19689413 CTTTTCCTGT
Statistics
Matches: 120, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 115 0.96
129 5 0.04
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (128 bp):
CATGAGATTTAGGATTTAGATTTGCTTTATTTTACATGACATTTTATTTGATCTTTTAAGATATT
ATGCTATGAGAATTATTTAGTATGCATGAACCCCTGATTTTTATTAAAAACACAAGCAAATAT
Found at i:19691514 original size:14 final size:15
Alignment explanation
Indices: 19691490--19691518 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19691480 TTCTGAAATC
19691490 TTTCTTTTTTATTTA
1 TTTCTTTTTTATTTA
19691505 TTTC-TTTTTATTTA
1 TTTCTTTTTTATTTA
19691519 AGAAACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTATTTA
Found at i:19700945 original size:21 final size:21
Alignment explanation
Indices: 19700919--19700961 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19700909 CTCTTTCGTA
* *
19700919 TCGAGTCTAATGGAATGAAAT
1 TCGAGTCGAATCGAATGAAAT
*
19700940 TCGAGTCGAATCGAGTGAAAT
1 TCGAGTCGAATCGAATGAAAT
19700961 T
1 T
19700962 GTTCGAGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGAGTCGAATCGAATGAAAT
Found at i:19701218 original size:19 final size:19
Alignment explanation
Indices: 19701196--19701264 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
19701186 TTTAGATTTT
19701196 TTTTGAAATTTTTATAATA
1 TTTTGAAATTTTTATAATA
* ** *
19701215 TTTTTAAAAATATATAA-A
1 TTTTGAAATTTTTATAATA
*
19701233 TTTTGGAATTTTTATAAATA
1 TTTTGAAATTTTTAT-AATA
19701253 TTTTG-AATTTTT
1 TTTTGAAATTTTT
19701265 TTAAATTATA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 11 0.28
19 22 0.56
20 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTGAAATTTTTATAATA
Found at i:19701269 original size:19 final size:20
Alignment explanation
Indices: 19701232--19701289 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
19701222 AAATATATAA
*
19701232 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTTTAAATT
19701252 ATTTTGAATTTTTTTAAATT
1 ATTTTGAATTTTTTTAAATT
* *
19701272 ATATTGATTTTGTTTTAA
1 ATTTTGAATTT-TTTTAA
19701290 TTTTTGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.36
20 15 0.45
21 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
ATTTTGAATTTTTTTAAATT
Found at i:19701278 original size:20 final size:19
Alignment explanation
Indices: 19701238--19701289 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
19701228 ATAAATTTTG
* *
19701238 GAATTTTTATAAATATTTT
1 GAATTTTTTTAAATATATT
19701257 GAATTTTTTTAAATTATATT
1 GAATTTTTTTAAA-TATATT
*
19701277 GATTTTGTTTTAA
1 GAATTT-TTTTAA
19701290 TTTTTGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (19 bp):
GAATTTTTTTAAATATATT
Found at i:19715116 original size:24 final size:23
Alignment explanation
Indices: 19715061--19715128 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
19715051 AATGAGTTAA
* *
19715061 AAGGAGATGAAAGGTGAAGAGTT
1 AAGGAGATGAAAGGTGAAAAGCT
* *
19715084 AAGAAAGATGGAAGGTGAAAAGCT
1 AAG-GAGATGAAAGGTGAAAAGCT
19715108 AATGGAGATGAAAGGT-AAAAG
1 AA-GGAGATGAAAGGTGAAAAG
19715129 GTTAAACATC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 8 0.22
24 28 0.76
25 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.35, T:0.15
Consensus pattern (23 bp):
AAGGAGATGAAAGGTGAAAAGCT
Found at i:19725985 original size:23 final size:23
Alignment explanation
Indices: 19725910--19726023 Score: 126
Period size: 23 Copynumber: 5.0 Consensus size: 23
19725900 AAGTGCTGGG
*
19725910 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
* * * *
19725933 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAGGCACACACAGTGC
19725955 -AAATCAGTAGGCACACGA-AGTGC
1 GAAA-CAGTAGGCACAC-ACAGTGC
*
19725978 GAAACAGTAGGCACACAAAGTGC
1 GAAACAGTAGGCACACACAGTGC
*
19726001 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
19726024 TGAACGGTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 20 0.26
23 53 0.69
24 4 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (23 bp):
GAAACAGTAGGCACACACAGTGC
Found at i:19726009 original size:46 final size:45
Alignment explanation
Indices: 19725910--19726023 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
19725900 AAGTGCTGGG
* * *
19725910 GAAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
* *
19725955 -AAATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGCGC
19726001 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
19726024 TGAACGGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
Found at i:19727809 original size:18 final size:18
Alignment explanation
Indices: 19727788--19727827 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19727778 TATCTGCATC
*
19727788 TGAATTTGCATAT-GTATT
1 TGAATATGCAT-TCGTATT
19727806 TGAATATGCATTCGTATT
1 TGAATATGCATTCGTATT
19727824 TGAA
1 TGAA
19727828 ACCGTATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (18 bp):
TGAATATGCATTCGTATT
Found at i:19733726 original size:40 final size:40
Alignment explanation
Indices: 19733699--19733811 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
19733689 TCAACATCGG
* *
19733699 CTCATAGCCTGCTAAGCCGATGCTTGAATTCTATCACTGA
1 CTCATAGCCTGCTAAGCCGAAGCTTGAATTCTAACACTGA
* * * *
19733739 CTCATAGCCTGCTAAGTCGAAGCTTGAAATCTACCAC-CA
1 CTCATAGCCTGCTAAGCCGAAGCTTGAATTCTAACACTGA
* * **
19733778 GCTCGTAGCCTACTAAGTTGAAGCTTGAATTCTA
1 -CTCATAGCCTGCTAAGCCGAAGCTTGAATTCTA
19733812 TCCAAGATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (40 bp):
CTCATAGCCTGCTAAGCCGAAGCTTGAATTCTAACACTGA
Found at i:19738458 original size:41 final size:41
Alignment explanation
Indices: 19738387--19738566 Score: 195
Period size: 41 Copynumber: 4.4 Consensus size: 41
19738377 CACACAGCCA
* * * * *
19738387 TGTGGGAGGCCGTGTGTCAGAC-CTTATGGGTCACACGGTCG
1 TGTGGTAGGCCGTGTGACA-ACTCGTGTGGGTCACACGATCG
*
19738428 TGTGGTAGGCCGTGTGACAACTAGTGTGGGTCACACGATCG
1 TGTGGTAGGCCGTGTGACAACTCGTGTGGGTCACACGATCG
* * *
19738469 TGTGAG-AGGCCGTGTGTCAGA-TCGTGTGGATCACACGATAG
1 TGTG-GTAGGCCGTGTGACA-ACTCGTGTGGGTCACACGATCG
* * *
19738510 TGTGGTAGACCGTGTGACAGCCCGTGTGGGTCACACGATCG
1 TGTGGTAGGCCGTGTGACAACTCGTGTGGGTCACACGATCG
*
19738551 TGTGGTAGGCCATGTG
1 TGTGGTAGGCCGTGTG
19738567 GTAGATCATA
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.03
41 111 0.96
42 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (41 bp):
TGTGGTAGGCCGTGTGACAACTCGTGTGGGTCACACGATCG
Found at i:19738478 original size:82 final size:82
Alignment explanation
Indices: 19738387--19738554 Score: 237
Period size: 82 Copynumber: 2.0 Consensus size: 82
19738377 CACACAGCCA
* * * * * * *
19738387 TGTGGGAGGCCGTGTGTCAGACCTTATGGGTCACACGGTCGTGTGGTAGGCCGTGTGACAACTAG
1 TGTGAGAGGCCGTGTGTCAGACCGTATGGATCACACGATAGTGTGGTAGACCGTGTGACAACCAG
19738452 TGTGGGTCACACGATCG
66 TGTGGGTCACACGATCG
* * * *
19738469 TGTGAGAGGCCGTGTGTCAGATCGTGTGGATCACACGATAGTGTGGTAGACCGTGTGACAGCCCG
1 TGTGAGAGGCCGTGTGTCAGACCGTATGGATCACACGATAGTGTGGTAGACCGTGTGACAACCAG
19738534 TGTGGGTCACACGATCG
66 TGTGGGTCACACGATCG
19738551 TGTG
1 TGTG
19738555 GTAGGCCATG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (82 bp):
TGTGAGAGGCCGTGTGTCAGACCGTATGGATCACACGATAGTGTGGTAGACCGTGTGACAACCAG
TGTGGGTCACACGATCG
Found at i:19740522 original size:13 final size:13
Alignment explanation
Indices: 19740504--19740528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19740494 AAAAATATAA
19740504 AAATTAAAAAATC
1 AAATTAAAAAATC
19740517 AAATTAAAAAAT
1 AAATTAAAAAAT
19740529 ATAAACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATTAAAAAATC
Found at i:19741548 original size:17 final size:17
Alignment explanation
Indices: 19741508--19741583 Score: 71
Period size: 17 Copynumber: 4.5 Consensus size: 17
19741498 CAATGAGATA
* * *
19741508 TAAATTTAGTTTCAAGT
1 TAAATTTATTTTAAATT
*
19741525 TAGATTTATTTTAAATT
1 TAAATTTATTTTAAATT
*** *
19741542 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
*
19741559 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
19741576 TAAATTTA
1 TAAATTTA
19741584 AAATTAAATT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:19741594 original size:5 final size:6
Alignment explanation
Indices: 19741534--19741593 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
