Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 107 of 226
Found at i:33301049 original size:28 final size:28
Alignment explanation
Indices: 33300910--33301068 Score: 99
Period size: 28 Copynumber: 5.7 Consensus size: 28
33300900 AGTCCGCATT
* ****
33300910 GACTATCTTTCAAGTAAGAGTCCGTATG
1 GACTATCTTTCAAGTAAGAATATACATG
* * * * *
33300938 AACTATTTTTCAAGCAAGATTCTGA-ATG
1 GACTATCTTTCAAGTAAGAATAT-ACATG
* * **
33300966 GACTATTTTTCAAGTAAGAGTCCACATG
1 GACTATCTTTCAAGTAAGAATATACATG
* * *
33300994 GGCTATCTTTCAAGTAA-AATTTCGCATG
1 GACTATCTTTCAAGTAAGAATAT-ACATG
*
33301022 GACGATCTTTCAAGTAAGAATATACATG
1 GACTATCTTTCAAGTAAGAATATACATG
*
33301050 GACTAT-TCTTCAAGAAAGA
1 GACTATCT-TTCAAGTAAGA
33301069 GTTCACATGA
Statistics
Matches: 104, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
27 4 0.04
28 96 0.92
29 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (28 bp):
GACTATCTTTCAAGTAAGAATATACATG
Found at i:33301076 original size:28 final size:28
Alignment explanation
Indices: 33300963--33301098 Score: 100
Period size: 28 Copynumber: 4.9 Consensus size: 28
33300953 AAGATTCTGA
* * *
33300963 ATGGACTATTTTTCAAGTAAGAGTCCAC
1 ATGGACTATTCTTCAAGAAAGAGTTCAC
* * *
33300991 ATGGGCTA-TCTTTCAAGTAAA-ATTTCGC
1 ATGGACTATTC-TTCAAG-AAAGAGTTCAC
* * *
33301019 ATGGACGA-TCTTTCAAGTAAGAATAT-AC
1 ATGGACTATTC-TTCAAGAAAGAGT-TCAC
33301047 ATGGACTATTCTTCAAGAAAGAGTTCAC
1 ATGGACTATTCTTCAAGAAAGAGTTCAC
* * *
33301075 ATGAACTCTTCTTCAAGCAAGAGT
1 ATGGACTATTCTTCAAGAAAGAGT
33301099 CTGTAGGAAC
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
27 4 0.05
28 76 0.89
29 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (28 bp):
ATGGACTATTCTTCAAGAAAGAGTTCAC
Found at i:33305532 original size:112 final size:112
Alignment explanation
Indices: 33305355--33305712 Score: 527
Period size: 112 Copynumber: 3.2 Consensus size: 112
33305345 GAAATCAAGT
** *
33305355 GTAAGACCATAAGGTTGAGACCCATAGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* *
33305420 CTAGCAAGATGAAGACTAGACTAGTAGATCACGATACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* * *
33305467 GTAAGACCATGTGGTTGAGACCCATGGCATCATAGTATGATATGAAAATAATTATGGTGTGGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
* * *
33305532 CTAATAAGATAAAGACTAGACTAGCAGATCACGATACATGAATATGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* * * * **
33305579 GTAAGACCATGTGGTTCAGACCCACGGCTTCTTAGTATGATAGGGGAATAGTTATGGTGTAGCCT
1 GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
*
33305644 CTAGTAAGATGAAGACTAGACTAGCAGATCACGGTACATGAATGTGA
66 CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
* * *
33305691 GTGATACTATGTGGTTGAGACC
1 GTAAGACCATGTGGTTGAGACC
33305713 TATGACAAGA
Statistics
Matches: 218, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 218 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (112 bp):
GTAAGACCATGTGGTTGAGACCCATGGCATCTTAGTATGATATGAAAATAGTTATGGTGTAGCCT
CTAGTAAGATGAAGACTAGACTAGCAGATCACGATACATGAATGTGA
Found at i:33310714 original size:28 final size:28
Alignment explanation
Indices: 33310653--33310760 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
33310643 GTTTGAGTTT
* *
33310653 GCATGGATTATAT-TTCAAGTAA-AAGTCC
1 GCATGGACTAT-TCTTCAAGTAAGAA-TTC
* *
33310681 GTATGGACTA-TCTTTCAAGTAAGAATTT
1 GCATGGACTATTC-TTCAAGTAAGAATTC
* *
33310709 GCATGGACTATTCTTCAAGCAAGAGTTC
1 GCATGGACTATTCTTCAAGTAAGAATTC
* *
33310737 GCAAGAACTATTCTTCAAGTAAGA
1 GCATGGACTATTCTTCAAGTAAGA
33310761 GTCCGCAGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
28 60 0.92
29 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (28 bp):
GCATGGACTATTCTTCAAGTAAGAATTC
Found at i:33313474 original size:9 final size:9
Alignment explanation
Indices: 33313460--33313485 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33313450 TACAACTATT
33313460 TATAGCTTA
1 TATAGCTTA
33313469 TATAGCTTA
1 TATAGCTTA
33313478 TATAGCTT
1 TATAGCTT
33313486 TTTACTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
TATAGCTTA
Found at i:33313503 original size:20 final size:20
Alignment explanation
Indices: 33313478--33313516 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33313468 ATATAGCTTA
33313478 TATAGCTTTTTACTGCTTCG
1 TATAGCTTTTTACTGCTTCG
*
33313498 TATAGCTTTTTATTGCTTC
1 TATAGCTTTTTACTGCTTC
33313517 CTGCAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (20 bp):
TATAGCTTTTTACTGCTTCG
Found at i:33313524 original size:20 final size:20
Alignment explanation
Indices: 33313481--33313527 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33313471 TAGCTTATAT
* *
33313481 AGCTTTTTACTGCTTCGTAT
1 AGCTTTTTACTGCTTCCTAC
* *
33313501 AGCTTTTTATTGCTTCCTGC
1 AGCTTTTTACTGCTTCCTAC
33313521 AGCTTTT
1 AGCTTTT
33313528 AAGTTCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (20 bp):
AGCTTTTTACTGCTTCCTAC
Found at i:33338428 original size:85 final size:85
Alignment explanation
Indices: 33338285--33338456 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
33338275 TGTTTAAGTC
33338285 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCA
1 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCA
33338350 TTCAATGGAATAAACATTGA
66 TTCAATGGAATAAACATTGA
*
33338370 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCC
1 ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCA
33338435 TTCAATGGAATAAACATTGA
66 TTCAATGGAATAAACATTGA
33338455 AC
1 AC
33338457 CGACAGATCG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (85 bp):
ACTCCCCTATGCTTCTGACAAGGATAATATAGGTTGGAAAATGAAAATGAATTCATGGCATTGCA
TTCAATGGAATAAACATTGA
Found at i:33341106 original size:57 final size:58
Alignment explanation
Indices: 33341014--33341145 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 58
33341004 GTAATAATTA
* * *
33341014 CCAAAATG-AAATGAAAATGGAGAAATAGAAACATTTGGAAATGATTA-TGGTTTTCT
1 CCAAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCT
* * *
33341070 CCAAACTGAAAATGAAAATGGAGAAATGGAATCATTTAGAAATGAATAGTAGTTTTCT
1 CCAAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCT
*
33341128 CCAAAATGAAAAAGAAAA
1 CCAAAATGAAAATGAAAA
33341146 AGAAAAATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
56 7 0.11
57 35 0.53
58 24 0.36
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.25
Consensus pattern (58 bp):
CCAAAATGAAAATGAAAATGGAGAAATAGAAACATTTAGAAATGAATAGTAGTTTTCT
Found at i:33344245 original size:163 final size:163
Alignment explanation
Indices: 33344052--33344352 Score: 503
Period size: 163 Copynumber: 1.8 Consensus size: 163
33344042 ATACTTCAAA
* * *
33344052 CATATTCTCGGTTCAAACACTTGCATACTCCAATAGCAATACATAAACAATTCAACCTAATGTAC
1 CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
* *
33344117 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCATCATTTTCAAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
33344182 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
131 AACATTTAAAATATAAGGCATCCCAAAAGCAAC
* * *
33344215 CATATTCTCGGTTCAAACACATGTATACTCCAATAGCCACACATATACAATTCAACCTAATATAC
1 CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
* * *
33344280 ATATCATATACACTTCCCAAAATAAACATTTCATATGTAGACTCTTTTCAACAATTTCCAAAATC
66 ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
33344345 AACATTTA
131 AACATTTA
33344353 TTCGCATCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 127 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (163 bp):
CATATTCTCGGTTCAAACACATGCATACTCCAATAGCAACACATAAACAATTCAACCTAATATAC
ATATCATATACACTTCCCAAAATAAACATTTCATATATAGACTATTTTCAACAATTTCAAAAATC
AACATTTAAAATATAAGGCATCCCAAAAGCAAC
Found at i:33344949 original size:19 final size:19
Alignment explanation
Indices: 33344925--33344972 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
33344915 TTTATAAATA
33344925 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAT
** *
33344944 TTTGAAGTTTTGTAAGTTAT
1 TTTGAA-TTTTAAAAATTAT
33344964 TTTG-ATTTT
1 TTTGAATTTT
33344973 TTTGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAT
Found at i:33346527 original size:33 final size:33
Alignment explanation
Indices: 33346485--33346554 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
33346475 TTTGATGCCT
33346485 AAAACTATATATATAACATTTCTAACTAATAGA
1 AAAACTATATATATAACATTTCTAACTAATAGA
33346518 AAAACTATATATATAACATTTCTAACTAATAGA
1 AAAACTATATATATAACATTTCTAACTAATAGA
33346551 AAAA
1 AAAA
33346555 ATAATAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAACTATATATATAACATTTCTAACTAATAGA
Found at i:33351202 original size:35 final size:35
Alignment explanation
Indices: 33351157--33351224 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
33351147 ATGTTATAGT
33351157 AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
1 AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
*
33351192 AAAATTATTAAAGGAAATGTTATGGCAAAAATT
1 AAAATGATTAAAGGAAATGTTATGGCAAAAATT
