Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 42 of 77
Found at i:8332028 original size:12 final size:12
Alignment explanation
Indices: 8332000--8332039 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8331990 AGTTAAAGAA
*
8332000 AAATCAAAATAAA
1 AAATCAAAAT-AG
8332013 AAATCAAAATAG
1 AAATCAAAATAG
*
8332025 AAATCAGAATAG
1 AAATCAAAATAG
8332037 AAA
1 AAA
8332040 GGAAGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAATCAAAATAG
Found at i:8332165 original size:57 final size:56
Alignment explanation
Indices: 8332071--8332692 Score: 762
Period size: 57 Copynumber: 10.7 Consensus size: 56
8332061 TTGTGTAGGA
**
8332071 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTAAAAATA-TTTTTTGGAAATTTATTTCTAAGG
*
8332128 AAAATTGATACTTTTAACTTTTTCCTAAAAATATTTTTTGGAAATTTA-TTCTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTGGAAATTTATTTC-TAAGG
* * *
8332185 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTGAGG
1 AAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* * *
8332242 AAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* *
8332299 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* * *
8332356 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGA
1 AAAATTGATACTTTCAACTTTTCCT-AAAAATA-TTTTTTGGAAA-TTT-ATTTCTAAGG
* * *
8332416 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAA--T-ATTTTTTGGAAATTTATTTCTAAGG
* *
8332476 AAAATTGATACTTTCAATTTTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAA--CTTTTCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* * *
8332534 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTTTGAAACTTTGATCT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAATA---TTTTTTGGAAA-TTT-ATTTCTAAGG
* * * *
8332595 AAAATTGGTACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-AAAAA--TATTTTTTGGAAATTTATTTCTAAGG
8332654 AAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTC-CTAAAAATATTTTTT
8332693 TTGGAAAATT
Statistics
Matches: 500, Mismatches: 42, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
56 14 0.03
57 233 0.47
58 66 0.13
59 38 0.08
60 84 0.17
61 45 0.09
62 19 0.04
63 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:8332737 original size:16 final size:15
Alignment explanation
Indices: 8332716--8332893 Score: 66
Period size: 16 Copynumber: 11.4 Consensus size: 15
8332706 TTTTTATTTG
*
8332716 AAAAAAATA-GAATA
1 AAAAAAATATAAATA
8332730 ATAAAAAATATAAATAAA
1 A-AAAAAATATAAAT--A
* *
8332748 AAATAAAAAATAAAGA
1 AAA-AAAATATAAATA
* *
8332764 AAAGTAAAACAAAAATA
1 AAA--AAAATATAAATA
8332781 AAAATAAA-ACTAAGATA
1 AAAA-AAATA-TAA-ATA
*
8332798 AAAAGAATATTAAATA
1 AAAAAAATA-TAAATA
*
8332814 AACCAAATATAATAAAT-
1 AA--AAAAAT-ATAAATA
8332831 AAAAAAA-ATAAATA
1 AAAAAAATATAAATA
*
8332845 AACAAATAA-ACAAATA
1 AA-AAA-AATATAAATA
* *
8332861 AAAAACAT-TCAA-A
1 AAAAAAATATAAATA
*
8332874 GAAAAAA-ATAAATA
1 AAAAAAATATAAATA
8332888 AAAAAA
1 AAAAAA
8332894 CCTGGAGCGG
Statistics
Matches: 125, Mismatches: 20, Indels: 38
0.68 0.11 0.21
Matches are distributed among these distances:
13 15 0.12
14 12 0.10
15 20 0.16
16 29 0.23
17 28 0.22
18 20 0.16
19 1 0.01
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAAAAATATAAATA
Found at i:8332755 original size:18 final size:18
Alignment explanation
Indices: 8332734--8332863 Score: 56
Period size: 17 Copynumber: 7.2 Consensus size: 18
8332724 AGAATAATAA
8332734 AAAATATAAATAAAAAAT
1 AAAATATAAATAAAAAAT
* * *
8332752 AAAAAATAAA-GAAAAGT
1 AAAATATAAATAAAAAAT
* *
8332769 AAAACAAAAAT-AAAAAT
1 AAAATATAAATAAAAAAT
* *
8332786 AAAACTA-AGAT-AAAAAG
1 AAAA-TATAAATAAAAAAT
*
8332803 AATAT-TAAATAAACCAAAT
1 AAAATATAAATAAA--AAAT
* *
8332822 ATAATA-AATAAAAAAAAT
1 AAAATATAA-ATAAAAAAT
* *
8332840 AAATAAACAAATAAACAAAT
1 AAA-ATATAAATAAA-AAAT
8332860 AAAA
1 AAAA
8332864 AACATTCAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
16 4 0.05
17 35 0.42
18 16 0.19
19 15 0.18
20 13 0.16
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATATAAATAAAAAAT
Found at i:8332759 original size:27 final size:26
Alignment explanation
Indices: 8332717--8332865 Score: 92
Period size: 27 Copynumber: 5.5 Consensus size: 26
8332707 TTTTATTTGA
*
8332717 AAAAAATAGAATAATAAAAAATATAAAT
1 AAAAAATA-AAAAATAAAAAA-ATAAAT
8332745 AAAAAATAAAAAATAAAGAAAAGTAAA-
1 AAAAAATAAAAAATAAA-AAAA-TAAAT
8332772 ACAAAAAT-AAAAATAAAACTAAGAT-AA-
1 A-AAAAATAAAAAATAAAA--AA-ATAAAT
* ** *
8332799 AAAGAATATTAAATAAACCAAATATAAT
1 AAAAAATAAAAAATAAA-AAAATA-AAT
* * *
8332827 AAATAA-AAAAAATAAATAAACAAAT
1 AAAAAATAAAAAATAAAAAAATAAAT
8332852 AAACAAATAAAAAA
1 AAA-AAATAAAAAA
8332866 CATTCAAAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
25 8 0.08
26 14 0.14
27 45 0.46
28 29 0.30
29 1 0.01
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (26 bp):
AAAAAATAAAAAATAAAAAAATAAAT
Found at i:8332783 original size:17 final size:17
Alignment explanation
Indices: 8332718--8332801 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 17
8332708 TTTATTTGAA
*
8332718 AAAAATAGAATAATAAAAA
1 AAAAATA-AA-AATAAAAC
8332737 ATATAAATAAAAAATAAAA-
1 A-A-AAAT-AAAAATAAAAC
* *
8332756 AATAAAGAAAAGTAAAAC
1 AA-AAATAAAAATAAAAC
8332774 AAAAATAAAAATAAAAC
1 AAAAATAAAAATAAAAC
* *
8332791 TAAGATAAAAA
1 AAAAATAAAAA
8332802 GAATATTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
17 31 0.56
18 7 0.13
19 2 0.04
20 8 0.15
21 6 0.11
22 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAATAAAAC
Found at i:8332853 original size:8 final size:8
Alignment explanation
Indices: 8332809--8332862 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
8332799 AAAGAATATT
8332809 AAATAAACC
1 AAATAAA-C
*
8332818 AAATATAAT
1 AAATA-AAC
8332827 AAAT-AA-
1 AAATAAAC
*
8332833 AAA-AAAT
1 AAATAAAC
8332840 AAATAAAC
1 AAATAAAC
8332848 AAATAAAC
1 AAATAAAC
8332856 AAATAAA
1 AAATAAA
8332863 AAACATTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 5 0.13
7 5 0.13
8 18 0.46
9 9 0.23
10 2 0.05
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (8 bp):
AAATAAAC
Found at i:8332882 original size:23 final size:20
Alignment explanation
Indices: 8332832--8332890 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
8332822 ATAATAAATA
* *
8332832 AAAAAAATAAATAAACAAAT
1 AAAAAAATAAAAAAACAAAG
*
8332852 AAACAAATAAAAAACATTCAAAG
1 AAAAAAATAAAAAA-A--CAAAG
8332875 AAAAAAATAAATAAAA
1 AAAAAAATAAA-AAAA
8332891 AAACCTGGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
23 15 0.48
24 3 0.10
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAAAATAAAAAAACAAAG
Found at i:8333220 original size:19 final size:19
Alignment explanation
Indices: 8333196--8333240 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8333186 GAACACTGGT
*
8333196 GCCGGATTCTGAAAATTTC
1 GCCGGAATCTGAAAATTTC
*
8333215 GCCGGAATCTGGAAATTTC
1 GCCGGAATCTGAAAATTTC
*
8333234 GTCGGAA
1 GCCGGAA
8333241 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (19 bp):
GCCGGAATCTGAAAATTTC
Found at i:8333339 original size:31 final size:31
Alignment explanation
Indices: 8333296--8333363 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
8333286 GGGCAGGTCA
* * * *
8333296 CCGGAAACTTCAATTTTCGCTGGAATTATTG
1 CCGGAAAATTCAAATTTCACCGGAATTATTG
*
8333327 CCGGAAAATTCAAATTTCACCGGAATTTTTG
1 CCGGAAAATTCAAATTTCACCGGAATTATTG
*
8333358 TCGGAA
1 CCGGAA
8333364 TCTGGAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (31 bp):
CCGGAAAATTCAAATTTCACCGGAATTATTG
Found at i:8333729 original size:21 final size:22
Alignment explanation
Indices: 8333705--8333749 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8333695 AAAACTAGAT
8333705 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
8333726 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
8333748 AA
1 AA
8333750 AATAATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:8333763 original size:23 final size:22
Alignment explanation
Indices: 8333714--8333828 Score: 58
Period size: 23 Copynumber: 5.0 Consensus size: 22
8333704 TAATTAGAAA
* *
8333714 AGATAAAT-AAAAAATTATTAT
1 AGATAAATAAAAAAAATAATAT
8333735 AGGATAAATAAAAAAAATAATAT
1 A-GATAAATAAAAAAAATAATAT
* * *
8333758 CAGATATATAATTAGATAAATAAAAAT
1 -AGATAAATAA--A-AAAAAT-AATAT
* * *
8333785 ACAAAAATAAATAAAATAA-A-
1 AGATAAATAAAAAAAATAATAT
8333805 AGATAAA-AAATAAAAATATATAT
1 AGATAAATAAA-AAAAATA-ATAT
8333828 A
1 A
8333829 TATTACTAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
19 3 0.04
20 11 0.16
21 3 0.04
22 10 0.14
23 24 0.34
24 2 0.03
25 1 0.01
26 12 0.17
27 4 0.06
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (22 bp):
AGATAAATAAAAAAAATAATAT
Found at i:8333794 original size:14 final size:13
Alignment explanation
Indices: 8333775--8333822 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
8333765 ATAATTAGAT
*
8333775 AAATAAAAATACAA
1 AAATAAAAA-ATAA
8333789 AAATAAATAAAATAA
1 AAAT-AA-AAAATAA
8333804 AAGATAAAAAATAA
1 AA-ATAAAAAATAA
8333818 AAATA
1 AAATA
8333823 TATATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 13 0.43
15 9 0.30
16 5 0.17
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:8333798 original size:22 final size:23
Alignment explanation
Indices: 8333775--8333818 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
8333765 ATAATTAGAT
8333775 AAATAAAA-ATACAAAAATAAATA
1 AAATAAAAGATA-AAAAATAAATA
8333798 AAATAAAAGATAAAAAATAAA
1 AAATAAAAGATAAAAAATAAA
8333819 AATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (23 bp):
AAATAAAAGATAAAAAATAAATA
Found at i:8333888 original size:12 final size:12
Alignment explanation
Indices: 8333871--8333905 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
8333861 TAGGATATAC
8333871 ATAAAATATAAA
1 ATAAAATATAAA
8333883 ATAAAATA-AAA
