Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 59 of 93
Found at i:7648531 original size:25 final size:26
Alignment explanation
Indices: 7648479--7648545 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
7648469 TATTACATAA
*
7648479 TTATG-TATAGTTGCATGAATGATTT
1 TTATGATATAGTTGCATGAATGAATT
7648504 TTATGATAT-GTTGCATGATAT-AATT
1 TTATGATATAGTTGCATGA-ATGAATT
* *
7648529 TTATAATATATTTGCAT
1 TTATGATATAGTTGCAT
7648546 CATAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 25 0.69
26 11 0.31
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (26 bp):
TTATGATATAGTTGCATGAATGAATT
Found at i:7648543 original size:26 final size:23
Alignment explanation
Indices: 7648484--7648554 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 23
7648474 CATAATTATG
* *
7648484 TATAGTTGCATGAATGATTTTTA
1 TATATTTGCATGAATAATTTTTA
7648507 TGATATGTTGCATGATATAATTTTATAA
1 T-ATAT-TTGCATGA-ATAATTTT-T-A
*
7648535 TATATTTGCAT-CATAATTTT
1 TATATTTGCATGAATAATTTT
7648555 AGCATGGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 8 0.20
26 13 0.32
27 5 0.12
28 2 0.05
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (23 bp):
TATATTTGCATGAATAATTTTTA
Found at i:7659512 original size:4 final size:4
Alignment explanation
Indices: 7659503--7659536 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
7659493 ATAAAGAGAG
* *
7659503 ATAA ATAA ATAA ATAA ATAA ATAA CTAC ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
7659537 TAAAACATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:7660553 original size:59 final size:58
Alignment explanation
Indices: 7660457--7660885 Score: 423
Period size: 59 Copynumber: 7.2 Consensus size: 58
7660447 CATTAAAAAT
* *
7660457 TTTTCAAAGAAAATTGATACTTTCAACTTTTCTTCAAACAAACATTTCTTGAAAGTTTTA
1 TTTTC-AAGAAAATTGATACTTTCAACTTTTCCTCAAA-AAACATTTTTTGAAAGTTTTA
* * *
7660517 TTTTCAAGAAAATTAATACTTTTAACTTTTCCTCAAACAAACATTTCTTGAAAGTTTTA
1 TTTTCAAGAAAATTGATACTTTCAACTTTTCCTCAAA-AAACATTTTTTGAAAGTTTTA
* * * * ** *
7660576 TTTTCAAGAAAAATTAATACTCTCAACTTTTCCTTAAAAACAAACATTTT-AAATTTTTA
1 TTTTCAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACATTTTTTGAAAGTTTTA
* * *
7660635 TTTTTAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATAC-TCTTTTTGAAATTTTTA
1 TTTTCAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACAT-TTTTTGAAAGTTTTA
* * ** *
7660695 TTTTCAAGAAAAATTGATACTTTTAACTTTTCCTCAAAATATTTTTTTTGAAAATTTTA
1 TTTTCAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTGAAAGTTTTA
* ** * *
7660754 TTTTCAAGGAAAATTGATTCTTTCAACTTTTCCTCAAAAATAGTTTTTTTAAAATTGCTTTTT
1 TTTTCAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAA-ACATTTTTTGAAA--G-TTTTA
* * * ** *
7660817 TTTTCAAGGAAAATTGATACTTTTAACTTTTCTTC-AAAAATATTTTTAAAAAATTTTA
1 TTTTCAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTGAAAGTTTTA
7660875 TTTTCAAGAAA
1 TTTTCAAGAAA
7660886 TCATTAAAAA
Statistics
Matches: 320, Mismatches: 39, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
57 4 0.01
58 11 0.03
59 161 0.50
60 94 0.29
61 10 0.03
62 4 0.01
63 36 0.11
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (58 bp):
TTTTCAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTTGAAAGTTTTA
Found at i:7660596 original size:119 final size:116
Alignment explanation
Indices: 7660457--7660885 Score: 463
Period size: 119 Copynumber: 3.6 Consensus size: 116
7660447 CATTAAAAAT
*
7660457 TTTTCAA-AGAAAATTGATACTTTCAACTTTTCTTCAAACAAACATTTCTTGAAAGTTTTATTTT
1 TTTTCAAGA-AAAATTGATACTTTCAACTTTTCTTCAAA-AAACATTT-TTGAAAATTTTATTTT
* *
7660521 CAAGAAAATTAATACTTTTAACTTTTCCTCAAACAA-ACATTTCTTGAAAGTTTTA
63 CAAGAAAATTAATACTTTCAACTTTTCCTCAAA-AATAC-TTTTTTGAAAGTTTTA
* * * *
7660576 TTTTCAAGAAAAATTAATACTCTCAACTTTTCCTTAAAAACAAACA-TTTT-AAATTTTTATTTT
1 TTTTCAAGAAAAATTGATACTTTCAACTTTT-CTT-CAAA-AAACATTTTTGAAAATTTTATTTT
* *
7660639 TAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATACTCTTTTTGAAATTTTTA
63 CAAG-AAAATTAATACTTTCAACTTTTCCTCAAAAATACT-TTTTTGAAAGTTTTA
* * ***
7660695 TTTTCAAGAAAAATTGATACTTTTAACTTTTCCTCAAAATATTTTTTTTGAAAATTTTATTTTCA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAA-AACATTTTTGAAAATTTTATTTTCA
* * * * *
7660760 AGGAAAATTGATTCTTTCAACTTTTCCTCAAAAATAGTTTTTTTAAAATTGCTTTTT
65 A-GAAAATTAATACTTTCAACTTTTCCTCAAAAATA-CTTTTTTGAAA--G-TTTTA
* * * *
7660817 TTTTCAAGGAAAATTGATACTTTTAACTTTTCTTC-AAAAATATTTTTAAAAAATTTTATTTTCA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAAACATTTTT-GAAAATTTTATTTTCA
7660881 AGAAA
65 AGAAA
7660886 TCATTAAAAA
Statistics
Matches: 266, Mismatches: 29, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
116 1 0.00
117 4 0.02
118 24 0.09
119 153 0.58
120 19 0.07
121 28 0.11
122 37 0.14
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (116 bp):
TTTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAAACATTTTTGAAAATTTTATTTTCAA
GAAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAGTTTTA
Found at i:7661470 original size:21 final size:21
Alignment explanation
Indices: 7661444--7661483 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7661434 CACTGGATTT
* *
7661444 GAAAAATGTCCATAAAACCTA
1 GAAAAATCTCCAAAAAACCTA
7661465 GAAAAATCTCCAAAAAACC
1 GAAAAATCTCCAAAAAACC
7661484 AATTAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.23, G:0.07, T:0.15
Consensus pattern (21 bp):
GAAAAATCTCCAAAAAACCTA
Found at i:7665409 original size:19 final size:21
Alignment explanation
Indices: 7665380--7665419 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7665370 TATTTTCTTT
*
7665380 TTTTGTTATTT-CAGTTTTTC
1 TTTTGTTATTTAAAGTTTTTC
7665400 TTTT-TTATTTAAAGTTTTTC
1 TTTTGTTATTTAAAGTTTTTC
7665420 AAATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTGTTATTTAAAGTTTTTC
Found at i:7665601 original size:16 final size:15
Alignment explanation
Indices: 7665582--7665620 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7665572 AGTAATCAAT
*
7665582 TAAATATATAATTATA
1 TAAATATA-AATTAAA
7665598 TAAATAGTAAATTAAA
1 TAAATA-TAAATTAAA
7665614 TAAATAT
1 TAAATAT
7665621 TGGCTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAAATATAAATTAAA
Found at i:7666749 original size:17 final size:16
Alignment explanation
Indices: 7666717--7666768 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
7666707 ACATTTATCT
*
7666717 AAATTAAAAATC-AAA
1 AAATTAAAAAACTAAA
7666732 AAATTAAAAAAACTAAA
1 AAATT-AAAAAACTAAA
7666749 AAATTGAAAAAACTAAA
1 AAATT-AAAAAACTAAA
7666766 AAA
1 AAA
7666769 AAATATAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 22 0.67
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (16 bp):
AAATTAAAAAACTAAA
Found at i:7666899 original size:16 final size:15
Alignment explanation
Indices: 7666877--7666927 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
7666867 ATATGTATAA
7666877 AAATAAAATTTTATT
1 AAATAAAATTTTATT
7666892 AAATTAAAA---TATT
1 AAA-TAAAATTTTATT
7666905 AAATAATAATTTTATT
1 AAATAA-AATTTTATT
7666921 AATATAA
1 AA-ATAA
7666928 TATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 3 0.10
13 9 0.30
15 3 0.10
16 11 0.37
17 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATAAAATTTTATT
Found at i:7666917 original size:29 final size:29
Alignment explanation
Indices: 7666872--7666939 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
7666862 TTTAAATATG
*
7666872 TATAAAAATAAAATTTTATTAA-ATTAAAA
1 TATATAAATAAAATTTTATTAATA-TAAAA
*
7666901 TAT-TAAATAATAATTTTATTAATATAATA
1 TATATAAATAA-AATTTTATTAATATAAAA
7666930 TATATAAATA
1 TATATAAATA
7666940 TAAAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.18
29 21 0.62
30 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TATATAAATAAAATTTTATTAATATAAAA
Found at i:7670682 original size:26 final size:25
Alignment explanation
Indices: 7670652--7670703 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
7670642 TATGAATATT
*
7670652 AAATGTATATATTCATAAATATATAA
1 AAATGAATATATTCATAAATA-ATAA
* *
7670678 AAATGAATATGTTTATAAATAATAA
1 AAATGAATATATTCATAAATAATAA
7670703 A
1 A
7670704 TAAGTCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
AAATGAATATATTCATAAATAATAA
Found at i:7670755 original size:10 final size:10
Alignment explanation
Indices: 7670740--7670768 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7670730 AAATAAATCT
7670740 TAAATGAATA
1 TAAATGAATA
7670750 TAAATGAATA
1 TAAATGAATA
7670760 TAAATGAAT
1 TAAATGAAT
7670769 CTTAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (10 bp):
TAAATGAATA
Found at i:7673148 original size:20 final size:22
Alignment explanation
Indices: 7673123--7673165 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7673113 ACTTGTGCAT
7673123 AATTGAA-TAAATCCA-ATATA
1 AATTGAAGTAAATCCACATATA
7673143 AATTGAAGTAAATCCACATATA
1 AATTGAAGTAAATCCACATATA
7673165 A
1 A
7673166 TTAGATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (22 bp):
AATTGAAGTAAATCCACATATA
Found at i:7673788 original size:2 final size:2
Alignment explanation
Indices: 7673783--7673848 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
7673773 AAGTGAAAAA
*
7673783 AG AG AG A- AG A- AA AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
7673822 AG AA AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
7673849 TATGAATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
1 3 0.05
2 55 0.95
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7674474 original size:27 final size:27
Alignment explanation
Indices: 7674439--7674505 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
7674429 TAATTTATTG
*
7674439 AGATAAGCTCTTTAACTAAAATGGTTA
1 AGATAAGCTCTTTAACTAAAATGGTCA
* * * *
7674466 AGATGAGCTCTTTAATTGAAGTGGTCA
1 AGATAAGCTCTTTAACTAAAATGGTCA
7674493 AGATAAGCTCTTT
1 AGATAAGCTCTTT
7674506 TGGTTAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (27 bp):
AGATAAGCTCTTTAACTAAAATGGTCA
Found at i:7674655 original size:19 final size:19
Alignment explanation
Indices: 7674633--7674672 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7674623 CTTTCGACTG
*
7674633 AGGTGAGCTTTTTTGGCCA
