Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 173 of 205
Found at i:51397610 original size:20 final size:20
Alignment explanation
Indices: 51397585--51397709 Score: 144
Period size: 20 Copynumber: 6.2 Consensus size: 20
51397575 TTGTACGAGA
*
51397585 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTGT
*
51397605 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
51397625 TTCCACTGT-AGTGCCTCTGT
1 TTGCACT-TCGGTGCCTCTGT
* * *
51397645 CTACACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* *
51397665 TTCCACTTCAGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
51397685 CTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
51397705 TTGCA
1 TTGCA
51397710 TTTCAATGCT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.01
20 86 0.98
21 1 0.01
ACGTcount: A:0.09, C:0.30, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:51397652 original size:40 final size:40
Alignment explanation
Indices: 51397588--51397706 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
51397578 TACGAGATTG
* * * *
51397588 CACTTCGGTGCCTCTATTTGCACTTTGGTGCCTCTGTTTC
1 CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
51397628 CACTGT-AGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
1 CACT-TCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
* *
51397668 CACTTCAGTGCCTCTGTCTGCACTTCGGTGCCTCTGTTT
1 CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTT
51397707 GCATTTCAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.08, C:0.31, G:0.20, T:0.40
Consensus pattern (40 bp):
CACTTCAGTGCCTCTGTCTACACTTTGGTGCCTCTGTTTC
Found at i:51410303 original size:44 final size:44
Alignment explanation
Indices: 51410255--51410909 Score: 566
Period size: 44 Copynumber: 14.7 Consensus size: 44
51410245 TTAAGGAGTT
**
51410255 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* *
51410299 AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* ***
51410343 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * * * *** *
51410387 AATATCTATTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* * * * * ** *
51410432 AAGATCTGTTATCTTTGATCTACTCCACGCTAGCACATGACGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * * *
51410476 AAGATCTGTTTTCTTTGATTTATTTCGCCACCAGT--ATGGTAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACAT-G-AAGAC
* * *
51410521 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* ***
51410565 AAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCA-CACCAATACATGAAGAC
***
51410610 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * ***
51410654 AAGATCTGTTTTTTTCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* *
51410699 AAGATCTGTTTTCTTCGATCTACTTTGC-CACCAGTATGA-GAAGAC
1 AAGATCTGTTTTCTTCGATCTAC-TT-CACACCAATA-CATGAAGAC
* * * * *
51410744 AAGATCTATTTTCTTTGATCTACTTCACGCCAGTATATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * ****
51410788 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTGTGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGAC
* * *
51410833 AAGATCTGGTATTT-TT-TATCTACTTCGCGCCAATACATGAAGAC
1 AAGATCT-GT-TTTCTTCGATCTACTTCACACCAATACATGAAGAC
* * * *
51410877 AAGATCTATTCTCTTTGATCTACTCCACCACCA
1 AAGATCTGTTTTCTTCGATCTACTTCA-CACCA
51410910 GTATGGGGAA
Statistics
Matches: 491, Mismatches: 101, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.00
43 7 0.01
44 270 0.55
45 200 0.41
46 8 0.02
47 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAC
Found at i:51410477 original size:89 final size:89
Alignment explanation
Indices: 51410255--51410813 Score: 669
Period size: 89 Copynumber: 6.3 Consensus size: 89
51410245 TTAAGGAGTT
** * * *
51410255 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * ***
51410320 ACTTC-ACGCCAATACATGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
51410343 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAATATCTATTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
51410408 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * ** * * *
51410432 AAGATCTGTTATCTTTGATCTACTCCACGCTAGCACATGACGACAAGATCTGTTTTCTTTGATTT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
51410497 ATTTCGCCACCAGTATGGTAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *
51410521 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
51410586 ACTTCACCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
51410610 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAAGATCTGTTTTTTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
*
51410675 ACTTCGCCACCAATATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
51410699 AAGATCTGTTTTCTTCGATCTACTTTGCCAC-C-AGTATGA-GAAGACAAGATCTATTTTCTTTG
1 AAGATCTGTTTTCTTCGATCTAC-TT--CACGCTAATA-CATGAAGACAAGATCTGTTTTCTTCG
* * **
51410761 ATCTACTTC-ACGCCAGTATATGAAGAC
62 ATCTACTTCGCCACCAGTATGGGAAGAC
51410788 AAGATCTGTTTTCTTCGATCTACTTC
1 AAGATCTGTTTTCTTCGATCTACTTC
51410814 GCCACCAGTG
Statistics
Matches: 403, Mismatches: 63, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
86 1 0.00
88 62 0.15
89 302 0.75
90 34 0.08
91 1 0.00
92 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (89 bp):
AAGATCTGTTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:51410818 original size:89 final size:88
Alignment explanation
Indices: 51410255--51410909 Score: 602
Period size: 89 Copynumber: 7.4 Consensus size: 88
51410245 TTAAGGAGTT
** * *
51410255 AAGATCTGTAATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTTGATCT
* * * *
51410320 ACTTCACGCCAATACATGAAGAC
66 ACTTCACACCAGTATAGGAAGAC
* *** * * *
51410343 AAGATCTTTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAATATCTATTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTTGATCT
* * * *
51410408 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTC-ACACCAGTATAGGAAGAC
* * * * * ** * *
51410432 AAGATCTGTTATCTTTGATCTACTCCACGCTAGCACATGACGACAAGATCTGTTTTCTTTGATTT
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTTGATCT
* *
51410497 ATTTCGCCACCAGTAT-GGTAAGAC
66 ACTTC-ACACCAGTATAGG-AAGAC
* * * *
51410521 AAGATCTATTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTTGATCT
*
51410586 ACTTCACCACCAGTATGGGAAGAC
66 ACTTCA-CACCAGTATAGGAAGAC
***
51410610 AAGATCTGTTTTCTTCGATCTACTTCACGTTAATACATGAAGACAAGATCTGTTTT-TTTCGATC
1 AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTT-GATC
* * *
51410674 TACTTCGCCACCAATATGGGAAGAC
65 TACTTC-ACACCAGTATAGGAAGAC
* * *
51410699 AAGATCTGTTTTCTTCGATCTACTTTGC-CACCAGTATGA-GAAGACAAGATCTATTTTCTTTGA
1 AAGATCTGTTTTCTTCGATCTAC-TT-CACACCAATA-CATGAAGACAAGATCTGTTTTCTTTGA
* *
51410762 TCTACTTCACGCCAGTATATGAAGAC
63 TCTACTTCACACCAGTATAGGAAGAC
* * ****
51410788 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTGTGGGAAGACAAGATCTGGTATTT-TTT-A
1 AAGATCTGTTTTCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCT-GT-TTTCTTTGA
* * * * *
51410851 TCTACTTCGCGCCAATACATGAAGAC
63 TCTACTTCACACCAGTATAGGAAGAC
* * * *
51410877 AAGATCTATTCTCTTTGATCTACTCCACCACCA
1 AAGATCTGTTTTCTTCGATCTACTTCA-CACCA
51410910 GTATGGGGAA
Statistics
Matches: 478, Mismatches: 73, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.00
88 66 0.14
89 364 0.76
90 39 0.08
91 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (88 bp):
AAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTTGATCT
ACTTCACACCAGTATAGGAAGAC
Found at i:51418999 original size:20 final size:20
Alignment explanation
Indices: 51418970--51419009 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51418960 TAAAGATCTT
*
51418970 TAATGCATATAATGTGATGC
1 TAATGCATATAATGCGATGC
* *
51418990 TAATGTATATGATGCGATGC
1 TAATGCATATAATGCGATGC
51419010 ATGAGATGAA
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:0.10, G:0.23, T:0.35
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:51425838 original size:37 final size:40
Alignment explanation
Indices: 51425791--51425864 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
51425781 CAAGTATTCA
* * *
51425791 TTAAATTTTTTAATTTAAA-A-TAAAATAGTTAAATATCT
1 TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATATCT
51425829 TTAAA-TTTTTAATGTAAAGAGGAAAATAATTAAATA
1 TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATA
51425865 ATATGTCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.39
38 6 0.19
39 13 0.42
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (40 bp):
TTAAATTTTTTAATGTAAAGAGGAAAATAATTAAATATCT
Found at i:51432158 original size:560 final size:560
Alignment explanation
Indices: 51430992--51432674 Score: 3316
Period size: 560 Copynumber: 3.0 Consensus size: 560
51430982 AGCCTTCTCA
51430992 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGG-AAAA
1 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
51431056 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCA-TTTTACTTGCACACAGTTGTC
66 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
*
51431120 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTAAATAGAATAATCATTACTCAA
131 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
*
51431185 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGAATAGCTGCAT
196 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
*
51431250 GGAATTACTCCAACCTTGGCCCTAATTCTTCCAACAGTCTCATTATATACGTCAGGCTGAAATTT
261 GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
51431315 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
326 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
*
51431380 TCGTAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
391 TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
51431445 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
456 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
51431510 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
521 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
51431550 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
1 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
51431615 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
66 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
51431680 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
131 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
51431745 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
196 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
51431810 GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
261 GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
51431875 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
326 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
51431940 TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
391 TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
51432005 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
456 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
51432070 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
521 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
51432110 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
1 AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
51432175 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
66 AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
51432240 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
131 ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
51432305 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
196 ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
51432370 GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
261 GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
51432435 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
326 TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
51432500 TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
391 TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
51432565 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
456 TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
51432630 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
521 TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
51432670 AAACA
1 AAACA
51432675 TCTAGTTAGG
Statistics
Matches: 1119, Mismatches: 4, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
558 60 0.05
559 47 0.04
560 1012 0.90
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (560 bp):
AAACACCAAACAAAAGGGAGCATAGCATGTAATAAATAGGCATTGGCAACCAAAGATGGGAAAAA
AAGAAAGGAAATGATAGAGTGTTCTTTTTCCTAACGAAGACCATTTTTACTTGCACACAGTTGTC
ATATGAGGAGCATGATCATTGATTCTTTTCCATTGTCATTATTACATAGAATAATCATTACTCAA
