Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 229 of 320
Found at i:75970928 original size:89 final size:90
Alignment explanation
Indices: 75970764--75971023 Score: 287
Period size: 89 Copynumber: 2.9 Consensus size: 90
75970754 ACTATCTTTG
** *
75970764 ATCTGCTCCTCGTCTAATACAGAGAGGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTTATCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
* * * * *
75970829 AAATACGCCAAATTTG-CTTCTTCA
66 AGAGATGCCAAATCTGTCATCTTCA
* *
75970853 ATCTGCTTATCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTTATCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
**
75970918 AGAGATGCCAAATCTGTCATCTTGG
66 AGAGATGCCAAATCTGTCATCTTCA
* * * *
75970943 ATCTGCTTCTAT-GT-AAACACATGAAGAT--CAGATCTGCTATGTCTTCGATCTGCTCCCCGTC
1 ATCTGC-T-TATCGTCTAATACA-G-AGATGCCAAATCTG-T-TATCTTCGATCTGCTCCCCGTC
75971004 TAATACAGAGATGCCAAATC
60 TAATACAGAGATGCCAAATC
75971024 ATCTTGGATC
Statistics
Matches: 146, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
89 72 0.49
90 23 0.16
91 5 0.03
92 46 0.32
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTGCTTATCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
AGAGATGCCAAATCTGTCATCTTCA
Found at i:75971092 original size:78 final size:78
Alignment explanation
Indices: 75970974--75971413 Score: 713
Period size: 78 Copynumber: 5.6 Consensus size: 78
75970964 TGAAGATCAG
75970974 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
75971039 CAATGAAGGTCCA
66 CAATGAAGGTCCA
* *
75971052 ATCTGTTATGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
75971117 CAATGAAGGT-CA
66 CAATGAAGGTCCA
*
75971129 GATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 -ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
75971194 TCAATGAAGGTCCA
65 TCAATGAAGGTCCA
* * * *
75971208 ATCTGTTATGTCTTCGATCTTCACCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
* *
75971273 CAATGAATGTCAA
66 CAATGAAGGTCCA
75971286 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
*
75971351 TAATGAAGGT-CA
66 CAATGAAGGTCCA
* * * **
75971363 GATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 -ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
75971414 TGTTTCTTCG
Statistics
Matches: 335, Mismatches: 24, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
77 3 0.01
78 330 0.99
79 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCCA
Found at i:75973256 original size:23 final size:24
Alignment explanation
Indices: 75973211--75973275 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
75973201 CCATGTAAAT
*
75973211 ATTTTAATATTATATTATGTATAC
1 ATTTTAATATTATATTATATATAC
*
75973235 ATTTT-ATA-TATATCTATATATAT
1 ATTTTAATATTATAT-TATATATAC
*
75973258 ATCTTTTAATATTGTATT
1 A--TTTTAATATTATATT
75973276 TTTATTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 5 0.15
23 11 0.33
24 5 0.15
25 4 0.12
26 4 0.12
27 4 0.12
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
ATTTTAATATTATATTATATATAC
Found at i:75982758 original size:6 final size:6
Alignment explanation
Indices: 75982738--75982863 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
75982728 AAGAAACATT
* * *
75982738 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
75982787 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
75982836 ATCAGGTA A-CAGA ATCAAA AGTCAGA AT
1 ATCA-G-A ATCAGA ATCAGA A-TCAGA AT
75982864 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.06
6 70 0.74
7 15 0.16
8 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:75982782 original size:31 final size:31
Alignment explanation
Indices: 75982747--75982863 Score: 153
Period size: 31 Copynumber: 3.5 Consensus size: 31
75982737 TATCAGAACT
*
75982747 AGAATCAAAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
75982778 AGAATCAAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAG----A--ATCAGGTAAC
*
75982815 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
75982846 AGAATCAAAAGTCAGAAT
1 AGAATCAAAA-TCAGAAT
75982864 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
31 40 0.52
32 7 0.09
35 1 0.01
37 29 0.38
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:75982790 original size:37 final size:37
Alignment explanation
Indices: 75982749--75982863 Score: 152
Period size: 37 Copynumber: 3.2 Consensus size: 37
75982739 TCAGAACTAG
* *
75982749 AATCAAAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
*
75982786 AATCAGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
75982823 AATCAGAATCAG--T----ATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
75982854 AAGTCAGAAT
1 AA-TCAGAAT
75982864 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
31 20 0.27
32 7 0.09
35 1 0.01
37 46 0.62
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.18
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:75983063 original size:26 final size:27
Alignment explanation
Indices: 75983001--75983073 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
75982991 CTCAGTTATT
* *
75983001 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGATAC
75983028 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
* *
75983054 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
75983074 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:75983260 original size:22 final size:22
Alignment explanation
Indices: 75983232--75983296 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
75983222 GCAAATACGT
*
75983232 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
75983254 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
75983276 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
75983297 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:75983439 original size:27 final size:27
Alignment explanation
Indices: 75983383--75983548 Score: 255
Period size: 27 Copynumber: 6.2 Consensus size: 27
75983373 CTCGGGTAAA
*
75983383 TAATTCTACCCTACA-GGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
75983409 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
*
75983436 TAATTCTACCCTACAGGGGTATTGC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
75983462 ATAATTCTACCCTACAGGGGTATTTCAG
1 -TAATTCTACCCTACAGGGGTATTTCAG
* **
75983490 TAATTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
75983517 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
75983544 TAATT
1 TAATT
75983549 TTGTAAATCA
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
26 15 0.12
27 110 0.87
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:75983573 original size:54 final size:54
Alignment explanation
Indices: 75983408--75983577 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 54
75983398 GGGTATTTTA
* ** * ***
75983408 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAAGGGTAAAACG
* ** ****
75983462 ATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAAGGGTAAAACG
* *
75983516 GTAATTCTACCCTACAGGGGTATTTCAGTAATTTTGTA-AAT-CAATGGTAAAACG
1 GTAATTCTACCCTACAGGGGTATTTCAGTAA--TTCTACAATACAAGGGTAAAACG
75983570 GTAATTCT
1 GTAATTCT
75983578 GTAAATCAAG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 95 0.95
55 1 0.01
56 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAAGGGTAAAACG
Found at i:75983616 original size:27 final size:27
Alignment explanation
Indices: 75983598--75983716 Score: 100
Period size: 27 Copynumber: 4.4 Consensus size: 27
75983588 GGTGCTTTGG
*
75983598 TAATTTTACAAGTCGAGGGTATTTCTA
1 TAATTTTACAAGTCGAGGGTATTTCGA
*
75983625 TAATTTTACAGGTCGAGGGTATTTC-A
1 TAATTTTACAAGTCGAGGGTATTTCGA
* * * * *
75983651 GTAATTTCACAAATC-AGGTTTATTTTGG
1 -TAATTTTACAAGTCGAGG-GTATTTCGA
* * *
75983679 TAATTTTACAA-ACTAGGGGTATTTTGA
1 TAATTTTACAAGTCGA-GGGTATTTCGA
75983706 TAATTTTACAA
1 TAATTTTACAA
75983717 ACCAGGGGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
26 5 0.07
27 69 0.91
28 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCGA
Found at i:75983726 original size:81 final size:80
Alignment explanation
Indices: 75983593--75983927 Score: 352
Period size: 81 Copynumber: 4.1 Consensus size: 80
75983583 TCAAGGGTGC
* * *** * *
75983593 TTTGGTAATTTTAC-AAGTCGAGGGTATTTCTATAATTTTACAGGTCGAGGGTATTTCAGTAATT
1 TTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACCAAGGGTATTTTAGTAATT
* * *
75983657 TCACAAATCAGGTTTAT
64 TTACAAACCAGGTGTAT
* * *
75983674 TTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTAATTTGGTAATTT
1 TTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAAGGGTATTTTAGTAATTT
75983739 TACAAACCA-GTGGTAT
65 TACAAACCAGGT-GTAT
* * ** *
75983755 TTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAACCAAGGGTATTTTAGTAATTT
** *
75983820 TGTAAACCA-ATGGTAT
65 TACAAACCAGGT-GTAT
* * * *
75983836 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTT
1 TTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAAGGGTATTTTAGTAATTT
*
75983901 TACAAACCAGGGGTAT
65 TACAAACCAGGTGTAT
75983917 TTTGGTAATTT
1 TTTGGTAATTT
75983928 GGTAAACTAA
Statistics
Matches: 214, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.02
81 206 0.96
82 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
TTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACCAAGGGTATTTTAGTAATTTT
ACAAACCAGGTGTAT
Found at i:75983934 original size:27 final size:27
Alignment explanation
Indices: 75983641--75983927 Score: 358
Period size: 27 Copynumber: 10.6 Consensus size: 27
75983631 TACAGGTCGA
** * *
75983641 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
75983668 GTTTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75983695 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75983722 GGGTAATTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
75983749 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
75983776 AGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
75983803 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75983830 TGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
75983857 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
75983884 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
75983911 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
75983928 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 221 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:75988481 original size:44 final size:44
Alignment explanation
Indices: 75988420--75988941 Score: 695
Period size: 44 Copynumber: 12.1 Consensus size: 44
75988410 AATCCAAGAT
*
75988420 GATTTGGCGTTTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
75988464 GATTTGGCGTCTTTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
75988508 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
75988552 AATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
75988596 GATTTGGCATCT-T-T----G--TAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
75988632 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
75988676 GATTTGGCGTCTCTGTAGTGGTAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * *
75988720 GATTTGGCGTCTCTTTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
75988764 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
75988808 GATTTGGCGTCTCTGTGGTGGC-GAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAACA
* * * *
75988852 GATTTGACGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
** ** *
75988896 GA-TTGGCGTCTCTGTATTGGCAGAGAGCAGATAAAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
75988939 GAT
1 GAT
75988942 CGGTGTTCCT
Statistics
Matches: 422, Mismatches: 45, Indels: 22
0.86 0.09 0.04
Matches are distributed among these distances:
36 31 0.07
37 1 0.00
38 2 0.00
42 2 0.00
43 38 0.09
44 347 0.82
45 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
Found at i:75988623 original size:36 final size:36
Alignment explanation
Indices: 75988576--75988649 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
75988566 GTAGCGGCGG
*
75988576 AGAGCAGATCGAAGATAACAGATTTGGCATCTTTGT
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
*
75988612 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
1 AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
75988648 AG
1 AG
75988650 CGGCGGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (36 bp):
AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
Found at i:75990372 original size:39 final size:39
Alignment explanation
Indices: 75990319--75990397 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
75990309 AAATATGGTT
* *
75990319 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGGGA
75990358 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGGGA
75990397 T
1 T
75990398 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.28, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGGGA
Found at i:75997808 original size:14 final size:14
Alignment explanation
Indices: 75997785--75997821 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
75997775 TGATGTAATG
*
75997785 TAATGAAAATGCAT
1 TAATGCAAATGCAT
75997799 TAATGCAAATGCAT
1 TAATGCAAATGCAT
*
75997813 GAATGCAAA
1 TAATGCAAA
75997822 AAGGTATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (14 bp):
TAATGCAAATGCAT
Found at i:76000298 original size:17 final size:18
Alignment explanation
Indices: 76000276--76000310 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76000266 GATATGATAC
*
76000276 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
76000293 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
76000311 CTGGGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:76000599 original size:22 final size:21
Alignment explanation
Indices: 76000564--76000639 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
76000554 AAAAGGTATC
* *
76000564 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
76000585 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
76000608 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
76000627 TGC-AATCATATCT
1 TACAAATCATATCT
76000640 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:76000656 original size:35 final size:37
Alignment explanation
Indices: 76000593--76000671 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
76000583 ATTACAAAAT
76000593 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
76000629 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
76000664 CATATCAT
1 CATATCAT
76000672 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:76000669 original size:14 final size:15
Alignment explanation
Indices: 76000614--76000669 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
76000604 AGATTGCATA
76000614 TCATATCTAAGATTG
1 TCATATCTAAGATTG
76000629 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
76000647 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
76000664 -CATATC
1 TCATATC
76000670 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:76000679 original size:17 final size:19
Alignment explanation
Indices: 76000600--76000671 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
76000590 AATCATATCT
76000600 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
76000619 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
76000637 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
76000654 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
76000672 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:76000827 original size:21 final size:20
Alignment explanation
Indices: 76000790--76000828 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
76000780 TTGGACTTCG
**
76000790 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
76000810 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
76000829 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:76003713 original size:93 final size:93
Alignment explanation
Indices: 76003599--76003770 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76003589 CGCCCATAAG
* *
76003599 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76003664 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76003692 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76003757 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76003771 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76003767 original size:46 final size:46
Alignment explanation
Indices: 76003592--76003767 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76003582 TGTAACCCGC
* * *
76003592 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76003638 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76003688 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76003731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76003768 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76010339 original size:93 final size:93
Alignment explanation