33351225 AAGGTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.29
Consensus pattern (35 bp):
AAAATGATTAAAGGAAATGTTATGGCAAAAATTTA
Found at i:33354558 original size:12 final size:12
Alignment explanation
Indices: 33354541--33354570 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33354531 ATTAAAATAT
33354541 GAAAATTCATAA
1 GAAAATTCATAA
*
33354553 GAAAATTCGTAA
1 GAAAATTCATAA
33354565 GAAAAT
1 GAAAAT
33354571 AAGAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (12 bp):
GAAAATTCATAA
Found at i:33354572 original size:20 final size:20
Alignment explanation
Indices: 33354549--33354587 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33354539 ATGAAAATTC
33354549 ATAAGAAAATTCGTAAGAAA
1 ATAAGAAAATTCGTAAGAAA
*
33354569 ATAAGAAAATTTGTAAGAA
1 ATAAGAAAATTCGTAAGAA
33354588 TAACTGGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAAGAAAATTCGTAAGAAA
Found at i:33363967 original size:36 final size:35
Alignment explanation
Indices: 33363927--33364003 Score: 82
Period size: 36 Copynumber: 2.2 Consensus size: 35
33363917 ATGATGACTG
* *
33363927 ATGTGAAAGTGAATATGAGGGTATGTTATTCATGCC
1 ATGTGAAAGTAAATATGAGGGTATGTT-TTCATACC
** * **
33363963 ATGTGACGGTAAATTTGTTGGTATGTTTTCATACC
1 ATGTGAAAGTAAATATGAGGGTATGTTTTCATACC
33363998 ATGTGA
1 ATGTGA
33364004 CAATGATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (35 bp):
ATGTGAAAGTAAATATGAGGGTATGTTTTCATACC
Found at i:33370809 original size:18 final size:19
Alignment explanation
Indices: 33370781--33370817 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
33370771 GATTTTACAT
33370781 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
33370800 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
33370818 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:33377652 original size:19 final size:19
Alignment explanation
Indices: 33377611--33377653 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33377601 GTTCACTTGA
33377611 AGAAAAAGGTTGAATTTTG
1 AGAAAAAGGTTGAATTTTG
33377630 AGAAATAAGGTT-AAGTTTT-
1 AGAAA-AAGGTTGAA-TTTTG
33377649 AGAAA
1 AGAAA
33377654 CCGAAATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (19 bp):
AGAAAAAGGTTGAATTTTG
Found at i:33383008 original size:19 final size:20
Alignment explanation
Indices: 33382980--33383017 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33382970 ATTTTAGATA
33382980 AAATT-AAAAAATTATTTTG
1 AAATTAAAAAAATTATTTTG
*
33382999 AAATTTAAAAAATTATTTT
1 AAATTAAAAAAATTATTTT
33383018 AGAACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTAAAAAAATTATTTTG
Found at i:33383028 original size:20 final size:20
Alignment explanation
Indices: 33382985--33383028 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33382975 AGATAAAATT
* *
33382985 AAAAAATTATTTTGAAATTT
1 AAAAAATTATTTTGAAACTC
33383005 AAAAAATTATTTT-AGAACTC
1 AAAAAATTATTTTGA-AACTC
33383025 AAAA
1 AAAA
33383029 TTTTCATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAAATTATTTTGAAACTC
Found at i:33385379 original size:31 final size:31
Alignment explanation
Indices: 33385341--33385403 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
33385331 CTTGAATGGT
33385341 AAGGAGCAAACAATGAAGATATATCATAGTC
1 AAGGAGCAAACAATGAAGATATATCATAGTC
33385372 AAGGAGCAAACAATGAAGATATATCATAGTC
1 AAGGAGCAAACAATGAAGATATATCATAGTC
33385403 A
1 A
33385404 GTGCTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AAGGAGCAAACAATGAAGATATATCATAGTC
Found at i:33386556 original size:19 final size:19
Alignment explanation
Indices: 33386532--33386568 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33386522 AAAGTTTTGG
33386532 TAAAAAAT-TATATTATTTA
1 TAAAAAATGT-TATTATTTA
33386551 TAAAAAATGTTATTATTT
1 TAAAAAATGTTATTATTT
33386569 TTTACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TAAAAAATGTTATTATTTA
Found at i:33390593 original size:4 final size:4
Alignment explanation
Indices: 33390584--33390610 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33390574 AAACTAAGTA
33390584 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
33390611 ACTTTACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:33397484 original size:50 final size:50
Alignment explanation
Indices: 33397430--33397576 Score: 125
Period size: 50 Copynumber: 2.9 Consensus size: 50
33397420 CAATCCACTT
*
33397430 CATCTTTAGGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
* * * * **** * * * * ** *
33397480 CATCTTCATGGAGATGAGATTTGCTACTATAGTTTTGATCCTG-TTCACTG
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAG-CTTCATCTTGCCCCAATG
*
33397530 CATCTTTAAGGATACGAGATTGGAGGTTGTAGCTTCATCTTGCCCCA
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCA
33397577 TTACTAAACT
Statistics
Matches: 65, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
49 7 0.11
50 51 0.78
51 7 0.11
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (50 bp):
CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
Found at i:33400047 original size:25 final size:25
Alignment explanation
Indices: 33400019--33400074 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
33400009 ATAACAATTA
33400019 TTATATAATATAATT-T-ACATACATT
1 TTATATAAT-TAATTATAACATACA-T
*
33400044 TTATATAATTTATTATAACATACAT
1 TTATATAATTAATTATAACATACAT
33400069 TTATAT
1 TTATAT
33400075 TAAGTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATATAATTAATTATAACATACAT
Found at i:33401944 original size:14 final size:14
Alignment explanation
Indices: 33401925--33401956 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33401915 GCATTAACCC
33401925 TTCCTCAGAGATAT
1 TTCCTCAGAGATAT
33401939 TTCCTCAGAGATAT
1 TTCCTCAGAGATAT
33401953 TTCC
1 TTCC
33401957 CAAGTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (14 bp):
TTCCTCAGAGATAT
Found at i:33410964 original size:6 final size:6
Alignment explanation
Indices: 33410953--33410994 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
33410943 TAAGAAACTG
* *
33410953 CCATGA CCATGA CCATGC CCATGC CCATGC CCATGC CCATGC
1 CCATGC CCATGC CCATGC CCATGC CCATGC CCATGC CCATGC
33410995 TCAAACCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (6 bp):
CCATGC
Found at i:33414922 original size:30 final size:29
Alignment explanation
Indices: 33414814--33414921 Score: 157
Period size: 30 Copynumber: 3.7 Consensus size: 29
33414804 CAAAAGATAT
* *
33414814 AAATTACATTTTGACTCCCTAACTTTTTTA
1 AAATTACATTTTAAC-CCCTAACTTTCTTA
33414844 AAATTACATTTTAA-CCCTAACTTT-TTA
1 AAATTACATTTTAACCCCTAACTTTCTTA
33414871 AAATTACATTTTAACCCCTAAACTTTCTTA
1 AAATTACATTTTAACCCCT-AACTTTCTTA
*
33414901 AAATTACCTTTTAACCCCTAA
1 AAATTACATTTTAACCCCTAA
33414922 AATTTCATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
27 17 0.23
28 14 0.19
29 8 0.11
30 34 0.47
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAACTTTCTTA
Found at i:33414932 original size:20 final size:20
Alignment explanation
Indices: 33414899--33414938 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33414889 TAAACTTTCT
*
33414899 TAAAATTACCTTTTAACCCC
1 TAAAATTACATTTTAACCCC
* *
33414919 TAAAATTTCATTTTGACCCC
1 TAAAATTACATTTTAACCCC
33414939 AAGTTTACCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAAATTACATTTTAACCCC
Found at i:33415434 original size:11 final size:11
Alignment explanation
Indices: 33415406--33415478 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
33415396 AGGGAAAGAA
*
33415406 AAGAAGAAA-G
1 AAGAAAAAAGG
33415416 AAGAAAAAAGG
1 AAGAAAAAAGG
* *
33415427 AAGGAAAAAGA
1 AAGAAAAAAGG
*
33415438 AAGAATAAAAGA
1 AAGAA-AAAAGG
* *
33415450 AAGAATAAAGA
1 AAGAAAAAAGG
33415461 AAGAATAAAA--
1 AAGAA-AAAAGG
33415471 AAGAAAAA
1 AAGAAAAA
33415479 TATAAAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
9 3 0.06
10 13 0.24
11 24 0.44
12 14 0.26
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (11 bp):
AAGAAAAAAGG
Found at i:33415442 original size:37 final size:37
Alignment explanation
Indices: 33415388--33415480 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
33415378 GAGGGTTTTC
**
33415388 AGAAGAAAAGGGAAAGAA-AAGAAGAAAGAAGAAA-AA
1 AGAAGAAAAAAGAAAGAATAA-AAGAAAGAAGAAAGAA
* *
33415424 AGGAAGGAAAAAGAAAGAATAAAAGAAAGAATAAAGAA
1 A-GAAGAAAAAAGAAAGAATAAAAGAAAGAAGAAAGAA
*
33415462 AGAATAAAAAAGAAA-AATA
1 AGAAGAAAAAAGAAAGAATA
33415481 TAAAAATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
36 5 0.10
37 38 0.79
38 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (37 bp):
AGAAGAAAAAAGAAAGAATAAAAGAAAGAAGAAAGAA
Found at i:33415485 original size:8 final size:8
Alignment explanation
Indices: 33415465--33415498 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
33415455 TAAAGAAAGA
33415465 ATAAAAA-
1 ATAAAAAT
*
33415472 AGAAAAAT
1 ATAAAAAT
33415480 ATAAAAAT
1 ATAAAAAT
33415488 ATAAAAAT
1 ATAAAAAT
33415496 ATA
1 ATA