ATGGTTATTGATTCATTGTTATCATTACATAGAACAAGGTTGCCTCGGGAGGAGCATAGCTGCAT
GGAATTACTCCAACCTTGGCCCTAATTCTTTCAACAGTCTCATTATATACGTCAGGCTGAAATTT
TCTTTCTTATTGCTAGATAATGTTCCAAGGAGCACTTTACTTATGTTTTGGCCGGCTTTGTTAAC
TCATAATGAAATGTGCTTTCCTTGTCACTAGAATTCTTGCAGCTATATAATTTCTATTCCCAGAA
TATGACTATAAACTTGTTTTCTCACTTGATATAATTCTTAAAATGCAGTATAACCACATTGGTAG
TTGAGCCAAAACAAGAATCTGGAAGACATAATAGCAGAAT
Found at i:51434012 original size:37 final size:38
Alignment explanation
Indices: 51433957--51434036 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
51433947 GAGAAAGTAA
51433957 AAGGAAATAAAAAGGCATTAGTGAATG-AAAACTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
* * *
51433994 AAGGTAATAAAGAGGCATTAGTGAATGAAAAAGTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
51434032 AAGGA
1 AAGGA
51434037 GCATGATGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 25 0.66
38 13 0.34
ACGTcount: A:0.53, C:0.06, G:0.23, T:0.19
Consensus pattern (38 bp):
AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
Found at i:51435370 original size:25 final size:25
Alignment explanation
Indices: 51435341--51435389 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
51435331 AAAGAAGAAG
51435341 CGAATTTG-ACACTCACCAAAACAAA
1 CGAATTTGCA-ACTCACCAAAACAAA
*
51435366 CGAATTTGCAAGTCACCAAAACAA
1 CGAATTTGCAACTCACCAAAACAA
51435390 TGGAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.16
Consensus pattern (25 bp):
CGAATTTGCAACTCACCAAAACAAA
Found at i:51449446 original size:20 final size:20
Alignment explanation
Indices: 51449402--51449439 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51449392 GTGAAACTTG
* *
51449402 CACACAGGTGTGTAGATCAC
1 CACACAGGCGTGTAGACCAC
51449422 CACACAGGCGTGTAGACC
1 CACACAGGCGTGTAGACC
51449440 TCTACACCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (20 bp):
CACACAGGCGTGTAGACCAC
Found at i:51454253 original size:31 final size:28
Alignment explanation
Indices: 51454185--51454255 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 28
51454175 AATGTGTGAC
* *
51454185 AAAATTAAATTTGAGTACTAATTTAAAT
1 AAAATTAAATTTAAATACTAATTTAAAT
51454213 AAAA--AAATTTAAATACTAATTTAAACCTT
1 AAAATTAAATTTAAATACTAATTTAAA---T
51454242 AAAATTAAATTTAA
1 AAAATTAAATTTAA
51454256 GTATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 19 0.53
28 4 0.11
29 5 0.14
31 8 0.22
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTAAATTTAAATACTAATTTAAAT
Found at i:51454972 original size:87 final size:87
Alignment explanation
Indices: 51454846--51455044 Score: 283
Period size: 87 Copynumber: 2.3 Consensus size: 87
51454836 TAAACTTAAA
* * * *
51454846 AAAAAAACAATTAAGTCCCTCCTTTTTTTTTGCATTCAATTGAGCACTTGAACTTTCAAAATGCA
1 AAAAAAACAATTAAGCCCCTGC--TTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
*
51454911 TCAAAAAGACCCTCAAACTTCTTC
64 TCAAAAAGACCCTCAAAATTCTTC
* * *
51454935 AAAAAAAGCAATTAAGCCCCTGCTTTGTTT-CACTCAATTGGGTATTTGAACTTTCAAAATGCAT
1 AAAAAAA-CAATTAAGCCCCTGCTTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
*
51454999 CAAAAAGACCCTCAAAATTTTTC
65 CAAAAAGACCCTCAAAATTCTTC
51455022 AAAAAAACAATTAAGCCCCTGCT
1 AAAAAAACAATTAAGCCCCTGCT
51455045 CTTATTAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
86 16 0.16
87 58 0.58
88 6 0.06
89 7 0.07
90 13 0.13
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAAACAATTAAGCCCCTGCTTTGTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCATC
AAAAAGACCCTCAAAATTCTTC
Found at i:51455095 original size:18 final size:19
Alignment explanation
Indices: 51455072--51455120 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
51455062 AAAAATGATA
51455072 AAAAATAATAAATTTT-AG
1 AAAAATAATAAATTTTAAG
* *
51455090 AAAAATTATTAAATTTTAAT
1 AAAAA-TAATAAATTTTAAG
51455110 AAAAAT-ATAAA
1 AAAAATAATAAA
51455121 AAATTACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAG
Found at i:51455141 original size:17 final size:17
Alignment explanation
Indices: 51455119--51455154 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
51455109 TAAAAATATA
51455119 AAAAATTACAATTTATT
1 AAAAATTACAATTTATT
*
51455136 AAAAATTACAATTTTTT
1 AAAAATTACAATTTATT
51455153 AA
1 AA
51455155 TAAAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTACAATTTATT
Found at i:51455205 original size:29 final size:30
Alignment explanation
Indices: 51455149--51455205 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
51455139 AATTACAATT
***
51455149 TTTTAATAAAAATCATAAAAATTTTTAAAA
1 TTTTAATAAAAATCATAAAAAAAATTAAAA
51455179 TTTT-ATAAAAATCATAAAAAAAATTAA
1 TTTTAATAAAAATCATAAAAAAAATTAA
51455206 TGACCCCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTTAATAAAAATCATAAAAAAAATTAAAA
Found at i:51455410 original size:47 final size:46
Alignment explanation
Indices: 51455347--51455435 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
51455337 ATAAATTTTT
51455347 TTTACAAAATTTATATTTATTTAC-ATTTTGTATAATTTTCTTAGAC
1 TTTACAAAATTTATATTTATTTACGATTTT-TATAATTTTCTTAGAC
* * *
51455393 TTTATAAAATTTTATATTTTTTTACGATTTTTATATTTTTCTT
1 TTTACAAAA-TTTATATTTATTTACGATTTTTATAATTTTCTT
51455436 CTAATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 8 0.21
47 25 0.66
48 5 0.13
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTACAAAATTTATATTTATTTACGATTTTTATAATTTTCTTAGAC
Found at i:51455442 original size:20 final size:19
Alignment explanation
Indices: 51455402--51455445 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
51455392 CTTTATAAAA
*
51455402 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACAAT
51455421 TTTTATATTTTTCTT-CTAAT
1 TTTTATATTTTT-TTAC-AAT
51455441 TTTTA
1 TTTTA
51455446 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:51456518 original size:23 final size:22
Alignment explanation
Indices: 51456487--51456535 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
51456477 TCACTGTTCT
* *
51456487 TTTTGTTTATATATTTCTTTTTA
1 TTTTCTTTAT-TATTTCATTTTA
*
51456510 TTTTCTTTATTTTTTCATTTTA
1 TTTTCTTTATTATTTCATTTTA
51456532 TTTT
1 TTTT
51456536 ATCTAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTATTATTTCATTTTA
Found at i:51457172 original size:19 final size:19
Alignment explanation
Indices: 51457131--51457172 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
51457121 TTATTCATAT
*
51457131 TATTGTTTATTACTATTTG
1 TATTGTTTATTACTATTTA
*
51457150 TATTAGTTTATTA-TTTTTA
1 TATT-GTTTATTACTATTTA
51457169 TATT
1 TATT
51457173 TATATGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TATTGTTTATTACTATTTA
Found at i:51459761 original size:2 final size:2
Alignment explanation
Indices: 51459754--51459780 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51459744 TCATCGGAAA
51459754 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
51459781 AAGAAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51473547 original size:17 final size:18
Alignment explanation
Indices: 51473515--51473550 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
51473505 CAATTTTTGA
51473515 AAAAATATCATAATTTTT
1 AAAAATATCATAATTTTT
*
51473533 AAAAATA-CATTATTTTT
1 AAAAATATCATAATTTTT
51473550 A
1 A
51473551 TAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATCATAATTTTT
Found at i:51477119 original size:11 final size:11
Alignment explanation
Indices: 51477103--51477140 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
51477093 TTTGATATTT
51477103 TAATTGAGTTC
1 TAATTGAGTTC
51477114 TAATTGAGTTC
1 TAATTGAGTTC
51477125 TAATTGAGTTC
1 TAATTGAGTTC
51477136 TAATT
1 TAATT
51477141 AATGATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (11 bp):
TAATTGAGTTC
Found at i:51477507 original size:451 final size:451
Alignment explanation
Indices: 51476665--51477558 Score: 1529
Period size: 451 Copynumber: 2.0 Consensus size: 451
51476655 TACTCTAGTT
* *
51476665 ATTGAGTTCTAATCAAATTCTAATTAATGATGGACTAGTTAGGAATTAGAACTAATATGCCAATG
1 ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAGTTAAGAATTAGAACTAATATGCCAATG
* *
51476730 TTATAAATATTGGGGTTATGGTTTTCAAATTAAACACAAGATATCTTTTTTAGTATCCCATCCTT
66 TTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCTT
* * *
51476795 AGCAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTGCTAATTTGGAAGATCAAATCTCCAAG
131 AACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAAG
* *
51476860 ATCCATAGATTTCAAGGAATTCATGGATTCAGGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
196 ATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
* * *
51476925 ATTTTTGATGATTTGATATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
261 ATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
*
51476990 TCTAATAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
326 TCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
51477055 TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
391 TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
** *
51477116 ATTGAGTTCTAATTGAGTTCTAATTAATGATGGAAT-GATTAAGAATTAGAACTAATATGCCAAT
1 ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAG-TTAAGAATTAGAACTAATATGCCAAT
* * *
51477180 GTTATAAATATTGGGGTTATGGTCTTCAAATTACACATAAAATATCTTTTTTAGTATCCTATCCT
65 GTTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCT
* * *
51477245 TAATAAAGAGAGAGCAAATATTCTCTGAATTTCTTATGTACTAATTTGGAAGATCAAATCCCCAA
130 TAACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAA
* *
51477310 GATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGTTGTTGCATCTAATTTTGTTCTTGATT
195 GATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATT
*
51477375 TATTCTTGATAATTTGACATGATAGATCTTGGTTTATTAAGTTTTATTTTAGATTTATTTTACAA
260 TATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAA
*
51477440 ATCTAGCAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTAT
325 ATCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTAT
*
51477505 TTTTGGATTGATTTGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATT
390 TTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATT
51477559 ATTTATTATG
Statistics
Matches: 415, Mismatches: 27, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
450 1 0.00
451 414 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (451 bp):
ATTGAGTTCTAATCAAATTCTAATTAATGATGGAATAGTTAAGAATTAGAACTAATATGCCAATG
TTATAAATATTGGGGTTATGGTCTTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCCTT
AACAAAGAGAGAGCAAATATTCTCTAAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCAAG
ATCCATAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGATTT
ATTCTTGATAATTTGACATGATAGATCTTAGTTTATTAAGTTTTATTTTAGATTTATTTTACAAA
TCTAACAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTATT
TTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTTTAATTGAGTTCTA
Found at i:51485622 original size:32 final size:32
Alignment explanation
Indices: 51485581--51485645 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
51485571 ATCCGCTGAG
51485581 TAATGTGGACGAAGTGTACAAATTAGAAAACA
1 TAATGTGGACGAAGTGTACAAATTAGAAAACA
51485613 TAATGTGGACGAAGTGTACAAATTAGAAAACA
1 TAATGTGGACGAAGTGTACAAATTAGAAAACA
51485645 T
1 T
51485646 GTACAACGTA
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:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (32 bp):
TAATGTGGACGAAGTGTACAAATTAGAAAACA
Found at i:51486110 original size:30 final size:30
Alignment explanation
Indices: 51486076--51486444 Score: 511
Period size: 29 Copynumber: 12.8 Consensus size: 30
51486066 TTGTTAATGG
*
51486076 TTAGGGTTTTTAATTAAATTAAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486106 TTAGGGTTTTTAATTAAATTAGGTTA-GGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486135 TTAGGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486164 TTAGGGTTTTTAATT--A--A--TTA-GG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486186 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486216 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
51486246 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
51486275 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
51486304 TTAGGGTTTTTAATTAATTTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
* **
51486334 TT----TTAATTAATTTAGGTTAGGGTTAGGGT
1 TTAGGGTT-TTTAA-TTAAATTA-GGTTAGGGT
51486363 TTAGGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
* *
51486392 TTATGGTTTTTAATTAAATTAGGTTAGTGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
51486422 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
51486445 ATTTTTATTA
Statistics
Matches: 308, Mismatches: 13, Indels: 36
0.86 0.04 0.10