1 ATAAAATATAAA
8333894 ATAAAA-ATAAA
1 ATAAAATATAAA
8333905 A
1 A
8333906 ATGACAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:8333896 original size:6 final size:6
Alignment explanation
Indices: 8333873--8333907 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
8333863 GGATATACAT
8333873 AAAATA TAAAAT- AAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAAT
8333908 GACAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8334091 original size:9 final size:9
Alignment explanation
Indices: 8334071--8334125 Score: 65
Period size: 9 Copynumber: 5.7 Consensus size: 9
8334061 ATTGTCTTTC
8334071 TTTTTTGATT
1 TTTTTTG-TT
*
8334081 TTTTGTTTTT
1 TTTT-TTGTT
8334091 TTTTTGGTGTT
1 TTTTT--TGTT
8334102 TTTTTTGTT
1 TTTTTTGTT
8334111 TTTTTTGTT
1 TTTTTTGTT
8334120 TTTTTT
1 TTTTTT
8334126 TTTACCAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 20 0.50
10 10 0.25
11 10 0.25
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:8334229 original size:41 final size:41
Alignment explanation
Indices: 8334172--8334587 Score: 586
Period size: 39 Copynumber: 10.3 Consensus size: 41
8334162 TTGAGATACA
8334172 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
* *
8334213 TAAATTACTCCTCTAAACAGAGGCACCACGACTTTGGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAG
* *
8334255 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
8334296 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAG
*
8334338 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
*
8334379 TAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAG
*
8334418 TAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAG
*
8334457 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
* *
8334498 TAAATTACTCCTCTAAACAGAGG--CAACGAAC-TTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAG
* *
8334537 TAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAG
8334576 TAAATTGCTCCT
1 TAAATTGCTCCT
8334588 AGACAATCAT
Statistics
Matches: 352, Mismatches: 16, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
39 133 0.38
40 6 0.02
41 133 0.38
42 80 0.23
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (41 bp):
TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAG
Found at i:8334276 original size:83 final size:82
Alignment explanation
Indices: 8334135--8334587 Score: 610
Period size: 83 Copynumber: 5.6 Consensus size: 82
8334125 TTTTACCAAA
* * * * *
8334135 GCTCCTCTAAATAGAGACTCAACGACTTTGAGATACA-TAAATTGCTCCTCTAAACAGAGGTACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GA-AAAGTAAATTGCTCCTCTAAACAGAGG-ACC
8334199 ACGACTTTGAAAAGTAAATT
63 ACGACTTTGAAAAGTAAATT
*
8334219 ACTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCAC
*
8334284 GACTTTGGAAAGTAAATT
65 GACTTTGAAAAGTAAATT
*
8334302 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCAC
*
8334367 GACTTTGGAAAGTAAATT
65 GACTTTGAAAAGTAAATT
*
8334385 GCTCCTCTAAACAGAGGCA--ACGAAC-TT-GAAAAGTAAATTGCTCCTCTAAACAGAGG-CAAC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCAC
8334445 GAAC-TTGAAAAGTAAATT
65 G-ACTTTGAAAAGTAAATT
* * *
8334463 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATTACTCCTCTAAACAGAGG-CAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG
8334526 AAC-TTGAAAAGTAAATT
66 -ACTTTGAAAAGTAAATT
8334543 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGG-AAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGCTCCT
8334588 AGACAATCAT
Statistics
Matches: 343, Mismatches: 18, Indels: 22
0.90 0.05 0.06
Matches are distributed among these distances:
78 57 0.17
79 6 0.02
80 100 0.29
81 6 0.02
82 4 0.01
83 145 0.42
84 25 0.07
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG
ACTTTGAAAAGTAAATT
Found at i:8334482 original size:119 final size:120
Alignment explanation
Indices: 8334172--8334587 Score: 653
Period size: 119 Copynumber: 3.4 Consensus size: 120
8334162 TTGAGATACA
* * *
8334172 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGG-ACAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGT
*
8334237 ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAG
65 ACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAAC-TTGAAAAG
*
8334296 TAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGG-ACAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
8334361 TACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGAAAAG
64 TACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGAAAAG
8334418 TAAATTGCTCCTCTAAACAGAGG-CAACGAAC-TTGAAAAGTAAATTGCTCCTCTAAACAGAGGT
1 TAAATTGCTCCTCTAAACAGAGGACAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGT
*
8334481 ACCACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGCAACGAACTTGAAAAG
65 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGAAAAG
*
8334537 TAAATTGCTCCTCTAAACAGAGG-CAACGAAC-TTGGAAAGTAAATTGCTCCT
1 TAAATTGCTCCTCTAAACAGAGGACAACG-ACTTTGAAAAGTAAATTGCTCCT
8334588 AGACAATCAT
Statistics
Matches: 283, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
119 135 0.48
120 6 0.02
121 2 0.01
122 33 0.12
123 2 0.01
124 64 0.23
125 41 0.14
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (120 bp):
TAAATTGCTCCTCTAAACAGAGGACAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTA
CCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGAAAAG
Found at i:8335818 original size:17 final size:15
Alignment explanation
Indices: 8335798--8335865 Score: 75
Period size: 16 Copynumber: 4.4 Consensus size: 15
8335788 TTTGAATCTC
*
8335798 TTTTTTATTTTCTTAT
1 TTTTTTTTTTTCTT-T
8335814 TTTTTCTTTTTTCTTT
1 TTTTT-TTTTTTCTTT
*
8335830 TTTTTTGTTTTT-TCT
1 TTTTTT-TTTTTCTTT
*
8335845 TTTATTTTTTTCTTT
1 TTTTTTTTTTTCTTT
8335860 TTTTTT
1 TTTTTT
8335866 CATCATCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.11
15 15 0.34
16 16 0.36
17 8 0.18
ACGTcount: A:0.04, C:0.07, G:0.01, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTCTTT
Found at i:8335876 original size:23 final size:24
Alignment explanation
Indices: 8335805--8335885 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 24
8335795 CTCTTTTTTA
* * **
8335805 TTTTCTTATTTTTTCTTTTTTCTT
1 TTTTCTTTTTTTTTCTATCATCTT
* *
8335829 TTTT-TTTGTTTTTTCTTTTAT-TT
1 TTTTCTTT-TTTTTTCTATCATCTT
8335852 TTTTCTTTTTTTTTC-ATCATCTT
1 TTTTCTTTTTTTTTCTATCATCTT
*
8335875 TTTTCATTTTT
1 TTTTCTTTTTT
8335886 CATCCATTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 3 0.06
23 27 0.55
24 19 0.39
ACGTcount: A:0.06, C:0.11, G:0.01, T:0.81
Consensus pattern (24 bp):
TTTTCTTTTTTTTTCTATCATCTT
Found at i:8335885 original size:1 final size:1
Alignment explanation
Indices: 8335798--8335865 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
8335788 TTTGAATCTC
* * * * * * * * *
8335798 TTTTTTATTTTCTTATTTTTTCTTTTTTCTTTTTTTTTGTTTTTTCTTTTATTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8335863 TTT
1 TTT
8335866 CATCATCTTT
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.04, C:0.07, G:0.01, T:0.87
Consensus pattern (1 bp):
T
Found at i:8339697 original size:13 final size:13
Alignment explanation
Indices: 8339679--8339704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8339669 TTAGTTAAAG
8339679 AAAAATCAAAATA
1 AAAAATCAAAATA
8339692 AAAAATCAAAATA
1 AAAAATCAAAATA
8339705 GAAATTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:8339848 original size:57 final size:56
Alignment explanation
Indices: 8339750--8340315 Score: 704
Period size: 57 Copynumber: 9.7 Consensus size: 56
8339740 TTTTGTGTAG
**
8339750 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAATA-TTTTTTGGAAATTTATTTCTAA
* *
8339807 GGAAAATTGATAATTTCAACTTTTTCCTAAAAATATATTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
* * *
8339864 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTGGAAATTTATTTCTAA
* * *
8339921 GGAAAATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAA-CTTTTCCTAAAAATATTTTTTGGAAATTTATTTCTAA
* *
8339978 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAATA-TTTTTTGGAAA-TTT-ATTTCTAA
* * *
8340038 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAA--T-ATTTTTTGGAAATTTATTTCTAA
*
8340098 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTAAAAATATTTTTTGGAAATTTATTTCTAA
* *
8340155 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATCT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAATA---TTTTTTGGAAA-TTT-ATTTCTAA
* * * *
8340216 GGAAAATTGGTACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAA--TATTTTTTGGAAATTTATTTCTAA
8340275 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTT
8340316 TTGGAAAATT
Statistics
Matches: 450, Mismatches: 36, Indels: 46
0.85 0.07 0.09
Matches are distributed among these distances:
56 19 0.04
57 209 0.46
58 32 0.07
59 36 0.08
60 93 0.21
61 47 0.10
62 13 0.03
63 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:8340131 original size:177 final size:174
Alignment explanation
Indices: 8339750--8340315 Score: 867
Period size: 177 Copynumber: 3.2 Consensus size: 174
8339740 TTTTGTGTAG
*
8339750 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATT
* * * *
8339815 GATAATTTCAACTTTTTCCT-AAAAATA-TATTTTGGAAA-TTT-ATTCTTAAGGAAAATTGATA
65 GATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGAAACTTTGATT-TCAAGGAAAATTGATA
* * *
8339876 CTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTCTGA
128 CTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTCTAA
* *
8339921 GGAAAATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAA-CTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
8339986 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATAC
65 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTT-CAAGGAAAATTGATAC
*
