Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 292 of 325
Found at i:89729572 original size:20 final size:18
Alignment explanation
Indices: 89729547--89729598 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
89729537 ATAAAGTAAA
89729547 ATTGTTTTAAGAATTTATGT
1 ATTGTTTT--GAATTTATGT
*
89729567 ATTGTTTTGATTTTATGT
1 ATTGTTTTGAATTTATGT
*
89729585 ATTATTTTGCAATT
1 ATTGTTTTG-AATT
89729599 ATTTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 17 0.61
19 3 0.11
20 8 0.29
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (18 bp):
ATTGTTTTGAATTTATGT
Found at i:89729894 original size:21 final size:20
Alignment explanation
Indices: 89729865--89729903 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89729855 AAACTAAAAG
*
89729865 TGTGAAAGAATATTCTATGCT
1 TGTGAAAGAACATT-TATGCT
*
89729886 TGTGGAAGAACATTTATG
1 TGTGAAAGAACATTTATG
89729904 TTATATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (20 bp):
TGTGAAAGAACATTTATGCT
Found at i:89731472 original size:17 final size:18
Alignment explanation
Indices: 89731450--89731488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
89731440 ATTTAGGCCG
89731450 TGTGGG-CCAAATGGGCA
1 TGTGGGCCCAAATGGGCA
* *
89731467 TGTGGGCCCACATGGGCG
1 TGTGGGCCCAAATGGGCA
89731485 TGTG
1 TGTG
89731489 AAATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.21, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCCAAATGGGCA
Found at i:89731933 original size:55 final size:55
Alignment explanation
Indices: 89731866--89731977 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 55
89731856 TCTTAAGCCT
* * * *
89731866 ATTATCTAGCAGCTCAGATACAAATTTTTGTTTATGTACCGTGTTTCGGTACAGC
1 ATTATCTAGCAGCTCAGATACAAATTTCTATTTATGTACCGCGTTTCGATACAGC
* * ** *
89731921 ATTATCTGGCAGCTCAGCTGTAAATTTCTATTTATGTGCCGCGTTTCGATACAGC
1 ATTATCTAGCAGCTCAGATACAAATTTCTATTTATGTACCGCGTTTCGATACAGC
89731976 AT
1 AT
89731978 GATATGTAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (55 bp):
ATTATCTAGCAGCTCAGATACAAATTTCTATTTATGTACCGCGTTTCGATACAGC
Found at i:89748813 original size:21 final size:21
Alignment explanation
Indices: 89748779--89748818 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89748769 AAAAGAAAGT
*
89748779 ACAGGGACTCAATT-AAACGA
1 ACAGGGACTAAATTGAAACGA
89748799 ACAGGAGACTAAATTGAAAC
1 ACAGG-GACTAAATTGAAAC
89748819 TACAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (21 bp):
ACAGGGACTAAATTGAAACGA
Found at i:89754601 original size:50 final size:50
Alignment explanation
Indices: 89754524--89754800 Score: 428
Period size: 50 Copynumber: 5.5 Consensus size: 50
89754514 CCATGGCAAC
*
89754524 AAGTGATAAGTGATAGCTTCGGGTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
89754574 AAGTGATAAGTAATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
89754624 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
89754674 AAGTGATAAGTAATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
89754724 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
89754774 CAAGTGAAAAGTGGTAGCTCCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
89754801 CTGATCAGTG
Statistics
Matches: 206, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
50 183 0.89
51 23 0.11
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:89754697 original size:100 final size:100
Alignment explanation
Indices: 89754524--89754800 Score: 473
Period size: 100 Copynumber: 2.8 Consensus size: 100
89754514 CCATGGCAAC
*
89754524 AAGTGATAAGTGATAGCTTCGGGTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
89754589 GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
66 GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
*
89754624 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
89754689 GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
66 GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
* * * **
89754724 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAACAAGTGAAAAGTGGT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA-AAGTGATAAGTAAT
*
89754789 AGCTCCGGCTAC
65 AGCTTCGGCTAC
89754801 CTGATCAGTG
Statistics
Matches: 167, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 145 0.87
101 22 0.13
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (100 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
Found at i:89754814 original size:31 final size:31
Alignment explanation
Indices: 89754776--89754924 Score: 262
Period size: 31 Copynumber: 4.8 Consensus size: 31
89754766 ACAAATAACA
89754776 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
89754807 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
89754838 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
89754869 AGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
89754900 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
89754925 AAGTGACAAG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 112 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:89755051 original size:49 final size:48
Alignment explanation
Indices: 89754946--89755109 Score: 209
Period size: 49 Copynumber: 3.6 Consensus size: 48
89754936 GATTTCCGTA
* * * *
89754946 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
89754992 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATT-CGTG
* *
89755041 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
89755083 TAAGACCATAGCTGGGCTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
89755110 TTATCTGAAG
Statistics
Matches: 108, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
42 29 0.27
44 1 0.01
45 1 0.01
46 25 0.23
47 1 0.01
48 14 0.13
49 37 0.34
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
Found at i:89755084 original size:42 final size:43
Alignment explanation
Indices: 89754989--89755152 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 43
89754979 TATGTGATTC
* *
89754989 GTGTAAGACCATAGCTGGGCTATGGCATCAATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATC--GAT-T-ATATGAAGA-T
*
89755036 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
89755080 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATCTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
89755122 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
89755153 GAAAATGAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.62
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.28
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:89757378 original size:2 final size:2
Alignment explanation
Indices: 89757371--89757402 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89757361 AATGGGACCC
*
89757371 CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
89757403 GTCTGTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:89758717 original size:2 final size:2
Alignment explanation
Indices: 89758710--89758739 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89758700 GATCAACCCT
89758710 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
89758740 AAAAGCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:89761143 original size:22 final size:20
Alignment explanation
Indices: 89761093--89761145 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
89761083 AAAAATTGTA
*
89761093 AAATTTTATAAAATATATAG
1 AAATTTTAGAAAATATATAG
* *
89761113 AAA-TATAGAAATATATATAT
1 AAATTTTAGAAA-ATATATAG
89761133 ATAATTTTAGAAA
1 A-AATTTTAGAAA
89761146 GTCGTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.23
20 11 0.42
21 2 0.08
22 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATTTTAGAAAATATATAG
Found at i:89761330 original size:10 final size:10
Alignment explanation
Indices: 89761317--89761386 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 10
89761307 TTTTGATGCA
89761317 TTTTATAATT
1 TTTTATAATT
*
89761327 TTTTATGA-T
1 TTTTATAATT
**
89761336 TTTTATAAAA
1 TTTTATAATT
*
89761346 TTTTACAATT
1 TTTTATAATT
*
89761356 TTTTATAA-A
1 TTTTATAATT
*
89761365 TTTTA-ATTT
1 TTTTATAATT
89761374 TTTTAT-ATT
1 TTTTATAATT
89761383 TTTT
1 TTTT
89761387 CTTTCTAATT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
8 1 0.02
9 24 0.52
10 21 0.46
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:89761376 original size:19 final size:20
Alignment explanation
Indices: 89761335--89761380 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
89761325 TTTTTTATGA
89761335 TTTTTATAAAATTTTACAAT
1 TTTTTATAAAATTTTACAAT
*
89761355 TTTTTAT-AAATTTTA-ATT
1 TTTTTATAAAATTTTACAAT
89761373 TTTTTATA
1 TTTTTATA
89761381 TTTTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 8 0.33
20 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATAAAATTTTACAAT
Found at i:89761651 original size:98 final size:95
Alignment explanation
Indices: 89761516--89761695 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 95
89761506 AAAAAAAAGT
* * * * *
89761516 TTAATTGTTTTTTTTTGAAAAATTTTGAGAGTCTTTTTGATATATTTTGACAA-TTTAAGTACCT
1 TTAATTGTTTTTTTTTAAAAAAATTTGAGAGTCTTTTTGATACATTTTGA-AAGTTCAAGTACCC
*
89761580 ATTTGAATGCAAAAAAAAAAAAAATAGGGGC
65 AATTGAATGCAAAAAAAAAAAAAATAGGGGC
*
89761611 TTAATTGCTTTTTTTTTAAAAAAAAATTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTAC
1 TTAATTG-TTTTTTTTT--AAAAAAATTTGAGAGTCTTTTTGATACATTTTGAAAGTTCAAGTAC
89761676 CCAATTGAATGCAAAAAAAA
63 CCAATTGAATGCAAAAAAAA
89761696 GGGACTTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 7 0.09
96 9 0.12
97 2 0.03
98 56 0.76
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (95 bp):
TTAATTGTTTTTTTTTAAAAAAATTTGAGAGTCTTTTTGATACATTTTGAAAGTTCAAGTACCCA
ATTGAATGCAAAAAAAAAAAAAATAGGGGC
Found at i:89768459 original size:43 final size:43
Alignment explanation
Indices: 89768412--89768575 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
89768402 TCTGATATGT
*
89768412 GATTTCGTGTAAGACCACGTCTGGGACATTGGCATC-AATTTGA
1 GATTTCGTGTAAGACCACGTCTGGAACATTGGCATCGAATTT-A
* * * * *
89768455 GATTTAAGTGTAAGACCATGTCAGGAACATCGGCATCGTATTTA
1 GATTT-CGTGTAAGACCACGTCTGGAACATTGGCATCGAATTTA
* * *
89768499 -ATTTCGTGTAAGACC-CTGTCTGGAAAAGTGGCATCGATACTT-
1 GATTTCGTGTAAGACCAC-GTCTGGAACATTGGCATCGA-ATTTA
* * * * *
89768541 GATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGAACATTGGCAT
89768576 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
42 25 0.27
43 37 0.39
44 28 0.30
45 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGAACATTGGCATCGAATTTA
Found at i:89768532 original size:42 final size:43
Alignment explanation
Indices: 89768412--89768535 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 43
89768402 TCTGATATGT
*
89768412 GATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC-AATTTGA
1 GATTTCGTGTAAGACC-CTGTCTGGAACA-TGGCATCGAATTTGA
* * * *
89768455 GATTTAAGTGTAAGACCATGTCAGGAACATCGGCATCGTATTT-A
1 GATTT-CGTGTAAGACCCTGTCTGGAACAT-GGCATCGAATTTGA
*
89768499 -ATTTCGTGTAAGACCCTGTCTGGAAAAGTGGCATCGA
1 GATTTCGTGTAAGACCCTGTCTGGAACA-TGGCATCGA
89768536 TACTTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 26 0.39
43 11 0.17
44 25 0.38
45 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
GATTTCGTGTAAGACCCTGTCTGGAACATGGCATCGAATTTGA
Found at i:89776006 original size:44 final size:43
Alignment explanation
Indices: 89775929--89776011 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
89775919 TTTGATATGT
*
89775929 GATTTCGTGTAAGACCACATTTGGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACCACATTTAGGACGTTGGCATCGATTTGA
*
89775972 GATTTACGTGTAAGACC-CTGTTTAGGACAG-TGGCATCGAT
1 GATTT-CGTGTAAGACCAC-ATTTAGGAC-GTTGGCATCGAT
89776012 ACTTGATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.17
44 28 0.80
45 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACATTTAGGACGTTGGCATCGATTTGA
Found at i:89778226 original size:23 final size:23
Alignment explanation
Indices: 89778200--89778251 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
89778190 TGATTTTTAA
* *
89778200 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAAATATTTAATGATAAT
89778223 ATTTAGAAATATTTAATGATAAT
1 ATTTAGAAATATTTAATGATAAT
89778246 ATTTAG
1 ATTTAG
89778252 GAAAAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (23 bp):
ATTTAGAAATATTTAATGATAAT
Found at i:89778227 original size:13 final size:13
Alignment explanation
Indices: 89778209--89778251 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
89778199 AATTTAGAAT
89778209 TATTTAGTGATAA
1 TATTTAGTGATAA
89778222 TATTTA--GA-AA
1 TATTTAGTGATAA
*
89778232 TATTTAATGATAA
1 TATTTAGTGATAA
89778245 TATTTAG
1 TATTTAG
89778252 GAAAAACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 2 0.08
13 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:89780077 original size:11 final size:11
Alignment explanation
Indices: 89780061--89780088 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
89780051 GCAATACAAG
89780061 AAGTTGTGCGC
1 AAGTTGTGCGC
89780072 AAGTTGTGCGC
1 AAGTTGTGCGC
89780083 AAGTTG
1 AAGTTG
89780089 CCCACAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (11 bp):
AAGTTGTGCGC
Found at i:89783051 original size:14 final size:12
Alignment explanation
Indices: 89783029--89783067 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
89783019 ACGTTTGAAA
89783029 AAAATAAAAAAAT
1 AAAA-AAAAAAAT
89783042 AAAACAAAAAAAT
1 AAAA-AAAAAAAT
89783055 AAAAATAAAAAAT
1 AAAAA-AAAAAAT
89783068 GTATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 1 0.04
13 23 0.96
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:89783681 original size:13 final size:13
Alignment explanation
Indices: 89783663--89783718 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
89783653 AATTTAGAAT
*
89783663 TATTTAATGATAA
1 TATTTAATAATAA
*
89783676 TATTTAGTAATAA
1 TATTTAATAATAA
*
89783689 TATTT-AGAAT--
1 TATTTAATAATAA
*
89783699 TATTTAGTAATAA
1 TATTTAATAATAA
89783712 TATTTAA
1 TATTTAA
89783719 GAAAAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 3 0.09
13 22 0.67
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTTAATAATAA
Found at i:89794269 original size:49 final size:49
Alignment explanation
Indices: 89794197--89794295 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
89794187 GATGAAGTTT
89794197 TGTAACGCCCCAATTTTCGGGAATCCTGTGAATGTTGGAATAGGTTTAA
1 TGTAACGCCCCAATTTTCGGGAATCCTGTGAATGTTGGAATAGGTTTAA
* * * *
89794246 TGTAACGCCCCAATTTTCGGGAATTCTTTGAATGTTGGCATATGTTTAA
1 TGTAACGCCCCAATTTTCGGGAATCCTGTGAATGTTGGAATAGGTTTAA
89794295 T
1 T
89794296 TATGTTAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (49 bp):
TGTAACGCCCCAATTTTCGGGAATCCTGTGAATGTTGGAATAGGTTTAA
Found at i:89794632 original size:25 final size:25
Alignment explanation
Indices: 89794577--89794685 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 25
89794567 TAATACAAAT
89794577 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
89794603 TGATAATGGATTAGGTAAA-ATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
89794628 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
89794654 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTCCA
89794680 TGATAA
1 TGATAA
89794686 GAAATTCATG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
25 25 0.33
26 51 0.67
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:89796708 original size:136 final size:136
Alignment explanation
Indices: 89796459--89796732 Score: 514
Period size: 136 Copynumber: 2.0 Consensus size: 136
89796449 GAGTAGTCTC
89796459 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
89796524 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
*
89796589 CTGTTA
131 CTATTA
*
89796595 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
89796659 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
89796724 ACTATTA
130 ACTATTA
89796731 CC
1 CC
89796733 TGAATAGGCT
Statistics
Matches: 135, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 57 0.42
136 78 0.58
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTATTA
Found at i:89798155 original size:3 final size:3
Alignment explanation
Indices: 89798140--89798212 Score: 116
Period size: 3 Copynumber: 25.0 Consensus size: 3
89798130 TTATTTTCAA
89798140 TAT TAT TGA- TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89798183 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89798213 GTGCTTTTGT
Statistics
Matches: 66, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 5 0.08
3 60 0.91
4 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89803039 original size:1 final size:1
Alignment explanation
Indices: 89802986--89803024 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
89802976 GACAGTCATG
* * *
89802986 AAAAAAGAAAAAAAAAAAAAAAAAACAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89803025 GGGACAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.03, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:89805370 original size:75 final size:73
Alignment explanation
Indices: 89805216--89805501 Score: 337
Period size: 72 Copynumber: 3.8 Consensus size: 73
89805206 ATTCTGATGC
* * * *
89805216 TTTT-ATTTCTGT-TTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTCTGTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
89805279 TGAGGT-A
66 TGAGGTAA
*
89805286 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTG-TCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
89805351 CGCTGAGGTAA
63 CGCTGAGGTAA
* *
89805362 TTTTAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCTGTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
89805426 TGAGGTAA
66 TGAGGTAA
*
89805434 TTTCAATTTCTGTTTTCTTCAATTTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTAATTTCTG---TCTTC-A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
89805499 CTC
54 CTC
89805502 GTCTCACATG
Statistics
Matches: 187, Mismatches: 10, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
70 4 0.02
72 71 0.38
73 1 0.01
74 7 0.04
75 61 0.33
76 5 0.03
85 38 0.20
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTAATTTCTGTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:89805415 original size:72 final size:72
Alignment explanation
Indices: 89805216--89805450 Score: 341
Period size: 72 Copynumber: 3.2 Consensus size: 72
89805206 ATTCTGATGC
* * *
89805216 TTTT-ATTTCTG-TTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTCTGTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
89805279 TGAGGT-A
65 TGAGGTAA
* *
89805286 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
89805351 CGCTGAGGTAA
62 CGCTGAGGTAA
*
89805362 TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
1 TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
89805427 GAGGTAA
66 GAGGTAA
*
89805434 TTTCAATTTCTGTTTTC
1 TTTTAATTTCTGTTTTC
89805451 TTCAATTTTT
Statistics
Matches: 149, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
70 4 0.03
72 76 0.51
74 7 0.05
75 52 0.35
76 10 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (72 bp):
TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAA
Found at i:89805539 original size:14 final size:14
Alignment explanation
Indices: 89805520--89805554 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
89805510 TGCTGAGGTC
89805520 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
89805534 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
89805548 CTTTCAA
1 TTTTCAA
89805555 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:89805586 original size:91 final size:87
Alignment explanation
Indices: 89805362--89805701 Score: 361
Period size: 77 Copynumber: 4.0 Consensus size: 87
89805352 GCTGAGGTAA
*
89805362 TTTT-AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
89805426 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
*
89805448 TTCTTCAA-TT-T-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTCTCAC
1 TT-TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---CAC
**
89805509 ATGCTGAGGTCTTTTCAATTTCTG-T
62 ATGCTGAGGTAATTTCAATTTCTGTT
*
89805534 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
* * *
89805599 CGCTGAGGAAATTTCAATTTATG-T
63 TGCTGAGGTAATTTCAATTTCTGTT
* ** * ** *
89805623 TTGTC-A---C-----AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
*
89805679 TGAGGTATTTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
89805701 T
1 T
89805702 GTCAAGAATC
Statistics
Matches: 222, Mismatches: 19, Indels: 34
0.81 0.07 0.12
Matches are distributed among these distances:
77 62 0.28