33415499 TAAAGGATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (8 bp):
ATAAAAAT
Found at i:33415493 original size:16 final size:15
Alignment explanation
Indices: 33415456--33415498 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
33415446 AAGAAAGAAT
*
33415456 AAAGAAAGA-ATAAA
1 AAAGAAAAATATAAA
33415470 AAAGAAAAATATAAA
1 AAAGAAAAATATAAA
*
33415485 AATATAAAAATATA
1 AA-AGAAAAATATA
33415499 TAAAGGATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (15 bp):
AAAGAAAAATATAAA
Found at i:33415713 original size:28 final size:28
Alignment explanation
Indices: 33415668--33415763 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
33415658 AGCCTAACAA
* *
33415668 ACAGCAGGCTAGCGCCTGGCCCAACAGC
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
* *
33415696 ACAGCAAGCCAGCACCTGGCCCAGCAGC
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
* ** * * *
33415724 ACAACAGGCCAGCACCCAGCCTAGCAAC
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
33415752 ACAGCAGGCCAG
1 ACAGCAGGCCAG
33415764 TCCAGCAACC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.30, C:0.41, G:0.25, T:0.04
Consensus pattern (28 bp):
ACAGCAGGCCAGCACCTGGCCCAACAGC
Found at i:33419731 original size:4 final size:4
Alignment explanation
Indices: 33419724--33419756 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
33419714 CATTCATTGG
*
33419724 TCAT TCAT TCAT TCAT GCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
33419757 GCATGTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (4 bp):
TCAT
Found at i:33426553 original size:76 final size:75
Alignment explanation
Indices: 33426450--33427001 Score: 683
Period size: 75 Copynumber: 7.3 Consensus size: 75
33426440 TTATTTCTTT
* **
33426450 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
33426515 CGCTAAGTTA
66 CGCTGAGGTA
* * * *
33426525 TTTTCACTTTTTGTTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
33426590 ACGCCGAGGTA
65 ACGCTGAGGTA
* * **
33426601 TTTTTCAATTTCTGTTTTTCAAAAATCAACTGATAATCCAAGAGGTGAGTTGAGCCTTAGGTCAC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
33426666 ACG-TCGAGGTA
65 ACGCT-GAGGTA
* *** *
33426677 TTTTTCAATTTCTATTTTTTTTAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
33426742 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * * * *
33426753 TTTTTAATTTTTGTTTTTCAAAAATCAACTCATAATTCGAGAAGTGATTTGAGCCTCGGGTCATA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
33426818 CACTGAGGTA
66 CGCTGAGGTA
* * * * * *
33426828 TTTTCAATTTCTATTTTTAAAAAATCAACTGATAATCCGAGAGGTGAGTTGAGCCTTGGATCTCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
33426893 CGCTGGGGTA
66 CGCTGAGGTA
* * * * *
33426903 TTTTCAATTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCAGATCACG
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
33426968 CGCCGAGCTA
66 CGCTGAGGTA
* *
33426978 TTTTCGATTTCTATTTTTCAAAAA
1 TTTTCAATTTCTGTTTTTCAAAAA
33427002 AAATAAAAAT
Statistics
Matches: 407, Mismatches: 66, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
75 219 0.54
76 176 0.43
77 12 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCTGAGGTA
Found at i:33427294 original size:16 final size:16
Alignment explanation
Indices: 33427261--33427293 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33427251 TTATTTTATT
33427261 AATTTTAAATAATAAA
1 AATTTTAAATAATAAA
33427277 AATTTTAAA-AATAAA
1 AATTTTAAATAATAAA
33427292 AA
1 AA
33427294 AATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTTAAATAATAAA
Found at i:33427348 original size:19 final size:20
Alignment explanation
Indices: 33427324--33427366 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
33427314 CCCAACTTTT
33427324 TAAAATTACA-TTTGACCAC
1 TAAAATTACATTTTGACCAC
*
33427343 TAAAATTACATTTTGACCCC
1 TAAAATTACATTTTGACCAC
33427363 TAAA
1 TAAA
33427367 CTTTCCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAATTACATTTTGACCAC
Found at i:33427378 original size:30 final size:28
Alignment explanation
Indices: 33427342--33427415 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
33427332 CATTTGACCA
*
33427342 CTAAAATTACATTTTGACCCCTAAACTTTC
1 CTAAAATTACA-TTT-AACCCTAAACTTTC
* * *
33427372 CTAAAATTGCATTTAACCTTAAATTTTC
1 CTAAAATTACATTTAACCCTAAACTTTC
*
33427400 TTAAAATTACACTTTA
1 CTAAAATTACA-TTTA
33427416 GCCTCAAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 20 0.54
29 7 0.19
30 10 0.27
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (28 bp):
CTAAAATTACATTTAACCCTAAACTTTC
Found at i:33427964 original size:7 final size:7
Alignment explanation
Indices: 33427921--33427993 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
33427911 AAGAAGAGGG
33427921 AAAGAAA
1 AAAGAAA
33427928 AGAAGAAA
1 A-AAGAAA
* *
33427936 GAGGAAA
1 AAAGAAA
*
33427943 AAAGGAA
1 AAAGAAA
*
33427950 AAATAAGA
1 AAAGAA-A
*
33427958 AAA-AAG
1 AAAGAAA
33427964 AAAGAAA
1 AAAGAAA
33427971 AAAG-AA
1 AAAGAAA
*
33427977 AAATAAA
1 AAAGAAA
*
33427984 AAATAAA
1 AAAGAAA
33427991 AAA
1 AAA
33427994 ATATATAAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
6 8 0.15
7 34 0.65
8 10 0.19
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:33427984 original size:11 final size:11
Alignment explanation
Indices: 33427920--33427977 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 11
33427910 GAAGAAGAGG
33427920 GAAAGAAAAGAA
1 GAAAGAAAA-AA
**
33427932 GAAAGAGGAAA
1 GAAAGAAAAAA
*
33427943 -AAAGGAAAAA
1 GAAAGAAAAAA
*
33427953 -TAAGAAAAAA
1 GAAAGAAAAAA
33427963 GAAAGAAAAAA
1 GAAAGAAAAAA
33427974 GAAA
1 GAAA
33427978 AATAAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 15 0.41
11 15 0.41
12 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:33427991 original size:18 final size:17
Alignment explanation
Indices: 33427940--33427994 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
33427930 AAGAAAGAGG
* *
33427940 AAAAAAGGAAAAATAAG
1 AAAAAAGAAAAAATAAA
33427957 AAAAAAGAAAGAAA-AAA
1 AAAAAAGAAA-AAATAAA
* *
33427974 GAAAAATAAAAAATAAA
1 AAAAAAGAAAAAATAAA
33427991 AAAA
1 AAAA
33427995 TATATAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.10
17 25 0.81
18 3 0.10
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAATAAA
Found at i:33428207 original size:28 final size:28
Alignment explanation
Indices: 33428173--33428240 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
33428163 AGCCCAACAA
* **
33428173 ACAGCAGGCCAGCGCCTGACCAAGCAGC
1 ACAGCAGGCCAGCACCCAACCAAGCAGC
* * *
33428201 ATAGCAGGCCAACACCCAACCCAGCAGC
1 ACAGCAGGCCAGCACCCAACCAAGCAGC
33428229 ACAGCAGGCCAG
1 ACAGCAGGCCAG
33428241 TCCAACAACC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.40, G:0.25, T:0.03
Consensus pattern (28 bp):
ACAGCAGGCCAGCACCCAACCAAGCAGC
Found at i:33428641 original size:21 final size:21
Alignment explanation
Indices: 33428600--33428640 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33428590 TGATAAATTC
33428600 AAAAAAAAATTCTCGTATTTT
1 AAAAAAAAATTCTCGTATTTT
33428621 AAAAATAAAATT-TC-TATTTT
1 AAAAA-AAAATTCTCGTATTTT
33428641 TGTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAAAAAATTCTCGTATTTT
Found at i:33429111 original size:113 final size:112
Alignment explanation
Indices: 33428976--33429191 Score: 319
Period size: 113 Copynumber: 1.9 Consensus size: 112
33428966 CTAGAAAAAG
*
33428976 GATCGGTGGCAACTCCT-TTTTTTTTAAAAAAAATTGAGACTCTGTTTTCAAATTTTCAATAATC
1 GATCGGTGGCAACTCCTCTTTTTTTTAAAAAAAATTGAGA-T-TGCTTTCAAATTTTCAATAAT-
*
33429040 T-CCTCGAATAGCACCCGTGCAAAATTTTAGTTCGCTACAGCAAAGGTGT
63 TGCCTCGAATAGCACCCGTGCAAAATTTTAGGTCGCTACAGCAAAGGTGT
* *
33429089 GATCGGTGGCGACTCCTCTTTTTTTTTTAAAAAAATTGAGATTGCTTTCAAATTTTCAATAATTG
1 GATCGGTGGCAACTCCTC-TTTTTTTTAAAAAAAATTGAGATTGCTTTCAAATTTTCAATAATTG
** *
33429154 CCTCGAATAGTGCTCGTGCAAAATTTTAGGTCGCTACA
65 CCTCGAATAGCACCCGTGCAAAATTTTAGGTCGCTACA
33429192 TTGTGTTATA
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
112 1 0.01
113 70 0.75
114 1 0.01
115 21 0.23
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (112 bp):
GATCGGTGGCAACTCCTCTTTTTTTTAAAAAAAATTGAGATTGCTTTCAAATTTTCAATAATTGC
CTCGAATAGCACCCGTGCAAAATTTTAGGTCGCTACAGCAAAGGTGT
Found at i:33439114 original size:28 final size:28
Alignment explanation
Indices: 33439075--33439130 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33439065 ATGACCTTTA
*
33439075 TTGTTGCACCCGTCCAGCGTCCCCCGGG
1 TTGTTGCACCCGTCCAACGTCCCCCGGG
33439103 TTGTTGCACCCGTCCAACGTCCCCCGGG
1 TTGTTGCACCCGTCCAACGTCCCCCGGG
33439131 CCTAACAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.09, C:0.43, G:0.27, T:0.21
Consensus pattern (28 bp):
TTGTTGCACCCGTCCAACGTCCCCCGGG
Found at i:33443507 original size:17 final size:17
Alignment explanation
Indices: 33443487--33443519 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33443477 TGGCTTGCTT
33443487 ACCTAGCTGGCATACTA
1 ACCTAGCTGGCATACTA