19741524 TTAGATTTAT
** *
19741534 TTTAAA TTTAAA TTTGCA -TAAAA TTTAAA TTT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
*
19741580 TTTAAA ATTAAA TT
1 TTTAAA TTTAAA TT
19741594 AGATAAACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
4 3 0.07
5 3 0.07
6 33 0.79
7 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:19743388 original size:29 final size:27
Alignment explanation
Indices: 19743352--19743702 Score: 121
Period size: 30 Copynumber: 12.0 Consensus size: 27
19743342 TCACCCGAAC
*
19743352 TTTCCAAAATTCTATTTTTAACCCCGA
1 TTTCCAAAATTCCATTTTTAACCCCGA
* *
19743379 TTTCATCAAAAATTACCA-TTTTACCCCCAAA
1 TTTC--C-AAAATT-CCATTTTTAACCCC-GA
* * *
19743410 CTTCCCAAAATTCAATTTTTAACCTCGAA
1 -TTTCCAAAATTCCATTTTTAACCCCG-A
* *
19743439 GTTTCCAAAAATTACCA-TTTTACCCCCAAA
1 -TTTCC-AAAATT-CCATTTTTAACCCC-GA
*
19743469 CTTTCCAAAATTCTATTTTTAACCCCGA
1 -TTTCCAAAATTCCATTTTTAACCCCGA
*
19743497 TTTCACCAAAAATTACCA-TTTT-ACCCTCAAA
1 TTT--CC-AAAATT-CCATTTTTAACCC-C-GA
* *
19743528 CTTTCCAAAATTCCTTTTTTAACCCCAA
1 -TTTCCAAAATTCCATTTTTAACCCCGA
*
19743556 TTTCACCAAAAATTACCA-TTTT-GCCCTCGAA
1 TTT--CC-AAAATT-CCATTTTTAACCC-CG-A
* * *
19743587 CTTTCTAAAATCCCA-TTTTAACCTCGA
1 -TTTCCAAAATTCCATTTTTAACCCCGA
*
19743614 TTTCACCAAAAATTACCA-TTTT-GCCCTCGAA
1 TTT--CC-AAAATT-CCATTTTTAACCC-CG-A
19743645 CTTTCCAAAA-TCTCATTTTTAACCCCGA
1 -TTTCCAAAATTC-CATTTTTAACCCCGA
*
19743673 TTTCACCAAAAATTACCA-TTTTACCCCCGA
1 TTT--CC-AAAATT-CCATTTTTAACCCCGA
19743703 AGTAAAAAAT
Statistics
Matches: 246, Mismatches: 34, Indels: 85
0.67 0.09 0.23
Matches are distributed among these distances:
26 3 0.01
27 15 0.06
28 23 0.09
29 83 0.34
30 94 0.38
31 15 0.06
32 13 0.05
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (27 bp):
TTTCCAAAATTCCATTTTTAACCCCGA
Found at i:19743448 original size:59 final size:58
Alignment explanation
Indices: 19743349--19743700 Score: 449
Period size: 59 Copynumber: 6.0 Consensus size: 58
19743339 TAATCACCCG
* *
19743349 AACTTTCCAAAATTCTATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTT-ACCAAAAATTACCATTTTACCCCCA
* * *
19743408 AACTTCCCAAAATTCAATTTTTAACCTCGAAGTTT-CCAAAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAACCCCG-A-TTTACCAAAAATTACCATTTTACCCCCA
* *
19743467 AACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTT-ACCAAAAATTACCATTTTACCCCCA
* * * * *
19743526 AACTTTCCAAAATTCCTTTTTTAACCCCAATTTCACCAAAAATTACCATTTTGCCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTT-ACCAAAAATTACCATTTTACCCCCA
* * * * * *
19743585 AACTTTCTAAAATCCCA-TTTTAACCTCGATTTCACCAAAAATTACCATTTTGCCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTT-ACCAAAAATTACCATTTTACCCCCA
19743643 AACTTTCCAAAA-TCTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
1 AACTTTCCAAAATTC-CATTTTTAACCCCGATTT-ACCAAAAATTACCATTTTACCCCC
19743701 GAAGTAAAAA
Statistics
Matches: 264, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
57 4 0.02
58 53 0.20
59 203 0.77
60 1 0.00
61 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTACCAAAAATTACCATTTTACCCCCA
Found at i:19743605 original size:28 final size:28
Alignment explanation
Indices: 19743562--19743663 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
19743552 CCAATTTCAC
*
19743562 CAAAAATTACCATTTTGCCCTCGAACTTT
1 CAAAAA-TCCCATTTTGCCCTCGAACTTT
* **
19743591 CTAAAATCCCATTTTAACCTCG-A-TTT
1 CAAAAATCCCATTTTGCCCTCGAACTTT
*
19743617 CACCAAAAATTACCATTTTGCCCTCGAACTTT
1 ---CAAAAA-TCCCATTTTGCCCTCGAACTTT
* *
19743649 CCAAAATCTCATTTT
1 CAAAAATCCCATTTT
19743664 TAACCCCGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
26 3 0.05
27 1 0.02
28 20 0.36
29 15 0.27
30 13 0.23
31 1 0.02
32 3 0.05
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (28 bp):
CAAAAATCCCATTTTGCCCTCGAACTTT
Found at i:19743647 original size:117 final size:118
Alignment explanation
Indices: 19743345--19743703 Score: 519
Period size: 118 Copynumber: 3.1 Consensus size: 118
19743335 TCTCTAATCA
* *
19743345 CCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCCCAAA
1 CCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAA
* * *
19743410 CTTCCCAAAATTCAATTTTTAACCTCGAAGTTT--CCAAAAATTACCATTTTACC
66 CTTTCCAAAATTCCATTTTTAACC-CCAA-TTTCACCAAAAATTACCATTTTACC
*
19743463 CCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAA
1 CCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAA
* *
19743528 CTTTCCAAAATTCCTTTTTTAACCCCAATTTCACCAAAAATTACCATTTTGCC
66 CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACC
* * * * * * *
19743581 CTCGAACTTTCTAAAATCCCA-TTTTAACCTCGATTTCACCAAAAATTACCATTTTGCCCTCGAA
1 CCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAA
*
19743645 CTTTCCAAAA-TCTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
66 CTTTCCAAAATTC-CATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACC
19743698 CCCGAA
1 CCCGAA
19743704 GTAAAAAATT
Statistics
Matches: 218, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
116 5 0.02
117 95 0.44
118 118 0.54
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (118 bp):
CCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAA
CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACC
Found at i:19754955 original size:200 final size:200
Alignment explanation
Indices: 19754606--19755658 Score: 1646
Period size: 200 Copynumber: 5.3 Consensus size: 200
19754596 CAACACCGTT
* *
19754606 CTCAATGCGAGCAAAT-TTCCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAA-CA
1 CTCAACGCGAGCAAATCTT-CGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTC-AAAGCA
* *
19754669 ATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTAAGGAGATC
64 ATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATC
* *
19754734 CAGAGAAGCGAATTAAAACAAGCGAGGTGGTCATATTCCTAATGAGATACAGAGAAGAATACCAA
129 CAGAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAA
19754799 CTCAACG
194 CTCAACG
19754806 CTCAACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
1 CTCAACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
* **
19754871 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTATTGAGGAGATCCA
66 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCA
* * * **
19754936 GAGAAGAGAATTAAAACAAGCGAGGTGGTCATCTTCCTGTTGAGATGCAGAGAAGAGCACCAACT
131 GAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACT
*
19755001 TAACG
196 CAACG
** * * *
19755006 CTCAATACGAGCAAAT-TTCCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCAAAACAA
1 CTCAACGCGAGCAAATCTT-CGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAA
19755070 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCC
65 TAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCC
19755135 AGAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAC
130 AGAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAAC
19755200 TCAACG
195 TCAACG
*
19755206 CTCAACGCGAGCAAATCTTTGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
1 CTCAACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
19755271 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCA
66 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCA
*
19755336 GAGAAGCGAATCAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACT
131 GAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACT
*
19755401 CGACG
196 CAACG
* * * * *
19755406 CTCAATGCGAGTAAATCTTCAAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAAT
1 CTCAACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
* * *
19755471 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTTCTGAGAAGATCCA
66 AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCA
* * * * * ** * *
19755536 AAGAAGAGAATTGAAACGAGTGAGACGATCATCTTCCTGATGAGACACAGAGAAGAATACCAACT
131 GAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACT
*
19755601 CAACA
196 CAACG
* * *
19755606 CTCAACACGAGCCAATCTTCGAACTCAA-CTTCCTGATGAGACACTAAGAAGCA
1 CTCAACGCGAGCAAATCTTCGAAC-CAAGCTTCCTGATGAGACACTGAGAAGCA
19755659 GGTCGAAGTC
Statistics
Matches: 783, Mismatches: 65, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
199 5 0.01
200 772 0.99
201 6 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (200 bp):
CTCAACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAAT
AAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCA
GAGAAGCGAATTAAAACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACT
CAACG
Found at i:19756127 original size:27 final size:26
Alignment explanation
Indices: 19756097--19756175 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
19756087 ATCCAATTAC
* *
19756097 AAAGTCCATTTACAATGGCCCAAATGA
1 AAAGCCCAATTACAATGGCCCAAAT-A
* * *
19756124 AAAGCCCAATTATAAAGACCCAAATA
1 AAAGCCCAATTACAATGGCCCAAATA
19756150 AAAGGCCCAATTACAAGTGGCCCAAA
1 AAA-GCCCAATTACAA-TGGCCCAAA
19756176 CCCTAATGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.10
27 31 0.74
28 7 0.17
ACGTcount: A:0.46, C:0.24, G:0.14, T:0.16
Consensus pattern (26 bp):
AAAGCCCAATTACAATGGCCCAAATA
Found at i:19757948 original size:29 final size:29
Alignment explanation
Indices: 19757864--19758360 Score: 244
Period size: 29 Copynumber: 17.0 Consensus size: 29
19757854 GCTCTCTAGT
* *
19757864 CCCCGAACTTTCCAAAATTCCATTTTTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
* *
19757893 CCCC--AGTTTCATCAAAAATTATC-TTTTTAC
1 CCCCAAACTTTC--C-AAAATT-CCATTTTTAC
* * *
19757923 CCCCAAACTTCCCAAACTTCCATTTTAAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
* * *
19757952 CCCGAAGC-TTCCAAAAATTACCA-TATTAC
1 CCCCAAACTTTCC-AAAATT-CCATTTTTAC
*
19757981 CCCCAAACTTTCCAAAATTCCATTTTTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
*
19758010 CCCCAAAATTTCCAAAATTACCA-TTTTAC
1 CCCCAAACTTTCCAAAATT-CCATTTTTAC
* * * *
19758039 CCCTAAACTTTTCAACATTCCATTTTTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
* *
19758068 TCCC-GA-TTTCACCAAAAATTACCA-TTTTAC
1 CCCCAAACTTT--CC-AAAATT-CCATTTTTAC
* * *
19758098 CCCTAAACTTTCCAAAATTCCTTTTTTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
*
19758127 CCCC-AA-TTTCACCAAAAATCACCA-TTTTAC
1 CCCCAAACTTT--CC-AAAAT-TCCATTTTTAC
* * *
19758157 CCCTAAACTTTCCAAAATTCCTTTTTTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
* ***
19758186 CCTC-GGTTTTACCAAAAATTACCA-TTTTAC
1 CCCCAAACTTT-CC-AAAATT-CCATTTTTAC
* * *
19758216 CCCTACAGTTTCCAAAATTCC-TTTTTGA-
1 CCCCAAACTTTCCAAAATTCCATTTTT-AC
* *
19758244 ACCCTAA-TTTCACCAAAAATTACCA-TTTTAC
1 CCCCAAACTTT--CC-AAAATT-CCATTTTTAC
* *
19758275 CCTCAAACTTTCTAAAATTCCATTTTTA-
1 CCCCAAACTTTCCAAAATTCCATTTTTAC
* * * *
19758303 ACCCTAATTTTACCAAAATTACCA-TTTTGC
1 CCCCAAACTTT-CCAAAATT-CCATTTTTAC
*
19758333 CCCCGAACTTTCCAAAA-TCTCATTTTTA
1 CCCCAAACTTTCCAAAATTC-CATTTTTA
19758361 ACCTCGATTT
Statistics
Matches: 348, Mismatches: 74, Indels: 92
0.68 0.14 0.18
Matches are distributed among these distances:
27 15 0.04
28 42 0.12
29 164 0.47
30 90 0.26
31 24 0.07
32 13 0.04
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (29 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAC
Found at i:19758083 original size:117 final size:116
Alignment explanation
Indices: 19757864--19758394 Score: 619
Period size: 117 Copynumber: 4.5 Consensus size: 116
19757854 GCTCTCTAGT
* * * * * *
19757864 CCCCGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAAATTATCTTTTTACCCCCAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAA
* * ** *
19757929 ACTTCCCAAACTTCCA-TTTTAACCCCGAAGCTT-CCAAAAATTACCATATTAC
65 ACTTTCCAAAATTCCATTTTTAA-CCCG-ATTTTACCAAAAATTACCATTTTAC
19757981 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAATTT-CC-AAAATTACCATTTTACCCCTA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCC--AATTTACCAAAAATTACCATTTTACCCCTA
* * *
19758044 AACTTTTCAACATTCCATTTTTAATCCCGATTTCACCAAAAATTACCATTTTAC
64 AACTTTCCAAAATTCCATTTTTAA-CCCGATTTTACCAAAAATTACCATTTTAC
* * *
19758098 CCCTAAACTTTCCAAAATTCCTTTTTTAACCCCAATTTCACCAAAAATCACCATTTTACCCCTAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAA
* *
19758163 ACTTTCCAAAATTCCTTTTTTAACCTCGGTTTTACCAAAAATTACCATTTTAC
65 ACTTTCCAAAATTCCATTTTTAACC-CGATTTTACCAAAAATTACCATTTTAC
* * * *
19758216 CCCTACAGTTTCCAAAATTCC-TTTTTGAACCCTAATTTCACCAAAAATTACCATTTTA-CCCTC
1 CCCCAAACTTTCCAAAATTCCATTTTT-AACCCCAATTT-ACCAAAAATTACCATTTTACCCCT-
* * *
19758279 AAACTTTCTAAAATTCCATTTTTAACCCTAATTTTACC-AAAATTACCATTTTGC
63 AAACTTTCCAAAATTCCATTTTTAACCC-GATTTTACCAAAAATTACCATTTTAC
* * *
19758333 CCCCGAACTTTCCAAAA-TCTCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCC
1 CCCCAAACTTTCCAAAATTC-CATTTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCC
19758395 CGAAGTCGAA
Statistics
Matches: 361, Mismatches: 39, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
115 5 0.01
116 35 0.10
117 163 0.45
118 154 0.43
119 4 0.01
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (116 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTACCAAAAATTACCATTTTACCCCTAAA
CTTTCCAAAATTCCATTTTTAACCCGATTTTACCAAAAATTACCATTTTAC
Found at i:19758107 original size:59 final size:58
Alignment explanation
Indices: 19757869--19758394 Score: 595
Period size: 59 Copynumber: 9.0 Consensus size: 58
19757859 CTAGTCCCCG
* * * * *
19757869 AACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATCAAAAATTATCTTTTTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAA-CCCAATTTCACCAAAAATTACCATTTTACCCCTA
* * * * *
19757928 AACTTCCCAAACTTCCA-TTTTAACCCCGAAGCTT--CCAAAAATTACCATATTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAA-CCC-AA-TTTCACCAAAAATTACCATTTTACCCCTA
19757986 AACTTTCCAAAATTCCATTTTTAACCCCAAAATTT--CC-AAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAA-CCC--AATTTCACCAAAAATTACCATTTTACCCCTA
* * *
19758044 AACTTTTCAACATTCCATTTTTAATCCCGATTTCACCAAAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAA-CCCAATTTCACCAAAAATTACCATTTTACCCCTA
* *
19758103 AACTTTCCAAAATTCCTTTTTTAACCCCAATTTCACCAAAAATCACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAA-CCCAATTTCACCAAAAATTACCATTTTACCCCTA
* ** *
19758162 AACTTTCCAAAATTCCTTTTTTAACCTCGGTTTTACCAAAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAACC-CAATTTCACCAAAAATTACCATTTTACCCCTA
* *
19758221 CAGTTTCCAAAATTCC-TTTTTGAACCCTAATTTCACCAAAAATTACCATTTTA-CCCTCA
1 AACTTTCCAAAATTCCATTTTT-AACCC-AATTTCACCAAAAATTACCATTTTACCCCT-A
* * * **
19758280 AACTTTCTAAAATTCCATTTTTAACCCTAATTTTACC-AAAATTACCATTTTGCCCCCG
1 AACTTTCCAAAATTCCATTTTTAACCC-AATTTCACCAAAAATTACCATTTTACCCCTA
*
19758338 AACTTTCCAAAA-TCTCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCC
1 AACTTTCCAAAATTC-CATTTTTAACC-CAATTTCACCAAAAATTACCATTTTACCCC
19758395 CGAAGTCGAA
Statistics
Matches: 407, Mismatches: 44, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
56 4 0.01
57 2 0.00
58 146 0.36
59 246 0.60
60 9 0.02
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTAACCCAATTTCACCAAAAATTACCATTTTACCCCTA
Found at i:19763125 original size:17 final size:18
Alignment explanation
Indices: 19763100--19763136 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19763090 AAACCATGAA
19763100 ATAAGAATAAAAA-ATTT
1 ATAAGAATAAAAAGATTT
*
19763117 ATAATAATAAAAAGATTT
1 ATAAGAATAAAAAGATTT
19763135 AT
1 AT
19763137 TAGGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAAGAATAAAAAGATTT
Found at i:19767675 original size:42 final size:43
Alignment explanation
Indices: 19767587--19767689 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
19767577 ACACAAGACA
* *
19767587 AAGGAAGCTACATGGAAAAAGCCACATTCAAGAAACGACAAAG
1 AAGGAAGCTACGTGGAAAAAACCACATTCAAGAAACGACAAAG
* * *
19767630 AAGGAAGCTACGTTGAAAAAATCAC-TTCAAGAAATGA-AAATG
1 AAGGAAGCTACGTGGAAAAAACCACATTCAAGAAACGACAAA-G
19767672 AAGGAAGCTACGTGGAAA
1 AAGGAAGCTACGTGGAAA
19767690 TCACCCACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.06
42 29 0.55
43 21 0.40
ACGTcount: A:0.50, C:0.15, G:0.22, T:0.14
Consensus pattern (43 bp):
AAGGAAGCTACGTGGAAAAAACCACATTCAAGAAACGACAAAG
Found at i:19769476 original size:14 final size:16
Alignment explanation
Indices: 19769436--19769479 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
19769426 TTTTCAACAT
*
19769436 AAATTAAACTTAATTCA
1 AAATTAAA-TAAATTCA
19769453 AAATTAAATAAATT-A
1 AAATTAAATAAATTCA
19769468 AAA-TAAATAAAT
1 AAATTAAATAAAT
19769480 ATGAGTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 5 0.19