78 2 0.01
84 1 0.00
85 48 0.22
86 8 0.04
87 29 0.13
88 4 0.02
89 29 0.13
91 38 0.17
92 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
TGAGGTAATTTCAATTTCTGTT
Found at i:89805661 original size:77 final size:75
Alignment explanation
Indices: 89805535--89805737 Score: 286
Period size: 77 Copynumber: 2.7 Consensus size: 75
89805525 AATTTCTGTT
*
89805535 TTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
89805599 CGCTGAGGAAA
65 CGCTGAGGAAA
* *
89805610 TTTCAATTTATGTTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGC
1 TTTCAATTTATGTTTGT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
89805675 ACGCTGAGGTAT
64 ACGCTGAGGAAA
* * *
89805687 TTTCAATTTCTGTTTGTC--AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
89805738 ACCTTTTAAT
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
73 30 0.26
74 2 0.02
75 14 0.12
77 70 0.60
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (75 bp):
TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGAAA
Found at i:89805773 original size:54 final size:55
Alignment explanation
Indices: 89805686--89805791 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 55
89805676 CGCTGAGGTA
* *
89805686 TTTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
1 TTTTCAATTTCTCTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
* *
89805741 TTTT-AATTTCTACTTTTTCAA-AATCAGCTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCT-CTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
89805792 GCCTCGGGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 35 0.76
55 11 0.24
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (55 bp):
TTTTCAATTTCTCTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:89806022 original size:73 final size:73
Alignment explanation
Indices: 89805901--89806220 Score: 372
Period size: 73 Copynumber: 4.2 Consensus size: 73
89805891 CAATTAAGCC
** *
89805901 TTTCAATTTCTGTCTT-TCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCAC
1 TTTCAATTTCTGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
89805965 GCTGAGGTAT
64 GCTGAGGTAT
* *
89805975 TTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
89806040 TGAGGTAT
66 TGAGGTAT
* *
89806048 TTTCAATTTCTGTTTTAATTTCCATGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
1 TTTCAATTTCTG-------TT---TG--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
89806113 CTCAGGTCACGATGAGGTAT
54 CTCAGGGCACGCTGAGGTAT
* * * * *
89806133 TTTTAATTTCCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
89806198 TGAGGTAA
66 TGAGGTAT
89806206 TTTCAATTTCTGTTT
1 TTTCAATTTCTGTTT
89806221 TCTCCAATTT
Statistics
Matches: 212, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
73 128 0.60
74 14 0.07
75 1 0.00
78 2 0.01
80 2 0.01
83 2 0.01
85 63 0.30
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTAT
Found at i:89806132 original size:158 final size:157
Alignment explanation
Indices: 89805741--89806311 Score: 689
Period size: 158 Copynumber: 3.6 Consensus size: 157
89805731 GGGTTGAACC
* * *
89805741 TTTTAATTTCTACTTTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTA-TGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACG
* * ** *
89805805 CTGAGGTATTTTCAATTTTTGTGTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTC
65 CTGAGGTATTTTCAATTTCTGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
89805869 AGGTCACACGCCGAGGTATTTTCAATTAAGC-C
129 AGG--ACACGCTGAGGTATTTTCAATT--TCTG
* * * * * *
89805901 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTATGTTTC-AAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACG
*
89805966 CTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 CTGAGGTATTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
89806031 AGGGCACGTTGAGGTATTTTCAATTTCTG
129 AGGACACGCTGAGGTATTTTCAATTTCTG
* * * * *
89806060 TTTTAATTTCCATGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGA
1 TTTTAATTTCTATGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGC
* *
89806125 TGAGGTATTTTTAATTTCCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TGAGGTATTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
89806190 GGACATGCTGAGGTAATTTCAATTTCTG
130 GGACACGCTGAGGTATTTTCAATTTCTG
* * * *
89806218 TTTTCTCCAATTTATGTTTTTCAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
1 -TTT-T--AATTTCTATGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
* *
89806283 ACGCTGAGGTATTTTCGATTTCTGCTTTC
62 ACGCTGAGGTATTTTCAATTTCTGTTTTC
89806312 CAATTTCTGC
Statistics
Matches: 353, Mismatches: 48, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
158 123 0.35
159 25 0.07
160 32 0.09
161 67 0.19
162 106 0.30
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (157 bp):
TTTTAATTTCTATGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTATTTTCAATTTCTG
Found at i:89806289 original size:89 final size:88
Alignment explanation
Indices: 89806144--89806721 Score: 523
Period size: 89 Copynumber: 6.5 Consensus size: 88
89806134 TTTAATTTCC
*
89806144 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
89806209 CAA-TTTCTGTTTTCTCCAATTTAT
66 CAACTTTCTG-TTT-TCCAATTTAT
* * * * *
89806233 GTTTTTCAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
* * *
89806298 CGA-TTTCTGCTTTCCAATTTCT
66 CAACTTTCTGTTTTCCAATTTAT
* * * * *
89806320 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCA--CTGAGGTATT
1 GTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* *
89806383 TTCAACTTT-TGCTTTCCAATTTCT
64 TTCAACTTTCTGTTTTCCAATTTAT
** ** * *
89806407 GCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-
1 GTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
**
89806471 ATTGTCAACTTTC-G-TTTCTTGATTTAT
62 ATT-TCAACTTTCTGTTTTC-CAATTTAT
* * * *
89806498 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGT-ATT
1 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
89806562 GTCAACTTTC-G-TTTCTTAATTTAT
65 -TCAACTTTCTGTTTTC-CAATTTAT
* * * * * * * *
89806586 GTTTTTCCAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTTAGGATCACACGCCGAGGTAT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAA
** *
89806651 TTTCAA-TTAATGTTTTTTCAATTTAT
63 TTTCAACTTTCTG-TTTTCCAATTTAT
** * *
89806677 ACTTTTCAAGAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
89806722 GAGTCACATG
Statistics
Matches: 415, Mismatches: 56, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
87 88 0.21
88 83 0.20
89 149 0.36
90 22 0.05
91 69 0.17
92 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (88 bp):
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
CAACTTTCTGTTTTCCAATTTAT
Found at i:89808333 original size:3 final size:3
Alignment explanation
Indices: 89808318--89808422 Score: 185
Period size: 3 Copynumber: 35.0 Consensus size: 3
89808308 GTTATTTTCA
89808318 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
89808363 TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89808411 TAT TAT TAT TAT
1 TAT TAT TAT TAT
89808423 GTGCTTTTGT
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 1 0.01
3 96 0.98
4 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:89809065 original size:22 final size:23
Alignment explanation
Indices: 89809003--89809066 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
89808993 ATTATATGTG
* *
89809003 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
89809027 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
89809050 TATATATTATGAATATG
1 TATATATTATGAATATG
89809067 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:89812102 original size:15 final size:14
Alignment explanation
Indices: 89812064--89812105 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
89812054 ATAATTAATT
*
89812064 TTTAATTAAATAAA
1 TTTAATTAATTAAA
89812078 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
89812092 TGTTGATTAATTAA
1 T-TTAATTAATTAA
89812106 GTCAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:89815382 original size:21 final size:21
Alignment explanation
Indices: 89815353--89815417 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
89815343 GTAACTATAT
*
89815353 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
89815374 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
* * *
89815395 TAGTCAGTTGGTAATCTGTTA
1 TAGTCAGTTAGTATTTTGTTA
89815416 TA
1 TA
89815418 AAGCATACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:89820903 original size:40 final size:40
Alignment explanation
Indices: 89820795--89821004 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
89820785 CGGGATTTAA
* * * * *
89820795 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89820835 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89820875 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89820915 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89820955 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89820995 CCGGATATAT
1 CCGGATATAT
89821005 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89822876 original size:40 final size:40
Alignment explanation
Indices: 89822821--89823030 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
89822811 AACATTGGAA
89822821 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89822861 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
89822901 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
89822941 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
89822980 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
89823021 CTATATCCGG
1 ATATATCCGG
89823031 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:89830276 original size:17 final size:18
Alignment explanation
Indices: 89830234--89830282 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
89830224 AGTTGAAAAG
89830234 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
89830253 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
89830270 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
89830283 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:89831168 original size:40 final size:39
Alignment explanation
Indices: 89831102--89831267 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 39
89831092 AAATTGAATG
* * *