1 AGGTGAGCTCTTTTGGCCA
7674652 AGGTGAGCTCTTTTGGCCA
1 AGGTGAGCTCTTTTGGCCA
7674671 AG
1 AG
7674673 CTATTCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (19 bp):
AGGTGAGCTCTTTTGGCCA
Found at i:7675191 original size:85 final size:84
Alignment explanation
Indices: 7674877--7675835 Score: 478
Period size: 85 Copynumber: 11.3 Consensus size: 84
7674867 TTTGTAGATT
* * * ** * ** *
7674877 TGAGCTCTTTGGTCGAGCCTATTTTGTTGAATTGAACCTTTATAAAGACATTTTGTAGATATGAA
1 TGAGCTCTTTGGCCGAG-CTATTTTATTGAATTG-ACCTTTATGAAGGTATTTTGTAAATCCGAG
*
7674942 CTCTTTT-AGTCAAGCTAAGTC
64 CTCTTTTGA-TCGAGCTAAGTC
** * * ** * * * * * * * *
7674963 CAAGATTTTTGAACGAGCTGTTTTGTCGAATTGGACTTTTATAAAGATATTTTGTAGATCCGAAC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATT-GACCTTTATGAAGGTATTTTGTAAATCCGAGC
* * *
7675028 ACTGTTGATCGAGCTAAAT-
65 TCTTTTGATCGAGCTAAGTC
* * * * ** * *
7675047 TCAAACTTTTTGGTCGAGCTATTTTATTGAATTAGGTCTTTATGAATGTATTTTATAAATCCGAG
1 T-GAGCTCTTTGGCCGAGCTATTTTATTGAATT-GACCTTTATGAAGGTATTTTGTAAATCCGAG
* * * *
7675112 CTTTTTTGATCGAGTTGAGTT
64 CTCTTTTGATCGAGCTAAGTC
* ** * * * *
7675133 TGAGCTTTTTGATCGAGCTATTTTTTTGAATTGGACCTTTATGAAGATATTTTGTAAATTCAAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATT-GACCTTTATGAAGGTATTTTGTAAATCCGAGC
* * * *
7675198 T-TTTTTAGTTGAGTTGAGTC
65 TCTTTTGA-TCGAGCTAAGTC
** * * * * * **
7675218 CAAGCTTTTTGGCCTAACTGTTTTATCGAATTGAGCCTTTATGAAGGTATTTTGTAAATATGAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATTGA-CCTTTATGAAGGTATTTTGTAAATCCGAGC
* *
7675283 T-TTTTGGGTTGAGCTAAGTC
65 TCTTTT-GATCGAGCTAAGTC
* * ** * * * *
7675303 TGAGCTCTTTGGCCAAGCTATTTT-TTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATTGA-CCTTTATGAAGGTATTTTGTAAATCCGAGC
* * *
7675367 T-TTTTGGGTTGAGCTAAGTT
65 TCTTTT-GATCGAGCTAAGTC
* * * * * * * *
7675387 TGAACTCTTTGGTCGAGATATTTTATTGAATTAGGCATTTATGAAGGCATTTTGTAGAA-GCAAG
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATT-GACCTTTATGAAGGTATTTTGTA-AATCCGAG
* ** *
7675451 CTCTTTTAATCGATTTGAGTC
64 CTCTTTTGATCGAGCTAAGTC
* * * * * * *
7675472 TGAGCTCTTTGGTCGAGCTATTTTGTTAAATTAAGCCTTTATAAAGGTATTTTGTATATTCGAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATTGA-CCTTTATGAAGGTATTTTGTAAATCCGAGC
* * * *
7675537 TCTTTTGGTCAAGTTGAGTC
65 TCTTTTGATCGAGCTAAGTC
* * * * * * **
7675557 TGAGCTCCTTGACCGAGCTGTTTTGTCT-AATTTGACCTTTATGAAGGCATTTTGTAGATTTGAG
1 TGAGCTCTTTGGCCGAGCTATTTTAT-TGAA-TTGACCTTTATGAAGGTATTTTGTAAATCCGAG
* *
7675621 TTCTTTTGATCGAGCTGAGTC
64 CTCTTTTGATCGAGCTAAGTC
* * * * * * * * **
7675642 TAAGATTTTTGACCGAGCTATTTTATCGAATTAAGCCTTTATAAAAGTATTTTGTAAATTTGAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATTGA-CCTTTATGAAGGTATTTTGTAAATCCGAGC
** *
7675707 TCTTTTGGCCGAACTAAGTC
65 TCTTTTGATCGAGCTAAGTC
* * * * ** * * * **
7675727 CGAGCTCTTAGGCCAAGCTATTTTGTCAAATTAGATCTTTATGAAAGTATTTTGTAGATCTAAGC
1 TGAGCTCTTTGGCCGAGCTATTTTATTGAATT-GACCTTTATGAAGGTATTTTGTAAATCCGAGC
* *
7675792 TCTTTTGGTCGAGTTAAGT-
65 TCTTTTGATCGAGCTAAGTC
**
7675811 TCGAGCTCTTTGATCGAGCTATTTT
1 T-GAGCTCTTTGGCCGAGCTATTTT
7675836 TACTTTCTTT
Statistics
Matches: 678, Mismatches: 176, Indels: 39
0.76 0.20 0.04
Matches are distributed among these distances:
84 82 0.12
85 571 0.84
86 25 0.04
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (84 bp):
TGAGCTCTTTGGCCGAGCTATTTTATTGAATTGACCTTTATGAAGGTATTTTGTAAATCCGAGCT
CTTTTGATCGAGCTAAGTC
Found at i:7675228 original size:170 final size:170
Alignment explanation
Indices: 7675000--7675836 Score: 580
Period size: 170 Copynumber: 4.9 Consensus size: 170
7674990 GAATTGGACT
* * * * * * * * * * * *
7675000 TTTATAAAGATATTTTGTAGATCCGAACACTGTTGATCGAGCTAAATTCAAACTTTTTGGTCGAG
1 TTTATGAAGATATTTTGTAAATTCGAGCTCTTTTGGTCGAGCTAAGTCCAAGCTCTTTGGCCGAG
* * * *
7675065 CTATTTTATTGAATTAGGTCTTTATGAATGTATTTTATAAATCCGAGCTTTTTTGATCGAGTTGA
66 CTATTTTATTGAATTAGGCCTTTATGAAGGTATTTTGTAAATCTGAGCTTTTTTGATCGAGTTGA
* * *
7675130 GTTTGAGCTTTTTGATCGAGCTATTTTTTTGAATT-GGACC
131 GTCTGAGCTCTTTGATCGAGCTATTTTTTTGAATTAAG-CC
* * * * * * * * *
7675170 TTTATGAAGATATTTTGTAAATTCAAGCTTTTTTAGTTGAGTTGAGTCCAAGCTTTTTGGCCTAA
1 TTTATGAAGATATTTTGTAAATTCGAGCTCTTTTGGTCGAGCTAAGTCCAAGCTCTTTGGCCGAG
* * * * * * * *
7675235 CTGTTTTATCGAATT-GAGCCTTTATGAAGGTATTTTGTAAATATGAGCTTTTTGGGTTGAGCTA
66 CTATTTTATTGAATTAG-GCCTTTATGAAGGTATTTTGTAAATCTGAGCTTTTTTGATCGAGTTG
** * * **
7675299 AGTCTGAGCTCTTTGGCCAAGCTATTTTTTT-AATTGAGTT
130 AGTCTGAGCTCTTTGATCGAGCTATTTTTTTGAATTAAGCC
** * * * ** *
7675339 TTTATGAAGGCATTTTATAGA-TCTGAGCT-TTTTGGGTTGAGCTAAGTTTGAA-CTCTTTGGTC
1 TTTATGAAGATATTTTGTAAATTC-GAGCTCTTTT-GGTCGAGCTAAG-TCCAAGCTCTTTGGCC
* * * * * * * *
7675401 GAGATATTTTATTGAATTAGGCATTTATGAAGGCATTTTGTAGAAGC-AAGCTCTTTTAATCGAT
63 GAGCTATTTTATTGAATTAGGCCTTTATGAAGGTATTTTGTA-AATCTGAGCTTTTTTGATCGAG
* * *
7675465 TTGAGTCTGAGCTCTTTGGTCGAGCTATTTTGTTAAATTAAGCC
127 TTGAGTCTGAGCTCTTTGATCGAGCTATTTTTTTGAATTAAGCC
* * * * * * ** * *
7675509 TTTATAAAGGTATTTTGTATATTCGAGCTCTTTTGGTCAAGTTGAGTCTGAGCTCCTTGACCGAG
1 TTTATGAAGATATTTTGTAAATTCGAGCTCTTTTGGTCGAGCTAAGTCCAAGCTCTTTGGCCGAG
* * * * * * * *
7675574 CTGTTTTGTCT-AATTTGACCTTTATGAAGGCATTTTGTAGATTTGAG-TTCTTTTGATCGAGCT
66 CTATTTTAT-TGAATTAGGCCTTTATGAAGGTATTTTGTAAATCTGAGCTT-TTTTGATCGAGTT
* * * * * *
7675637 GAGTCTAAGATTTTTGACCGAGCTATTTTATCGAATTAAGCC
129 GAGTCTGAGCTCTTTGATCGAGCTATTTTTTTGAATTAAGCC
* * * * * * *
7675679 TTTAT-AAAAGTATTTTGTAAATTTGAGCTCTTTTGGCCGAACTAAGTCCGAGCTCTTAGGCCAA
1 TTTATGAAGA-TATTTTGTAAATTCGAGCTCTTTTGGTCGAGCTAAGTCCAAGCTCTTTGGCCGA
* ** ** * * * * * *
7675743 GCTATTTTGTCAAATTAGATCTTTATGAAAGTATTTTGTAGATCTAAGCTCTTTTGGTCGAGTTA
65 GCTATTTTATTGAATTAGGCCTTTATGAAGGTATTTTGTAAATCTGAGCTTTTTTGATCGAGTTG
7675808 AGT-TCGAGCTCTTTGATCGAGCTATTTTT
130 AGTCT-GAGCTCTTTGATCGAGCTATTTTT
7675837 ACTTTCTTTA
Statistics
Matches: 507, Mismatches: 142, Indels: 36
0.74 0.21 0.05
Matches are distributed among these distances:
168 6 0.01
169 122 0.24
170 371 0.73
171 8 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (170 bp):
TTTATGAAGATATTTTGTAAATTCGAGCTCTTTTGGTCGAGCTAAGTCCAAGCTCTTTGGCCGAG
CTATTTTATTGAATTAGGCCTTTATGAAGGTATTTTGTAAATCTGAGCTTTTTTGATCGAGTTGA
GTCTGAGCTCTTTGATCGAGCTATTTTTTTGAATTAAGCC
Found at i:7675366 original size:84 final size:85
Alignment explanation
Indices: 7675238--7675444 Score: 265
Period size: 84 Copynumber: 2.4 Consensus size: 85
7675228 GGCCTAACTG
* * * *
7675238 TTTTATCGAATTGAGCCTTTATGAAGGTATTTTGTAAATATGAGCTTTTTGGGTTGAGCTAAGTC
1 TTTTATTGAATTGAGCATTTATGAAGGCATTTTGTAGATATGAGCTTTTTGGGTTGAGCTAAGTC
* *
7675303 TGAGCTCTTTGGCCAAGCTA
66 TGAACTCTTTGGCCAAGATA
* ** * * *
7675323 TTTT-TTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGCTTTTTGGGTTGAGCTAAGTT
1 TTTTATTGAATTGAGCATTTATGAAGGCATTTTGTAGATATGAGCTTTTTGGGTTGAGCTAAGTC
* *
7675387 TGAACTCTTTGGTCGAGATA
66 TGAACTCTTTGGCCAAGATA
7675407 TTTTATTGAATT-AGGCATTTATGAAGGCATTTTGTAGA
1 TTTTATTGAATTGA-GCATTTATGAAGGCATTTTGTAGA
7675445 AGCAAGCTCT
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 72 0.70
85 31 0.30
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.43
Consensus pattern (85 bp):
TTTTATTGAATTGAGCATTTATGAAGGCATTTTGTAGATATGAGCTTTTTGGGTTGAGCTAAGTC
TGAACTCTTTGGCCAAGATA
Found at i:7675663 original size:339 final size:339
Alignment explanation
Indices: 7675050--7675835 Score: 749
Period size: 339 Copynumber: 2.3 Consensus size: 339
7675040 GCTAAATTCA
* * * * * *
7675050 AACTTTTTGGTCGAGCTATTTTATTGAATTAGGTCTTTATGAATGTATTTTATAAATCCGAGCTT
1 AACTCTTTGGTCGAGATATTTTATTGAATTAGGTCTTTATGAAGGCATTTTATAAATCCAAGCTC
* * * * * * *
7675115 TTTTGATCGAGTTGAGTTTGAGCTTTTTGATCGAGCTATTTTTTTGAATTGGACCTTTATGAAGA
66 TTTTAATCGAGTTGAGTCTGAGCTCTTTGATCGAGCTATTTTGTTAAATTAGACCTTTATAAAGA
* ** ** * *
7675180 TATTTTGTAAATTCAAGCTTTTTTAGTTGAGTTGAGTCCAAGCTTTTTGGCCTAACTGTTTTATC
131 TATTTTGTAAATTCAAGCTCTTTTAGTCAAGTTGAGTCCAAGCTCCTTGACCGAACTGTTTTATC
* * * * *
7675245 GAATTGAGCCTTTATGAAGGTATTTTGTAAATATGAGCTTTTTGGGTTGAGCTAAGTCTGAGCTC
196 GAATTGAGCCTTTATGAAGGCATTTTGTAAATATGAGCTTTTTGGATCGAGCTAAGTCTAAGATC
*
7675310 TTTGGCCAAGCTATTTTTTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGCTTTTTGGG
261 TTTGACCAAGCTATTTTTTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGCTTTTTGGG
7675375 TTGAGCTAAGTTTG
326 TTGAGCTAAGTTTG
* *
7675389 AACTCTTTGGTCGAGATATTTTATTGAATTAGG-CATTTATGAAGGCATTTTGTAGAA-GCAAGC
1 AACTCTTTGGTCGAGATATTTTATTGAATTAGGTC-TTTATGAAGGCATTTTATA-AATCCAAGC
* *
7675452 TCTTTTAATCGATTTGAGTCTGAGCTCTTTGGTCGAGCTATTTTGTTAAATTA-AGCCTTTATAA
64 TCTTTTAATCGAGTTGAGTCTGAGCTCTTTGATCGAGCTATTTTGTTAAATTAGA-CCTTTATAA
* * * * ** *
7675516 AGGTATTTTGTATATTCGAGCTCTTTTGGTCAAGTTGAGTCTGAGCTCCTTGACCGAGCTGTTTT
128 AGATATTTTGTAAATTCAAGCTCTTTTAGTCAAGTTGAGTCCAAGCTCCTTGACCGAACTGTTTT
* * * * * *
7675581 GTCTAATTTGA-CCTTTATGAAGGCATTTTGTAGATTTGAG-TTCTTTTGATCGAGCTGAGTCTA
193 ATCGAA-TTGAGCCTTTATGAAGGCATTTTGTAAATATGAGCTT-TTTGGATCGAGCTAAGTCTA
* * ** * ** * * * * * *
7675644 AGATTTTTGACCGAGCTATTTTATCGAATTAAGCCTTTATAAAAGTATTTTGTAAATTTGAGCTC
256 AGATCTTTGACCAAGCTATTTT-TTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGCT-
** * **
7675709 TTTT-GGCCGAACTAAGTCCG
319 TTTTGGGTTGAGCTAAGTTTG
* * * * * * ** * * * * * *
7675729 AGCTCTTAGGCCAAGCTATTTTGTCAAATTAGATCTTTATGAAAGTATTTTGTAGATCTAAGCTC
1 AACTCTTTGGTCGAGATATTTTATTGAATTAGGTCTTTATGAAGGCATTTTATAAATCCAAGCTC
** *
7675794 TTTTGGTCGAGTTAAGT-TCGAGCTCTTTGATCGAGCTATTTT
66 TTTTAATCGAGTTGAGTCT-GAGCTCTTTGATCGAGCTATTTT
7675836 TACTTTCTTT
Statistics
Matches: 357, Mismatches: 80, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
338 4 0.01
339 219 0.61
340 129 0.36
341 5 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (339 bp):
AACTCTTTGGTCGAGATATTTTATTGAATTAGGTCTTTATGAAGGCATTTTATAAATCCAAGCTC
TTTTAATCGAGTTGAGTCTGAGCTCTTTGATCGAGCTATTTTGTTAAATTAGACCTTTATAAAGA
TATTTTGTAAATTCAAGCTCTTTTAGTCAAGTTGAGTCCAAGCTCCTTGACCGAACTGTTTTATC
GAATTGAGCCTTTATGAAGGCATTTTGTAAATATGAGCTTTTTGGATCGAGCTAAGTCTAAGATC
TTTGACCAAGCTATTTTTTTAATTGAGTTTTTATGAAGGCATTTTATAGATCTGAGCTTTTTGGG
TTGAGCTAAGTTTG
Found at i:7675743 original size:424 final size:425