Matches are distributed among these distances:
22 17 0.06
23 3 0.01
24 1 0.00
25 1 0.00
26 3 0.01
27 5 0.02
28 9 0.03
29 140 0.45
30 117 0.38
31 6 0.02
32 4 0.01
33 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (30 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:51486207 original size:18 final size:20
Alignment explanation
Indices: 51486163--51486217 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
51486153 TTAGGTTAGG
51486163 GTTAGGGTTTTTAATTAATTA
1 GTTAGGGTTTTTAATTAA-TA
51486184 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATT-AA-TA
51486207 GGTTAGGGTTT
1 -GTTAGGGTTT
51486218 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.50
23 16 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (20 bp):
GTTAGGGTTTTTAATTAATA
Found at i:51486242 original size:140 final size:144
Alignment explanation
Indices: 51486076--51486444 Score: 622
Period size: 140 Copynumber: 2.6 Consensus size: 144
51486066 TTGTTAATGG
*
51486076 TTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGG
51486141 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA-TTAGGTTAGGGTTTTTAATTAA-A
66 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAATA
51486204 -TTA-GGTTAGGGT
131 GTTAGGGTTAGGGT
* *
51486216 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGG
*
51486281 TTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAATT
66 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAA--
51486346 TAGGTTAGGGTTAGGGT
129 TA-GTTAGGGTTAGGGT
*
51486363 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTATGGTTTTTAATTAAATTAGGTTAGTGTTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG-GTTTAGG
51486427 GTTTTTAATTAAATTAGG
65 GTTTTTAATTAAATTAGG
51486445 ATTTTTATTA
Statistics
Matches: 213, Mismatches: 8, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
140 101 0.47
141 22 0.10
144 1 0.00
146 28 0.13
147 61 0.29
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (144 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGG
TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAATA
GTTAGGGTTAGGGT
Found at i:51486374 original size:36 final size:36
Alignment explanation
Indices: 51486327--51486444 Score: 136
Period size: 36 Copynumber: 3.6 Consensus size: 36
51486317 TTAATTTAGG
*
51486327 TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
51486363 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTA----
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
51486395 -T--GGTTTTTAATTAAATTAGGTTA--G-T---GT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
51486422 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
51486445 ATTTTTATTA
Statistics
Matches: 76, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 1 0.01
29 22 0.29
30 19 0.25
31 1 0.01
36 31 0.41
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (36 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
Found at i:51499831 original size:28 final size:28
Alignment explanation
Indices: 51499768--51500037 Score: 232
Period size: 28 Copynumber: 9.7 Consensus size: 28
51499758 ATTCAATGTA
* * * *
51499768 CGCCGCAAAGGCTTTCC-TCTCAAGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
51499795 CGCCACAAAGGCTTTCCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
51499823 CGCCACAAAGGCTATT-CTTTTTATGATT
1 CGCCACAAAGGCT-TTCCTTTTTATGATT
* *
51499851 CACCACAAAGGCTTTCCTTTCTATGAATT
1 CGCCACAAAGGCTTTCCTTTTTATG-ATT
* *
51499880 -GTCACAAAGGCTTTTCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
*
51499907 CGTCC-CAAAGGCTATT-ATTTTTATGATT
1 CG-CCACAAAGGCT-TTCCTTTTTATGATT
* * * *
51499935 CACCATAAAGG-TTTATCTTTTTATGAAT
1 CGCCACAAAGGCTTT-CCTTTTTATGATT
* *
51499963 CACCACAAAGACTTTCCTTTTTATGAATT
1 CGCCACAAAGGCTTTCCTTTTTATG-ATT
** * * *
51499992 -GCCATGAAGTCTTTTCTTTTTATGACT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
*
51500019 C-ACAGCAAAGGCTTTCCTT
1 CGCCA-CAAAGGCTTTCCTT
51500038 ATCTGTCATG
Statistics
Matches: 198, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.01
27 28 0.14
28 155 0.78
29 13 0.07
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (28 bp):
CGCCACAAAGGCTTTCCTTTTTATGATT
Found at i:51499858 original size:56 final size:56
Alignment explanation
Indices: 51499791--51500037 Score: 272
Period size: 56 Copynumber: 4.4 Consensus size: 56
51499781 TTCCTCTCAA
* *
51499791 GATTCGCCACAAAGGCTTTCCTTTTTATG-ATTCGCCACAAAGGCTATTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATT-GCCACAAAGGCTTTTCTTTTTAT
* *
51499847 GATTCACCACAAAGGCTTTCCTTTCTATGAATTGTCACAAAGGCTTTTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
* * * *
51499903 GATTCGTCC-CAAAGGCTATT-ATTTTTATG-ATTCACCATAAAGG-TTTATCTTTTTAT
1 GATTC-ACCACAAAGGCT-TTCCTTTTTATGAATT-GCCACAAAGGCTTT-TCTTTTTAT
* * ** *
51499959 GAATCACCACAAAGACTTTCCTTTTTATGAATTGCCATGAAGTCTTTTCTTTTTAT
1 GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
*
51500015 GACTCA-CAGCAAAGGCTTTCCTT
1 GATTCACCA-CAAAGGCTTTCCTT
51500038 ATCTGTCATG
Statistics
Matches: 162, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
55 12 0.07
56 137 0.85
57 13 0.08
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (56 bp):
GATTCACCACAAAGGCTTTCCTTTTTATGAATTGCCACAAAGGCTTTTCTTTTTAT
Found at i:51499916 original size:84 final size:83
Alignment explanation
Indices: 51499773--51500037 Score: 290
Period size: 84 Copynumber: 3.2 Consensus size: 83
51499763 ATGTACGCCG
* *
51499773 CAAAGGCTTTCCTCTC-AAG-ATTCGCCACAAAGGCTTTCCTTTTTATGATTCGCCACAAAGGCT
1 CAAAGGCTTTCCTTTCTATGAATT-GCCACAAAGGCTTTCCTTTTTATGATTCGCC-CAAAGGCT
51499836 ATTCTTTTTATGATTCACCA
64 ATTCTTTTTATGATTCACCA
* *
51499856 CAAAGGCTTTCCTTTCTATGAATTGTCACAAAGGCTTTTCTTTTTATGATTCGTCCCAAAGGCTA
1 CAAAGGCTTTCCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATGATTCG-CCCAAAGGCTA
*
51499921 TTATTTTTATGATTCACCA
65 TTCTTTTTATGATTCACCA
* * * ** * *
51499940 TAAAGG-TTTATCTTTTTATGAATCACCACAAAGACTTTCCTTTTTATGAATT-G-CCATGAAGT
1 CAAAGGCTTT-CCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATG-ATTCGCCCA--AAGG
* *
51500002 CTTTTCTTTTTATGACTCA-CA
62 CTATTCTTTTTATGATTCACCA
51500023 GCAAAGGCTTTCCTT
1 -CAAAGGCTTTCCTT
51500038 ATCTGTCATG
Statistics
Matches: 154, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
82 3 0.02
83 20 0.13
84 120 0.78
85 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (83 bp):
CAAAGGCTTTCCTTTCTATGAATTGCCACAAAGGCTTTCCTTTTTATGATTCGCCCAAAGGCTAT
TCTTTTTATGATTCACCA
Found at i:51503305 original size:18 final size:19
Alignment explanation
Indices: 51503279--51503316 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51503269 GGAGGGATAC
51503279 GGGACATGTTTGACT-TAT
1 GGGACATGTTTGACTCTAT
*
51503297 GGGATATGTTTGACTCTAT
1 GGGACATGTTTGACTCTAT
51503316 G
1 G
51503317 CTTCACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (19 bp):
GGGACATGTTTGACTCTAT
Found at i:51508191 original size:14 final size:15
Alignment explanation
Indices: 51508174--51508214 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
51508164 TTATTTATTA
51508174 AATTAATTTT-AATT
1 AATTAATTTTCAATT
51508188 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
51508204 AAATAATTTTC
1 AATTAATTTTC
51508215 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:51508205 original size:16 final size:16
Alignment explanation
Indices: 51508174--51508218 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
51508164 TTATTTATTA
51508174 AATTAA-TTTT-AATT
1 AATTAATTTTTCAATT
51508188 AATTAATTTTTCAATT
1 AATTAATTTTTCAATT
*
51508204 AAATAATTTTCTCAA
1 AATTAATTTT-TCAA
51508219 CCCAATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 13 0.48
17 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTTTTCAATT
Found at i:51508540 original size:44 final size:43
Alignment explanation
Indices: 51508470--51508633 Score: 138
Period size: 44 Copynumber: 3.8 Consensus size: 43
51508460 AGCGTGCTAA
*
51508470 CTTTAGCGGCG-TTTTTCACATAAACGCCGCTAAAGATCACAAG
1 CTTTAGCGGCGCTTTTT-ACACAAACGCCGCTAAAGATCACAAG
* ** *
51508513 CTTTAGCGGCGCTTTTTATCACAAACGCCGCTAAAGGTCATGAT
1 CTTTAGCGGCGCTTTTTA-CACAAACGCCGCTAAAGATCACAAG
** * *
51508557 CTTTAGCAACGCTTTTTGCCACAAACGCCACTATAA-A--ACAAG
1 CTTTAGCGGCGCTTTTT-ACACAAACGCCGCTA-AAGATCACAAG
* * * *
51508599 CCTTTAGCGTCGCTTCTCACAAAAACGCCGCTAAA
1 -CTTTAGCGGCGCTTTTTACACAAACGCCGCTAAA
51508634 AACATAACAT
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 14 0.15
43 25 0.26
44 53 0.55
45 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTACACAAACGCCGCTAAAGATCACAAG
Found at i:51508680 original size:18 final size:19
Alignment explanation
Indices: 51508653--51508689 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
51508643 TTTAAAAAAA
*
51508653 TTTATTTAAATATT-TATT
1 TTTATATAAATATTATATT
51508671 TTTATATAAATATTATATT
1 TTTATATAAATATTATATT
51508690 ATGTTTTATT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATAAATATTATATT
Found at i:51509685 original size:16 final size:16
Alignment explanation
Indices: 51509664--51509694 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51509654 AGTCCCAAAC
51509664 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
51509680 TATTGTAAACATCAG
1 TATTGTAAACATCAG
51509695 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:51510703 original size:20 final size:21
Alignment explanation
Indices: 51510678--51510717 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51510668 AAAATTTTAT
*
51510678 TTATTTT-TATTTGTTAAAAA
1 TTATTTTATATATGTTAAAAA
51510698 TTATTTTATATATGTTAAAA
1 TTATTTTATATATGTTAAAA
51510718 TGAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATTTTATATATGTTAAAAA
Found at i:51512854 original size:41 final size:41
Alignment explanation
Indices: 51512768--51512846 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
51512758 GTCACTATTG
* * *
51512768 CCTGAGCATTAGCGGCGTTTTTTCAAAAATGCCGCTAAAGA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
*
51512809 CCTGATCATTAGCGGCGCTTTCTCAAAAACGCCGCTAA
1 CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAA
51512847 TACCCTGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGA
Found at i:51516823 original size:41 final size:41
Alignment explanation
Indices: 51516766--51516848 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
51516756 CATAAGGTTC
*
51516766 AAACGGGGCTCGACAATCATCGTGACATCGTTGATCAATAT
1 AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
*
51516807 AAACGGGGCTCGACAATCATCGTGACATTGTTGAGCAATAT
1 AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
51516848 A
1 A
51516849 TTAACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AAACGGGGCTCGACAATCATCGTGACATCGTTGAGCAATAT
Found at i:51520510 original size:426 final size:426
Alignment explanation
Indices: 51519717--51520568 Score: 1704
Period size: 426 Copynumber: 2.0 Consensus size: 426
51519707 CAAAGGTTAT
51519717 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
1 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
51519782 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
66 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
51519847 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
131 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
51519912 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
196 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
51519977 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
261 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
51520042 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
326 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
51520107 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
391 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
51520143 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
1 GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
51520208 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
66 TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
51520273 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
131 GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
51520338 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
196 TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
51520403 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
261 TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
51520468 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
326 CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
51520533 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
