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 202 of 325
Found at i:62664318 original size:39 final size:38
Alignment explanation
Indices: 62664212--62664323 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 38
62664202 ATAATCACGT
* * *
62664212 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
*
62664252 GCACGAATGCCTTCGGGTCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
62664291 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
62664324 ATTTCCAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.03
39 33 0.51
40 30 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:62664345 original size:79 final size:78
Alignment explanation
Indices: 62664212--62664361 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
62664202 ATAATCACGT
*
62664212 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
62664277 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
62664291 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
62664354 CCGGATAT
64 CCGGATAT
62664362 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:62667481 original size:30 final size:30
Alignment explanation
Indices: 62667426--62667556 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
62667416 ATAGTGAATC
*
62667426 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
62667455 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
62667485 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
62667513 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
62667543 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62667557 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:62667536 original size:58 final size:58
Alignment explanation
Indices: 62667425--62667556 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
62667415 TATAGTGAAT
* * * * *
62667425 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
62667484 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
62667542 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62667557 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:62675394 original size:30 final size:30
Alignment explanation
Indices: 62675339--62675469 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
62675329 ATAGTGAATC
*
62675339 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
62675368 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
62675398 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
62675426 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
62675456 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62675470 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:62675449 original size:58 final size:58
Alignment explanation
Indices: 62675338--62675469 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
62675328 TATAGTGAAT
* * * * *
62675338 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
62675397 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
62675455 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62675470 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:62679416 original size:29 final size:29
Alignment explanation
Indices: 62679383--62679514 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
62679373 GTGACGAGAT
62679383 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
62679412 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
62679441 TGGCACTAAGTGTGCATACTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
62679470 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
62679499 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
62679515 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:62695940 original size:55 final size:54
Alignment explanation
Indices: 62695853--62696109 Score: 233
Period size: 55 Copynumber: 4.8 Consensus size: 54
62695843 ATTAGGGTTT
*
62695853 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAA-GTTTCATAAGGA
** * * *
62695908 AAGGATATTATGTAATACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGG-A
* * * *
62695964 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGA
* * * * *
62696016 AAGGATACCATGTAAGACCATGTCGAGACATGGAAATGGTAAG--T-ATCA--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGA
* ** ** *
62696065 AAGGATACCACGTAAGACCATGAAAAGTTATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
62696110 ACCCGTGTAT
Statistics
Matches: 165, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
49 36 0.22
51 3 0.02
52 5 0.03
53 42 0.25
54 9 0.05
55 65 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGA
Found at i:62696059 original size:108 final size:110
Alignment explanation
Indices: 62695860--62696059 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
62695850 TTTAAGGATA
** *
62695860 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGAAAGGATATTATGTAATA
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
* *
62695925 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
* *
62695970 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTC-TAAGGAAAGGATACCATGTAAG
* *
62696032 ACCATGTCGAGACATGGAAATGGTAAGT
65 ACCATGTCAAGACATGGAAATGATAAGT
62696060 ATCAAAAGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 43 0.54
109 6 0.08
110 28 0.35
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:62702613 original size:49 final size:49
Alignment explanation
Indices: 62702554--62702741 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
62702544 TGAGGTCACG
* **
62702554 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * *
62702603 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCGCA
*
62702654 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
62702703 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
62702742 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 76 0.63
50 4 0.03
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:62702722 original size:100 final size:100
Alignment explanation
Indices: 62702549--62702747 Score: 362
Period size: 100 Copynumber: 2.0 Consensus size: 100
62702539 TATTGTGAGG
**
62702549 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
62702614 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
62702649 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
62702714 AAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCG
62702748 GCTACAAGTG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:62708324 original size:48 final size:49
Alignment explanation
Indices: 62708246--62708486 Score: 265
Period size: 48 Copynumber: 4.9 Consensus size: 49
62708236 GCTATTGTGA
*
62708246 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-TTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTT
* * * * *
62708294 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A-TTT
* * * * *
62708345 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC--ATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTT
* * * *
62708393 GGTCACGTGTGTAGTACTAAGTGCAGGCT-CTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTT
* * *
62708441 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
62708487 GCTTCGGCTA
Statistics
Matches: 160, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
47 9 0.06
48 98 0.61
49 16 0.10
51 37 0.23
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTT
Found at i:62708419 original size:99 final size:96
Alignment explanation
Indices: 62708248--62708484 Score: 305
Period size: 99 Copynumber: 2.4 Consensus size: 96
62708238 TATTGTGAGG
* * *
62708248 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTTTGGTCGCATGTGTAGTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAGTTAGGTCACATGTGTAGTACTA
** *
62708313 AGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AGTGCAGGCT-CTACACGTACCGGATAA-TT-GA
* *
62708347 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATG-GTTAGGTCACGTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GAGTTAGGTCACATGTGTAGTACT
* *
62708411 AAGTGCAGGCTCTACATGTACCGGATAATTGG
65 AAGTGCAGGCTCTACACGTACCGGATAATTGA
* * * *
62708443 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
62708485 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 36 0.30
97 2 0.02
98 13 0.11
99 68 0.56
100 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (96 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAGTTAGGTCACATGTGTAGTACTA
AGTGCAGGCTCTACACGTACCGGATAATTGA
Found at i:62715845 original size:29 final size:29
Alignment explanation
Indices: 62715806--62715884 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62715796 CTTAATAATC
*
62715806 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62715836 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
62715865 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62715885 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:62723638 original size:29 final size:29
Alignment explanation
Indices: 62723599--62723677 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62723589 CTTAATAATC
*
62723599 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62723629 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
62723658 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62723678 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:62726345 original size:27 final size:28
Alignment explanation
Indices: 62726315--62726382 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
62726305 AGTGAGTCCA
62726315 CACACTTAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* *
62726342 CACACTTAGTGTTATATGATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
62726370 CACACTTAGTGCT
1 CACACTTAGTGCT
62726383 GTACAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:62731622 original size:32 final size:32
Alignment explanation
Indices: 62731581--62731645 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
62731571 AACCTCATGC