Alignment explanation
Indices: 7675055--7675835 Score: 973
Period size: 424 Copynumber: 1.8 Consensus size: 425
7675045 ATTCAAACTT
* * * * * *
7675055 TTTGGTCGAGCTATTTTATTGAATTAGGTCTTTATGAATGTATTTTATAAATCCGAGCTTTTTTG
1 TTTGGTCGAGCTATTTTATTAAATTAAGCCTTTATAAAGGTATTTTATAAATCCGAGCTCTTTTG
* * ** * * *
7675120 ATCGAGTTGAGTTTGAGCTTTTTGATCGAGCTATTTTTTTGAATTGGACCTTTATGAAGATATTT
66 ATCAAGTTGAGTCTGAGCTCCTTGACCGAGCTATTTTTCTGAATTGGACCTTTATGAAGACATTT
* * * * * *
7675185 TGTAAATTCAAGCTTTTTTAGTTGAGTTGAGTCCAAGCTTTTTGGCCTAACTGTTTTATCGAATT
131 TGTAAATTCAAGCTTTTTTAGTCGAGCTGAGTCCAAGATTTTTGACCGAACTATTTTATCGAATT
* * * ** * * *
7675250 GAGCCTTTATGAAGGTATTTTGTAAATATGAGCTTTTTGGGTTGAGCTAAGTCTGAGCTCTTTGG
196 AAGCCTTTATAAAAGTATTTTGTAAATATGAGCTTTTTGGGCCGAACTAAGTCCGAGCTCTTAGG
** * * * *
7675315 CCAAGCTATTTT-TTTAATT-GAGTTTTTATGAAGGCATTTTATAGATCTGAGCT-TTTTGGGTT
261 CCAAGCTATTTTGTCAAATTAGA-TCTTTATGAAAGCATTTTATAGATCTAAGCTCTTTT-GGTC
* *
7675377 GAGCTAAGTTTGAACTCTTTGGTCGAGATATTTTATTGAATTAGGCATTTATGAAGGCATTTTGT
324 GAGCTAAGTTCGAACTCTTTGATCGAGATATTTTATTGAATTAGGCATTTATGAAGGCATTTTGT
7675442 AGAAGCAAGCTCTTTTAATCGATTTGAGTCTGAGCTC
389 AGAAGCAAGCTCTTTTAATCGATTTGAGTCTGAGCTC
* * * *
7675479 TTTGGTCGAGCTATTTTGTTAAATTAAGCCTTTATAAAGGTATTTTGTATATTCGAGCTCTTTTG
1 TTTGGTCGAGCTATTTTATTAAATTAAGCCTTTATAAAGGTATTTTATAAATCCGAGCTCTTTTG
* * * *
7675544 GTCAAGTTGAGTCTGAGCTCCTTGACCGAGCTGTTTTGTCT-AATTTGACCTTTATGAAGGCATT
66 ATCAAGTTGAGTCTGAGCTCCTTGACCGAGCTATTTT-TCTGAATTGGACCTTTATGAAGACATT
* ** * *
7675608 TTGTAGATTTGAG-TTCTTTT-GATCGAGCTGAGTCTAAGATTTTTGACCGAGCTATTTTATCGA
130 TTGTAAATTCAAGCTT-TTTTAG-TCGAGCTGAGTCCAAGATTTTTGACCGAACTATTTTATCGA
*
7675671 ATTAAGCCTTTATAAAAGTATTTTGTAAATTTGAGCTCTTTT-GGCCGAACTAAGTCCGAGCTCT
193 ATTAAGCCTTTATAAAAGTATTTTGTAAATATGAGCT-TTTTGGGCCGAACTAAGTCCGAGCTCT
* *
7675735 TAGGCCAAGCTATTTTGTCAAATTAGATCTTTATGAAAGTATTTTGTAGATCTAAGCTCTTTTGG
257 TAGGCCAAGCTATTTTGTCAAATTAGATCTTTATGAAAGCATTTTATAGATCTAAGCTCTTTTGG
* * *
7675800 TCGAGTTAAGTTCGAGCTCTTTGATCGAGCTATTTT
322 TCGAGCTAAGTTCGAACTCTTTGATCGAGATATTTT
7675836 TACTTTCTTT
Statistics
Matches: 296, Mismatches: 54, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
423 3 0.01
424 218 0.74
425 69 0.23
426 6 0.02
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (425 bp):
TTTGGTCGAGCTATTTTATTAAATTAAGCCTTTATAAAGGTATTTTATAAATCCGAGCTCTTTTG
ATCAAGTTGAGTCTGAGCTCCTTGACCGAGCTATTTTTCTGAATTGGACCTTTATGAAGACATTT
TGTAAATTCAAGCTTTTTTAGTCGAGCTGAGTCCAAGATTTTTGACCGAACTATTTTATCGAATT
AAGCCTTTATAAAAGTATTTTGTAAATATGAGCTTTTTGGGCCGAACTAAGTCCGAGCTCTTAGG
CCAAGCTATTTTGTCAAATTAGATCTTTATGAAAGCATTTTATAGATCTAAGCTCTTTTGGTCGA
GCTAAGTTCGAACTCTTTGATCGAGATATTTTATTGAATTAGGCATTTATGAAGGCATTTTGTAG
AAGCAAGCTCTTTTAATCGATTTGAGTCTGAGCTC
Found at i:7692037 original size:18 final size:17
Alignment explanation
Indices: 7692014--7692048 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7692004 TTTTAGTACT
*
7692014 AAATAAATAATATGTTTG
1 AAATAAAAAATAT-TTTG
7692032 AAATAAAAAATATTTTG
1 AAATAAAAAATATTTTG
7692049 CAAAATGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAATAAAAAATATTTTG
Found at i:7697551 original size:20 final size:20
Alignment explanation
Indices: 7697526--7697565 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7697516 CTAAATGCTC
* *
7697526 TAAAGTCAAATTTGGTTAAA
1 TAAAGTCAAACTTGATTAAA
7697546 TAAAGTCAAACTTGATTAAA
1 TAAAGTCAAACTTGATTAAA
7697566 ATTGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
TAAAGTCAAACTTGATTAAA
Found at i:7697584 original size:20 final size:20
Alignment explanation
Indices: 7697561--7697600 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7697551 TCAAACTTGA
*
7697561 TTAAAATTGATTAAAA-TCAG
1 TTAAAATAGA-TAAAACTCAG
7697581 TTAAAATAGATAAAACTCAG
1 TTAAAATAGATAAAACTCAG
7697601 GTCAACTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (20 bp):
TTAAAATAGATAAAACTCAG
Found at i:7697885 original size:20 final size:20
Alignment explanation
Indices: 7697860--7697901 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7697850 ATTACTAAAA
7697860 TACCTTTAAGGGTATTTTCG
1 TACCTTTAAGGGTATTTTCG
7697880 TACCTTTAAGGGTATTTTCG
1 TACCTTTAAGGGTATTTTCG
7697900 TA
1 TA
7697902 AATTAACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (20 bp):
TACCTTTAAGGGTATTTTCG
Found at i:7699554 original size:21 final size:21
Alignment explanation
Indices: 7699528--7699580 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
7699518 GTGGGAGTTT
* *
7699528 TGGCTAAGCCTCCCTGTGCTA
1 TGGCTAAACCTCCCTATGCTA
7699549 TGGCTAAACCTCCCTATGCTA
1 TGGCTAAACCTCCCTATGCTA
7699570 TGGCTAAACCT
1 TGGCTAAACCT
7699581 TTTTGCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (21 bp):
TGGCTAAACCTCCCTATGCTA
Found at i:7699991 original size:14 final size:14
Alignment explanation
Indices: 7699968--7700005 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
7699958 ATTTTCCATG
7699968 AAACCCTAAATTTC
1 AAACCCTAAATTTC
*
7699982 AAATCCTAAATTTC
1 AAACCCTAAATTTC
7699996 AAACCCTAAA
1 AAACCCTAAA
7700006 CCACTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACCCTAAATTTC
Found at i:7700061 original size:19 final size:18
Alignment explanation
Indices: 7700000--7700075 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
7699990 AATTTCAAAC
**
7700000 CCTAAACCACTTATGAAA
1 CCTAAACCACCCATGAAA
7700018 CCTCAAACCACCCATGAAA
1 CCT-AAACCACCCATGAAA
*
7700037 TCCTAAACCACCCTTGAAA
1 -CCTAAACCACCCATGAAA
* * *
7700056 CACTAAGCTAGCCATGAAA
1 C-CTAAACCACCCATGAAA
7700075 C
1 C
7700076 TACCCTAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.08
19 41 0.85
20 3 0.06
ACGTcount: A:0.41, C:0.34, G:0.08, T:0.17
Consensus pattern (18 bp):
CCTAAACCACCCATGAAA
Found at i:7700176 original size:20 final size:19
Alignment explanation
Indices: 7700120--7700169 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
7700110 ACCTTATCCC
7700120 TAAACCCAAACTCTAAACCT
1 TAAACCCAAA-TCTAAACCT
7700140 TAAACCCTAAATCTAAACCT
1 TAAACCC-AAATCTAAACCT
7700160 TAAAACCCAA
1 T-AAACCCAA
7700170 TCATAAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAACCCAAATCTAAACCT
Found at i:7701346 original size:18 final size:20
Alignment explanation
Indices: 7701325--7701366 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7701315 ATTTCATGTA
7701325 TATTTT-AATTAT-GTCATT
1 TATTTTAAATTATCGTCATT
*
7701343 TATTTTAAATTATCGTTATT
1 TATTTTAAATTATCGTCATT
7701363 TATT
1 TATT
7701367 CTGTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTTAAATTATCGTCATT
Found at i:7705971 original size:2 final size:2
Alignment explanation
Indices: 7705964--7706001 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7705954 TAACTTAAAG
*
7705964 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7706002 ACTATATCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7706100 original size:2 final size:2
Alignment explanation
Indices: 7706093--7706129 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7706083 CAGTTATGTG
7706093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7706130 TAATTTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7709665 original size:365 final size:369
Alignment explanation
Indices: 7708982--7709975 Score: 1782
Period size: 365 Copynumber: 2.7 Consensus size: 369
7708972 TTGGTGCTAG
*
7708982 TGTCACGGACCTAAAGGGGAGTCCTGAATCCCACATCGAACATAATAGGAATGTCCCTGGGGTAT
1 TGTCACGGACCT-AAGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
*
7709047 AAAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGAG
65 AAAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
* * *
7709112 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGC-GGTCAGGCTGATCCGGGACGCC
130 GGGTCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCAGG-AAGGCTGATCTGGGACGCC
*
7709176 GGAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAA
194 GGAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAA
7709241 GTGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAAGGAGGTAGGCAGGG
259 GTGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAAGGAGGTAGGCAGGG
7709306 TGGCCGGCCTCCGTGACGAGGGCGTCACGA-GTT-G-GCGGGAG-A
324 TGGCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGTGCGGGAGAA
*
7709348 TGTCACGGACCTAAGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGGGTCCCTGGGGTATA
1 TGTCACGGACCTAAGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTATA
7709413 AAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGGG
66 AAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGGG
*
7709478 GGTCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCAGGAAGGCTGATCTGGGACGTCGG
131 GGTCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCAGGAAGGCTGATCTGGGACGCCGG
*
7709543 AAGGGTGAATGCCGGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
196 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
* *
7709608 GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCGCCTCGAGGGAGGTAGGCAGGGTG
261 GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAAGGAGGTAGGCAGGGTG
* *
7709673 GCCGGCCTCTGTGACGAGGGTGTCACGAGGTTGGGTGCGGGAGAA
326 GCCGGCCTCCGTGACGAGGGCGTCACGAGGTT-GGTGCGGGAGAA
7709718 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
1 TGTCACGGACCTAA-GGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
*
7709783 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
65 AAAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
*
7709848 GGGTCAGAGCGAACAATACCTCACAAGGGTGTGAACCGTGGCAGGAAGGCTGATCTGGGACGCCG
130 GGGTCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCAGGAAGGCTGATCTGGGACGCCG
7709913 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACA
195 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACA
7709976 CTAGCACCAA
Statistics
Matches: 603, Mismatches: 18, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
365 325 0.54
366 17 0.03
368 1 0.00
369 7 0.01
370 15 0.02
371 238 0.39
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.17
Consensus pattern (369 bp):
TGTCACGGACCTAAGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTATA
AAAGGGTTCACACCATCTCCGTCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGGG
GGTCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCAGGAAGGCTGATCTGGGACGCCGG
AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCGAGCACCTCGAAGGAGGTAGGCAGGGTG
GCCGGCCTCCGTGACGAGGGCGTCACGAGGTTGGTGCGGGAGAA
Found at i:7711434 original size:9 final size:10
Alignment explanation
Indices: 7711407--7711448 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
7711397 TAAATATATC
7711407 AAAATTTTTT
1 AAAATTTTTT
7711417 AAAATTTTTT
1 AAAATTTTTT
*
7711427 AAAATTTTAT
1 AAAATTTTTT
*
7711437 ACAATTTATTT
1 AAAATTT-TTT
7711448 A
1 A
7711449 TATGATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 25 0.89
11 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:7711915 original size:17 final size:18
Alignment explanation
Indices: 7711893--7711926 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7711883 TACAAACATA
7711893 ATATAAATAA-TTAAATG
1 ATATAAATAATTTAAATG
7711910 ATATAAATAATTTAAAT
1 ATATAAATAATTTAAAT
7711927 ATAAATACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATAAATAATTTAAATG
Found at i:7711916 original size:9 final size:9
Alignment explanation
Indices: 7711890--7711927 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7711880 TGATACAAAC
7711890 ATAATATAA
1 ATAATATAA
7711899 ATAAT-TAA
1 ATAATATAA
*
7711907 ATGATATAA
1 ATAATATAA
*
7711916 ATAATTTAA
1 ATAATATAA
7711925 ATA
1 ATA
7711928 TAAATACGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATATAA
Found at i:7712033 original size:19 final size:19
Alignment explanation
Indices: 7712011--7712059 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
7712001 AATACAATAT
7712011 AACATAATTAACACAATTA
1 AACATAATTAACACAATTA
*
7712030 AACATGAA-TAACATAATTA
1 AACAT-AATTAACACAATTA
*
7712049 GACATAATTAA
1 AACATAATTAA
7712060 TTTACTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (19 bp):
AACATAATTAACACAATTA
Found at i:7712055 original size:10 final size:9
Alignment explanation
Indices: 7712010--7712059 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
7712000 CAATACAATA
7712010 TAACATAAT
1 TAACATAAT
*
7712019 TAACACAAT
1 TAACATAAT
7712028 TAAACATGAA-
1 T-AACAT-AAT
7712038 TAACATAAT
1 TAACATAAT
7712047 TAGACATAAT
1 TA-ACATAAT
7712057 TAA
1 TAA
7712060 TTTACTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 2 0.06
9 17 0.49
10 14 0.40
11 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (9 bp):
TAACATAAT
Found at i:7713139 original size:21 final size:21
Alignment explanation
Indices: 7713107--7713151 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7713097 TTAAAACTAT
*
7713107 GTTTGGGATTAGGATTA-ATG
1 GTTTGGGATTAGGATCACATG
*
7713127 GTTTAGGGTTTAGGATCACATG
1 GTTT-GGGATTAGGATCACATG
7713149 GTT
1 GTT
7713152 ATCGAGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.40
Consensus pattern (21 bp):
GTTTGGGATTAGGATCACATG
Found at i:7715767 original size:11 final size:11
Alignment explanation
Indices: 7715751--7715800 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
7715741 TTGAATTATG
*
7715751 AAAAAAAATTA
1 AAAAAAAATGA
7715762 AAAAAAAGATGA
1 AAAAAAA-ATGA
7715774 AAAAGAAAA-GA
1 AAAA-AAAATGA
*
7715785 AAAAAAGATGA
1 AAAAAAAATGA
7715796 AAAAA
1 AAAAA
7715801 TGAGTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.09
11 20 0.59
12 8 0.24
13 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:7715768 original size:12 final size:12
Alignment explanation
Indices: 7715751--7715800 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
7715741 TTGAATTATG
*
7715751 AAAAAAAATTAA
1 AAAAAAAATGAA
*
7715763 AAAAAAGATGAA
1 AAAAAAAATGAA
*
7715775 AAAGAAAA-G-A
1 AAAAAAAATGAA
*
7715785 AAAAAAGATGAA
1 AAAAAAAATGAA
7715797 AAAA
1 AAAA
7715801 TGAGTTGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.23
11 2 0.07
12 21 0.70
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (12 bp):
AAAAAAAATGAA
Found at i:7715776 original size:22 final size:21
Alignment explanation
Indices: 7715748--7715800 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 21
7715738 AGCTTGAATT
7715748 ATGAAAAAAAATTA-AAAAAAAG
1 ATGAAAAAAAA--AGAAAAAAAG
7715770 ATGAAAAAGAAAAGAAAAAAAG
1 ATGAAAAA-AAAAGAAAAAAAG
7715792 ATGAAAAAA
1 ATGAAAAAA
7715801 TGAGTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (21 bp):
ATGAAAAAAAAAGAAAAAAAG
Found at i:7716188 original size:8 final size:8
Alignment explanation
Indices: 7716177--7716244 Score: 118
Period size: 8 Copynumber: 8.5 Consensus size: 8
7716167 AGAAAAAGAA
*
7716177 AAAAAGTT
1 AAAAAGTG
7716185 AAAAAGTG
1 AAAAAGTG
7716193 AAAAAGTG
1 AAAAAGTG
7716201 AAAAAGTG
1 AAAAAGTG
7716209 AAAAAGTG
1 AAAAAGTG
7716217 AAAAAGTG
1 AAAAAGTG
7716225 AAAAAGTG
1 AAAAAGTG
*
7716233 AAAAAGCG
1 AAAAAGTG
7716241 AAAA
1 AAAA
7716245 GGCATGTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 58 1.00
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (8 bp):
AAAAAGTG
Found at i:7716195 original size:24 final size:24
Alignment explanation
Indices: 7716168--7716244 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
7716158 GCAAAATAAA
** *
7716168 GAAAAAGAAAAAAAGTTAAAAAGT
1 GAAAAAGTGAAAAAGTGAAAAAGT
7716192 GAAAAAGTGAAAAAGTGAAAAAGT
1 GAAAAAGTGAAAAAGTGAAAAAGT
*
7716216 GAAAAAGTGAAAAAGTGAAAAAGC
1 GAAAAAGTGAAAAAGTGAAAAAGT
7716240 GAAAA
1 GAAAA
7716245 GGCATGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.66, C:0.01, G:0.22, T:0.10
Consensus pattern (24 bp):
GAAAAAGTGAAAAAGTGAAAAAGT
Found at i:7717870 original size:22 final size:22
Alignment explanation
Indices: 7717815--7717873 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
7717805 CTTACTCTCA
* * *
7717815 AAGACCTCCAAGCATTATCTAT
1 AAGACCTCTAGGCATGATCTAT
7717837 AAGACCTCTAGGCATGATCTAT
1 AAGACCTCTAGGCATGATCTAT
* *
7717859 AAGATCTTTAGGCAT
1 AAGACCTCTAGGCAT
7717874 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (22 bp):
AAGACCTCTAGGCATGATCTAT
Found at i:7718488 original size:153 final size:151
Alignment explanation
Indices: 7718256--7718545 Score: 341
Period size: 153 Copynumber: 1.9 Consensus size: 151
7718246 GTTAAAAATT
* * *
7718256 ATTTATAAAATCTTTGGGCATAATCTCTAAGTCCTCTAGCATGATCTATAAGACCTTCAAGTACC
1 ATTTATAAAATCTTTGGGCATAATCTATAAGACCTCTAGCATGATCTATAAAACCTTCAAGTACC
* ** * * *
7718321 TTTTGTAAATTTTTAAAATTGTGGAGCCTTTATTTTAAAAGAACATTTTTAAAAGTTAAAAATTA
66 TTTTCTAAATTTTTAAAATTACGAAGCCTTTACTTTAAAAGAACATTTTTAAAAGTTAAAAATGA
7718386 TATGTAAAACCTCTAGGTGTA
131 TATGTAAAACCTCTAGGTGTA
* * *
7718407 ATTT-TAAAATCCTTTGGGCATGATCTATAAGACCTCTGAGCATGATCTTTTAAAACC-TCTAGG
1 ATTTATAAAAT-CTTTGGGCATAATCTATAAGACCTCT-AGCATGATC-TATAAAACCTTC-AAG
** * * * * * *
7718470 TATTTTTTCTAAATTTTTAAATTTACGAAGCTTTTGCTTTAAATGAGCATTTTTCAAAGTTAAAA
62 TACCTTTTCTAAATTTTTAAAATTACGAAGCCTTTACTTTAAAAGAACATTTTTAAAAGTTAAAA
*
7718535 ATGATTTGTAA
127 ATGATATGTAA
7718546 GCCTTTTAAA
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
150 6 0.05
151 27 0.24
152 11 0.10
153 70 0.61
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (151 bp):
ATTTATAAAATCTTTGGGCATAATCTATAAGACCTCTAGCATGATCTATAAAACCTTCAAGTACC
TTTTCTAAATTTTTAAAATTACGAAGCCTTTACTTTAAAAGAACATTTTTAAAAGTTAAAAATGA
TATGTAAAACCTCTAGGTGTA
Found at i:7718787 original size:40 final size:40
Alignment explanation
Indices: 7718731--7718815 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
7718721 ATCTTTAAAC
* * * *
7718731 TTTAAAGTTGTGTGCCTTTATATTGAAGGAGCCATTGATT
1 TTTAAAGTTATATGCCTTCATATTGAAGGAGCCATTAATT
* * *
7718771 TTTAAAGTTATATGCCTTCGTGTTGAAGGAGCCCTTAATT
1 TTTAAAGTTATATGCCTTCATATTGAAGGAGCCATTAATT
7718811 TTTAA
1 TTTAA
7718816 TAGTAGGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (40 bp):
TTTAAAGTTATATGCCTTCATATTGAAGGAGCCATTAATT
Found at i:7724504 original size:57 final size:58
Alignment explanation
Indices: 7724441--7724554 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 58
7724431 AAGAACATGA
* * *
7724441 AAATAATAAAAGTTCCAAA-AAATTTTTCAACAAGAG-CTTAAAGGGTGGAGACAATAG
1 AAATAATAAAAGTT-CAAAGAAACTTTTCAACAAGAGTCTTAAAGGGAGGAAACAATAG
*
7724498 AAATAATAAAAGTTCAAAGAAACTTTTCAACAAGAGTTTTAAAGGGAGGAAACAATA
1 AAATAATAAAAGTTCAAAGAAACTTTTCAACAAGAGTCTTAAAGGGAGGAAACAATA
7724555 AGTAAACATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 4 0.08
57 30 0.59
58 17 0.33
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.23
Consensus pattern (58 bp):
AAATAATAAAAGTTCAAAGAAACTTTTCAACAAGAGTCTTAAAGGGAGGAAACAATAG
Found at i:7730773 original size:20 final size:20
Alignment explanation
Indices: 7730748--7730787 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7730738 CTAAATGCTC
* *
7730748 TAAAGTCAAATTTGGTTAAA
1 TAAAGTCAAACTTGATTAAA
7730768 TAAAGTCAAACTTGATTAAA
1 TAAAGTCAAACTTGATTAAA
7730788 ATTGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
TAAAGTCAAACTTGATTAAA
Found at i:7730806 original size:20 final size:20
Alignment explanation
Indices: 7730783--7730822 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7730773 TCAAACTTGA
*
7730783 TTAAAATTGATTAAAA-TCAG
1 TTAAAATAGA-TAAAACTCAG
7730803 TTAAAATAGATAAAACTCAG
1 TTAAAATAGATAAAACTCAG
7730823 GTCAACTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (20 bp):
TTAAAATAGATAAAACTCAG
Found at i:7732750 original size:21 final size:21
Alignment explanation
Indices: 7732724--7732775 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
7732714 TGGGAGTTTC
* *
7732724 GGCTAAGCCTCCCTGTGCTAT
1 GGCTAAACCTCCCTATGCTAT
*
7732745 GGCTAAACCTCTCTATGCTAT
1 GGCTAAACCTCCCTATGCTAT
7732766 GGCTAAACCT
1 GGCTAAACCT
7732776 TTTTGCTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (21 bp):
GGCTAAACCTCCCTATGCTAT
Found at i:7733184 original size:14 final size:14
Alignment explanation
Indices: 7733161--7733198 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
7733151 ATTTTCCATG
7733161 AAACCCTAAATTCC
1 AAACCCTAAATTCC
*
7733175 AAATCCTAAATTCC
1 AAACCCTAAATTCC
7733189 AAACCCTAAA
1 AAACCCTAAA
7733199 CCACTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAATTCC
Found at i:7733248 original size:19 final size:18
Alignment explanation
Indices: 7733193--7733254 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
7733183 AATTCCAAAC
*
7733193 CCTAAACCA-CTTATGAAA
1 CCTAAACCACCCT-TGAAA
**
7733211 CCTCAAACCACCCAAGAAA
1 CCT-AAACCACCCTTGAAA
7733230 TCCTAAACCACCCTTGAAA
1 -CCTAAACCACCCTTGAAA
7733249 CACTAA
1 C-CTAA
7733255 GCTAGCCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.11
19 27 0.77
20 4 0.11
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (18 bp):
CCTAAACCACCCTTGAAA
Found at i:7733338 original size:20 final size:19
Alignment explanation
Indices: 7733313--7733378 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
7733303 ACCTTATCCC
7733313 TAAACCCAAACTCTAAACCT
1 TAAACCCAAA-TCTAAACCT
*
7733333 TAAACCCTAAATCTAAATCT
1 TAAACCC-AAATCTAAACCT
*
7733353 TAAAACCC-AATCATAAACCC
1 T-AAACCCAAATC-TAAACCT
7733373 TAAACC
1 TAAACC
7733379 AAACCCTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.22
20 22 0.55
21 9 0.22
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAACCCAAATCTAAACCT
Found at i:7738408 original size:2 final size:2
Alignment explanation
Indices: 7738401--7738450 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
7738391 CTAATACAAG
* *
7738401 AT AT AT AT AT AT AT AT AT AT AT -T CAT AT AT AC AA AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
7738442 CAT AT AT AT
1 -AT AT AT AT
7738451 TTATCTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
1 2 0.05
2 36 0.88
3 3 0.07
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7739321 original size:4 final size:4
Alignment explanation
Indices: 7739312--7739368 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
7739302 CAGTTATGTG
* * * * *
7739312 TATA TATA TATA TATA TTTA TTTA TTTA TTTA TATA T-TA -ATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
7739358 TATA TATA TAT
1 TATA TATA TAT
7739369 TAATTTTGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (4 bp):
TATA
Found at i:7739347 original size:20 final size:20
Alignment explanation
Indices: 7739314--7739374 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
7739304 GTTATGTGTA
*
7739314 TATATATATATATATTTATT
1 TATATATATATATATTAATT
* *
7739334 TATTTATTTATATATTAATT
1 TATATATATATATATTAATT
7739354 TATATATATATATATTAATT
1 TATATATATATATATTAATT
7739374 T
1 T
7739375 TGCTAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATATATATATATTAATT
Found at i:7743067 original size:17 final size:18
Alignment explanation
Indices: 7743045--7743078 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7743035 TACAAACACA
7743045 ATATAAATAA-TTAAATG
1 ATATAAATAATTTAAATG
7743062 ATATAAATAATTTAAAT
1 ATATAAATAATTTAAAT
7743079 ATAAATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATAAATAATTTAAATG
Found at i:7743204 original size:10 final size:10
Alignment explanation
Indices: 7743163--7743211 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
7743153 AATACAATAT
7743163 AACATAATT-
1 AACATAATTA
**
7743172 AACACGATTA
1 AACATAATTA
7743182 AACATGAA-T-
1 AACAT-AATTA
7743191 AACATAATTA
1 AACATAATTA
7743201 AACATAATTA
1 AACATAATTA
7743211 A
1 A
7743212 TTTATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
8 2 0.06
9 13 0.41
10 16 0.50
11 1 0.03
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (10 bp):
AACATAATTA
Found at i:7746911 original size:11 final size:11
Alignment explanation
Indices: 7746897--7746935 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7746887 AAAAAATAAA
7746897 AAAAAAAGATG
1 AAAAAAAGATG
*
7746908 AAAAAGAA-AAG
1 AAAAA-AAGATG
7746919 AAAAAAAGATG
1 AAAAAAAGATG
7746930 AAAAAA
1 AAAAAA
7746936 TGAGTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (11 bp):
AAAAAAAGATG
Found at i:7746911 original size:14 final size:13
Alignment explanation
Indices: 7746885--7746925 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
7746875 TTGAATTATG
7746885 AAAAAAA-ATAAA
1 AAAAAAAGATAAA
7746897 AAAAAAAGATGAAA
1 AAAAAAAGAT-AAA
*
7746911 AAGAAAAGA-AAA
1 AAAAAAAGATAAA
7746923 AAA
1 AAA
7746926 GATGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 12 0.48
13 2 0.08
14 11 0.44
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (13 bp):
AAAAAAAGATAAA
Found at i:7746922 original size:22 final size:23
Alignment explanation
Indices: 7746882--7746935 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
7746872 AGCTTGAATT
7746882 ATGAAAAAAAATAAAAAAAAAAG
1 ATGAAAAAAAATAAAAAAAAAAG
* *
7746905 ATGAAAAAGAA-AAGAAAAAAAG
1 ATGAAAAAAAATAAAAAAAAAAG
7746927 ATGAAAAAA
1 ATGAAAAAA
7746936 TGAGTTGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (23 bp):
ATGAAAAAAAATAAAAAAAAAAG
Found at i:7747328 original size:23 final size:24
Alignment explanation
Indices: 7747302--7747353 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
7747292 GCAAAATAAA
7747302 GAAAAAGAAAAAAAGTG-AAAAGT
1 GAAAAAGAAAAAAAGTGAAAAAGT
**
7747325 GAAAAAGTGAAAAAGTGAAAAAGT
1 GAAAAAGAAAAAAAGTGAAAAAGT
7747349 GAAAA
1 GAAAA
7747354 GGCATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (24 bp):
GAAAAAGAAAAAAAGTGAAAAAGT
Found at i:7747354 original size:7 final size:8
Alignment explanation
Indices: 7747311--7747353 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
7747301 AGAAAAAGAA
7747311 AAAAAGTG
1 AAAAAGTG
7747319 -AAAAGTG
1 AAAAAGTG
7747326 AAAAAGTG
1 AAAAAGTG
7747334 AAAAAGTG
1 AAAAAGTG
7747342 AAAAAGTG
1 AAAAAGTG
7747350 AAAA
1 AAAA
7747354 GGCATGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (8 bp):
AAAAAGTG
Found at i:7748962 original size:22 final size:22
Alignment explanation
Indices: 7748937--7748984 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7748927 CATACTTTCA
*
7748937 AAGACCT-TCAAGCATTATCTAT
1 AAGACCTCT-AAGCATGATCTAT
*
7748959 AAGACCTCTAGGCATGATCTAT
1 AAGACCTCTAAGCATGATCTAT
7748981 AAGA
1 AAGA
7748985 TCTTTAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (22 bp):
AAGACCTCTAAGCATGATCTAT
Found at i:7748992 original size:22 final size:22
Alignment explanation
Indices: 7748948--7748995 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7748938 AGACCTTCAA
*
7748948 GCATTATCTATAAGACCTCTAG
1 GCATGATCTATAAGACCTCTAG
* *
7748970 GCATGATCTATAAGATCTTTAG
1 GCATGATCTATAAGACCTCTAG
7748992 GCAT
1 GCAT
7748996 AATTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
GCATGATCTATAAGACCTCTAG
Found at i:7749586 original size:23 final size:22
Alignment explanation
Indices: 7749541--7749586 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
7749531 CTCAAAATCT
* *
7749541 TTTGGGCATGATCTATAAGACC
1 TTTGAGCATGATCTATAAAACC
*
7749563 TTTGAGCATGATCTTTTAAAACC
1 TTTGAGCATGATC-TATAAAACC
7749586 T
1 T
7749587 CTAGGCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (22 bp):
TTTGAGCATGATCTATAAAACC
Found at i:7750257 original size:13 final size:14
Alignment explanation
Indices: 7750234--7750268 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
7750224 TAAATTATAC
7750234 TTATGTTTATTGATT
1 TTAT-TTTATTGATT
7750249 TT-TTTTATTGATT
1 TTATTTTATTGATT
7750262 TTATTTT
1 TTATTTT
7750269 TTATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.63
14 5 0.26
15 2 0.11
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (14 bp):
TTATTTTATTGATT
Found at i:7751794 original size:13 final size:13
Alignment explanation
Indices: 7751778--7751810 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
7751768 TTTATTTTTG
7751778 TCTTTTTCAAAAT
1 TCTTTTTCAAAAT
7751791 TC-TTTTCAAAAT
1 TCTTTTTCAAAAT
7751803 TGCTTTTT
1 T-CTTTTT
7751811 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 3 0.17
14 4 0.22
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.58
Consensus pattern (13 bp):
TCTTTTTCAAAAT
Found at i:7751798 original size:12 final size:13
Alignment explanation
Indices: 7751781--7751809 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7751771 ATTTTTGTCT
7751781 TTTTCAAAATT-C
1 TTTTCAAAATTGC
7751793 TTTTCAAAATTGC
1 TTTTCAAAATTGC
7751806 TTTT
1 TTTT
7751810 TTTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.55
Consensus pattern (13 bp):
TTTTCAAAATTGC
Found at i:7751952 original size:56 final size:54
Alignment explanation
Indices: 7751887--7751995 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 54
7751877 TCTAAATTTC
* * *
7751887 AAACTTTCCAATGTGTTGGTAA-TTTTTTTTTTATGTTTTTTTAAAACTTATTTTTT
1 AAACCTTCCAATATGTTGGTAAGATTTTTTTTTA--TTTTTTTAAAA-TTATTTTTT
7751943 AAACCTTCCAATATGTTGGTAAGATTTTTTTTTATTTTTTTAAAATTATTTTT
1 AAACCTTCCAATATGTTGGTAAGATTTTTTTTTATTTTTTTAAAATTATTTTT
7751996 AAAAAACCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 8 0.16
55 11 0.22
56 20 0.41
57 10 0.20
ACGTcount: A:0.26, C:0.07, G:0.08, T:0.59
Consensus pattern (54 bp):
AAACCTTCCAATATGTTGGTAAGATTTTTTTTTATTTTTTTAAAATTATTTTTT
Found at i:7752003 original size:56 final size:55
Alignment explanation
Indices: 7751853--7752003 Score: 153
Period size: 56 Copynumber: 2.6 Consensus size: 55
7751843 GTTGATAAGG
** * * *
7751853 TTTTTTATTTTTCAAAAATTATTTTCTAAATTTCAAACTTTCCAATGTGTTGGTAATTTT
1 TTTTTTATTTTTTTAAAATTATTTT-TAAA----AAACCTTCCAATATGTTGGTAAATTT
*
7751913 TTTTTTATGTTTTTTTAAAACTTATTTTT--TAAACCTTCCAATATGTTGGTAAGATTT
1 TTTTTTA--TTTTTTTAAAA-TTATTTTTAAAAAACCTTCCAATATGTTGGTAA-ATTT
7751970 TTTTTTATTTTTTTAAAATTATTTTTAAAAAACC
1 TTTTTTATTTTTTTAAAATTATTTTTAAAAAACC
7752004 CTTTTATAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
54 8 0.10
55 11 0.14
56 25 0.32
57 10 0.13
60 7 0.09
62 10 0.13
63 7 0.09
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (55 bp):
TTTTTTATTTTTTTAAAATTATTTTTAAAAAACCTTCCAATATGTTGGTAAATTT
Found at i:7753055 original size:16 final size:16
Alignment explanation
Indices: 7753034--7753149 Score: 60
Period size: 16 Copynumber: 6.8 Consensus size: 16
7753024 TTAAACAAAG
*
7753034 ATAATATAAATAATAA
1 ATAATATAAAAAATAA
7753050 ATAATA-AAACAAATAA
1 ATAATATAAA-AAATAA
7753066 A-AATATAATAAAATAAA
1 ATAATATAA-AAAAT-AA
*
7753083 ATAATGGTAAAATACATATA