17 8 0.31
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTAAATAAATTCA
Found at i:19771332 original size:23 final size:23
Alignment explanation
Indices: 19771303--19771638 Score: 406
Period size: 23 Copynumber: 14.6 Consensus size: 23
19771293 ATTATATCAG
*
19771303 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTA
* *
19771326 TGATTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTA
*
19771349 TGCTTAAGTATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTA
* * *
19771372 TGCTTAAATATTAATATGAGTTG
1 TGCTTAAATATTAATGTGATTTA
*
19771395 TGCTCAAATATTAATGTGA-TTA
1 TGCTTAAATATTAATGTGATTTA
* * *
19771417 GTACTTAAATATTAATATGATTTG
1 -TGCTTAAATATTAATGTGATTTA
* * *
19771441 TGCTCAAATTTTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTA
*
19771464 TGCTTAAATATTAATGTAATTTA
1 TGCTTAAATATTAATGTGATTTA
*
19771487 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTA
* *
19771510 TGCTTAAATATTAATGTGATATG
1 TGCTTAAATATTAATGTGATTTA
19771533 TGCTCT-AATATTAATGTGATTTA
1 TGCT-TAAATATTAATGTGATTTA
* *
19771556 TGTTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTA
*
19771579 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTA
** *
19771602 TAATTAAATATTAATGTGATATA
1 TGCTTAAATATTAATGTGATTTA
* *
19771625 TGTTTAAAAATTAA
1 TGCTTAAATATTAA
19771639 GATGTGATAT
Statistics
Matches: 267, Mismatches: 42, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
22 3 0.01
23 261 0.98
24 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTA
Found at i:19771414 original size:69 final size:69
Alignment explanation
Indices: 19771302--19771652 Score: 454
Period size: 69 Copynumber: 5.0 Consensus size: 69
19771292 TATTATATCA
* * *
19771302 GTGCTTAAATATTAATATGATTTATGATTAAATATTAATGTGATTTGTGCTTAAGTATTAATGTG
1 GTGCTTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATGTG
19771367 ATTT
66 ATTT
* * * * * *
19771371 ATGCTTAAATATTAATATGAGTTGTGCTCAAATATTAATGTGA-TTAGTACTTAAATATTAATAT
1 GTGCTTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTA-TGCTTAAATATTAATGT
19771435 GATTT
65 GATTT
* * *
19771440 GTGCTCAAATTTTAATATGATTTATGCTTAAATATTAATGTAATTTATGCTTAAATATTAATGTG
1 GTGCTTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATGTG
19771505 ATTT
66 ATTT
* * * *
19771509 GTGCTTAAATATTAATGTGATATGTGCTCT-AATATTAATGTGATTTATGTTTAAATATTAATGT
1 GTGCTTAAATATTAATATGATTTATGCT-TAAATATTAATGTGATTTATGCTTAAATATTAATGT
19771573 GATTT
65 GATTT
** * * *
19771578 GTGCTTAAATATTAATATGATTTATAATTAAATATTAATGTGATATATGTTTAAAAATTAAGATG
1 GTGCTTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATT-A-ATG
19771643 TGATATT
64 TGAT-TT
19771650 GTG
1 GTG
19771653 AACAAACATG
Statistics
Matches: 243, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
68 3 0.01
69 223 0.92
70 5 0.02
71 7 0.03
72 5 0.02
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (69 bp):
GTGCTTAAATATTAATATGATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATGTG
ATTT
Found at i:19774549 original size:18 final size:17
Alignment explanation
Indices: 19774516--19774626 Score: 152
Period size: 18 Copynumber: 6.4 Consensus size: 17
19774506 CTTTTCTTTT
* *
19774516 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
19774533 TTTAAATTTAAATATAAA
1 TTTAAATTTAAA-ATAAA
*
19774551 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
19774568 TTTAAATTTTAAAATAAA
1 TTTAAA-TTTAAAATAAA
19774586 TTTAAATTTTAAAATAAA
1 TTTAAA-TTTAAAATAAA
19774604 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
19774621 TTTAAA
1 TTTAAA
19774627 ATGAGTTGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
16 1 0.01
17 37 0.43
18 48 0.56
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:19774566 original size:35 final size:34
Alignment explanation
Indices: 19774516--19774626 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
19774506 CTTTTCTTTT
* *
19774516 TTTAAATTTATAATAATTTTAAATTTAAATATAAA
1 TTTAAATTTAAAATAAATTTAAATTTAAA-ATAAA
*
19774551 TTTAAACTTAAAATAAATTTAAATTTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAA-TTTAAAATAAA
19774586 TTTAAATTTTAAAATAAATTT-AATCTTAAAATAAA
1 TTTAAA-TTTAAAATAAATTTAAAT-TTAAAATAAA
19774621 TTTAAA
1 TTTAAA
19774627 ATGAGTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
34 1 0.01
35 49 0.71
36 19 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (34 bp):
TTTAAATTTAAAATAAATTTAAATTTAAAATAAA
Found at i:19774603 original size:53 final size:52
Alignment explanation
Indices: 19774516--19774626 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 52
19774506 CTTTTCTTTT
* *
19774516 TTTAAATTTATAATAATTTTAAATTTAAATATAAATTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAATTTAAATATAAATTTAAACTTAAAATAAA
*
19774568 TTTAAATTTTAAAATAAATTTAAATTTTAAA-ATAAATTTAATCTTAAAATAAA
1 TTTAAA-TTTAAAATAAATTTAAA-TTTAAATATAAATTTAAACTTAAAATAAA
19774621 TTTAAA
1 TTTAAA
19774627 ATGAGTTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 6 0.11
53 42 0.78
54 6 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (52 bp):
TTTAAATTTAAAATAAATTTAAATTTAAATATAAATTTAAACTTAAAATAAA
Found at i:19775078 original size:39 final size:39
Alignment explanation
Indices: 19775035--19775162 Score: 107
Period size: 39 Copynumber: 3.3 Consensus size: 39
19775025 CCCAGGTTCA
*
19775035 GGGTAGGAGATTGGTTGATGGTGATCTGCCCTAAGCTCG
1 GGGTAAGAGATTGGTTGATGGTGATCTGCCCTAAGCTCG
* ** * * *
19775074 GGGTATGAGATCT-AATGGTTGTAATCTGCCCCT-AGCTCG
1 GGGTAAGAGAT-TGGTTGATGGTGATCTG-CCCTAAGCTCG
* * * * *
19775113 GGGTAAGAGATTGGTTAACGATGATCTGCCCTAGGCTTG
1 GGGTAAGAGATTGGTTGATGGTGATCTGCCCTAAGCTCG
*
19775152 GGGTAAAAGAT
1 GGGTAAGAGAT
19775163 CAAATGGCTG
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
38 5 0.07
39 57 0.85
40 5 0.07
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.28
Consensus pattern (39 bp):
GGGTAAGAGATTGGTTGATGGTGATCTGCCCTAAGCTCG
Found at i:19775155 original size:78 final size:78
Alignment explanation
Indices: 19775017--19775285 Score: 317
Period size: 78 Copynumber: 3.4 Consensus size: 78
19775007 TGGACAACTA
* * * * * **
19775017 CAATCTGCCCCAGGTTCAGGGTAGGAGATTGGTTGATGGTGATCTGCCCTAAGCTCGGGGTATGA
1 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGACGATGATCTGCCCTAAGCTCGGGGTAAAA
* *
19775082 GATCTAATGGTTG
66 GATCAAATGGCTG
* * * *
19775095 TAATCTGCCCCTA-GCTCGGGGTAAGAGATTGGTTAACGATGATCTGCCCTAGGCTTGGGGTAAA
1 CAATCTGCCCC-AGGCTCGGGGTAAGAGATTGGTTGACGATGATCTGCCCTAAGCTCGGGGTAAA
19775159 AGATCAAATGGCTG
65 AGATCAAATGGCTG
* *
19775173 CAATCTGCCCCAGGCAT-GGGGTAAGAGATTGGTTGACGATGATCTACCCCAAGCTCGGGGGTAA
1 CAATCTGCCCCAGGC-TCGGGGTAAGAGATTGGTTGACGATGATCTGCCCTAAGCTC-GGGGTAA
19775237 AAGATCAAATGGCTG
64 AAGATCAAATGGCTG
* * * **
19775252 CATTTTTCCCCAGGCTTAGGGTAAGAGATTGGTT
1 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTT
19775286 AATGATGTAA
Statistics
Matches: 163, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 110 0.67
79 52 0.32
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (78 bp):
CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGACGATGATCTGCCCTAAGCTCGGGGTAAAA
GATCAAATGGCTG
Found at i:19775223 original size:39 final size:39
Alignment explanation
Indices: 19775112--19775223 Score: 106
Period size: 39 Copynumber: 2.9 Consensus size: 39
19775102 CCCCTAGCTC
* * *
19775112 GGGGTAAGAGATTGGTTAACGATGATCTGCCCTAGGCTT
1 GGGGTAAGAGATTGGTTGACGATGATCTGCCCCAGGCAT
* *
19775151 GGGGTAAAAGATCAAATGGCTG-C-A--ATCTGCCCCAGGCAT
1 GGGGTAAGAGAT----TGGTTGACGATGATCTGCCCCAGGCAT
*
19775190 GGGGTAAGAGATTGGTTGACGATGATCTACCCCA
1 GGGGTAAGAGATTGGTTGACGATGATCTGCCCCA
19775224 AGCTCGGGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
35 5 0.09
36 1 0.02
37 1 0.02
39 44 0.77
41 1 0.02
42 1 0.02
43 4 0.07
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (39 bp):
GGGGTAAGAGATTGGTTGACGATGATCTGCCCCAGGCAT
Found at i:19775461 original size:101 final size:101
Alignment explanation
Indices: 19775347--19775548 Score: 278
Period size: 101 Copynumber: 2.0 Consensus size: 101
19775337 ACTACTGTAG
* * * * * *
19775347 TTTTAATCCAACTTCGCTGCAACTTCAAGAAGATAGGATTTGATGTTGAAGCGTCGTCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTAAAGAAGATAGGAATTGACGTTAAAGCGTCATCTTGCTCT