8340051 TTTCAACTTTTCCTCAAAAATCTCTTTTTTTGAAAATTTATTTTTAA
129 TTTCAACTTTTCCTCAAAAATCTC-TTTTTTGAAAATTTATTTCTAA
8340098 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
*
8340163 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATCTT-AAGGAAAATTGGT
65 GATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTTGAAACTTTGAT-TTCAAGGAAAATTGAT
*
8340227 ACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAA
127 ACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTCTAA
8340275 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTT
8340316 TTGGAAAATT
Statistics
Matches: 365, Mismatches: 16, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
170 7 0.02
171 66 0.18
172 22 0.06
173 4 0.01
174 37 0.10
176 8 0.02
177 162 0.44
178 38 0.10
179 19 0.05
180 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCAAGGAAAATTGATACTT
TCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTCTAA
Found at i:8340371 original size:10 final size:10
Alignment explanation
Indices: 8340349--8340383 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
8340339 AAGAAAATAG
8340349 AATAATAAAA
1 AATAATAAAA
8340359 AAT-ATAAATA
1 AATAATAAA-A
8340369 AATAATAAAA
1 AATAATAAAA
8340379 AATAA
1 AATAA
8340384 AGAAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAATAAAA
Found at i:8340374 original size:20 final size:21
Alignment explanation
Indices: 8340343--8340382 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
8340333 TATTTGAAGA
8340343 AAATAGAATAATAAAAAATAT
1 AAATAGAATAATAAAAAATAT
8340364 AAATA-AATAATAAAAAATA
1 AAATAGAATAATAAAAAATA
8340383 AAGAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAGAATAATAAAAAATAT
Found at i:8340383 original size:27 final size:26
Alignment explanation
Indices: 8340342--8340487 Score: 79
Period size: 27 Copynumber: 5.4 Consensus size: 26
8340332 TTATTTGAAG
*
8340342 AAAATAGAATAATAAAAAATATAAATAA
1 AAAATA-AAAAATAAAAAA-ATAAATAA
*
8340370 ATAATAAAAAATAAAGAAAAGTAAA-ACA
1 AAAATAAAAAATAAA-AAAA-TAAATA-A
8340398 AAAAT-AAAAATAAAACTAAGAT-AA-AA
1 AAAATAAAAAATAAAA--AA-ATAAATAA
* ** *
8340424 AGAATATTAAATAAACCAAAT--ATAA
1 AAAATAAAAAATAAA-AAAATAAATAA
* *
8340449 TAAATAAAAAAATAAAAAAACAAATAA
1 AAAAT-AAAAAATAAAAAAATAAATAA
8340476 ACAAATAAAAAA
1 A-AAATAAAAAA
8340488 CATTCAAAGA
Statistics
Matches: 91, Mismatches: 14, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
24 1 0.01
25 10 0.11
26 16 0.18
27 39 0.43
28 24 0.26
29 1 0.01
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (26 bp):
AAAATAAAAAATAAAAAAATAAATAA
Found at i:8340406 original size:17 final size:17
Alignment explanation
Indices: 8340364--8340424 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
8340354 TAAAAAATAT
8340364 AAATAAATAATAAAA-AA
1 AAATAAA-AATAAAACAA
* *
8340381 TAAAGAAAAGTAAAACAA
1 -AAATAAAAATAAAACAA
*
8340399 AAATAAAAATAAAACTA
1 AAATAAAAATAAAACAA
*
8340416 AGATAAAAA
1 AAATAAAAA
8340425 GAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (17 bp):
AAATAAAAATAAAACAA
Found at i:8341438 original size:14 final size:13
Alignment explanation
Indices: 8341419--8341466 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
8341409 ATAATTAGAT
*
8341419 AAATAAAAATACAA
1 AAATAAAAA-ATAA
8341433 AAATAAATAAAATAA
1 AAAT-AA-AAAATAA
8341448 AAGATAAAAAATAA
1 AA-ATAAAAAATAA
8341462 AAATA
1 AAATA
8341467 TATATTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 13 0.43
15 9 0.30
16 5 0.17
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:8341445 original size:23 final size:23
Alignment explanation
Indices: 8341419--8341462 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
8341409 ATAATTAGAT
8341419 AAATAAAA-ATACAAAAATAAATA
1 AAATAAAAGATA-AAAAATAAATA
8341442 AAATAAAAGATAAAAAATAAA
1 AAATAAAAGATAAAAAATAAA
8341463 AATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (23 bp):
AAATAAAAGATAAAAAATAAATA
Found at i:8341531 original size:6 final size:6
Alignment explanation
Indices: 8341513--8341542 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8341503 GGATATACAT
8341513 AAAATA TAAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAAT
8341543 GACAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8342625 original size:11 final size:11
Alignment explanation
Indices: 8342609--8342690 Score: 73
Period size: 11 Copynumber: 7.4 Consensus size: 11
8342599 TTAATATTCT
*
8342609 TTTTATCTTTA
1 TTTTATTTTTA
8342620 TTTTATTTTTA
1 TTTTATTTTTA
8342631 TTTT-TGTTTTA
1 TTTTAT-TTTTA
8342642 CTTTT-TTTTTA
1 -TTTTATTTTTA
8342653 TTTTTATTTTTA
1 -TTTTATTTTTA
*
8342665 -TTTATCTTT-
1 TTTTATTTTTA
8342674 TTTTATTATTCTA
1 TTTTATT-TT-TA
8342687 TTTT
1 TTTT
8342691 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
10 14 0.23
11 30 0.50
12 12 0.20
13 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8342629 original size:6 final size:6
Alignment explanation
Indices: 8342608--8342690 Score: 73
Period size: 6 Copynumber: 13.7 Consensus size: 6
8342598 TTTAATATTC
* * *
8342608 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
8342653 TTTTTA TTTTTA TTTATCTT TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-T-TA TTTTTA TT-TT-TA TTTT
8342691 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
5 12 0.19
6 37 0.59
7 6 0.10
8 8 0.13
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:8342651 original size:28 final size:28
Alignment explanation
Indices: 8342610--8342683 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
8342600 TAATATTCTT
* *
8342610 TTTATC-TTTATTTTATTTTTATTTTTG
1 TTTATCTTTTTTTTTATTTTTATTTTTA
8342637 TTT-TACTTTTTTTTTATTTTTATTTTTA
1 TTTAT-CTTTTTTTTTATTTTTATTTTTA
8342665 TTTATCTTTTTTTATTATT
1 TTTATCTTTTTTT-TTATT
8342684 CTATTTTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 30 0.73
29 6 0.15
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (28 bp):
TTTATCTTTTTTTTTATTTTTATTTTTA
Found at i:8342674 original size:17 final size:16
Alignment explanation
Indices: 8342616--8342690 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 16
8342606 TCTTTTTATC
8342616 TTTA-TTTTATTTTTA
1 TTTATTTTTATTTTTA
* *
8342631 TTTTTGTTTTACTTTTTT
1 TTTAT-TTTTA-TTTTTA
8342649 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
8342665 TTTATCTTTT-TTTATTA
1 TTTAT-TTTTATTT-TTA
8342682 TTCTATTTT
1 TT-TATTTT
8342691 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.06
16 13 0.26
17 22 0.44
18 12 0.24
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:8342689 original size:34 final size:33
Alignment explanation
Indices: 8342620--8342690 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
8342610 TTTATCTTTA
* * *
8342620 TTTTATTTTTATTTTTGTTTTACTTTTTTTTTAT
1 TTTTATTTTTATTTATCTTTTA-TTTTTTTCTAT
8342654 TTTTATTTTTATTTATCTTTT-TTTATTATTCTAT
1 TTTTATTTTTATTTATCTTTTATTT-TT-TTCTAT
8342688 TTT
1 TTT
8342691 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 3 0.09
33 2 0.06
34 27 0.84
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (33 bp):
TTTTATTTTTATTTATCTTTTATTTTTTTCTAT
Found at i:8342959 original size:60 final size:59
Alignment explanation
Indices: 8342707--8343413 Score: 723
Period size: 60 Copynumber: 11.8 Consensus size: 59
8342697 ATAAAAATAA
* * *
8342707 AAAATTCCAAAAAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAA-A
1 AAAATTTCAAAAAAAAATATTTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAATC
*** * *
8342765 ATAAATTTC---AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATC
1 A-AAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
* * * *
8342824 AAAGTTTCAAAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA-A
1 AAAATTTCAAAAAAAAATATTTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAATC
*
8342883 ATAAATTCTCAAAAAAAAAAAAGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC-T-AATC
1 A-AAATT-TC---AAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAATC
*
8342945 AAAGTTTC-AAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-
1 AAAATTTCAAAAAAAAATAT-TTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
* * *
8343006 AAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-AATC
1 AAAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAATC
* *
8343063 AAAGTTTC-AAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-
1 AAAATTTCAAAAAAAAATAT-TTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
* * * *
8343124 AAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATC
1 AAAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
*
8343185 AAAATTTC-CAAAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-
1 AAAATTTCAAAAAAAAATATTTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
* ** **
8343244 AAAATCTCAAAAAAAAGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
1 AAAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTT--AAATC
* *
8343305 AAAATTTC-CAAAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAATGT
1 AAAATTTCAAAAAAAAATATTTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAT-C
* * **
8343364 AAATTTTCAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTT
8343414 TCCTACACAA
Statistics
Matches: 552, Mismatches: 58, Indels: 76
0.80 0.08 0.11
Matches are distributed among these distances:
56 53 0.10
57 23 0.04
58 66 0.12
59 34 0.06
60 214 0.39
61 64 0.12
62 56 0.10
63 26 0.05
64 16 0.03
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAATTTCAAAAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAATC
Found at i:8343241 original size:120 final size:119
Alignment explanation
Indices: 8342716--8343413 Score: 1011
Period size: 120 Copynumber: 5.8 Consensus size: 119
8342706 AAAAATTCCA
*