33443504 ACCTAGCTGGCATACT
1 ACCTAGCTGGCATACT
33443520 TCACAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (17 bp):
ACCTAGCTGGCATACTA
Found at i:33447324 original size:23 final size:24
Alignment explanation
Indices: 33447297--33447345 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
33447287 CATTTAAAAA
33447297 TTGAATA-TATCACTTAAATTATT
1 TTGAATATTATCACTTAAATTATT
**
33447320 TTGAATATTTATCACTTGGATTATT
1 TTGAATA-TTATCACTTAAATTATT
33447345 T
1 T
33447346 GTACACCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (24 bp):
TTGAATATTATCACTTAAATTATT
Found at i:33448645 original size:17 final size:18
Alignment explanation
Indices: 33448602--33448638 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33448592 GCTAGGTGTG
33448602 GAAAGAA-GAAAGAAAAT
1 GAAAGAATGAAAGAAAAT
33448619 GAAAGAATGAAA-AAAAT
1 GAAAGAATGAAAGAAAAT
33448636 GAA
1 GAA
33448639 TGGATGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (18 bp):
GAAAGAATGAAAGAAAAT
Found at i:33457008 original size:17 final size:18
Alignment explanation
Indices: 33456977--33457010 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33456967 TTCTTTTGTC
33456977 TTTTATTTACTTAAATTT
1 TTTTATTTACTTAAATTT
33456995 TTTTATTTAC-TAAATT
1 TTTTATTTACTTAAATT
33457011 ACTACTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTTACTTAAATTT
Found at i:33457900 original size:25 final size:24
Alignment explanation
Indices: 33457872--33457932 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
33457862 AATAATCAAG
*
33457872 AATTATTTTGACTTTTTTTCTTGAA
1 AATTACTTTGAC-TTTTTTCTTGAA
*
33457897 AATTAGC-TTGAC-TTTTTCTTGAG
1 AATTA-CTTTGACTTTTTTCTTGAA
33457920 AATTACTTTGACT
1 AATTACTTTGACT
33457933 AAATCTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 1 0.03
23 20 0.65
25 10 0.32
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (24 bp):
AATTACTTTGACTTTTTTCTTGAA
Found at i:33459500 original size:120 final size:120
Alignment explanation
Indices: 33459320--33459626 Score: 353
Period size: 120 Copynumber: 2.6 Consensus size: 120
33459310 GTAGATGCAG
** ** * * ***
33459320 AACAAGGGCACGCATGTGCATTCAATGATACCGAAGTACAAATAGGGGCATGCATGTGCATTTAG
1 AACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGGCACATATGTGCATTTAG
* * * * * *
33459385 TGATACCGAAGTACAAATAGGGGCACGCATGTGCATTCAGGGATACCAAAGTATA
66 GGATACCAAAGTAAAAACAGGGGCACACATGTGCATTCAGGGATACCAAAGTACA
* * * * *
33459440 AACAAGGGCATATATGTGCATTCAGGGGTACCGATGTACAAACAGGGGCACATATATGCATTCAG
1 AACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGGCACATATGTGCATTTAG
* * * *
33459505 GGTTACCAAAGTAAAAACAGGGGCACATATGTGCATTCAGGTATACTAAAGTACA
66 GGATACCAAAGTAAAAACAGGGGCACACATGTGCATTCAGGGATACCAAAGTACA
* * * * *
33459560 AACAGGGGCACATATGTACATTTAGGGGTACCGAAGTACAAAAAGGGGAACATATGTGCTTTTAG
1 AACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGGCACATATGTGCATTTAG
33459625 GG
66 GG
33459627 GAATTTTCTT
Statistics
Matches: 154, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
120 154 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (120 bp):
AACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGGCACATATGTGCATTTAG
GGATACCAAAGTAAAAACAGGGGCACACATGTGCATTCAGGGATACCAAAGTACA
Found at i:33459627 original size:40 final size:40
Alignment explanation
Indices: 33459333--33459618 Score: 288
Period size: 40 Copynumber: 7.2 Consensus size: 40
33459323 AAGGGCACGC
** * ***
33459333 ATGTGCATTCAATGATACCGAAGTACAAATAGGGGCATGC
1 ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
* * * **
33459373 ATGTGCATTTAGTGATACCGAAGTACAAATAGGGGCACGC
1 ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
* * *
33459413 ATGTGCATTCAGGGATACCAAAGTATAAACAA-GGGCATAT
1 ATGTGCATTCAGGGATACCGAAGTACAAA-AAGGGGCACAT
* * *
33459453 ATGTGCATTCAGGGGTACCGATGTACAAACAGGGGCACAT
1 ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
* * *
33459493 ATATGCATTCAGGGTTACCAAAGTA-AAAACAGGGGCACAT
1 ATGTGCATTCAGGGATACCGAAGTACAAAA-AGGGGCACAT
* ** *
33459533 ATGTGCATTCAGGTATACTAAAGTACAAACAGGGGCACAT
1 ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
* * * *
33459573 ATGTACATTTAGGGGTACCGAAGTACAAAAAGGGGAACAT
1 ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
33459613 ATGTGC
1 ATGTGC
33459619 TTTTAGGGGA
Statistics
Matches: 206, Mismatches: 36, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
39 4 0.02
40 198 0.96
41 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (40 bp):
ATGTGCATTCAGGGATACCGAAGTACAAAAAGGGGCACAT
Found at i:33461072 original size:19 final size:20
Alignment explanation
Indices: 33461035--33461072 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33461025 CTTTCTTTTG
33461035 TCTTTTATTTACTTAAATTT
1 TCTTTTATTTACTTAAATTT
33461055 TCTTTTATTTAC-TAAATT
1 TCTTTTATTTACTTAAATT
33461073 ACTACTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTATTTACTTAAATTT
Found at i:33479608 original size:206 final size:206
Alignment explanation
Indices: 33479234--33479647 Score: 659
Period size: 206 Copynumber: 2.0 Consensus size: 206
33479224 ATAAGCATAG
* * *
33479234 TAAAATCCTATACAAGCACCATCAAACTCACAAGTTAGTAAGTTCATATATGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
* * * * *
33479299 CAATTATATCATATGTAGATTTCATATACACATCATTTAACTTATTAACCATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
* *
33479364 AAACAATTATTCAATTGTATACATGCCTTGCCATTAACCTTTGCGTACCCGTTGAACCATCTAGG
131 AAACAATTATTCAATTGTATACATGCCTTGCAATTAACCTTTGCGTACCCGCTGAACCATCTAGG
33479429 ATTACATTGGA
196 ATTACATTGGA
*
33479440 TAAAATCTTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
*
33479505 CAATTATATAATAAGTACATTTCATATGCACATCATGTAACTCATTAA-CATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
* * * * *
33479569 GAACCATTGTTCAATTTTATACATGCCTTGACAATTAACCTTTGCGTACCTGCTGAACCATCTAG
131 AAACAATTATTCAATTGTATACATGCCTTG-CAATTAACCTTTGCGTACCCGCTGAACCATCTAG
33479634 GATTACATTGGA
195 GATTACATTGGA
33479646 TA
1 TA
33479648 CTTGGGAATG
Statistics
Matches: 190, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
205 42 0.22
206 148 0.78
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (206 bp):
TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACATGATACATATGAGTT
CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
AAACAATTATTCAATTGTATACATGCCTTGCAATTAACCTTTGCGTACCCGCTGAACCATCTAGG
ATTACATTGGA
Found at i:33491666 original size:17 final size:17
Alignment explanation
Indices: 33491644--33491677 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33491634 GATGCTAATG
33491644 ACTATTCCGCTCACTTT
1 ACTATTCCGCTCACTTT
33491661 ACTATTCCGCTCACTTT
1 ACTATTCCGCTCACTTT
33491678 GATTTTCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.06, T:0.41
Consensus pattern (17 bp):
ACTATTCCGCTCACTTT
Found at i:33502813 original size:43 final size:41
Alignment explanation
Indices: 33502721--33502919 Score: 186
Period size: 43 Copynumber: 4.7 Consensus size: 41
33502711 AGATTCCTCG
* * *
33502721 AGGGGTTGCTAAGTGATGATTCCCCGAAT-TATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAA
* *
33502762 AGGTGGTTGCTAAGTGTTGATTCCACTGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * * *
33502806 AGGGGTTGCTATGTGCTGGTTCCCCGTATCA-CTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAA
* *
33502847 AGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* *
33502891 AGGGGTTGCTATGTGTTGATTCCCCGTAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT
33502920 CACTGAATTT
Statistics
Matches: 128, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
41 8 0.06
42 52 0.41
43 57 0.45
44 11 0.09
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAA
Found at i:33502868 original size:85 final size:84
Alignment explanation
Indices: 33502721--33502957 Score: 303
Period size: 85 Copynumber: 2.8 Consensus size: 84
33502711 AGATTCCTCG
* * * * * *
33502721 AGGGGTTGCTAAGTGATGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
**
33502786 ACTGTATATTTGATTGTGAA
65 ACCATATATTTGATTGTGAA
* *
33502806 AGGGGTTGCTATGTGCTGGTTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
33502871 ACCATATCTTTGATTGTGAA
65 ACCATATATTTGATTGTGAA
* * * * * *
33502891 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTAAGGTGTTTGTTAAGTACTGAATCCA
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
33502956 CC
66 CC
33502958 GAGTAACGGA
Statistics
Matches: 133, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.19
85 108 0.81
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCATATATTTGATTGTGAA
Found at i:33504333 original size:21 final size:22
Alignment explanation
Indices: 33504296--33504336 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
33504286 GACGAAGTAA
*
33504296 AATATTATTTAACTACATAAAC
1 AATATAATTTAACTACATAAAC
33504318 AATATAATTT-ACTACATAA
1 AATATAATTTAACTACATAA