62731581 AACAAAGATTTGAATCTAAAGCAACTAATCAA
1 AACAAAGATTTGAATCTAAAGCAACTAATCAA
62731613 AACAAAGATTTGAATCTAAAGCAACTAATCAA
1 AACAAAGATTTGAATCTAAAGCAACTAATCAA
62731645 A
1 A
62731646 CTCTATTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (32 bp):
AACAAAGATTTGAATCTAAAGCAACTAATCAA
Found at i:62741657 original size:27 final size:27
Alignment explanation
Indices: 62741623--62741822 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
62741613 TGAATAAGTT
*
62741623 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
** *
62741650 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
62741677 GTAGAATTATCGAAATACCCCTGTTGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
62741704 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
62741731 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
62741758 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
62741785 GTAGAATTAACGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
62741812 GTAAAATTACC
1 GTAGAATTACC
62741823 ATTTTGCCTA
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:62749158 original size:87 final size:86
Alignment explanation
Indices: 62749006--62749169 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 86
62748996 TTTAAATTTA
* *
62749006 GTGAATTTATCAAGTTTGTCTCAATAGGACCACCCAAACTTTAGGATATGAACTCGTTAAAAGTA
1 GTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTTTAGGATATGAACTCATTAAAAGTA
62749071 AGAAACTCAACCTCATATGTCG
66 AG-AACTCAACCTCATATGTCG
* * * * * *
62749093 GTGAATTCATCAAGTTTGTCTTAATAGGACCACCTAAA-TTCTGGGCTATGAATTCATTAAGAGT
1 GTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTT-TAGGATATGAACTCATTAAAAGT
*
62749157 AAGAACTTAACCT
65 AAGAACTCAACCT
62749170 TATGCATGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 11 0.16
87 56 0.84
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (86 bp):
GTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTTTAGGATATGAACTCATTAAAAGTA
AGAACTCAACCTCATATGTCG
Found at i:62755708 original size:23 final size:23
Alignment explanation
Indices: 62755647--62755710 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
62755637 CTGGTATGTT
* *
62755647 ATATGATATATGATACGACTTTG
1 ATATGTTATATGATATGACTTTG
* * *
62755670 ATATGTTAAATAATATGATTTTG
1 ATATGTTATATGATATGACTTTG
*
62755693 TTATGTTATATGATATGA
1 ATATGTTATATGATATGA
62755711 AAATTTTGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (23 bp):
ATATGTTATATGATATGACTTTG
Found at i:62757549 original size:43 final size:43
Alignment explanation
Indices: 62757502--62757598 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
62757492 AAACGCTGCA
* * * * *
62757502 AAAGATCATGTCCTTTAGCGGCGTTTGTCA-TAAAAGTGCCGCT
1 AAAGATCATGTCCTATAACAGAGTTTGT-AGTAAAAGCGCCGCT
* *
62757545 AAAGATCATGTTCTATAACAGAGTTTGTAGTGAAAGCGCCGCT
1 AAAGATCATGTCCTATAACAGAGTTTGTAGTAAAAGCGCCGCT
62757588 AAAGATCATGT
1 AAAGATCATGT
62757599 TATTTAGCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAGATCATGTCCTATAACAGAGTTTGTAGTAAAAGCGCCGCT
Found at i:62757880 original size:21 final size:21
Alignment explanation
Indices: 62757842--62757881 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62757832 TTCAATATGT
*
62757842 CCCTAAAAATGGCCATTGAGA
1 CCCTAAAAATGGCAATTGAGA
62757863 CCCTAAAACAT-GCAATTGA
1 CCCTAAAA-ATGGCAATTGA
62757882 AACGGTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (21 bp):
CCCTAAAAATGGCAATTGAGA
Found at i:62759300 original size:53 final size:54
Alignment explanation
Indices: 62759219--62759423 Score: 196
Period size: 53 Copynumber: 3.8 Consensus size: 54
62759209 TTTCCTTTTT
* * * * * *
62759219 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCATTACTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * *
62759272 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * ** * *
62759326 GTAACTCATCAATGCCATGTCTTGACATAGTCTTACCTAATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * *
62759381 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
62759424 CTTATCTTAC
Statistics
Matches: 122, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 43 0.35
54 36 0.30
55 43 0.35
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
Found at i:62759342 original size:55 final size:53
Alignment explanation
Indices: 62759230--62759418 Score: 191
Period size: 55 Copynumber: 3.5 Consensus size: 53
62759220 AACTTACCAT
* * * * * *
62759230 TGCCATGTCTTGACATGGTCTTACGTGGTATCATTACTTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
62759283 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * ** * *
62759338 TGCCATGTCTTGACATAGTCTTACCTAATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GGTACCTTGCCTTATAGAACTCATCAA
*
62759392 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
62759419 ATATCCTTAT
Statistics
Matches: 110, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 33 0.30
54 32 0.29
55 42 0.38
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:62765572 original size:53 final size:53
Alignment explanation
Indices: 62765499--62765657 Score: 205
Period size: 53 Copynumber: 3.0 Consensus size: 53
62765489 GAACCTTTTC
* * *
62765499 CTTT-TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTG
1 CTTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
* * *
62765551 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CTTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTG
* *
62765604 CCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CTTTAT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
62765658 AACTGTCAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
52 6 0.07
53 44 0.48
54 1 0.01
55 38 0.42
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
Found at i:62778142 original size:46 final size:46
Alignment explanation
Indices: 62778073--62778248 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
62778063 TATTTGGGCA
*
62778073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
62778119 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
62778166 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
62778212 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62778249 GCAGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 70 0.68
47 33 0.32
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62778228 original size:93 final size:93
Alignment explanation
Indices: 62778069--62778240 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
62778059 GGGATATTTG
* **
62778069 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
62778134 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
62778162 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
62778227 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62778241 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:62781225 original size:30 final size:30
Alignment explanation
Indices: 62781189--62781319 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
62781179 ATTGGTCTCG
* * * * *
62781189 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
62781219 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
62781247 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62781277 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62781306 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62781320 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:62781259 original size:58 final size:58
Alignment explanation
Indices: 62781189--62781320 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
62781179 ATTGGTCTCG
* * * * *
62781189 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
* *
62781247 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
62781306 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
62781321 ATTCACTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:62789177 original size:30 final size:30
Alignment explanation
Indices: 62789141--62789271 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
62789131 GACAAGATTG
* * * * *
62789141 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
62789171 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
62789199 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62789229 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
62789258 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62789272 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:62789232 original size:58 final size:58
Alignment explanation
Indices: 62789141--62789271 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
62789131 GACAAGATTG
* * * * * *
62789141 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
62789199 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
62789258 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62789272 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:62798628 original size:68 final size:64
Alignment explanation
Indices: 62798518--62798770 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 64
62798508 GATACAATAG
* ** * * * *
62798518 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
62798581 ATTA
62 A-TA
* *
62798585 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
62798650 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
62798715 TA
63 TA
* * * *
62798717 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
62798771 CGAACTATAT
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 23 0.15
67 35 0.23
68 46 0.30
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:62798668 original size:64 final size:64
Alignment explanation
Indices: 62798587--62798770 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
62798577 AGACATTATG
* * *
62798587 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
62798651 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
62798716 AA
63 AA
* * *
62798718 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