8342716 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAATAAA-TTTC---AAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * *
8342777 AAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTC
66 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATCAAAGTTTC
* * * *
8342832 AAAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTCTCAAAA
1 -AAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC---A
*
8342897 AAAAAAAAGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC-T--AATCAAAGTTTC
61 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATCAAAGTTTC
8342953 AAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
1 -AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
8343018 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T--AATCAAAGTTTC
64 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATCAAAGTTTC
8343071 AAAAAATATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
1 AAAAAA-A-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA
* *
8343136 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCAAAATTTC
64 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATCAAAGTTTC
* * *
8343193 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATCTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * *
8343258 AAGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
66 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAATCAAAGTTTC
* **
8343313 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAATGTAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
** *
8343378 AATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
66 AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
8343414 TCCTACACAA
Statistics
Matches: 539, Mismatches: 28, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
117 21 0.04
118 188 0.35
119 4 0.01
120 203 0.38
121 61 0.11
122 24 0.04
124 1 0.00
125 37 0.07
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (119 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
AAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATCAAAGTTTC
Found at i:8343461 original size:6 final size:6
Alignment explanation
Indices: 8343450--8343478 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8343440 ATTCCTTTCT
8343450 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
8343479 TCTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:8351862 original size:12 final size:9
Alignment explanation
Indices: 8351784--8351851 Score: 84
Period size: 9 Copynumber: 7.7 Consensus size: 9
8351774 TATGCTTGAA
*
8351784 AAAAAAATA
1 AAAAAAATG
*
8351793 AAAAAAAAG
1 AAAAAAATG
*
8351802 AGAAAAATG
1 AAAAAAATG
8351811 -AAAAAATG
1 AAAAAAATG
**
8351819 AAAATGATG
1 AAAAAAATG
8351828 AAAAAAATG
1 AAAAAAATG
8351837 AAAAAAATG
1 AAAAAAATG
8351846 AAAAAA
1 AAAAAA
8351852 TGATTGAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.14
9 42 0.86
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:8353076 original size:34 final size:34
Alignment explanation
Indices: 8352912--8353190 Score: 131
Period size: 34 Copynumber: 7.8 Consensus size: 34
8352902 TTTCCAAAAG
*
8352912 TCGTGGTTCTGTTTAGAGGAGCAATATTTTTCCAAAA
1 TCGTGGGTCTGTTTAGAGGAGCAAT-TTTTT-C-AAA
* *
8352949 T-G-GTGTCT-TTTAGAAGAGCAATTTACTTTTCAAAA
1 TCGTGGGTCTGTTTAGAGGAGCAA-TT--TTTTC-AAA
8352984 GTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTCGTTC-AA
1 -TCGTGG-G--TCTGTTTAGAGGAGCAATTT--T--TTCAAA
*
8353025 --GT-TGTCTG-TT--AGGAGCAATTTTTTCAAA
1 TCGTGGGTCTGTTTAGAGGAGCAATTTTTTCAAA
8353053 TCGTGGGTCTGTTTAGAGGAGCAATTTACTTTTCAAA
1 TCGTGGGTCTGTTTAGAGGAGCAA-TT--TTTTCAAA
8353090 GTCGT--GTCTGTTTAGAGG-GCAATTTACTTTCAAA
1 -TCGTGGGTCTGTTTAGAGGAGCAATTT--TTTCAAA
8353124 GTCGTGGTGCCTCTGTTTAGA-GAGCAATTTACTTTTC-AA
1 -TCGTGG-G--TCTGTTTAGAGGAGCAA-TT--TTTTCAAA
*
8353163 TCGTGGTGCCTTGTTTA-AGGAGCAATTT
1 TCGTGG-GTC-TGTTTAGAGGAGCAATTT
8353191 ACCTTCAAGT
Statistics
Matches: 196, Mismatches: 8, Indels: 79
0.69 0.03 0.28
Matches are distributed among these distances:
27 3 0.02
28 2 0.01
29 1 0.01
30 2 0.01
31 16 0.08
32 3 0.02
33 2 0.01
34 40 0.20
35 16 0.08
36 24 0.12
37 23 0.12
38 16 0.08
39 18 0.09
40 6 0.03
41 8 0.04
42 13 0.07
43 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (34 bp):
TCGTGGGTCTGTTTAGAGGAGCAATTTTTTCAAA
Found at i:8353186 original size:37 final size:37
Alignment explanation
Indices: 8352888--8353215 Score: 198
Period size: 37 Copynumber: 9.0 Consensus size: 37
8352878 TGAATTGTCA
* *
8352888 AGGAGTAATTTACTTTTCCAAAAGTCGTGGT-TCTGTTTAG
1 AGGAGCAATTTACTTTT-C--AA-TCGTGGTGCCTGTTTAG
* ** *
8352928 AGGAGCAATATT--TTTCCAA-AATGGTGTCT-TTTAG
1 AGGAGCAAT-TTACTTTTCAATCGTGGTGCCTGTTTAG
*
8352962 AAGAGCAATTTACTTTTCAAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC--AA-TCGTGGTG-C-CTGTTTAG
* *
8353004 AGGAGCAATTTACTCGTTCAA--GT--TGTCTG-TT--
1 AGGAGCAATTTACT-TTTCAATCGTGGTGCCTGTTTAG
*
8353035 AGGAGCAA-TT--TTTTCAAATCGTGG-GTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AATCGTGGTGCCTGTTTAG
* * *
8353069 AGGAGCAATTTACTTTTCAA-AGTCGTGTCTGTTTAG
1 AGGAGCAATTTACTTTTCAATCGTGGTGCCTGTTTAG
8353105 AGG-GCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AA-TCGTGGTG-C-CTGTTTAG
8353144 A-GAGCAATTTACTTTTCAATCGTGGTGCCTTGTTTA-
1 AGGAGCAATTTACTTTTCAATCGTGGTGCC-TGTTTAG
*
8353180 AGGAGCAATTTAC-CTTCAAGTCGTCGGTG-CTGTTTA
1 AGGAGCAATTTACTTTTCAA-TCGT-GGTGCCTGTTTA
8353216 NNNNNNNNNN
Statistics
Matches: 234, Mismatches: 19, Indels: 74
0.72 0.06 0.23
Matches are distributed among these distances:
27 3 0.01
28 3 0.01
30 4 0.02
31 13 0.06
32 2 0.01
33 4 0.02
34 32 0.14
35 23 0.10
36 32 0.14
37 35 0.15
38 16 0.07
39 28 0.12
40 12 0.05
41 6 0.03
42 18 0.08
43 3 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (37 bp):
AGGAGCAATTTACTTTTCAATCGTGGTGCCTGTTTAG
Found at i:8355875 original size:27 final size:27
Alignment explanation
Indices: 8355837--8355904 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
8355827 ATGCTTGAAA
* *
8355837 AAAAAATAAAAAAAAAGAGAAAAAATG
1 AAAAAATGAAAAAAAAGAAAAAAAATG
** *
8355864 AAAAAATGAAAATGATGAAAAAAAATG
1 AAAAAATGAAAAAAAAGAAAAAAAATG
8355891 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
8355905 TGATTGAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (27 bp):
AAAAAATGAAAAAAAAGAAAAAAAATG
Found at i:8355886 original size:19 final size:18
Alignment explanation
Indices: 8355837--8355904 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
8355827 ATGCTTGAAA
* *
8355837 AAAAAATAAAAAAAAAGAG
1 AAAAAATGAAAAAAAA-TG
8355856 AAAAAATG--AAAAAATG
1 AAAAAATGAAAAAAAATG
*
8355872 AAAATGATGAAAAAAAATG
1 AAAA-AATGAAAAAAAATG
8355891 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
8355905 TGATTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
18 9 0.21
19 19 0.45
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAAAATGAAAAAAAATG
Found at i:8355906 original size:8 final size:8
Alignment explanation
Indices: 8355855--8355907 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
8355845 AAAAAAAAGA
8355855 GAAAAAAT
1 GAAAAAAT
8355863 GAAAAAAT
1 GAAAAAAT
*
8355871 GAAAATGAT
1 GAAAA-AAT
8355880 GAAAAAAAAT
1 G--AAAAAAT
8355890 GAAAAAAT
1 GAAAAAAT
8355898 GAAAAAAT
1 GAAAAAAT
8355906 GA
1 GA
8355908 TTGAAAAAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 30 0.75
9 3 0.08
10 3 0.08
11 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (8 bp):
GAAAAAAT
Found at i:8357111 original size:41 final size:41
Alignment explanation
Indices: 8356906--8357408 Score: 774
Period size: 41 Copynumber: 12.0 Consensus size: 41
8356896 ATGATTGTCA
*
8356906 AGGAGTAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-C-AAAGTCGTGGTGCCTCTGTTTAG
* *
8356949 AGGAGCAATTTATTTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* *
8356991 AAGAGCAATTTACTTTTTCAAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
8357034 AGGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTCAG
1 AGGAGCAATTTACTTTT-C-AAAGTCGTGGTGCCTCTGTTTAG
8357077 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
8357118 AGGAGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
8357159 AGAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
8357200 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
8357241 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCGTCTGTTTAA
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
8357283 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
8357323 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
8357364 AGGAGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
8357407 AG
1 AG
8357409 TAGCTTTGGT
Statistics
Matches: 427, Mismatches: 26, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
40 35 0.08
41 197 0.46
42 76 0.18
43 119 0.28
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:8357425 original size:1 final size:1
Alignment explanation
Indices: 8357419--8357493 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
8357409 TAGCTTTGGT
* * * * * * * *
8357419 AAAAAAAAATAAAAAAAACAAAAAAAACAAAAACAAAAAAAAAGAACAAAAAACAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
8357484 ACAAAAAAAA
1 AAAAAAAAAA
8357494 TGACAATGTT
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.88, C:0.09, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:8357434 original size:9 final size:9
Alignment explanation
Indices: 8357420--8357493 Score: 87
Period size: 9 Copynumber: 7.9 Consensus size: 9
8357410 AGCTTTGGTA
*
8357420 AAAAAAAAT
1 AAAAAAAAC
8357429 AAAAAAAAC
1 AAAAAAAAC
8357438 AAAAAAAAC
1 AAAAAAAAC
8357447 AAAAACAAA-
1 AAAAA-AAAC
8357456 AAAAAAGAAC
1 AAAAAA-AAC
*
8357466 AAAAAACAAA
1 AAAAAA-AAC
8357476 ACAAAAAAAC
1 A-AAAAAAAC
8357486 AAAAAAAA
1 AAAAAAAA
