Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 105 of 255
Found at i:33055551 original size:40 final size:40
Alignment explanation
Indices: 33055453--33055715 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
33055443 TCCTCGTTCA
* * * * *
33055453 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33055492 AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33055532 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33055572 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33055612 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33055652 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33055692 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33055716 CAGCATTCAC
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 152 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33058524 original size:48 final size:48
Alignment explanation
Indices: 33058463--33058671 Score: 176
Period size: 47 Copynumber: 4.6 Consensus size: 48
33058453 CGGTTATACG
* * *
33058463 TGTAACGTTGTGCTAAATGGATATACCACGATTACACATATTGAAACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
* * **
33058511 TGTAACGTGGTGCTAAGTGAATATGCCAC-AGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGA-TTACATATATTGAAACA
* * *
33058559 T-TAATGTTGTGCTAAGTGGATATACCACG---------GTT-AAACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
* * * **
33058596 TGT-ACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
33058643 T-TAACGTGGTGCTAAGTGGATATACCACG
1 TGTAACGTGGTGCTAAGTGGATATACCACG
33058672 GTTAAATACG
Statistics
Matches: 124, Mismatches: 23, Indels: 29
0.70 0.13 0.16
Matches are distributed among these distances:
37 26 0.21
38 3 0.02
46 3 0.02
47 52 0.42
48 40 0.32
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
Found at i:33058611 original size:84 final size:85
Alignment explanation
Indices: 33058506--33058707 Score: 318
Period size: 84 Copynumber: 2.4 Consensus size: 85
33058496 ACACATATTG
* *
33058506 AAACATGTAACGTGGTGCTAAGTGAATATGCCACAGTTACATATATTGATTCATTAATGTTGTGC
1 AAACATGTAACGTGGTGCTAAGTGAATATGCCACAGTTACATATATTGATTCATTAACGTGGTGC
33058571 TAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGGTT
* **
33058591 AAACATGT-ACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGC
1 AAACATGTAACGTGGTGCTAAGTGAATATGCCACAGTTACATATATTGATTCATTAACGTGGTGC
33058655 TAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGGTT
* *
33058675 AAATACGTAACGTGGTGCTAAGT-AGATATGCCA
1 AAACATGTAACGTGGTGCTAAGTGA-ATATGCCA
33058708 TGGTTATACA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 77 0.72
85 30 0.28
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (85 bp):
AAACATGTAACGTGGTGCTAAGTGAATATGCCACAGTTACATATATTGATTCATTAACGTGGTGC
TAAGTGGATATACCACGGTT
Found at i:33058736 original size:84 final size:83
Alignment explanation
Indices: 33058506--33058744 Score: 257
Period size: 84 Copynumber: 2.8 Consensus size: 83
33058496 ACACATATTG
* ** * * * * *
33058506 AAACATGTAACGTGGTGCTAAGT-GAATATGCCACAGTTACATATATTGATTCATTAATGTTGTG
1 AAACACGT-ACGTGGTGCTAAGTAG-ATATGCCATGGTTACACATATTAATT-ATAAAAGTGGTG
33058570 CTAAGTGGATATACCACGGTT
63 CTAAGTGGATATACCACGGTT
* * * * * *
33058591 AAACATGTACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCT
1 AAACACGTACGTGGTGCTAAGTAGATATGCCATGGTTACACATATTAATT-ATAAAAGTGGTGCT
33058656 AAGTGGATATACCACGGTT
65 AAGTGGATATACCACGGTT
* * *
33058675 AAATACGTAACGTGGTGCTAAGTAGATATGCCATGGTTATACATGTTAATT-TGAAAAGTGGTGC
1 AAACACGT-ACGTGGTGCTAAGTAGATATGCCATGGTTACACATATTAATTAT-AAAAGTGGTGC
33058739 TAAGTG
64 TAAGTG
33058745 CGTATGCCAC
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
83 1 0.01
84 91 0.66
85 46 0.33
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (83 bp):
AAACACGTACGTGGTGCTAAGTAGATATGCCATGGTTACACATATTAATTATAAAAGTGGTGCTA
AGTGGATATACCACGGTT
Found at i:33071420 original size:47 final size:47
Alignment explanation
Indices: 33071348--33071509 Score: 207
Period size: 47 Copynumber: 3.6 Consensus size: 47
33071338 TCTTCTTGCT
*
33071348 ACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTA
1 ACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
*
33071395 ACATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TA
1 ACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
* *
33071433 ACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTA
1 ACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
* *
33071480 ACGTGATGCTAAGTGGATATACCACGGTTA
1 ACATGGTGCTAAGTGGATATACCACGGTTA
33071510 AACATGTAAC
Statistics
Matches: 99, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
38 30 0.30
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 59 0.60
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
ACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
Found at i:33071449 original size:38 final size:38
Alignment explanation
Indices: 33071393--33071554 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
33071383 ATTGATTCAT
33071393 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
33071431 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
33071472 ATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
33071516 TAACATGGTGCTAAGTGGATATGCCACGGCTATACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
33071554 T
1 T
33071555 TAATTTGAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
38 64 0.62
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 30 0.29
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:33071494 original size:85 final size:85
Alignment explanation
Indices: 33071348--33071544 Score: 367
Period size: 85 Copynumber: 2.3 Consensus size: 85
33071338 TCTTCTTGCT
*
33071348 ACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTAAGTGGAT
1 ACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTAAGTGGAT
33071413 ATACCACGGTTAAACATGTA
66 ATACCACGGTTAAACATGTA
* *
33071433 ACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGAT
1 ACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTAAGTGGAT
33071498 ATACCACGGTTAAACATGTA
66 ATACCACGGTTAAACATGTA
33071518 ACATGGTGCTAAGTGGATATGCCACGG
1 ACATGGTGCTAAGTGGATATGCCACGG
33071545 CTATACATGT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (85 bp):
ACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTAAGTGGAT
ATACCACGGTTAAACATGTA
Found at i:33075175 original size:31 final size:31
Alignment explanation
Indices: 33075137--33075200 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
33075127 TTGCGAGTGA
*
33075137 AAGACTCAGACATTTCGAAAACTGCTTTCAG
1 AAGACTCAGACATTTCAAAAACTGCTTTCAG
33075168 AAGACTCAGACATTTCAAAAACTGCTTTCAG
1 AAGACTCAGACATTTCAAAAACTGCTTTCAG
33075199 AA
1 AA
33075201 CGAGGTACGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (31 bp):
AAGACTCAGACATTTCAAAAACTGCTTTCAG
Found at i:33077861 original size:27 final size:27
Alignment explanation
Indices: 33077785--33077862 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
33077775 ATTACCAAAG
* * *
33077785 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
33077812 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
33077839 TACCCTCGATTTACAAAATTACTG
1 TACCCTCGATTTACAGAATTACTG
33077863 AAATACCCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:33077869 original size:27 final size:27
Alignment explanation
Indices: 33077740--33077898 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 27
33077730 AATACTTTAG
* * *
33077740 TTTACCAAATTACTGAAATGCCCTCAA
1 TTTACAAAATTACTGAAATACCCTCGA
** * *
33077767 TTTGTAAAATTAC-CAAAGTACCATCGA
1 TTTACAAAATTACTGAAA-TACCCTCGA
* * * ***
33077794 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
* ***
33077821 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
*
33077848 TTTACAAAATTACTGAAATACCCT-TA
1 TTTACAAAATTACTGAAATACCCTCGA
**
33077874 GTTTACAAAATTACCAAAATACCCT
1 -TTTACAAAATTACTGAAATACCCT
33077899 TGATCAGTAA
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.04
27 102 0.96
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTCGA
Found at i:33077897 original size:54 final size:54
Alignment explanation
Indices: 33077839--33077951 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
33077829 ATTACTGTTT
* ** *
33077839 TACCCTCGATTTA-CAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
* * * ** *
33077893 TACCCTTGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
33077947 TACCC
1 TACCC
33077952 CTAGTTTGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (54 bp):
TACCCTCGATCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
Found at i:33077899 original size:27 final size:27
Alignment explanation
Indices: 33077853--33078045 Score: 178
Period size: 27 Copynumber: 7.2 Consensus size: 27
33077843 CTCGATTTAC
** **
33077853 AAAATTACTGAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCTTAGTTTGT
**
33077880 AAAATTACCAAAATACCCTT-GATCAGT
1 AAAATTACCAAAATACCCTTAG-TTTGT
* *
33077907 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
33077934 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
33077961 AAAATTACC-AAATAACCC-CAGGCTTGT
1 AAAATTACCAAAAT-ACCCTTA-GTTTGT
*
33077988 AAAATTACCAAAATACCCTGA-TTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
33078014 GAAATTATCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
33078041 AAAAT
1 AAAAT
33078046 ATCGAAATAC
Statistics
Matches: 139, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 28 0.20
27 105 0.76
28 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:33078020 original size:26 final size:27
Alignment explanation
Indices: 33077880--33078060 Score: 183
Period size: 27 Copynumber: 6.8 Consensus size: 27
33077870 CTTAGTTTAC
* **
33077880 AAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
33077907 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
33077934 AAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* **
33077961 AAAATTACC-AAATAACCCCAGGCTTGT
1 AAAATTACCAAAAT-ACCCCTGATTTGT
33077988 AAAATTACCAAAATA-CCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
33078014 GAAATTATCAAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
33078041 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