62798771 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:62814493 original size:40 final size:40
Alignment explanation
Indices: 62814419--62814596 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 40
62814409 GAGTCACGTA
** *
62814419 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
62814458 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* * *
62814498 CTTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * * *
62814538 CCTTCAGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
62814578 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
62814597 GTATCATTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 98 0.85
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:62814584 original size:80 final size:80
Alignment explanation
Indices: 62814419--62814596 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
62814409 GAGTCACGTA
* * *
62814419 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTA
1 CCTTCGGG-TCTTAACCCGGATATAACAACAAGCACAATTGCCTTCAGGTCTTAACCCGGATATA
* * *
62814482 GTAACTTGCACAATTG
65 ATAACTAGCACAAATG
* ** *
62814498 CTTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCAGGTCTTAGCCCGGATATA
1 CCTTCGGGTCTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCAGGTCTTAACCCGGATATA
* *
62814562 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
* *
62814578 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
62814597 GTATCATTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
79 11 0.14
80 67 0.83
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTGCCTTCAGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:62816752 original size:17 final size:18
Alignment explanation
Indices: 62816711--62816753 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
62816701 TGTCAAAGTT
*
62816711 GGATTCTAATAGCTATAA
1 GGATTCAAATAGCTATAA
*
62816729 GGA-TCAAATAGCTATGA
1 GGATTCAAATAGCTATAA
62816746 -GATTCAAA
1 GGATTCAAA
62816754 ATGTGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 17 0.77
18 3 0.14
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (18 bp):
GGATTCAAATAGCTATAA
Found at i:62817935 original size:33 final size:33
Alignment explanation
Indices: 62817841--62817968 Score: 148
Period size: 33 Copynumber: 3.9 Consensus size: 33
62817831 AATGGTACAC
*
62817841 TTGAAAAGGTTATGTACACTTTGTGTGTAAAAT
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
*
62817874 TTGAAAAGGTTATGTCCACTTTGTGTGTACAAT
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
* * ** * *
62817907 TTGAAAAGGCTACGTACACTTTAAGTGTACCAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
** * *
62817940 TTGAAAAGGGAATGTACACCTTGAGTGTA
1 TTGAAAAGGTTATGTACACTTTGTGTGTA
62817969 TGACTGGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (33 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
Found at i:62819748 original size:8 final size:8
Alignment explanation
Indices: 62819735--62819771 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
62819725 CTAGATTGAC
62819735 AAAAGCCG
1 AAAAGCCG
62819743 AAAAGCCG
1 AAAAGCCG
62819751 AAAAGCCG
1 AAAAGCCG
*
62819759 AAATGCCG
1 AAAAGCCG
62819767 AAAAG
1 AAAAG
62819772 TCGGTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:62820270 original size:54 final size:53
Alignment explanation
Indices: 62820188--62820328 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
62820178 AGGAAGCGTC
62820188 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
62820242 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
62820296 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
62820329 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:62820339 original size:27 final size:27
Alignment explanation
Indices: 62820188--62820346 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
62820178 AGGAAGCGTC
*
62820188 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
62820215 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
62820242 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
62820269 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
62820296 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
62820323 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
62820347 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:62821341 original size:16 final size:16
Alignment explanation
Indices: 62821311--62821340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62821301 TGGGTTTACA
62821311 AAAAACAAAGATTTTC
1 AAAAACAAAGATTTTC
62821327 AAAAACAAA-ATTTT
1 AAAAACAAAGATTTT
62821341 TTTTGCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAAACAAAGATTTTC
Found at i:62825543 original size:26 final size:26
Alignment explanation
Indices: 62825514--62825595 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
62825504 TGATACAAAT
*
62825514 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62825540 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62825566 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62825592 TGAT
1 TGAT
62825596 GGAATTTCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62827290 original size:54 final size:53
Alignment explanation
Indices: 62827208--62827348 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
62827198 AGGAAGCGTC
*
62827208 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
62827262 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
62827316 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
62827349 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:62827359 original size:27 final size:27
Alignment explanation
Indices: 62827208--62827366 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
62827198 AGGAAGCGTC
* *
62827208 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
62827235 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
62827262 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
62827289 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
62827316 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
62827343 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
62827367 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 104 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:62831969 original size:163 final size:163
Alignment explanation
Indices: 62831699--62832026 Score: 620
Period size: 163 Copynumber: 2.0 Consensus size: 163
62831689 GAGTTTGGGG
*
62831699 AAACTCAGTGTGTAAATTAACCCAACCATAGCCTATATCGGTTCAAACCACAGAGAACATAATAA
1 AAACTCAGTGTGTAAATTAACCCAACCATAGCCTATATCGGTTCAAACCACAGAGAACAGAATAA
62831764 GTTGGCCTTAGCCCAGAACAGAAGTCAGAATAAAGCCCATAGGCCCATAACAGAACAGAACAGAT
66 GTTGGCCTTAGCCCAGAACAGAAGTCAGAATAAAGCCCATAGGCCCATAACAGAACAGAACAGAT
*
62831829 ATCACAAGTTTATGTAGTACCCAACCCATATCC
131 ATCACAAGTTTATGCAGTACCCAACCCATATCC
* *
62831862 AAACTCAGTGTGTAAATTAACCCAGCCATAGCCTATATCGGTTCAAACCACAGAGAATAGAATAA
1 AAACTCAGTGTGTAAATTAACCCAACCATAGCCTATATCGGTTCAAACCACAGAGAACAGAATAA
62831927 GTTGGCCTTAGCCCAGAACAGAAGTCAGAATAAAGCCCATAGGCCCATAACAGAACAGAACAGAT
66 GTTGGCCTTAGCCCAGAACAGAAGTCAGAATAAAGCCCATAGGCCCATAACAGAACAGAACAGAT
62831992 ATCACAAGTTTATGCAGTACCCAACCCATATCC
131 ATCACAAGTTTATGCAGTACCCAACCCATATCC
62832025 AA
1 AA
62832027 CCGCATGCAC
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (163 bp):
AAACTCAGTGTGTAAATTAACCCAACCATAGCCTATATCGGTTCAAACCACAGAGAACAGAATAA
GTTGGCCTTAGCCCAGAACAGAAGTCAGAATAAAGCCCATAGGCCCATAACAGAACAGAACAGAT
ATCACAAGTTTATGCAGTACCCAACCCATATCC
Found at i:62832173 original size:27 final size:27
Alignment explanation
Indices: 62832119--62832229 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
62832109 AGCATGGTTG
* *
62832119 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
62832145 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
62832172 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
62832199 CCAGATCAGATAATTGTAGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
62832226 CCAG
1 CCAG
62832230 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 15 0.19
27 60 0.78
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:62833675 original size:24 final size:24
Alignment explanation
Indices: 62833640--62833716 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
62833630 CCAACACTGT
*
62833640 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
62833664 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
62833688 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
62833712 TCTCC
1 TCTCC
62833717 TGACAGACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:62837531 original size:40 final size:40
Alignment explanation
Indices: 62837468--62837608 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
62837458 TGAATGATAC
* * * * *
62837468 CCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATTATAT
* * *** *
62837508 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATTATAT
* *
62837548 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATTATAT
62837588 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
62837609 TTCGTGCACG
Statistics
Matches: 80, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATTATAT
Found at i:62837629 original size:40 final size:40
Alignment explanation
Indices: 62837502--62837631 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62837492 ATGCTGGAAA
* *
62837502 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
62837542 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
62837582 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
62837622 TTATATCCGG
1 TTATATCCGG
62837632 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:62839069 original size:15 final size:15
Alignment explanation
Indices: 62839049--62839089 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
62839039 TTGTAAATTT
*
62839049 GATTTCCTTATCATG
1 GATTTCTTTATCATG
*
62839064 GATTTCTTTATCTTG
1 GATTTCTTTATCATG
62839079 GATTTCTTTAT