8357494 TGACAATGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
8 1 0.02
9 36 0.63
10 15 0.26
11 5 0.09
ACGTcount: A:0.88, C:0.09, G:0.01, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:8357499 original size:25 final size:24
Alignment explanation
Indices: 8357430--8357493 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 24
8357420 AAAAAAAATA
*
8357430 AAAAAAACAAAAAAAACA-AAAAC
1 AAAAAAACAAAAAAAAAACAAAAC
8357453 AAAAAAA-AAGAACAAAAAACAAAAC
1 AAAAAAACAA-AA-AAAAAACAAAAC
8357478 AAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
8357494 TGACAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 2 0.06
23 9 0.25
24 9 0.25
25 14 0.39
26 2 0.06
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAAAAAAAACAAAAC
Found at i:8357703 original size:21 final size:21
Alignment explanation
Indices: 8357677--8357827 Score: 59
Period size: 23 Copynumber: 7.0 Consensus size: 21
8357667 ATTTTTTTTC
8357677 TTTATT-TTGTATT-TTATGTAT
1 TTTATTATT-TATTATTAT-TAT
8357698 TTTATTATTTATTATTATTAT
1 TTTATTATTTATTATTATTAT
*
8357719 TGTGTATTAATATATT-TT-TT-T
1 T-T-TATT-ATTTATTATTATTAT
*
8357740 TTCTATTA-ATATCTA-TATGTAT
1 TT-TATTATTTAT-TATTAT-TAT
* *
8357762 TTTATTTATATAGTTA-TATTTGT
1 TTTA-TTATTTA-TTATTA-TTAT
*
8357785 TATTATTATGTTATCATTATTAT
1 T-TTATTAT-TTATTATTATTAT
* *
8357808 TATATTA-TTATTATCATTAT
1 TTTATTATTTATTATTATTAT
8357828 CATTTTTTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 35
0.70 0.06 0.24
Matches are distributed among these distances:
18 4 0.04
19 3 0.03
20 17 0.16
21 19 0.18
22 20 0.19
23 26 0.25
24 15 0.14
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTATTATTTATTATTATTAT
Found at i:8357708 original size:16 final size:16
Alignment explanation
Indices: 8357689--8357827 Score: 66
Period size: 16 Copynumber: 9.1 Consensus size: 16
8357679 TATTTTGTAT
8357689 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
*
8357705 TTTATTATTATTATTG
1 TTTATTATTATTATTA
* *
8357721 TGTATTAATA-TATT-
1 TTTATTATTATTATTA
* *
8357735 TTT-TTTTCTATTAATA
1 TTTATTAT-TATTATTA
*
8357751 TCTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
8357766 TTTA-TA-TAGTTA-TA
1 TTTATTATTA-TTATTA
*
8357780 TTTGTTATTATTA-T-
1 TTTATTATTATTATTA
* *
8357794 GTTATCATTATTATTA
1 TTTATTATTATTATTA
*
8357810 TATTATTATTATCATTA
1 T-TTATTATTATTATTA
8357827 T
1 T
8357828 CATTTTTTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
13 4 0.04
14 21 0.23
15 25 0.27
16 28 0.30
17 14 0.15
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:8357712 original size:3 final size:3
Alignment explanation
Indices: 8357686--8357827 Score: 50
Period size: 3 Copynumber: 47.0 Consensus size: 3
8357676 CTTTATTTTG
* *
8357686 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TGT GTAT TAA TA-
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT
* * *
8357731 TAT T-T TTT TTT CTAT TAA TAT CTA- TAT GTAT T-T TATT TAT ATAGT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT TAT -TAT TAT TA-T TAT -TA-T
* * *
8357776 TA- TATT TGT TAT TAT TA- TGT TAT CAT TAT TAT TA- TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8357819 TAT CAT TAT
1 TAT TAT TAT
8357828 CATTTTTTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
2 17 0.16
3 65 0.61
4 23 0.22
5 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8357804 original size:17 final size:17
Alignment explanation
Indices: 8357784--8357827 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8357774 GTTATATTTG
*
8357784 TTATTATTATGTTATCA
1 TTATTATTATATTATCA
*
8357801 TTATTATTATATTATTA
1 TTATTATTATATTATCA
*
8357818 TTATCATTAT
1 TTATTATTAT
8357828 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTATTATATTATCA
Found at i:8357805 original size:14 final size:12
Alignment explanation
Indices: 8357795--8357827 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
8357785 TATTATTATG
8357795 TTATCATTATTA
1 TTATCATTATTA
8357807 TTAT-ATTATTA
1 TTATCATTATTA
8357818 TTATCATTAT
1 TTATCATTAT
8357828 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:8358271 original size:26 final size:24
Alignment explanation
Indices: 8358235--8358284 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
8358225 GATCGAAAAT
*
8358235 AATTTTTTAGAAATTTTTGGCGAAA
1 AATTTTTTAGAAATTTCTGG-GAAA
8358260 AATTTTTCTAGAAATTTCTGGGAAA
1 AATTTTT-TAGAAATTTCTGGGAAA
8358285 TTTTCAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (24 bp):
AATTTTTTAGAAATTTCTGGGAAA
Found at i:8358856 original size:11 final size:11
Alignment explanation
Indices: 8358840--8358914 Score: 61
Period size: 11 Copynumber: 7.2 Consensus size: 11
8358830 TTAATATTCT
*
8358840 TTTTATCTTTA
1 TTTTATTTTTA
8358851 TTTTATTTTTA
1 TTTTATTTTTA
8358862 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* *
8358873 CTTT-TCTTTA
1 TTTTATTTTTA
8358883 -TTTATTTTTA
1 TTTTATTTTTA
*
8358893 TTTT-TATTTA
1 TTTTATTTTTA
*
8358903 TCTT-TTTTTA
1 TTTTATTTTTA
8358913 TT
1 TT
8358915 ATTCTATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.06
10 24 0.45
11 26 0.49
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8358860 original size:6 final size:6
Alignment explanation
Indices: 8358839--8358924 Score: 61
Period size: 6 Copynumber: 13.7 Consensus size: 6
8358829 TTTAATATTC
* *
8358839 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTCT- TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA
*
8358887 TTTTTA TTTTTA TTTATCTT TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-T-TA TTTTTA TT-TT-TA TTTT
8358925 CTTTAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
5 8 0.12
6 34 0.53
7 13 0.20
8 9 0.14
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:8358890 original size:31 final size:31
Alignment explanation
Indices: 8358845--8358914 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
8358835 ATTCTTTTTA
*
8358845 TCTTTATTTTATTTTTATTTTTGTTT-TACTTT
1 TCTTTA-TTTATTTTTATTTTTATTTAT-CTTT
8358877 TCTTTATTTATTTTTATTTTTATTTATCTTT
1 TCTTTATTTATTTTTATTTTTATTTATCTTT
8358908 T-TTTATT
1 TCTTTATT
8358915 ATTCTATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 6 0.17
31 23 0.64
32 7 0.19
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (31 bp):
TCTTTATTTATTTTTATTTTTATTTATCTTT
Found at i:8358892 original size:10 final size:9
Alignment explanation
Indices: 8358834--8358914 Score: 65
Period size: 10 Copynumber: 8.4 Consensus size: 9
8358824 GTTTATTTAA
*
8358834 TATTCTTTT
1 TATTTTTTT
8358843 TATCTTTATTT
1 TAT-TTT-TTT
*
8358854 TATTTTTAT
1 TATTTTTTT
*
8358863 T-TTTGTTT
1 TATTTTTTT
*
8358871 TACTTTTCTT
1 TA-TTTTTTT
8358881 TATTTATTTT
1 TATTT-TTTT
8358891 TATTTTTATT
1 TATTTTT-TT
8358901 TATCTTTTTT
1 TAT-TTTTTT
8358911 TATT
1 TATT
8358915 ATTCTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
8 6 0.10
9 12 0.21
10 30 0.52
11 10 0.17
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (9 bp):
TATTTTTTT
Found at i:8358898 original size:26 final size:26
Alignment explanation
Indices: 8358858--8358924 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
8358848 TTATTTTATT
*
8358858 TTTATTTTT-GTTTTACTTT-TCTTTA
1 TTTATTTTTATTTTTA-TTTATCTTTA
*
8358883 TTTATTTTTATTTTTATTTATCTTTT
1 TTTATTTTTATTTTTATTTATCTTTA
8358909 TTTATTATTCTATTTT
1 TTTATT-TT-TATTTT
8358925 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 12 0.33
26 16 0.44
27 2 0.06
28 6 0.17
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTATTTTTATTTTTATTTATCTTTA
Found at i:8358929 original size:17 final size:17
Alignment explanation
Indices: 8358880--8358929 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
8358870 TTACTTTTCT
* *
8358880 TTATTTATTTTTATTT-
1 TTATTTATCTTTCTTTA
*
8358896 TTATTTATCTTTTTTTA
1 TTATTTATCTTTCTTTA
8358913 TTATTCTAT-TTTCTTTA
1 TTATT-TATCTTTCTTTA
8358930 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.48
17 12 0.41
18 3 0.10
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTATCTTTCTTTA
Found at i:8359226 original size:60 final size:61
Alignment explanation
Indices: 8358948--8359216 Score: 340
Period size: 61 Copynumber: 4.5 Consensus size: 61
8358938 TAAAAAATTC
* * * *
8358948 CAAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATAAATTTTTCTTGAAAATCAAAGTTT
1 CAAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT
* *
8359009 CAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTT
1 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT
*
8359069 CAAAAAAAAAAAGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC-T---AATCAAAGTTT
1 C--AAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT
* * *
8359128 CAAAAAAAAAAATTTTT-AGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTT
1 CAAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT
*
8359188 CAAAAAAAAGGATTTTTGAGGAAAA-TTGA
1 CAAAAAAAAAGATTTTTGAGGAAAAGTTGA
8359217 TACTAATCAA
Statistics
Matches: 186, Mismatches: 12, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
56 1 0.01
57 40 0.22
58 4 0.02
59 11 0.06
60 34 0.18
61 53 0.28
62 43 0.23
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (61 bp):
CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT
Found at i:8359263 original size:105 final size:105
Alignment explanation
Indices: 8359115--8359322 Score: 346
Period size: 105 Copynumber: 2.0 Consensus size: 105
8359105 ATCAATTTTC
*
8359115 CTAATCAAAGTTTCAAAAAAAAAAATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAA
1 CTAATCAAAGTTTCAAAAAAAAAAATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAAAAA
*
8359180 TAAATTTTCAAAAAAAAGGATTTTTGAGGAAAA-TTGATA
66 TAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGATA
* * * *
8359219 CTAATCAAAGTTTCAAAAAATATATATTTTTAGAGAAAAGTTGAAAGTATTAATTTTCCTTAAAA