89831102 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
89831141 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
89831180 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
89831220 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
89831260 ATATCCGG
1 ATATCCGG
89831268 TTATATTCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 43 0.41
40 57 0.54
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:89838353 original size:40 final size:40
Alignment explanation
Indices: 89838287--89838437 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
89838277 AAATTGAATG
* * *
89838287 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
89838326 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
89838366 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
89838406 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
89838438 ACTTGATTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:89838451 original size:40 final size:40
Alignment explanation
Indices: 89838323--89838453 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
89838313 TATGCTGGAA
* * * *
89838323 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
* *
89838363 GTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
89838403 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
89838443 ATTATATCCGG
1 ATTATATCCGG
89838454 TTATATTCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:89840744 original size:21 final size:21
Alignment explanation
Indices: 89840718--89840757 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89840708 TTTATATTAT
89840718 TAAAATGGTAATAAAATAAAA
1 TAAAATGGTAATAAAATAAAA
**
89840739 TAAAATTTTAATAAAATAA
1 TAAAATGGTAATAAAATAA
89840758 TTTATAAAAA
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:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAATGGTAATAAAATAAAA
Found at i:89846165 original size:74 final size:70
Alignment explanation
Indices: 89846030--89846231 Score: 246
Period size: 69 Copynumber: 2.8 Consensus size: 70
89846020 TCCTCATTGA
*** * * **
89846030 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAG
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACTCAG
89846094 TATGGATTTGAT
64 TAT-G----GAT
*
89846106 AATACCATACCTACATTTCACAGCTCAGTATGGATAATA-CATACCTACATTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTA
89846170 TGGAT
66 TGGAT
*
89846175 AATACCATACCTACATTTCACAACTCAGTATGGATGATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACA
89846232 CTTTGCCATG
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
69 40 0.35
70 17 0.15
73 1 0.01
74 27 0.24
75 14 0.12
76 15 0.13
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTA
TGGAT
Found at i:89846243 original size:35 final size:35
Alignment explanation
Indices: 89846030--89846231 Score: 246
Period size: 35 Copynumber: 5.6 Consensus size: 35
89846020 TCCTCATTGA
*** *
89846030 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
89846066 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
89846106 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
89846141 AATA-CATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
89846175 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
89846210 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
89846232 CTTTGCCATG
Statistics
Matches: 151, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
34 33 0.22
35 74 0.49
36 14 0.09
39 3 0.02
40 27 0.18
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:89856539 original size:35 final size:35
Alignment explanation
Indices: 89856347--89856527 Score: 247
Period size: 35 Copynumber: 5.0 Consensus size: 35
89856337 ACATTTTTTT
* * **
89856347 AACTCGGTATGGGA-AATGCCATACCTACATTTCTT
1 AACTCAGTAT-GGATAATACCATACCTACATTTCAC
89856382 AACTCAGTATGGATTTGATAATACCATACCTACATTTCAC
1 AACTCAGTAT-G----GATAATACCATACCTACATTTCAC
*
89856422 AGCTCAGTATGGATAATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
89856457 AACTCAGTATGGATAATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
*
89856492 AACTCAGTATGGATGATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
89856527 A
1 A
89856528 CTTTGCCATG
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
35 104 0.78
39 3 0.02
40 27 0.20
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACATTTCAC
Found at i:89860925 original size:27 final size:27
Alignment explanation
Indices: 89860860--89861038 Score: 254
Period size: 27 Copynumber: 6.7 Consensus size: 27
89860850 TTTGGTTTAC
89860860 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
89860886 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
89860913 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
89860940 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
89860967 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
89860994 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
89861021 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
89861039 TCGACCTGTA
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.10
27 123 0.89
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:89860981 original size:81 final size:80
Alignment explanation
Indices: 89860860--89861092 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 80
89860850 TTTGGTTTAC
* *
89860860 AAAATTACCAAAATACCCTGCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCTGATTTGTAAAATTATC-AAAATACCCTTGGTTTGTAAAATTACCAA
*
89860924 AATACCCCTAGTTTGT
65 AATACCCCTAATTTGT
* *
89860940 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATA-CCCTGA-TTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCA
89861004 AAATACCCCTAATTTGT
64 AAATACCCCTAATTTGT
* ** ** ** * **
89861021 GAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
*
89861086 AGTACCC
65 AATACCC
89861093 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 19 0.15
81 109 0.84
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:89861052 original size:27 final size:27
Alignment explanation
Indices: 89861022--89861096 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
89861012 CTAATTTGTG
89861022 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
89861049 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
89861076 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
89861097 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:89861108 original size:54 final size:54
Alignment explanation
Indices: 89860860--89861165 Score: 165
Period size: 54 Copynumber: 5.7 Consensus size: 54
89860850 TTTGGTTTAC
* * * * ** * ** *
89860860 AAAATTACCAAAATACCCT-GCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* * * * * * *
89860913 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTCGA-CTTGT
* * * * * * * *
89860967 AAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTC-GACTTGT
* * ** * * **
89861021 GAAATTACTGAAA-TACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
*** *
89861075 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
***
89861129 AAAATTACCATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCG
89861166 TTTTACCCTT
Statistics
Matches: 210, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
53 21 0.10
54 182 0.87
55 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
Found at i:89861407 original size:27 final size:27
Alignment explanation
Indices: 89861088--89861406 Score: 397
Period size: 27 Copynumber: 11.8 Consensus size: 27
89861078 ATTACCAAAG
*
89861088 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
89861115 TACCCTCGATTTGTAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
89861142 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
89861169 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
89861196 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
89861223 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
89861250 TACCCCCAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
89861277 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
89861304 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
89861331 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
89861358 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
89861385 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
89861407 TAAAATACCC
Statistics
Matches: 257, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 255 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:89861430 original size:27 final size:27
Alignment explanation
Indices: 89861399--89861470 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
89861389 CTCGATTTAC
* **
89861399 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* **
89861426 GAAATTACCGCAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
89861453 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
89861471 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:89861443 original size:81 final size:81
Alignment explanation
Indices: 89861075--89861450 Score: 198
Period size: 81 Copynumber: 4.6 Consensus size: 81
89861065 CTCGACTTGT
* *** * ** *
89861075 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTTGATTTACAAAATTACCGT
* *
89861140 TTTACCCTCGATTTAT
66 TTCACCCTCGATTTAC
* **** * * ***** * * *
89861156 AGAATTACCGTTTTACCCT-TAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTTGATTTACAAAATTACCG
* * *
89861220 TTTTACCCCCAATTTAC
65 TTTCACCCTCGATTTAC
* **** * * * * * *** * *
89861237 ATAATTACCGTTTTACCCCCAATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTTGATTTACAAAATTACCGT
89861302 TTCACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* *** * *** *
89861318 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTTGATTTACAAAATTACCGT
*
89861383 TTTACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* * * * *
89861399 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTTAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTTGATTT
89861451 GTAAAACTAC
Statistics
Matches: 241, Mismatches: 51, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
80 2 0.01
81 238 0.99
82 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTTGATTTACAAAATTACCGT
TTCACCCTCGATTTAC