* *
19775412 TACTATAACTTCAAAGAGATAAAGACTTGCTATTGT
66 TACTACAACTTCAAAGAGATAAAGACTTGCCATTGT
* * * * *
19775448 TTTTAATCCAACTTTACTGTAATTTAAAGAGGATAGGAATTGACGTTAAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTAAAGAAGATAGGAATTGACGTTAAAGCGTCATCTTGCTCT
*
19775513 TACTGCAACTTCAAAGAGATAAAGACTTGCCATTGT
66 TACTACAACTTCAAAGAGATAAAGACTTGCCATTGT
19775549 AGTTTTGATC
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 87 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (101 bp):
TTTTAATCCAACTTCACTGCAACTTAAAGAAGATAGGAATTGACGTTAAAGCGTCATCTTGCTCT
TACTACAACTTCAAAGAGATAAAGACTTGCCATTGT
Found at i:19775702 original size:49 final size:49
Alignment explanation
Indices: 19775638--19776162 Score: 328
Period size: 49 Copynumber: 10.7 Consensus size: 49
19775628 GTACCGGGTT
* * ** *
19775638 CGCCATTGCGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGATT
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* * * * * *
19775687 CGTCGTTACGGCTTAAATCTTTCCCTTTATGTC-TC-TAAGGTACAAGG-TT
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGT--GGTAC-TGGATC
* *
19775736 CGCCATTGCGACTTAAACCTTTCCCTAT-ATGTCTTCGTGGTACTGGATC
1 CGCCATTACGACTTAAATCTTTCCCT-TCATGTCTTCGTGGTACTGGATC
*
19775785 CGCCATTACGACTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* ** * * * **
19775834 CGCCGTCGCGGCTTAGATCTTTCCCTT-GTGTCTTCACGGTACTGGATC
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* * * * * *
19775882 CGCCATTGCGGTCTTAGATCTTTCCCATCGTGTTTTCGTGGTACTGGATC
1 CGCCATTAC-GACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* ** * * * *
19775932 CACTGTTACAACTTAGATCTTTCCCCT-ATGTCTTCGTGGTAATGGATC
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* * * * * * * *
19775980 CGCCGTTGCGGCTTAGATCTTTCCCGTCGTGTTTTTGTGGTACTGGATC
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
* ** * * * * * * * *
19776029 TGCTGTTGCGGCTTAGATCTTTCCCTTCATGTATTTGAGGTATTAGG-TT
1 CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACT-GGATC
* * * * * *
19776078 CGCCGTTGCGACTTAAACCCTTCCCTT-TTGTATCTTTGTGGTACTGGATC
1 CGCCATTACGACTTAAATCTTTCCCTTCATG--TCTTCGTGGTACTGGATC
* * * * *
19776128 CGCCGTTGCGGTCTTAGATCTTTCCCGTCATGTCT
1 CGCCATTAC-GACTTAAATCTTTCCCTTCATGTCT
19776163 CTGCGGTACA
Statistics
Matches: 381, Mismatches: 78, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
47 1 0.00
48 71 0.19
49 240 0.63
50 53 0.14
51 14 0.04
52 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (49 bp):
CGCCATTACGACTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATC
Found at i:19775846 original size:147 final size:146
Alignment explanation
Indices: 19775638--19776203 Score: 478
Period size: 147 Copynumber: 3.8 Consensus size: 146
19775628 GTACCGGGTT
* ** * * * *
19775638 CGCCATTGCGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGATTCGTCGTTACGGCTTAA
1 CGCCATTACGACTTAAACCTTTCCCTT-ATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAG
* * *
19775703 ATCTTTCCCTTTATGTCTCTAAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTAT-ATG
65 ATCTTTCCCGTCATGTCTCTACGGTAC-AGGTTCGCCATTGCGACTTAAACCTTTCCCTATCATG
*
19775767 TCTTCGTGGTACTGGATC
129 TATTCGTGGTACTGGATC
* * *
19775785 CGCCATTACGACTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAG
1 CGCCATTACGACTTAAACCTTTCCCTT-ATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAG
** * * * * * *
19775850 ATCTTTCCC-TTGTGTCT-TCACGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCC-ATCG
65 ATCTTTCCCGTCATGTCTCT-ACGGTACAGG-TTCGCCATTGC-GACTTAAACCTTTCCCTATCA
*
19775912 TGTTTTCGTGGTACTGGATC
127 TGTATTCGTGGTACTGGATC
* ** * * * * *
19775932 CACTGTTACAACTTAGATCTTTCCCCTATGTCTTCGTGGTAATGGATCCGCCGTTGCGGCTTAGA
1 CGCCATTACGACTTAAACCTTTCCCTTATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
* * * ** * * ** * * *
19775997 TCTTTCCCGTCGTGTTTTTGTGGTACTGGATCTGCTGTTGCGGCTTAGATCTTTCCCT-TCATGT
66 TCTTTCCCGTCATGTCTCTACGGTACAGGTTC-GCCATTGCGACTTAAACCTTTCCCTATCATGT
* * * *
19776061 ATTTGAGGTATTAGG-TT
130 ATTCGTGGTACT-GGATC
* * * * *
19776078 CGCCGTTGCGACTTAAACCCTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTTGCGGTCTT
1 CGCCATTACGACTTAAACCTTTCCCTTATG--TCTTCGTGGTACTGGATCCGCCGTTGCGG-CTT
* * * *
19776143 AGATCTTTCCCGTCATGTCTCTGCGGTACAAGGTTCGCCGTTACGACTTAAACCATTCCCT
63 AGATCTTTCCCGTCATGTCTCTACGGTAC-AGGTTCGCCATTGCGACTTAAACCTTTCCCT
19776204 TTTGTATCTT
Statistics
Matches: 342, Mismatches: 64, Indels: 24
0.80 0.15 0.06
Matches are distributed among these distances:
145 3 0.01
146 120 0.35
147 140 0.41
148 28 0.08
149 47 0.14
150 4 0.01
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.37
Consensus pattern (146 bp):
CGCCATTACGACTTAAACCTTTCCCTTATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
TCTTTCCCGTCATGTCTCTACGGTACAGGTTCGCCATTGCGACTTAAACCTTTCCCTATCATGTA
TTCGTGGTACTGGATC
Found at i:19776177 original size:100 final size:100
Alignment explanation
Indices: 19776013--19776260 Score: 363
Period size: 100 Copynumber: 2.5 Consensus size: 100
19776003 CCGTCGTGTT
* * * * **
19776013 TTTGTGGTACTGGATCTGCTGTTGCGG-CTTAGATCTTTCCCTTCATGTATTTGAGGTATTAGGT
1 TTTGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTCATGTATCTGAGGTACAAGGT
* *
19776077 TCGCCGTTGCGACTTAAACCCTTCCCTTTTGTATC
66 TCGCCGTTACGACTTAAACCATTCCCTTTTGTATC
* *
19776112 TTTGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTCATGTCTCTGCGGTACAAGGT
1 TTTGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTCATGTATCTGAGGTACAAGGT
19776177 TCGCCGTTACGACTTAAACCATTCCCTTTTGTATC
66 TCGCCGTTACGACTTAAACCATTCCCTTTTGTATC
* * * *
19776212 TTTGCGGTACTGGATCCTCCGTTGCGGTATTAGATCTTTCCTGTCATGT
1 TTTGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTCATGT
19776261 TTCATGGTGT
Statistics
Matches: 134, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 25 0.19
100 109 0.81
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (100 bp):
TTTGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTCATGTATCTGAGGTACAAGGT
TCGCCGTTACGACTTAAACCATTCCCTTTTGTATC
Found at i:19777503 original size:6 final size:6
Alignment explanation
Indices: 19777494--19777580 Score: 50
Period size: 6 Copynumber: 13.5 Consensus size: 6
19777484 GACCTCTCCC
* * *
19777494 TTTTCT TTTTCTTT TTTCTCT TTTTGCT TTTTGTT TTTTGTT TTTTGT
1 TTTTCT TTTTC--T TTT-TCT TTTT-CT TTTT-CT TTTT-CT TTTTCT
* * *
19777542 TTTTGT TTTTGT TTTTCT TCTTCT TTTT-T CTTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT TTT
19777581 ATTCATTGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 1 0.01
6 39 0.56
7 24 0.34
8 4 0.06
9 2 0.03
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:19777511 original size:7 final size:7
Alignment explanation
Indices: 19777494--19777575 Score: 53
Period size: 7 Copynumber: 11.3 Consensus size: 7
19777484 GACCTCTCCC
19777494 TTTTC-T
1 TTTTCTT
19777500 TTTTCTT
1 TTTTCTT
19777507 TTTTCTCT
1 TTTTCT-T
19777515 TTTTGC-T
1 TTTT-CTT
*
19777522 TTTTGTT
1 TTTTCTT
*
19777529 TTTTGTT
1 TTTTCTT
*
19777536 TTTTGTT
1 TTTTCTT
19777543 TTTGT-TT
1 TTT-TCTT
*
19777550 TTGTTTTT
1 TT-TTCTT
19777558 CTTCTTCTT
1 -TT-TTCTT
19777567 TTTTCTT
1 TTTTCTT
19777574 TT
1 TT
19777576 CTTTTATTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
6 5 0.08
7 42 0.65
8 11 0.17
9 7 0.11
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:19777512 original size:13 final size:13
Alignment explanation
Indices: 19777494--19777580 Score: 65
Period size: 13 Copynumber: 6.7 Consensus size: 13
19777484 GACCTCTCCC
19777494 TTTTC-TTTTTCTT
1 TTTTCTTTTTTC-T
19777507 TTTTCTCTTTTTGCT
1 TTTTCT-TTTTT-CT
* *
19777522 TTTTGTTTTTTGT
1 TTTTCTTTTTTCT
*
19777535 TTTT-TGTTTTTGT
1 TTTTCT-TTTTTCT
*
19777548 TTTT-GTTTTTCT
1 TTTTCTTTTTTCT
*
19777560 TCTTCTTTTTTC-
1 TTTTCTTTTTTCT
19777572 TTTTCTTTT
1 TTTTCTTTT
19777581 ATTCATTGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 18 0.29
13 27 0.44
14 5 0.08
15 11 0.18
16 1 0.02
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:19777530 original size:20 final size:20
Alignment explanation