1 ATAAT-ATAAAA-A-ATA-A
7753103 AGTAAT-TAAAAAATGAAA
1 A-TAATATAAAAAAT--AA
* *
7753121 ATAACATAAATAAATAGG
1 ATAATATAAA-AAATA-A
7753139 ATAATA-AAAAA
1 ATAATATAAAAA
7753150 TGAAGATAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 30
0.70 0.04 0.26
Matches are distributed among these distances:
15 7 0.09
16 20 0.25
17 13 0.16
18 17 0.21
19 15 0.19
20 4 0.05
21 4 0.05
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (16 bp):
ATAATATAAAAAATAA
Found at i:7753075 original size:20 final size:19
Alignment explanation
Indices: 7753041--7753078 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7753031 AAGATAATAT
*
7753041 AAATAATAAATAATAAAAC
1 AAATAAAAAATAATAAAAC
7753060 AAATAAAAATATAATAAAA
1 AAATAAAAA-ATAATAAAA
7753079 TAAAATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAAAATAATAAAAC
Found at i:7753102 original size:30 final size:28
Alignment explanation
Indices: 7753068--7753134 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
7753058 ACAAATAAAA
7753068 ATATAATAAAATAAAATAATGGTAAAAT-AC
1 ATATAATAAAATAAAA-AAT-G-AAAATAAC
*
7753098 ATATAAGT-AATTAAAAAATGAAAATAAC
1 ATATAA-TAAAATAAAAAATGAAAATAAC
7753126 ATA-AATAAA
1 ATATAATAAA
7753135 TAGGATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
26 1 0.03
27 9 0.27
28 6 0.18
29 3 0.09
30 13 0.39
31 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (28 bp):
ATATAATAAAATAAAAAATGAAAATAAC
Found at i:7753149 original size:28 final size:27
Alignment explanation
Indices: 7753118--7753216 Score: 69
Period size: 28 Copynumber: 3.5 Consensus size: 27
7753108 TTAAAAAATG
7753118 AAAATAACATAAATA-AATAGGAT-AATAA
1 AAAATAACATAAA-AGAA-A-GATAAATAA
*
7753146 AAAATGAAGATAAAAGAAAGATAAATAA
1 AAAAT-AACATAAAAGAAAGATAAATAA
* * *
7753174 AAAATAATGATAAAA-ACAATGATAAAGAT
1 AAAATAA-CATAAAAGA-AA-GATAAATAA
*
7753203 AAAATAAAATAAAA
1 AAAATAACATAAAA
7753217 ATAAAAATGG
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.52
29 23 0.38
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (27 bp):
AAAATAACATAAAAGAAAGATAAATAA
Found at i:7753189 original size:29 final size:28
Alignment explanation
Indices: 7753141--7753217 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
7753131 TAAATAGGAT
*
7753141 AATAAAAAATGAAGAT-AAAAGAAAGATA
1 AATAAAAAAT-AAGATAAAAACAAAGATA
*
7753169 AATAAAAAATAATGATAAAAACAATGATA
1 AATAAAAAATAA-GATAAAAACAAAGATA
* * *
7753198 AAGATAAAATAAAATAAAAA
1 AATAAAAAATAAGATAAAAA
7753218 TAAAAATGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 20 0.48
29 20 0.48
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (28 bp):
AATAAAAAATAAGATAAAAACAAAGATA
Found at i:7753239 original size:28 final size:28
Alignment explanation
Indices: 7753200--7753261 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
7753190 CAATGATAAA
*
7753200 GATAAAATAAAATAAAAAT-AAAAATGG
1 GATAAAAAAAAATAAAAATAAAAAATGG
*
7753227 GATAAAACAAAAATAAAAATACAAAAATTG
1 GATAAAA-AAAAATAAAAATA-AAAAATGG
7753257 GATAA
1 GATAA
7753262 TCGAGCATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 7 0.23
28 11 0.37
30 12 0.40
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (28 bp):
GATAAAAAAAAATAAAAATAAAAAATGG
Found at i:7758183 original size:18 final size:18
Alignment explanation
Indices: 7758160--7758196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7758150 TGACTCTCAA
7758160 CTTTCCCCAATGGGTCAC
1 CTTTCCCCAATGGGTCAC
*
7758178 CTTTCCTCAATGGGTCAC
1 CTTTCCCCAATGGGTCAC
7758196 C
1 C
7758197 AAACTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.38, G:0.16, T:0.30
Consensus pattern (18 bp):
CTTTCCCCAATGGGTCAC
Found at i:7759235 original size:30 final size:30
Alignment explanation
Indices: 7759201--7759274 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
7759191 GATACATGTA
* *
7759201 AAATACACAATTCAAGAAATTACAATAATC
1 AAATACACAATTCAAGAAAATAAAATAATC
* * * *
7759231 AAATACATAACTCAATAAAATAAAATAATT
1 AAATACACAATTCAAGAAAATAAAATAATC
7759261 AAATAATCACAATT
1 AAAT-A-CACAATT
7759275 TAATCAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 28 0.82
31 1 0.03
32 5 0.15
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.26
Consensus pattern (30 bp):
AAATACACAATTCAAGAAAATAAAATAATC
Found at i:7760813 original size:89 final size:90
Alignment explanation
Indices: 7760699--7761015 Score: 292
Period size: 89 Copynumber: 3.6 Consensus size: 90
7760689 TTTGAATAAC
* * * * *
7760699 ATAAAAGGCACCTCTAAATAAAGGCTCAATAACTTTTGAAAAAAATATAAAAGGCTCATC-TCAT
1 ATAAAAGGCACATCTCAACAGAGGCTCAATAACTTTT--AAAAAATATAAAAGGCTCATCTTAAT
7760763 CAAAGACTCAACAAC-TTT-AAAAAAAT
64 -AAAGACTCAACAACATTTGAAAAAAAT
* * *
7760789 ATAAAAGGCACATTTC-ACAGAGGCTCAACAACTTTT-AAAAATATAAAAGGCTCCTCTTAATAA
1 ATAAAAGGCACATCTCAACAGAGGCTCAATAACTTTTAAAAAATATAAAAGGCTCATCTTAATAA
* *
7760852 AGGCTCAATAACATTTGAAAAAAAT
66 AGACTCAACAACATTTGAAAAAAAT
* * * * * *
7760877 ATAAAATGCTCATCTCAATAGAGACTCAATAAC-TTTAAAAAATATAAAAGGCTCCTTTTAAT-A
1 ATAAAAGGCACATCTCAACAGAGGCTCAATAACTTTTAAAAAATATAAAAGGCTCATCTTAATAA
* *
7760940 GGAGCAT-AACAACTTTTGAAAAAAAAT
66 AGA-C-TCAACAACATTTG-AAAAAAAT
* * * * * * *
7760967 ATAAAATGCTCCTATCAACAAAGGCTCAACAA-TTTTAAAAAACATAAAA
1 ATAAAAGGCACATCTCAACAGAGGCTCAATAACTTTTAAAAAATATAAAA
7761016 TGCTTGTTTC
Statistics
Matches: 190, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
86 31 0.16
87 6 0.03
88 26 0.14
89 64 0.34
90 63 0.33
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (90 bp):
ATAAAAGGCACATCTCAACAGAGGCTCAATAACTTTTAAAAAATATAAAAGGCTCATCTTAATAA
AGACTCAACAACATTTGAAAAAAAT
Found at i:7760951 original size:132 final size:133
Alignment explanation
Indices: 7760699--7761038 Score: 372
Period size: 132 Copynumber: 2.6 Consensus size: 133
7760689 TTTGAATAAC
* * *
7760699 ATAAAAGGCACCTCTAAATAAAGGCTCAATAACTTTTGAAAAAAATATAAAAGGCTCATCTC-AT
1 ATAAAAGGCTCCTCTAAATAAAGGCTCAATAACATTTGAAAAAAATATAAAATGCTCATCTCAAT
* *
7760763 CAAAGACTCAACAACTTTAAAAAAATATAAAAGGCACATTTCACAGAGGCTCAACAACTTTT-AA
66 -AGAGACTCAACAACTTTAAAAAAATATAAAAGGCACATTTAACAGAGGCTCAACAACTTTTAAA
7760827 AAAT
130 AAAT
*
7760831 ATAAAAGGCTCCTCTTAATAAAGGCTCAATAACATTTGAAAAAAATATAAAATGCTCATCTCAAT
1 ATAAAAGGCTCCTCTAAATAAAGGCTCAATAACATTTGAAAAAAATATAAAATGCTCATCTCAAT
* * * *
7760896 AGAGACTCAATAACTTT-AAAAAATATAAAAGGCTCCTTTTAATAG-GAGCAT-AACAACTTTTG
66 AGAGACTCAACAACTTTAAAAAAATATAAAAGGC-ACATTTAACAGAG-GC-TCAACAACTTTT-
7760958 AAAAAAAAT
127 --AAAAAAT
* * * * * * * ** *
7760967 ATAAAATGCTCCTATCAACAAAGGCTCAA-CA-ATTT-TAAAAAACATAAAATGCTTGTTTCAAT
1 ATAAAAGGCTCCTCTAAATAAAGGCTCAATAACATTTGAAAAAAATATAAAATGCTCATCTCAAT
*
7761029 AGAGGCTCAA
66 AGAGACTCAA
7761039 AAGAAGGTCA
Statistics
Matches: 179, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
131 17 0.09
132 92 0.51
133 34 0.19
134 4 0.02
135 1 0.01
136 31 0.17
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (133 bp):
ATAAAAGGCTCCTCTAAATAAAGGCTCAATAACATTTGAAAAAAATATAAAATGCTCATCTCAAT
AGAGACTCAACAACTTTAAAAAAATATAAAAGGCACATTTAACAGAGGCTCAACAACTTTTAAAA
AAT
Found at i:7760954 original size:43 final size:44
Alignment explanation
Indices: 7760699--7761038 Score: 246
Period size: 43 Copynumber: 7.7 Consensus size: 44
7760689 TTTGAATAAC
* * * *
7760699 ATAAAAGGCACCTCTAAATAAAGGCTCAATAACTTTTGAAAAAAAT
1 ATAAAAGGCTCCTCTTAATAGAGGCTCAACAAC-TTT-AAAAAAAT
* * * *
7760745 ATAAAAGGCTCATC-TCATCAAAGACTCAACAACTTTAAAAAAAT
1 ATAAAAGGCTCCTCTTAAT-AGAGGCTCAACAACTTTAAAAAAAT
* * * * *
7760789 ATAAAAGGCACAT-TTCACAGAGGCTCAACAACTTT-TAAAAAT
1 ATAAAAGGCTCCTCTTAATAGAGGCTCAACAACTTTAAAAAAAT
* *
7760831 ATAAAAGGCTCCTCTTAATAAAGGCTCAATAACATTTGAAAAAAAT
1 ATAAAAGGCTCCTCTTAATAGAGGCTCAACAAC-TTT-AAAAAAAT
* * * * *
7760877 ATAAAATGCTCATCTCAATAGAGACTCAATAACTTT-AAAAAAT
1 ATAAAAGGCTCCTCTTAATAGAGGCTCAACAACTTTAAAAAAAT
*
7760920 ATAAAAGGCTCCTTTTAATAG-GAGCAT-AACAACTTTTGAAAAAAAAT
1 ATAAAAGGCTCCTCTTAATAGAG-GC-TCAACAAC-TTT--AAAAAAAT
* * * * * * *
7760967 ATAAAATGCTCCTATCAACAAAGGCTCAACAA-TTTTAAAAAAC
1 ATAAAAGGCTCCTCTTAATAGAGGCTCAACAACTTTAAAAAAAT
* **
7761010 ATAAAATGCTTGT-TTCAATAGAGGCTCAA
1 ATAAAAGGCTCCTCTT-AATAGAGGCTCAA
7761039 AAGAAGGTCA
Statistics
Matches: 238, Mismatches: 41, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
42 19 0.08
43 88 0.37
44 30 0.13
45 11 0.05
46 59 0.25
47 30 0.13
48 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (44 bp):
ATAAAAGGCTCCTCTTAATAGAGGCTCAACAACTTTAAAAAAAT
Found at i:7761030 original size:90 final size:89
Alignment explanation
Indices: 7760772--7761030 Score: 242
Period size: 90 Copynumber: 2.9 Consensus size: 89
7760762 TCAAAGACTC
* * * * * * *
7760772 AACAAC-TTT-AAAAAAATATAAAAGGCACATTTC-ACAGAGGCTCAACAACTTTTAAAAATATA
1 AACAACTTTTGAAAAAAATATAAAATGCTCATATCAACAAAGACTCAACAACTTTAAAAAACATA
*
7760834 AAAGGCTCCTCTT-AATA-AAGGC-T
66 AAAGGCTCCT-TTCAATAGGA-GCAT
* * * * * * *
7760857 CAATAACATTTGAAAAAAATATAAAATGCTCATCTCAATAGAGACTCAATAACTTTAAAAAATAT
1 -AACAACTTTTGAAAAAAATATAAAATGCTCATATCAACAAAGACTCAACAACTTTAAAAAACAT
*
7760922 AAAAGGCTCCTTTTAATAGGAGCAT
65 AAAAGGCTCCTTTCAATAGGAGCAT
* * *
7760947 AACAACTTTTGAAAAAAAATATAAAATGCTCCTATCAACAAAGGCTCAACAATTTTAAAAAACAT
1 AACAACTTTTG-AAAAAAATATAAAATGCTCATATCAACAAAGACTCAACAACTTTAAAAAACAT
* **
7761012 AAAATGCTTGTTTCAATAG
65 AAAAGGCTCCTTTCAATAG
7761031 AGGCTCAAAA
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
86 5 0.03
87 3 0.02
88 23 0.16
89 50 0.35
90 62 0.43
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.27
Consensus pattern (89 bp):
AACAACTTTTGAAAAAAATATAAAATGCTCATATCAACAAAGACTCAACAACTTTAAAAAACATA
AAAGGCTCCTTTCAATAGGAGCAT
Found at i:7770226 original size:46 final size:46
Alignment explanation
Indices: 7770176--7770295 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
7770166 TGTGAATCTT
** ***
7770176 TAAAATTTTTTGAATGAGAATCTTTGAAATTTTGGATAG-GAGTTCC
1 TAAAATTTTTCAAATGAGAATCTTTGAAATTTTGGAT-GTGAAAACC
7770222 TAAAATTTTTCAAATGTA-AATCTTTGAAATTTTGGATGTGAAAACC
1 TAAAATTTTTCAAATG-AGAATCTTTGAAATTTTGGATGTGAAAACC
7770268 TAAAATTTTTCAAATGAGAATCTTTGAA
1 TAAAATTTTTCAAATGAGAATCTTTGAA