Indices: 76010225--76010396 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76010215 CGCCCATAAG
* *
76010225 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76010290 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76010318 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76010383 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76010397 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76010393 original size:46 final size:46
Alignment explanation
Indices: 76010218--76010393 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
76010208 TGTAACCCGC
* * *
76010218 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76010264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76010314 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
76010357 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
76010394 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76014046 original size:30 final size:30
Alignment explanation
Indices: 76014002--76014064 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
76013992 TAAACTCATA
* *
76014002 TTTTTAAACCTAAAAAATTGA-AGAACTAAAT
1 TTTTTAAACAT-AAAAATAGAGAG-ACTAAAT
76014033 TTTTTAAA-ATAAAAATAGAGAGACTAAAT
1 TTTTTAAACATAAAAATAGAGAGACTAAAT
76014062 TTT
1 TTT
76014065 AAATGTAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 18 0.62
30 3 0.10
31 8 0.28
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (30 bp):
TTTTTAAACATAAAAATAGAGAGACTAAAT
Found at i:76015589 original size:19 final size:18
Alignment explanation
Indices: 76015562--76015622 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
76015552 GTAAGGATTA
*
76015562 ATTTTATTTTTTTAATATT
1 ATTTAATTTTTTTAAT-TT
*
76015581 ATTTAATTTTTATAATTT
1 ATTTAATTTTTTTAATTT
*
76015599 AATTAATATTTTTATAATTT
1 ATTTAAT-TTTTT-TAATTT
76015619 -TTTA
1 ATTTA
76015623 TAATAGCCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTAATTTTTTTAATTT
Found at i:76015590 original size:18 final size:17
Alignment explanation
Indices: 76015564--76015612 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
76015554 AAGGATTAAT
*
76015564 TTTATTTTTTTAATATTA
1 TTTAATTTTTTAAT-TTA
76015582 TTTAATTTTTATAATTTA
1 TTTAATTTTT-TAATTTA
*
76015600 ATTAATATTTTTA
1 TTTAAT-TTTTTA
76015613 TAATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTTTTAATTTA
Found at i:76018276 original size:92 final size:92
Alignment explanation
Indices: 76018119--76018303 Score: 316
Period size: 92 Copynumber: 2.0 Consensus size: 92
76018109 CTCTTGTGCT
* *
76018119 TATTTTAATGTATGACTTTAGTATGTGTTGGGTTGTTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
* *
76018184 AAATTTATGGTGGTTGGTTGATGAAAG
66 AAATTTATAGTGGCTGGTTGATGAAAG
*
76018211 TATTTTAATGTATGACTTGATTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
1 TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
*
76018276 AAATTTATAGTGGCTGGTTGATGGAAG
66 AAATTTATAGTGGCTGGTTGATGAAAG
76018303 T
1 T
76018304 GTTGTTTGGT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.27, C:0.04, G:0.26, T:0.43
Consensus pattern (92 bp):
TATTTTAATGTATGACTTGAGTATGTGTTGGGTTGCTATTTGCATGAAAATGATGATTGGTAACT
AAATTTATAGTGGCTGGTTGATGAAAG
Found at i:76020385 original size:30 final size:30
Alignment explanation
Indices: 76020342--76020408 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
76020332 TAACAAGTGA
* * *
76020342 CACACGGCCGTGTAGCCAGGCCATGTGTGT
1 CACACGACAGTGTAGCCAGGCCATATGTGT
76020372 CACACGACAGTGTAGCCAGGCCATATGTGT
1 CACACGACAGTGTAGCCAGGCCATATGTGT
*
76020402 AACACGA
1 CACACGA
76020409 TCGTGTGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (30 bp):
CACACGACAGTGTAGCCAGGCCATATGTGT
Found at i:76022679 original size:10 final size:10
Alignment explanation
Indices: 76022664--76022723 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
76022654 TAATTCTAGG
76022664 ATTTAT-TTT
1 ATTTATCTTT
76022673 CATTTATCTTT
1 -ATTTATCTTT
76022684 ATTTATCTTT
1 ATTTATCTTT
*
76022694 AATTATCTTT
1 ATTTATCTTT
76022704 ATTTAT-TTGT
1 ATTTATCTT-T
76022714 ATTTATCTTT
1 ATTTATCTTT
76022724 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:76029153 original size:18 final size:15
Alignment explanation
Indices: 76029126--76029166 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
76029116 AACCCAATTT
76029126 TTATTT-TTATTTTA
1 TTATTTATTATTTTA
*
76029140 -T-CTTATTATTTTA
1 TTATTTATTATTTTA
76029153 TTATTTATTATTTT
1 TTATTTATTATTTT
76029167 CAGATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.09
13 9 0.41
14 1 0.05
15 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTATTTTA
Found at i:76030775 original size:10 final size:10
Alignment explanation
Indices: 76030757--76030801 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
76030747 AATTCTAGGA
76030757 TTTATTTATC
1 TTTATTTATC
*
76030767 TTTAATTATC
1 TTTATTTATC
76030777 TTTATTTAT-
1 TTTATTTATC
76030786 TTGTATTTATC
1 TT-TATTTATC
76030797 ATTTA
1 -TTTA
76030802 GAATGTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.07
10 24 0.80
11 2 0.07
12 2 0.07
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATTTATC
Found at i:76039230 original size:19 final size:18
Alignment explanation
Indices: 76039206--76039249 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
76039196 TTTATATTTT
* *
76039206 TAAAAAATATTAATTACTA
1 TAAAAAATATT-AGTACAA
*
76039225 TAAAAATTATTAGTACAA
1 TAAAAAATATTAGTACAA
76039243 TAAAAAA
1 TAAAAAA
76039250 ATTCTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAAATATTAGTACAA
Found at i:76043825 original size:10 final size:9
Alignment explanation
Indices: 76043799--76043864 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
76043789 GAGAACATGT
76043799 AATAAA-AA
1 AATAAATAA
76043807 AAT-AATAA
1 AATAAATAA
76043815 AATAAATTAA
1 AATAAA-TAA
*
76043825 AATTAAT-A
1 AATAAATAA
*
76043833 AATAACTAA
1 AATAAATAA
76043842 AACTAAA-AA
1 AA-TAAATAA
*
76043851 AATTAATTAA
1 AA-TAAATAA
76043861 AATA
1 AATA
76043865 TTTAACAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
7 2 0.04
8 14 0.30
9 15 0.33
10 15 0.33
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAAATAA
Found at i:76043831 original size:19 final size:18
Alignment explanation
Indices: 76043804--76043863 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
76043794 CATGTAATAA
*
76043804 AAAAATAATAAAATAAATT
1 AAAATTAATAAAAT-AATT
*
76043823 AAAATTAAT-AAATAACT
1 AAAATTAATAAAATAATT
* *
76043840 AAAACTAAAAAAATTAATT
1 AAAATTAATAAAA-TAATT
76043859 AAAAT
1 AAAAT
76043864 ATTTAACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 10 0.30
18 7 0.21
19 16 0.48
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTAATAAAATAATT
Found at i:76044642 original size:30 final size:30
Alignment explanation
Indices: 76044599--76044671 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
76044589 AGATTTTATT
*
76044599 ATTATTAATTATTAGTATGGTTTTATATTAA
1 ATTATT-ATTATTAGTATGGTTTCATATTAA
*
76044630 ATTATTATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTAGTATGGTTTCATATTAA
* *
76044660 GTTATAATTATT
1 ATTATTATTATT
76044672 TAATTGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 32 0.84
31 6 0.16
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.56
Consensus pattern (30 bp):
ATTATTATTATTAGTATGGTTTCATATTAA
Found at i:76045179 original size:22 final size:21
Alignment explanation
Indices: 76045141--76045181 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
76045131 TAAACAAAGT
**
76045141 AAATAAAAGAATGAAAGAATG
1 AAATAAAAGAAACAAAGAATG
76045162 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
76045182 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:76046142 original size:21 final size:21
Alignment explanation
Indices: 76046118--76046177 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
76046108 CGTATTTTAA
76046118 GCACCTCGTGTGTCGTATCAG
1 GCACCTCGTGTGTCGTATCAG
* *
76046139 GCACCTCGTGTGTCGTTTTAG
1 GCACCTCGTGTGTCGTATCAG
* **
76046160 GCACTTTATGTGTCGTAT
1 GCACCTCGTGTGTCGTAT
76046178 TCTGATCAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.27, T:0.37
Consensus pattern (21 bp):
GCACCTCGTGTGTCGTATCAG
Found at i:76047585 original size:26 final size:26
Alignment explanation
Indices: 76047556--76047608 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
76047546 TAAACACAAG
76047556 AACAATCAATATTAATTGAAATTATA
1 AACAATCAATATTAATTGAAATTATA
76047582 AACAATCAATATTAATTGAAATTATA
1 AACAATCAATATTAATTGAAATTATA
76047608 A