1 CTAATCAAAGTTTCAAAAAA-AAAAATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAAAA
8359284 ATAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGA
65 ATAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGA
8359323 AAGTATCAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 20 0.21
105 72 0.75
106 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (105 bp):
CTAATCAAAGTTTCAAAAAAAAAAATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAAAAA
TAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGATA
Found at i:8359317 original size:60 final size:59
Alignment explanation
Indices: 8359229--8359575 Score: 448
Period size: 60 Copynumber: 5.8 Consensus size: 59
8359219 CTAATCAAAG
* *
8359229 TTTCAAAAAATATATATTTTTAGAGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAA-AAATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* *
8359290 TTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAT
1 TTTCAAAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAAT
*
8359352 TTTC--AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 TTTCAAAAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
*** * * *
8359410 TTTCAAAAAAAGGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
1 TTTCAAAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAT
* *
8359471 TTTC-CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAAT
1 TTTCAAAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* *
8359530 TTTCAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTT
8359576 TCCTACACAA
Statistics
Matches: 252, Mismatches: 23, Indels: 23
0.85 0.08 0.08
Matches are distributed among these distances:
58 7 0.03
59 10 0.04
60 205 0.81
61 22 0.09
62 8 0.03
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (59 bp):
TTTCAAAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:8359382 original size:120 final size:120
Alignment explanation
Indices: 8359221--8359575 Score: 568
Period size: 120 Copynumber: 2.9 Consensus size: 120
8359211 AATTGATACT
* * *
8359221 AATCAAAGTTTCAAAAAATATATATTTTTA-GAGAAAAGTTGAAAGTATTAATTTTCCTTAAAAA
1 AATCAAAATTTCCAAAAA-A-ATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAA
*
8359285 TAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
63 TAAATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
*
8359343 AATCAAAATTTTCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
1 AATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
* **
8359408 AATTTCAAAAAAAGGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
66 ATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
* *
8359463 AATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAA
1 AATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
**
8359528 ATTTTCAAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
66 ATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
8359576 TCCTACACAA
Statistics
Matches: 217, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
120 199 0.92
121 3 0.01
122 15 0.07
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (120 bp):
AATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
ATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
Found at i:8359549 original size:180 final size:179
Alignment explanation
Indices: 8359244--8359575 Score: 501
Period size: 180 Copynumber: 1.8 Consensus size: 179
8359234 AAAAATATAT
* *
8359244 ATTTTTAGAGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGATTTT
1 ATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAGATTTT
8359309 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAATATTTTTAGGA
66 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTTCAAAAAAATATTTTTAGGA
8359374 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGG
130 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGG
* * * * *
8359424 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC-CAAAAAAATATTT
1 ATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAAAAGATTT
8359488 TT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAGT-AAATTTTCAAAAAAAATTATTTTT
65 TTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAATTTTC-AAAAAAA-TATTTTT
* *
8359550 GGGGAAAAGTTGAAAGTATCAATTTT
126 AGGAAAAAGTTGAAAGTATCAATTTT
8359576 TCCTACACAA
Statistics
Matches: 138, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
178 8 0.06
179 12 0.09
180 111 0.80
181 7 0.05
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (179 bp):
ATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAGATTTT
TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAATATTTTTAGGAA
AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGG
Found at i:8359623 original size:6 final size:6
Alignment explanation
Indices: 8359612--8359640 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8359602 CTTCCTTTCT
8359612 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
8359641 TCTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:8362129 original size:62 final size:62
Alignment explanation
Indices: 8362014--8362130 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 62
8362004 AATCCACTCC
* **
8362014 ATTTTTTATAAAGAGATTATTGAAGGCGTTTCAGACCAAAAACGCCTTCAATAATTTCCTAT
1 ATTTTTTATAAAGAGATTATTGAAAGCGTTTCAGACCAAAAAAACCTTCAATAATTTCCTAT
* * * * *
8362076 ATTTTTTATGATGAGATTATTGAAAGCGTTTTC-TATCAAAAAAACCTTTAATAAT
1 ATTTTTTATAAAGAGATTATTGAAAGCG-TTTCAGACCAAAAAAACCTTCAATAAT
8362131 CTCATTCATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
62 42 0.91
63 4 0.09
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (62 bp):
ATTTTTTATAAAGAGATTATTGAAAGCGTTTCAGACCAAAAAAACCTTCAATAATTTCCTAT
Found at i:8362404 original size:65 final size:63
Alignment explanation
Indices: 8362258--8362404 Score: 154
Period size: 63 Copynumber: 2.3 Consensus size: 63
8362248 ATTTCTAGCT
* * * *
8362258 AAAAACGCCTTGAATAATCCCTTTCAATTTTTTATAAGAGATTATTGAATGTGTTTTTGACTT
1 AAAAACGCCTTCAATAATCCCTCTCAATTTTTTATAAGAGATTATTGAAGGTGTTTTTGACTC
** * * * *
8362321 AAAAATACTTTCAATAATCCC-CTCTATTTTTTATAAGGAGATTATTGAAGGAAATTTTTTTTA-
1 AAAAACGCCTTCAATAATCCCTCTCAATTTTTTATAA-GAGATTATTGAAGG---TGTTTTTGAC
8362384 TC
62 TC
8362386 AAAAACGCCTTCAATAATC
1 AAAAACGCCTTCAATAATC
8362405 TTTTTCATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
62 13 0.19
63 30 0.45
65 17 0.25
66 7 0.10
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (63 bp):
AAAAACGCCTTCAATAATCCCTCTCAATTTTTTATAAGAGATTATTGAAGGTGTTTTTGACTC
Found at i:8366132 original size:32 final size:32
Alignment explanation
Indices: 8366073--8366184 Score: 79
Period size: 32 Copynumber: 3.5 Consensus size: 32
8366063 TTAATAAATA
* * ** *
8366073 TAAAAATTAAAATAAAATTATTTATTTAATTTT
1 TAAAAA-TATAATAAAAATATAAATTTAATTAT
*
8366106 TAAAAATATAATAAAAATATAAATTTAA-TCT
1 TAAAAATATAATAAAAATATAAATTTAATTAT
* * *
8366137 CATAAAT-T-A-AAATATATAAATTTAATCTCAT
1 TAAAAATATAATAAAAATATAAATTTAAT-T-AT
*
8366168 AAAAAATATAATAAAAA
1 TAAAAATATAATAAAAA
8366185 AATGAATGAC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
28 15 0.25
29 1 0.02
30 2 0.03
31 13 0.21
32 19 0.31
33 7 0.11
34 4 0.07
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAATATAATAAAAATATAAATTTAATTAT
Found at i:8366143 original size:14 final size:14
Alignment explanation
Indices: 8366124--8366170 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
8366114 TAATAAAAAT
8366124 ATAAATTTAATCTC
1 ATAAATTTAATCTC
* *
8366138 ATAAATTAAAATAT-
1 ATAAATT-TAATCTC
8366152 ATAAATTTAATCTC
1 ATAAATTTAATCTC
8366166 ATAAA
1 ATAAA
8366171 AAATATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATTTAATCTC
Found at i:8366158 original size:28 final size:27
Alignment explanation
Indices: 8366117--8366170 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
8366107 AAAAATATAA
8366117 TAAAAATATAAATTTAATCTCATAAAT
1 TAAAAATATAAATTTAATCTCATAAAT
8366144 TAAAATATATAAATTTAATCTCATAAA
1 TAAAA-ATATAAATTTAATCTCATAAA
8366171 AAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAAATATAAATTTAATCTCATAAAT
Found at i:8366244 original size:19 final size:20
Alignment explanation
Indices: 8366220--8366269 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
8366210 TACTTCACAT
8366220 TTTCAA-TAATATTTGCTAC
1 TTTCAATTAATATTTGCTAC
8366239 TTTCAATTTAATATTTGCTAC
1 TTTCAA-TTAATATTTGCTAC
*
8366260 TTTCTATTAA
1 TTTCAATTAA
8366270 ATATAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 18 0.64
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTCAATTAATATTTGCTAC
Found at i:8366252 original size:21 final size:21
Alignment explanation
Indices: 8366226--8366273 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
8366216 ACATTTTCAA
8366226 TAATATTTGCTACTTTCAATT
1 TAATATTTGCTACTTTCAATT
*
8366247 TAATATTTGCTACTTTCTATT
1 TAATATTTGCTACTTTCAATT
*
8366268 AAATAT
1 TAATAT
8366274 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (21 bp):
TAATATTTGCTACTTTCAATT
Found at i:8366272 original size:159 final size:159
Alignment explanation
Indices: 8366109--8366432 Score: 648
Period size: 159 Copynumber: 2.0 Consensus size: 159
8366099 TAATTTTTAA
8366109 AAATATAATAAAAATATAAATTTAATCTCATAAATTAAAATATATAAATTTAATCTCATAAAAAA
1 AAATATAATAAAAATATAAATTTAATCTCATAAATTAAAATATATAAATTTAATCTCATAAAAAA
8366174 TATAATAAAAAAATGAATGACTGACATCAGATATGTTACTTCACATTTTCAATAATATTTGCTAC
66 TATAATAAAAAAATGAATGACTGACATCAGATATGTTACTTCACATTTTCAATAATATTTGCTAC
8366239 TTTCAATTTAATATTTGCTACTTTCTATT
131 TTTCAATTTAATATTTGCTACTTTCTATT
8366268 AAATATAATAAAAATATAAATTTAATCTCATAAATTAAAATATATAAATTTAATCTCATAAAAAA
1 AAATATAATAAAAATATAAATTTAATCTCATAAATTAAAATATATAAATTTAATCTCATAAAAAA
8366333 TATAATAAAAAAATGAATGACTGACATCAGATATGTTACTTCACATTTTCAATAATATTTGCTAC