33078061 TAGGGTAGGA
Statistics
Matches: 129, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 38 0.29
27 87 0.67
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:33078059 original size:27 final size:27
Alignment explanation
Indices: 33077996--33078057 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
33077986 GTAAAATTAC
* *
33077996 CAAAATACCCT-GATTTGTGAAATTAT
1 CAAAATACCCTCAATTTGTGAAAATAT
33078022 CAAAATACCCTCAATTTGT-AAAATAT
1 CAAAATACCCTCAATTTGTGAAAATAT
*
33078048 CGAAATACCC
1 CAAAATACCC
33078058 CTGTAGGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
CAAAATACCCTCAATTTGTGAAAATAT
Found at i:33078853 original size:27 final size:26
Alignment explanation
Indices: 33078815--33078874 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
33078805 CCACATATAT
* *
33078815 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
33078841 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
33078868 ATATCTG
1 ATATCTG
33078875 GCAACCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:33082378 original size:42 final size:42
Alignment explanation
Indices: 33082180--33082367 Score: 295
Period size: 42 Copynumber: 4.5 Consensus size: 42
33082170 TGATATTTAA
*
33082180 GTGTAAGACCATGTCTGGGACATCGGTATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
* * * *
33082222 GTGTAAGACCATGTTTAGGACATTGGCATCGAATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
*
33082264 GTGTAAGACCATGTCTGTGACATCGGCATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
* *
33082306 GTGTAAGACCATGTCTGGGACACCGGCATCGTATCTAATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
*
33082348 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
33082368 TAGAGGCATC
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 132 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
Found at i:33082378 original size:84 final size:83
Alignment explanation
Indices: 33082134--33082367 Score: 297
Period size: 84 Copynumber: 2.8 Consensus size: 83
33082124 ATCTGAGATA
* * * * *
33082134 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTTGATATTTAAGTGTAAGACCATGTCTGGG
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCT-A-ATTT-CGTGTAAGACCATGTCTGGG
*
33082199 ACATCGGTATCGTATCTGATT
63 ACATCGGCATCGTATCTGATT
* * ** * *
33082220 TCGTGTAAGACCATGTTTAGGACATTGGCATCGAATCTGATTTCGTGTAAGACCATGTCTGTGAC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTAATTTCGTGTAAGACCATGTCTGGGAC
33082285 ATCGGCATCGTATCTGATT
65 ATCGGCATCGTATCTGATT
* *
33082304 TCGTGTAAGACCATGTCTGGGACACCGGCATCGTATCTAATTTCGTGTAAGACCCTGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTAATTTCGTGTAAGACCATGTCTGGGA
33082368 TAGAGGCATC
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 94 0.74
85 4 0.03
86 26 0.20
87 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (83 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTAATTTCGTGTAAGACCATGTCTGGGACA
TCGGCATCGTATCTGATT
Found at i:33084369 original size:122 final size:122
Alignment explanation
Indices: 33084152--33084395 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
33084142 GGAATAGGTG
33084152 GGGGTGGAAGAGATTGACTATTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
1 GGGGTGGAAGAGATTGACTATTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
*
33084217 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAATGGTCACGGGTCTA
66 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
*
33084274 GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
1 GGGGTGGAAGAGATTGACTATTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
33084339 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
66 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
33084396 CTCTCAACCA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (122 bp):
GGGGTGGAAGAGATTGACTATTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
Found at i:33088234 original size:27 final size:27
Alignment explanation
Indices: 33088204--33088463 Score: 260
Period size: 27 Copynumber: 9.7 Consensus size: 27
33088194 TAATAAAGAG
33088204 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
33088231 AAATTA-TCGAAATACCC-CAGATTTGTG
1 AAATTACT-GAAATACCCTC-GATTTGTA
* * * *
33088258 AAATTACCGAAATATCC-CGATTTATG
1 AAATTACTGAAATACCCTCGATTTGTA
*
33088284 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
33088311 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
33088338 AAATTA-TCGAAACACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* **
33088365 AAATTTCCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
33088392 GAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * ** *
33088419 AAATTACCAAAACACTTTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
33088446 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
33088464 TGTAGTGTAA
Statistics
Matches: 191, Mismatches: 35, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
26 23 0.12
27 168 0.88
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:33088361 original size:54 final size:54
Alignment explanation
Indices: 33088204--33088463 Score: 303
Period size: 54 Copynumber: 4.8 Consensus size: 54
33088194 TAATAAAGAG
* *
33088204 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCC-CAGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC-GATTTGTA
* * * *
33088258 AAATTACCGAAATATCC-CGATTTATGAAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * *
33088311 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
33088365 AAATTTCCAAAATACCCTCGATTTGTAGAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * ** *
33088419 AAATTACCAAAACACTTTCGACTTGTAAAATTATCGAAATACCCT
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCT
33088464 TGTAGTGTAA
Statistics
Matches: 175, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.25
54 128 0.73
55 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:33088472 original size:27 final size:27
Alignment explanation
Indices: 33088442--33088506 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33088432 ACTTTCGACT
* *
33088442 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
33088469 TGTAAAGTGACCGACATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
33088496 GGTAAAATGAC
1 TGTAAAATGAC
33088507 TATTTTGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:33097477 original size:23 final size:23
Alignment explanation
Indices: 33097448--33097513 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
33097438 TCACCAATAT
* *
33097448 CACAGCATAGTTGCTAATAGTAA
1 CACAGCAAAGCTGCTAATAGTAA
*
33097471 CGA-AGCAAAGCTACTAATAGTAA
1 C-ACAGCAAAGCTGCTAATAGTAA
33097494 CACAGCAAAGCTGCTAATAG
1 CACAGCAAAGCTGCTAATAG
33097514 CGGTAAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (23 bp):
CACAGCAAAGCTGCTAATAGTAA
Found at i:33099229 original size:41 final size:41
Alignment explanation
Indices: 33099154--33099231 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
33099144 ATAGTGATAT
*
33099154 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTGGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTGGA
* * *
33099195 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCGGTGAAT
33099232 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTGGA
Found at i:33103211 original size:40 final size:40
Alignment explanation
Indices: 33103134--33103440 Score: 361
Period size: 40 Copynumber: 7.5 Consensus size: 40
33103124 ACCCAAGTAT
* *
33103134 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
33103173 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33103213 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33103253 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
33103296 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
33103336 CTTTGGAACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
33103379 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33103419 CTTTGGAACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33103441 CATCCGAATA
Statistics
Matches: 230, Mismatches: 26, Indels: 23
0.82 0.09 0.08
Matches are distributed among these distances:
39 12 0.05
40 149 0.65
41 1 0.00
43 68 0.30
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33103330 original size:83 final size:83
Alignment explanation
Indices: 33103134--33103436 Score: 436
Period size: 83 Copynumber: 3.7 Consensus size: 83
33103124 ACCCAAGTAT
* * * * ** *
33103134 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGGGTATAG-
*
33103198 C-ACTA---GCATAAATGC
65 CAACTACTCGCACAAATGC
* * * *
33103213 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGGGTATAGC
33103278 AACTACTCGCACAAATGC
66 AACTACTCGCACAAATGC
*
33103296 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTTGGAACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGGGTATAGC
33103361 AACTACTCGCACAAATGC
66 AACTACTCGCACAAATGC
*
33103379 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTTGGAACTTAGCCCGG
1 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGG
33103437 ATATCATCCG
Statistics
Matches: 207, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
79 13 0.06
80 49 0.24
83 145 0.70
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (83 bp):
CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGGGTATAGC
AACTACTCGCACAAATGC
Found at i:33103413 original size:123 final size:120
Alignment explanation
Indices: 33103134--33103440 Score: 402
Period size: 123 Copynumber: 2.5 Consensus size: 120
33103124 ACCCAAGTAT
* * *
33103134 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* * *
33103198 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 AACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33103253 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATATAGCAACT--T-GCACAAATGCCTTCGGGACTTAGCCCGGATAT
* * *
33103318 AGTAACTTGCACAAATGCCTTTGGAACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
63 AGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * *
33103379 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTTGGAACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33103441 CATCCGAATA
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
119 12 0.07
120 14 0.09
122 1 0.01