1 A
76047609 CTTAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
AACAATCAATATTAATTGAAATTATA
Found at i:76047848 original size:40 final size:36
Alignment explanation
Indices: 76047752--76047857 Score: 92
Period size: 35 Copynumber: 2.9 Consensus size: 36
76047742 TAGTATTGAA
76047752 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
* * * *
76047788 T-TGCA-CCCAG-TGCTATTTGGATATACTGATGATAATAAT
1 TGTG-AGCCCAGCT-CTAGTTGGATAAAC-CA--ACAAT-AT
*
76047827 TGTGAGCCCAGCTCTAGTTGGATGAACCAAC
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAAC
76047858 GGTGTTTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 17
0.67 0.12 0.22
Matches are distributed among these distances:
34 1 0.02
35 19 0.37
36 3 0.06
37 1 0.02
38 4 0.08
39 5 0.10
40 18 0.35
41 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAT
Found at i:76051585 original size:46 final size:44
Alignment explanation
Indices: 76051497--76051617 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
76051487 ACATGTTCGT
* *
76051497 GCCGATGCCATGTCCCAGACATGGTATTACATTGACATATCTC-ACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGACACATCTCGA-A
* *
76051543 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGAC--ACATCTCGAA
*
76051589 GCCGATGCATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
76051618 CTAGCTCTCG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.16
45 14 0.21
46 41 0.61
47 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGACACATCTCGAA
Found at i:76052158 original size:16 final size:17
Alignment explanation
Indices: 76052127--76052159 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
76052117 TTCATAAGTA
76052127 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
76052144 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
76052160 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:76052509 original size:46 final size:47
Alignment explanation
Indices: 76052447--76052674 Score: 304
Period size: 46 Copynumber: 5.0 Consensus size: 47
76052437 TTTGACATGA
* * * * * *
76052447 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** *
76052493 TGCCATGGTATATTTCAACCATGGTCTTATTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
76052539 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
76052585 TGCCATGGTATCTTTCAACCATGGTCTTACATA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
76052631 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
76052675 AGAGCACACT
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:76057357 original size:28 final size:28
Alignment explanation
Indices: 76057325--76057380 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76057315 AAAACAAAGG
76057325 GTGGTTTTTTTTATAACCCGAAAGAGCA
1 GTGGTTTTTTTTATAACCCGAAAGAGCA
76057353 GTGGTTTTTTTTATAACCCGAAAGAGCA
1 GTGGTTTTTTTTATAACCCGAAAGAGCA
76057381 AACTGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (28 bp):
GTGGTTTTTTTTATAACCCGAAAGAGCA
Found at i:76058741 original size:24 final size:24
Alignment explanation
Indices: 76058714--76058766 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
76058704 AAAGGAGATC
76058714 TTACTCTTATAAGATATAATGGTT
1 TTACTCTTATAAGATATAATGGTT
76058738 TTACTCTTATAAGATATAATGGTT
1 TTACTCTTATAAGATATAATGGTT
76058762 TTACT
1 TTACT
76058767 TCCAAACGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (24 bp):
TTACTCTTATAAGATATAATGGTT
Found at i:76060380 original size:12 final size:12
Alignment explanation
Indices: 76060363--76060387 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76060353 TAGGTTTCCA
76060363 AAAATGGAAATG
1 AAAATGGAAATG
76060375 AAAATGGAAATG
1 AAAATGGAAATG
76060387 A
1 A
76060388 TCCATTTGCA
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:76064512 original size:23 final size:24
Alignment explanation
Indices: 76064468--76064512 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
76064458 ATATGAATTC
*
76064468 AATATGCTATTGAATGATAATTGA
1 AATATGCTATTGAATCATAATTGA
76064492 AATA-GCTAATTGAATCA-AATT
1 AATATGCT-ATTGAATCATAATT
76064513 ATGACTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (24 bp):
AATATGCTATTGAATCATAATTGA
Found at i:76066665 original size:46 final size:46
Alignment explanation
Indices: 76066438--76066665 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
76066428 TTTGACATGA
* * * * * * *
76066438 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* ** * *
76066484 TGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
76066530 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
76066576 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
76066622 TGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
76066666 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:76068623 original size:21 final size:21
Alignment explanation
Indices: 76068593--76068655 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
76068583 ACATCTTTGA
* *
76068593 TTTTCCCTTTTTTTTTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
76068614 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
*
76068635 TTTTCTCTTTTTCTCTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
76068656 CTTCCCCTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTCTTTTTCTTTCTTTC
Found at i:76068626 original size:17 final size:17
Alignment explanation
Indices: 76068604--76068654 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 17
76068594 TTTCCCTTTT
76068604 TTTTTCTTTCTTTTCTC
1 TTTTTCTTTCTTTTCTC
76068621 TTTTTCTTTC-TTTCT-
1 TTTTTCTTTCTTTTCTC
* *
76068636 TTTCTCTTT-TTCTCTC
1 TTTTTCTTTCTTTTCTC
76068652 TTT
1 TTT
76068655 CCTTCCCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 12 0.40
16 8 0.27
17 10 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTCTTTTCTC
Found at i:76068727 original size:11 final size:11
Alignment explanation
Indices: 76068711--76068735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
76068701 CCTTTATTTC
76068711 TTTTTTCCTTT
1 TTTTTTCCTTT
76068722 TTTTTTCCTTT
1 TTTTTTCCTTT
76068733 TTT
1 TTT
76068736 ATATATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:76072400 original size:3 final size:3
Alignment explanation
Indices: 76072392--76072420 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
76072382 AATCAACACC
76072392 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
76072421 TGTACAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:76076962 original size:23 final size:23
Alignment explanation
Indices: 76076918--76076962 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76076908 TCCAGACTTT
*
76076918 TTGATTTCTTTTGATTTTTGTTG
1 TTGATTTCTTTTGATTTATGTTG
*
76076941 TTGACTTTGTTTTGA-TTATGTT
1 TTGA-TTTCTTTTGATTTATGTT
76076963 TTATGCGACG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.18, T:0.67
Consensus pattern (23 bp):
TTGATTTCTTTTGATTTATGTTG
Found at i:76077399 original size:44 final size:44
Alignment explanation
Indices: 76077336--76077419 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
76077326 GTTCTTTGTG
* *
76077336 ATGAATTTAAAGGCGAGAGATCTTATCTTTAGATACAAAATCAA
1 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAATCAA
76077380 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAA
1 ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAA
76077420 GTAGTGTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (44 bp):
ATGAAATTAAAAGCGAGAGATCTTATCTTTAGATACAAAATCAA
Found at i:76079978 original size:10 final size:10
Alignment explanation
Indices: 76079963--76080000 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
76079953 AATAAAAGTT
76079963 AAAGTTGAAC
1 AAAGTTGAAC
76079973 AAAGTTGAAC
1 AAAGTTGAAC
*
76079983 AAAGTTGAGC
1 AAAGTTGAAC
*
76079993 AAAATTGA
1 AAAGTTGA
76080001 TAATATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (10 bp):
AAAGTTGAAC
Found at i:76085126 original size:20 final size:20
Alignment explanation
Indices: 76085103--76085167 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
76085093 TAAATACTAG
76085103 TTATTAATATTTATTAGTAT
1 TTATTAATATTTATTAGTAT
* *
76085123 TTATTTATAATTAATTA-TAT
1 TTATTAAT-ATTTATTAGTAT
* * *
76085143 TTAAATAA-AATTATTTGTAT
1 TT-ATTAATATTTATTAGTAT
76085163 TTATT
1 TTATT
76085168 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
19 7 0.21
20 17 0.50
21 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTATTAATATTTATTAGTAT
Found at i:76086815 original size:57 final size:57
Alignment explanation
Indices: 76086727--76086897 Score: 229
Period size: 57 Copynumber: 3.0 Consensus size: 57
76086717 CCTTAAAATT
* * *
76086727 CAAAATGTGGTTGCAAAATTTGACCTTTATTTTGTTTTTCACCATTATAAGCTTATG
1 CAAAATGTGATTGCAAATTTTGACCTTTATTTTGTTTTTCACCTTTATAAGCTTATG
*
76086784 CAAAATGTGATTGCGAAATTTTG-CCTTTATTTTGTTTTTCACCTTTATAAGCTTATT
1 CAAAATGTGATTGC-AAATTTTGACCTTTATTTTGTTTTTCACCTTTATAAGCTTATG
* * * *
76086841 CAAAA-ATAACTGCAAATTTTGACCTTTATTTTGGTTTTTTTACCTTTATAAGCTTAT
1 CAAAATGTGATTGCAAATTTTGACCTTTATTTT-G-TTTTTCACCTTTATAAGCTTAT
76086898 AATTGGGCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
55 8 0.08
56 15 0.15
57 51 0.50
58 28 0.27
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (57 bp):
CAAAATGTGATTGCAAATTTTGACCTTTATTTTGTTTTTCACCTTTATAAGCTTATG
Found at i:76089185 original size:16 final size:15
Alignment explanation
Indices: 76089161--76089205 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
76089151 AAGTTTATGA
76089161 AATTAAAAATTAAAAT
1 AATT-AAAATTAAAAT
* *
76089177 TATGTAAAATGAAAAT
1 AAT-TAAAATTAAAAT
76089193 AATTAAAATTAAA
1 AATTAAAATTAAA
76089206 GGAAAATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 9 0.38
16 14 0.58
17 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (15 bp):
AATTAAAATTAAAAT
Found at i:76089436 original size:26 final size:26
Alignment explanation
Indices: 76089407--76089459 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
76089397 ACCCTATAAC
76089407 TTAGTGCCTAATATTTAGCTTACTAA
1 TTAGTGCCTAATATTTAGCTTACTAA
76089433 TTAGTGCCTAATATTTAGCTTACTAA
1 TTAGTGCCTAATATTTAGCTTACTAA
76089459 T
1 T
76089460 AGCATTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (26 bp):
TTAGTGCCTAATATTTAGCTTACTAA
Found at i:76096498 original size:13 final size:14
Alignment explanation
Indices: 76096482--76096523 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
76096472 TTTTAATTTT
76096482 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
76096495 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
76096510 ATTTTAAATAATAT
1 ATTTT-AATAATAT
76096524 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:76096508 original size:16 final size:16
Alignment explanation
Indices: 76096486--76096522 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
76096476 AATTTTATTT
76096486 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
76096503 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
76096518 TAATA
1 TAATA
76096523 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:76098006 original size:13 final size:13
Alignment explanation
Indices: 76097987--76098025 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
76097977 ATTATATTTT
76097987 TAAAAAAAT-ATA
1 TAAAAAAATAATA
76097999 TAAAAAAATAATA
1 TAAAAAAATAATA
*
76098012 TAAAAAATTAATA
1 TAAAAAAATAATA
76098025 T
1 T
76098026 GAACAGATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAAAATAATA
Found at i:76103579 original size:13 final size:14
Alignment explanation
Indices: 76103563--76103598 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
76103553 CAATCTCATA
76103563 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
76103576 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
76103589 TCTC-ATTTCA
1 TCTCAATTTCA
76103599 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:76103588 original size:18 final size:19
Alignment explanation
Indices: 76103550--76103590 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
76103540 TGGTTCATGT
76103550 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
76103569 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
76103587 TTTC
1 TTTC
76103591 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:76103749 original size:25 final size:23
Alignment explanation
Indices: 76103695--76103752 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
76103685 ATGGATTCCT
*
76103695 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAAAATATCCAA
76103718 CCCAAACACACCAAAATATCCAA
1 CCCAAACACACCAAAATATCCAA
*
76103741 CCCAAAAACACC
1 CCCAAACACACC
76103753 CGGAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.50, C:0.41, G:0.02, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAAAATATCCAA
Found at i:76104274 original size:15 final size:15
Alignment explanation
Indices: 76104254--76104300 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
76104244 TAATATATAT
76104254 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
76104269 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
76104284 TTCAATCAATATAAA
1 TTCAATCAATATAAA
76104299 TT
1 TT
76104301 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:76105442 original size:9 final size:9
Alignment explanation
Indices: 76105409--76105447 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
76105399 AACCTTGATT
76105409 TTTCCTTT-
1 TTTCCTTTC
76105417 TTTCCCTTTC
1 TTT-CCTTTC
76105427 TTT-CTTTC
1 TTTCCTTTC
76105435 TTTCCTTTC
1 TTTCCTTTC
76105444 TTTC
1 TTTC
76105448 TCCCCTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 11 0.39
9 14 0.50
10 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTCCTTTC
Found at i:76105524 original size:13 final size:13
Alignment explanation
Indices: 76105506--76105537 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
76105496 TTTTATTTCA
76105506 TTTATTTCTTTAT
1 TTTATTTCTTTAT
76105519 TTTATTTCTTTAT
1 TTTATTTCTTTAT
76105532 TTTATT
1 TTTATT
76105538 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:76105742 original size:13 final size:11
Alignment explanation
Indices: 76105712--76105739 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
76105702 AAGTAAATAC
76105712 ACATGTATAAT
1 ACATGTATAAT
76105723 ACATGTATAAT
1 ACATGTATAAT
76105734 ACATGT
1 ACATGT
76105740 GTACCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (11 bp):
ACATGTATAAT
Found at i:76123473 original size:43 final size:42
Alignment explanation
Indices: 76123361--76123494 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 42
76123351 ACTGATGGAA
* *
76123361 TATACTGGCACACATAGTGCATTATC-GGATAAACCGAAGAAA
1 TATACTGGCACACATAGTGCATTATCAGG-TAAGCCGAAGAAT
* * * * *
76123403 TATATTGGCATACATAATGCATCATCAGGTAAGCCAAAGCAAT
1 TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAG-AAT
* * **
76123446 TATACTGGCACAGACAGTGCATTATCAGACAAGCCGAAGTAAT
1 TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAG-AAT
76123489 TATACT
1 TATACT
76123495 AACATACACA
Statistics
Matches: 73, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
42 30 0.41
43 43 0.59
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
TATACTGGCACACATAGTGCATTATCAGGTAAGCCGAAGAAT
Found at i:76126781 original size:15 final size:15
Alignment explanation
Indices: 76126731--76126781 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 15
76126721 ATTCAATATT
76126731 AATAT-TTAATAATA
1 AATATATTAATAATA
*
76126745 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
76126764 AATATATTAATAATA
1 AATATATTAATAATA
76126779 AAT
1 AAT
76126782 GTTTTGTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
16 1 0.03
17 6 0.20
19 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:76129643 original size:28 final size:28
Alignment explanation
Indices: 76129580--76129757 Score: 243
Period size: 28 Copynumber: 6.4 Consensus size: 28
76129570 ATAATAAGTC
* *
76129580 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76129607 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76129635 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76129663 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76129691 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
76129718 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
76129747 CGCACACTTAG
1 CGCACACTTAG
76129758 CGCCAATCTC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
27 44 0.32
28 80 0.58
29 14 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:76137753 original size:28 final size:28
Alignment explanation
Indices: 76137690--76137867 Score: 243
Period size: 28 Copynumber: 6.4 Consensus size: 28
76137680 ATAATAAGTC
* *
76137690 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76137717 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76137745 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76137773 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