Found at i:89862745 original size:9 final size:9
Alignment explanation
Indices: 89862733--89862789 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
89862723 TTTGATAAAC
89862733 ATGATATGT
1 ATGATATGT
*
89862742 ATGATATGCAC
1 ATGATATG--T
*
89862753 ATGACATGT
1 ATGATATGT
*
89862762 ATGATATGCAC
1 ATGATATG--T
89862773 ATGATATGT
1 ATGATATGT
89862782 ATGATATG
1 ATGATATG
89862790 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:89862756 original size:20 final size:20
Alignment explanation
Indices: 89862731--89862793 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
89862721 ATTTTGATAA
89862731 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
89862751 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
89862771 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89862791 ACA
1 ACA
89862794 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89862904 original size:24 final size:23
Alignment explanation
Indices: 89862848--89863014 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
89862838 GAGGAAGTGA
89862848 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
89862871 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
89862894 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
89862918 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
89862942 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
89862965 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
89862990 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
89863014 A
1 A
89863015 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:89862917 original size:47 final size:47
Alignment explanation
Indices: 89862848--89863014 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
89862838 GAGGAAGTGA
*
89862848 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
89862894 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
89862942 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
89862990 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
89863015 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:89862964 original size:71 final size:71
Alignment explanation
Indices: 89862848--89863013 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
89862838 GAGGAAGTGA
* *
89862848 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
89862913 GTTATC
66 GTTATC
*
89862919 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
89862984 GTTATT
66 GTTATC
*
89862990 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
89863014 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:89863242 original size:31 final size:31
Alignment explanation
Indices: 89863207--89863270 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
89863197 CGTTTACCGT
*
89863207 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
89863238 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
89863269 AA
1 AA
89863271 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:89865461 original size:16 final size:15
Alignment explanation
Indices: 89865440--89865487 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
89865430 GATGTGAATA
89865440 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
89865456 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
89865471 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
89865487 A
1 A
89865488 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:89865463 original size:24 final size:24
Alignment explanation
Indices: 89865436--89865491 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
89865426 TAATGATGTG
*
89865436 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
89865460 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
89865484 AATAATAA
1 AATAATAA
89865492 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:89865470 original size:8 final size:8
Alignment explanation
Indices: 89865436--89865487 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
89865426 TAATGATGTG
*
89865436 AATAATAA
1 AATATTAA
89865444 AATATATAA
1 AATAT-TAA
89865453 AATA-TAA
1 AATATTAA
89865460 AATATTAA
1 AATATTAA
*
89865468 AATATCAA
1 AATATTAA
*
89865476 AATATTAG
1 AATATTAA
89865484 AATA
1 AATA
89865488 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:89865645 original size:20 final size:20
Alignment explanation
Indices: 89865589--89865647 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
89865579 ATACTACATC
*
89865589 AATATGTACAT-ATATAAAA
1 AATATGTACATAATATTAAA
**
89865608 AATAAATACGTGATAATATTAAA
1 AATATGTAC---ATAATATTAAA
89865631 AATATGTACATAATATT
1 AATATGTACATAATATT
89865648 GTGTTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
22 2 0.06
23 14 0.45
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AATATGTACATAATATTAAA
Found at i:89865702 original size:2 final size:2
Alignment explanation
Indices: 89865697--89865736 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
89865687 ATAAGATAAC
*
89865697 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89865737 CGTAATATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:89865721 original size:19 final size:19
Alignment explanation
Indices: 89865697--89865734 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89865687 ATAAGATAAC
*
89865697 ATATATATATATATATATA
1 ATATATATATACATATATA
89865716 ATATATATATACATATATA
1 ATATATATATACATATATA
89865735 TACGTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATATATACATATATA
Found at i:89865745 original size:21 final size:21
Alignment explanation
Indices: 89865679--89865736 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
89865669 TATAGTTAAG
* *
89865679 ATATATACATA-AGATAACAT
1 ATATATACATATATATAATAT
*
89865699 ATATATATATATATATAATAT
1 ATATATACATATATATAATAT
89865720 ATATATACATATATATA
1 ATATATACATATATATA
89865737 CGTAATATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATACATATATATAATAT
Found at i:89865809 original size:23 final size:25
Alignment explanation
Indices: 89865766--89865811 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89865756 TATACCTAAT
89865766 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
89865791 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
89865812 ACAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:89867181 original size:88 final size:85
Alignment explanation
Indices: 89867027--89867491 Score: 312
Period size: 88 Copynumber: 5.4 Consensus size: 85
89867017 GTGATCCTGA
** * * * * * * *
89867027 GCTCAACTCATTTTTCGCAATATGAATTGACTCTCTAAAAACAGACATTAAAAACAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGA-ATTAAAAGCAG-AATTGAA
*
89867092 AATAGCTCAGCACGTGAGCCAAG
64 AATACCTC-GCACGTGAGCCAAG
** *
89867115 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAA-TT-AAAAGCAGA-ATTGA
* * * *
89867179 AAATACCTCGATATGTGA-CTGAAA
63 AAATACCTCG-CACGTGAGC-CAAG
* ** *
89867203 GTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGACTCAACTG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAG-AATTAAAAG-CAGAATTGA
* ** *** *
89867266 AACT--CTCGCA-GAAATTAAAAA
63 AAATACCTCGCACGTGA-GCCAAG
*
89867287 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG-AAA-A-AA--AATAG-A-AATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAACAGAATTAAAAGCAGAATTGAA
*
89867345 AATAGCTCAGCACGTGAGCCAAG
64 AATACCTC-GCACGTGAGCCAAG
* * *
89867368 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAATCTGAAAAACAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAT-T-AAAAGCAGA-ATTGA
* * *
89867432 AAATACCTCGACATGTGACCCGAG
63 AAATACCTCG-CACGTGAGCCAAG
* *
89867456 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
89867492 TTGAAAAATA
Statistics
Matches: 295, Mismatches: 51, Indels: 61
0.72 0.13 0.15
Matches are distributed among these distances:
77 4 0.01
78 9 0.03
79 3 0.01
80 9 0.03
81 35 0.12
82 4 0.01
83 2 0.01
84 33 0.11
85 11 0.04
86 2 0.01
87 27 0.09
88 141 0.48
89 13 0.04
90 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (85 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATTAAAAGCAGAATTGAAAA
TACCTCGCACGTGAGCCAAG
Found at i:89867278 original size:30 final size:30
Alignment explanation
Indices: 89867244--89867305 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
89867234 TTTTGAAAAA
*
89867244 CAGAAATT-AAAAGACTCAACTGAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
89867274 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
89867304 CA
1 CA
89867306 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:89867623 original size:77 final size:79
Alignment explanation
Indices: 89867454--89867995 Score: 268
Period size: 76 Copynumber: 6.9 Consensus size: 79
89867444 ATGTGACCCG
* * * * *
89867454 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTTGAAAAATATAAATTGAAAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTG--AAAATACC
* * * *
89867519 TCAGTGTGTGATCTGA
64 TCAGCGCGTGAGCTCA
*
89867535 A-GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
89867598 AGCGCGTGAGC-CA
66 AGCGCGTGAGCTCA
*
89867611 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTTTTTTGAAAGGCAGAAATTGAAAA-A
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTTGAAAGACAGAAATTGAAAATA
*** **** * *
89867675 CGGAAATTGAAAAT-ACCTCGGCG
62 C-CTCA--GCGCGTGAGCT---CA
* * * * * * * *
89867698 TGTGACCTGAGGCTCAACTCGCCTCTCACA-AT-ACG-AGTTGATTTTTTTGACA-ACAGAAATT
1 AG-G--CTCA-ACTC-AC-C-TCTCGCA-ATATGA-GTTGAT--TTTTTTTGAAAGACAGAAATT
* ** *
89867759 GAAATTACCTCA--GCGTGTCCT-G
55 GAAAATACCTCAGCGCGTGAGCTCA
89867781 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
* * **
89867844 A--GCATG-TCTTG
66 AGCGCGTGAGCTCA
** * *
89867855 AGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
* * **
89867920 A--GCATG-TCTTG
66 AGCGCGTGAGCTCA
* ** * *
89867931 AGGCTCAACTAATTTCTCGCAATATGAGTTGA---ATTTTGAAA-ACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
89867992 AGCG
66 AGCG
89867996 TGTCTTGAGG
Statistics
Matches: 371, Mismatches: 56, Indels: 75
0.74 0.11 0.15
Matches are distributed among these distances:
72 20 0.05
73 10 0.03
74 65 0.18
75 12 0.03
76 71 0.19
77 50 0.13
78 2 0.01
79 22 0.06
80 31 0.08
81 2 0.01
82 27 0.07
83 4 0.01