123 99 0.61
124 1 0.01
126 36 0.22
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33111651 original size:37 final size:37
Alignment explanation
Indices: 33111589--33111697 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
33111579 AGCTCAGACG
* * *
33111589 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33111626 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33111663 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33111698 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33111981 original size:47 final size:47
Alignment explanation
Indices: 33111902--33112095 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
33111892 TATATATATT
* * *
33111902 TCACATTGGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
33111949 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33111996 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
33112043 TCACATTGGCCATTCGACCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33112090 TCACAT
1 TCACAT
33112096 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33112096 original size:25 final size:25
Alignment explanation
Indices: 33112017--33112096 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
33112007 ATTCGGCCTT
**
33112017 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
33112042 ATCACAT-T-GGC-CATTCGACCTT-
1 ATCACATATATGCACATTC-ACATTC
* *
33112064 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
33112089 ATCACATA
1 ATCACATA
33112097 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 6 0.15
25 19 0.46
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:33116303 original size:40 final size:40
Alignment explanation
Indices: 33116259--33116610 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
33116249 CCAGCATGAT
* * * *
33116259 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
33116299 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33116339 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
33116379 TGCTCTTCGGGACTTAGTCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33116419 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
33116459 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33116499 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33116539 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33116579 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
33116611 CTCAATTCTC
Statistics
Matches: 286, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:33117938 original size:37 final size:37
Alignment explanation
Indices: 33117879--33117987 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
33117869 AGCTCAGACG
* * *
33117879 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33117916 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33117953 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33117988 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33118285 original size:47 final size:47
Alignment explanation
Indices: 33118192--33118385 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
33118182 TATATATATT
* * * *
33118192 TCACATTGGCCATTCGGCTTTACCACATATATACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
33118239 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33118286 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
33118333 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33118380 TCACAT
1 TCACAT
33118386 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33118312 original size:22 final size:22
Alignment explanation
Indices: 33118285--33118356 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
33118275 GCTCACATTC
33118285 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
33118307 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
33118331 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
33118354 ATC
1 ATC
33118357 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:33121388 original size:40 final size:40
Alignment explanation
Indices: 33121311--33121617 Score: 388
Period size: 40 Copynumber: 7.5 Consensus size: 40
33121301 ACCCAAGTAT
* *
33121311 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
33121350 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33121390 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33121430 CTTCGAGACTTAGCCCGGGTATAG-CAACTACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
33121473 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33121513 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
33121556 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33121596 GTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33121618 CATCTGAATA
Statistics
Matches: 235, Mismatches: 21, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.05
40 152 0.65
41 1 0.00
43 70 0.30
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33121497 original size:83 final size:82
Alignment explanation
Indices: 33121311--33121613 Score: 452
Period size: 83 Copynumber: 3.7 Consensus size: 82
33121301 ACCCAAGTAT
* * * * *
33121311 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
*
33121375 C-ACTA--GCATAAATGC
65 CAACTACTGCACAAATGC
* * *
33121390 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
33121455 AACTACTTGCACAAATGC
66 AACTAC-TGCACAAATGC
*
33121473 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
33121538 AACTACTCGCACAAATGC
66 AACTACT-GCACAAATGC
*
33121556 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCGTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
33121614 ATATCATCTG
Statistics
Matches: 204, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
79 13 0.06
80 48 0.24
82 1 0.00
83 142 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
AACTACTGCACAAATGC
Found at i:33121511 original size:123 final size:124
Alignment explanation
Indices: 33121311--33121617 Score: 425
Period size: 123 Copynumber: 2.5 Consensus size: 124
33121301 ACCCAAGTAT
* *
33121311 CTTCGGGATTTAG-CCGGATATAGCAACT-C--GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
33121372 AGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA-GCACAAATGC
66 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTACGCACAAATGC
* * *
33121430 CTTCGAGACTTAGCCCGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
33121495 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
66 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTA--CGCACAAATGC
* *
33121556 CTTCGGGACTTAGCCCGGATATAG-TA--ACTTGCACAAATGCGTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33121618 CATCTGAATA
Statistics
Matches: 166, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
119 11 0.07
120 14 0.08
121 1 0.01
122 1 0.01
123 106 0.64
125 1 0.01
126 32 0.19
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (124 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTACGCACAAATGC
Found at i:33123371 original size:20 final size:20
Alignment explanation
Indices: 33123346--33123393 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
33123336 TAGCATACTT
33123346 AACAAAATTTCAAATTTTTG
1 AACAAAATTTCAAATTTTTG
33123366 AACAAAATTTCAAATTTTTG
1 AACAAAATTTCAAATTTTTG
33123386 AACAAAAT
1 AACAAAAT
33123394 ATAACCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (20 bp):
AACAAAATTTCAAATTTTTG
Found at i:33151600 original size:31 final size:31
Alignment explanation
Indices: 33151560--33151642 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
33151550 TCAGTCTCGA
*
33151560 CATAT-ACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
33151590 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
33151621 CATATCACT-AGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
33151643 ACTGTAAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:33151890 original size:25 final size:25
Alignment explanation
Indices: 33151862--33151931 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33151852 CTCTTTTAAT
*
33151862 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33151887 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33151912 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33151932 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33152759 original size:27 final size:27
Alignment explanation
Indices: 33152724--33152801 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
33152714 GGGCATATTC
33152724 GTCATTTTACCATTAAGGGGTATTACG
1 GTCATTTTACCATTAAGGGGTATTACG
* *
33152751 GTCACTTTACC-CTATAGGGGCT-TTACG
1 GTCATTTTACCATTA-AGGGG-TATTACG
*
33152778 GTCTTTTTACCTATT-AGGGGTATT
1 GTCATTTTACC-ATTAAGGGGTATT
33152802 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 3 0.07
27 36 0.88
28 1 0.02
29 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATTAAGGGGTATTACG
Found at i:33152880 original size:27 final size:28
Alignment explanation
Indices: 33152850--33152927 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
33152840 ACAAACCAAG
33152850 GGTATTTCAGTAATTTTGTAAAA-CAAT
1 GGTATTTCAGTAATTTTGTAAAAGCAAT
*
33152877 GGTATTTCTA-AAATTTT-TAGAAAGTCAAT
1 GGTATTTC-AGTAATTTTGTA-AAAG-CAAT
**
33152906 GGTATTTTTGTAATTTTGTAAA
1 GGTATTTCAGTAATTTTGTAAA
33152928 TCAGGGGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.05
27 17 0.41
28 1 0.02
29 19 0.46
30 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (28 bp):
GGTATTTCAGTAATTTTGTAAAAGCAAT
Found at i:33153046 original size:53 final size:54
Alignment explanation
Indices: 33152819--33153056 Score: 176
Period size: 54 Copynumber: 4.4 Consensus size: 54
33152809 TTTCATCCTA
* * * * * ** *
33152819 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAA
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGCATTTTGGTAATTTTGTAAAC
* ** * * * * * *
33152873 CAATGGTATTTCT-AAAATTTTTAGAAAGTCAATGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGCATTTTGGTAATTTTGTAAAC
* * * * *** *
33152929 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAGTTTCACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGCATTTTGGTAATTTTGTAAAC
*
33152983 C-AGTGGTATTTTGGTAATTTT-CAAACTACGGGCATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGCATTTTGGTAATTTTGTAAAC
*