391 GAATATATGCTATTTTTATGAATTAATGAAGCATGA
51520569 ATACATTATT
Statistics
Matches: 426, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
426 426 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (426 bp):
GTGCATTAAAACAATAATTAAATATGTGTAATTGTGGAATTTGACCTTGTGATCTATTCAAACCG
TTGAATATAGTTGGCATGCTATAGAATTGTGAGTAGTCACCTTTGTGTTTTGTGGTTTGGGCATT
GAGGCTCCGGGACAGAATGCAGAGATAAGGGAATGTCGAGCTAAGCTCCATTCATTGGGACATGT
TAGTGTGTTTGAGAGTGTTCTGATTTATGCTACACTTATGGGATATGTTAAATTCTTTGAGTCAT
TGGTGTGATGAAGATCTGTTTATGCAATGTGTAGTGATAGAGCCGACTTTTATGTTTCATAATCT
CAGGTTGCCAACTTATCATTAAATGAATTATATATATGAGTTATATTTTATGTAATTGTATGTGA
GAATATATGCTATTTTTATGAATTAATGAAGCATGA
Found at i:51539203 original size:23 final size:23
Alignment explanation
Indices: 51539157--51539204 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
51539147 TAAAAAGACA
* * **
51539157 TATTGTAATATCCCGAAAGTTAC
1 TATTGAAATACCCCGAAAACTAC
51539180 TATTGAAATACCCCGAAAACTAC
1 TATTGAAATACCCCGAAAACTAC
51539203 TA
1 TA
51539205 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
TATTGAAATACCCCGAAAACTAC
Found at i:51541844 original size:15 final size:15
Alignment explanation
Indices: 51541824--51541854 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51541814 ATACTGAACG
51541824 TGACTTGCTCACCAT
1 TGACTTGCTCACCAT
*
51541839 TGACTTGCTCATCAT
1 TGACTTGCTCACCAT
51541854 T
1 T
51541855 AAGTCATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
TGACTTGCTCACCAT
Found at i:51565437 original size:19 final size:18
Alignment explanation
Indices: 51565409--51565450 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
51565399 ACTTATGTAG
51565409 TTTTTAATTTTGAATTAT
1 TTTTTAATTTTGAATTAT
51565427 TTTTATAATTTTGAATTAT
1 TTTT-TAATTTTGAATTAT
51565446 TTTTT
1 TTTTT
51565451 GATGTGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTGAATTAT
Found at i:51568109 original size:24 final size:23
Alignment explanation
Indices: 51568061--51568121 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
51568051 ACTGGTCATA
* *
51568061 GAGAGAATTGAGGAGGGATATTT
1 GAGAGATTTGAGGAGGAATATTT
51568084 GGAGAGATTTGAGGAGAGAATA-TT
1 -GAGAGATTTGAGGAG-GAATATTT
51568108 G-G-GATTTGAGGAGG
1 GAGAGATTTGAGGAGG
51568122 TTGTTGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 1 0.03
23 1 0.03
24 16 0.47
25 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.25
Consensus pattern (23 bp):
GAGAGATTTGAGGAGGAATATTT
Found at i:51568717 original size:27 final size:27
Alignment explanation
Indices: 51568686--51569006 Score: 394
Period size: 27 Copynumber: 11.9 Consensus size: 27
51568676 GTTATGACCA
**
51568686 AAATACCTTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
51568713 AAATACCCCCATAAGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
** * * ** *
51568740 AAATACCCTTAAAGGGTAGAATGGCCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
51568767 AAATACCCCCGTAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
51568794 AAATACCCCCATAGGGTAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
* *
51568821 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
51568848 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
51568875 AAATACCCCCATAGGGTAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
*
51568902 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * **
51568929 AAATACCCCCATAGAGTAGAATGGCCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
51568956 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
51568983 AAATACCCCCATATGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
51569007 CTGTTATGGC
Statistics
Matches: 258, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 254 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:51576910 original size:66 final size:66
Alignment explanation
Indices: 51576812--51576935 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
51576802 AATTGGATGC
* * *
51576812 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGTTGCGCTTTTCTTCTCAGTCTTGGACG
1 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
51576877 T
66 T
*
51576878 GTTTTCA-ACAAATTTTGTAAGAAAATGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTC
1 GTTTTCAGA-AAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTC
51576936 AGCAAAGCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (66 bp):
GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
T
Found at i:51577038 original size:11 final size:11
Alignment explanation
Indices: 51577019--51577079 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
51577009 CAAATTTTCC
51577019 TCTCTCTCAAT
1 TCTCTCTCAAT
* *
51577030 TCACTCTCAAC
1 TCTCTCTCAAT
*
51577041 TCTCTCTGAAT
1 TCTCTCTCAAT
*
51577052 TCTCTCTTAAT
1 TCTCTCTCAAT
* *
51577063 TATCACTCAAT
1 TCTCTCTCAAT
51577074 TCTCTC
1 TCTCTC
51577080 ATATCACTCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCTCAAT
Found at i:51577229 original size:11 final size:11
Alignment explanation
Indices: 51577197--51577242 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
51577187 TCGCTTCTCC
*
51577197 CTCTCAATTCA
1 CTCTCAATTCT
51577208 CTCTCAATTCT
1 CTCTCAATTCT
*
51577219 CTCTTAATTCT
1 CTCTCAATTCT
* *
51577230 CACTTAATTCT
1 CTCTCAATTCT
51577241 CT
1 CT
51577243 TAGTTCACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:51577347 original size:163 final size:164
Alignment explanation
Indices: 51577033--51577350 Score: 507
Period size: 164 Copynumber: 1.9 Consensus size: 164
51577023 TCTCAATTCA
* * *
51577033 CTCTCAACTCTCTCTGAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTTATTTTTT
1 CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTT
* *
51577098 ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACGATTTTTATTTGTATTTATTGAA
66 ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAA
51577163 ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
131 ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
* * * *
51577197 CTCTCAATTCACTCTCAATTCTCTCTTAATTCTCACTTAATTCTCTTAGT-TCACTCTGATTTTT
1 CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCA-TATCACTCTGATTTTT
51577261 TATTAAAATTGTT-TTAAGG-TTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTG
65 TATTAAAATT-TTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTG
*
51577324 AAATTCTTAATGGCAAATTCTCTTATT
129 AAATTCTTAATGGAAAATTCTCTTATT
51577351 TGTTTAGATG
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
163 68 0.48
164 71 0.50
165 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (164 bp):
CTCTCAACTCACTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTT
ATTAAAATTTTCTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAA
ATTCTTAATGGAAAATTCTCTTATTCGCTTCTCC
Found at i:51584883 original size:40 final size:40
Alignment explanation
Indices: 51584799--51584982 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
51584789 TTGAATGCTG
* * * *
51584799 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
51584838 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
51584879 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
51584919 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
51584959 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51584983 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:51584936 original size:80 final size:81
Alignment explanation
Indices: 51584799--51584979 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
51584789 TTGAATGCTG
* *
51584799 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
51584863 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
51584879 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
51584940 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
51584959 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
51584980 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:51586944 original size:18 final size:20
Alignment explanation
Indices: 51586909--51586947 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
51586899 ATTACACGGG
51586909 TAATTTTAATATTTTCAAAA
1 TAATTTTAATATTTTCAAAA
51586929 TAATTTTAA-A-TTTCAAAA
1 TAATTTTAATATTTTCAAAA
51586947 T
1 T
51586948 TTATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTAATATTTTCAAAA
Found at i:51590470 original size:540 final size:541
Alignment explanation
Indices: 51589451--51590531 Score: 1975
Period size: 540 Copynumber: 2.0 Consensus size: 541
51589441 TTGGTCGATG
*
51589451 AAGGCGGTGATGATTTCTTGTTAGTGTCAACGAGCGATAACTCCAAGCTTACGTCTGAGTGGATC
1 AAGGCGGTGATGATTTCTTGTTAGTGTCAACGAGCGATAACTCCAAACTTACGTCTGAGTGGATC
* * *
51589516 CTAGATTCAGGATGTTCTTTCCACATGTGTCCCAATAGAGAATGGTTCTCCACATACAGTTCAGT
66 CTAGATTCAGGATATTCTTTCCACATGTGTCCCAATAGAAAATGGTTCTCCACATACAGTTCAAT
*
51589581 TGAAGGTGGAGTTGTGCACATGGGAAACGATTCATCTAGTAAAATAATCGGTATTGGTACTGTTA
131 TAAAGGTGGAGTTGTGCACATGGGAAACGATTCATCTAGTAAAATAATCGGTATTGGTACTGTTA
*
51589646 AAATTAGGATACACGATGGGACGATTAGGACACTCTCAGATGTCAGGTATGTACCTGATTTACGA
196 AAATTAGGATACACGATGGGACGATTAGGACACTCTCAAATGTCAGGTATGTACCTGATTTACGA
*
51589711 AAGAATCTCATCTCCTTGAGTATTTTAGACTTGAAAGGATGTAGAATCAACATCGAGTCGAGCGA
261 AAGAATCTCATCTCCTTGAGTATTTTAGACTTGAAAGGATGCAGAATCAACATCGAGTCGAGCGA
* * *
51589776 CATTAAATTATCTCTTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACTGGCAGTCTTTATATTC
326 CATTAAAGTATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTC
51589841 TGGAAGGTTCTACAGTGACCGGTGAAATCGGACGACCCTCGTCCGTTACGGAGTAAAAGTCAACT
391 TGGAAGGTTCTACAGTGACCGGTGAAATCGGACGACCCTCGTCCGTTACGGAGTAAAAGTCAACT
* *
51589906 CGTTTGGAGCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGG
456 CATTTGAAGCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGG
51589971 TTCTCTTTTGGATGCAGGTTT
521 TTCTCTTTTGGATGCAGGTTT
*
51589992 AAGGCGGTGATGATTTCTTGTTAGTGTCAACGAGCGATAACTCCAAACTTACGTTTGAGTGGATC
1 AAGGCGGTGATGATTTCTTGTTAGTGTCAACGAGCGATAACTCCAAACTTACGTCTGAGTGGATC
* * *
51590057 CTAGATTTAGGATATTCTTTTCACATGTGTCCCAATAGAAAATGGTTCTCCACATACCGTTCAAT
66 CTAGATTCAGGATATTCTTTCCACATGTGTCCCAATAGAAAATGGTTCTCCACATACAGTTCAAT
51590122 TAAAGGTGGAGTTGTGCACATGGGAAACGATTCATCTAGTAAAATAATCGGTATTGGTACTGTTA
131 TAAAGGTGGAGTTGTGCACATGGGAAACGATTCATCTAGTAAAATAATCGGTATTGGTACTGTTA
*
51590187 AAATTAGGATACACG-TGGGACGATTAGGACACTCTCAAATGTTAGGTATGTACCTGATTTACGA
196 AAATTAGGATACACGATGGGACGATTAGGACACTCTCAAATGTCAGGTATGTACCTGATTTACGA
51590251 AAGAATCTCATCTCCTTGAGTATTTTAGACTTGAAAGGATGCAGAATCAACATCGAGTCGAGCGA
261 AAGAATCTCATCTCCTTGAGTATTTTAGACTTGAAAGGATGCAGAATCAACATCGAGTCGAGCGA
*
51590316 CATTAAAGTATCTCGTGGAGCTCTCGTTTTGTTAAAAGGTAAAAGAACCGGCAGTCTTTATATTC
326 CATTAAAGTATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTC
* *
51590381 TGGAAGGTTCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACT
391 TGGAAGGTTCTACAGTGACCGGTGAAATCGGACGACCCTCGTCCGTTACGGAGTAAAAGTCAACT
51590446 CATTTGAAGCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGG
456 CATTTGAAGCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGG
51590511 TTCTCTTTTGGATGCAGGTTT
521 TTCTCTTTTGGATGCAGGTTT
51590532 TGAAAAGTTA
Statistics
Matches: 520, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
540 319 0.61
541 201 0.39
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (541 bp):
AAGGCGGTGATGATTTCTTGTTAGTGTCAACGAGCGATAACTCCAAACTTACGTCTGAGTGGATC
CTAGATTCAGGATATTCTTTCCACATGTGTCCCAATAGAAAATGGTTCTCCACATACAGTTCAAT
TAAAGGTGGAGTTGTGCACATGGGAAACGATTCATCTAGTAAAATAATCGGTATTGGTACTGTTA
AAATTAGGATACACGATGGGACGATTAGGACACTCTCAAATGTCAGGTATGTACCTGATTTACGA
AAGAATCTCATCTCCTTGAGTATTTTAGACTTGAAAGGATGCAGAATCAACATCGAGTCGAGCGA
CATTAAAGTATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTC
TGGAAGGTTCTACAGTGACCGGTGAAATCGGACGACCCTCGTCCGTTACGGAGTAAAAGTCAACT
CATTTGAAGCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGG
TTCTCTTTTGGATGCAGGTTT
Found at i:51591568 original size:649 final size:649
Alignment explanation
Indices: 51590324--51591619 Score: 2538
Period size: 649 Copynumber: 2.0 Consensus size: 649
51590314 GACATTAAAG
*
51590324 TATCTCGTGGAGCTCTCGTTTTGTTAAAAGGTAAAAGAACCGGCAGTCTTTATATTCTGGAAGGT
1 TATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTCTGGAAGGT
51590389 TCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACTCATTTGAA
66 TCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACTCATTTGAA
51590454 GCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGGTTCTCTTT
131 GCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGGTTCTCTTT
51590519 TGGATGCAGGTTTTGAAAAGTTAGGGCACTGTATTCGTGAAAATCAGACCCGGGTTAGTTTTGAT