66 TATAATAAAAAAATGAATGACTGACATCAGATATGTTACTTCACATTTTCAATAATATTTGCTAC
8366398 TTTCAATTTAATATTTGCTACTTTCTATT
131 TTTCAATTTAATATTTGCTACTTTCTATT
8366427 AAATAT
1 AAATAT
8366433 TTTGCATGTG
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 165 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (159 bp):
AAATATAATAAAAATATAAATTTAATCTCATAAATTAAAATATATAAATTTAATCTCATAAAAAA
TATAATAAAAAAATGAATGACTGACATCAGATATGTTACTTCACATTTTCAATAATATTTGCTAC
TTTCAATTTAATATTTGCTACTTTCTATT
Found at i:8366302 original size:14 final size:14
Alignment explanation
Indices: 8366283--8366329 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
8366273 TAATAAAAAT
8366283 ATAAATTTAATCTC
1 ATAAATTTAATCTC
* *
8366297 ATAAATTAAAATAT-
1 ATAAATT-TAATCTC
8366311 ATAAATTTAATCTC
1 ATAAATTTAATCTC
8366325 ATAAA
1 ATAAA
8366330 AAATATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATTTAATCTC
Found at i:8366316 original size:28 final size:27
Alignment explanation
Indices: 8366276--8366329 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
8366266 TTAAATATAA
8366276 TAAAAATATAAATTTAATCTCATAAAT
1 TAAAAATATAAATTTAATCTCATAAAT
8366303 TAAAATATATAAATTTAATCTCATAAA
1 TAAAA-ATATAAATTTAATCTCATAAA
8366330 AAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAAATATAAATTTAATCTCATAAAT
Found at i:8366403 original size:19 final size:20
Alignment explanation
Indices: 8366379--8366434 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
8366369 TACTTCACAT
8366379 TTTCAA-TAATATTTGCTAC
1 TTTCAATTAATATTTGCTAC
8366398 TTTCAATTTAATATTTGCTAC
1 TTTCAA-TTAATATTTGCTAC
*
8366419 TTTCTATTAAATATTT
1 TTTCAATT-AATATTT
8366435 TGCATGTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 25 0.76
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTCAATTAATATTTGCTAC
Found at i:8366411 original size:21 final size:21
Alignment explanation
Indices: 8366385--8366434 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
8366375 ACATTTTCAA
8366385 TAATATTTGCTACTTTCAATT
1 TAATATTTGCTACTTTCAATT
*
8366406 TAATATTTGCTACTTTCTATT
1 TAATATTTGCTACTTTCAATT
*
8366427 AAATATTT
1 TAATATTT
8366435 TGCATGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (21 bp):
TAATATTTGCTACTTTCAATT
Found at i:8367541 original size:218 final size:218
Alignment explanation
Indices: 8367163--8367606 Score: 870
Period size: 218 Copynumber: 2.0 Consensus size: 218
8367153 TCACATAATT
*
8367163 AATTAATTTATACGATGCAGAGCAAACTCGTGATTCATGTACAGTATGGCTTTTCAATTACCTGT
1 AATTAATTTATACGATGCAGAGCAAACTCGTGATTCATATACAGTATGGCTTTTCAATTACCTGT
8367228 TCGCAAGATGGTCTACTCATACTCGAACTTTGCTCCAGCACAGGCGGCAGCGACATTTCAGTTTC
66 TCGCAAGATGGTCTACTCATACTCGAACTTTGCTCCAGCACAGGCGGCAGCGACATTTCAGTTTC
8367293 ATCTAAGTCGTTGTCTGCTGTAATGCTGTCGTCATCACCTGTAGCCATTACCTGCACAAAAACAT
131 ATCTAAGTCGTTGTCTGCTGTAATGCTGTCGTCATCACCTGTAGCCATTACCTGCACAAAAACAT
8367358 GGGATATACAATACATTATTATG
196 GGGATATACAATACATTATTATG
*
8367381 AATTAATTTATACGATGCAGAGCAAACTCGTGGTTCATATACAGTATGGCTTTTCAATTACCTGT
1 AATTAATTTATACGATGCAGAGCAAACTCGTGATTCATATACAGTATGGCTTTTCAATTACCTGT
8367446 TCGCAAGATGGTCTACTCATACTCGAACTTTGCTCCAGCACAGGCGGCAGCGACATTTCAGTTTC
66 TCGCAAGATGGTCTACTCATACTCGAACTTTGCTCCAGCACAGGCGGCAGCGACATTTCAGTTTC
8367511 ATCTAAGTCGTTGTCTGCTGTAATGCTGTCGTCATCACCTGTAGCCATTACCTGCACAAAAACAT
131 ATCTAAGTCGTTGTCTGCTGTAATGCTGTCGTCATCACCTGTAGCCATTACCTGCACAAAAACAT
8367576 GGGATATACAATACATTATTATG
196 GGGATATACAATACATTATTATG
8367599 AATTAATT
1 AATTAATT
8367607 GAAGAGAAAG
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 224 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (218 bp):
AATTAATTTATACGATGCAGAGCAAACTCGTGATTCATATACAGTATGGCTTTTCAATTACCTGT
TCGCAAGATGGTCTACTCATACTCGAACTTTGCTCCAGCACAGGCGGCAGCGACATTTCAGTTTC
ATCTAAGTCGTTGTCTGCTGTAATGCTGTCGTCATCACCTGTAGCCATTACCTGCACAAAAACAT
GGGATATACAATACATTATTATG
Found at i:8370822 original size:14 final size:14
Alignment explanation
Indices: 8370805--8370851 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
8370795 TTTTAAAAAT
8370805 ATAAATTTAATCTC
1 ATAAATTTAATCTC
* *
8370819 ATAAATTAAAATAT-
1 ATAAATT-TAATCTC
8370833 ATAAATTTAATCTC
1 ATAAATTTAATCTC
8370847 ATAAA
1 ATAAA
8370852 AAATATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATTTAATCTC
Found at i:8370834 original size:28 final size:27
Alignment explanation
Indices: 8370797--8370851 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 27
8370787 TATTTAATTT
8370797 TTAAAAATATAAATTTAATCTCATAAA
1 TTAAAAATATAAATTTAATCTCATAAA
8370824 TTAAAATATATAAATTTAATCTCATAAA
1 TTAAAA-ATATAAATTTAATCTCATAAA
8370852 AAATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
TTAAAAATATAAATTTAATCTCATAAA
Found at i:8372538 original size:12 final size:12
Alignment explanation
Indices: 8372521--8372546 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8372511 TTTTATTTGA
8372521 ATAAAAATAGAT
1 ATAAAAATAGAT
8372533 ATAAAAATAGAT
1 ATAAAAATAGAT
8372545 AT
1 AT
8372547 TATATTACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAAATAGAT
Found at i:8372783 original size:25 final size:24
Alignment explanation
Indices: 8372734--8372786 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
8372724 AATACATTTT
*
8372734 TATTTTAAAAAATATATTAATATA
1 TATTTTAAAAAATATAGTAATATA
*
8372758 TATTTTATAAAAATTTACGTAAATATA
1 TATTTTA-AAAAATATA-GT-AATATA
8372785 TA
1 TA
8372787 AGATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 1 0.04
27 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTTTAAAAAATATAGTAATATA
Found at i:8374160 original size:27 final size:27
Alignment explanation
Indices: 8374130--8374182 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8374120 ATAAAATTAC
*
8374130 AATATAATATAATAAAATAATATTATA
1 AATAAAATATAATAAAATAATATTATA
* *
8374157 AATAAAATTTAATTAAATAATATTAT
1 AATAAAATATAATAAAATAATATTAT
8374183 CTTATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATATAATAAAATAATATTATA
Found at i:8377810 original size:18 final size:18
Alignment explanation
Indices: 8377787--8377821 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8377777 TAAAAATTAA
*
8377787 ATTTAAAATTTTTTATCC
1 ATTTAAAATTTATTATCC
*
8377805 ATTTAAAGTTTATTATC
1 ATTTAAAATTTATTATC
8377822 TAATTTACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTAAAATTTATTATCC
Found at i:8378179 original size:51 final size:51
Alignment explanation
Indices: 8378103--8378204 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
8378093 ATTTGGTGGT
*
8378103 GATAAAAGAGTGATGTATCTGATCACCTATAACTATTAGAGTGGCCGACAC
1 GATAAAAGAGTGATGTATCTGATCACCTATAAATATTAGAGTGGCCGACAC
*
8378154 GATAAAAGAGTGATGTATCTGATCACCTATAAATATTAGAGTGGGCGACAC
1 GATAAAAGAGTGATGTATCTGATCACCTATAAATATTAGAGTGGCCGACAC
8378205 ATACCCAGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (51 bp):
GATAAAAGAGTGATGTATCTGATCACCTATAAATATTAGAGTGGCCGACAC
Found at i:8378891 original size:43 final size:42
Alignment explanation
Indices: 8378800--8378952 Score: 118
Period size: 43 Copynumber: 3.6 Consensus size: 42
8378790 CCAATAGAGA
* * *
8378800 CTTTAAAATTTTCAAAAAA-AAAATG--TCCTTTCTCATCAAAGA
1 CTTTAAAATTTTCAAAAAATAAAATGATTCC--TC-CACCGAAGG
*
8378842 TTTTAAAATTTTCAAAAAATAAAATGATTCCCTCCTACCGAAGG
1 CTTTAAAATTTTCAAAAAATAAAATGATT-CCTCC-ACCGAAGG
* * ** * * *
8378886 C-TTAAAACTTTCAAAAAGTAAAATG-TTTTTTCATCGGAGG
1 CTTTAAAATTTTCAAAAAATAAAATGATTCCTCCACCGAAGG
*
8378926 CTTTAAAATTTTAAAAAAATAAAATGA
1 CTTTAAAATTTTCAAAAAATAAAATGA
8378953 GATATTTAGG
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
40 7 0.08
41 23 0.26
42 20 0.22
43 29 0.33
44 7 0.08
45 1 0.01
46 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.33
Consensus pattern (42 bp):
CTTTAAAATTTTCAAAAAATAAAATGATTCCTCCACCGAAGG
Found at i:8381886 original size:16 final size:16
Alignment explanation
Indices: 8381865--8381897 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8381855 CTTTGATTTT
8381865 TTATTCATT-AAAAAAA
1 TTATTC-TTGAAAAAAA
8381881 TTATTCTTGAAAAAAA
1 TTATTCTTGAAAAAAA
8381897 T
1 T
8381898 AAATCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TTATTCTTGAAAAAAA
Found at i:8382325 original size:12 final size:12
Alignment explanation
Indices: 8382308--8382341 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8382298 TTTTCAAAAA
8382308 TTTTATTAATTG
1 TTTTATTAATTG
*
8382320 TTTTATTAATTT
1 TTTTATTAATTG
8382332 TTTTAATTAA
1 TTTT-ATTAA
8382342 AATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTATTAATTG
Found at i:8382793 original size:26 final size:27
Alignment explanation
Indices: 8382764--8382814 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
8382754 TTTATTAGTT
8382764 TATTATTATTATTAAA-TTTATTTTTA
1 TATTATTATTATTAAAGTTTATTTTTA
* *
8382790 TATTATTGTTTTTAAAGTTTATTTT
1 TATTATTATTATTAAAGTTTATTTT
8382815 AAAAATTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TATTATTATTATTAAAGTTTATTTTTA
Found at i:8382946 original size:12 final size:10
Alignment explanation
Indices: 8382917--8382942 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8382907 AATAATATAT
8382917 AAAAAATTCA
1 AAAAAATTCA
8382927 AAAAAATTCA
1 AAAAAATTCA
8382937 AAAAAA
1 AAAAAA
8382943 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:8383908 original size:20 final size:20
Alignment explanation
Indices: 8383882--8383924 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8383872 ATTTTTTTTC
8383882 ATTTTTTT-TTGTATTTCAT
1 ATTTTTTTATTGTATTTCAT
*
8383901 ATTTTTTTATTGTATTTCGT
1 ATTTTTTTATTGTATTTCAT
8383921 ATTT
1 ATTT
8383925 ATACTTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (20 bp):
ATTTTTTTATTGTATTTCAT
Found at i:8384239 original size:49 final size:48
Alignment explanation
Indices: 8384113--8384404 Score: 317