76137801 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
76137828 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
76137857 CGCACACTTAG
1 CGCACACTTAG
76137868 CGCCAATCTC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
27 44 0.32
28 80 0.58
29 14 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:76140656 original size:14 final size:16
Alignment explanation
Indices: 76140637--76140675 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
76140627 AAGAAAATGA
*
76140637 TGATATATGACA-A-G
1 TGATATATGAAATATG
76140651 TGATATATGAAATATG
1 TGATATATGAAATATG
76140667 TGATATATG
1 TGATATATG
76140676 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (16 bp):
TGATATATGAAATATG
Found at i:76141099 original size:51 final size:49
Alignment explanation
Indices: 76140979--76141113 Score: 177
Period size: 51 Copynumber: 2.8 Consensus size: 49
76140969 TATTGTGAGG
* * * *
76140979 TCACGTGTGTAGTACTAAGTGCAGGCTAC---GTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
* *
76141025 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGA
76141076 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
76141114 TAGATAGCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 27 0.36
49 10 0.13
50 1 0.01
51 38 0.50
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
Found at i:76142724 original size:31 final size:32
Alignment explanation
Indices: 76142683--76142746 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
76142673 TCTCAGCTTA
76142683 AAATCTATTAATTTAACAC-CTAAAACTTTAAG
1 AAATCTATTAATTTAA-ACTCTAAAACTTTAAG
76142715 AAAT-TATTAATTTAAACTTTCTAAAACTTTAA
1 AAATCTATTAATTTAAAC--TCTAAAACTTTAA
76142747 CAGTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 2 0.07
31 11 0.38
32 4 0.14
33 12 0.41
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATCTATTAATTTAAACTCTAAAACTTTAAG
Found at i:76143833 original size:32 final size:31
Alignment explanation
Indices: 76143791--76143869 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
76143781 CAAGTATACT
* * *
76143791 TTTTTTGACAATTTTAAGTACCAACTATGTA
1 TTTTTGGACAAGTTTAAGTACCAACTAGGTA
* *
76143822 CTTTTTGGACAAGTTCAAGTACCAGCTAGGTA
1 -TTTTTGGACAAGTTTAAGTACCAACTAGGTA
*
76143854 TTTTTGTACAAGTTTA
1 TTTTTGGACAAGTTTA
76143870 GGGGGCAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
TTTTTGGACAAGTTTAAGTACCAACTAGGTA
Found at i:76146805 original size:13 final size:13
Alignment explanation
Indices: 76146787--76146811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76146777 TTAGAGCAGC
76146787 TGGTGAATTTATT
1 TGGTGAATTTATT
76146800 TGGTGAATTTAT
1 TGGTGAATTTAT
76146812 CTGAGATGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TGGTGAATTTATT
Found at i:76147191 original size:7 final size:7
Alignment explanation
Indices: 76147179--76147204 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
76147169 TAGTCGATTC
76147179 GTATTTA
1 GTATTTA
76147186 GTATTTA
1 GTATTTA
76147193 GTATTTA
1 GTATTTA
76147200 GTATT
1 GTATT
76147205 GTGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:76147614 original size:24 final size:24
Alignment explanation
Indices: 76147582--76147634 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
76147572 CGGAATACAT
76147582 GCCATGGTTTAGGATTCATGGCAA
1 GCCATGGTTTAGGATTCATGGCAA
76147606 GCCATGGTTTAGGATTCATGGCAA
1 GCCATGGTTTAGGATTCATGGCAA
76147630 GCCAT
1 GCCAT
76147635 ATTTACTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (24 bp):
GCCATGGTTTAGGATTCATGGCAA
Found at i:76148420 original size:54 final size:55
Alignment explanation
Indices: 76148338--76148463 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
76148328 TATTGTTTCA
* *
76148338 TTTAATAAAATAAAAATTGTTTTGAATAAAGT-A-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAAATTCTTTTAAATAAAGTAATATTGTGAA--TACTTTTATATT
* * * * *
76148392 TTTAATAAAATAGAATTTCTTTTAAATAAGGTAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAAATTCTTTTAAATAAAGTAATATTGTGAATACTTTTATATT
*
76148447 TTTAATAAAATATAAAT
1 TTTAATAAAATAAAAAT
76148464 AATGCAACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
54 27 0.45
55 27 0.45
56 4 0.07
57 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (55 bp):
TTTAATAAAATAAAAATTCTTTTAAATAAAGTAATATTGTGAATACTTTTATATT
Found at i:76151043 original size:126 final size:126
Alignment explanation
Indices: 76150702--76151203 Score: 767
Period size: 126 Copynumber: 4.0 Consensus size: 126
76150692 GCCAAATAGG
* * *
76150702 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTATTTTTGATGATAGTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
76150767 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTT-TCCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCT-CAAAATTATTTTTTCAGA
* * * *
76150828 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAG-ATTTTTCAGTACTTTTGCTGATAGTGCATTC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
*
76150892 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
76150953 AACAACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATTC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
* * *
76151018 TGCTTGAAGCGTTTTTGATACTATTTGTTCATAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* ** *
76151079 AACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGGCAATGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
* * * * *
76151144 TACTTGAAGCGTTTTCGACACTATTTGTTTAAAAACATCTTCTTAAAATTA-TTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
76151204 TACGTCTTCT
Statistics
Matches: 345, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
125 123 0.36
126 222 0.64
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:76151201 original size:251 final size:251
Alignment explanation
Indices: 76150706--76151203 Score: 800
Period size: 251 Copynumber: 2.0 Consensus size: 251
76150696 AATAGGAACT
* * *
76150706 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTATTTTTGATGATAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGATGATAGTGCATCCTGCT
76150771 TGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTCCAAAATTATTTTTTCAGAAACTACTG
66 TGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTCCAAAATTATTTTTTCAGAAACTACTG
* * * * * * *
76150836 TAGAAAAAGAGCGTCCATGTGGGAGATTTTTCAGTACTTTTGCTGATAGTGCATTCTGCTTGAAG
131 TAGAAAAAAAACGTCCACGTGGGAGATTTTTCAGTACTTTTGCTGACAATGCATCCTACTTGAAG
* *
76150901 CGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGAAACA
196 CGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTCAGAAACA
* *
76150957 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATTCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGATGATAGTGCATCCTGCT
* * *
76151022 TGAAGCGTTTTTGATACTATTTGTTCATAAACATCTTTTCAAAATTATTTTTTCAGAAACTACTG
66 TGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTCCAAAATTATTTTTTCAGAAACTACTG
* *
76151087 TAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGGCAATGCATCCTACTTGAA
131 TAGAAAAAAAACGTCCACGTGGGAG-ATTTTTCAGTACTTTTGCTGACAATGCATCCTACTTGAA
*
76151152 GCGTTTTCGACACTATTTGTTTAAAAACATCTTCTTAAAATTA-TTTTTCAGA
195 GCGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTCAGA
76151204 TACGTCTTCT
Statistics
Matches: 226, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
251 153 0.68
252 73 0.32
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (251 bp):
ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGATGATAGTGCATCCTGCT
TGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTCCAAAATTATTTTTTCAGAAACTACTG
TAGAAAAAAAACGTCCACGTGGGAGATTTTTCAGTACTTTTGCTGACAATGCATCCTACTTGAAG
CGTTTTCGACACTATTTGTTTAAAAACATCTTCTCAAAATTATTTTTTCAGAAACA
Found at i:76151627 original size:27 final size:28
Alignment explanation
Indices: 76151570--76151630 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
76151560 CCCTTTTTAG
76151570 TAAATAATAAAAAAATTAACTCATTTCTA
1 TAAATAATAAAAAAA-TAACTCATTTCTA
* *
76151599 TAAATATTAAAAAAA-AACT-TTTTCTTA
1 TAAATAATAAAAAAATAACTCATTTC-TA
76151626 TAAAT
1 TAAAT
76151631 TACACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 11 0.38
29 14 0.48
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATAATAAAAAAATAACTCATTTCTA
Found at i:76154232 original size:18 final size:18
Alignment explanation
Indices: 76154209--76154251 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
76154199 GTTCAAGGTG
76154209 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