84 2 0.01
86 1 0.00
87 5 0.01
88 1 0.00
89 1 0.00
90 16 0.04
91 15 0.04
92 2 0.01
93 3 0.01
94 8 0.02
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
AGCGCGTGAGCTCA
Found at i:89867674 original size:253 final size:243
Alignment explanation
Indices: 89867077--89867913 Score: 903
Period size: 253 Copynumber: 3.4 Consensus size: 243
89867067 ACAGACATTA
89867077 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * * * * *
89867142 TGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAAGTT
66 TGATTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGGCT
* * *
89867206 CAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTGAA
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCT-CA
* * * *
89867268 CTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 GTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* *
89867326 AAAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 ----AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
*
89867391 GAGTTGA-TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCG
62 GAGTTGATTTTTTG-AAACAGAAAT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG
* * * *
89867454 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTTGAAAAATATAAATTGAAAAAATACC
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAAATACC
89867519 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 TCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
89867574 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * *
89867639 TTGATCTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
65 TTGA------TTTTTTGAAA--CAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGAC
* * * * *
89867704 CTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTA
122 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATA
* * *
89867766 CCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
187 CCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
89867821 AAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
89867883 TTGATTTTTTTTGAAAAACAGAAATTGAAAA
65 TTGA--TTTTTTG--AAACAGAAATTGAAAA
89867914 TACCTCAGCA
Statistics
Matches: 512, Mismatches: 50, Indels: 57
0.83 0.08 0.09
Matches are distributed among these distances:
240 22 0.04
242 3 0.01
243 1 0.00
244 34 0.07
245 62 0.12
246 22 0.04
247 45 0.09
248 9 0.02
249 46 0.09
250 2 0.00
251 14 0.03
252 23 0.04
253 195 0.38
254 8 0.02
255 3 0.01
256 19 0.04
257 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (243 bp):
AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGT
GTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:89867736 original size:96 final size:95
Alignment explanation
Indices: 89867571--89867745 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 95
89867561 GTTGATTTTT
* * * *
89867571 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
89867636 GAGTTGATCTTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGAT-TTTTTTTTTTGAAAGGCAGAAA
* * * * *
89867667 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
89867731 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
89867746 GACAACAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 8 0.12
96 61 0.88
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (95 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTTGAAAGGCAGAAA
Found at i:89867738 original size:173 final size:169
Alignment explanation
Indices: 89867511--89867819 Score: 458
Period size: 173 Copynumber: 1.8 Consensus size: 169
89867501 ATAAATTGAA
* * * *
89867511 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
*
89867576 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
89867640 TGATCTTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
127 TGAT-TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * * *
89867684 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* * *
89867749 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
89867814 TTTTTT
131 TTTTTT
89867820 GAAAACAGAA
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
169 8 0.07
170 38 0.31
172 19 0.15
173 58 0.47
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (169 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:89867819 original size:76 final size:74
Alignment explanation
Indices: 89867671--89868014 Score: 467
Period size: 74 Copynumber: 4.6 Consensus size: 74
89867661 CAGAAATTGA
* * * * *
89867671 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCACCTCTCACAATATGAGT
89867736 TGATTTTTTTG
64 TGATTTTTTTG
* * * *
89867747 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
89867812 ATTTTTTTG
66 ATTTTTTTG
* **
89867821 AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
89867886 ATTTTTTTTG
66 A-TTTTTTTG
* * ** *
89867896 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
*
89867961 GA--ATTTTG
65 GATTTTTTTG
*
89867969 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA
89868015 TTTTGAACAG
Statistics
Matches: 246, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
72 43 0.17
73 5 0.02
74 100 0.41
75 8 0.03
76 90 0.37
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTTTTTTG
Found at i:89867990 original size:148 final size:147
Alignment explanation
Indices: 89867671--89868017 Score: 489
Period size: 150 Copynumber: 2.3 Consensus size: 147
89867661 CAGAAATTGA
* * * ***
89867671 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATACGAGT
* * * *
89867736 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
64 TGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGC
*
89867801 AATATGAGTTGATTTTTTTG
129 AATATGAGTTGA-TATTTTG
* *
89867821 AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGTTG
* **
89867886 ATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGC
66 A-TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGC
89867951 AATATGAGTTGA-ATTTTG
129 AATATGAGTTGATATTTTG
*
89867969 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
89868018 TGAACAGAAA
Statistics
Matches: 177, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
148 83 0.47
149 8 0.05
150 86 0.49
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (147 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGTTG
ATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGCAA
TATGAGTTGATATTTTG
Found at i:89868037 original size:49 final size:49
Alignment explanation
Indices: 89867971--89868066 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
89867961 GAATTTTGAA
*
89867971 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
89868020 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
89868067 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:89868052 original size:121 final size:121
Alignment explanation
Indices: 89867899--89868138 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
89867889 TTTTTTGAAA
*
89867899 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
* *
89867964 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTTG
* * *
89868020 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
89868085 TTTTGAAAACAGAAATTGAAATTACCTCAATGTATCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTT
89868139 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTTG
Found at i:89868100 original size:72 final size:72
Alignment explanation
Indices: 89868020--89868160 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
89868010 ACTCATTTTG
*
89868020 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
89868085 TTTTGAA
66 TTTTGAA
*
89868092 AACAGAAATTGAAATTACCTCAATGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
89868157 TTTT
66 TTTT
89868161 TTTATTTTTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:89868185 original size:82 final size:81
Alignment explanation
Indices: 89868085--89868243 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 81
89868075 ATGAGTTGAA
* * * * **
89868085 TTTTGAAAACAGAAATTGAAATTACCTCA-ATGT-ATCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTGAAAAAAGAAATTGAAAATACCTCACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATA
*
89868148 TGAGTTGAATTTTTTTAT
65 TGAGCTG-ATTTTTTTAT
89868166 TTTTGAAAGAAAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAAT
1 TTTTGAAA-AAAGAAATTGAAAATACCTCA-CATGTGAACCGAGGCTCAACTCACCTCTCGCAAT
89868231 ATGAGCTGATTTT
64 ATGAGCTGATTTT
89868244 GAAAAAGTAG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
81 8 0.12
82 19 0.28
83 5 0.07
84 33 0.49
85 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (81 bp):
TTTTGAAAAAAGAAATTGAAAATACCTCACATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
GAGCTGATTTTTTTAT
Found at i:89868312 original size:54 final size:55
Alignment explanation
Indices: 89868212--89868317 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
89868202 GAACCGAGGC
* *
89868212 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
89868266 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
89868318 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:89868324 original size:13 final size:13
Alignment explanation
Indices: 89868297--89868330 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
89868287 GAGTTGATTC
*
89868297 TTGAACAACATAAA
1 TTGAA-AACAGAAA
89868311 TTGAAAACAGAAA
1 TTGAAAACAGAAA
89868324 TTGAAAA
1 TTGAAAA
89868331 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:89868378 original size:140 final size:140
Alignment explanation
Indices: 89868168--89868794 Score: 1114
Period size: 140 Copynumber: 4.5 Consensus size: 140
89868158 TTTTTTATTT
*
89868168 TTGAAAGAAAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
89868232 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
89868297 TTGAACAACATAAA
127 TTGAACAACGTAAA
*
89868311 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
89868376 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCATGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89868441 ACAACGTAAA
131 ACAACGTAAA
*
89868451 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
89868516 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCTACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89868581 ACAACGTAAA
131 ACAACGTAAA