33504337 TTACATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAATTTAACTACATAAAC
Found at i:33505069 original size:26 final size:26
Alignment explanation
Indices: 33505033--33505086 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33505023 CTTTTTGGAT
33505033 TAAAGTTAGTCCCTTACCATCATCTA
1 TAAAGTTAGTCCCTTACCATCATCTA
33505059 TAAAGTTAGTCCCTTACCATCATCTA
1 TAAAGTTAGTCCCTTACCATCATCTA
33505085 TA
1 TA
33505087 TTTTAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (26 bp):
TAAAGTTAGTCCCTTACCATCATCTA
Found at i:33506428 original size:26 final size:26
Alignment explanation
Indices: 33506399--33506453 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
33506389 TTTGTCACAT
*
33506399 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
** *
33506425 ATACTATTTTTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
33506451 ATA
1 ATA
33506454 TCGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:33506592 original size:33 final size:33
Alignment explanation
Indices: 33506550--33506621 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
33506540 TGCATTTTTG
*
33506550 CACTGTACTATTACT-ATATTGGGCTAAGGCCCA
1 CACTGTACTATTACTGA-ATAGGGCTAAGGCCCA
*
33506583 CACTGTACTATTACTGAATAGGGCTCAGGCCCA
1 CACTGTACTATTACTGAATAGGGCTAAGGCCCA
*
33506616 GACTGT
1 CACTGT
33506622 TACAGCATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (33 bp):
CACTGTACTATTACTGAATAGGGCTAAGGCCCA
Found at i:33507883 original size:21 final size:21
Alignment explanation
Indices: 33507857--33507912 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
33507847 TCATTTTCTA
*
33507857 AAACCACTTGACCTCAAGGTC
1 AAACCACTTGAACTCAAGGTC
*
33507878 AAACCACTTGAACTCAGGGTC
1 AAACCACTTGAACTCAAGGTC
33507899 AAACCACTTGAACT
1 AAACCACTTGAACT
33507913 TAATAACTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (21 bp):
AAACCACTTGAACTCAAGGTC
Found at i:33509637 original size:3 final size:3
Alignment explanation
Indices: 33509631--33509679 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
33509621 TTTCTTTTTT
33509631 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC ATTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC
33509676 TTC T
1 TTC T
33509680 AGGGTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:33517755 original size:22 final size:22
Alignment explanation
Indices: 33517709--33517756 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
33517699 AATAAAAAGA
*
33517709 AAAAGAAACAAAAGAAGAACAG
1 AAAAGAAACAAAACAAGAACAG
33517731 AAAAGAAACAGAGAACAA-AAC-G
1 AAAAGAAACA-A-AACAAGAACAG
33517753 AAAA
1 AAAA
33517757 TAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 4 0.17
24 4 0.17
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAACAAGAACAG
Found at i:33518143 original size:22 final size:24
Alignment explanation
Indices: 33518115--33518158 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
33518105 TATGGCAAGA
33518115 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
33518137 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
33518159 AGCTTAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:33518748 original size:27 final size:28
Alignment explanation
Indices: 33518690--33518748 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
33518680 ATCTAATGTC
*
33518690 TTATTAGTGTGTTTAGGAGGATATGATA
1 TTATTAGTGTGTTAAGGAGGATATGATA
* *
33518718 -TATTGGTGTGTTAAGGAGGAT-TTATA
1 TTATTAGTGTGTTAAGGAGGATATGATA
33518744 TTATT
1 TTATT
33518749 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (28 bp):
TTATTAGTGTGTTAAGGAGGATATGATA
Found at i:33519928 original size:24 final size:24
Alignment explanation
Indices: 33519882--33519928 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
33519872 TCAATTTCTA
* *
33519882 AAAAGTTATTATTTCATTATATGT
1 AAAAGTTATTAATTAATTATATGT
33519906 AAAAGTTAATTAATTAATT-TATG
1 AAAAGTT-ATTAATTAATTATATG
33519929 AAGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (24 bp):
AAAAGTTATTAATTAATTATATGT
Found at i:33521394 original size:46 final size:45
Alignment explanation
Indices: 33521332--33521419 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 45
33521322 TTTTTAATAT
* *
33521332 ATTACAATCATATATTAGCAT-TTAATTTCATTATGTATTATTTTAA
1 ATTACAATCATATATTAACATATAAATTT--TTATGTATTATTTTAA
33521378 ATTACAAT-ATATTATTAACATCATAAATTTTTATGTATTATT
1 ATTACAATCATA-TATTAACAT-ATAAATTTTTATGTATTATT
33521420 AGATTAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 3 0.08
46 28 0.76
48 6 0.16
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (45 bp):
ATTACAATCATATATTAACATATAAATTTTTATGTATTATTTTAA
Found at i:33522635 original size:18 final size:18
Alignment explanation
Indices: 33522598--33522636 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33522588 TGTAAAAAAA
* *
33522598 TTTTCAAGTTGAAGTTTT
1 TTTTCAAGTTGAAATATT
*
33522616 TTTTCAAGTTTAAATATT
1 TTTTCAAGTTGAAATATT
33522634 TTT
1 TTT
33522637 ACTTTTTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (18 bp):
TTTTCAAGTTGAAATATT
Found at i:33529121 original size:13 final size:13
Alignment explanation
Indices: 33529103--33529129 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33529093 AGTAAGATAT
33529103 TACTTAATAAGGG
1 TACTTAATAAGGG
33529116 TACTTAATAAGGG
1 TACTTAATAAGGG
33529129 T
1 T
33529130 GTTTTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TACTTAATAAGGG
Found at i:33533049 original size:50 final size:50
Alignment explanation
Indices: 33532924--33533108 Score: 205
Period size: 50 Copynumber: 3.8 Consensus size: 50
33532914 GATAATAACA
* ** * **
33532924 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGTTTTTTTGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * * *
33532971 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* ** * *
33533021 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
*
33533071 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
33533109 CTCTTTACCC
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 37 0.33
48 1 0.01
50 75 0.66
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:33536098 original size:106 final size:106
Alignment explanation
Indices: 33535913--33536112 Score: 278
Period size: 106 Copynumber: 1.9 Consensus size: 106
33535903 CACACATCCT
* * *
33535913 ATGTAAGACACATAACCCGTATCCGTCGCTAGAATAAGGTTATAAAGCATTTCCGGAGTTTTCAA
1 ATGTAACACACATAACCCGTATCCGTCGCTAGAATAAGGTTATAAAGCATTACCGAAGTTTTCAA
*
33535978 ATCATACGAACACATATTTATAAACATTTTAATACCAATAA
66 ATCATACGAACACATATCTATAAACATTTTAATACCAATAA
* * ** * *
33536019 ATGTAACACACATAACCTGTATCTGTCGCT-GAA-ACAGGGTTATGGAGTATTACCGAAGTTTTT
1 ATGTAACACACATAACCCGTATCCGTCGCTAGAATA-A-GGTTATAAAGCATTACCGAAGTTTTC
33536082 AAATCATACGAACACATATCTATAAACATTT
64 AAATCATACGAACACATATCTATAAACATTT
33536113 CATATCATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
104 1 0.01
105 4 0.05
106 77 0.94
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (106 bp):
ATGTAACACACATAACCCGTATCCGTCGCTAGAATAAGGTTATAAAGCATTACCGAAGTTTTCAA
ATCATACGAACACATATCTATAAACATTTTAATACCAATAA
Found at i:33539165 original size:25 final size:25
Alignment explanation
Indices: 33539131--33539202 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
33539121 TCTTGTACAT
* *
33539131 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGTTGTGAATCA
*
33539156 GTATGCTCACACGAGTTGTGATTCA
1 GTATGCTCACACGAGTTGTGAATCA
*
33539181 GTATGCTCACATGAGTTGTGAA
1 GTATGCTCACACGAGTTGTGAA
33539203 AATGGGCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGTTGTGAATCA
Found at i:33545733 original size:9 final size:9
Alignment explanation
Indices: 33545716--33545752 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33545706 TGAGTTTTCG
33545716 AATTCGAAT
1 AATTCGAAT
*
33545725 AACTCGAAT
1 AATTCGAAT
*
33545734 AATTTGAAT
1 AATTCGAAT
33545743 AATTCGAAT
1 AATTCGAAT
33545752 A
1 A
33545753 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33545837 original size:29 final size:31
Alignment explanation
Indices: 33545801--33545861 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
33545791 AAACCTTTTT
* *
33545801 ACTTTTCCCTCAAAACTTTTACACCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACACCTCTCCC
*
33545831 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACACCTCTCCC
33545862 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACACCTCTCCC
Found at i:33546000 original size:30 final size:31
Alignment explanation
Indices: 33545966--33546025 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33545956 AAATCTTTTA
*
33545966 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
* *
33545996 TTTTCCCCTAAAAATTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCA
33546026 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
Found at i:33548096 original size:22 final size:22
Alignment explanation