76154227 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
76154245 TAATTAA
1 TAATTAA
76154252 AAATCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:76157203 original size:19 final size:19
Alignment explanation
Indices: 76157138--76157205 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 19
76157128 AATTGATCGG
* *
76157138 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
76157156 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
76157175 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
76157193 TTATTCAGTAACA
1 TTATTCAGTAACA
76157206 GTTGATCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 28 0.68
19 13 0.32
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:76157332 original size:6 final size:6
Alignment explanation
Indices: 76157321--76157369 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
76157311 CCGAAGCTGG
76157321 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
76157369 A
1 A
76157370 CGGTACACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:76157647 original size:19 final size:20
Alignment explanation
Indices: 76157600--76157647 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
76157590 CACTTTCCAA
*
76157600 TTTTCAATTAATTCATATTT
1 TTTTCAATTAACTCATATTT
*
76157620 TAATT-AATTAACT-ATATTT
1 T-TTTCAATTAACTCATATTT
76157639 TTTTCAATT
1 TTTTCAATT
76157648 CAATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAATTAACTCATATTT
Found at i:76158695 original size:16 final size:15
Alignment explanation
Indices: 76158686--76158720 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
76158676 TATTTATTAT
76158686 ATAATATATTATTTA
1 ATAATATATTATTTA
*
76158701 ATAATATACTTATATA
1 ATAATATA-TTATTTA
76158717 ATAA
1 ATAA
76158721 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:76166270 original size:53 final size:54
Alignment explanation
Indices: 76166087--76166297 Score: 268
Period size: 55 Copynumber: 3.9 Consensus size: 54
76166077 ATTAGGGTTT
* *
76166087 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCATAAGGC
* * *
76166142 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * *
76166197 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
*
76166250 AAGGATACCATGTAAGACCATGTCC-AGACATGGCAATGGTAAGTTTCA
1 AAGGATACCATGTAAGACCATG-CCAAGACATGGCATTGGTAAGTTTCA
76166298 AAAGAATACC
Statistics
Matches: 135, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 16 0.12
55 68 0.50
56 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:76166293 original size:108 final size:110
Alignment explanation
Indices: 76166094--76166296 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 110
76166084 TTTAAGGATA
*
76166094 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
76166159 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
76166204 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
76166266 ACCATGTCCAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
76166297 AAAAGAATAC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 3 0.03
108 50 0.58
109 7 0.08
110 26 0.30
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:76166555 original size:16 final size:16
Alignment explanation
Indices: 76166534--76166564 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76166524 ATAAATTTGA
76166534 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
76166550 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
76166565 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:76168442 original size:15 final size:15
Alignment explanation
Indices: 76168393--76168444 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
76168383 CAATTCAAAT
*
76168393 AATCAATATATATTC
1 AATCAATATAAATTC
*
76168408 AATATATATATACCAATTC
1 AAT-CA-ATATA--AATTC
76168427 AATCAATATAAATTC
1 AATCAATATAAATTC
76168442 AAT
1 AAT
76168445 AAATTTATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 10 0.33
18 1 0.03
19 7 0.23
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:76169244 original size:15 final size:12
Alignment explanation
Indices: 76169213--76169242 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
76169203 TTAATTGTTT
76169213 TATATTATATAA
1 TATATTATATAA
76169225 TATATTATGATAA
1 TATATTAT-ATAA
76169238 TATAT
1 TATAT
76169243 ATACTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TATATTATATAA
Found at i:76175445 original size:49 final size:48
Alignment explanation
Indices: 76175289--76175536 Score: 190
Period size: 49 Copynumber: 5.2 Consensus size: 48
76175279 TATGGAAGCT
* * *
76175289 AGTGTAAGACATGTCTGGGACAT-GCA-TCGACCTCGAGATATGCA-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGA-CT-GATATATG-AGAGCC
* * * * * * *
76175337 AGTATAAGGCTTGTCTGGGACATGGCATCGG-CT--TGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGACTGAT-ATATGAGAGCC
76175381 AGTGTAAGACCTGTCTGGGACATGGCATTGAGACTGATATATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTG-GACTGATATATGAGAGCC
* * * **
76175430 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGGT
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGACT-GATATATGAGAGCC
* * * * * *
76175479 AGTGTAAGACCTGTCTGGGACATGACA-TCGACTTAGATGTGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGACTGATATATGAGAGCC
76175526 AGTGTAAGACC
1 AGTGTAAGACC
76175537 ATGTTTAGAA
Statistics
Matches: 157, Mismatches: 32, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
44 28 0.18
45 1 0.01
46 5 0.03
47 21 0.13
48 29 0.18
49 72 0.46
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGGACTGATATATGAGAGCC
Found at i:76175451 original size:93 final size:92
Alignment explanation
Indices: 76175289--76175461 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 92
76175279 TATGGAAGCT
* * *
76175289 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATGCAAGCCAGTATAAGGCTTGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGAACTCGAGATATGCAAGCCAGTATAAGACCTGTCTG
76175354 GGACATGGCATCGGCTTGACATGTGTC
66 GGACATGGCATCGGCTTGACATGTGTC
* * * *
76175381 AGTGTAAGACCTGTCTGGGACATGGCATTGAGACT-GATATATG-AGAGCCAGTGTAAGACCTGT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGA-ACTCGAGATATGCA-AGCCAGTATAAGACCTGT
76175444 CTGGGACATGGCATCGGC
63 CTGGGACATGGCATCGGC
76175462 CTCGATATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
92 23 0.32
93 46 0.65
94 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGAACTCGAGATATGCAAGCCAGTATAAGACCTGTCTG
GGACATGGCATCGGCTTGACATGTGTC
Found at i:76179255 original size:11 final size:11
Alignment explanation
Indices: 76179239--76179263 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
76179229 TTCAATTCAA
76179239 ATAATCAATAT
1 ATAATCAATAT
76179250 ATAATCAATAT
1 ATAATCAATAT
76179261 ATA
1 ATA
76179264 TATACACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:76196832 original size:18 final size:17
Alignment explanation
Indices: 76196801--76196858 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
76196791 CTTTTACCCC
*
76196801 TATTCTCTTCATTTATTT
1 TATT-TCTTTATTTATTT
76196819 TACTTTCTTTATTTTATTT
1 TA-TTTCTTTA-TTTATTT
*
76196838 TATTTCTTTATTCA-TT
1 TATTTCTTTATTTATTT
76196854 TATTT
1 TATTT
76196859 ATTTTTGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 7 0.19
17 3 0.08
18 15 0.42
19 11 0.31
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTCTTTATTTATTT
Found at i:76201022 original size:46 final size:46
Alignment explanation
Indices: 76200962--76201281 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
76200952 TTTGACATGA
* * * ** * *
76200962 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
76201008 TGCCATGGTATCTTTCAACCATGATCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
76201054 TGCCATGGTATCTTTCAACCATGATCTTAGACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
76201100 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
76201146 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
76201192 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
76201238 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
76201282 AGAGCACACT
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 252 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:76203437 original size:11 final size:11
Alignment explanation
Indices: 76203421--76203448 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
76203411 ACTAAATAAT
76203421 TAATAATAAAA
1 TAATAATAAAA