1 GATTTCTTTAT
62839090 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (15 bp):
GATTTCTTTATCATG
Found at i:62839788 original size:14 final size:15
Alignment explanation
Indices: 62839769--62839797 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62839759 AAAGTTCATA
62839769 TGGA-TTTTCTTGTC
1 TGGATTTTTCTTGTC
62839783 TGGATTTTTCTTGTC
1 TGGATTTTTCTTGTC
62839798 CTTGAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.59
Consensus pattern (15 bp):
TGGATTTTTCTTGTC
Found at i:62846405 original size:15 final size:15
Alignment explanation
Indices: 62846385--62846417 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
62846375 CAAACGTGAA
*
62846385 TAAGTCCAAGGTTTC
1 TAAGTCCAAGGTCTC
62846400 TAAGTCCAAGGTCTC
1 TAAGTCCAAGGTCTC
62846415 TAA
1 TAA
62846418 ATGATCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (15 bp):
TAAGTCCAAGGTCTC
Found at i:62853915 original size:10 final size:10
Alignment explanation
Indices: 62853896--62853928 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
62853886 TTGACCACCA
62853896 TTGACC-ATG
1 TTGACCTATG
62853905 TTGACCTATG
1 TTGACCTATG
*
62853915 TTGACCTACG
1 TTGACCTATG
62853925 TTGA
1 TTGA
62853929 TTGGTCGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (10 bp):
TTGACCTATG
Found at i:62854086 original size:27 final size:27
Alignment explanation
Indices: 62854018--62854096 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
62854008 TAAAATTAAT
* *
62854018 TTAAAATATTAAAAAATTGTAAAAGTTC
1 TTAAAAT-GTAAAAAATTGTAAAAGTGC
* *
62854046 TTAAAATGCAAAAAAATTGTAATAGTGC
1 TTAAAATG-TAAAAAATTGTAAAAGTGC
62854074 TTAAAATGTAAAAAATTGTAAAA
1 TTAAAATGTAAAAAATTGTAAAA
62854097 ACTACAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 13 0.30
28 31 0.70
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (27 bp):
TTAAAATGTAAAAAATTGTAAAAGTGC
Found at i:62854432 original size:15 final size:16
Alignment explanation
Indices: 62854407--62854440 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
62854397 AAAGATGTAA
62854407 AAATGTAAAAATCATT
1 AAATGTAAAAATCATT
*
62854423 AAAT-TAAAAATGATT
1 AAATGTAAAAATCATT
62854438 AAA
1 AAA
62854441 GTTGCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATGTAAAAATCATT
Found at i:62858481 original size:27 final size:27
Alignment explanation
Indices: 62858451--62858712 Score: 317
Period size: 27 Copynumber: 9.7 Consensus size: 27
62858441 TGTAGGGTAG
**
62858451 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
62858478 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
**
62858505 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
62858532 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * **
62858559 AATTACCAAAATACCTTTAGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * *
62858586 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
** * **
62858613 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* **
62858640 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
62858667 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
62858694 AATTACCAAAATACCCTTG
1 AATTACCAAAATACCCTTG
62858713 TAGGGTAGAA
Statistics
Matches: 193, Mismatches: 42, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:62858490 original size:54 final size:53
Alignment explanation
Indices: 62858416--62858725 Score: 282
Period size: 54 Copynumber: 5.7 Consensus size: 53
62858406 TAATACTTTA
*** * *
62858416 GTTTACAAAATTATTGAAATACTCCTGTAGGGTAGAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGT-GGGTAAAATTACCAAAATACCCTTG
**
62858470 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCT-GTGGGTAAAATTACCAAAATACCCTTG
** * *
62858524 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTA
1 GTTTACAAAATTACCAAAATACCCCT-GTGGGTAAAATTACCAAAATACCCTTG
** * ** *
62858578 GTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCG
1 GTTTACAAAATTACCAAAATACCCCTG-TGGGTAAAATTACCAAAATACCCTTG
** ** * * *
62858632 ACTTGTAAAATTACCAAAATA-CCAT-TGGTTTACAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTACCAAAATACCCCTGTGG-GT--AAAATTACCAAAATACCCTTG
** * *
62858686 GTTTGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTA
1 GTTTACAAAATTACCAAAATACCCCTGT-GGGTAAAATTA
62858726 TTGAAGTACC
Statistics
Matches: 214, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 4 0.02
54 199 0.93
55 5 0.02
56 2 0.01
57 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (53 bp):
GTTTACAAAATTACCAAAATACCCCTGTGGGTAAAATTACCAAAATACCCTTG
Found at i:62858724 original size:27 final size:27
Alignment explanation
Indices: 62858694--62858835 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 27
62858684 TGGTTTGTAA
*
62858694 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
62858721 AATTATTGAAGTACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
62858748 AGTTACCGAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
62858775 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
62858802 AATTACCGAGATACCCTTCTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
62858829 AATTACC
1 AATTACC
62858836 ATTTTGCCTC
Statistics
Matches: 93, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:62858835 original size:81 final size:81
Alignment explanation
Indices: 62858665--62858836 Score: 179
Period size: 81 Copynumber: 2.1 Consensus size: 81
62858655 ATTGGTTTAC
* * **
62858665 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTAGGGTAGAATTATTGA
1 AAAATTACCAAAATACCCCTGGTTGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGA
*
62858730 AGTACCCCTGTAAGGT
66 AGTACCCCTCTAAGGT
* * * * *
62858746 AGAGTTACCGAAATA-CCCTTGTATGGTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACC
1 AAAATTACCAAAATACCCCTGGT-TGGTA-AAATTACCAAAATACCCCTGTAGGGTAGAATTACC
* **
62858809 G-AGATACCCTTCTGGGGT
64 GAAG-TACCCCTCTAAGGT
62858827 AAAATTACCA
1 AAAATTACCA
62858837 TTTTGCCTCT
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
80 8 0.11
81 61 0.85
82 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGGTTGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGA
AGTACCCCTCTAAGGT
Found at i:62859086 original size:24 final size:24
Alignment explanation
Indices: 62859040--62859111 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
62859030 AGGAAGTGCG
*
62859040 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAAGGCTTTGCCCCAG-TTATCA
*
62859065 AAAAAGGCTTTGCCCCAGTTATTA
1 AAAAAGGCTTTGCCCCAGTTATCA
* **
62859089 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAAAGGCTTTGCC-CCAGTTAT
62859112 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 16 0.39
25 25 0.61
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTATCA
Found at i:62863062 original size:40 final size:40
Alignment explanation
Indices: 62862967--62863184 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
62862957 TGGATGATAA
*
62862967 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
62863008 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62863048 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62863088 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
62863128 CCAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
62863167 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62863185 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.10
39 14 0.09
40 100 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62871170 original size:39 final size:40
Alignment explanation
Indices: 62871028--62871244 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
62871018 TGGATGATAA
* *
62871028 CCGGGCTAAGTCCCGAAGGCATTTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
62871070 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
62871110 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62871150 CCGGG-TAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62871189 CCGGGCTATGTCCCGAAGGCA-TT-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
62871227 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62871245 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
37 15 0.10
38 13 0.08
39 39 0.25
40 63 0.40
42 27 0.17
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62871191 original size:79 final size:78
Alignment explanation
Indices: 62871028--62871244 Score: 269
Period size: 79 Copynumber: 2.7 Consensus size: 78
62871018 TGGATGATAA
*
62871028 CCGGGCTAAGTCCCGAAGGCATTTTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCA-TTTTGCG--AGTTACTA-TATCCGGG-TAAGTCCCGAAGGCAT
* * *
62871092 TTGTGTGAGTTATTACAT
61 TGGTGCGAGTTACTACAT
62871110 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTAAGTCCCGAAGGCATTGGT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATATCCGGGTAAGTCCCGAAGGCATTGGT
*
62871175 GCGAGTTACTATAT
65 GCGAGTTACTACAT
* * * *
62871189 CCGGGCTATGTCCCGAAGGCA-TTAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTA-CTATATCCGGGTAAGTCCCGAAGG
62871245 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
76 2 0.02
77 27 0.22
78 2 0.02
79 51 0.41
80 13 0.11
81 3 0.02
82 25 0.20
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGAGTTACTATATCCGGGTAAGTCCCGAAGGCATTGGTG
CGAGTTACTACAT
Found at i:62873195 original size:40 final size:40
Alignment explanation
Indices: 62873087--62873196 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
62873077 ATTGAATGAT
* * * * *
62873087 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
62873127 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
62873167 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
62873197 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:62873211 original size:40 final size:39
Alignment explanation
Indices: 62873087--62873236 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
62873077 ATTGAATGAT
* * * * * * *
62873087 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
62873127 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