7770296 TTCTGGAGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 2 0.03
46 63 0.95
47 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (46 bp):
TAAAATTTTTCAAATGAGAATCTTTGAAATTTTGGATGTGAAAACC
Found at i:7770489 original size:17 final size:17
Alignment explanation
Indices: 7770469--7770540 Score: 108
Period size: 17 Copynumber: 4.2 Consensus size: 17
7770459 ACAAATTTGA
7770469 AAACCTTAAATTCTTGC
1 AAACCTTAAATTCTTGC
*
7770486 AAACCTTATATTCTTGC
1 AAACCTTAAATTCTTGC
*
7770503 AAATCTTAAATTCTTGC
1 AAACCTTAAATTCTTGC
* *
7770520 AAACCTAAAATTCTTAC
1 AAACCTTAAATTCTTGC
7770537 AAAC
1 AAAC
7770541 TTGAAATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (17 bp):
AAACCTTAAATTCTTGC
Found at i:7770547 original size:17 final size:17
Alignment explanation
Indices: 7770476--7770589 Score: 101
Period size: 17 Copynumber: 6.8 Consensus size: 17
7770466 TGAAAACCTT
7770476 AAATTCTTGCAAACCTT-
1 AAATTCTTGCAAA-CTTG
*
7770493 ATATTCTTGCAAATCTT-
1 AAATTCTTGCAAA-CTTG
* *
7770510 AAATTCTTGCAAACCTA
1 AAATTCTTGCAAACTTG
*
7770527 AAATTCTTACAAACTTG
1 AAATTCTTGCAAACTTG
7770544 AAA-TCTTG-AGAACTTG
1 AAATTCTTGCA-AACTTG
**
7770560 AAGCTCTTGCAAACTTG
1 AAATTCTTGCAAACTTG
* *
7770577 AAGTTCCTGCAAA
1 AAATTCTTGCAAA
7770590 ACTTAGATCT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
15 1 0.01
16 14 0.17
17 66 0.80
18 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (17 bp):
AAATTCTTGCAAACTTG
Found at i:7770659 original size:16 final size:17
Alignment explanation
Indices: 7770640--7770676 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
7770630 AAGTCTTCCA
7770640 AATGTG-AATTCTTATG
1 AATGTGAAATTCTTATG
7770656 AATGTGAAAATTCTTATG
1 AATGTG-AAATTCTTATG
7770674 AAT
1 AAT
7770677 TTTTGGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
18 13 0.68
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (17 bp):
AATGTGAAATTCTTATG
Found at i:7770755 original size:35 final size:35
Alignment explanation
Indices: 7770716--7770859 Score: 138
Period size: 35 Copynumber: 4.2 Consensus size: 35
7770706 ACAAATCTAG
*
7770716 AACCTCTGTAAAACTTGAAATCTTTAAGAATTTGA
1 AACCTCTGTAAAACTTGAAATCTTTATGAATTTGA
* * *
7770751 AACCTCTG-AAAATTTCAAAAATC-TTATGAATCTGA
1 AACCTCTGTAAAACTT--GAAATCTTTATGAATTTGA
* * *
7770786 AACCTCTATAAAACTTGGAATCTTTGTGAATTTGA
1 AACCTCTGTAAAACTTGAAATCTTTATGAATTTGA
* * *
7770821 AACCTCTGT--GAC-TGGAATCTTT-TGAATCTGA
1 AACCTCTGTAAAACTTGAAATCTTTATGAATTTGA
7770852 AACCTCTG
1 AACCTCTG
7770860 AGAATCTTGA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
31 16 0.17
32 10 0.11
33 2 0.02
34 10 0.11
35 43 0.47
36 11 0.12
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (35 bp):
AACCTCTGTAAAACTTGAAATCTTTATGAATTTGA
Found at i:7770776 original size:70 final size:70
Alignment explanation
Indices: 7770697--7770828 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
7770687 TTATGAAACT
* *
7770697 AAAATTCTTACAAATCT-AGAACCTCTGTAAAACTTGAAATCTTTAAGAATTTGAAACCTCTGAA
1 AAAAATCTTACAAATCTGA-AACCTCTATAAAACTTGAAATCTTTAAGAATTTGAAACCTCTGAA
7770761 AATTTC
65 AATTTC
** * **
7770767 AAAAATCTTATGAATCTGAAACCTCTATAAAACTTGGAATCTTTGTGAATTTGAAACCTCTG
1 AAAAATCTTACAAATCTGAAACCTCTATAAAACTTGAAATCTTTAAGAATTTGAAACCTCTG
7770829 TGACTGGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (70 bp):
AAAAATCTTACAAATCTGAAACCTCTATAAAACTTGAAATCTTTAAGAATTTGAAACCTCTGAAA
ATTTC
Found at i:7771267 original size:43 final size:43
Alignment explanation
Indices: 7771132--7771330 Score: 183
Period size: 43 Copynumber: 4.6 Consensus size: 43
7771122 TATTTAAAGT
* * *
7771132 TTTTAAAGTTGTTTAACCTTTGTATAGAGGAGCCTATTTCTTA
1 TTTTAAAATTGTTTAACCTCTGTATAGAAGAGCCTATTTCTTA
* * * * *
7771175 ATGTAAAATTATTTTAGCCTCTGTATA-AATGAGCCTATTTTTTAA
1 TTTTAAAATT-GTTTAACCTCTGTATAGAA-GAGCCTATTTCTT-A
* ** *
7771220 TTTTAAAGTTGTTTAGGCTCTATATAGAAGAG-CTCATTTCTTA
1 TTTTAAAATTGTTTAACCTCTGTATAGAAGAGCCT-ATTTCTTA
7771263 TTTTAAAATTGTTTAACCTCTGTATAG-AGAAG-CTCATTTCTTA
1 TTTTAAAATTGTTTAACCTCTGTATAGAAG-AGCCT-ATTTCTTA
* *
7771306 CTTTAAATTTGTTT-ACCTCTGTATA
1 TTTTAAAATTGTTTAACCTCTGTATA
7771331 AGTAGTTTAA
Statistics
Matches: 129, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
42 13 0.10
43 59 0.46
44 47 0.36
45 10 0.08
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (43 bp):
TTTTAAAATTGTTTAACCTCTGTATAGAAGAGCCTATTTCTTA
Found at i:7772430 original size:98 final size:97
Alignment explanation
Indices: 7772254--7772440 Score: 227
Period size: 98 Copynumber: 1.9 Consensus size: 97
7772244 ATATTTAAAT
7772254 AAAAACCTTACCAACAAATTGGAAGGCAATTACTTTTTTAAAAAAATAAAGTTTTACCAACATAT
1 AAAAACCTTACCAACAAATTGGAAGGCAATTACTTTTTTAAAAAAATAAAGTTTTACCAACATAT
7772319 TGAAAAATGTTATAACCTTTTTTTATTAAAAAA
66 TGAAAAATGTTATAA-CTTTTTTTATTAAAAAA
* * *** * *
7772352 AAAAATCTTACCAACAAATTGGATGGTCAA-TA-TTTTATTTTTAAAATAAGGTTTTACCAATAT
1 AAAAACCTTACCAACAAATTGGAAGG-CAATTACTTTT-TTAAAAAAATAAAGTTTTACCAACAT
** *
7772415 ATTGGAAAGCT-TTATAATTTTTTTTA
64 ATT-GAAAAATGTTATAACTTTTTTTA
7772441 AACAATCAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
97 12 0.16
98 56 0.74
99 8 0.11
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (97 bp):
AAAAACCTTACCAACAAATTGGAAGGCAATTACTTTTTTAAAAAAATAAAGTTTTACCAACATAT
TGAAAAATGTTATAACTTTTTTTATTAAAAAA
Found at i:7775037 original size:5 final size:5
Alignment explanation
Indices: 7775027--7775111 Score: 75
Period size: 5 Copynumber: 16.4 Consensus size: 5
7775017 ATGAGCAGTG
* *
7775027 AAATA AAATA AAGAT- AAATA AAATA AAATA AATACA AAATA ATGAT-
1 AAATA AAATA AA-ATA AAATA AAATA AAATA AA-ATA AAATA A-AATA
* *
7775073 ACATA AAATA AATATA AAATA GAATA AAATA ATAATA AA
1 AAATA AAATA AA-ATA AAATA AAATA AAATA A-AATA AA
7775112 TACAATGGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.06
5 44 0.67
6 18 0.27
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:7775099 original size:31 final size:30
Alignment explanation
Indices: 7775027--7775104 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
7775017 ATGAGCAGTG
7775027 AAATAAAATAAAGATAAATAAAATAAAATA
1 AAATAAAATAAAGATAAATAAAATAAAATA
* * *
7775057 AATACAAAATAATGATACATAAAATAAATATA
1 AA-ATAAAATAAAGATAAATAAAATAAA-ATA
*
7775089 AAATAGAATAAA-ATAA
1 AAATAAAATAAAGATAA
7775105 TAATAAATAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 5 0.13
31 29 0.74
32 5 0.13
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.22
Consensus pattern (30 bp):
AAATAAAATAAAGATAAATAAAATAAAATA
Found at i:7775113 original size:31 final size:30
Alignment explanation
Indices: 7775027--7775113 Score: 79
Period size: 36 Copynumber: 2.7 Consensus size: 30
7775017 ATGAGCAGTG
*
7775027 AAATAAAATAA-AGATAAATAAAATAAAAT
1 AAATAAAATAATACATAAATAAAATAAAAT
7775056 AAATACAAAATAATGATACATAAAATAAATATAAAAT
1 AAAT--AAAAT-A--ATACAT-AAATAAA-ATAAAAT
7775093 AGAATAAAATAATA-ATAAATA
1 A-AATAAAATAATACATAAATA
7775114 CAATGGTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
29 4 0.08
31 10 0.21
32 3 0.06
33 3 0.06
34 1 0.02
35 4 0.08
36 12 0.25
37 8 0.17
38 3 0.06
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATAAAATAATACATAAATAAAATAAAAT
Found at i:7776477 original size:54 final size:55
Alignment explanation
Indices: 7776417--7776529 Score: 201
Period size: 55 Copynumber: 2.1 Consensus size: 55
7776407 GTGAAGAAAG
*
7776417 AAAAAATTAACTGAAAAAATATTA-TTTTCTTAAGAATGAAACTGTAATAATAAT
1 AAAAAATAAACTGAAAAAATATTATTTTTCTTAAGAATGAAACTGTAATAATAAT
*
7776471 AAAAAATAAACTGAAAAAATATTATTTTTCTTAAGAATGAAATTGTAATAATAAT
1 AAAAAATAAACTGAAAAAATATTATTTTTCTTAAGAATGAAACTGTAATAATAAT
7776526 AAAA
1 AAAA
7776530 TATATTTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 23 0.41
55 33 0.59
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (55 bp):
AAAAAATAAACTGAAAAAATATTATTTTTCTTAAGAATGAAACTGTAATAATAAT
Found at i:7776881 original size:30 final size:30
Alignment explanation
Indices: 7776846--7776915 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
7776836 ATTTAAGATG
7776846 AAAATTTTTTGAATTTTCAAAATCTTACAT
1 AAAATTTTTTGAATTTTCAAAATCTTACAT
** * *
7776876 AAAATTACTTGAATTTTTAATATCTTACAT
1 AAAATTTTTTGAATTTTCAAAATCTTACAT
*
7776906 AAATTTTTTT
1 AAAATTTTTT
7776916 AAAAGGATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (30 bp):
AAAATTTTTTGAATTTTCAAAATCTTACAT
Found at i:7777185 original size:31 final size:31
Alignment explanation
Indices: 7777147--7777206 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
7777137 TTATAATTTG
7777147 AAAATTATCTAATTTTTTAAAAAACTATCAA
1 AAAATTATCTAATTTTTTAAAAAACTATCAA
* *
7777178 AAAATTATCTTATTTTTTTAAAAACTATC
1 AAAATTATCTAATTTTTTAAAAAACTATC
7777207 CTATGTGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (31 bp):
AAAATTATCTAATTTTTTAAAAAACTATCAA
Found at i:7777284 original size:2 final size:2
Alignment explanation
Indices: 7777273--7777301 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7777263 TGTATGTTGT
7777273 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7777302 AGATTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7778419 original size:72 final size:72
Alignment explanation
Indices: 7778338--7778477 Score: 176
Period size: 72 Copynumber: 1.9 Consensus size: 72
7778328 AATAAAAATA
* * *
7778338 AAAATAACCTAAAACGTTAATAATACAAAT-TTAAATGA-CAAGTTTTTCTCTTTTCAACATTAT
1 AAAATAACCTAAAACGTTAATAATAAAAATCTAAAATGATC-A-TTTTACTCTTTTCAACATTAT
7778401 AAAATGACT
64 AAAATGACT
** * **
7778410 AAAATAACCTAAATTGTTACTAATAAAAATCTAAAATGATCATTTTACTCTTTTCAGTATTATAA
1 AAAATAACCTAAAACGTTAATAATAAAAATCTAAAATGATCATTTTACTCTTTTCAACATTATAA
7778475 AAT
66 AAT
7778478 AATTATTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 49 0.84
73 8 0.14
74 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (72 bp):
AAAATAACCTAAAACGTTAATAATAAAAATCTAAAATGATCATTTTACTCTTTTCAACATTATAA
AATGACT
Found at i:7779292 original size:20 final size:18
Alignment explanation
Indices: 7779255--7779298 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
7779245 ATAAATTGAT
*
7779255 AGATAAAATATTTTAATA
1 AGATAAAATATATTAATA
7779273 AGATAACAATTATATTAATA