Indices: 33548071--33548112 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33548061 AACTAATTAG
* *
33548071 ATTATTAGAAAATCTTAATATT
1 ATTATGAGAAAATCTAAATATT
*
33548093 ATTATGATAAAATCTAAATA
1 ATTATGAGAAAATCTAAATA
33548113 ATAGAGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTATGAGAAAATCTAAATATT
Found at i:33557456 original size:18 final size:19
Alignment explanation
Indices: 33557433--33557469 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
33557423 TTTTTTCTCA
33557433 CTATTATTATC-ATTTTAT
1 CTATTATTATCTATTTTAT
33557451 CTATTATTATCTATTTTAT
1 CTATTATTATCTATTTTAT
33557470 TACAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
CTATTATTATCTATTTTAT
Found at i:33569605 original size:44 final size:43
Alignment explanation
Indices: 33569557--33569927 Score: 271
Period size: 44 Copynumber: 8.3 Consensus size: 43
33569547 CAGATCCCCT
*
33569557 TGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-TCTTATCTCCC
* * * *
33569601 TGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTA-C-AATCTTATCTCCC
* * * **
33569646 TGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAATCGAATCTCCC
1 TGAAGTTGCAGTGGAGCAGATT---G----AAGTTACAATCTTATCTCCC
* * *
33569696 TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-TCTTATCTCCC
* * * * *
33569740 TAAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCCTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAG-TTAC-AATCTTATCTCCC
* * * * * *
33569785 TGAAGTTGTAGTAGAGCATATTAAAACTATA-AACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATT-GAAGT-TACAATCTTATCTCCC
* *
33569829 TGAAGATGTAGTGGAGCAGGA-TGAAGTTACTAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCA-GATTGAAGTTAC-AATCTTATCTCCC
* * * *
33569873 TAAAGATGTAGTGGAG-AGATTGAAGATACTAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AATCTTATCTCCC
**
33569916 CAAAGTTGCAGT
1 TGAAGTTGCAGT
33569928 CAAGTAGATT
Statistics
Matches: 259, Mismatches: 50, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.02
43 42 0.16
44 110 0.42
45 61 0.24
46 7 0.03
47 1 0.00
50 29 0.11
51 1 0.00
52 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGTTACAATCTTATCTCCC
Found at i:33569754 original size:139 final size:140
Alignment explanation
Indices: 33569488--33569796 Score: 462
Period size: 139 Copynumber: 2.2 Consensus size: 140
33569478 ATAGTCATCG
* *
33569488 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGTTATAAATTACAAGTCAGATC
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAGATC
* * *
33569553 CCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
33569618 AGACTAAAGA
131 AGACTAAAGA
*
33569628 TAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAA-TC-GAAT
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAG-AT
* *
33569691 CTCCC-TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCTCTAAAGTTGCAGTGGA
65 C-CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGA
*
33569755 GCAGACTGAAGA
129 GCAGACTAAAGA
* * * *
33569767 TAACAAATCCTATCTCTCTGAAGTTGTAGT
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGT
33569797 AGAGCATATT
Statistics
Matches: 153, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
138 1 0.01
139 95 0.62
140 57 0.37
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (140 bp):
TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAGATC
CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
AGACTAAAGA
Found at i:33569773 original size:95 final size:95
Alignment explanation
Indices: 33569594--33569774 Score: 224
Period size: 95 Copynumber: 1.9 Consensus size: 95
33569584 TACAAGTCTT
* * *
33569594 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTGCAGTG
* *
33569659 GAACAGATTAAGGCTACAAATTACAATCGA
66 GAACAGATGAAGGATACAAATTACAATCGA
* * * *
33569689 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATA-C-AAGTCTTATCTCTCTAAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA-TCTTATCTCCCTAAAGTTGCAGT
*
33569752 GGAGCAGACTGAA-GATAACAAAT
65 GGAACAGA-TGAAGGAT-ACAAAT
33569775 CCTATCTCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 2 0.03
94 29 0.40
95 42 0.58
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (95 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTGCAGTG
GAACAGATGAAGGATACAAATTACAATCGA
Found at i:33572397 original size:24 final size:24
Alignment explanation
Indices: 33572362--33572407 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33572352 TTTCGACACC
*
33572362 CTCCACCGTGAATCTACAAAAAAA
1 CTCCACCATGAATCTACAAAAAAA
*
33572386 CTCCACCATGAATTTACAAAAA
1 CTCCACCATGAATCTACAAAAA
33572408 TCAATATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.20
Consensus pattern (24 bp):
CTCCACCATGAATCTACAAAAAAA
Found at i:33574120 original size:23 final size:24
Alignment explanation
Indices: 33574073--33574118 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
33574063 GAAAAATATT
33574073 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
33574097 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
33574119 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:33574327 original size:16 final size:16
Alignment explanation
Indices: 33574306--33574347 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33574296 AATAATTTGA
*
33574306 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
33574322 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
33574338 TAGTTTTAAT
1 TAATTTTAAT
33574348 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:33574346 original size:22 final size:23
Alignment explanation
Indices: 33574321--33574376 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
33574311 TTACTAACAA
* *
33574321 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAGTT
*
33574343 TTAATTTTATTAAAAAAATAGTT
1 TTAATTTTAATAAAAAAATAGTT
33574366 TTAATTTTAAT
1 TTAATTTTAAT
33574377 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAGTT
Found at i:33574507 original size:21 final size:19
Alignment explanation
Indices: 33574464--33574502 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33574454 TTCGACCAAT
*
33574464 ACATATTTCCTAAGCTTAA
1 ACATATTCCCTAAGCTTAA
33574483 ACATATTCCCTAAGCTTAA
1 ACATATTCCCTAAGCTTAA
33574502 A
1 A
33574503 AACATTAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ACATATTCCCTAAGCTTAA
Found at i:33586768 original size:21 final size:21
Alignment explanation
Indices: 33586744--33586827 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
33586734 GAAGGGTCCA
*
33586744 GACCGTGTGACAGAGGTACAC
1 GACCGTGTGACAGAGATACAC
* * *
33586765 GACCGTGTGGCTGAGACACAC
1 GACCGTGTGACAGAGATACAC
* * * *
33586786 GATCGTGTGGCTGAGAAACAC
1 GACCGTGTGACAGAGATACAC
* *
33586807 GCCCGTGTTACAGAGATACAC
1 GACCGTGTGACAGAGATACAC
33586828 AGCCATGTGG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (21 bp):
GACCGTGTGACAGAGATACAC
Found at i:33589996 original size:20 final size:20
Alignment explanation
Indices: 33589971--33590032 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
33589961 CCAATTTGTG
33589971 GACAAGCTACCAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* **
33589991 GACAAGCTGCCAGTAATGTG
1 GACAAGCTACCAGTAATGCA
* * *
33590011 GGCAAGTTACCAGTAATACA
1 GACAAGCTACCAGTAATGCA
33590031 GA
1 GA
33590033 TAAATTGTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (20 bp):
GACAAGCTACCAGTAATGCA
Found at i:33592392 original size:30 final size:30
Alignment explanation
Indices: 33592349--33592428 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
33592339 AAACCTAAGC
* *
33592349 TAAGA-AAAGTAATGTATGAAGGATGAACG
1 TAAGAGAATGTAATGTATGAAGGATGAACA
* *
33592378 TAAGAGAATTTAATGTACGAAGGATGAACA
1 TAAGAGAATGTAATGTATGAAGGATGAACA
* *
33592408 TAAGAGCATGTAATGCATGAA
1 TAAGAGAATGTAATGTATGAA
33592429 ATCTACTGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.46, C:0.06, G:0.25, T:0.23
Consensus pattern (30 bp):
TAAGAGAATGTAATGTATGAAGGATGAACA
Found at i:33596605 original size:9 final size:9
Alignment explanation
Indices: 33596593--33596623 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33596583 TTTAAGTTTT
33596593 TTTTAAATA
1 TTTTAAATA
33596602 TTTTAAATA
1 TTTTAAATA
*
33596611 TTTTAAATG
1 TTTTAAATA
33596620 TTTT
1 TTTT
33596624 TTATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:33599602 original size:16 final size:18
Alignment explanation
Indices: 33599567--33599603 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
33599557 GATAATGATA
33599567 ATTCATTCCAAATATTTT
1 ATTCATTCCAAATATTTT
*
33599585 ATTCA-TCC-AATTTTTT
1 ATTCATTCCAAATATTTT
33599601 ATT
1 ATT
33599604 TTCTCCCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTCATTCCAAATATTTT
Found at i:33603321 original size:24 final size:24
Alignment explanation
Indices: 33603293--33603344 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33603283 TTCATAGGTC
* *