89868591 TTGAAAACA-AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
89868655 CTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTTTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89868720 ACAACGTAAA
131 ACAACGTAAA
*
89868730 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
89868795 TTGAAATTAA
Statistics
Matches: 468, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
139 138 0.29
140 302 0.65
142 22 0.05
143 6 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:89868715 original size:279 final size:280
Alignment explanation
Indices: 89868168--89868794 Score: 1116
Period size: 279 Copynumber: 2.2 Consensus size: 280
89868158 TTTTTTATTT
*
89868168 TTGAAAGAAAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
89868232 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
89868297 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
127 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
89868362 TCTCGCAATATAAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
192 TCTCGCAATATAAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
89868427 GAGTTGATTCATGAACAACGTAAA
257 GAGTTGATTCATGAACAACGTAAA
*
89868451 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
89868516 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCTACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
89868581 ACAACGTAAATTGAAAACA-AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
131 ACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
*
89868645 GCAATATGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTT-TCGCAATATGAG
196 GCAATATAAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCA-CTTCTCGCAATATGAG
*
89868709 TTGATTCTTGAACAACGTAAA
260 TTGATTCATGAACAACGTAAA
*
89868730 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
89868795 TTGAAATTAA
Statistics
Matches: 333, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
279 189 0.57
280 117 0.35
282 21 0.06
283 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (280 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
GCAATATAAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGT
TGATTCATGAACAACGTAAA
Found at i:89868731 original size:54 final size:54
Alignment explanation
Indices: 89868631--89868736 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
89868621 GACCTGAGGC
*
89868631 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGT-AAAATTGAAAAGGT
* * *
89868685 TCAACCCACCTTTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
89868737 CAAAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:89868816 original size:72 final size:71
Alignment explanation
Indices: 89868727--89868885 Score: 246
Period size: 72 Copynumber: 2.2 Consensus size: 71
89868717 TGAACAACGT
* * *
89868727 AAATTGAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGCAATAT
89868792 GAGTTG
66 GAGTTG
*
89868798 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTCGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGCAATA
89868863 TGAGTTG
65 TGAGTTG
**
89868870 ATTTTGAAAAACAAAA
1 AAATT-AAAAACAAAA
89868886 TTAAAAGGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 8 0.10
72 68 0.85
73 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTCGCAATAT
GAGTTG
Found at i:89869948 original size:45 final size:45
Alignment explanation
Indices: 89869833--89869948 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 45
89869823 GTTTCATTAG
* *
89869833 GACGCCC-TCTCGGGTTTTCATCCTAATCCTTTTGTACTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCTTAATCCTTTTGTACTAATCAA
* ** ** * *
89869877 GACGCCCTTTTCGAGTTTTCGCCTTAATCCTTTT-TTTTATTTTAA
1 GACGCCCTTTTCGGGTTTTCATCTTAATCCTTTTGTACTA-ATCAA
*
89869922 GATGCCCTTTTCGGGTTTTCATCTTAA
1 GACGCCCTTTTCGGGTTTTCATCTTAA
89869949 ACATAATATT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 10 0.18
45 47 0.82
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (45 bp):
GACGCCCTTTTCGGGTTTTCATCTTAATCCTTTTGTACTAATCAA
Found at i:89877113 original size:12 final size:12
Alignment explanation
Indices: 89877093--89877127 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
89877083 ATGGATATGC
*
89877093 AATGTATGAATG
1 AATGCATGAATG
89877105 AATGCATGAATG
1 AATGCATGAATG
89877117 AATGCAT-AATG
1 AATGCATGAATG
89877128 TCAAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:89878664 original size:16 final size:15
Alignment explanation
Indices: 89878643--89878690 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
89878633 GATGTGAATA
89878643 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
89878659 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
89878674 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
89878690 A
1 A
89878691 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:89878666 original size:24 final size:24
Alignment explanation
Indices: 89878639--89878694 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
89878629 TAATGATGTG
*
89878639 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
89878663 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
89878687 AATAATAA
1 AATAATAA
89878695 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:89878673 original size:8 final size:8
Alignment explanation
Indices: 89878639--89878690 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
89878629 TAATGATGTG
*
89878639 AATAATAA
1 AATATTAA
89878647 AATATATAA
1 AATAT-TAA
89878656 AATA-TAA
1 AATATTAA
89878663 AATATTAA
1 AATATTAA
*
89878671 AATATCAA
1 AATATTAA
*
89878679 AATATTAG
1 AATATTAA
89878687 AATA
1 AATA
89878691 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:89878864 original size:20 final size:20
Alignment explanation
Indices: 89878808--89878866 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
89878798 ATACTACATC
*
89878808 AATATGTACAT-ATATAAAA
1 AATATGTACATAATATTAAA
**
89878827 AATAAATACGTGATAATATTAAA
1 AATATGTAC---ATAATATTAAA
89878850 AATATGTACATAATATT
1 AATATGTACATAATATT
89878867 GTGTTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
22 2 0.06
23 14 0.45
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AATATGTACATAATATTAAA
Found at i:89878930 original size:2 final size:2
Alignment explanation
Indices: 89878923--89879004 Score: 59
Period size: 2 Copynumber: 43.5 Consensus size: 2
89878913 AACATGTAAA
* * *
89878923 AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT A- AT AT -T AA AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
89878962 AT AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT AT AC AT A- AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
89879002 AT A
1 AT A
89879005 GAATTTAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
1 6 0.10
2 55 0.87
3 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (2 bp):
AT
Found at i:89879017 original size:25 final size:26
Alignment explanation
Indices: 89878937--89879018 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
89878927 ATATATATAT
*
89878937 ATATATAAATAATAT--AATATTAAA
1 ATATATACATAATATAGAATATTAAA
* * * *
89878961 GATATATACATAAAATAGTATAATATAT
1 -ATATATACATAATATAGAATATTA-AA
89878989 ATATATACATAATATAGAAT-TTAAA
1 ATATATACATAATATAGAATATTAAA
89879014 ATATA
1 ATATA
89879019 CCTAATATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
25 19 0.42
26 2 0.04
27 23 0.51
28 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATATACATAATATAGAATATTAAA
Found at i:89879038 original size:52 final size:52
Alignment explanation
Indices: 89878931--89879052 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
89878921 AAATATATAT
*
89878931 ATATATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTATA
1 ATATATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTAAA
* * * * *
89878983 ATATATATATATACATAATATAGA-ATTTAA-A-ATATACCTAATATATTAAA
1 ATATATATATATAAATAATATA-ATATTAAAGATATATACATAAAATAGTAAA
89879033 A-A-ATATATATAATATAATAT
1 ATATATATATATAA-ATAATAT
89879053 TAAGAAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
48 9 0.15
49 8 0.13
50 16 0.26
51 1 0.02
52 26 0.43
53 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (52 bp):
ATATATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTAAA
Found at i:89879051 original size:14 final size:14
Alignment explanation
Indices: 89878922--89879052 Score: 64
Period size: 14 Copynumber: 9.4 Consensus size: 14
89878912 TAACATGTAA
89878922 AATATATAT-ATAT
1 AATATATATAATAT
89878935 -ATATATATAA-AT
1 AATATATATAATAT
*
89878947 AATATA-ATATTA-
1 AATATATATAATAT
*
89878959 AAGATATATACATA-
1 AATATATATA-ATAT
89878973 AA-ATAGTATAATAT
1 AATATA-TATAATAT
89878987 ATATATATACATAATAT
1 A-ATATAT--ATAATAT
* *
89879004 AGA-ATTTAAAATAT
1 A-ATATATATAATAT
* *
89879018 ACCTAATATATTAA-AA
1 A-AT-ATATA-TAATAT
89879034 AATATATATAATAT
1 AATATATATAATAT
89879048 AATAT
1 AATAT
89879053 TAAGAAATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
12 18 0.20
13 19 0.21
14 27 0.30
15 3 0.03
16 12 0.13
17 11 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (14 bp):
AATATATATAATAT
Found at i:89879060 original size:24 final size:23
Alignment explanation
Indices: 89879025--89879069 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
89879015 TATACCTAAT
89879025 ATATTAAAAAATATATATAATATA
1 ATATTAAAAAATATA-ATAATATA
*
89879049 ATATTAAGAAATATAATAATA
1 ATATTAAAAAATATAATAATA
89879070 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTAAAAAATATAATAATATA
Found at i:89879462 original size:30 final size:30
Alignment explanation
Indices: 89879420--89879516 Score: 158
Period size: 30 Copynumber: 3.2 Consensus size: 30
89879410 AAAATGTTGA
89879420 GAAAAGGAGTGGCTAGTGGAGTTGGTGGTG
1 GAAAAGGAGTGGCTAGTGGAGTTGGTGGTG
* * *
89879450 GAAAATGTGTGGCTAGTAGAGTTGGTGGTG
1 GAAAAGGAGTGGCTAGTGGAGTTGGTGGTG
*
89879480 GAAAAGGAGTGGCTAGTGAAGTTGGTGGTG
1 GAAAAGGAGTGGCTAGTGGAGTTGGTGGTG
89879510 GAAAAGG
1 GAAAAGG
89879517 CTAAGATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.27, C:0.03, G:0.46, T:0.24
Consensus pattern (30 bp):
GAAAAGGAGTGGCTAGTGGAGTTGGTGGTG
Found at i:89880299 original size:6 final size:7
Alignment explanation
Indices: 89880282--89880307 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