196 TGGATGCAGGTTTTGAAAAGTTAGGGCACTGTATTCGTGAAAATCAGACCCGGGTTAGTTTTGAT
51590584 TTGGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCATAGATTCGACTCAGTTAA
261 TTGGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCATAGATTCGACTCAGTTAA
*
51590649 TTCCCTGCATAGTTCAAGATAGGCCCGTGGCGGGTTTTGGCAAAGATGGCATTGAAAGAATTTGT
326 TTCCCTGCATAGTTCAAGATAGGCCCGTGGCAGGTTTTGGCAAAGATGGCATTGAAAGAATTTGT
51590714 GTCAAGGTGGAGATTGTTAGAATTGTGTGACCCAAATTCTAAGAGATTGCTTGCAAGTCAAGTTA
391 GTCAAGGTGGAGATTGTTAGAATTGTGTGACCCAAATTCTAAGAGATTGCTTGCAAGTCAAGTTA
51590779 AACAAAAATATATTTTCTTTCTAGAAGATTTAGTATTTATTAGTATAATATATTTAGCATTTATT
456 AACAAAAATATATTTTCTTTCTAGAAGATTTAGTATTTATTAGTATAATATATTTAGCATTTATT
51590844 AGTATAGTTTATTTGACTTACTAATTTAGCCTATAAATATGATCTTTTACAATCTTAGAAATATG
521 AGTATAGTTTATTTGACTTACTAATTTAGCCTATAAATATGATCTTTTACAATCTTAGAAATATG
51590909 ACACCCACTAGATTAGAACTCATAACACATTCAGAGAATTTTGTGTTTACGTTTTGAGGGTTTT
586 ACACCCACTAGATTAGAACTCATAACACATTCAGAGAATTTTGTGTTTACGTTTTGAGGGTTTT
* *
51590973 TATCTCTTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACTGGCAGTCTTTATATTCTGGAAGGT
1 TATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTCTGGAAGGT
51591038 TCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACTCATTTGAA
66 TCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACTCATTTGAA
51591103 GCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGGTTCTCTTT
131 GCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGGTTCTCTTT
51591168 TGGATGCAGGTTTTGAAAAGTTAGGGCACTGTATTCGTGAAAATCAGACCCGGGTTAGTTTTGAT
196 TGGATGCAGGTTTTGAAAAGTTAGGGCACTGTATTCGTGAAAATCAGACCCGGGTTAGTTTTGAT
51591233 TTGGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCATAGATTCGACTCAGTTAA
261 TTGGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCATAGATTCGACTCAGTTAA
51591298 TTCCCTGCATAGTTCAAGATAGGCCCGTGGCAGGTTTTGGCAAAGATGGCATTGAAAGAATTTGT
326 TTCCCTGCATAGTTCAAGATAGGCCCGTGGCAGGTTTTGGCAAAGATGGCATTGAAAGAATTTGT
* *
51591363 GTCAAGGTGGATATTGTTAGAGTTGTGTGACCCAAATTCTAAGAGATTGCTTGCAAGTCAAGTTA
391 GTCAAGGTGGAGATTGTTAGAATTGTGTGACCCAAATTCTAAGAGATTGCTTGCAAGTCAAGTTA
51591428 AACAAAAATATATTTTCTTTCTAGAAGATTTAGTATTTATTAGTATAATATATTTAGCATTTATT
456 AACAAAAATATATTTTCTTTCTAGAAGATTTAGTATTTATTAGTATAATATATTTAGCATTTATT
51591493 AGTATAGTTTATTTGACTTACTAATTTAGCCTATAAATATGATCTTTTACAATCTTAGAAATATG
521 AGTATAGTTTATTTGACTTACTAATTTAGCCTATAAATATGATCTTTTACAATCTTAGAAATATG
51591558 ACACCCACTAGATTAGAACTCATAACACATTCAGAGAATTTTGTGTTTACGTTTTGAGGGTT
586 ACACCCACTAGATTAGAACTCATAACACATTCAGAGAATTTTGTGTTTACGTTTTGAGGGTT
51591620 CTTTGTTTTT
Statistics
Matches: 641, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
649 641 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (649 bp):
TATCTCGTGGAGCTCTCGTTTTGTTAAAAGATAAAAGAACCGGCAGTCTTTATATTCTGGAAGGT
TCTACAGTGACCGGTGAAATCGGACGTCCCTCGTCCGTTACGGAGTCAAAGTCAACTCATTTGAA
GCGGAGGCAACTTGGTCATAGGAGGGAAAAAGGTATGACCGTTTCGTTGAAGAGAGGTTCTCTTT
TGGATGCAGGTTTTGAAAAGTTAGGGCACTGTATTCGTGAAAATCAGACCCGGGTTAGTTTTGAT
TTGGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCATAGATTCGACTCAGTTAA
TTCCCTGCATAGTTCAAGATAGGCCCGTGGCAGGTTTTGGCAAAGATGGCATTGAAAGAATTTGT
GTCAAGGTGGAGATTGTTAGAATTGTGTGACCCAAATTCTAAGAGATTGCTTGCAAGTCAAGTTA
AACAAAAATATATTTTCTTTCTAGAAGATTTAGTATTTATTAGTATAATATATTTAGCATTTATT
AGTATAGTTTATTTGACTTACTAATTTAGCCTATAAATATGATCTTTTACAATCTTAGAAATATG
ACACCCACTAGATTAGAACTCATAACACATTCAGAGAATTTTGTGTTTACGTTTTGAGGGTTTT
Found at i:51593942 original size:12 final size:11
Alignment explanation
Indices: 51593904--51593936 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
51593894 AACTTATACT
51593904 TACATACTATA
1 TACATACTATA
51593915 TACATACCTATA
1 TACATA-CTATA
51593927 TACATA-TATA
1 TACATACTATA
51593937 CATACACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (11 bp):
TACATACTATA
Found at i:51596767 original size:21 final size:21
Alignment explanation
Indices: 51596741--51596781 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51596731 ATCTGCTCAA
* *
51596741 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
51596762 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
51596782 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:51601937 original size:29 final size:30
Alignment explanation
Indices: 51601887--51601944 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
51601877 AATGAAAAAT
* * *
51601887 TAAATACTGAATTTTTAGTATAGAATTTTA
1 TAAATACTAAATTTATAGTATAAAATTTTA
*
51601917 TAAATA-TAAATTTATATTATAAAATTTT
1 TAAATACTAAATTTATAGTATAAAATTTT
51601945 TCTGTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (30 bp):
TAAATACTAAATTTATAGTATAAAATTTTA
Found at i:51604892 original size:3 final size:3
Alignment explanation
Indices: 51604884--51604917 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
51604874 CCCTTAAGTC
51604884 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51604918 GGTAGGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51609450 original size:18 final size:19
Alignment explanation
Indices: 51609411--51609451 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
51609401 ATTATTCATA
51609411 ATTTT-ATATTTTTACAGT
1 ATTTTAATATTTTTACAGT
*
51609429 -TTTTAATATTTTTATA-T
1 ATTTTAATATTTTTACAGT
51609446 ATTTTA
1 ATTTTA
51609452 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTAATATTTTTACAGT
Found at i:51610991 original size:8 final size:8
Alignment explanation
Indices: 51610978--51611029 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
51610968 GTTGAACTAG
51610978 ATTTTATA
1 ATTTTATA
51610986 ATTTTATA
1 ATTTTATA
51610994 ATTTTATA
1 ATTTTATA
51611002 ATTTT-TAA
1 ATTTTAT-A
51611010 ATGTTTATGA
1 AT-TTTAT-A
*
51611020 ATTTTTTA
1 ATTTTATA
51611028 AT
1 AT
51611030 AATTGACTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 1 0.03
8 27 0.69
9 7 0.18
10 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (8 bp):
ATTTTATA
Found at i:51612951 original size:39 final size:39
Alignment explanation
Indices: 51612905--51612989 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
51612895 ATAGAAATAT
*
51612905 GGTGATTATTCGAGCTATATGCTTAGCAGGCTGTGTGCC
1 GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
* *
51612944 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCC
1 GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
51612983 GGTGATT
1 GGTGATT
51612990 GACTCATACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.33
Consensus pattern (39 bp):
GGTGATTATTCGAGCTATATGCCTAGCAGGCTGTGTGCC
Found at i:51615047 original size:25 final size:24
Alignment explanation
Indices: 51614996--51615087 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 24
51614986 ACACACCACA
* *
51614996 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTTATGAGCTTCCCGAT-TATG
*
51615021 GCTCTTACGAGCTTCCCGATTGATG
1 GCTCTTATGAGCTTCCCGATT-ATG
* * *
51615046 GCTATTTTGAACTTCCCGATTTATG
1 GCTCTTATGAGCTTCCCGA-TTATG
*
51615071 GCT-TGCATGAGCTTCCC
1 GCTCT-TATGAGCTTCCC
51615088 AATATACAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.04
25 50 0.93
26 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:51615123 original size:25 final size:24
Alignment explanation
Indices: 51615079--51615165 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
51615069 TGGCTTGCAT
** *
51615079 GAGCTTCCCAATATACAGCTCGATA
1 GAGCTTCCCGTTATATAGCTCGA-A
51615104 GAGCTTCCCGTTACT-TAGCTC-ACA
1 GAGCTTCCCGTTA-TATAGCTCGA-A
* *
51615128 TGAGCTTCCTGTTATATGGCTCTGAA
1 -GAGCTTCCCGTTATATAGCTC-GAA
51615154 GAGCTTCCCGTT
1 GAGCTTCCCGTT
51615166 TACATGCTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
24 3 0.06
25 44 0.88
26 2 0.04
27 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGTTATATAGCTCGAA
Found at i:51615182 original size:25 final size:25
Alignment explanation
Indices: 51615077--51615182 Score: 65
Period size: 25 Copynumber: 4.2 Consensus size: 25
51615067 TATGGCTTGC
** * *
51615077 ATGAGCTTCCCAATATACAGCTCG-
1 ATGAGCTTCCCGTTACATAGCTCGT
* **
51615101 ATAGAGCTTCCCGTTACTTAGCTCAC
1 AT-GAGCTTCCCGTTACATAGCTCGT
* * *
51615127 ATGAGCTTCCTGTTATATGGCTC-T
1 ATGAGCTTCCCGTTACATAGCTCGT
*
51615151 GAAGAGCTTCCCGTTTACAT-GCTCGT
1 -ATGAGCTTCCCG-TTACATAGCTCGT
51615177 ATGAGC
1 ATGAGC
51615183 ACATATGTAT
Statistics
Matches: 62, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
24 2 0.03
25 52 0.84
26 8 0.13
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATAGCTCGT
Found at i:51615308 original size:21 final size:22
Alignment explanation
Indices: 51615275--51615316 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
51615265 CAATGGGCAA
*
51615275 AGTTCTGATATGAGA-TATTATG
1 AGTTCTGAAATGA-ACTATTATG
51615297 AGTT-TGAAATGAACTATTAT
1 AGTTCTGAAATGAACTATTAT
51615317 CCATATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (22 bp):
AGTTCTGAAATGAACTATTATG
Found at i:51616053 original size:42 final size:42
Alignment explanation
Indices: 51615985--51616097 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
51615975 TATTTTTTTC
* * *
51615985 CACACGGGCAAAGACACAGGCATGTGTCTCAGTCGTGTGTGA
1 CACACGGGCAGAGACACGGGCGTGTGTCTCAGTCGTGTGTGA
* *
51616027 CACACGAGCAGAGACACGGGCGTGTGTCTCAGTCTTGTGTGA
1 CACACGGGCAGAGACACGGGCGTGTGTCTCAGTCGTGTGTGA
* *
51616069 CACACGGGCAAGTGACACGGCCGTGTGTC
1 CACACGGGC-AGAGACACGGGCGTGTGTC
51616098 CCCTGTATCT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 45 0.73
43 17 0.27
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.19
Consensus pattern (42 bp):
CACACGGGCAGAGACACGGGCGTGTGTCTCAGTCGTGTGTGA
Found at i:51631236 original size:18 final size:18
Alignment explanation
Indices: 51631213--51631250 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
51631203 TGCTAGGTGC
*
51631213 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
51631231 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
51631249 GT
1 GT
51631251 TTCATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:51631526 original size:21 final size:21
Alignment explanation
Indices: 51631502--51631546 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
51631492 CCCACAACCA
*
51631502 GAACAACCACAACCCCCGCTG
1 GAACAACCACAACCCCCGCCG
51631523 GAACAACCACAACCCCCGCCG
1 GAACAACCACAACCCCCGCCG
51631544 GAA
1 GAA
51631547 GCTGAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.47, G:0.16, T:0.02
Consensus pattern (21 bp):
GAACAACCACAACCCCCGCCG
Found at i:51635017 original size:126 final size:126
Alignment explanation
Indices: 51634788--51635071 Score: 426
Period size: 126 Copynumber: 2.3 Consensus size: 126
51634778 TAAGGCCAAA
* *
51634788 CAAGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCAGACAGTGC
* * *
51634853 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
66 ATCCTACTTGAAGCGTTTTTGAAACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * ** * *
51634914 CAAGAACCACTGTAGAAAAAGAGTGTTCATGTGGTAGCTTTTTTTAGTAATTTTGCAGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCAGACAGTGC
*
51634979 ATCCTACTTGAAGTGTTTTTGAAACTACTTTTTT-AGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTACTTGAAGCGTTTTTGAAACTA-TTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
51635040 CAAGAACTATTGTAGAAAAAGAGCGTCCACAT
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACAT
51635072 CCTACTTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 132 0.96
127 6 0.04
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTGCAGACAGTGC
ATCCTACTTGAAGCGTTTTTGAAACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:51635139 original size:91 final size:91
Alignment explanation
Indices: 51634978--51635150 Score: 258
Period size: 91 Copynumber: 1.9 Consensus size: 91
51634968 GCAGACAGTG
* * * *
51634978 CATCCTACTTGAAGTGTTTTTGAAACTACTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTCAA
1 CATCCTACTTCAAGCGTTTTTGAAACTACCTTTTTAGAACCGTCTTCTCAAAATTAATTTTTCAA
51635043 GAACTATTGTAGAAAAAGAGCGTCCA
66 GAACTATTGTAGAAAAAGAGCGTCCA
* * * *
51635069 CATCCTACTTCAAGCGTTTTTTACATTACCTTTTTAGAACCGTCTTCTCAAAATTAATTTTTC-T
1 CATCCTACTTCAAGCGTTTTTGAAACTACCTTTTTAGAACCGTCTTCTCAAAATTAATTTTTCAA
51635133 GAAACTATTGTAGAAAAA
66 G-AACTATTGTAGAAAAA
51635151 AAAACAAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 1 0.01
91 72 0.99
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (91 bp):
CATCCTACTTCAAGCGTTTTTGAAACTACCTTTTTAGAACCGTCTTCTCAAAATTAATTTTTCAA
GAACTATTGTAGAAAAAGAGCGTCCA
Found at i:51635253 original size:34 final size:33
Alignment explanation
Indices: 51635212--51635338 Score: 150