33603293 AAATAAATTATGCTAATAAATTCT
1 AAATAAATTATACTAATAAATACT
*
33603317 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
33603341 AAAT
1 AAAT
33603345 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:33605296 original size:24 final size:24
Alignment explanation
Indices: 33605269--33605320 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
33605259 TTCGTAGGTC
*
33605269 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
33605293 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
33605317 AAAT
1 AAAT
33605321 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:33607916 original size:40 final size:37
Alignment explanation
Indices: 33607807--33607918 Score: 106
Period size: 35 Copynumber: 3.0 Consensus size: 37
33607797 ACCGACAATG
33607807 ATAATTTTGAGCCCAGCTCTAGTTGGATAAACCAAC-A
1 ATAA-TTTGAGCCCAGCTCTAGTTGGATAAACCAACGA
* * * *
33607844 AT-ATTTGCA-CCCA-ATGCTAGTCGAATATACCAACGATA
1 ATAATTTG-AGCCCAGCT-CTAGTTGGATAAACCAACG--A
33607882 ATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACG
1 ATAATT-TGAGCCCAGCTCTAGTTGGATAAACCAACG
33607919 GTGATTGCGC
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
34 1 0.02
35 23 0.40
36 2 0.03
37 2 0.03
38 3 0.05
39 4 0.07
40 22 0.38
41 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (37 bp):
ATAATTTGAGCCCAGCTCTAGTTGGATAAACCAACGA
Found at i:33607945 original size:75 final size:75
Alignment explanation
Indices: 33607777--33607917 Score: 205
Period size: 75 Copynumber: 1.9 Consensus size: 75
33607767 AGAAAGGTTA
* * * * *
33607777 CACCCAACGCT-GTCAGATTA-ACCGACAATGATAATTTTGAGCCCAGCTCTAGTTGGATAAACC
1 CACCCAACGCTAGTC-GAATATACCAACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACC
33607840 AACAATATTTG
65 AACAATATTTG
*
33607851 CACCCAATGCTAGTCGAATATACCAACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCA
1 CACCCAACGCTAGTCGAATATACCAACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCA
33607916 AC
66 AC
33607918 GGTGATTGCG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 14 0.24
75 45 0.76
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (75 bp):
CACCCAACGCTAGTCGAATATACCAACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCA
ACAATATTTG
Found at i:33611425 original size:16 final size:17
Alignment explanation
Indices: 33611399--33611433 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
33611389 AGAGAGTTGA
33611399 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
33611416 GAGA-AGGATGAGGGAT
1 GAGAGAGGATGAGAGAT
33611432 GA
1 GA
33611434 TTGAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:33620091 original size:13 final size:13
Alignment explanation
Indices: 33620075--33620099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33620065 ACCAAAATTT
33620075 TCAAAAGTACTTC
1 TCAAAAGTACTTC
33620088 TCAAAAGTACTT
1 TCAAAAGTACTT
33620100 TTAAAAGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TCAAAAGTACTTC
Found at i:33636558 original size:15 final size:15
Alignment explanation
Indices: 33636538--33636592 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
33636528 ACTCTCCTCA
*
33636538 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
33636553 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
33636568 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
33636582 TTCTTTT-TCTC
1 TTCTTTTCTCTC
33636593 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:33641044 original size:11 final size:11
Alignment explanation
Indices: 33641030--33641071 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
33641020 AAAAAAAAGG
33641030 AAAAAAAATTC
1 AAAAAAAATTC
33641041 AAAAAAAAATTC
1 -AAAAAAAATTC
33641053 AAAAAAAATTC
1 AAAAAAAATTC
33641064 AAAAAAAA
1 AAAAAAAA
33641072 ATTTGTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:33641045 original size:12 final size:12
Alignment explanation
Indices: 33641030--33641074 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
33641020 AAAAAAAAGG
33641030 AAAAAAAATTCA
1 AAAAAAAATTCA
33641042 AAAAAAAATTC-
1 AAAAAAAATTCA
33641053 AAAAAAAATTCA
1 AAAAAAAATTCA
33641065 AAAAAAAATT
1 AAAAAAAATT
33641075 TGTATTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.34
12 21 0.66
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:33641049 original size:23 final size:23
Alignment explanation
Indices: 33641019--33641072 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33641009 TTGATATTGT
*
33641019 AAAAAAAAAGGAAAAAAAATTCA
1 AAAAAAAAAGCAAAAAAAATTCA
**
33641042 AAAAAAAATTCAAAAAAAATTCA
1 AAAAAAAAAGCAAAAAAAATTCA
33641065 AAAAAAAA
1 AAAAAAAA
33641073 TTTGTATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAGCAAAAAAAATTCA
Found at i:33641073 original size:23 final size:23
Alignment explanation
Indices: 33641030--33641074 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
33641020 AAAAAAAAGG
33641030 AAAAAAAATTCAAAAAAAAATTC
1 AAAAAAAATTCAAAAAAAAATTC
33641053 AAAAAAAATTCAAAAAAAAATT
1 AAAAAAAATTCAAAAAAAAATT
33641075 TGTATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAAAAAATTCAAAAAAAAATTC
Found at i:33641163 original size:17 final size:17
Alignment explanation
Indices: 33641125--33641164 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33641115 TCAGTATTGG
33641125 AAAAAAAAAAGAGAAAT
1 AAAAAAAAAAGAGAAAT
*
33641142 TAAAAAAAAAGAAGAAA-
1 AAAAAAAAAAG-AGAAAT
33641159 AAAAAA
1 AAAAAA
33641165 TGTTTCAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAGAGAAAT
Found at i:33642098 original size:17 final size:15
Alignment explanation
Indices: 33642078--33642116 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
33642068 GTGAGCGAGA
33642078 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
33642095 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
33642110 AAGATGA
1 AA-ATGA
33642117 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:33652103 original size:22 final size:21
Alignment explanation
Indices: 33652065--33652105 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33652055 ATTTGTTATA
**
33652065 AACAAAGAGAATTATAGAATG
1 AACAAAGAGAAGAATAGAATG
33652086 AACAAGAGAGAAGAATAGAA
1 AACAA-AGAGAAGAATAGAA
33652106 AAATGAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.05, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAAAGAGAAGAATAGAATG
Found at i:33655710 original size:20 final size:20
Alignment explanation
Indices: 33655685--33655734 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
33655675 TGGCTTAAAA
33655685 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
33655705 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
33655722 GTGGTAGTGGATT
1 TTGGTAGTGGATT
33655735 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:33660338 original size:20 final size:20
Alignment explanation
Indices: 33660313--33660362 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
33660303 TGGCTTAAAA
33660313 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
33660333 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
33660350 GTGGTAGTGGATT
1 TTGGTAGTGGATT
33660363 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:33662119 original size:18 final size:17
Alignment explanation
Indices: 33662077--33662119 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33662067 CAACAAATGA
* *
33662077 ATTTAAACTTAAGAAAT
1 ATTTAAAATTAAAAAAT
*
33662094 AATTAAAATTAAAAAAT
1 ATTTAAAATTAAAAAAT
33662111 CATTTAAAA
1 -ATTTAAAA
33662120 CCCGTAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTTAAAATTAAAAAAT
Found at i:33664261 original size:82 final size:78
Alignment explanation
Indices: 33664151--33664353 Score: 291
Period size: 82 Copynumber: 2.6 Consensus size: 78
33664141 AATATACATT
* * * * * *
33664151 TTTCAACAAATTAGTTCAGAAAACAAACAAAATACGTTATACTAACAAAATAATCCTATAGCAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTACAACAGT
33664216 AAGATGTTAACCAACCA
66 AAGATGTT----AACCA
* *
33664233 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTACAACAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTACAACAGT
33664298 AAGATGTTAACCA
66 AAGATGTTAACCA
33664311 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA-ACTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTA
33664354 TCTCAATCCA
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
77 3 0.03
78 44 0.39
82 65 0.58
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.26
Consensus pattern (78 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTACAACAGT
AAGATGTTAACCA
Found at i:33664704 original size:160 final size:157
Alignment explanation
Indices: 33664422--33664852 Score: 503
Period size: 160 Copynumber: 2.7 Consensus size: 157
33664412 ATATGCCATC
* * ** * * *
33664422 TTTTTTTGGCTTCTACTTCTCATACTCATACCAGACTGA-G--AACAAAAATCAGAACCCTAAAT
1 TTTTTTGGGCTTCTAGTTCTTGTACTCGTACCAGACTAAGGCCAA-AAAAATCAAAACCC-AAAT