62873167 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
62873207 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
62873237 GGTTACCATA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:62881519 original size:40 final size:40
Alignment explanation
Indices: 62881337--62881631 Score: 513
Period size: 40 Copynumber: 7.7 Consensus size: 40
62881327 ATACACAAAG
62881337 GCCTTCGGG-CTTAGCCCGGATATATC-ACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881375 GCCTTC-GGTCTTAGCCCGGATATAT-AACT--CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881411 GCCTTCGGGTCTTAGCCC-GATATATCAACTCGCACG-AT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881449 GCCTTC--GTCTTAGCCC-GATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881486 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881526 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881566 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
62881606 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
62881632 TTCCAATGTT
Statistics
Matches: 247, Mismatches: 0, Indels: 18
0.93 0.00 0.07
Matches are distributed among these distances:
36 48 0.19
37 25 0.10
38 33 0.13
39 14 0.06
40 127 0.51
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:62888733 original size:40 final size:40
Alignment explanation
Indices: 62888625--62888994 Score: 616
Period size: 40 Copynumber: 9.2 Consensus size: 40
62888615 CGGGATTTAA
* * * * *
62888625 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * ** * *
62888665 CCGGATTTGGT-GACTTACACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888705 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888745 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888785 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888825 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888865 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888905 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888945 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62888985 CCGGATATAT
1 CCGGATATAT
62888995 TTCCAATGTT
Statistics
Matches: 311, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 310 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62891136 original size:40 final size:40
Alignment explanation
Indices: 62891028--62891137 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
62891018 ATTGAATGAT
* * * * *
62891028 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
62891068 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
62891108 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
62891138 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:62891152 original size:40 final size:39
Alignment explanation
Indices: 62891028--62891177 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
62891018 ATTGAATGAT
* * * * * * *
62891028 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
62891068 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
62891108 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
62891148 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
62891178 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:62896147 original size:24 final size:25
Alignment explanation
Indices: 62896130--62896186 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
62896120 TCATTAGGGT
62896130 TACCGATTTATAGCTCATGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
* *
62896155 TACTGATTTATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
62896180 TACCGAT
1 TACCGAT
62896187 CTTCAGCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (25 bp):
TACCGATTTATAGCTCATGAGAGCA
Found at i:62896194 original size:25 final size:25
Alignment explanation
Indices: 62896130--62896232 Score: 95
Period size: 25 Copynumber: 4.1 Consensus size: 25
62896120 TCATTAGGGT
*
62896130 TACCGATTTATAGCTCATGAGAGCA
1 TACCGATTTACAGCTCATGAGAGCA
* * *
62896155 TACTGATTTATAGCTCGTGAGAGCA
1 TACCGATTTACAGCTCATGAGAGCA
*
62896180 TACCGATCTT-CAGCTCA-AATGAGCA
1 TACCGAT-TTACAGCTCATGA-GAGCA
* *
62896205 TGCCGATTCACAGCTCAT-ATGAGCA
1 TACCGATTTACAGCTCATGA-GAGCA
62896230 TAC
1 TAC
62896233 ATGTACATCA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
24 2 0.03
25 61 0.94
26 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
TACCGATTTACAGCTCATGAGAGCA
Found at i:62899273 original size:39 final size:39
Alignment explanation
Indices: 62899206--62899384 Score: 216
Period size: 39 Copynumber: 4.5 Consensus size: 39
62899196 ACAAAGCATG
* * *
62899206 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
62899246 CGGGACTTTAGCCCGAATATTACACCAGCACGAATGCGTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
62899286 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
62899325 CAGGACTTAGCCCAGATATAACACCATCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62899364 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
62899385 TTCTCCATTA
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 102 0.84
40 19 0.16
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:62899907 original size:110 final size:110
Alignment explanation
Indices: 62899714--62899933 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
62899704 TGTGGATAGG
*
62899714 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAACT
1 CTACTCGATTGCTTTCTCCTTTACCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAACT
*
62899779 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATAAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
62899824 CTACTCGATTGCTTTCTCCTTTACCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTACCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAACT
62899889 TAAACAAATAAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATAAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
62899934 AATAGTCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTTACCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAACT
TAAACAAATAAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:62901839 original size:40 final size:40
Alignment explanation
Indices: 62901760--62901936 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
62901750 CGAATGATAA
* * * *
62901760 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
62901800 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
62901840 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
62901880 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
62901920 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
62901937 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:62902204 original size:22 final size:22
Alignment explanation
Indices: 62902164--62902205 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
62902154 GAATGTGCAT
*
62902164 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
62902186 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
62902206 TTAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:62907420 original size:27 final size:27
Alignment explanation
Indices: 62907387--62907767 Score: 347
Period size: 27 Copynumber: 14.1 Consensus size: 27
62907377 GTCGTTAAGA
62907387 CCCCGGTTTGTAAAATTACTGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
** *
62907414 CTTCGGTTTGTAAAATTA-TCAAAATAC
1 CCCCGGTTTGTAAAATTACT-GAAATAC
** * *
62907441 CTTCAGTTTGTAAAATTACCGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* *
62907468 CCTCAGTTTGTAAAATTA-TCGAAATAC
1 CCCCGGTTTGTAAAATTACT-GAAATAC
* * **
62907495 CCCTGATTTGTAAAATTACCAAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* **
62907522 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* * *
62907549 ACCCAGTTTGTAAAATTACCGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* * ** *
62907576 CCTCGATTTGTAAAATTACCAAAATTC
1 CCCCGGTTTGTAAAATTACTGAAATAC
**
62907603 CCCTAGTTTGTAAAATTACTGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* ** * *
62907630 CCTCGAATTATAAAATTATTGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* * *
62907657 CCTCAGTTTGTAAAATTATTGAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
* * *
62907684 CTCCGATTTGTAAAATTACTAAAATAC
1 CCCCGGTTTGTAAAATTACTGAAATAC
*
62907711 CCCCAGTTTGTAAAATTA-TCGAAATAC
1 CCCCGGTTTGTAAAATTACT-GAAATAC
*
62907738 CCCCGATTTGTAAAATTA-TCGAAATAC
1 CCCCGGTTTGTAAAATTACT-GAAATAC
62907765 CCC
1 CCC
62907768 TATAGTGTAA
Statistics
Matches: 294, Mismatches: 55, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 292 0.99
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
CCCCGGTTTGTAAAATTACTGAAATAC
Found at i:62907477 original size:54 final size:53
Alignment explanation
Indices: 62907386--62907821 Score: 461
Period size: 54 Copynumber: 8.1 Consensus size: 53
62907376 GGTCGTTAAG
* * * *
62907386 ACCCCGGTTTGTAAAATTACTGAAATACCTTCGGTTTGTAAAATTATCAAAAT
1 ACCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAAT
* *
62907439 ACCTTCAGTTTGTAAAATTACCGAAATACCCTC-AGTTTGTAAAATTATCGAAAT
1 ACC-CCAGTTTGTAAAATTACCGAAATACCCTCGA-TTTGTAAAATTATCAAAAT
* * * *
62907493 ACCCCTGATTTGTAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAAT
1 ACCCCAG-TTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTATCAAAAT
*
62907547 ACACCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAAT
1 AC-CCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAAT
* * * * **
62907601 TCCCCTAGTTTGTAAAATTACTGAAATACCCTCGAATTATAAAATTATTGAAAT
1 ACCCC-AGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAAT
**
62907655 ACCCTCAGTTTGTAAAATTATTGAAATA-CCTCCGATTTGTAAAATTA-CTAAAAT
1 ACCC-CAGTTTGTAAAATTACCGAAATACCCT-CGATTTGTAAAATTATC-AAAAT
* * *
62907709 ACCCCCAGTTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAAT
1 A-CCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAAT
* * * * * *
62907763 ACCCCTA-TAGTGTAAAATTATCAAAATACCCT-TATAGTGTAAAATTACCAAAAT