33153036 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
33153057 TTAAACCGAA
Statistics
Matches: 141, Mismatches: 37, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
53 42 0.30
54 49 0.35
55 17 0.12
56 33 0.23
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGCATTTTGGTAATTTTGTAAAC
Found at i:33153061 original size:27 final size:27
Alignment explanation
Indices: 33152819--33153063 Score: 138
Period size: 27 Copynumber: 9.0 Consensus size: 27
33152809 TTTCATCCTA
* * * **
33152819 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
** *
33152846 CAAGGGTATTTCAGTAATTTTGTAAAA
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* ** *
33152873 CAATGGTATTTCT-AAAATTTT-TAGAAAGT
1 CAAGGGTATTT-TGGTAATTTTGT--AAA-C
* * *
33152902 CAATGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* ** *
33152929 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *** *
33152956 TAAGGGTATTTTGGTAGTTTCACAGAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
33152983 C-AGTGGTATTTTGGTAATTTT-CAAAC
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
* * *
33153009 TACGGGCATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* *
33153036 CAAGGGTATTTTAGTAATTTTTTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
33153063 C
1 C
33153064 GAATGTAAAA
Statistics
Matches: 170, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
26 23 0.14
27 122 0.72
28 7 0.04
29 17 0.10
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:33153107 original size:54 final size:54
Alignment explanation
Indices: 33153049--33153178 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
33153039 GGGTATTTTA
* * *
33153049 GTAATTTTTTAAACCGAATGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
** * * *
33153103 GTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
* * *
33153157 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAACCGAAGGTA
33153179 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
GTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
Found at i:33153189 original size:27 final size:27
Alignment explanation
Indices: 33153068--33153178 Score: 186
Period size: 27 Copynumber: 4.1 Consensus size: 27
33153058 TAAACCGAAT
*
33153068 GTAAAATAGTAATTCTATAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
* *
33153095 GTAAAACGGTAATTCTATAAATTGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
33153122 GTAAAATGGTAATTCTATAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
*
33153149 GTAAAATGGTAATTCTGTAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
33153176 GTA
1 GTA
33153179 CTTTGGTAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAAAATGGTAATTCTATAAATCGAGG
Found at i:33153197 original size:27 final size:27
Alignment explanation
Indices: 33152906--33153217 Score: 146
Period size: 27 Copynumber: 11.6 Consensus size: 27
33152896 GAAAGTCAAT
* *
33152906 GGTATTTTTGTAATTTTGTAAATC-AGG
1 GGTATTTTGGTAATTTTATAAATCGA-G
* **
33152933 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * * *
33152960 GGTATTTTGGTAGTTTCACAGA-CCAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* *
33152986 TGGTATTTTGGTAATTTT-CAAA-CTACG
1 -GGTATTTTGGTAATTTTATAAATCGA-G
* * * *
33153013 GGCATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * *
33153040 GGTATTTTAGTAATTTTTTAAACCGAA
1 GGTATTTTGGTAATTTTATAAATCGAG
* *** * *
33153067 TGTAAAATAGTAATTCTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
**** * *
33153094 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
*** *
33153121 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
*** * *
33153148 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * *
33153175 GGTACTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
** *
33153202 GACATTTTAGTAATTT
1 GGTATTTTGGTAATTT
33153218 GGTAAACTAA
Statistics
Matches: 233, Mismatches: 47, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
26 23 0.10
27 207 0.89
28 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAATCGAG
Found at i:33153215 original size:81 final size:81
Alignment explanation
Indices: 33153043--33153216 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 81
33153033 AACCAAGGGT
* * *
33153043 ATTTTAGTAATTTTTTAAACCGAATGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAAT
1 ATTTTAGTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAAT
* **
33153108 TCTATAAATTGAGGGT
66 TCTACAAATTGAGGAC
*** * * * * * ****
33153124 AAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTACTTTGGTAAT
1 ATTTTAGTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAAT
*
33153189 TTTACAAATTGAGGAC
66 TCTACAAATTGAGGAC
33153205 ATTTTAGTAATT
1 ATTTTAGTAATT
33153217 TGGTAAACTA
Statistics
Matches: 70, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTTAGTAATTCTATAAACCGAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAAT
TCTACAAATTGAGGAC
Found at i:33155530 original size:30 final size:31
Alignment explanation
Indices: 33155454--33155536 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
33155444 TCAGTCTCGA
33155454 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
33155484 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
33155515 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
33155537 ACTGTATGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:33155770 original size:24 final size:23
Alignment explanation
Indices: 33155729--33155800 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
33155719 ACTTTATCAT
**
33155729 ATAACTAGAGGCCTAGCCTCTTTTA
1 ATAACT-GAGGCAAAGCC-CTTTTA
*
33155754 ATAACTGAGGCAAAGCCCTTTTTC
1 ATAACTGAGGCAAAGCCC-TTTTA
*
33155778 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
33155801 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.46
25 21 0.51
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:33155790 original size:25 final size:26
Alignment explanation
Indices: 33155756--33155825 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
33155746 CTCTTTTAAT
*
33155756 AACTGAGGCAAAGCCCTTTTTC-ATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
33155781 AACTGGGGCAAAGCCC-TTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
33155806 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33155826 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.12
25 32 0.80
26 3 0.08
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:33155801 original size:24 final size:24
Alignment explanation
Indices: 33155743--33155825 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
33155733 CTAGAGGCCT
* *
33155743 AGCCTCTTTTAAT-AACTGAGGCAA
1 AGCC-CTTTTCATAAACTGGGGCAA
33155767 AGCCCTTTTTCATAAACTGGGGCAA
1 AGCCC-TTTTCATAAACTGGGGCAA
* *
33155792 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTC-ATAAACTGGGGCAA
33155817 AGCCCTTTT
1 AGCCCTTTT
33155826 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 1 0.02
24 15 0.29
25 36 0.69
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTCATAAACTGGGGCAA
Found at i:33155990 original size:26 final size:25
Alignment explanation
Indices: 33155960--33156008 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33155950 AATCCATCAA
* *
33155960 CCACATAGTCCAAGTCAGTCATTTGC
1 CCACA-AGGCCAAGACAGTCATTTGC
*
33155986 CCACAAGGGCAAGACAGTCATTT
1 CCACAAGGCCAAGACAGTCATTT
33156009 TTCATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (25 bp):
CCACAAGGCCAAGACAGTCATTTGC
Found at i:33156697 original size:27 final size:27
Alignment explanation
Indices: 33156635--33156712 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
33156625 GGGCATATTC
* *
33156635 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
33156662 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
33156689 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-TAGGGGTATT
33156713 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:33156883 original size:27 final size:27
Alignment explanation
Indices: 33156743--33156872 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
33156733 GGGTATTTTA
* * *
33156743 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
33156770 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
33156797 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
33156824 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
33156851 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
33156873 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:33156883 original size:54 final size:54
Alignment explanation
Indices: 33156743--33156872 Score: 215
Period size: 54 Copynumber: 2.4 Consensus size: 54
33156733 GGGTATTTTA
* * * *
33156743 GTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
33156797 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
*
33156851 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATTGAGGGTA
33156873 CTTTGGTAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACG
Found at i:33156909 original size:81 final size:81
Alignment explanation
Indices: 33156737--33156910 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 81
33156727 CTACAAGGGT
* * ** *
33156737 ATTTTAGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAAT
1 ATTTTAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAAT
** **
33156802 TCTGTAAATTGAGGGT
66 TCTACAAATTGAGGAC
*** * * ****
33156818 AAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAAT
1 ATTTTAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAAT
*
33156883 TTTACAAATTGAGGAC
66 TCTACAAATTGAGGAC
33156899 ATTTTAGTAATT
1 ATTTTAGTAATT
33156911 TGGTAAACTA
Statistics
Matches: 70, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (81 bp):
ATTTTAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAAT
TCTACAAATTGAGGAC
Found at i:33159671 original size:120 final size:119
Alignment explanation
Indices: 33159451--33159754 Score: 428
Period size: 120 Copynumber: 2.5 Consensus size: 119
33159441 TACTAGGATG
* * * *
33159451 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATTTTCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA-TTTCGGGCTAAGCCCCGAAGGTA
* * *
33159516 TTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
65 TTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACT
** * *
33159571 ATTTCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTGCTATTTCCGGGCTAAGTCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATTT-CGGGCTAAGCCCCGAAGGTA
*
33159636 TTTGTGCGAGTTGCTATTTCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACT
65 TTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACT
* * * * * *
33159691 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGTGAGTAGCTATATCTGGCTAAACCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATTTCGGGCTAAGCCCCGAAGGTA
33159755 CTTGGTTGGG
Statistics
Matches: 161, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
119 20 0.12
120 141 0.88
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATTTCGGGCTAAGCCCCGAAGGTAT
TTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACT
Found at i:33159733 original size:40 final size:40
Alignment explanation
Indices: 33159458--33159719 Score: 416
Period size: 40 Copynumber: 6.5 Consensus size: 40
33159448 ATGATAACCA
* *
33159458 GGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATTTTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
33159498 GGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATTTTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
33159538 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
33159578 GGCTAAGTCCCGAAGGTATTTGTGCGAGTTGCTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
33159618 GGCTAAGTCCCGAAGGTATTTGTGCGAGTTGCTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* * **
33159658 GGCTAAGTCCCGAAGGCAATTGTGAGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
33159698 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
33159720 AGTGAGTAGC
Statistics
Matches: 209, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
Found at i:33167796 original size:40 final size:40
Alignment explanation
Indices: 33167739--33167969 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
33167729 GGATGATAAC
*
33167739 CGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
33167779 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
33167819 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
* *
33167859 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
* **
33167899 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-TAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
*
33167938 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
33167970 AGCTATATCC
Statistics
Matches: 181, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 179 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
Found at i:33167872 original size:80 final size:80
Alignment explanation
Indices: 33167738--33167995 Score: 387
Period size: 80 Copynumber: 3.2 Consensus size: 80
33167728 CGGATGATAA
*
33167738 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
33167803 TGCGAGTTACTATTT
66 TGCGAGTTACTATTT
*
33167818 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
*
33167883 TGCGAGTTGCTATTT
66 TGCGAGTTACTATTT
* **
33167898 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-TAACTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTC-GGGCTAAGTCCCGAAGGCATTT
* *
33167962 GAGCGAG-TAGCTATAT
65 GTGCGAGTTA-CTATTT
**
33167978 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33167996 TACTTGGTTG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
79 17 0.10
80 147 0.90
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATTT
Found at i:33170945 original size:30 final size:31
Alignment explanation
Indices: 33170874--33170951 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
33170864 CTCGACACAT
33170874 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
33170905 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
33170936 ACT-GGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
33170952 ACTGTAAGCG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 13 0.28
31 34 0.72
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:33171185 original size:24 final size:23
Alignment explanation
Indices: 33171144--33171215 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
33171134 ACTTTATCAT
**
33171144 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACT-GAGGCAAAGCC-CTTTTA
*
33171169 ATAACTGAGGCAAAGCCCTTTTTG
1 ATAACTGAGGCAAAGCCC-TTTTA
*
33171193 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
33171216 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.46
25 21 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:33171199 original size:25 final size:25
Alignment explanation
Indices: 33171171--33171240 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33171161 CTCTTTTAAT
* *
33171171 AACTGAGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33171196 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33171221 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33171241 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33172080 original size:27 final size:26
Alignment explanation
Indices: 33172050--33172127 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
33172040 GGGCATGTTT
33172050 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
33172077 GTCACTTTATCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
33172104 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
33172128 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:33172198 original size:27 final size:27
Alignment explanation
Indices: 33172168--33172397 Score: 160
Period size: 27 Copynumber: 8.4 Consensus size: 27
33172158 GTAAATCTAC
*
33172168 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
33172195 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
33172221 AAAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
* * * **
33172251 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
*** * ***
33172278 AAATTGAGGGTATTTTGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * **
33172305 AGACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTGT
* * *
33172332 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
**
33172359 AAACCAATAGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
33172386 AAACCGAGGGTA
1 AAACCAAGGGTA
33172398 AAACAGTAAT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 135 0.82
28 9 0.05
29 17 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:33172372 original size:54 final size:54
Alignment explanation
Indices: 33172153--33172383 Score: 230
Period size: 54 Copynumber: 4.2 Consensus size: 54
33172143 TACAAGGGTG
* * * **
33172153 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAATGGTA
* * * * * **
33172207 TTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTTGGTAATTTTGTAAACCAATGGTA
* * *** * *
33172263 TTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAGACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAATGGTA
* *
33172317 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAATAGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAATGGTA
*
33172371 TTTTAGTAATTTT
1 TTTTGGTAATTTT
33172384 GTAAACCGAG
Statistics
Matches: 141, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
54 89 0.63
55 17 0.12
56 35 0.25
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAATGGTA
Found at i:33172516 original size:27 final size:27
Alignment explanation
Indices: 33172376--33172501 Score: 189
Period size: 27 Copynumber: 4.7 Consensus size: 27
33172366 TAGTATTTTA
* * *
33172376 GTAATTTTGTAAACCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
33172403 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
33172430 GTAATTCTGCAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
33172457 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
33172484 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
33172502 AGTACTTTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:33172542 original size:81 final size:81
Alignment explanation
Indices: 33172370--33172543 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
33172360 AACCAATAGT
* * *
33172370 ATTTTAGTAATTTTGTAAACCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAAT
1 ATTTTAGTAATTCTATAAACCGAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACGGTAAT
* * **
33172435 TCTGCAAATTGAGGGT
66 TCTACAAATTAAGGAC
*** * * * ****
33172451 AAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGAGTACTTTGGTAAT
1 ATTTTAGTAATTCTATAAACCGAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACGGTAAT
*
33172516 TTTACAAATTAAGGAC
66 TCTACAAATTAAGGAC
33172532 ATTTTAGTAATT
1 ATTTTAGTAATT
33172544 TGGTAAACTA
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (81 bp):
ATTTTAGTAATTCTATAAACCGAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAACGGTAAT
TCTACAAATTAAGGAC
Found at i:33173628 original size:31 final size:31
Alignment explanation
Indices: 33173593--33173657 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
33173583 AAAATGATCA
*
33173593 AAATTAATCAATATTTATTATAAAATTAAGT
1 AAATTAATCAATACTTATTATAAAATTAAGT
33173624 AAATTAATCAATACTTATTATAAAATTAAGT
1 AAATTAATCAATACTTATTATAAAATTAAGT
33173655 AAA
1 AAA
33173658 AGTCAACATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (31 bp):
AAATTAATCAATACTTATTATAAAATTAAGT
Found at i:33176180 original size:40 final size:40
Alignment explanation
Indices: 33176129--33176356 Score: 341
Period size: 40 Copynumber: 5.7 Consensus size: 40
33176119 GCTACTCTCT
33176129 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* * * *
33176169 AAATGCCTTCGGGACTTAGCTCGGATATAATAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
33176209 AAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* *
33176249 AAATGCCTTCAGGACTTAGCCCGATTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* * * *
33176289 AAATGCCTTCGGGACTTAGCCTGG-AATTAGTCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
33176329 AAATGCCTTCGGGACTTAGCCCGGTTAT
1 AAATGCCTTCGGGACTTAGCCCGGTTAT
33176357 CATCCGAATA
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 164 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:33178664 original size:13 final size:14
Alignment explanation