Indices: 19777507--19777550 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19777497 TCTTTTTCTT
19777507 TTTTCT-CTTTTTGCTTTTTG
1 TTTTCTGCTTTTTG-TTTTTG
* *
19777527 TTTTTTGTTTTTTGTTTTTG
1 TTTTCTGCTTTTTGTTTTTG
19777547 TTTT
1 TTTT
19777551 TGTTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (20 bp):
TTTTCTGCTTTTTGTTTTTG
Found at i:19782904 original size:97 final size:97
Alignment explanation
Indices: 19782724--19782912 Score: 242
Period size: 97 Copynumber: 1.9 Consensus size: 97
19782714 GAAAAAATCA
** *
19782724 TATTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAAGCACAAATTTTTAGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTTTAGAATC
*
19782789 GAAGATAAGGAAACATTGCCTTGATTTAAGGG
66 GAAGATAAGGAAACATTGCCTCGATTTAAGGG
* *
19782821 TATTCGATTAT-TCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCTA-AA
1 TATTCGATTATCT-CGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTT-TAGAA
* *
19782884 CTTGAA-ATAAAGG-AATATTGCCTCGATTT
64 -TCGAAGAT-AAGGAAACATTGCCTCGATTT
19782913 TAAAGGTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
96 1 0.01
97 69 0.86
98 10 0.12
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (97 bp):
TATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTTTAGAATC
GAAGATAAGGAAACATTGCCTCGATTTAAGGG
Found at i:19783261 original size:29 final size:28
Alignment explanation
Indices: 19783227--19783322 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 28
19783217 TCAAAAATGA
19783227 AATTTTTGGACATCTAGGTGTAAAATGGT
1 AATTTTTGGACATCTAGG-GTAAAATGGT
*
19783256 AATTTTTGGA-AGTTTCAGGGTCAAAAATGG-
1 AATTTTTGGACA-TCT-AGGGT--AAAATGGT
* *
19783286 AATTTTTGGACATCCAAGGGTAAAGTGGT
1 AATTTTTGGACAT-CTAGGGTAAAATGGT
19783315 AATTTTTG
1 AATTTTTG
19783323 AAAGTTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
28 7 0.12
29 22 0.39
30 19 0.34
31 8 0.14
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (28 bp):
AATTTTTGGACATCTAGGGTAAAATGGT
Found at i:19783379 original size:29 final size:28
Alignment explanation
Indices: 19783246--19783503 Score: 145
Period size: 29 Copynumber: 8.9 Consensus size: 28
19783236 ACATCTAGGT
19783246 GTAAAATGGTAATTTTTGGAAGTTTCAGG
1 GTAAAATGGTAATTTTTGGAAG-TTCAGG
*
19783275 GTCAAAAATGG-AATTTTTGGACA-TCCAAGG
1 GT--AAAATGGTAATTTTTGGA-AGTTC-AGG
* * **
19783305 GTAAAGTGGTAATTTTTGAAAGTTTTTGG
1 GTAAAATGGTAATTTTTGGAAG-TTCAGG
* * *
19783334 GTCAAAAATAG-AA-TTTTGGATGTTCGGGG
1 GT--AAAATGGTAATTTTTGGAAGTTC-AGG
*
19783363 GTAAAATGGTAATTTTTGGAAAGTTCAAG
1 GTAAAATGGTAATTTTTGG-AAGTTCAGG
* *
19783392 GTCAAAAATGG-AATTCTTGGAAGTTAAGGG
1 GT--AAAATGGTAATTTTTGGAAGTTCA-GG
* **
19783422 GTAAAAAT-GTATTTTTTGGAAAAATCAGG
1 GT-AAAATGGTAATTTTTGG-AAGTTCAGG
*
19783451 GTCAAAATGG-AATTTTTAGAAGTTCGAGG
1 GT-AAAATGGTAATTTTTGGAAGTTC-AGG
**
19783480 GTAAAAAT-AAAATTTTTGGAAGTT
1 GT-AAAATGGTAATTTTTGGAAGTT
19783504 TTGAGATCAA
Statistics
Matches: 176, Mismatches: 32, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.03
28 16 0.09
29 95 0.54
30 39 0.22
31 20 0.11
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.34
Consensus pattern (28 bp):
GTAAAATGGTAATTTTTGGAAGTTCAGG
Found at i:19783425 original size:59 final size:60
Alignment explanation
Indices: 19783187--19783474 Score: 260
Period size: 59 Copynumber: 4.9 Consensus size: 60
19783177 ACACTCAGGT
* ** * *
19783187 GTAAAATAGTAA-TTTTCAAAAGTTTC-GAGGTCAAAAATGAAATTTTTGGACA-TCT-AGGT
1 GTAAAATGGTAATTTTTGGAAAGTTTCAG-GGTCAAAAATGGAATTTTTGGA-AGT-TAAGGG
*
19783246 GTAAAATGGTAATTTTTGG-AAGTTTCAGGGTCAAAAATGGAATTTTTGGACA-TCCAA-GG
1 GTAAAATGGTAATTTTTGGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGA-AGT-TAAGGG
* ** * * **
19783305 GTAAAGTGGTAATTTTT-GAAAGTTTTTGGGTCAAAAATAGAA-TTTTGGATGTTCGGGG
1 GTAAAATGGTAATTTTTGGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTAAGGG
* *
19783363 GTAAAATGGTAATTTTTGGAAAG-TTCAAGGTCAAAAATGGAATTCTTGGAAGTTAAGGG
1 GTAAAATGGTAATTTTTGGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTAAGGG
* ** *
19783422 GTAAAAAT-GTATTTTTTGGAAA-AATCAGGGTC-AAAATGGAATTTTTAGAAGTT
1 GT-AAAATGGTAATTTTTGGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTT
19783475 CGAGGGTAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
58 61 0.32
59 119 0.62
60 11 0.06
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (60 bp):
GTAAAATGGTAATTTTTGGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTAAGGG
Found at i:19783453 original size:117 final size:117
Alignment explanation
Indices: 19783246--19783523 Score: 273
Period size: 117 Copynumber: 2.4 Consensus size: 117
19783236 ACATCTAGGT
* * *
19783246 GTAAAATGGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGACATCCAAGGGTAAAG
1 GTAAAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAATTCTTGGACATCCAAGGGTAAAA
** ** * * *
19783311 TGGTAATTTTTGAAAGTTTTTGGGTCAAAAATAGAA-TTTTGGATGTTCGGGG
66 TGGTAATTTTTGAAAGAATCAGGGTC-AAAATAGAATTTTTAGAAGTTCGAGG
*
19783363 GTAAAATGGTAATTTTTGGAAAG-TTCAAGGTCAAAAATGGAATTCTTGGA-AGT-TAAGGGGTA
1 GTAAAATGGTAATTTTTGG-AAGTTTCAAGGTCAAAAATGGAATTCTTGGACA-TCCAA-GGGT-
* *
19783425 AAAAT-GTATTTTTTGGAAA-AATCAGGGTCAAAATGGAATTTTTAGAAGTTCGAGG
62 AAAATGGTAATTTTT-GAAAGAATCAGGGTCAAAATAGAATTTTTAGAAGTTCGAGG
** ** * *
19783480 GTAAAAAT-AAAATTTTTGGAAGTTTTGAGATCAAAAATAGAATT
1 GT-AAAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAATT
19783524 TTTGAAAAGT
Statistics
Matches: 134, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
116 14 0.10
117 104 0.78
118 16 0.12
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (117 bp):
GTAAAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAATTCTTGGACATCCAAGGGTAAAA
TGGTAATTTTTGAAAGAATCAGGGTCAAAATAGAATTTTTAGAAGTTCGAGG
Found at i:19784659 original size:3 final size:3
Alignment explanation
Indices: 19784651--19784697 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
19784641 TGGCTCTTGG
19784651 ATT ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19784697 A
1 A
19784698 ATGTTATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19786137 original size:16 final size:17
Alignment explanation
Indices: 19786112--19786144 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19786102 ACAATTTTAC
*
19786112 TTTTATAAA-TTTAAAA
1 TTTTAAAAATTTTAAAA
19786128 TTTTAAAAATTTTAAAA
1 TTTTAAAAATTTTAAAA
19786145 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTTTAAAA
Found at i:19786590 original size:19 final size:21
Alignment explanation
Indices: 19786566--19786605 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
19786556 AAGAAACGAC
19786566 TCTCATGCT-AA-TCTCTCAA
1 TCTCATGCTCAATTCTCTCAA
*
19786585 TCTCATGTTCAATTCTCTCAA
1 TCTCATGCTCAATTCTCTCAA
19786606 GCCAAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCATGCTCAATTCTCTCAA
Found at i:19802836 original size:543 final size:544
Alignment explanation
Indices: 19801358--19802975 Score: 2674
Period size: 543 Copynumber: 3.0 Consensus size: 544
19801348 CCATTTAATC
* *
19801358 TTACAAGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAGAGAATCAAC
1 TTACAGGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAGAGAATCGAC
* * *
19801423 T-AAACCGTAAGCTCTGATATCATTAAATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAG
66 TAAAATCGTAAGCTCTAATACCATTAAATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAG
*
19801487 GTCTCAAGGTTTACAGAACTTTTCGAGTTTTTTTTTAAACATACAAATCAATCCCAATTTATTTA
131 GTCTCAGGGTTTACAGAACTTTTCGAG--TTTTTTTAAACATACAAATCAATCCCAATTTATTTA
* *
19801552 ATTACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTCATTTACAATATTTCA
194 ATTACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCA
* * *
19801617 ATCAATCAAGAATCAATATTTATATCACATATCATGAAATCTATTTTTTTTATGTCTGTAACGCC
259 ATCAATCAAGAATCAATATTCATATCACATATCATGACATCCATTTTTTTTATGTCTGTAACGCC
* * * * *
19801682 CAAAACCAGAAGTTCGTCGTCGATTAAGGTCCCAATGTCTTTCTATTCATTTATCATTGTTCATC
324 CAAAACCTGAAATTCGTCGTTGATTAGGGTCCCAATGTCTTTCTATTCATTTATCACTGTTCATC
* * * * * *
19801747 TTTTAATACCATGTCATAAATAATCATTTAAATATAATCATATAAGTTAAGAAAGGCAAAAAAGT
389 TTTTAATACCATGTCATAAATAATCAATTAAATATAATC--ATAACTCAACAAGGGCAAAAAGGT
* * *
19801812 CATTTTCATGATTTTTGGATACTTCTATCGGTACTTGATAGATAAGTATCGATAGTTGTCAAGTC