1 ACCCC-AGT-TTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTATCAAAAT
62907817 ACCCC
1 ACCCC
62907822 TGTAGGGTAA
Statistics
Matches: 328, Mismatches: 38, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
53 19 0.06
54 297 0.91
55 12 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
ACCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAAT
Found at i:62907531 original size:81 final size:80
Alignment explanation
Indices: 62907392--62907820 Score: 449
Period size: 81 Copynumber: 5.3 Consensus size: 80
62907382 TAAGACCCCG
* * *
62907392 GTTTGTAAAATTA-CTGAAATACCTTCGGTTTGTAAAATTATCAAAATA-CCTTCAGTTTGTAAA
1 GTTTGTAAAATTATC-GAAATACCCT-GATTTGTAAAATTATCAAAATACCCCT-AGTTTGTAAA
*
62907455 ATTACCGAAATACCCTCA
63 ATTACCAAAATACCCTCA
* *
62907473 GTTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAAT
1 GTTTGTAAAATTATCGAAATA-CCCTGATTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAAT
62907538 TACCAAAATACACC-CA
65 TACCAAAATAC-CCTCA
* * *
62907554 GTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATTCCCCTAGTTTGTAAAAT
1 GTTTGTAAAATTATCGAAATACCCT-GATTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAAT
**
62907619 TACTGAAATACCCTC-
65 TACCAAAATACCCTCA
* * * * ** *
62907634 GAATTATAAAATTATTGAAATACCCTCAGTTTGTAAAATTATTGAAATACCTCCGA-TTTGTAAA
1 G-TTTGTAAAATTATCGAAATACCCTGA-TTTGTAAAATTATCAAAATACC-CCTAGTTTGTAAA
* *
62907698 ATTACTAAAATACCCCCA
63 ATTACCAAAATACCCTCA
* * *
62907716 GTTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAATACCCCTA-TAGTGTAAAA
1 GTTTGTAAAATTATCGAAATA-CCCTGATTTGTAAAATTATCAAAATACCCCTAGT-TTGTAAAA
* *
62907780 TTATCAAAATACCCTTA
64 TTACCAAAATACCCTCA
* * *
62907797 -TAGTGTAAAATTACCAAAATACCC
1 GT-TTGTAAAATTATCGAAATACCC
62907821 CTGTAGGGTA
Statistics
Matches: 297, Mismatches: 38, Indels: 27
0.82 0.10 0.07
Matches are distributed among these distances:
80 16 0.05
81 264 0.89
82 17 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
GTTTGTAAAATTATCGAAATACCCTGATTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATT
ACCAAAATACCCTCA
Found at i:62907776 original size:27 final size:26
Alignment explanation
Indices: 62907393--62907822 Score: 346
Period size: 27 Copynumber: 16.0 Consensus size: 26
62907383 AAGACCCCGG
* * **
62907393 TTTGTAAAATTACTGAAATACCTTCGG
1 TTTGTAAAATTACCGAAATACC-CCTA
* * *
62907420 TTTGTAAAATTATCAAAATA-CCTTCA
1 TTTGTAAAATTACCGAAATACCCCT-A
62907446 GTTTGTAAAATTACCGAAATA-CCCTCA
1 -TTTGTAAAATTACCGAAATACCCCT-A
*
62907473 GTTTGTAAAATTATCGAAATACCCCTGA
1 -TTTGTAAAATTACCGAAATACCCCT-A
* *
62907501 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACCGAAATACCCCT-A
*
62907528 TTTGTAAAATTACCAAAATACACCC-A
1 TTTGTAAAATTACCGAAATAC-CCCTA
*
62907554 GTTTGTAAAATTACCGAAATACCCTCGA
1 -TTTGTAAAATTACCGAAATACCC-CTA
* *
62907582 TTTGTAAAATTACCAAAATTCCCCTA
1 TTTGTAAAATTACCGAAATACCCCTA
* *
62907608 GTTTGTAAAATTACTGAAATACCCTCGA
1 -TTTGTAAAATTACCGAAATACCC-CTA
* * **
62907636 ATTATAAAATTATTGAAATA-CCCTCA
1 TTTGTAAAATTACCGAAATACCCCT-A
** *
62907662 GTTTGTAAAATTATTGAAATACCTCCGA
1 -TTTGTAAAATTACCGAAATACC-CCTA
** *
62907690 TTTGTAAAATTACTAAAATACCCCCA
1 TTTGTAAAATTACCGAAATACCCCTA
* *
62907716 GTTTGTAAAATTATCGAAATACCCCCGA
1 -TTTGTAAAATTACCGAAATA-CCCCTA
*
62907744 TTTGTAAAATTATCGAAATACCCCTA
1 TTTGTAAAATTACCGAAATACCCCTA
* * * *
62907770 TAGTGTAAAATTATCAAAATACCCTTA
1 T-TTGTAAAATTACCGAAATACCCCTA
* *
62907797 TAGTGTAAAATTACCAAAATACCCCT
1 T-TTGTAAAATTACCGAAATACCCCT
62907823 GTAGGGTAAA
Statistics
Matches: 343, Mismatches: 44, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
25 1 0.00
26 17 0.05
27 305 0.89
28 18 0.05
29 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCCTA
Found at i:62908278 original size:27 final size:27
Alignment explanation
Indices: 62908228--62908316 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
62908218 GCTATCTTGA
* **
62908228 CTATGGCTTTGTGCCAATTGTATTTAC
1 CTATGGCTATGTGCCAATCATATTTAC
*
62908255 CTATGGCTATGTGCCTATCATATTTA-
1 CTATGGCTATGTGCCAATCATATTTAC
* * * *
62908281 CTGATGACTCTGTGTCGATCATATTTAC
1 CT-ATGGCTATGTGCCAATCATATTTAC
*
62908309 CCATGGCT
1 CTATGGCT
62908317 GTGTATCGAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.04
27 47 0.94
28 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (27 bp):
CTATGGCTATGTGCCAATCATATTTAC
Found at i:62908325 original size:27 final size:27
Alignment explanation
Indices: 62908248--62908332 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
62908238 GTGCCAATTG
* * *
62908248 TATTTACCTATGGCTATGTGCCTATCA
1 TATTTACCCATGGCTATGTGTCGATCA
** * *
62908275 TATTTACTGATGACTCTGTGTCGATCA
1 TATTTACCCATGGCTATGTGTCGATCA
* * *
62908302 TATTTACCCATGGCTGTGTATCGATTA
1 TATTTACCCATGGCTATGTGTCGATCA
62908329 TATT
1 TATT
62908333 ACCGTCGCTG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.42
Consensus pattern (27 bp):
TATTTACCCATGGCTATGTGTCGATCA
Found at i:62908671 original size:27 final size:27
Alignment explanation
Indices: 62908612--62908671 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
62908602 AGATAGGCTA
* *
62908612 GGCCCAATTGATTCTGTTATGGGCTGT
1 GGCCCAAATGATTCTGTAATGGGCTGT
* *
62908639 GACCCAAATGATAT-TGTAATGGGCTTT
1 GGCCCAAATGAT-TCTGTAATGGGCTGT
62908666 GGCCCA
1 GGCCCA
62908672 TGTAAGCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (27 bp):
GGCCCAAATGATTCTGTAATGGGCTGT
Found at i:62911713 original size:40 final size:39
Alignment explanation
Indices: 62911622--62911772 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
62911612 ATCACGATTT
* *
62911622 GCACAAATGCCTTCGGATCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
62911662 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
62911702 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
62911742 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
62911773 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:62915164 original size:60 final size:60
Alignment explanation
Indices: 62915065--62915206 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
62915055 CAGAGTTAAG
* * * * *
62915065 TGGGCCTTAGCCCATATCAATTTTAATTTGGGCCATAGCC-CCTTAC-AGTTTCAGAATATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCGCATTACAAG-TTCAG-ATATAT
* * * *
62915126 TGGGCCTAGCCCATATCAGTATCAATCTAGGCCGTAGCCGTATTACAAGTTGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCGCATTACAAGTTCAGATATAT
* *
62915186 TGGGCCTTGCCCATATTAATA
1 TGGGCCTAGCCCATATCAATA
62915207 CAGTTGGGCC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 51 0.76
61 14 0.21
62 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCGCATTACAAGTTCAGATATAT
Found at i:62915237 original size:19 final size:20
Alignment explanation
Indices: 62915194--62915239 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
62915184 ATTGGGCCTT
62915194 GCCCATATTAATACAGTTGG
1 GCCCATATTAATACAGTTGG
62915214 GCCCAT-TTCAATACAGTT-G
1 GCCCATATT-AATACAGTTGG
62915233 GCCCATA
1 GCCCATA
62915240 ACAAAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAATACAGTTGG
Found at i:62917334 original size:3 final size:3
Alignment explanation
Indices: 62917326--62917369 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
62917316 TAACATACTA
62917326 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62917370 CATCCAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62919405 original size:25 final size:25
Alignment explanation
Indices: 62919371--62919428 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
62919361 TCATGTACAT
*
62919371 GTATGCTCATACGAGCTG-TGAGTCG
1 GTATGCTCATACGAGCTGAAGA-TCG
**
62919396 GTATGCTCATTTGAGCTGAAGATCG
1 GTATGCTCATACGAGCTGAAGATCG
62919421 GTATGCTC
1 GTATGCTC
62919429 TCACAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGAAGATCG
Found at i:62933921 original size:21 final size:20
Alignment explanation
Indices: 62933897--62933935 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
62933887 TTGTATAACT
62933897 ATCATCAAACATTCAAAATCA
1 ATCATCAAACA-TCAAAATCA
*
62933918 ATCATTAAACATCAAAAT
1 ATCATCAAACATCAAAAT
62933936 ACTGATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.26
Consensus pattern (20 bp):
ATCATCAAACATCAAAATCA
Found at i:62943566 original size:50 final size:50
Alignment explanation
Indices: 62943512--62943748 Score: 312
Period size: 50 Copynumber: 4.7 Consensus size: 50
62943502 CTGGTATGCA
* * *
62943512 TAGTAGCCTACACTTAGTACTACACATGCGACCTAATAATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
62943562 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * * *
62943612 TAGTAGCCTACACTTAGTACTACACGCGTGATCAAAGCTATCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* ** * *
62943663 TAATAGCCTGTACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
62943713 TAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAA
62943749 AACCGTCTTA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
50 119 0.76
51 37 0.24
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:62943687 original size:101 final size:100
Alignment explanation
Indices: 62943512--62943745 Score: 308
Period size: 101 Copynumber: 2.3 Consensus size: 100
62943502 CTGGTATGCA
* * * * * *
62943512 TAGTAGCCTACACTTAGTACTACACATGCGACCTAATAATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAAATAATCGGGTACACATAATAGCCTACACTT
* *
62943577 AGTACTACACACGTGACCTAACCATCTGATACACG
66 AGTACTACACACGCGACCTAACAATCTGATACACG
* * * **
62943612 TAGTAGCCTACACTTAGTACTACACGCGTGATCAAAGCT-ATCGGGTACGCATAATAGCCTGTAC
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAAA--TAATCGGGTACACATAATAGCCTACAC
* *
62943676 TTAGTACTACACATGCGACCTAACAATCTGGTACACG
64 TTAGTACTACACACGCGACCTAACAATCTGATACACG
62943713 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACACGTGACC
62943746 TAAAACCGTC
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 31 0.27
101 83 0.72
102 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAAATAATCGGGTACACATAATAGCCTACACTT
AGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:62946517 original size:9 final size:9
Alignment explanation
Indices: 62946503--62946530 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
62946493 AATAGAGACT
62946503 AAATTGTAA
1 AAATTGTAA
62946512 AAATTGTAA
1 AAATTGTAA
62946521 AAATTGTAA
1 AAATTGTAA
62946530 A
1 A
62946531 TGTCAGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (9 bp):
AAATTGTAA
Found at i:62950501 original size:2 final size:2
Alignment explanation
Indices: 62950494--62950519 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62950484 ATCATACTTG
62950494 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
62950520 CGCAAGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62950632 original size:15 final size:14
Alignment explanation
Indices: 62950614--62950668 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
62950604 TCCATAACGG
62950614 AGAAATCCAAAATA
1 AGAAATCCAAAATA
**
62950628 TAGAAATCCATCATAA
1 -AGAAATCCAAAAT-A
*
62950644 AGAAATCCAAAACA
1 AGAAATCCAAAATA
62950658 AGAAAATCCAA
1 AG-AAATCCAA
62950669 TCAACTTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 3 0.09
15 29 0.88
16 1 0.03
ACGTcount: A:0.60, C:0.18, G:0.07, T:0.15
Consensus pattern (14 bp):
AGAAATCCAAAATA
Found at i:62951999 original size:38 final size:38
Alignment explanation
Indices: 62951915--62952038 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
62951905 GGCACGAAGG
* * * *
62951915 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
62951953 CCCTGATATAATACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * *
62951991 CTCGGATATTTTACCAGCATGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
62952030 GCCCGGATA
1 -CCCGGATA
62952039 CACATCAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
38 58 0.83
39 5 0.07
40 7 0.10
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:62964180 original size:74 final size:74
Alignment explanation
Indices: 62964054--62964207 Score: 247
Period size: 74 Copynumber: 2.1 Consensus size: 74
62964044 CTTAGTACTA
* *
62964054 CACACGTGATCGAAGCTATCGGGTACGCATAGTAGCCTGTACTTAGCACTACACATGCAACCCAA
1 CACACGTGATCGAAGCTATCAGGTACGCATAGTAGCCTGGACTTAGCACTACACATGCAACCCAA
62964119 CAATCTGGT
66 CAATCTGGT
* * * *
62964128 CACATGTGATCGAAGCTATCAGGTACGCATAGTAGCCTGGACTTAGTACTACACATGCGACCTAA
1 CACACGTGATCGAAGCTATCAGGTACGCATAGTAGCCTGGACTTAGCACTACACATGCAACCCAA
62964193 CAATCTGGT
66 CAATCTGGT
62964202 -ACACGT
1 CACACGT
62964208 AGTAGCCTAC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 5 0.07
74 68 0.93
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (74 bp):
CACACGTGATCGAAGCTATCAGGTACGCATAGTAGCCTGGACTTAGCACTACACATGCAACCCAA
CAATCTGGT
Found at i:62964211 original size:50 final size:50
Alignment explanation
Indices: 62964155--62964286 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
62964145 ATCAGGTACG
* **
62964155 CATAGTAGCCTGGACTTAGTACTACACATGCGACCTAACAA-TCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-AACTCTGAAACA
* * * * *
62964205 CGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAA-C-TCTGAAACA
*
62964257 CATAGTAGCCTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
62964287 TGTTCTCACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 33 0.49
52 32 0.48
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAACTCTGAAACA
Found at i:62967797 original size:48 final size:48
Alignment explanation
Indices: 62967722--62968181 Score: 278
Period size: 48 Copynumber: 9.5 Consensus size: 48
62967712 TCCACATATC
* * * ** *
62967722 GATGCCATATCCCGGATATGGTCTTATA-TGAAATCTCATATCAGTGCT
1 GATGCCATATCCCAGACATGGTCTTATATTG-AATCACATATCAACGCA
* * **
62967770 GATGCCATGTCCCAGACATGGTTTTATATTGGCTCACATATCAACGCA
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* * * ** * *
62967818 GATGCCATATCCCAGACATGGTCCTACACTGGCTCACATATCAACACC
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* * * ** *
62967866 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* * * * ** *
62967914 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCC
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* * * ** * * *
62967962 GATGCTATGTCCCAGACATGGTCTTACATTGGCTCACATATTAATGCT
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* ** * * * **
62968010 GATGCCATGTATCAGACTATAGTCTTACACTGGCTCACATATCAACGTC-
1 GATGCCATATCCCAGAC-ATGGTCTTATATTGAATCACATATCAACG-CA
* * * ** * * *
62968059 GATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATATTAATGCT
1 GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
* ** * * * **
62968107 GATGCCATGTATCAGACTATAGTCTTACACTGGCTCACATATCAACGTC-
1 GATGCCATATCCCAGAC-ATGGTCTTATATTGAATCACATATCAACG-CA
* *
62968156 GATGCCATGTCTCAGACATGGTCTTA
1 GATGCCATATCCCAGACATGGTCTTA
62968182 CATGGGTTCT
Statistics
Matches: 362, Mismatches: 44, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
47 1 0.00
48 275 0.76
49 84 0.23
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATATCCCAGACATGGTCTTATATTGAATCACATATCAACGCA
Found at i:62968077 original size:97 final size:96
Alignment explanation
Indices: 62967770--62968184 Score: 596
Period size: 97 Copynumber: 4.3 Consensus size: 96
62967760 TATCAGTGCT
* * * * *
62967770 GATGCCATGTCCCAGACATGGTTTTATATTGGCTCACATATCAACGCAGATGCCATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCAACGCTGATGCCATGTACCAGAC
* * *
62967835 ATGGTCCTACACTGGCTCACATATCAACACC
66 ATAGTCTTACACTGGCTCACATATCAACGCC
* * * *
62967866 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCTATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCAACGCTGATGCCATGTACCAGAC
*
62967931 ATGGTCTTACACTGGCTCACATATCAACGCC
66 ATAGTCTTACACTGGCTCACATATCAACGCC
* * * *
62967962 GATGCTATGTCCCAGACATGGTCTTACATTGGCTCACATATTAATGCTGATGCCATGTATCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCAACGCTGATGCCATGTACCAGAC
*
62968027 TATAGTCTTACACTGGCTCACATATCAACGTC
66 -ATAGTCTTACACTGGCTCACATATCAACGCC
* * * *
62968059 GATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATATTAATGCTGATGCCATGTATCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCAACGCTGATGCCATGTACCAGAC
*
62968124 TATAGTCTTACACTGGCTCACATATCAACGTC
66 -ATAGTCTTACACTGGCTCACATATCAACGCC
*
62968156 GATGCCATGTCTCAGACATGGTCTTACAT
1 GATGCCATGTCCCAGACATGGTCTTACAT
62968185 GGGTTCTCAT
Statistics
Matches: 298, Mismatches: 20, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
96 145 0.49
97 153 0.51
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATATCAACGCTGATGCCATGTACCAGAC
ATAGTCTTACACTGGCTCACATATCAACGCC
Found at i:62985550 original size:39 final size:40
Alignment explanation
Indices: 62985450--62985632 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
62985440 TCGAATGATG
* * *
62985450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
62985490 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
62985530 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
62985569 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
** *
62985610 -CCGGGCTTCGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62985633 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:62985614 original size:79 final size:81
Alignment explanation
Indices: 62985450--62985634 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
62985440 TCGAATGATG
* * *
62985450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
62985514 CGTGCGAGTTAATAAA
66 CGTGCGAGTCAATAAA
* **
62985530 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
62985592 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATA-AA
** *
62985610 -CCGGGCTTCGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62985635 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATAAA
Found at i:62985665 original size:79 final size:79
Alignment explanation
Indices: 62985450--62985667 Score: 174
Period size: 79 Copynumber: 2.7 Consensus size: 79
62985440 TCGAATGATG
* * * * ** *
62985450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
62985513 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
62985530 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
62985595 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * * ** * *
62985610 -CCGGGCTTCGTCCTGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
62985668 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
79 69 0.62
80 43 0.38
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:62996851 original size:5 final size:5
Alignment explanation
Indices: 62996841--62996881 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
62996831 AGACAAAGAT
62996841 GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG G
1 GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG GGGTG G
62996882 CGGCAATCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (5 bp):
GGGTG
Found at i:63000262 original size:25 final size:24
Alignment explanation
Indices: 63000225--63000276 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
63000215 TTGAAAAATA
** *
63000225 TTTAATTTTTTTTCATTTATGTAAT
1 TTTAATTAATTTTCATTT-TATAAT
*
63000250 TTTAATTAATTTTTATTTTATAAT
1 TTTAATTAATTTTCATTTTATAAT
63000274 TTT
1 TTT
63000277 TTATAACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATTAATTTTCATTTTATAAT
Found at i:63001648 original size:108 final size:106
Alignment explanation
Indices: 63001455--63001662 Score: 272
Period size: 108 Copynumber: 1.9 Consensus size: 106
63001445 TAAGGCCAAG
** * *
63001455 CAGGAACTACTATAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAACTTTGCTGACAGTAC
1 CAGGAACTACTATAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCAATAACTTTGCTGACAGTAC
** * *
63001520 ATCCTACTTGGAGTGTTTTTGACACTAGTTTTTTTATTTTTT
66 ATCCTACTTAAAGCGCTTTTGACACTA-TTTTTTTATTTTTT
* * * *
63001562 CAGGAACTACTGTAGAAAAAAGAACGTCCACGTAGGAGCTTTTTTCAATAATTTTGTTGACAGTG
1 CAGGAACTACTATAG-AAAAAGAACGTCCACGTAGGAGCTTTTTTCAATAACTTTGCTGACAGTA
* *