Indices: 33178638--33178666 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33178628 ACTAGCGATG
33178638 AATTAAACCATTAT
1 AATTAAACCATTAT
33178652 AATTAAA-CATTAT
1 AATTAAACCATTAT
33178665 AA
1 AA
33178667 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:33183755 original size:9 final size:9
Alignment explanation
Indices: 33183741--33183880 Score: 76
Period size: 9 Copynumber: 15.6 Consensus size: 9
33183731 TATATATTAC
*
33183741 GTAAGTTAA
1 GTAAGTTAT
*
33183750 GTAAGTTTT
1 GTAAGTTAT
33183759 GTAAGTTAT
1 GTAAGTTAT
33183768 GTAAGTTAT
1 GTAAGTTAT
*
33183777 GAAAGTTAT
1 GTAAGTTAT
*
33183786 G-ATA-TGAT
1 GTA-AGTTAT
* *
33183794 ATACATTTAT
1 GTA-AGTTAT
*
33183804 GTAAGATAT
1 GTAAGTTAT
33183813 GTAAGTTAT
1 GTAAGTTAT
* *
33183822 GATATGATAT
1 G-TAAGTTAT
* *
33183832 G-CATTTAT
1 GTAAGTTAT
33183840 GTAAAG-TAT
1 GT-AAGTTAT
33183849 GTAAGTTAT
1 GTAAGTTAT
*
33183858 GATATATTTAT
1 G-TA-AGTTAT
33183869 GT-A-TTAT
1 GTAAGTTAT
33183876 GTAAG
1 GTAAG
33183881 GTATATAAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
7 6 0.06
8 13 0.13
9 58 0.59
10 16 0.16
11 6 0.06
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33183804 original size:36 final size:35
Alignment explanation
Indices: 33183764--33183862 Score: 153
Period size: 36 Copynumber: 2.7 Consensus size: 35
33183754 GTTTTGTAAG
*
33183764 TTATGTAAGTTATGAAAGTTATGATATGATATACAT
1 TTATGTAAG-TATGTAAGTTATGATATGATATACAT
*
33183800 TTATGTAAGATATGTAAGTTATGATATGATATGCAT
1 TTATGTAAG-TATGTAAGTTATGATATGATATACAT
33183836 TTATGTAAAGTATGTAAGTTATGATAT
1 TTATGT-AAGTATGTAAGTTATGATAT
33183863 ATTTATGTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 56 0.95
37 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.42
Consensus pattern (35 bp):
TTATGTAAGTATGTAAGTTATGATATGATATACAT
Found at i:33183876 original size:36 final size:36
Alignment explanation
Indices: 33183764--33183880 Score: 125
Period size: 36 Copynumber: 3.2 Consensus size: 36
33183754 GTTTTGTAAG
* * **
33183764 TTATGTAAGTTATGAAAGTTATGATATGA-TATACA
1 TTATGTAAGATATGTAAGTTATGATATGATTATGTA
*
33183799 TTTATGTAAGATATGTAAGTTATGATATGA-TATGCA
1 -TTATGTAAGATATGTAAGTTATGATATGATTATGTA
33183835 TTTATGTAA-AGTATGTAAGTTATGATAT-ATTTATGTA
1 -TTATGTAAGA-TATGTAAGTTATGATATGA-TTATGTA
33183872 TTATGTAAG
1 TTATGTAAG
33183881 GTATATAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 2 0.03
36 66 0.90
37 5 0.07
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (36 bp):
TTATGTAAGATATGTAAGTTATGATATGATTATGTA
Found at i:33185972 original size:12 final size:12
Alignment explanation
Indices: 33185955--33185979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33185945 ACACCAAGCT
33185955 TCAAAGACATAA
1 TCAAAGACATAA
33185967 TCAAAGACATAA
1 TCAAAGACATAA
33185979 T
1 T
33185980 GAACACATTA
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:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TCAAAGACATAA
Found at i:33186213 original size:62 final size:62
Alignment explanation
Indices: 33186138--33186261 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
33186128 CACTATAGAC
33186138 CCCCTACGAATTGAGTTCGATCCCACTTTAAAGCAAAGCATAAAAAAGAAATCCTAAGTATT
1 CCCCTACGAATTGAGTTCGATCCCACTTTAAAGCAAAGCATAAAAAAGAAATCCTAAGTATT
* *
33186200 CCCCTACGAATTGAGTTCGATCCCACTTTAAAGTAAAGCATAAAAAAGAAATCCTATGTATT
1 CCCCTACGAATTGAGTTCGATCCCACTTTAAAGCAAAGCATAAAAAAGAAATCCTAAGTATT
33186262 GTTCAATCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.26
Consensus pattern (62 bp):
CCCCTACGAATTGAGTTCGATCCCACTTTAAAGCAAAGCATAAAAAAGAAATCCTAAGTATT
Found at i:33187072 original size:70 final size:70
Alignment explanation
Indices: 33186959--33187133 Score: 341
Period size: 70 Copynumber: 2.5 Consensus size: 70
33186949 TGGATCTGAA
*
33186959 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTAGTATAAATTTATACAAAGCTAAATCCTTAT
1 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTAATATAAATTTATACAAAGCTAAATCCTTAT
33187024 CATAC
66 CATAC
33187029 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTAATATAAATTTATACAAAGCTAAATCCTTAT
1 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTAATATAAATTTATACAAAGCTAAATCCTTAT
33187094 CATAC
66 CATAC
33187099 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTA
1 AAAGTCTCATAAGCTTACAAAATAGTATAAATTTA
33187134 GTATTTAGGG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 104 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (70 bp):
AAAGTCTCATAAGCTTACAAAATAGTATAAATTTAATATAAATTTATACAAAGCTAAATCCTTAT
CATAC
Found at i:33188958 original size:28 final size:29
Alignment explanation
Indices: 33188867--33188973 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
33188857 TGCATGTGAT
* * *
33188867 TTGGGCTTAAGGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * *
33188896 TTGGTCCTGATGGGCCGA-ATGAATGAGAA
1 TTGGGCCTAATGGGCC-ATATGAATAAGAA
*
33188925 TTGGGCCTAATGGGCCATATAAATAAG-A
1 TTGGGCCTAATGGGCCATATGAATAAGAA
33188953 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
33188974 CATGTATGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.03
28 19 0.30
29 42 0.66
30 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:33190303 original size:28 final size:27
Alignment explanation
Indices: 33190248--33190360 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
33190238 AGCATGGCTG
* * *
33190248 CCAGAACAGATAA-TATGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
33190274 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
33190302 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
33190329 TCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
33190357 CCAG
1 CCAG
33190361 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.11
27 33 0.45
28 31 0.42
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:33190334 original size:55 final size:54
Alignment explanation
Indices: 33190248--33190360 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
33190238 AGCATGGCTG
*
33190248 CCAGAACAGATAATATGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATATGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * *
33190302 CCAGAACAGA-AATATGTGGCAGAGCCATCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAATA--TGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
33190357 CCAG
1 CCAG
33190361 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 4 0.08
54 17 0.33
55 30 0.59
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:33198156 original size:28 final size:27
Alignment explanation
Indices: 33198100--33198212 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
33198090 CAGCATGGCT
* *
33198100 ACCAGAACAGATAA-TGTGACAGAGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
33198126 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAATTGTGGCAGAGCC
* *
33198154 ACCAGAACATA-AATATGTGGTAGAGCC
1 ACCAGAACAGATAAT-TGTGGCAGAGCC
* *
33198181 ACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA-TTGTGGCAGAGCC
33198209 ACCA
1 ACCA
33198213 AGACGCTTCC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.12
27 31 0.43
28 31 0.43
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:33199615 original size:24 final size:24
Alignment explanation
Indices: 33199588--33199634 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33199578 CTAGATTTCC
**
33199588 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
33199612 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
33199635 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:33201297 original size:16 final size:17
Alignment explanation
Indices: 33201273--33201311 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
33201263 CTAATCTCCA
*
33201273 TTTTATATTTC-TTTTT
1 TTTTGTATTTCATTTTT
33201289 TTTTGTATTTCATTTTT
1 TTTTGTATTTCATTTTT
*
33201306 ATTTGT
1 TTTTGT
33201312 TATCAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTGTATTTCATTTTT
Found at i:33201310 original size:17 final size:16
Alignment explanation
Indices: 33201278--33201311 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33201268 CTCCATTTTA
*
33201278 TATTTCTTTTTTTTTG
1 TATTTCTTTTTATTTG
33201294 TATTTCATTTTTATTTG
1 TATTTC-TTTTTATTTG
33201311 T
1 T
33201312 TATCAATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTCTTTTTATTTG
Found at i:33201325 original size:19 final size:20
Alignment explanation
Indices: 33201301--33201342 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
33201291 TTGTATTTCA
33201301 TTTTTATTT-GTTATCAATG
1 TTTTTATTTAGTTATCAATG
*
33201320 TTTTTATTTATTTATCAATG
1 TTTTTATTTAGTTATCAATG
33201340 TTT
1 TTT
33201343 ATTTTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTATTTAGTTATCAATG
Found at i:33201636 original size:7 final size:7
Alignment explanation
Indices: 33201624--33201666 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
33201614 ACTAATTAAT
33201624 CTAAACC
1 CTAAACC
33201631 CTAAACTC
1 CTAAAC-C
*
33201639 CTAATCC
1 CTAAACC
*
33201646 CTAATCC
1 CTAAACC
*
33201653 CTAATCC
1 CTAAACC
33201660 CTAAACC
1 CTAAACC
33201667 TTGAATCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:33201657 original size:14 final size:15
Alignment explanation
Indices: 33201624--33201665 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
33201614 ACTAATTAAT
*
33201624 CTAAACCCTAAACTC
1 CTAATCCCTAAACTC
*
33201639 CTAATCCCTAATC-C
1 CTAATCCCTAAACTC
33201653 CTAATCCCTAAAC
1 CTAATCCCTAAAC
33201666 CTTGAATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (15 bp):
CTAATCCCTAAACTC
Found at i:33201768 original size:15 final size:15
Alignment explanation
Indices: 33201741--33201778 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
33201731 TAAACCCCAA
33201741 CCTTAAA-CCATAAT
1 CCTTAAACCCATAAT
33201755 CCTTAAACCCATAAT
1 CCTTAAACCCATAAT
*
33201770 CCATAAACC
1 CCTTAAACC
33201779 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (15 bp):
CCTTAAACCCATAAT
Found at i:33201813 original size:22 final size:22
Alignment explanation
Indices: 33201749--33201828 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
33201739 AACCTTAAAC
*
33201749 CATAATCCTTAAACCCATAA-T
1 CATAAACCTTAAACCCATAACT
**
33201770 CCATAAACCTTAAA-ATAGTAACT
1 -CATAAACCTTAAACCCA-TAACT
*
33201793 CATAAACCTTAAACCCCTAAC-