Period size: 34 Copynumber: 3.8 Consensus size: 33
51635202 CACAAAATTA
**
51635212 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
*
51635245 TTTCTTAAAAACTCTAAACCCTCATTTAATTAAT
1 TTT-TTAAAAACTCTAAACCCTAATTTAATTAAT
* * *
51635279 TTATTT-TAAACCCTTAAAACCTAATTTAATT-AT
1 TT-TTTAAAAACTC-TAAACCCTAATTTAATTAAT
*
51635312 TTTTTAAAAACTCTAAACTCTAATTTA
1 TTTTTAAAAACTCTAAACCCTAATTTA
51635339 TTTTTTAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
32 15 0.19
33 17 0.22
34 46 0.58
35 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.43
Consensus pattern (33 bp):
TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
Found at i:51636866 original size:111 final size:110
Alignment explanation
Indices: 51636670--51636890 Score: 424
Period size: 111 Copynumber: 2.0 Consensus size: 110
51636660 TTAATTTATT
51636670 TCAACAAAGCCCCTTAAAATTAATTATTTAATGGTCATCATTCCTTAATTTTTTTATTAATTAAT
1 TCAACAAAGCCCCTTAAAATTAATTATTTAATGGTCATCATTCCTTAATTTTTTTATTAATTAAT
51636735 GTTCAGTGATACAAATCTGTTTCTTATTACATTTTATATAATGTA
66 GTTCAGTGATACAAATCTGTTTCTTATTACATTTTATATAATGTA
*
51636780 TCAACAAAGCCCCTTAAAATTAATTATTTGATGGTCATCATTCCTTAATTTTTTTTATTAATTAA
1 TCAACAAAGCCCCTTAAAATTAATTATTTAATGGTCATCATTCCTTAA-TTTTTTTATTAATTAA
51636845 TGTTCAGTGATACAAATCTGTTTCTTATTACATTTTATATAATGTA
65 TGTTCAGTGATACAAATCTGTTTCTTATTACATTTTATATAATGTA
51636891 CAAACTGATA
Statistics
Matches: 109, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 47 0.43
111 62 0.57
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (110 bp):
TCAACAAAGCCCCTTAAAATTAATTATTTAATGGTCATCATTCCTTAATTTTTTTATTAATTAAT
GTTCAGTGATACAAATCTGTTTCTTATTACATTTTATATAATGTA
Found at i:51637511 original size:21 final size:21
Alignment explanation
Indices: 51637487--51637555 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
51637477 TTGTTGGAAA
*
51637487 ATAATTATTGAGTGAAGAATG
1 ATAATTATTGAGTGATGAATG
* * * **
51637508 ATAATTGAAT-ATTGTTGAAAA
1 ATAATT-ATTGAGTGATGAATG
51637529 ATAATTATTGAGTGATGAATG
1 ATAATTATTGAGTGATGAATG
51637550 ATAATT
1 ATAATT
51637556 GTATTTCTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (21 bp):
ATAATTATTGAGTGATGAATG
Found at i:51637534 original size:42 final size:42
Alignment explanation
Indices: 51637475--51637556 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
51637465 TTTTATTATG
*
51637475 TATTGTTGGAAAATAATTATTGAGTGAAGAATGATAATTGAA
1 TATTGTTGAAAAATAATTATTGAGTGAAGAATGATAATTGAA
*
51637517 TATTGTTGAAAAATAATTATTGAGTGATGAATGATAATTG
1 TATTGTTGAAAAATAATTATTGAGTGAAGAATGATAATTG
51637557 TATTTCTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (42 bp):
TATTGTTGAAAAATAATTATTGAGTGAAGAATGATAATTGAA
Found at i:51642774 original size:21 final size:21
Alignment explanation
Indices: 51642748--51642819 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
51642738 ATTGTAGGAA
51642748 AATAATTATTGAGTGAAGAAT
1 AATAATTATTGAGTGAAGAAT
* * **
51642769 AATAATTGAAT-ATTGTTGGAA-
1 AATAATT-ATTGAGTG-AAGAAT
*
51642790 AATAATTATTGAGTGATGAAT
1 AATAATTATTGAGTGAAGAAT
*
51642811 GATAATTAT
1 AATAATTAT
51642820 ATCTCTTGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 5 0.13
21 28 0.74
22 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
AATAATTATTGAGTGAAGAAT
Found at i:51642797 original size:42 final size:42
Alignment explanation
Indices: 51642738--51642817 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
51642728 CATGTAGGGG
51642738 ATTGTAGGAAAATAATTATTGAGTGAAGAATAATAATTGAAT
1 ATTGTAGGAAAATAATTATTGAGTGAAGAATAATAATTGAAT
* * *
51642780 ATTGTTGGAAAATAATTATTGAGTGATGAATGATAATT
1 ATTGTAGGAAAATAATTATTGAGTGAAGAATAATAATT
51642818 ATATCTCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (42 bp):
ATTGTAGGAAAATAATTATTGAGTGAAGAATAATAATTGAAT
Found at i:51651432 original size:16 final size:16
Alignment explanation
Indices: 51651411--51651448 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
51651401 TTATTTAAAA
**
51651411 AAATATTATTTATTTT
1 AAATATTATTTACATT
51651427 AAATATTATTTACATT
1 AAATATTATTTACATT
51651443 AAATAT
1 AAATAT
51651449 ATTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATTATTTACATT
Found at i:51651822 original size:20 final size:20
Alignment explanation
Indices: 51651777--51651822 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
51651767 TTACAAAATA
* * *
51651777 TCTAACAATTTATTAATTTT
1 TCTAAGAATTTACTAATATT
*
51651797 TTTAAGAATTTACTAATATT
1 TCTAAGAATTTACTAATATT
51651817 TCTAAG
1 TCTAAG
51651823 GATGTTAGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (20 bp):
TCTAAGAATTTACTAATATT
Found at i:51654058 original size:53 final size:55
Alignment explanation
Indices: 51653979--51654091 Score: 124
Period size: 55 Copynumber: 2.1 Consensus size: 55
51653969 TATACGTGTG
* * * *
51653979 TATAAAAAATGTTCGTAG--ATATATATAAATAGGCATATATAAATTATAAAACA
1 TATAAAAAATGTTCATAGACACATATATATATAGGCATATAAAAATTATAAAACA
* * * *
51654032 TATAAAAAATGTAT-ATAGACACATATATATATATGTATATAAAAATTTTAAAATA
1 TATAAAAAATGT-TCATAGACACATATATATATAGGCATATAAAAATTATAAAACA
51654087 TATAA
1 TATAA
51654092 GATAAAAGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 15 0.31
54 1 0.02
55 33 0.67
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (55 bp):
TATAAAAAATGTTCATAGACACATATATATATAGGCATATAAAAATTATAAAACA
Found at i:51654243 original size:3 final size:3
Alignment explanation
Indices: 51654235--51654290 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
51654225 GTAAAGTAAG
* * * *
51654235 TAA TAA TAA TAA -ATA TAA TAC TAA TAA TAA TAA TAG TAG CAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51654280 TAA T-A TAA TAA
1 TAA TAA TAA TAA
51654291 ATAAAAGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51654247 original size:18 final size:18
Alignment explanation
Indices: 51654210--51654284 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
51654200 AGGCACCATG
* *
51654210 AGTAAATAATTAATAGTAA
1 AGTAAGTAA-TAATAATAA
51654229 AGTAAGTAATAATAATAA
1 AGTAAGTAATAATAATAA
* *
51654247 ATATAATACTAATAATAATAA
1 A-GT-A-AGTAATAATAATAA
*
51654268 TAGT-AGCAATAATAATA
1 -AGTAAGTAATAATAATA
51654285 TAATAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 20 0.44
19 9 0.20
20 1 0.02
21 14 0.31
22 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
AGTAAGTAATAATAATAA
Found at i:51654293 original size:15 final size:15
Alignment explanation
Indices: 51654212--51654294 Score: 57
Period size: 15 Copynumber: 5.5 Consensus size: 15
51654202 GCACCATGAG
* *
51654212 TAAATAATTA-ATAG
1 TAAATAATAATATAA
51654226 TAAAGTAAGTAATAATAA
1 TAAA-TAA-TAAT-ATAA
51654244 TAAAT-ATAATACTAA
1 TAAATAATAATA-TAA
51654259 T-AATAATAATAGT-A
1 TAAATAATAATA-TAA
**
51654273 GCAATAATAATATAA
1 TAAATAATAATATAA
51654288 TAAATAA
1 TAAATAA
51654295 AAGGGGTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
14 10 0.18
15 34 0.62
16 3 0.05
17 1 0.02
18 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (15 bp):
TAAATAATAATATAA
Found at i:51655999 original size:87 final size:86
Alignment explanation
Indices: 51655893--51656661 Score: 468
Period size: 87 Copynumber: 8.8 Consensus size: 86
51655883 TTTTTTTCAG
* * * * * *
51655893 TCTGCTCCGCTACTACTTAGGGAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGCGTCTTAAATCTGCTTCACTACTGCTTAGGG
51655958 AGATGAGATTCGCCGTCTTCGA
66 AGAT-AGATTCGCCGTCTTCGA
* * * ** * * ** *
51655980 TCTGCTCTACTACTTCTTAGGGAGATAGGATCTAACATCTTTAGCCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGCGTCTTAAATCTGCTTCACTACTGCTTAGG
* ** * **
51656045 GAGATAGGACT-GGTGGCTTAAA
65 GAGATA-GATTCGCCGTCTTCGA
* * * * * ** *
51656067 TCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTTCGATCTGC-TCTACTACTTCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT-GGCGTCTTAAATCTGCTTC-ACTACTGCTTAG
** * * *
51656131 GGAGATAGGA-TCTAACATCTTTGG
64 GGAGATA-GATTC-GCCGTCTTCGA
* * * * *
51656155 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGCGTCTTAAATCTGCTTCACTACTGCTTAGGG
51656220 AGATGAGATTCGCCGTCTTCGA
66 AGAT-AGATTCGCCGTCTTCGA
* * ** * ** * * *
51656242 TCTGCTCCACTACTGCTTAGGGAGATAGGGTCTAACATCTTTGACCTGCTCCACTACTACTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATA-AGACTGGCGTCTTAAATCTGCTTCACTACTGCTTAGG
* ** * **
51656307 GAGATAGGACT-GGTGGCTTAAA
65 GAGATA-GATTCGCCGTCTTCGA
* * * * * * ** *
51656329 TCTGCTTCACTACTGTTTAGGAAGATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT-GGCGTCTTAAATCTGCTTCACTACTGCTTAGG
** *
51656394 GAGATAAGATTTACCATCTTCGA
65 GAGAT-AGATTCGCCGTCTTCGA
* * * * * * *
51656417 CCTGCTCCACTACTGCTTAGGGAGAGAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGCGTCTTAAATCTGCTTCACTACTGCTTAGGG
51656482 AGATGAGATTCGCCGTCTTCGA
66 AGAT-AGATTCGCCGTCTTCGA
** * ** * * *
51656504 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCCTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGCGTCTTAAATCTGCTTCACTACTGCTTAGG
* ** * **
51656569 GAGATAGGACT-GGTGGCTTAAA
65 GAGATA-GATTCGCCGTCTTCGA
* * * * * ** * * *
51656591 TCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT-GGCGTCTTAAATCTGCTTCACTACTGCTTAGG
51656656 GAGATA
65 GAGATA
51656662 AGATCTACCA
Statistics
Matches: 511, Mismatches: 154, Indels: 34
0.73 0.22 0.05
Matches are distributed among these distances:
86 6 0.01
87 348 0.68
88 157 0.31
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (86 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGCGTCTTAAATCTGCTTCACTACTGCTTAGGG
AGATAGATTCGCCGTCTTCGA
Found at i:51656128 original size:131 final size:132
Alignment explanation
Indices: 51655894--51656689 Score: 1316
Period size: 131 Copynumber: 6.1 Consensus size: 132
51655884 TTTTTTCAGT
* * * *
51655894 CTGCTCCGCTACTACTTAGGGAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * *
51655959 GATGAGATTCGCCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAGGATCTAACATCTTTAG
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
51656024 -C
131 AC
51656025 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
51656090 GATGAGATTCGCCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAGGATCTAACATCTTT-G
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
*
51656154 GC
131 AC
51656156 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* *
51656221 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGGTCTAACATCTTT-G
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
51656285 AC
131 AC
* *
51656287 CTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* *
51656352 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACCATC-TTCG
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
51656416 AC
131 AC
* *
51656418 CTGCTCCACTACTGCTTAGGGAGAGAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
*
51656483 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATC-TTCG
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
51656547 AC
131 AC
*
51656549 CTGCTCCACTACTGCCTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
51656614 GATGAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACCATC-TTCG
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
51656678 AC
131 AC
*
51656680 CTGTTCCACT
1 CTGCTCCACT
51656690 GTAACCTTAG
Statistics
Matches: 638, Mismatches: 25, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
130 3 0.00
131 635 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (132 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAACATCTTTCG
AC
Found at i:51656688 original size:44 final size:44
Alignment explanation
Indices: 51655893--51656689 Score: 558
Period size: 44 Copynumber: 18.2 Consensus size: 44
51655883 TTTTTTTCAG
* * ** * **
51655893 TCTGCTCCGCTACTACTTAGGGAGATAAGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * *
51655936 TCTACTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* * * ** * *
51655980 TCTGCTCTACTACTTCTTAGGGAGATAGGATCTAACATCTT-TA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * ** * **
51656023 GCCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * *
51656067 TCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* * * ** * * *
51656111 TCTGCTCTACTACTTCTTAGGGAGATAGGATCTAACATCTTTGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * ** * **
51656155 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * *
51656198 TCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* * ** * *
51656242 TCTGCTCCACTACTGCTTAGGGAGATAGGGTCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * ** * **
51656286 CCTGCTCCACTACTACTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * *
51656329 TCTGCTTCACTACTGTTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* * *
51656373 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * ** * **
51656417 CCTGCTCCACTACTGCTTAGGGAGAGAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * *
51656460 TCTACTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* *
51656504 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * * ** * **
51656548 CCTGCTCCACTACTGCCTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* * *
51656591 TCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCGTCTTCGA
* * * *
51656635 TCTACTCCACTATTGCTTAGGGAGATAAGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
* *
51656679 CCTGTTCCACT
1 TCTGCTCCACT
51656690 GTAACCTTAG
Statistics
Matches: 564, Mismatches: 170, Indels: 39
0.73 0.22 0.05
Matches are distributed among these distances:
43 178 0.32
44 380 0.67
45 6 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCGTCTTCGA
Found at i:51657274 original size:44 final size:44
Alignment explanation
Indices: 51656673--51657422 Score: 275
Period size: 44 Copynumber: 16.8 Consensus size: 44
51656663 GATCTACCAT
* * ** * *
51656673 CTTCGACCTGTTCCACTGTAACCTT-AGGGAGATAATATCTGAAATT
1 CTTCGATCTGCTCCACTGTAA-CTTCAGGGAGATAAGGT-TG-TATG
* * * * * * *
51656719 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGGT-TG-TATG
* * * * *
51656765 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCCTTTAT-
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGGT--TGTATG
** * *
51656810 -TTTAATCTGCTCCACTGTAGCTTCAGGGAGAT-AGGAT-TACTAG
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGGTTGTA-T-G
* * * * * * *
51656853 CTCCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGGT-TG-TATG
* * * * * *
51656899 CTTCGGTCTACTCCACAGTAACCTCAGGGAGATAAGACTTGCAT-
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAG-GTTGTATG
* * * *
51656943 ATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGT-GG
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGG-TTGTATG
* * * * *
51656987 CTTCGATCTGCTCCTCTGTAA-TCTCATGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGGT-TG-TATG
* * * * * *
51657033 CTTCGGTCTACTCCACAGTAACCTCAGGGAGATAAGACTTGCAT-
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAG-GTTGTATG
* * * *
51657077 ATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGT-GG
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGG-TTGTATG
* * * * *
51657121 CTTCGATCTGCTCCTCTGTAA-TCTCATGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGGT-TG-TATG
* * * * * *
51657167 TTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAT-
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAG-GTTGTATG
* *
51657211 ATTC-AACTTGC-CCTACTGTAACTTCAGGGAGATAAGGTT-TATGG
1 CTTCGATC-TGCTCC-ACTGTAACTTCAGGGAGATAAGGTTGTAT-G
* * * * *
51657255 CTTCGATCTGCTCCTCTGTAA-TCTCAGGGAAATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGGT-TG-TATG
* * * * * *
51657301 CTTCGACCTGCTCCACTACT-GCTT-AGGGAGAT-AGGATAGTGTC
1 CTTCGATCTGCTCCACT-GTAACTTCAGGGAGATAAGG-TTGTATG
* * * * *
51657344 CTT-GATCTTCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCT-GG
1 CTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGGT-TGTATG
* * * *
51657387 CGTCAATCTGCTCCACTGTAACCTCAGAGAGATAAG
1 CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAG
51657423 ATCTGAAATA
Statistics
Matches: 528, Mismatches: 129, Indels: 96
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.00
41 4 0.01
42 13 0.02
43 27 0.05
44 262 0.50
45 23 0.04
46 186 0.35
47 10 0.02
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGGTTGTATG
Found at i:51657317 original size:134 final size:134
Alignment explanation
Indices: 51656719--51657305 Score: 885
Period size: 134 Copynumber: 4.4 Consensus size: 134
51656709 ATCTGAAATT
* * * * *
51656719 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
* * * * *
51656784 AACCTCAGGGAGATAAGATCCTT-TAT-TTTAATCTGCTCCACTGTAGCTTCAGGGAGAT-AGGA
66 AACCTCAGGGAGATAAGA--CTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGT
*
51656846 TTACTAG
129 TTA-TGG
* * * * * *
51656853 CTCCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACAGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
51656918 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTT
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTT
*
51656983 GTGG
131 ATGG
* *
51656987 CTTCGATCTGCTCCTCTGTAATCTCATGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACAGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
51657052 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTT
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTT
*
51657117 GTGG
131 ATGG
* *
51657121 CTTCGATCTGCTCCTCTGTAATCTCATGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
*
51657186 AACCTCAGGGAGATAAGACTTGCATATTCAACTTGC-CCTACTGTAACTTCAGGGAGATAAGGTT
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCC-ACTGTAACTTCAGGGAGATAAGGTT
51657250 TATGG
130 TATGG
*
51657255 CTTCGATCTGCTCCTCTGTAATCTCAGGGAAATAAGATCTGAAATTCTTCG
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
51657306 ACCTGCTCCA
Statistics
Matches: 423, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
132 3 0.01
133 4 0.01
134 411 0.97
135 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (134 bp):
CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTT
ATGG
Found at i:51658667 original size:7 final size:7
Alignment explanation
Indices: 51658655--51658706 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
51658645 GCCTCTCCAT
51658655 TTTTTCA
1 TTTTTCA
51658662 TTTTTCA
1 TTTTTCA
*
51658669 -TTTTCT
1 TTTTTCA
51658675 TTTTTCA
1 TTTTTCA
*
51658682 ATTTTCA
1 TTTTTCA
*
51658689 -TTCTCA
1 TTTTTCA
51658695 TTTTTCA
1 TTTTTCA
51658702 TTTTT
1 TTTTT
51658707 TCAGAGTGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
6 10 0.26
7 28 0.74
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:51658679 original size:20 final size:20
Alignment explanation
Indices: 51658654--51658706 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
51658644 AGCCTCTCCA
*
51658654 TTTTTTCATTTTTCATTTTC
1 TTTTTTCATTTTTCATTCTC
*
51658674 TTTTTTCAATTTTCATTCTC
1 TTTTTTCATTTTTCATTCTC
*
51658694 ATTTTTCATTTTT
1 TTTTTTCATTTTT
51658707 TCAGAGTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTCATTTTTCATTCTC
Found at i:51663218 original size:22 final size:22
Alignment explanation
Indices: 51663191--51663234 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51663181 GATGAAAACG
*
51663191 GGGTCGACTTGGGTTTTGAAAA
1 GGGTCGACTTGGGTTTTAAAAA
51663213 GGGTCGACTTGGGTTTTAAAAA
1 GGGTCGACTTGGGTTTTAAAAA
51663235 AAATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (22 bp):
GGGTCGACTTGGGTTTTAAAAA
Found at i:51664403 original size:3 final size:3
Alignment explanation
Indices: 51664395--51664450 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
51664385 GTAAAGTAAG
* * * *
51664395 TAA TAA TAA TAA -ATA TAA TAC TAA TAA TAA TAA TAG TAG CAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51664440 TAA T-A TAA TAA
1 TAA TAA TAA TAA
51664451 ATAAAAGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51664407 original size:18 final size:18
Alignment explanation
Indices: 51664370--51664444 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
51664360 AGGCACCATG
* *
51664370 AGTAAATAATTAATAGTAA
1 AGTAAGTAA-TAATAATAA
51664389 AGTAAGTAATAATAATAA
1 AGTAAGTAATAATAATAA
* *
51664407 ATATAATACTAATAATAATAA
1 A-GT-A-AGTAATAATAATAA
*
51664428 TAGT-AGCAATAATAATA
1 -AGTAAGTAATAATAATA
51664445 TAATAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 20 0.44
19 9 0.20
20 1 0.02
21 14 0.31
22 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
AGTAAGTAATAATAATAA
Found at i:51664453 original size:15 final size:15
Alignment explanation
Indices: 51664372--51664454 Score: 57
Period size: 15 Copynumber: 5.5 Consensus size: 15
51664362 GCACCATGAG
* *
51664372 TAAATAATTA-ATAG
1 TAAATAATAATATAA
51664386 TAAAGTAAGTAATAATAA
1 TAAA-TAA-TAAT-ATAA
51664404 TAAAT-ATAATACTAA
1 TAAATAATAATA-TAA
51664419 T-AATAATAATAGT-A
1 TAAATAATAATA-TAA
**
51664433 GCAATAATAATATAA
1 TAAATAATAATATAA
51664448 TAAATAA
1 TAAATAA
51664455 AAGGGGTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
14 10 0.18
15 34 0.62
16 3 0.05
17 1 0.02
18 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (15 bp):
TAAATAATAATATAA
Found at i:51668349 original size:90 final size:88
Alignment explanation
Indices: 51668199--51668419 Score: 284
Period size: 90 Copynumber: 2.5 Consensus size: 88
51668189 TTAAGGGTAT
* * * *
51668199 AAAAAGCCCTTAAACTTTTTCAAAAAAAGCAATTAAGCCCTTCCTTTTTTTTGTATTCAATTGAG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTGTACTCAATTGAG
51668264 CACTTAAACTTTCAAAATACATC
66 CACTTAAACTTTCAAAATACATC
*
51668287 AAAAATGCCCTCAAACTTCTTCAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTT-TCACTCAATT
1 AAAAA-GCCCTCAAACTTTTTC-AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTGT-ACTCAATT
* * * **
51668351 GGGTACTTGAACTTTCAAAATGTATC
63 GAGCACTTAAACTTTCAAAATACATC
* *
51668377 AAAAAGACCCTCAAAATTTTTC-AAAAAATCAATTAAGCCCCTG
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTG
51668420 TTCTTATTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
88 25 0.22
89 16 0.14
90 75 0.65
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (88 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTGTACTCAATTGAG
CACTTAAACTTTCAAAATACATC
Found at i:51668452 original size:11 final size:12
Alignment explanation
Indices: 51668428--51668452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51668418 TGTTCTTATT
51668428 AAAAATTAGAAA
1 AAAAATTAGAAA
51668440 AAAAATTAGAAA
1 AAAAATTAGAAA
51668452 A
1 A
51668453 TATTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:51668496 original size:18 final size:19
Alignment explanation
Indices: 51668449--51668493 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
51668439 AAAAAATTAG
51668449 AAAATATTAAATTTTAGAA
1 AAAATATTAAATTTTAGAA
51668468 AAAATATTAAATTTTA-ATA
1 AAAATATTAAATTTTAGA-A
51668487 AAAATAT
1 AAAATAT
51668494 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATATTAAATTTTAGAA
Found at i:51668797 original size:10 final size:10
Alignment explanation
Indices: 51668782--51668848 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
51668772 TTCTTACGAC
51668782 TTTATAAAAT
1 TTTATAAAAT
*
51668792 TTTAT-AATT
1 TTTATAAAAT
* *
51668801 TTTATTATAT
1 TTTATAAAAT
*
51668811 TTT-TATATAT
1 TTTATA-AAAT
51668821 TTTAT-AAAT
1 TTTATAAAAT
* *
51668830 TTTTTACAAT
1 TTTATAAAAT
51668840 TTTATAAAA
1 TTTATAAAA
51668849 AAATACAGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 16 0.36
10 27 0.61
11 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:51668804 original size:19 final size:19
Alignment explanation
Indices: 51668782--51668848 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
51668772 TTCTTACGAC
51668782 TTTATAAAATTTTATA-ATT
1 TTTATAAAATTTT-TACATT
* * *
51668801 TTTATTATATTTTTATATAT
1 TTTATAAAATTTTTACAT-T
* *
51668821 TTTATAAATTTTTTACAAT
1 TTTATAAAATTTTTACATT
51668840 TTTATAAAA
1 TTTATAAAA
51668849 AAATACAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.05
19 22 0.58
20 14 0.37
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAAAATTTTTACATT
Found at i:51668872 original size:10 final size:10
Alignment explanation
Indices: 51668857--51668902 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
51668847 AAAAATACAG
51668857 TTTTTTATAT
1 TTTTTTATAT
51668867 TTTTTTACTA-
1 TTTTTTA-TAT
51668877 -TTTTTATAT
1 TTTTTTATAT
*
51668886 TTTTTTCTAAT
1 TTTTTTAT-AT
51668897 TTTTTT
1 TTTTTT
51668903 TCTAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.42
11 10 0.32
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:51668878 original size:11 final size:11
Alignment explanation
Indices: 51668857--51668912 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 11
51668847 AAAAATACAG
51668857 TTTTTTA-TAT
1 TTTTTTACTAT
51668867 TTTTTTACTA-
1 TTTTTTACTAT
51668877 -TTTTTA-TAT
1 TTTTTTACTAT
51668886 TTTTTT-CTAAT
1 TTTTTTACT-AT
*
51668897 TTTTTTTCTAAT
1 TTTTTTACT-AT
51668909 TTTT
1 TTTT
51668913 AATAGTTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
10 13 0.32
11 10 0.25
12 9 0.22
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTACTAT
Found at i:51668880 original size:19 final size:19
Alignment explanation