* * * * *
33664484 TAGATTTAAATAATTTAGAATTGAGATTAAAAAAGTGTTTGCAATATACCTGTGATCCAGTTGTA
64 TAGATTTAAATATTTTAGAATTGACATTAAAAAA-TGTTTACGATATACCTATGATCCAGTTGTA
* *
33664549 TTAGGCTGAATGCATGGTGTTATGTTGTTC
128 TTAGGCTGAATGCATGGTGTTATATTGTTA
33664579 TCTTTTT-GGCTTCTAGTT-TGTGTACTCGTACCAGACTAAGGCCAAAAAAAGTCAAAATCCCAA
1 T-TTTTTGGGCTTCTAGTTCT-TGTACTCGTACCAGACTAAGGCCAAAAAAA-TCAAAA-CCCAA
* * * *
33664642 ATTAGATTAAAATATTTTTGAATTGACATTAAAATAATGTATACGATATACTTATGATCCAGTTG
62 ATTAGATTTAAATATTTTAGAATTGACATTAAAA-AATGTTTACGATATACCTATGATCCAGTTG
*
33664707 TATTATGCTGAATGCATGGTGTTATATTGTTA
126 TATTAGGCTGAATGCATGGTGTTATATTGTTA
* *** *
33664739 TTTTTTGGGCTTCTAGTTCTTGTACTCGTACTAGACTAATTTCAAAAAAATCAGAACCCAAATTA
1 TTTTTTGGGCTTCTAGTTCTTGTACTCGTACCAGACTAAGGCCAAAAAAATCAAAACCCAAATTA
* * *
33664804 GATTTTAATATTTTGGAATTGACAATGAAAAAATGTTTACGATATACCT
66 GATTTAAATATTTTAGAATTGAC-ATTAAAAAATGTTTACGATATACCT
33664853 GTGTTACGAC
Statistics
Matches: 234, Mismatches: 29, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
156 1 0.00
157 26 0.11
158 51 0.22
159 21 0.09
160 129 0.55
161 6 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (157 bp):
TTTTTTGGGCTTCTAGTTCTTGTACTCGTACCAGACTAAGGCCAAAAAAATCAAAACCCAAATTA
GATTTAAATATTTTAGAATTGACATTAAAAAATGTTTACGATATACCTATGATCCAGTTGTATTA
GGCTGAATGCATGGTGTTATATTGTTA
Found at i:33665825 original size:54 final size:54
Alignment explanation
Indices: 33665719--33665836 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
33665709 CCACTTCCCT
* * * **
33665719 AACCCCCTCCTTACCACCTCCATCACTCTCACCACCTTCATTGGCAGTAACATC
1 AACCCCCTCCTCACCACCTCCATCACTCTCACCACCTTCACTGACAACAACATC
* *
33665773 AACCCCCTCCTCACCGCCTCTATCACTCTCACCACCTTCACTGACAACAACATC
1 AACCCCCTCCTCACCACCTCCATCACTCTCACCACCTTCACTGACAACAACATC
* *
33665827 ATCACCCTCC
1 AACCCCCTCC
33665837 CTACCTAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.22
Consensus pattern (54 bp):
AACCCCCTCCTCACCACCTCCATCACTCTCACCACCTTCACTGACAACAACATC
Found at i:33668063 original size:9 final size:9
Alignment explanation
Indices: 33668042--33668080 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
33668032 CTAGTTAATG
33668042 TTTAACTTGT
1 TTTAA-TTGT
*
33668052 TTTAATTTTT
1 TTTAA-TTGT
33668062 TTTAATTGT
1 TTTAATTGT
33668071 TTTAATTGT
1 TTTAATTGT
33668080 T
1 T
33668081 AGTAAACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 13 0.50
10 13 0.50
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (9 bp):
TTTAATTGT
Found at i:33668142 original size:18 final size:18
Alignment explanation
Indices: 33668109--33668147 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
33668099 TCTAAATGCT
*
33668109 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
33668126 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
33668145 TTT
1 TTT
33668148 GCTGACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:33668475 original size:101 final size:99
Alignment explanation
Indices: 33668302--33668504 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 99
33668292 AAAAAAAAGG
33668302 TTATGTATGAAAGTGCTCCAAAAAAACCTTAAAGGCCAAAGTGACCCAACACCCAAACGTTAAGG
1 TTATGTATGAAAGTGCTCCAAAAAAACCTTAAAGGCCAAAGTGACCCAACACCCAAACGTTAAGG
33668367 GCTAATTTTGTCATTATGCAAATTTATTTTAAAT
66 GCTAATTTTGTCATTATGCAAATTTATTTTAAAT
33668401 TTATGTATGAAAGTGCTCCAAAAAAAAACCTTAAAGGCCAAAGTGACCCAACACCCAAACGTTAA
1 TTATGTATGAAAGTGCTCC--AAAAAAACCTTAAAGGCCAAAGTGACCCAACACCCAAACGTTAA
33668466 GGGCTAATTTTGTCATTATGCAAATTTATTTTAAAT
64 GGGCTAATTTTGTCATTATGCAAATTTATTTTAAAT
33668502 TTA
1 TTA
33668505 ATAACTTGTA
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 19 0.19
101 83 0.81
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (99 bp):
TTATGTATGAAAGTGCTCCAAAAAAACCTTAAAGGCCAAAGTGACCCAACACCCAAACGTTAAGG
GCTAATTTTGTCATTATGCAAATTTATTTTAAAT
Found at i:33670444 original size:37 final size:37
Alignment explanation
Indices: 33670394--33670470 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
33670384 ACTACTTAGC
33670394 CCTTTTTTTAATAGAAGAAACAAAATGCAATTCAACT
1 CCTTTTTTTAATAGAAGAAACAAAATGCAATTCAACT
33670431 CCTTTTTTTAATAGAAGAAACAAAATGCAATTCAACT
1 CCTTTTTTTAATAGAAGAAACAAAATGCAATTCAACT
33670468 CCT
1 CCT
33670471 AATACAATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (37 bp):
CCTTTTTTTAATAGAAGAAACAAAATGCAATTCAACT
Found at i:33678493 original size:16 final size:16
Alignment explanation
Indices: 33678472--33678505 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33678462 AAAACAGTAC
33678472 TTATAAAATTTT-TATA
1 TTAT-AAATTTTATATA
33678488 TTATAAATTTTATATA
1 TTATAAATTTTATATA
33678504 TT
1 TT
33678506 TTTACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAAATTTTATATA
Found at i:33682262 original size:114 final size:113
Alignment explanation
Indices: 33682063--33682291 Score: 386
Period size: 114 Copynumber: 2.0 Consensus size: 113
33682053 TACATGTATT
*
33682063 TGAACTTACTAAGCACAGCGTGCTCATATTATCATATTTTTCTTGTAGATTATGTCAAGCCTAGT
1 TGAACTTACTAAGCACAACGTGCTCATATTATCATATTTTTCTTGTAGATTATGTCAAGCCTAGT
* *
33682128 AGATCAAAAATTCAAGTCAGAGCATACAAATTGTAACACATTGACCCG
66 AGATCAAAAATTCAAGTCAGAGCATACAAACTGTAACACACTGACCCG
* *
33682176 TGAACTTACTAAGCACAACGTGCTCATATTATCATGTTTTTTCTTGTAGATTATGTGAAGCCTAG
1 TGAACTTACTAAGCACAACGTGCTCATATTATCAT-ATTTTTCTTGTAGATTATGTCAAGCCTAG
* *
33682241 TAGATCAAAAATTCAATTCAGAGCATACAAACTGTAACACCCTGACCCG
65 TAGATCAAAAATTCAAGTCAGAGCATACAAACTGTAACACACTGACCCG
33682290 TG
1 TG
33682292 TCCGTCGCCG
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 34 0.31
114 74 0.69
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (113 bp):
TGAACTTACTAAGCACAACGTGCTCATATTATCATATTTTTCTTGTAGATTATGTCAAGCCTAGT
AGATCAAAAATTCAAGTCAGAGCATACAAACTGTAACACACTGACCCG
Found at i:33684395 original size:106 final size:106
Alignment explanation
Indices: 33684206--33684420 Score: 324
Period size: 106 Copynumber: 2.0 Consensus size: 106
33684196 CTTCAAAAGG
* * *
33684206 AAAATTTCAAAGTAAGGCAATATTTTGTATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATCTTGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGG
* *
33684271 GTTTTGATTTCTCATTTGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTCTCATTTGACCAAATAGCCAAATATCCTCTT
* * *
33684312 AAAATTTCAAAATAGGGTAATATCTTGCGTTTGGAAAATCGA-AAAATCGTGCCCTAACGTGCTG
1 AAAATTTCAAAATAAGGCAATATCTTGCATTTGGAAAATCGAGAAAA-CGTGCCCTAACGTGCTG
* *
33684376 GGTTTCGATTTCTCGTTTGATCAAATAGCCAAATATCCTCTT
65 GGTTTCGATTTCTCATTTGACCAAATAGCCAAATATCCTCTT
33684418 AAA
1 AAA
33684421 TCTCAATCCA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 4 0.04
106 94 0.96
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (106 bp):
AAAATTTCAAAATAAGGCAATATCTTGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCATTTGACCAAATAGCCAAATATCCTCTT
Found at i:33685153 original size:23 final size:23
Alignment explanation
Indices: 33685127--33685660 Score: 449
Period size: 23 Copynumber: 22.7 Consensus size: 23
33685117 TCTACCCTGT
*
33685127 AACAATTTGGGCAGCATATATAC
1 AACAAATTGGGCAGCATATATAC
*
33685150 AACAAATTGGGCAGCATATATAT
1 AACAAATTGGGCAGCATATATAC
* * * *
33685173 ACCAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* *
33685196 ATCAAAATTGGACAGCATATATAC
1 AAC-AAATTGGGCAGCATATATAC
* *
33685220 AACAATTTGGGCAGCATAAATAC
1 AACAAATTGGGCAGCATATATAC
* * *
33685243 AACAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* * *
33685266 ACCAAAAATTGGACAACATATATAC
1 A--ACAAATTGGGCAGCATATATAC
*
33685291 AACAAATTGGGCAGCATATATAT
1 AACAAATTGGGCAGCATATATAC
* * * *
33685314 ACCAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* *
33685337 ATCAAAATTGGACAGCATATATAC
1 AAC-AAATTGGGCAGCATATATAC
* *
33685361 AACAATTTGGGCAGCATAAATAC
1 AACAAATTGGGCAGCATATATAC
* * *
33685384 AACAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* *
33685407 ACCAAAAATTGGACAGCATATATAC
1 A--ACAAATTGGGCAGCATATATAC
*
33685432 AACAAATTGGGCAGCATATATAT
1 AACAAATTGGGCAGCATATATAC
* * * * *
33685455 ACCAAATTGAGTAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* *
33685478 ATCAAAATTGGACAGCATATATAC
1 AAC-AAATTGGGCAGCATATATAC
* *
33685502 AACAATTTGGGCAGCATAAATAC
1 AACAAATTGGGCAGCATATATAC
* * *
33685525 AACAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* *
33685548 ACCAAAAATCGGAG-AGCATATATAC
1 A--ACAAATTGG-GCAGCATATATAC
** *
33685573 AACAAATTGGATAGCATATATAT
1 AACAAATTGGGCAGCATATATAC
* * * *
33685596 ACCAAATTGAGCAGCATTTTTAC
1 AACAAATTGGGCAGCATATATAC
* * *
33685619 ACCAAAATTTGGACAGCATATATAT
1 AAC-AAA-TTGGGCAGCATATATAC
*
33685644 AACAATTTGGGCAGCAT
1 AACAAATTGGGCAGCAT
33685661 TTAAGCATCT
Statistics
Matches: 395, Mismatches: 103, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
23 271 0.69
24 58 0.15
25 65 0.16
26 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (23 bp):
AACAAATTGGGCAGCATATATAC
Done.