76203432 TAATAATAAAA
1 TAATAATAAAA
76203443 TAATAA
1 TAATAA
76203449 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:76203475 original size:20 final size:21
Alignment explanation
Indices: 76203422--76203497 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
76203412 CTAAATAATT
*
76203422 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
76203441 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
76203462 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
76203483 TAATCATAAAATATC
1 -AATAATAAAATATC
76203498 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:76204702 original size:6 final size:6
Alignment explanation
Indices: 76204693--76204727 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
76204683 ACATACACAG
*
76204693 TCAGAT TCAGAT TCAGAT TCAGAC TCAGAT TCAGA
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TCAGA
76204728 CTTAAGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (6 bp):
TCAGAT
Found at i:76207398 original size:28 final size:28
Alignment explanation
Indices: 76207345--76207451 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 28
76207335 CACTTTGTGC
76207345 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
76207374 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
76207402 GATACTGGTGTGTTTTGGACGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
*
76207427 TA--CTGGTGTGTTTTGGACGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
76207452 CTGGTGTGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 18 0.26
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 27 0.39
29 18 0.26
ACGTcount: A:0.19, C:0.06, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:76207460 original size:25 final size:23
Alignment explanation
Indices: 76207403--76207465 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
76207393 GGATTATATG
76207403 ATACTGGTGTGTTTTGGACGATT
1 ATACTGGTGTGTTTTGGACGATT
76207426 ATACTGGTGTGTTTTGGACGATT
1 ATACTGGTGTGTTTTGGACGATT
76207449 ATACTGGTGTGTTTTGG
1 ATACTGGTGTGTTTTGG
76207466 TTGGACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.16, C:0.08, G:0.32, T:0.44
Consensus pattern (23 bp):
ATACTGGTGTGTTTTGGACGATT
Found at i:76207686 original size:23 final size:23
Alignment explanation
Indices: 76207656--76207742 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 23
76207646 GCTTTACTGA
*
76207656 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
76207679 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
* *
76207700 GCAGGCACCTCATGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
76207721 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
76207743 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 10 0.19
21 22 0.42
22 2 0.04
23 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:76214256 original size:28 final size:28
Alignment explanation
Indices: 76214216--76214271 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76214206 CATTTAAAAA
76214216 AGGTCAGAAGTCGTCACACTATCACAAT
1 AGGTCAGAAGTCGTCACACTATCACAAT
76214244 AGGTCAGAAGTCGTCACACTATCACAAT
1 AGGTCAGAAGTCGTCACACTATCACAAT
76214272 TCATACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (28 bp):
AGGTCAGAAGTCGTCACACTATCACAAT
Found at i:76215429 original size:93 final size:93
Alignment explanation
Indices: 76215319--76215489 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
76215309 GCCCCTAAGT
* *
76215319 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
76215384 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
76215412 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
76215477 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76215490 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76215486 original size:46 final size:46
Alignment explanation
Indices: 76215314--76215486 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
76215304 AACCCGCCCC
* * * *
76215314 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
76215360 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
76215408 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
76215453 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
76215487 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:76215943 original size:30 final size:30
Alignment explanation
Indices: 76215909--76215965 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
76215899 ATTTAATACG
76215909 AACTTTAAAAAAATTACACTTTTGCCCTTA
1 AACTTTAAAAAAATTACACTTTTGCCCTTA
*** *
76215939 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
76215966 CTAGGCTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCTTA
Found at i:76219623 original size:24 final size:25
Alignment explanation
Indices: 76219596--76219642 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
76219586 GTAAGGAGGG
76219596 GATAA-GGGAGAAGATTTAGGAGTT
1 GATAAGGGGAGAAGATTTAGGAGTT
76219620 GATAAGGGGAGAAGATTTAGGAG
1 GATAAGGGGAGAAGATTTAGGAG
76219643 CTTATCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.21
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGTT
Found at i:76221089 original size:27 final size:27
Alignment explanation
Indices: 76221059--76221165 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
76221049 AGCGTCCTGA
* *
76221059 TGGCTATGCCACATTTATCTGATCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
*
76221086 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
* *
76221113 CGGCTCTGCCACAATTATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
* *
76221140 TGACTCTGTCACA-TTATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
76221166 GAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.18
27 58 0.82
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACATTTATCTGTTCTGG
Found at i:76224827 original size:17 final size:15
Alignment explanation
Indices: 76224789--76224832 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
76224779 GAAAAGGTAA
*
76224789 AATTTTTAATTTTTT
1 AATTTTTATTTTTTT
76224804 AATTTTTATTTTTTT
1 AATTTTTATTTTTTT
76224819 ATATATTTTATTTT
1 A-AT-TTTTATTTT
76224833 AGTAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.58
16 2 0.08
17 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
AATTTTTATTTTTTT
Found at i:76227098 original size:25 final size:25
Alignment explanation
Indices: 76227070--76227123 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
76227060 TATATTTACT
*
76227070 TATAAATATATTTATATGTATATAG
1 TATAAATATATTTATATGTATATAA
** *
76227095 TATAGGTATATTTGTATGTATATAA
1 TATAAATATATTTATATGTATATAA
76227120 TATA
1 TATA
76227124 TATGAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TATAAATATATTTATATGTATATAA
Found at i:76227125 original size:27 final size:25
Alignment explanation
Indices: 76227076--76227123 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
76227066 TACTTATAAA
*
76227076 TATATTTATATGTATATAGTATAGG
1 TATATTTATATGTATATAATATAGG
*
76227101 TATATTTGTATGTATATAATATA
1 TATATTTATATGTATATAATATA
76227124 TATGAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TATATTTATATGTATATAATATAGG
Found at i:76229114 original size:19 final size:19
Alignment explanation
Indices: 76229090--76229129 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
76229080 AGCTCCCATG
76229090 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
76229109 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
76229128 TA
1 TA
76229130 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:76229727 original size:31 final size:33
Alignment explanation
Indices: 76229665--76229728 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
76229655 ACTCTCCTTA
* *
76229665 ATTCGTTTACACCTATGTTCACATGGCAAGACT
1 ATTCGGTTACACCTATGTTCACATAGCAAGACT
76229698 ATTCGGTT-CACCT-TGTTCACACTAG-AAGACT
1 ATTCGGTTACACCTATGTTCACA-TAGCAAGACT
76229729 CTCAACATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 14 0.50
32 7 0.25
33 7 0.25
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (33 bp):
ATTCGGTTACACCTATGTTCACATAGCAAGACT
Found at i:76230800 original size:12 final size:12
Alignment explanation
Indices: 76230769--76230800 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
76230759 TATACAAGTT
76230769 AAAAAAAA-TTG
1 AAAAAAAATTTG
76230780 AAAAAAAATTTG
1 AAAAAAAATTTG
76230792 AAAAAAAAT
1 AAAAAAAAT
76230801 CAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
AAAAAAAATTTG
Done.