Indices: 51668858--51668900 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
51668848 AAAATACAGT
51668858 TTTTTATATTTTTTTACT-A
1 TTTTTATATTTTTTT-CTAA
51668877 TTTTTATATTTTTTTCTAA
1 TTTTTATATTTTTTTCTAA
51668896 TTTTT
1 TTTTT
51668901 TTTCTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATATTTTTTTCTAA
Found at i:51668900 original size:12 final size:12
Alignment explanation
Indices: 51668885--51668912 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51668875 TATTTTTATA
51668885 TTTTTTTCTAAT
1 TTTTTTTCTAAT
51668897 TTTTTTTCTAAT
1 TTTTTTTCTAAT
51668909 TTTT
1 TTTT
51668913 AATAGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTAAT
Found at i:51671218 original size:20 final size:18
Alignment explanation
Indices: 51671193--51671231 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51671183 GAGCTTCGGT
51671193 TTTAATAATACAACATATTA
1 TTTAAT-ATACAA-ATATTA
*
51671213 TTTAATTTACAAATATTA
1 TTTAATATACAAATATTA
51671231 T
1 T
51671232 ATATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATATACAAATATTA
Found at i:51671239 original size:19 final size:19
Alignment explanation
Indices: 51671201--51671240 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
51671191 GTTTTAATAA
*
51671201 TACAACATATTATTTAATT
1 TACAACATATTATATAATT
51671220 TACAA-ATATTATATATATT
1 TACAACATATTATATA-ATT
51671239 TA
1 TA
51671241 AGCAATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TACAACATATTATATAATT
Found at i:51671585 original size:19 final size:19
Alignment explanation
Indices: 51671550--51671587 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51671540 AATATAAAAC
*
51671550 TTTTAACAATAACATATTA
1 TTTTAACAAGAACATATTA
51671569 TTTTAACACAGAA-ATATTA
1 TTTTAACA-AGAACATATTA
51671588 AACTAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTTAACAAGAACATATTA
Found at i:51674630 original size:23 final size:23
Alignment explanation
Indices: 51674566--51674631 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
51674556 TCGTTGGCCA
*
51674566 AGTATAAATCATTT-GTAATAAA-T
1 AGTATAAATAATTTAGT--TAAATT
**
51674589 AGTAT--ATAATTTAACTAAATT
1 AGTATAAATAATTTAGTTAAATT
51674610 AGTATAAATAATTTAGTTAAAT
1 AGTATAAATAATTTAGTTAAAT
51674632 ATTTAGTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 4 0.12
21 12 0.35
23 18 0.53
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (23 bp):
AGTATAAATAATTTAGTTAAATT
Found at i:51674637 original size:12 final size:14
Alignment explanation
Indices: 51674608--51674639 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
51674598 TTTAACTAAA
51674608 TTAGTATAAATAAT
1 TTAGTATAAATAAT
51674622 TTAGT-TAAAT-AT
1 TTAGTATAAATAAT
51674634 TTAGTA
1 TTAGTA
51674640 AGGTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 5 0.29
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (14 bp):
TTAGTATAAATAAT
Found at i:51683914 original size:29 final size:29
Alignment explanation
Indices: 51683881--51683949 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
51683871 AAACCTTATT
51683881 GTTGCGGAAAC-T-TAATTTTAAACAATTGA
1 GTTGCGGAAACATGTAA-TTTAAA-AATTGA
* * *
51683910 TTTGCGAAAACATGTTATTTAAAAATTGA
1 GTTGCGGAAACATGTAATTTAAAAATTGA
51683939 GTTGCGGAAAC
1 GTTGCGGAAAC
51683950 GTAGCGTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 24 0.73
30 7 0.21
31 2 0.06
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (29 bp):
GTTGCGGAAACATGTAATTTAAAAATTGA
Found at i:51684688 original size:32 final size:32
Alignment explanation
Indices: 51684633--51684771 Score: 172
Period size: 32 Copynumber: 4.4 Consensus size: 32
51684623 GAATGGCTAC
* *
51684633 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
51684664 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** *
51684696 CAGCCATCAGTAATGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
51684728 AAGCCATTAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
51684760 AAGCCATCAGTA
1 AAGCCATCAGTA
51684772 GCATCACAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 10 0.11
32 81 0.89
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:51684974 original size:24 final size:24
Alignment explanation
Indices: 51684946--51685018 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
51684936 GCTCAGAATT
* *
51684946 AGTCATGCAAATCGCAGACAAATC
1 AGTCATACAAATCACAGACAAATC
* * *
51684970 AGTCATACTAATTACAGACAATTC
1 AGTCATACAAATCACAGACAAATC
** * *
51684994 AGTCATTTACATCACGGACAAATC
1 AGTCATACAAATCACAGACAAATC
51685018 A
1 A
51685019 ACTATTTACA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATC
Found at i:51685171 original size:27 final size:27
Alignment explanation
Indices: 51685061--51685236 Score: 138
Period size: 27 Copynumber: 6.5 Consensus size: 27
51685051 TACCCTCTAG
* *
51685061 GGGCATTACAGTCATTTTACCTTA-CA
1 GGGCATTACGGTCATTTTACCTTATAA
* * **
51685087 GGGTCATTGCGGTCATTTAACCTTATGG
1 GGG-CATTACGGTCATTTTACCTTATAA
* * * * *
51685115 GGGTATTACAGTTATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCTTATAA
* * *
51685142 GGGCATTACAGTCATTTTACCATATGA
1 GGGCATTACGGTCATTTTACCTTATAA
** ** * *
51685169 GGGTTTTTTGGTCATTTTACCCTAAAA
1 GGGCATTACGGTCATTTTACCTTATAA
* *
51685196 GGGTATTACGGTCGTTTTACCTTATAA
1 GGGCATTACGGTCATTTTACCTTATAA
51685223 GGGCATTACGGTCA
1 GGGCATTACGGTCA
51685237 AACTACAACA
Statistics
Matches: 113, Mismatches: 35, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
26 3 0.03
27 107 0.95
28 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCTTATAA
Found at i:51685184 original size:81 final size:81
Alignment explanation
Indices: 51685044--51685236 Score: 194
Period size: 81 Copynumber: 2.4 Consensus size: 81
51685034 GGGGAAAAAT
* *
51685044 AGTTA-TTTACCCT-CTAGGGGCATTACAGTCATTTTACCTTACAGGGTCATTGCGGTCATTTAA
1 AGTTATTTTACCCTAC-AAGGGCATTACAGTCATTTTACCATACAGGGTCATTGCGGTCATTTAA
* ***
51685107 CCTTATGGGGGTATTAC
65 CCCTAAAAGGGTATTAC
* * ** *
51685124 AGTTATTTTACCCTACAAGGGCATTACAGTCATTTTACCATATGAGGGT-TTTTTGGTCATTTTA
1 AGTTATTTTACCCTACAAGGGCATTACAGTCATTTTACCATA-CAGGGTCATTGCGGTCATTTAA
51685188 CCCTAAAAGGGTATTAC
65 CCCTAAAAGGGTATTAC
* ** * * *
51685205 GGTCGTTTTACCTTATAAGGGCATTACGGTCA
1 AGTTATTTTACCCTACAAGGGCATTACAGTCA
51685237 AACTACAACA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.05
81 82 0.88
82 6 0.06
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
AGTTATTTTACCCTACAAGGGCATTACAGTCATTTTACCATACAGGGTCATTGCGGTCATTTAAC
CCTAAAAGGGTATTAC
Found at i:51685236 original size:54 final size:54
Alignment explanation
Indices: 51685061--51685236 Score: 165
Period size: 54 Copynumber: 3.3 Consensus size: 54
51685051 TACCCTCTAG
* * * * *
51685061 GGGCATTACAGTCATTTTA-CCTTACAGGGTCATTGCGGTCATTTAACCTTATGG
1 GGGCATTACAGTCATTTTACCCTAAAAGGGT-ATTACGGTCATTTTACCTTATGA
* * * * * *
51685115 GGGTATTACAGTTATTTTACCCTACAAGGGCATTACAGTCATTTTACCATATGA
1 GGGCATTACAGTCATTTTACCCTAAAAGGGTATTACGGTCATTTTACCTTATGA
** *** * *
51685169 GGGTTTTTTGGTCATTTTACCCTAAAAGGGTATTACGGTCGTTTTACCTTATAA
1 GGGCATTACAGTCATTTTACCCTAAAAGGGTATTACGGTCATTTTACCTTATGA
*
51685223 GGGCATTACGGTCA
1 GGGCATTACAGTCA
51685237 AACTACAACA
Statistics
Matches: 95, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
54 88 0.93
55 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGCATTACAGTCATTTTACCCTAAAAGGGTATTACGGTCATTTTACCTTATGA
Found at i:51686904 original size:51 final size:51
Alignment explanation
Indices: 51686816--51687156 Score: 306
Period size: 51 Copynumber: 6.7 Consensus size: 51
51686806 TGTCGATGAA
* * * *
51686816 CACGTGTGTAGTACTGTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGT
1 CACGTGTGTAGTAC--TATGTGAAGGCTACTACGTGTACCGATAAACT-TTGGT
* * *
51686869 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-CTTTG-GT
* * * * **
51686920 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACTTTGGT
* * * * * *
51686971 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-CTTTGGT
* *
51687022 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAACTTTGGT
* * *
51687072 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAAC--TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAACTTTGGT
*
51687121 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
51687157 TCGAATGATA
Statistics
Matches: 238, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
49 38 0.16
50 53 0.22
51 126 0.53
52 8 0.03
53 13 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACTTTGGT
Found at i:51686994 original size:102 final size:102
Alignment explanation
Indices: 51686816--51687159 Score: 405
Period size: 102 Copynumber: 3.4 Consensus size: 102
51686806 TGTCGATGAA
* * * *
51686816 CACGTGTGTAGTACTGTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAG
1 CACGTATGTAGTAC--TATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAG
51686880 TACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
63 TACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
* * * * *
51686920 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
* *
51686985 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
* * * *
51687021 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * *
51687084 ACTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGAG
51687121 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCG
51687160 AATGATAAAA
Statistics
Matches: 209, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
99 36 0.17
100 2 0.01
101 39 0.19
102 117 0.56
103 1 0.00
104 14 0.07
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
Found at i:51694471 original size:36 final size:35
Alignment explanation
Indices: 51694397--51694624 Score: 175
Period size: 35 Copynumber: 6.5 Consensus size: 35
51694387 CTTAGACGTA
* *
51694397 TCTATTCCAATTTTTTTAAGGTTGCCTTAG-AAGTG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAAG-G
* *
51694432 TCTATCCTAACTTTTTTAAGGTTGTCTTAGATAAGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGA-AAGG
*
51694468 TCTATCCCAACTTTTTTAAGGTTGTCTTAG--A--
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAAGG
* *
51694499 -CGA-CCCAAATTTTTTTAAAGGTTGCCTTAGATAAGG
1 TCTATCCC-AACTTTTTT-AAGGTTGCCTTAGA-AAGG
* * * * * **
51694535 TTTATCCCAGCCTTTTTAAGTTTGTCTTAGACGGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAAGG
* * *
51694570 TCTATCCCAACCTTTTTAAGATTGCCTTAG-ATGAG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAAG-G
*
51694605 TTTATCCCAACCTTTTTTAA
1 TCTATCCCAA-CTTTTTTAA
51694625 ATGTCGGTAT
Statistics
Matches: 155, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.02
30 10 0.06
31 12 0.08
33 1 0.01
34 2 0.01
35 64 0.41
36 50 0.32
37 10 0.06
38 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (35 bp):
TCTATCCCAACTTTTTTAAGGTTGCCTTAGAAAGG
Found at i:51694520 original size:102 final size:100
Alignment explanation
Indices: 51694405--51694600 Score: 259
Period size: 102 Copynumber: 1.9 Consensus size: 100
51694395 TATCTATTCC
* *
51694405 AATTTTTTTAAGGTTGCCTTAG-AAGTGTCTATCCTAACTTTTTTAAGGTTGTCTTAGATAAGGT
1 AATTTTTTTAAGGTTGCCTTAGAAAG-GTCTATCCCAACCTTTTTAAGGTTGTCTTAGA-AAGGT
* * *
51694469 CTATCCCAACTTTTTTAAGGTTGTCTTAGACGACCCA
64 CTATCCCAACCTTTTTAAGATTGCCTTAGACGACCCA
* * * **
51694506 AATTTTTTTAAAGGTTGCCTTAGATAAGGTTTATCCCAGCCTTTTTAAGTTTGTCTTAGACGGGT
1 AATTTTTTT-AAGGTTGCCTTAGA-AAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAAAGGT
51694571 CTATCCCAACCTTTTTAAGATTGCCTTAGA
64 CTATCCCAACCTTTTTAAGATTGCCTTAGA
51694601 TGAGTTTATC
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
101 9 0.11
102 43 0.52
103 27 0.33
104 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (100 bp):
AATTTTTTTAAGGTTGCCTTAGAAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAAAGGTCT
ATCCCAACCTTTTTAAGATTGCCTTAGACGACCCA
Found at i:51694535 original size:67 final size:66
Alignment explanation
Indices: 51694443--51694567 Score: 196
Period size: 67 Copynumber: 1.9 Consensus size: 66
51694433 CTATCCTAAC
* *
51694443 TTTTTTAAGGTTGTCTTAGATAAGGTCTATCCCAACTTTTTTAAGGTTGTCTTAGACGACCCAAA
1 TTTTTTAAGGTTGCCTTAGATAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACGACCCAAA
51694508 T
66 T
* * *
51694509 TTTTTTAAAGGTTGCCTTAGATAAGGTTTATCCCAGCCTTTTTAAGTTTGTCTTAGACG
1 TTTTTT-AAGGTTGCCTTAGATAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACG
51694568 GGTCTATCCC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 6 0.11
67 47 0.89
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (66 bp):
TTTTTTAAGGTTGCCTTAGATAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACGACCCAAA
T
Done.