1 AGATAA-AA-TATATTAATA
7779293 ATGATA
1 A-GATA
7779299 CCAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 10 0.45
21 4 0.18
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (18 bp):
AGATAAAATATATTAATA
Found at i:7779831 original size:23 final size:25
Alignment explanation
Indices: 7779805--7779852 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
7779795 TTTTAAATTT
7779805 TGAAATA-TTTTAAAAATTA-AAAA
1 TGAAATATTTTTAAAAATTATAAAA
*
7779828 TGAACTATTTTTAAAAATTATAAAA
1 TGAAATATTTTTAAAAATTATAAAA
7779853 AAAATTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
TGAAATATTTTTAAAAATTATAAAA
Found at i:7780139 original size:19 final size:18
Alignment explanation
Indices: 7780081--7780147 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
7780071 AAACATTATG
7780081 AAAAATT-AAAAA-TTTT
1 AAAAATTAAAAAATTTTT
*
7780097 AAAAATCTAAAATATTTTT
1 AAAAAT-TAAAAAATTTTT
7780116 AAAAATTAAAAAATTTTCTT
1 AAAAATTAAAAAA-TTT-TT
*
7780136 AAAAAATAAAAA
1 AAAAATTAAAAA
7780148 TAAATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 10 0.23
19 13 0.30
20 13 0.30
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTAAAAAATTTTT
Found at i:7780148 original size:19 final size:20
Alignment explanation
Indices: 7780105--7780147 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7780095 TTAAAAATCT
*
7780105 AAAATATTTTTAAAAATTAA
1 AAAATATTTTTAAAAAATAA
7780125 AAAAT-TTTCTTAAAAAATAA
1 AAAATATTT-TTAAAAAATAA
7780145 AAA
1 AAA
7780148 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATTTTTAAAAAATAA
Found at i:7780318 original size:21 final size:20
Alignment explanation
Indices: 7780262--7780320 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
7780252 ATTTAAAAAA
*
7780262 AAAAAGATTTTACAATTTTTT
1 AAAAA-ATTTTAAAATTTTTT
*
7780283 --AAAATTATT-ATATTTTTT
1 AAAAAATT-TTAAAATTTTTT
7780301 CAAAAAATTTTAAAATTTTT
1 -AAAAAATTTTAAAATTTTT
7780321 AATTTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 10 0.33
19 5 0.17
20 2 0.07
21 13 0.43
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAAAATTTTAAAATTTTTT
Found at i:7780468 original size:27 final size:26
Alignment explanation
Indices: 7780437--7780503 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
7780427 AAATTTTGAG
*
7780437 TTTTTTTGAAT-TTTTA-AGTTTTCATA
1 TTTTTTTAAATATTTTATA-TTTT-ATA
7780463 TATTTTTTAAATATTTTATATTTTATA
1 T-TTTTTTAAATATTTTATATTTTATA
*
7780490 TTTTTTAAAATATT
1 TTTTTTTAAATATT
7780504 CAAAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 13 0.36
27 13 0.36
28 9 0.25
29 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTTTTAAATATTTTATATTTTATA
Found at i:7780548 original size:12 final size:11
Alignment explanation
Indices: 7780524--7780557 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
7780514 AAAAATTCTT
7780524 AATTTTTTT-A
1 AATTTTTTTAA
7780534 AATTTTTTTAGA
1 AATTTTTTTA-A
7780546 AATTTTTTTAA
1 AATTTTTTTAA
7780557 A
1 A
7780558 TGTTGACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 2 0.09
12 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:7783147 original size:30 final size:30
Alignment explanation
Indices: 7783111--7783193 Score: 166
Period size: 30 Copynumber: 2.8 Consensus size: 30
7783101 AGTATTAGGG
7783111 TTAACTCAGTGCTTAAAATTTTATACCACC
1 TTAACTCAGTGCTTAAAATTTTATACCACC
7783141 TTAACTCAGTGCTTAAAATTTTATACCACC
1 TTAACTCAGTGCTTAAAATTTTATACCACC
7783171 TTAACTCAGTGCTTAAAATTTTA
1 TTAACTCAGTGCTTAAAATTTTA
7783194 AGATCTTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (30 bp):
TTAACTCAGTGCTTAAAATTTTATACCACC
Found at i:7791941 original size:10 final size:11
Alignment explanation
Indices: 7791921--7791965 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
7791911 ATAAATTGGA
7791921 TTAAAATAATT
1 TTAAAATAATT
7791932 TTAAAA-AA-T
1 TTAAAATAATT
*
7791941 TTAAAATAATA
1 TTAAAATAATT
*
7791952 ATAAAA-AATT
1 TTAAAATAATT
7791962 TTAA
1 TTAA
7791966 TTCTATCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
9 7 0.25
10 10 0.36
11 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAATAATT
Found at i:7791946 original size:20 final size:20
Alignment explanation
Indices: 7791921--7791962 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7791911 ATAAATTGGA
**
7791921 TTAAAATAATTTTAAAAAAT
1 TTAAAATAATAATAAAAAAT
7791941 TTAAAATAATAATAAAAAAT
1 TTAAAATAATAATAAAAAAT
7791961 TT
1 TT
7791963 TAATTCTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAATAATAATAAAAAAT
Found at i:7800391 original size:4 final size:4
Alignment explanation
Indices: 7800384--7800408 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7800374 ATATATATAT
7800384 ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG A
7800409 GTATTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:7802777 original size:238 final size:239
Alignment explanation
Indices: 7802340--7802823 Score: 715
Period size: 238 Copynumber: 2.0 Consensus size: 239
7802330 CTTAAGCTGC
* *
7802340 TATAGTGATCAAATCATTTAATTGCATTTTAGCTCAATAATCTCAGGGTTCATCAAGAAATTTCA
1 TATAGTGATCAAATAATTTAATTGCATTTTAGCTCAATAATCTCAGAGTTCATCAAGAAATTTCA
*
7802405 GTTCTAGCAATTTAGCTCTTAAAATTTTGACTTATTATTTTAACTTTCAAGTTTTAGTTTTATCA
66 G-T-TAG------AGCTCTTAAAATTTTGACTTACTATTTTAACTTTCAAGTTTTAGTTTTATCA
* *
7802470 AAAGTAATCAGAAATTAAATATTTATGGCTAAATATGTTAACCACAAATAATAGGCAACCTTTTA
123 AAAGCAATCAGAAATTAAATATTTATGACTAAATATGTTAACCACAAATAATAGGCAACCTTTTA
*
7802535 TTTAATTGCTTGCAAAATGCAAGTGAATGCTCCGTTTGTATGTGCTAGTTGT
188 TTTAATTGCTTGCAAAATGCAAGTGAATGCTCCATTTGTATGTGCTAGTTGT
*
7802587 TATAGTGATCAAATAATTTAGTTGCATTTTAGCTCAATAATCTCAGAGTTCATCAAGAAATTTCA
1 TATAGTGATCAAATAATTTAATTGCATTTTAGCTCAATAATCTCAGAGTTCATCAAGAAATTTCA
* *
7802652 G-TAG-G-TCTTAAAATTTTGACTTACTATTTTAACTTTCCAGTTTTTGTTTTATCAAAAAGCAA
66 GTTAGAGCTCTTAAAATTTTGACTTACTATTTTAACTTTCAAGTTTTAGTTTTATC-AAAAGCAA
*
7802714 CTCAGAAATTAAATATTTACT-ACTAAATATGTTAACCACAAATAATAGGCAATCTTTTATTTAA
130 -TCAGAAATTAAATATTTA-TGACTAAATATGTTAACCACAAATAATAGGCAACCTTTTATTTAA
* * * *
7802778 TTGCTTGCAAAGTGCAAGTGAATGCTCTATTTGTATTTGCTCGTTG
193 TTGCTTGCAAAATGCAAGTGAATGCTCCATTTGTATGTGCTAGTTG
7802824 CTTTAACAGT
Statistics
Matches: 220, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
236 45 0.20
237 8 0.04
238 100 0.45
239 1 0.00
244 3 0.01
247 63 0.29
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (239 bp):
TATAGTGATCAAATAATTTAATTGCATTTTAGCTCAATAATCTCAGAGTTCATCAAGAAATTTCA
GTTAGAGCTCTTAAAATTTTGACTTACTATTTTAACTTTCAAGTTTTAGTTTTATCAAAAGCAAT
CAGAAATTAAATATTTATGACTAAATATGTTAACCACAAATAATAGGCAACCTTTTATTTAATTG
CTTGCAAAATGCAAGTGAATGCTCCATTTGTATGTGCTAGTTGT
Found at i:7809973 original size:32 final size:32
Alignment explanation
Indices: 7809932--7809995 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7809922 GAAGAAGAAT
7809932 ATGAAGCGTAGAAATGGAGGAGGGGAAGGGGC
1 ATGAAGCGTAGAAATGGAGGAGGGGAAGGGGC
7809964 ATGAAGCGTAGAAATGGAGGAGGGGAAGGGGC
1 ATGAAGCGTAGAAATGGAGGAGGGGAAGGGGC
7809996 CTTGCGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.50, T:0.09
Consensus pattern (32 bp):
ATGAAGCGTAGAAATGGAGGAGGGGAAGGGGC
Found at i:7810851 original size:16 final size:16
Alignment explanation
Indices: 7810832--7810877 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
7810822 ACGTAATATC
*
7810832 TAAAACCAAATTAGTT
1 TAAAACCAAATAAGTT
*
7810848 TAAAA-CAAA-AAGTC
1 TAAAACCAAATAAGTT
*
7810862 TAAAACCAAATGAGTT
1 TAAAACCAAATAAGTT
7810878 CTTCAACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (16 bp):
TAAAACCAAATAAGTT
Found at i:7810871 original size:15 final size:16
Alignment explanation
Indices: 7810830--7810872 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
7810820 ACACGTAATA
*
7810830 TCTAAAACCAAATTAG
1 TCTAAAACCAAATAAG
*
7810846 TTTAAAA-CAAA-AAG
1 TCTAAAACCAAATAAG
7810860 TCTAAAACCAAAT
1 TCTAAAACCAAAT
7810873 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.36
15 8 0.36
16 6 0.27
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (16 bp):
TCTAAAACCAAATAAG
Found at i:7819430 original size:21 final size:20
Alignment explanation
Indices: 7819405--7819481 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 20
7819395 TGCCTCCACA
7819405 TCAAGATAACTTTATGTCAAG
1 TCAAG-TAACTTTATGTCAAG
* *
7819426 TCAAGTCATCTTTATGTCTAG
1 TCAAGT-AACTTTATGTCAAG
* *
7819447 TC---TACCTTTA-GTCGAG
1 TCAAGTAACTTTATGTCAAG
*
7819463 TCATGATAACTTTATGTCA
1 TCAAG-TAACTTTATGTCA
7819482 TGAGTCATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 7 0.16
17 6 0.14
18 1 0.02
20 8 0.18
21 22 0.50
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TCAAGTAACTTTATGTCAAG
Found at i:7819487 original size:23 final size:23
Alignment explanation
Indices: 7819460--7819504 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7819450 ACCTTTAGTC
7819460 GAGTCATGATAACTTTATGTCAT
1 GAGTCATGATAACTTTATGTCAT
** *
7819483 GAGTCATTTTTACTTTATGTCA
1 GAGTCATGATAACTTTATGTCA
7819505 AAATAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (23 bp):
GAGTCATGATAACTTTATGTCAT
Found at i:7822257 original size:9 final size:10
Alignment explanation
Indices: 7822183--7822257 Score: 53
Period size: 11 Copynumber: 7.0 Consensus size: 10
7822173 GTTAAAAGAG
*
7822183 AATGATAAAA
1 AATGAAAAAA
7822193 AATGTAAAAAA
1 AATG-AAAAAA
7822204 AATGCAAAAAA
1 AATG-AAAAAA
*
7822215 AAAGAAAAAAGTGA
1 AATG-AAAAA---A
**
7822229 AATGAAATGA
1 AATGAAAAAA
7822239 AATGAAAAAA
1 AATGAAAAAA
7822249 AAT-AAAAAA
1 AATGAAAAAA
7822258 TAAATTAATG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 6 0.12
10 16 0.31
11 23 0.44
13 3 0.06
14 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.12, T:0.13
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:7822439 original size:13 final size:13
Alignment explanation
Indices: 7822416--7822455 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
7822406 TGAGAGATGT
7822416 GAAACAAAAAAAAG
1 GAAA-AAAAAAAAG
*
7822430 GAAAAAAAAAGAG
1 GAAAAAAAAAAAG
7822443 GAAAAAGAAAAAA
1 GAAAAA-AAAAAA
7822456 TTAAACTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAG
Done.