1 CATAAACCTTAAACCCATAACT
* *
33201814 CATATACCCTAAACC
1 CATAAACCTTAAACC
33201829 GTAAACCGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
21 14 0.30
22 32 0.68
23 1 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (22 bp):
CATAAACCTTAAACCCATAACT
Found at i:33201826 original size:21 final size:22
Alignment explanation
Indices: 33201788--33201828 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33201778 CTTAAAATAG
*
33201788 TAACTCATAAACCTTAAACCCC
1 TAACTCATAAACCCTAAACCCC
*
33201810 TAAC-CATATACCCTAAACC
1 TAACTCATAAACCCTAAACC
33201829 GTAAACCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (22 bp):
TAACTCATAAACCCTAAACCCC
Found at i:33201952 original size:7 final size:7
Alignment explanation
Indices: 33201940--33202072 Score: 88
Period size: 7 Copynumber: 18.7 Consensus size: 7
33201930 ACTAATTAAT
33201940 CTAAACC
1 CTAAACC
33201947 CTAAACCC
1 CTAAA-CC
*
33201955 CTAATCC
1 CTAAACC
*
33201962 CTAATCC
1 CTAAACC
33201969 CTAAACC
1 CTAAACC
* *
33201976 TTAAATC
1 CTAAACC
*
33201983 CTAAAAC
1 CTAAACC
*
33201990 ATAAACC
1 CTAAACC
33201997 CTAAACCC
1 CTAAA-CC
*
33202005 CTAACCC
1 CTAAACC
* *
33202012 CTGACCC
1 CTAAACC
* *
33202019 CTGATCC
1 CTAAACC
33202026 CTAAACC
1 CTAAACC
*
33202033 TTAAACC
1 CTAAACC
33202040 CT-AACC
1 CTAAACC
33202046 CTTAAACC
1 C-TAAACC
* *
33202054 ATAATCC
1 CTAAACC
*
33202061 ATAAACC
1 CTAAACC
*
33202068 TTAAA
1 CTAAA
33202073 ATAGTAACTC
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
6 5 0.05
7 81 0.79
8 16 0.16
ACGTcount: A:0.39, C:0.38, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:33201985 original size:14 final size:14
Alignment explanation
Indices: 33201940--33202137 Score: 76
Period size: 14 Copynumber: 13.9 Consensus size: 14
33201930 ACTAATTAAT
*
33201940 CTAAACCCTAAACCC
1 CTAAACCATAAA-CC
* * *
33201955 CTAATCCCTAATCC
1 CTAAACCATAAACC
* *
33201969 CTAAACCTTAAATC
1 CTAAACCATAAACC
*
33201983 CTAAAACATAAACC
1 CTAAACCATAAACC
* *
33201997 CTAAACCCCTAACCC
1 CTAAA-CCATAAACC
* * * * *
33202012 CTGACCCCTGATCC
1 CTAAACCATAAACC
*
33202026 CTAAACCTTAAACC
1 CTAAACCATAAACC
* *
33202040 CTAACCCTTAAACC
1 CTAAACCATAAACC
* *
33202054 ATAATCCATAAACC
1 CTAAACCATAAACC
*
33202068 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
* *
33202083 ATAAACCTTAAACC
1 CTAAACCATAAACC
* * *
33202097 CTTAACTATATACC
1 CTAAACCATAAACC
* *
33202111 CTAAATCGTAAACC
1 CTAAACCATAAACC
* *
33202125 GTAAACCGTAAAC
1 CTAAACCATAAAC
33202138 TATAATGATA
Statistics
Matches: 136, Mismatches: 41, Indels: 13
0.72 0.22 0.07
Matches are distributed among these distances:
12 3 0.02
14 104 0.76
15 27 0.20
17 2 0.01
ACGTcount: A:0.40, C:0.34, G:0.03, T:0.22
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:33202051 original size:21 final size:21
Alignment explanation
Indices: 33202027--33202142 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
33202017 CCCTGATCCC
* * *
33202027 TAAACCTTAAACCCTAACCCT
1 TAAACCATAAACCATAAACCT
*
33202048 TAAACCATAATCCATAAACCT
1 TAAACCATAAACCATAAACCT
33202069 TAAA--ATAGTAACTCATAAACCT
1 TAAACCATA--AAC-CATAAACCT
* * * * *
33202091 TAAACCCTTAACTATATACCC
1 TAAACCATAAACCATAAACCT
* * * *
33202112 TAAATCGTAAACCGTAAACCG
1 TAAACCATAAACCATAAACCT
*
33202133 TAAACTATAA
1 TAAACCATAA
33202143 TGATAATTAA
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
19 3 0.04
21 50 0.71
22 16 0.23
24 1 0.01
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:33205077 original size:207 final size:207
Alignment explanation
Indices: 33204835--33205245 Score: 768
Period size: 207 Copynumber: 2.0 Consensus size: 207
33204825 TAAACTTGGC
33204835 ACCATAATCATTTAATTTAATATAATTCAATTAATTCACTAAATTTAACTTTCAAATATAAATTA
1 ACCATAATCATTTAATTTAATATAATTCAATTAATTCACTAAATTTAACTTTCAAATATAAATTA
33204900 CAGCATTATTGCTGTATTATTATCATACCAACTTACATACTTTCAACACCTCGGAAATCATAATG
66 CAGCATTATTGCTGTATTATTATCATACCAACTTACATACTTTCAACACCTCGGAAATCATAATG
* *
33204965 AATATATCAATTTTACATTAAAACATGCATAAATTAATGCTTAGTATACATATGAACTTACTTCG
131 AATATATCAATTTTACATTAAAACATGCATAAATTAATGCTTAGTATACATATGAACTTACCTCA
33205030 ATACTAAAAAAA
196 ATACTAAAAAAA
33205042 ACCATAATCATTTAATTTAATATAATTCAATTAATTCACTAAATTTAACTTTCAAATATAAATTA
1 ACCATAATCATTTAATTTAATATAATTCAATTAATTCACTAAATTTAACTTTCAAATATAAATTA
*
33205107 CAGCATTATTGCTGTATTATTATCATACTAACTTACATACTTTCAACACCTCGGAAATCATAATG
66 CAGCATTATTGCTGTATTATTATCATACCAACTTACATACTTTCAACACCTCGGAAATCATAATG
* * *
33205172 AATATATCAATTTTACATTGAAACATGCATAAATTAATGCTTATTATACATGTGAACTTACCTCA
131 AATATATCAATTTTACATTAAAACATGCATAAATTAATGCTTAGTATACATATGAACTTACCTCA
33205237 ATACTAAAA
196 ATACTAAAA
33205246 GGTCATTTTA
Statistics
Matches: 198, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 198 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (207 bp):
ACCATAATCATTTAATTTAATATAATTCAATTAATTCACTAAATTTAACTTTCAAATATAAATTA
CAGCATTATTGCTGTATTATTATCATACCAACTTACATACTTTCAACACCTCGGAAATCATAATG
AATATATCAATTTTACATTAAAACATGCATAAATTAATGCTTAGTATACATATGAACTTACCTCA
ATACTAAAAAAA
Found at i:33206447 original size:95 final size:93
Alignment explanation
Indices: 33206348--33206533 Score: 250
Period size: 95 Copynumber: 2.0 Consensus size: 93
33206338 AGTATTAGTG
* * *
33206348 GCGTTTAT-TAAAAAGCGCCGCTAAAGGTGTACCTATAGTGGCATTTTTTTAAAAAA-AGGTCAC
1 GCGTTTATCT-AAAAGCGCCGCTAAAGGTGTACCTATAGCGGC-GTTTTTTAAAAAACA--CCAC
*
33206411 TAAAGCCACTAAAAGCTCAATATATAACGACA
62 TAAAGCCACTAAAAGCTCAATATAGAACGACA
* *
33206443 GCGTTTATCTGAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAAACACCGCTAAA
1 GCGTTTATCTAAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAAACACCACTAAA
* *
33206508 TCCATTAAAAGCTCAATATAGAACGA
66 GCCACTAAAAGCTCAATATAGAACGA
33206534 TGACATTTTG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
93 29 0.36
94 12 0.15
95 39 0.48
96 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (93 bp):
GCGTTTATCTAAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAAACACCACTAAA
GCCACTAAAAGCTCAATATAGAACGACA
Found at i:33206700 original size:41 final size:40
Alignment explanation
Indices: 33206595--33206702 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
33206585 CAAGCATTAA
*
33206595 CGGCGTTTTTTAAAAAGCACCGCTAATACTCGATCTATAG
1 CGGCGTTTTTTAAAAAGCGCCGCTAATACTCGATCTATAG
*
33206635 CGGCGTTTTTTAAAAAGCGTCGCTAATACTCGATCTATAG
1 CGGCGTTTTTTAAAAAGCGCCGCTAATACTCGATCTATAG
* *
33206675 CGGCGTTTTTTCAGAAAGTGCCGCTAAT
1 CGGCGTTTTTT-AAAAAGCGCCGCTAAT
33206703 GCCACTGAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 49 0.79
41 13 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (40 bp):
CGGCGTTTTTTAAAAAGCGCCGCTAATACTCGATCTATAG
Found at i:33209980 original size:28 final size:29
Alignment explanation
Indices: 33209935--33210036 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
33209925 CATGCATAAA
* *
33209935 ATAGCCATAGAGGTGTC-CAT-ACAGATAG
1 ATAGCCATAAAGGCGTCACATAACA-ATAG
* *
33209963 ATAGCCACAAAGGCGTCCACATAACATTAG
1 ATAGCCATAAAGGCGT-CACATAACAATAG
*
33209993 ATAGCCATAAAGGCGTCTAGATAAC-ATCAG
1 ATAGCCATAAAGGCGTC-ACATAACAAT-AG
* *
33210023 AAAGCCACAAAGGC
1 ATAGCCATAAAGGC
33210037 ATCCAAACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.22
29 3 0.05
30 41 0.68
31 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (29 bp):
ATAGCCATAAAGGCGTCACATAACAATAG
Found at i:33209996 original size:30 final size:30
Alignment explanation
Indices: 33209960--33210041 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
33209950 TCCATACAGA
33209960 TAGATAGCCACAAAGGCGTCCACATAACAT
1 TAGATAGCCACAAAGGCGTCCACATAACAT
* * *
33209990 TAGATAGCCATAAAGGCGTCTAGATAACAT
1 TAGATAGCCACAAAGGCGTCCACATAACAT
* * *
33210020 CAGAAAGCCACAAAGGCATCCA
1 TAGATAGCCACAAAGGCGTCCA
33210042 AACACATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.16
Consensus pattern (30 bp):
TAGATAGCCACAAAGGCGTCCACATAACAT
Found at i:33228335 original size:36 final size:36
Alignment explanation
Indices: 33228288--33228360 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
33228278 TTAACAATGC
*
33228288 TCTATGAGTTAATACTACAGGGGATTTAGTATAAGG
1 TCTATGAGTTAATACTACAAGGGATTTAGTATAAGG
33228324 TCTATGAGTTAATACTACAAGGGATTTAGTATAAGG
1 TCTATGAGTTAATACTACAAGGGATTTAGTATAAGG
33228360 T
1 T
33228361 TCACAGGAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (36 bp):
TCTATGAGTTAATACTACAAGGGATTTAGTATAAGG
Found at i:33241100 original size:37 final size:37
Alignment explanation
Indices: 33241041--33241149 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
33241031 AACTCAGACG
* *
33241041 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33241078 AAATCTCCACACGTAGCCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33241115 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33241150 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33241419 original size:48 final size:48
Alignment explanation
Indices: 33241295--33241527 Score: 353
Period size: 48 Copynumber: 4.8 Consensus size: 48
33241285 GCACATCGCC
* * *
33241295 TACATATTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
33241345 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
33241393 TACATATTTCGCATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
33241441 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
33241489 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
33241528 TGCATGTTCA
Statistics
Matches: 172, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
48 130 0.76
49 2 0.01
50 40 0.23
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:33241576 original size:47 final size:47
Alignment explanation
Indices: 33241497--33241689 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
33241487 CATACATATT
* * * *
33241497 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
33241544 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33241591 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
33241638 TCACATTGGCCATTC-GCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
33241684 TCACAT
1 TCACAT
33241690 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 33 0.25
47 99 0.75
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:33246992 original size:43 final size:43