89880272 GCAACACTTG
89880282 TTTTTTA
1 TTTTTTA
89880289 TTTTTTA
1 TTTTTTA
89880296 TTTTTTA
1 TTTTTTA
89880303 TTTTT
1 TTTTT
89880308 CGTTTTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:89880767 original size:16 final size:16
Alignment explanation
Indices: 89880746--89880882 Score: 86
Period size: 16 Copynumber: 8.2 Consensus size: 16
89880736 CCACATTAAT
89880746 AAATTATAAAATATAA
1 AAATTATAAAATATAA
* *
89880762 AAATTATTAAATTATAT
1 AAATTA-TAAAATATAA
**
89880779 AAA-TATATTAT-TAA
1 AAATTATAAAATATAA
*
89880793 AAGTTATGAAAATTTTATAA
1 AAATTAT-AAAA---TATAA
89880813 AAATTATTAAAAATATAAAA
1 AAATTA-T-AAAATAT--AA
89880833 AAATT-TAAAATTATAA
1 AAATTATAAAA-TATAA
*
89880849 AAATTAT-AAAT-TAT
1 AAATTATAAAATATAA
89880863 AAATTATAAAAATATAA
1 AAATTAT-AAAATATAA
89880880 AAA
1 AAA
89880883 AAATTATAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
14 13 0.14
15 7 0.08
16 24 0.26
17 21 0.23
18 7 0.08
19 1 0.01
20 15 0.16
21 5 0.05
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (16 bp):
AAATTATAAAATATAA
Found at i:89880875 original size:70 final size:69
Alignment explanation
Indices: 89880748--89880910 Score: 163
Period size: 70 Copynumber: 2.3 Consensus size: 69
89880738 ACATTAATAA
* * * * * * *
89880748 ATTATAAAATATAAAAATTATTAAATTATATAAATATATTATTAAAAGTTATGAAAATTTTATAA
1 ATTA-AAAATATAAAAATTATAAAATTATAAAAATATATAATTAAAAGTTATAAAAATATAAAAA
89880813 AAATT
65 AAATT
89880818 ATTAAAAATATAAAAAAATT-TAAAATTATAAAAAT-TATAAATTATAAA-TTATAAAAATATAA
1 ATTAAAAATAT--AAAAATTATAAAATTATAAAAATATAT-AATTA-AAAGTTATAAAAATATAA
89880880 AAAAAATT
62 AAAAAATT
*
89880888 A-TAAAAATAGGTAAAAGTTATAA
1 ATTAAAAATA--TAAAAATTATAA
89880911 TAAAAAAAGT
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
69 24 0.31
70 43 0.55
71 11 0.14
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (69 bp):
ATTAAAAATATAAAAATTATAAAATTATAAAAATATATAATTAAAAGTTATAAAAATATAAAAAA
AATT
Found at i:89880882 original size:9 final size:9
Alignment explanation
Indices: 89880746--89880895 Score: 100
Period size: 9 Copynumber: 16.4 Consensus size: 9
89880736 CCACATTAAT
89880746 AAATTAT-A
1 AAATTATAA
89880754 AAA-TATAA
1 AAATTATAA
*
89880762 AAATTATTA
1 AAATTATAA
*
89880771 AATTATATAA
1 AAAT-TATAA
89880781 ATATATTATTAA
1 A-A-ATTA-TAA
*
89880793 AAGTTATGAA
1 AAATTAT-AA
*
89880803 AATTTTATAA
1 AA-ATTATAA
89880813 AAATTATTAA
1 AAATTA-TAA
*
89880823 AAATATAAAA
1 AAAT-TATAA
89880833 AAATT-T-A
1 AAATTATAA
89880840 AAATTATAA
1 AAATTATAA
89880849 AAATTAT--
1 AAATTATAA
89880856 AAATTAT--
1 AAATTATAA
89880863 AAATTATAA
1 AAATTATAA
*
89880872 AAATATAAAAA
1 AAAT-T-ATAA
89880883 AAATTATAA
1 AAATTATAA
89880892 AAAT
1 AAAT
89880896 AGGTAAAAGT
Statistics
Matches: 115, Mismatches: 11, Indels: 31
0.73 0.07 0.20
Matches are distributed among these distances:
7 23 0.20
8 8 0.07
9 31 0.27
10 31 0.27
11 17 0.15
12 5 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:89880893 original size:8 final size:8
Alignment explanation
Indices: 89880746--89880881 Score: 77
Period size: 8 Copynumber: 16.4 Consensus size: 8
89880736 CCACATTAAT
89880746 AAATTATA
1 AAATTATA
89880754 AAA-TATAA
1 AAATTAT-A
*
89880762 AAATTATT
1 AAATTATA
89880770 AAATTATA
1 AAATTATA
89880778 TAAA-TATA
1 -AAATTATA
**
89880786 TTATTA-A
1 AAATTATA
*
89880793 AAGTTATGA
1 AAATTAT-A
89880802 AAATTTTATAA
1 AAA--TTAT-A
89880813 AAATTATTAA
1 AAATTA-T-A
*
89880823 AAATATAAAA
1 AAAT-T-ATA
89880833 AAATT-TA
1 AAATTATA
89880840 AAATTATAA
1 AAATTAT-A
89880849 AAATTAT-
1 AAATTATA
89880856 AAATTAT-
1 AAATTATA
89880863 AAATTATA
1 AAATTATA
*
89880871 AAAATATA
1 AAATTATA
89880879 AAA
1 AAA
89880882 AAAATTATAA
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
7 28 0.27
8 31 0.30
9 21 0.21
10 12 0.12
11 9 0.09
12 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
AAATTATA
Found at i:89880893 original size:10 final size:10
Alignment explanation
Indices: 89880770--89880894 Score: 57
Period size: 10 Copynumber: 12.2 Consensus size: 10
89880760 AAAAATTATT
89880770 AAATTATATAA
1 AAATTATA-AA
*
89880781 ATATATTATTAA
1 A-A-ATTATAAA
* *
89880793 AAGTTAT-GA
1 AAATTATAAA
*
89880802 AAATTTTATAA
1 AAATTATA-AA
*
89880813 AAATTATTAA
1 AAATTATAAA
89880823 AAA-TATAAAA
1 AAATTAT-AAA
89880833 AAATT-T--A
1 AAATTATAAA
89880840 AAATTAT-AA
1 AAATTATAAA
89880849 AAATTATAAATTA
1 AAATTAT-AA--A
89880862 TAAATTAT-AA
1 -AAATTATAAA
*
89880872 AAATATAAAAA
1 AAAT-TATAAA
89880883 AAATTATAAA
1 AAATTATAAA
89880893 AA
1 AA
89880895 TAGGTAAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 21 0.24
10 25 0.28
11 17 0.19
12 5 0.06
13 6 0.07
14 7 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTATAAA
Found at i:89880903 original size:20 final size:20
Alignment explanation
Indices: 89880839--89880897 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
89880829 AAAAAAATTT
*
89880839 AAAATTATAAAAATTATAAATTA
1 AAAATTATAAAAA-TAGAAA--A
* *
89880862 TAAATTATAAAAATATAAAA
1 AAAATTATAAAAATAGAAAA
89880882 AAAATTATAAAAATAG
1 AAAATTATAAAAATAG
89880898 GTAAAAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.45
22 6 0.18
23 12 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTATAAAAATAGAAAA
Found at i:89880914 original size:49 final size:46
Alignment explanation
Indices: 89880807--89880914 Score: 112
Period size: 49 Copynumber: 2.2 Consensus size: 46
89880797 TATGAAAATT
*
89880807 TTATAA-AAATTATTAAAAATATAAAAAAATTTAAAATTATAAAAA
1 TTATAATAAATTATTAAAAATATAAAAAAATTTAAAAATATAAAAA
*
89880852 TTATAAATTATAAATTA-TAAAAATATAAAAAAAATTATAAAAATAGGTAAAAG
1 TTAT--A--ATAAATTATTAAAAATAT-AAAAAAATT-TAAAAATA--TAAAAA
89880905 TTATAATAAA
1 TTATAATAAA
89880915 AAAAGTACTG
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
45 4 0.08
47 1 0.02
49 15 0.29
50 15 0.29
51 8 0.15
53 9 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (46 bp):
TTATAATAAATTATTAAAAATATAAAAAAATTTAAAAATATAAAAA
Found at i:89889019 original size:16 final size:17
Alignment explanation
Indices: 89888987--89889020 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89888977 CTGACCTGCT
89888987 ATAAACAAAAGATAATA
1 ATAAACAAAAGATAATA
*
89889004 ATAAACCAAA-ATAATA
1 ATAAACAAAAGATAATA
89889020 A
1 A
89889021 AAGTTCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAACAAAAGATAATA
Found at i:89890271 original size:31 final size:29
Alignment explanation
Indices: 89890211--89890271 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
89890201 TTCATTTGTA
*
89890211 TATTTTTATATTTTATTATATAACATATT
1 TATTTTTAAATTTTATTATATAACATATT
* *
89890240 TATTTTTAAATTTTCTTTTATAA-ATA-T
1 TATTTTTAAATTTTATTATATAACATATT
89890267 TATTT
1 TATTT
89890272 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 3 0.10
29 20 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTAAATTTTATTATATAACATATT
Found at i:89895388 original size:8 final size:8
Alignment explanation
Indices: 89895366--89895405 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
89895356 AAGGCAGCCA
89895366 AAAAAAAG
1 AAAAAAAG
89895374 TACAAAAAAG
1 -A-AAAAAAG
89895384 -AAAAAAG
1 AAAAAAAG
89895391 AAAAAAAG
1 AAAAAAAG
89895399 AAAAAAA
1 AAAAAAA
89895406 ATAAAGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.24
8 14 0.48
9 1 0.03
10 7 0.24
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:89895395 original size:15 final size:17
Alignment explanation
Indices: 89895367--89895404 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
89895357 AGGCAGCCAA
89895367 AAAAAAGTACAAAAAAG
1 AAAAAAGTACAAAAAAG
89895384 AAAAAAG-A-AAAAAAG
1 AAAAAAGTACAAAAAAG
89895399 AAAAAA
1 AAAAAA
89895405 AATAAAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAAGTACAAAAAAG
Found at i:89895966 original size:13 final size:12
Alignment explanation
Indices: 89895948--89895993 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
89895938 TTAGACCTTA
89895948 AAAAATAATAAAT
1 AAAAATAA-AAAT
89895961 AAAAATAAAAAT
1 AAAAATAAAAAT
*
89895973 -CAAATCAAAAAT
1 AAAAAT-AAAAAT
89895985 AAAAA-AAAA
1 AAAAATAAAA
89895994 GAGAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 8 0.28
12 10 0.34
13 11 0.38
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:89895988 original size:5 final size:6
Alignment explanation
Indices: 89895948--89895993 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
89895938 TTAGACCTTA
*
89895948 AAAAAT AATAAAT AAAAAT AAAAAT -CAAAT CAAAAAT AAAAA- AAAA
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAA
89895994 GAGAAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 8 0.23
6 17 0.49
7 10 0.29
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:89896017 original size:8 final size:8
Alignment explanation
Indices: 89896006--89896034 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
89895996 GAAAAAGAGA
89896006 AAAAAATC
1 AAAAAATC
89896014 AAAAAATC
1 AAAAAATC
89896022 AAAAAATC
1 AAAAAATC
89896030 AAAAA
1 AAAAA
89896035 GAGTAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:89896017 original size:16 final size:16
Alignment explanation
Indices: 89895974--89896034 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
89895964 AATAAAAATC
*
89895974 AAATCAAAAATAAAAAA
1 AAATCAAAAA-AGAAAA
**
89895991 AAAGAGAAAAAGAGAAAA
1 AAA-TCAAAAA-AGAAAA
**
89896009 AAATCAAAAAATCAAA
1 AAATCAAAAAAGAAAA
89896025 AAATCAAAAA
1 AAATCAAAAA
89896035 GAGTAGAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 14 0.40
17 8 0.23
18 13 0.37
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.08
Consensus pattern (16 bp):
AAATCAAAAAAGAAAA
Found at i:89897882 original size:44 final size:44
Alignment explanation
Indices: 89897800--89897905 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
89897790 TTTAGCCACC
*** *
89897800 AGTCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
* *
89897844 AGTCTTATCTTTCTAAGGTAGCAAG-GAAGCACACTGAAGATTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAG-AGCACACTGAAGATTGT
* *
89897888 AGATTTTATCTCCCTAAG
1 AG-TCTTATCTCTCTAAG
89897906 CAGTAGTGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.75
45 12 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
Done.