452 CATTTTCATGATTTTTGGATACTTCTACCGGTACTTGATGGACAAGTATCGATAGTTGTCAAGTC
*
19801877 AGTAAACAGTTCAATCAATATCACATTG
517 AGTAAACAGTTCAATCAATATCACACTG
* *
19801905 TTACAGGTTTATATGGTATGTACTTTCTAGACTTTATTCACACTATACTTAGTCCGAGAATCGAC
1 TTACAGGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAGAGAATCGAC
* * *
19801970 TAAACT-GTAAGCTCTAATACCATTAGATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAA
66 TAAAATCGTAAGCTCTAATACCATTAAATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAG
*
19802034 GTCTCAGGGCTTACAGAACTTTTCGAG-TTTTTTAAACATACAAATCAATCCCAATTTATTTAAT
131 GTCTCAGGGTTTACAGAACTTTTCGAGTTTTTTTAAACATACAAATCAATCCCAATTTATTTAAT
*
19802098 TAAAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCAAT
196 TACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCAAT
*
19802163 CAATCAAGAATCAATATTCATATCACATATCATGACATCCATTTTTTTTATGTCTGTAACACCCA
261 CAATCAAGAATCAATATTCATATCACATATCATGACATCCATTTTTTTTATGTCTGTAACGCCCA
19802228 AAA-CTAGAAATTCGTC-TTCGATTAGGGTCCCAATGTCTTTCTATTCATTTATCACTGTTCATC
326 AAACCT-GAAATTCGTCGTT-GATTAGGGTCCCAATGTCTTTCTATTCATTTATCACTGTTCATC
19802291 TTTTAATACCATGTCATAAATAATCAATTAAATATAATCATAACTCAACAAGGGCAAAAAGGTCA
389 TTTTAATACCATGTCATAAATAATCAATTAAATATAATCATAACTCAACAAGGGCAAAAAGGTCA
* * *
19802356 TTTTCATGATTTTTGGATACTTTTACCAGTACTTGATGGACAAGTATCGGTAGTTGTCAAGTCAG
454 TTTTCATGATTTTTGGATACTTCTACCGGTACTTGATGGACAAGTATCGATAGTTGTCAAGTCAG
*
19802421 TAAATAGTTCAATCAATATCACACTG
519 TAAACAGTTCAATCAATATCACACTG
*
19802447 TTACAGGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAAAGAATCGAC
1 TTACAGGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAGAGAATCGAC
* * * *
19802512 TAAAATCATAAGCTCTAATACCATTAAATGTAACATTCAAAAACCGTAACCACCTTCGATCTAAG
66 TAAAATCGTAAGCTCTAATACCATTAAATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAG
* * *
19802577 GTTTCAGGGTTTACAGAACTTTTCGAGTTTTTTTAAAACATACAAATCAATCCTATTTTATTTAA
131 GTCTCAGGGTTTACAGAACTTTTCGAGTTTTTTT-AAACATACAAATCAATCCCAATTTATTTAA
19802642 TTACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCAA
195 TTACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCAA
19802707 TCAATCAAGAATCAATATTCATA-CACATATCATGACATCCA-TTTTTTTATGTCTGTAACGCCC
260 TCAATCAAGAATCAATATTCATATCACATATCATGACATCCATTTTTTTTATGTCTGTAACGCCC
**
19802770 AAAACCTGAAATTCGTCGTTGATTAGGGTCTTAATGTCTTTCTATTCATTTATCACTGTTCATCT
325 AAAACCTGAAATTCGTCGTTGATTAGGGTCCCAATGTCTTTCTATTCATTTATCACTGTTCATCT
*
19802835 TTTAATATCATGTCATAAATAATCAATTAAATATAATCATAACTCAACAAGGGCAAAAAGGTCAT
390 TTTAATACCATGTCATAAATAATCAATTAAATATAATCATAACTCAACAAGGGCAAAAAGGTCAT
*
19802900 TTCCATGATTTTTGGATACTTCTACCGGTACTTGATGGACAAGTATCGATAGTTGTCAAGTCAGT
455 TTTCATGATTTTTGGATACTTCTACCGGTACTTGATGGACAAGTATCGATAGTTGTCAAGTCAGT
19802965 AAACAGTTCAA
520 AAACAGTTCAA
19802976 GAACAGTGCA
Statistics
Matches: 1001, Mismatches: 62, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
542 171 0.17
543 292 0.29
544 280 0.28
545 115 0.11
547 141 0.14
548 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (544 bp):
TTACAGGTTTATATGGCATGTACTTTCTAGACTTTATTCACACTATACTTAGTCAGAGAATCGAC
TAAAATCGTAAGCTCTAATACCATTAAATGTAACACTCAAAAATCGTAACCACCTCCGATCTAAG
GTCTCAGGGTTTACAGAACTTTTCGAGTTTTTTTAAACATACAAATCAATCCCAATTTATTTAAT
TACAAACTTGCAACTCAGAATACTAACTCCATTTAATCTTACACATTTATTTACAACATTTCAAT
CAATCAAGAATCAATATTCATATCACATATCATGACATCCATTTTTTTTATGTCTGTAACGCCCA
AAACCTGAAATTCGTCGTTGATTAGGGTCCCAATGTCTTTCTATTCATTTATCACTGTTCATCTT
TTAATACCATGTCATAAATAATCAATTAAATATAATCATAACTCAACAAGGGCAAAAAGGTCATT
TTCATGATTTTTGGATACTTCTACCGGTACTTGATGGACAAGTATCGATAGTTGTCAAGTCAGTA
AACAGTTCAATCAATATCACACTG
Found at i:19804253 original size:195 final size:193
Alignment explanation
Indices: 19803816--19804253 Score: 438
Period size: 195 Copynumber: 2.2 Consensus size: 193
19803806 TACCAGTACT
* *
19803816 CGATGCTGCTCACACAAGCTGTCGAGGACTCACAACGTATGCGGTACCCCAGCCATCGATACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCACAACGTATGCGGTACCCCAGCCATCAATACGGT
* * * *
19803881 GCCTGTCTATACTATAAACTATTCCTTAACAATGCTATTCACACAAGCTGTCGAGAGTATGCATA
66 ACCTGTCTATACTAT--ACTATTCCCTAACAATGCTACTCACACAAGCTATCGAGAGTATGCATA
* * *
19803946 AAGCATAGTCCCAGCCATCGTAGGGTCTATAATCCATTTAGGATCTATATCTCTTTCCCGAGTCA
129 AAGCATAATCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCTATATCTCTTTCCCGACTCA
* ** * * ** *
19804011 TGATGCTGCTTGCACGAGCTATTGAGGACTCGTAACGTATACGGTACCCCAGCCATCAATACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCACAACGTATGCGGTACCCCAGCCATCAATACGGT
* * * * * * *
19804076 ATCTGTGC-ATA-TAT-CTGTTCCCTAACGATGCTGCTCACACGAGTTATTGAG-GATATGCACT
66 ACCTGT-CTATACTATACTATTCCCTAACAATGCTACTCACACAAGCTATCGAGAG-TATGCA--
* * * * * * *
19804137 TATA-CATAAATCTCATCCATCGTAGGGCCTGTAATTCATTATTGGATTCT-TTTCTCATTTCCC
127 TAAAGCAT-AATCCCAGCCATCGTAGGGCCTATAATCCATT-TAGGA-TCTATATCTC-TTTCCC
19804200 GACTCA
188 GACTCA
* * *
19804206 CGATGCTACTCACATGAGCTGTCGAGGACTCACAACATATGCGGTACC
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCACAACGTATGCGGTACC
19804254 TCAACCATTG
Statistics
Matches: 193, Mismatches: 42, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
190 1 0.01
191 34 0.18
192 3 0.02
193 29 0.15
194 12 0.06
195 113 0.59
196 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (193 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCACAACGTATGCGGTACCCCAGCCATCAATACGGT
ACCTGTCTATACTATACTATTCCCTAACAATGCTACTCACACAAGCTATCGAGAGTATGCATAAA
GCATAATCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCTATATCTCTTTCCCGACTCA
Found at i:19815447 original size:37 final size:37
Alignment explanation
Indices: 19815336--19815460 Score: 171
Period size: 38 Copynumber: 3.3 Consensus size: 37
19815326 TTTCGAGAAA
* *
19815336 AAAAACAACCCAGTTCACATAAT-CTCTTTTATTTGCTT
1 AAAAAGAACCCAGTTCACAT--TGCTCTTTTGTTTGCTT
* * *
19815374 AAAAAGAACCTAGTTAAAATTGCCTCTTTTGTTTGCTT
1 AAAAAGAACCCAGTTCACATTG-CTCTTTTGTTTGCTT
19815412 AAAAAGAACCCAGTTCACATTGCTCTTTTGTTTGCTT
1 AAAAAGAACCCAGTTCACATTGCTCTTTTGTTTGCTT
19815449 AAAAAGAACCCA
1 AAAAAGAACCCA
19815461 ATATTTTGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.01
37 27 0.35
38 49 0.64
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (37 bp):
AAAAAGAACCCAGTTCACATTGCTCTTTTGTTTGCTT
Found at i:19816631 original size:25 final size:24
Alignment explanation
Indices: 19816595--19816641 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
19816585 AGTTAATAAT
19816595 AATTCTCTTTGAGTTTTTCTTTAAG
1 AATTCTCTTTGAGTTTTT-TTTAAG
19816620 AATTACTC-TTGAGTTTTTTTTA
1 AATT-CTCTTTGAGTTTTTTTTA
19816642 GAAGTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.19
25 14 0.67
26 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (24 bp):
AATTCTCTTTGAGTTTTTTTTAAG
Found at i:19817540 original size:18 final size:17
Alignment explanation
Indices: 19817499--19817540 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
19817489 AAAAAGTGAT
19817499 AAAAAAGTAGAGAAAAA
1 AAAAAAGTAGAGAAAAA
19817516 AGAAAAA-TACGAGAAAAA
1 A-AAAAAGTA-GAGAAAAA
19817534 GAAAAAA
1 -AAAAAA
19817541 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 18 0.82
19 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAAGTAGAGAAAAA
Found at i:19820615 original size:16 final size:15
Alignment explanation
Indices: 19820594--19820629 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
19820584 AAAAATAATG
*
19820594 AAAAAAATCAAAAAT
1 AAAAAAATAAAAAAT
19820609 CAAAAAAATAAAAAAT
1 -AAAAAAATAAAAAAT
19820625 AAAAA
1 AAAAA
19820630 TTCTCACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:19821199 original size:18 final size:19
Alignment explanation
Indices: 19821159--19821199 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
19821149 GTTTAAAAGA
19821159 ATCTCAAGATTTTGAATAT
1 ATCTCAAGATTTTGAATAT
* *
19821178 -TCTCAATATTTT-AATTT
1 ATCTCAAGATTTTGAATAT
19821195 ATCTC
1 ATCTC
19821200 TTGATCTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
ATCTCAAGATTTTGAATAT
Found at i:19827357 original size:100 final size:100
Alignment explanation
Indices: 19827174--19828343 Score: 951
Period size: 100 Copynumber: 11.7 Consensus size: 100