63001627 CATCCTGCTTAAAGCGCTTTTGGCACTATTTTTTTA
65 CATCCTACTTAAAGCGCTTTTGACACTATTTTTTTA
63001663 GAACCGTCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 22 0.26
108 64 0.74
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (106 bp):
CAGGAACTACTATAGAAAAAGAACGTCCACGTAGGAGCTTTTTTCAATAACTTTGCTGACAGTAC
ATCCTACTTAAAGCGCTTTTGACACTATTTTTTTATTTTTT
Found at i:63001782 original size:126 final size:126
Alignment explanation
Indices: 63001553--63001962 Score: 527
Period size: 126 Copynumber: 3.2 Consensus size: 126
63001543 ACTAGTTTTT
* * * *
63001553 TTATTTTTTCAGGAACTACTGTAGAAAAAAGAACGTCCACGTAGGAGCTTTTTTCAATAATTTTG
1 TTATTTTTTCAGGAACTACTATAG-AAAAAGAACGTCCACATGGGAGCTTTTTTCAGTAATTTTG
* * *
63001618 TTGACAGTGCATCCTGCTTAAAGCGCTTTTGGCACTATTTTTTTAGAACCGTCTTCTCAAAA
65 TTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAA
*
63001680 TTATTTTTTCAGGAACTACTATAGAAAAAGAACGTCCACATGGGAGCTTTTTTCAGTAATTTTGC
1 TTATTTTTTCAGGAACTACTATAGAAAAAGAACGTCCACATGGGAGCTTTTTTCAGTAATTTTGT
* *
63001745 TGACAGTGCATCCTGCTTGAAGCGTTTTTGACGCTATTTTTTCAGAACCGTCTTCTCAAAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAA
** * ** * * *
63001806 TTATTTTTTCAAAAACTACTAGAGAAAAA-AAGCGTCCACATGACAACTTTTTTTAGTACTTTTG
1 TTATTTTTTCAGGAACTACTATAGAAAAAGAA-CGTCCACATGGGAGCTTTTTTCAGTAATTTTG
* * * ***
63001870 TTAACAGTGCATCCTGCTTGAAGCTTTTTTTGTCACTATTTTTTTAGGGTCGTCTTCTCAAAA
65 TTGACAGTGCATCCTGCTTGAAGC-GTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAA
* *
63001933 TTAATTTTTTTA-GAAGCTACTGTAGAAAAA
1 TT-ATTTTTTCAGGAA-CTACTATAGAAAAA
63001963 AAAATCCATC
Statistics
Matches: 248, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
125 2 0.01
126 168 0.68
127 58 0.23
128 20 0.08
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTATTTTTTCAGGAACTACTATAGAAAAAGAACGTCCACATGGGAGCTTTTTTCAGTAATTTTGT
TGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAA
Found at i:63002065 original size:34 final size:35
Alignment explanation
Indices: 63002027--63002132 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 35
63002017 AAAAATCTTA
*
63002027 AAACCTAAACACTAAATT-ATTTT-TTAAAAACTCT
1 AAACCTAAA-ACTAAATTAATTTTCTTAAAAACCCT
* * *
63002061 AAACCT-TAATTTAATTAATTTTCTTAAAAACCCT
1 AAACCTAAAACTAAATTAATTTTCTTAAAAACCCT
* * * *
63002095 AAACCT--AATTTAATTAATTTTTTTAAAAA-CTT
1 AAACCTAAAACTAAATTAATTTTCTTAAAAACCCT
63002127 AAACCT
1 AAACCT
63002133 TAATTTATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.22
33 28 0.44
34 22 0.34
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (35 bp):
AAACCTAAAACTAAATTAATTTTCTTAAAAACCCT
Found at i:63002104 original size:33 final size:33
Alignment explanation
Indices: 63002041--63002139 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
63002031 CTAAACACTA
*
63002041 AATT-ATTTTTTAAAAACTCTAAACCTTAATTT
1 AATTAATTTTTTAAAAACCCTAAACCTTAATTT
63002073 AATTAATTTTCTTAAAAACCCTAAACC-TAATTT
1 AATTAATTTT-TTAAAAACCCTAAACCTTAATTT
*
63002106 AATTAATTTTTTTAAAAA-CTTAAACCTTAATTT
1 AATTAA-TTTTTTAAAAACCCTAAACCTTAATTT
63002139 A
1 A
63002140 TTTTTTAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.18
33 31 0.51
34 19 0.31
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (33 bp):
AATTAATTTTTTAAAAACCCTAAACCTTAATTT
Found at i:63002137 original size:28 final size:28
Alignment explanation
Indices: 63002104--63002187 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
63002094 TAAACCTAAT
* *
63002104 TTAATTAATTTTTTTAAAA-ACTTAAACC
1 TTAATTTA-TTTTTTAAAATTCTTAAACC
*
63002132 TTAATTTATTTTTTAAAATTCCTAAACC
1 TTAATTTATTTTTTAAAATTCTTAAACC
*
63002160 TTGATTTATTTTTTAAAATTCTTAAACC
1 TTAATTTATTTTTTAAAATTCTTAAACC
63002188 CTAAACAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 10 0.20
28 40 0.80
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.50
Consensus pattern (28 bp):
TTAATTTATTTTTTAAAATTCTTAAACC
Found at i:63009029 original size:15 final size:16
Alignment explanation
Indices: 63009011--63009044 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63009001 AGATTAAATT
*
63009011 AATTAA-CTAAATGCA
1 AATTAACCTAAATACA
63009026 AATTAACCTAAATACA
1 AATTAACCTAAATACA
63009042 AAT
1 AAT
63009045 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATACA
Found at i:63011562 original size:53 final size:53
Alignment explanation
Indices: 63011500--63011605 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
63011490 TAAGGGTGGA
* *
63011500 AAAATGGCTTGGTAAATTGCCTTATTTTTGTCCACACAGGCAGAGACATGCCC
1 AAAATGGCTTGGTAAATAGCCTTATTTTTGTCCACACAGGCAGAGACACGCCC
*
63011553 AAAATGGCTTGGTAAATAGCTTTATTTTTGTCCACACAGGCAGAGACACGCCC
1 AAAATGGCTTGGTAAATAGCCTTATTTTTGTCCACACAGGCAGAGACACGCCC
63011606 GTGTGTCTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (53 bp):
AAAATGGCTTGGTAAATAGCCTTATTTTTGTCCACACAGGCAGAGACACGCCC
Found at i:63015352 original size:18 final size:19
Alignment explanation
Indices: 63015316--63015356 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
63015306 AGAATAAGAA
63015316 AAATATAATGTGAAAATTG
1 AAATATAATGTGAAAATTG
*
63015335 AAATTTAATGTG-AAATTG
1 AAATATAATGTGAAAATTG
63015353 AAAT
1 AAAT
63015357 GTGTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (19 bp):
AAATATAATGTGAAAATTG
Found at i:63020041 original size:19 final size:19
Alignment explanation
Indices: 63020019--63020059 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63020009 TCACATGGCT
63020019 TGGGGCATTCCACAAGGCC
1 TGGGGCATTCCACAAGGCC
* *
63020038 TGGGGCATTGCACACGGCC
1 TGGGGCATTCCACAAGGCC
63020057 TGG
1 TGG
63020060 CCACATGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (19 bp):
TGGGGCATTCCACAAGGCC
Found at i:63023556 original size:80 final size:80
Alignment explanation
Indices: 63023472--63023620 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
63023462 TATGGTAACC
* * * *
63023472 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
63023536 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
63023552 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
63023617 CCGG
66 CCGG
63023621 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:63023562 original size:40 final size:38
Alignment explanation
Indices: 63023513--63023620 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
63023503 ATCACGATTT
*
63023513 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
63023553 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
63023593 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
63023621 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:63030258 original size:80 final size:80
Alignment explanation
Indices: 63030174--63030322 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
63030164 TATGGTAACC
* * * *
63030174 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
63030238 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
63030254 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
63030319 CCGG
66 CCGG
63030323 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:63030264 original size:40 final size:38
Alignment explanation
Indices: 63030215--63030322 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
63030205 ATCACGATTT
*
63030215 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
63030255 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
63030295 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
63030323 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:63037983 original size:41 final size:41
Alignment explanation
Indices: 63037938--63038016 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
63037928 ACAAGATGGG
*
63037938 AAAGAAAATCTCAACCTTTTGCCACTGACGCAATGCTTTAT
1 AAAGAAAATCTCAACCTTCTGCCACTGACGCAATGCTTTAT
63037979 AAAGAAAATCTCAACCTTCTGCCACTGACGCAATGCTT
1 AAAGAAAATCTCAACCTTCTGCCACTGACGCAATGCTT
63038017 CATACTCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
AAAGAAAATCTCAACCTTCTGCCACTGACGCAATGCTTTAT
Found at i:63042154 original size:19 final size:19
Alignment explanation
Indices: 63042130--63042166 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
63042120 TGGTCTAGCT
**
63042130 AATAAGTATTGTTTATTCC
1 AATAAGTAAAGTTTATTCC
63042149 AATAAGTAAAGTTTATTC
1 AATAAGTAAAGTTTATTC
63042167 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (19 bp):
AATAAGTAAAGTTTATTCC
Found at i:63049642 original size:50 final size:49
Alignment explanation
Indices: 63049529--63049667 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 49
63049519 CATCAAAGTT
63049529 GATGCCATGTCCCAGACATGGTCTTACACT-GAC-C-CATA--TCAACCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCTCAACCC
** * **
63049574 GATATCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC-AACCC
63049624 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
63049668 CTTAGCATCA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
45 28 0.35
46 2 0.03
47 4 0.05
49 2 0.03
50 44 0.55
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAACCC
Found at i:63053773 original size:55 final size:53
Alignment explanation
Indices: 63053646--63053889 Score: 265
Period size: 55 Copynumber: 4.5 Consensus size: 53
63053636 AACTTACCAT
* * * *
63053646 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGA-CTTTGCCTTATAGAACTCATCAA
* *
63053699 TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGAC-TTTGCCTTATAG-AACTCATCAA
* * *
63053754 TTCCATGTCTTGACATGGTCTTACATGGGTCCTTTGCGTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGG-ACTTTGCCTTATAG-AACTCATCAA
* *** * *
63053809 TGCCATGTCTTGACATGATCTTACATGATTTCGTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATG-GGACTTTGCCTTATAGAACTCATCAA
** *
63053863 TGCCATACCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
63053890 ATATCCTTAT
Statistics
Matches: 163, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 35 0.21
54 33 0.20
55 93 0.57
56 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGGACTTTGCCTTATAGAACTCATCAA
Done.