Alignment explanation
Indices: 33246939--33247066 Score: 141
Period size: 44 Copynumber: 3.0 Consensus size: 43
33246929 CATAGGATTC
*
33246939 CGATATGTGATTTCATGTAAGACCATGTTTGGGACATTGGCAT
1 CGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
* * * * * *
33246982 TGATTTGTGATTTGCGTGTGAA-ACCCTGTCTGGGATAGTGGCAT
1 CGATATGTGATTT-CATGT-AAGACCATGTCTGGGACATTGGCAT
* * *
33247026 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 CGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGC
33247067 GTTGTATAAG
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.03
43 30 0.45
44 32 0.48
45 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
Found at i:33249421 original size:27 final size:27
Alignment explanation
Indices: 33249379--33249525 Score: 154
Period size: 27 Copynumber: 5.4 Consensus size: 27
33249369 ACCCTTAATC
*
33249379 GGGTAAAATAACCGAAATATCCCCATA
1 GGGTAAAATGACCGAAATATCCCCATA
* *
33249406 TGGTAAAATGATCGAAATA-CCGCCATA
1 GGGTAAAATGACCGAAATATCC-CCATA
* * * *
33249433 GGGTCAAATCACCCAAATATCCCTATA
1 GGGTAAAATGACCGAAATATCCCCATA
* *
33249460 GGGTAAAATGACTGAAATACCCCCATA
1 GGGTAAAATGACCGAAATATCCCCATA
* * *
33249487 GGGTAAAATGACTGTAAT-TCCCCTGTA
1 GGGTAAAATGACCGAAATATCCCC-ATA
33249514 GGGTAAAATGAC
1 GGGTAAAATGAC
33249526 TATTTTGCCC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 6 0.06
27 91 0.92
28 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATATCCCCATA
Found at i:33249477 original size:54 final size:55
Alignment explanation
Indices: 33249379--33249526 Score: 176
Period size: 54 Copynumber: 2.7 Consensus size: 55
33249369 ACCCTTAATC
* * *
33249379 GGGTAAAATAACCGAAATATCCCCATATGGTAAAATGA-TCGAAATACCGCCATA
1 GGGTAAAATAACCGAAATATCCCTATAGGGTAAAATGACTCGAAATACCCCCATA
* * *
33249433 GGGTCAAATCACCCAAATATCCCTATAGGGTAAAATGACT-GAAATACCCCCATA
1 GGGTAAAATAACCGAAATATCCCTATAGGGTAAAATGACTCGAAATACCCCCATA
* * * *
33249487 GGGTAAAATGACTGTAAT-TCCCCTGTAGGGTAAAATGACT
1 GGGTAAAATAACCGAAATAT-CCCTATAGGGTAAAATGACT
33249527 ATTTTGCCCT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 78 0.98
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (55 bp):
GGGTAAAATAACCGAAATATCCCTATAGGGTAAAATGACTCGAAATACCCCCATA
Found at i:33249548 original size:27 final size:27
Alignment explanation
Indices: 33249518--33249591 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
33249508 CCTGTAGGGT
33249518 AAAATGACTATTTTGCCCTTGTGAGGC
1 AAAATGACTATTTTGCCCTTGTGAGGC
*
33249545 AAAATGATTATTTTGCCCTTGTGAGGC
1 AAAATGACTATTTTGCCCTTGTGAGGC
*
33249572 AAAATGACTGTTTTGCCCTT
1 AAAATGACTATTTTGCCCTT
33249592 ATATGGTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTGTGAGGC
Found at i:33250096 original size:34 final size:35
Alignment explanation
Indices: 33250031--33250115 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 35
33250021 TTTATTGAGG
33250031 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
1 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
* *
33250066 TGGGCTAAGGCCCAGACTG-TTACT-ATTACTAATA
1 TGGGCTTAGGCCCAGACTGTTTACTGA-TACTAAAA
*
33250100 TAGGCTTAGGCCCAGA
1 TGGGCTTAGGCCCAGA
33250116 ATGTATTCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
33 1 0.02
34 26 0.58
35 18 0.40
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (35 bp):
TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
Found at i:33267625 original size:16 final size:16
Alignment explanation
Indices: 33267604--33267635 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33267594 TATTATTTGG
33267604 TATGTATGTAAATATA
1 TATGTATGTAAATATA
*
33267620 TATGTATGTGAATATA
1 TATGTATGTAAATATA
33267636 CTTGTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
TATGTATGTAAATATA
Found at i:33279507 original size:46 final size:46
Alignment explanation
Indices: 33279384--33279510 Score: 218
Period size: 46 Copynumber: 2.8 Consensus size: 46
33279374 TGTAACCTGC
* * * *
33279384 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
33279430 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
33279476 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
33279511 AATGCCCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33281947 original size:30 final size:30
Alignment explanation
Indices: 33281903--33281991 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
33281893 CAAAGATAAT
33281903 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
33281932 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
33281962 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
33281992 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:33281951 original size:15 final size:15
Alignment explanation
Indices: 33281903--33281982 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
33281893 CAAAGATAAT
*
33281903 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33281917 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
33281932 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
33281947 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
33281962 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
33281977 AAGAAA
1 AAGAAA
33281983 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33281991 original size:15 final size:15
Alignment explanation
Indices: 33281914--33281991 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
33281904 AGAAAACCGA
33281914 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
33281929 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
33281943 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
33281958 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
33281974 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
33281989 ATA
1 ATA
33281992 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:33285057 original size:46 final size:46
Alignment explanation
Indices: 33284937--33285061 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
33284927 TGTAACCTGC
* * * * *
33284937 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
33284983 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
33285029 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
33285062 TGGATGCCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:33291160 original size:17 final size:17
Alignment explanation
Indices: 33291138--33291170 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33291128 ATTAGTTTAA
33291138 TTAAATTATTTTCTCAT
1 TTAAATTATTTTCTCAT
33291155 TTAAATTATTTTCTCA
1 TTAAATTATTTTCTCA
33291171 ACCCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATTATTTTCTCAT
Found at i:33296327 original size:29 final size:29
Alignment explanation
Indices: 33296282--33296382 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
33296272 TAGGCCTAAC
* *
33296282 GGGCCATATAAATGTGATTTGGGCTTAAT
1 GGGCCATATACAGGTGATTTGGGCTTAAT
* *
33296311 GGGCTATATACAGGTGATTTGGGCCTAAT
1 GGGCCATATACAGGTGATTTGGGCTTAAT
*
33296340 GGGCCATATGA-ATGTGA-TTGGGCTTAAT
1 GGGCCATAT-ACAGGTGATTTGGGCTTAAT
*
33296368 GGGCCAAATACAGGT
1 GGGCCATATACAGGT
33296383 ATGTGAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 21 0.34
29 38 0.62
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.30
Consensus pattern (29 bp):
GGGCCATATACAGGTGATTTGGGCTTAAT
Found at i:33296338 original size:58 final size:57
Alignment explanation
Indices: 33296274--33296382 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
33296264 AATTTGACTA
* *
33296274 GGCCTAACGGGCCATATAAATGTGATTTGGGCTTAATGGGCTATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATGTGA-TTGGGCTTAATGGGCCAAATACAGGTGATTTG
* *
33296332 GGCCTAATGGGCCATATGAATGTGATTGGGCTTAATGGGCCAAATACAGGT
1 GGCCTAACGGGCCATATAAATGTGATTGGGCTTAATGGGCCAAATACAGGT
33296383 ATGTGAATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATGTGATTGGGCTTAATGGGCCAAATACAGGTGATTTG
Found at i:33300590 original size:16 final size:16
Alignment explanation
Indices: 33300564--33300609 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
33300554 TATGGATTAA
*
33300564 CAAAA-GCCGAAATGC
1 CAAAATGCCGAAAAGC
33300579 CAAAATGCCGAAAAGC
1 CAAAATGCCGAAAAGC
* *
33300595 CGAAATGTCGAAAAG
1 CAAAATGCCGAAAAG
33300610 TTGAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.09
Consensus pattern (16 bp):
CAAAATGCCGAAAAGC
Found at i:33300606 original size:8 final size:8
Alignment explanation
Indices: 33300569--33300607 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
33300559 ATTAACAAAA
33300569 GCCGAAAT
1 GCCGAAAT
*
33300577 GCCAAAAT
1 GCCGAAAT
*
33300585 GCCGAAAA
1 GCCGAAAT
33300593 GCCGAAAT
1 GCCGAAAT
*
33300601 GTCGAAA
1 GCCGAAA
33300608 AGTTGAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:33300880 original size:29 final size:29
Alignment explanation
Indices: 33300837--33300977 Score: 185
Period size: 29 Copynumber: 4.9 Consensus size: 29
33300827 ATGAATGTAA
* *
33300837 TTGGGCCTAACGGGCCATATAAATGTGAT
1 TTGGGCCTAATGGGCCATATAAAGGTGAT
* *
33300866 TTGGGCTTAATGGGCCATATACAGGTGAT
1 TTGGGCCTAATGGGCCATATAAAGGTGAT
*
33300895 TTGGGCCTAATGGGCCATATACAGGTGAT
1 TTGGGCCTAATGGGCCATATAAAGGTGAT
* *
33300924 TTGGGCCTAATGGGCCATATGAATGTGA-
1 TTGGGCCTAATGGGCCATATAAAGGTGAT
* * *
33300952 TTGGGCTTAATGGGCCAAATACAGGT
1 TTGGGCCTAATGGGCCATATAAAGGT
33300978 ATGTGAATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
28 21 0.21
29 78 0.79
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATAAAGGTGAT
Found at i:33312553 original size:47 final size:45
Alignment explanation
Indices: 33312485--33312652 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 45
33312475 TTTGTGTGCT
* *
33312485 AGTGTAAGACATGTTTAGGACATGCATCGGCCGCATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAAAGCC
* *
33312531 AGTGTAAGACCATGTTTGGGACATGGCATC-G-CCATTGA-GACAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATG--AA-AGCC
* * * *
33312579 AATGTAAGACATGTCTGGGACATACATCGGCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATGAAAGCC
*
33312625 ACTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
33312653 ACTACATGAT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
45 5 0.05
46 44 0.44
47 31 0.31
48 18 0.18
49 2 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAAAGCC
Done.