19827164 ATCTTATACT
** * * * * *
19827174 TGTAG-GGGGCAGATTGAAGTTGTGAAGGCGACTCTTATACCACAAAAGCTGTAGAGGGGTAGAT
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
* * * *
19827238 TGATGTTGCAAAAGTGAATCTTATACCTCTAAAGT
66 TGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * *
19827273 TGTAGAGGGGTAGATTGAAGCCGCGAAGGCAAATCTTATACCTCTAAAGTTGTAGAGGGGCAAAT
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
* * *
19827338 TAAAGCTGCAAAAGTGAATCATATACCCTTAAAGC
66 TGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * ** * * *
19827373 TGTAGAGGGGCATATTGAAGCCGTGAAGGTAAATTTTATACCTCTAAAGCTATAGAGAGGCA-AC
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGA-
* ** *
19827437 TTGAAGCCGTGAAGGTGAATCTTATACCCCTAAAGC
65 TTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* ** * *
19827473 TGTAGAGGGGAAGATTGAAGCCGCGAAGGAAAATCTTATACCTATAAAGCTATAGAGGGGCAGAT
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
* ** * * **
19827538 TGAAGCCGTGAAAGCGAATCTTATACCTCTAAAAT
66 TGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * **
19827573 TGTAGAAGGGCAGATTAAAGCCGCGAAGGTGAATCTTATACC-CGTAAAGCTAAAGAGGGGCAGA
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTC-TAAAGCTGTAGAGGGGCAGA
* * *
19827637 TTGAAGATGTAAAAGTGAATCTTATACCCCTAAAAC
65 TTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * * * * *
19827673 TATAGAGGGGCAGTTTAAAGCCGCAAAGGTGAATCTTATATCC-CTAAAGCTGTAGAGAGGTAGA
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATA-CCTCTAAAGCTGTAGAGGGGCAGA
* * * *
19827737 TTGAAGCTAC-GAAGTGAATCTTATACCTCTAAAAC
65 TTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * * * * *
19827772 TGTAGAGGGGCAGATTAAAGCCGC-AGAGGCGAATCTTATACTTCTGAAGTTGAAGAAGGGTAGA
1 TGTAGAGGGGCAGATTGAAGCCGCGA-AGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGA
* *
19827836 TTGAAGCTGAAAAAGTGAATCCTATACCCCTAAAGC
65 TTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * * * * * * * *
19827872 TGTAGAGGGGTAGATTGAAGCCGCAAAGGAGAATCTTATACCCCTAAAGTTATAAAGAGGCAAAA
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
* *
19827937 TGAAG-TCGCAAAGGCGAATCTTATACCCCTAAAGC
66 TGAAGCT-GCAAAAGTGAATCTTATACCCCTAAAGC
* * * * *
19827972 TGTAGAGGGGCAGAATAAAGCTGCGAAGGCGAATCTTATACC-CTTAAAGTTTGTA-AAGGGCAG
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTC-TAAAG-CTGTAGAGGGGCAG
* *** * * * *
19828035 ATTGAAGCTACAAAAACAAATTTTACACCCCTACAGT
64 ATTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * ** * * * * * *
19828072 TGTAGAGAGGCAAAATGAAGTTGCAAAAGCGAATCTTATACCCCTAAAGTTATAGAGGGGCAAAT
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
* * * * * * *
19828137 TAAAGCCGCGAAGGCGAATTTTATACCTCTAAAGC
66 TGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * * ** * * * *
19828172 TGTAGAGGGGTAGATT-ATAGCTGTAGAA-GAAAATATTATACCCCTAAAGCTGTAGAAGGGTAG
1 TGTAGAGGGGCAGATTGA-AGCCG-CGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAG
* * * *
19828235 ATTAAAGCTGCAAAAGTGAATCTTATATCCTTAAATC
64 ATTGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
* * ** * * * * * *
19828272 TATAGAGGGGCAGATTTAAGCTACAAAAGCTAATCTTATACC-CTTAAAACTGTAGAGGTGTAGA
1 TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTC-TAAAGCTGTAGAGGGGCAGA
19828336 TTGAAGCT
65 TTGAAGCT
19828344 ATAGAAAGCA
Statistics
Matches: 872, Mismatches: 179, Indels: 39
0.80 0.16 0.04
Matches are distributed among these distances:
98 2 0.00
99 98 0.11
100 758 0.87
101 14 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (100 bp):
TGTAGAGGGGCAGATTGAAGCCGCGAAGGCGAATCTTATACCTCTAAAGCTGTAGAGGGGCAGAT
TGAAGCTGCAAAAGTGAATCTTATACCCCTAAAGC
Found at i:19828343 original size:50 final size:50
Alignment explanation
Indices: 19827174--19828361 Score: 858
Period size: 50 Copynumber: 23.8 Consensus size: 50
19827164 ATCTTATACT
* ** * * * *
19827174 TGTAG-GGGGCAGATTGAAGTTGTGAAGGCGACTCTTATACCACAAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * *
19827223 TGTAGAGGGGTAGATTGATGTTGCAAAAGTGAATCTTATACCTCTAAAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * *
19827273 TGTAGAGGGGTAGATTGAAGCCGCGAAGGCAAATCTTATACCTCTAAAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * *
19827323 TGTAGAGGGGCAAATTAAAGCTGCAAAAGTGAATCATATACCCTTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * ** * ** * *
19827373 TGTAGAGGGGCATATTGAAGCCGTGAAGGTAAATTTTATACCTCTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * ** * *
19827423 TATAGAGAGGCA-ACTTGAAGCCGTGAAGGTGAATCTTATACCCCTAAAGC
1 TGTAGAGGGGCAGA-TTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * ** **
19827473 TGTAGAGGGGAAGATTGAAGCCGCGAAGGAAAATCTTATACCTATAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * ** * **
19827523 TATAGAGGGGCAGATTGAAGCCGTGAAAGCGAATCTTATACCTCTAAAAT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * *
19827573 TGTAGAAGGGCAGATTAAAGCCGCGAAGGTGAATCTTATACCCGTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
** * * * *
19827623 TAAAGAGGGGCAGATTGAAGATGTAAAAGTGAATCTTATACCCCTAAAAC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * *
19827673 TATAGAGGGGCAGTTTAAAGCCGCAAAGGTGAATCTTATATCCCTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * *
19827723 TGTAGAGAGGTAGATTGAAGCTAC-GAAGTGAATCTTATACCTCTAAAAC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * ** * *
19827772 TGTAGAGGGGCAGATTAAAGCCGCAGAGGCGAATCTTATACTTCTGAAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * *
19827822 TGAAGAAGGGTAGATTGAAGCTGAAAAAGTGAATCCTATACCCCTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * *
19827872 TGTAGAGGGGTAGATTGAAGCCGCAAAGGAGAATCTTATACCCCTAAAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * *
19827922 TATAAAGAGGCAAAATGAAG-TCGCAAAGGCGAATCTTATACCCCTAAAGC
1 TGTAGAGGGGCAGATTGAAGCT-GCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * *
19827972 TGTAGAGGGGCAGAATAAAGCTGCGAAGGCGAATCTTATACCCTTAAAGTT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAG-C
* * * * * * * *
19828023 TGTA-AAGGGCAGATTGAAGCTACAAAAACAAATTTTACACCCCTACAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * *
19828072 TGTAGAGAGGCAAAATGAAGTTGCAAAAGCGAATCTTATACCCCTAAAGT
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * * *
19828122 TATAGAGGGGCAAATTAAAGCCGCGAAGGCGAATTTTATACCTCTAAAGC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * ** *
19828172 TGTAGAGGGGTAGATT-ATAGCTGTAGAAGAAAATATTATACCCCTAAAGC
1 TGTAGAGGGGCAGATTGA-AGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * * *
19828222 TGTAGAAGGGTAGATTAAAGCTGCAAAAGTGAATCTTATATCCTTAAATC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * * * * *
19828272 TATAGAGGGGCAGATTTAAGCTACAAAAGCTAATCTTATACCCTTAAAAC
1 TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
* * ** *
19828322 TGTAGAGGTGTAGATTGAAGCTATAGAAAGCAAATCTTAT
1 TGTAGAGGGGCAGATTGAAGCTGCA-AAAGCGAATCTTAT
19828362 CTTCCTGAAG
Statistics
Matches: 904, Mismatches: 224, Indels: 20
0.79 0.20 0.02
Matches are distributed among these distances:
49 51 0.06
50 833 0.92
51 20 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (50 bp):
TGTAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC
Found at i:19829154 original size:24 final size:24
Alignment explanation
Indices: 19829125--19829186 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
19829115 GGAGTTTGTT
*
19829125 TTTATTAT-TATTTATATTTACTTG
1 TTTATTATGTATTTA-ATTTACTTA
* *
19829149 TTTATTTTGTATTTAATTTATTTA
1 TTTATTATGTATTTAATTTACTTA
19829173 TTTATT-TGTCATTT
1 TTTATTATGT-ATTT
19829187 TTAATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 24 0.73
25 6 0.18
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTATTATGTATTTAATTTACTTA
Found at i:19829195 original size:30 final size:30
Alignment explanation
Indices: 19829152--19829219 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
19829142 TTACTTGTTT
* * *
19829152 ATTTTGTATTTAATTTATTTATTTATTTGTC
1 ATTTT-TAATTAATTAATTAATTTATTTGTC
19829183 ATTTTTAATTAATTAATTAATTTATTTGTC
1 ATTTTTAATTAATTAATTAATTTATTTGTC
19829213 ATTTTTA
1 ATTTTTA
19829220 TGCCTAATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (30 bp):
ATTTTTAATTAATTAATTAATTTATTTGTC
Done.