Period size: 49 Copynumber: 6.0 Consensus size: 48
8384103 TTAAAATCTG
* *
8384113 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAGATCTT-ATCTTGA
1 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAT-TTCAT-TTGA
* * *
8384162 AAAAGGGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGG
1 AAAA-AGCTCCTCTCAA-CAAAGGCTCAACAACTTTAAAATTTCAT-TTGA
* *
8384212 AAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCATTTGA
1 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTCATTTGA
* * ** *
8384260 AAAAGGGCTCATCTC-AGTAGGAGCTCAACAACTTTAAAATTTCATTTG-
1 AAAA-AGCTCCTCTCAACAAAG-GCTCAACAACTTTAAAATTTCATTTGA
*
8384308 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATTT-A
1 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTCATTTGA
* * * *
8384355 AAAAAGTTCCTCTCAGCAGAGGTTCAACAACTTTAAAATCTT-ATTTGA
1 AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAT-TTCATTTGA
8384403 AA
1 AA
8384405 GCAGAGGCTC
Statistics
Matches: 211, Mismatches: 22, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
47 73 0.35
48 21 0.10
49 76 0.36
50 41 0.19
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTCATTTGA
Found at i:8384340 original size:47 final size:47
Alignment explanation
Indices: 8384111--8384404 Score: 360
Period size: 47 Copynumber: 6.1 Consensus size: 47
8384101 ATTTAAAATC
*
8384111 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAGATCTT-ATCT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAT-TTCAT-T
* *
8384159 TGAAAAAGGGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCT
1 TGAAAAA--GCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCAT-T
* * *
8384209 TGGAAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCATT
1 T-GAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATT
* * *
8384257 TGAAAAAGGGCTCATCTCAG-TAGGAGCTCAACAACTTTAAAATTTCATT
1 TGAAAAA--GCTCCTCTCAGCAAAG-GCTCAACAACTTTAAAATTTCATT
8384306 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATT
* * * *
8384353 TAAAAAAGTTCCTCTCAGCAGAGGTTCAACAACTTTAAAATCTT-ATT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAT-TTCATT
8384400 TGAAA
1 TGAAA
8384405 GCAGAGGCTC
Statistics
Matches: 215, Mismatches: 22, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
47 83 0.39
48 15 0.07
49 76 0.35
50 36 0.17
51 5 0.02
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATT
Found at i:8384345 original size:96 final size:96
Alignment explanation
Indices: 8384111--8384404 Score: 416
Period size: 98 Copynumber: 3.1 Consensus size: 96
8384101 ATTTAAAATC
* *
8384111 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAGATCTTATCTTGAAAAAGGGCTCCTCT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAAGGGCTCCTCT
*
8384176 AAGCAGAGGCTCAACAACTTTAAAATTTCATCT
65 CAGCAGAGGCTCAACAACTTTAAAATTTCAT-T
* * *
8384209 TGGAAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCATCT
1 T-GAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCT
*
8384274 CAGTAG-GAGCTCAACAACTTTAAAATTTCATT
65 CAGCAGAG-GCTCAACAACTTTAAAATTTCATT
* * *
8384306 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTCATTT-AAAAA-AGTTCCTCTC
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTC
*
8384369 AGCAGAGGTTCAACAACTTTAAAATCTT-ATT
66 AGCAGAGGCTCAACAACTTTAAAAT-TTCATT
8384400 TGAAA
1 TGAAA
8384405 GCAGAGGCTC
Statistics
Matches: 177, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
94 36 0.20
95 8 0.05
96 44 0.25
97 3 0.02
98 45 0.25
99 41 0.23
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (96 bp):
TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTC
AGCAGAGGCTCAACAACTTTAAAATTTCATT
Found at i:8384408 original size:35 final size:35
Alignment explanation
Indices: 8384369--8384439 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
8384359 AGTTCCTCTC
* *
8384369 AGCAGAGGTTCAACAACTTTAAAATCTTATTTGAA
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAA
*
8384404 AGCAGAGGCTCAATAACTTTAAAATCTCATTTGAA
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAA
8384439 A
1 A
8384440 AAGCTCCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (35 bp):
AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAA
Found at i:8384464 original size:82 final size:82
Alignment explanation
Indices: 8384322--8384475 Score: 245
Period size: 82 Copynumber: 1.9 Consensus size: 82
8384312 AGCTCCTCTC
* * *
8384322 AGCAAAGGCTCAACAACTTTAAAATTTCATTTAAAAAAGTTCCTCTCAGCAGAGGTTCAACAACT
1 AGCAAAGGCTCAACAACTTTAAAATCTCATTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
8384387 TTAAAATCTTATTTGAA
66 TTAAAATCTTATTTGAA
* * * *
8384404 AGCAGAGGCTCAATAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
1 AGCAAAGGCTCAACAACTTTAAAATCTCATTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
8384469 TTAAAAT
66 TTAAAAT
8384476 TTCATATTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (82 bp):
AGCAAAGGCTCAACAACTTTAAAATCTCATTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
TTAAAATCTTATTTGAA
Found at i:8384510 original size:49 final size:47
Alignment explanation
Indices: 8384404--8384777 Score: 426
Period size: 47 Copynumber: 7.6 Consensus size: 47
8384394 CTTATTTGAA
* *
8384404 AGCAGAGGCTCAATAACTTTAAAATCTCATTTGAAAAAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTTTC
* *
8384451 AGTAGAGGCTCAACAACTTTAAAATTTCATATTGAAAAAGGCTCCTTTC
1 AGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAA-GCTCCTTTC
8384500 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTT-
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCT-TTC
* * * * *
8384547 AGTAGAAGCTTAACAACTTTAAAAATCTCATTTGAAAAAGCTTCTCTC
1 AGCAGAGGCTCAACAACTTT-AAAATCTCATTTGAAAAAGCTCCTTTC
* * *
8384595 AGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGC
1 AGCAGAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGCTCCTTT---C
* * *
8384647 AGAGGCTCAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTC
1 --A-G--CAGAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGCTCCTTTC
* * * *
8384701 AGCAGAGACTCAACAACTTTAAAATCTCATCTAAAAAAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTTTC
8384748 AGCAGAGGCTCAACAACTTTAAAATCTCAT
1 AGCAGAGGCTCAACAACTTTAAAATCTCAT
8384778 CTTTTCTCAA
Statistics
Matches: 286, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
47 92 0.32
48 77 0.27
49 65 0.23
51 1 0.00
52 2 0.01
54 2 0.01
55 1 0.00
57 46 0.16
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTTTC
Found at i:8384568 original size:96 final size:95
Alignment explanation
Indices: 8384404--8384777 Score: 455
Period size: 96 Copynumber: 3.8 Consensus size: 95
8384394 CTTATTTGAA
*
8384404 AGCAGAGGCTCAATAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
*
8384469 TT-AAAATTTCATATTGAAAAAGGCTCCTTTC
66 TTAAAAATCTCAT-TTGAAAAA-GCTCCTTTC
* * *
8384500 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTTAGTAGAAGCTTAACAACT
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
* *
8384565 TTAAAAATCTCATTTGAAAAAGCTTCTCTC
66 TTAAAAATCTCATTTGAAAAAGCTCCTTTC
* * * *
8384595 AGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGGCTCAGAGG
1 AGCAGAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGCTC--CTC-TC--A-G-T-AGAGG
* * *
8384660 CTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTC
56 CTCAACAACTTTAAAAATCTCAT-TTGAAAAAGCTCCTTTC
* * * *
8384701 AGCAGAGACTCAACAACTTTAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
8384766 TT-AAAATCTCAT
66 TTAAAAATCTCAT
8384778 CTTTTCTCAA
Statistics
Matches: 238, Mismatches: 28, Indels: 25
0.82 0.10 0.09
Matches are distributed among these distances:
95 36 0.15
96 97 0.41
97 20 0.08
98 1 0.00
99 3 0.01
101 1 0.00
102 3 0.01
103 1 0.00
104 10 0.04
105 34 0.14
106 32 0.13
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (95 bp):
AGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
TTAAAAATCTCATTTGAAAAAGCTCCTTTC
Found at i:8384685 original size:57 final size:57
Alignment explanation
Indices: 8384597--8384712 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
8384587 CTTCTCTCAG
*
8384597 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGGCT
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGACT
8384654 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGACT
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGACT
8384711 CA
1 CA
8384713 ACAACTTTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (57 bp):
CAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCATTTCAGCAGAGACT
Found at i:8384926 original size:118 final size:118
Alignment explanation
Indices: 8384718--8384957 Score: 417
Period size: 118 Copynumber: 2.0 Consensus size: 118
8384708 ACTCAACAAC
*
8384718 TTTAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTTT
1 TTTAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTCT
8384783 CTCAAAACTGAGTTCTTTTCTTTTAACAAGTAAATTCTTCTCTTTTGAAATCT
66 CTCAAAACTGAGTTCTTTTCTTTTAACAAGTAAATTCTTCTCTTTTGAAATCT
* * * *
8384836 TTTAAAATCTCATCTGAAAAAGCTCCTCTCTGTAGAGGCTCAACAACTTTAAAATTTCATCTTCT
1 TTTAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTCT
* *
8384901 CTCAAAATTGAGTTCTTTTCTTTTAACAAGTAAATTTTTCTCTTTTGAAATCT
66 CTCAAAACTGAGTTCTTTTCTTTTAACAAGTAAATTCTTCTCTTTTGAAATCT
8384954 TTTA
1 TTTA
8384958 TTCAATCAAG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 115 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.40
Consensus pattern (118 bp):
TTTAAAATCTCATCTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTCT
CTCAAAACTGAGTTCTTTTCTTTTAACAAGTAAATTCTTCTCTTTTGAAATCT
Found at i:8391612 original size:146 final size:152
Alignment explanation
Indices: 8391332--8391767 Score: 544
Period size: 144 Copynumber: 2.9 Consensus size: 152
8391322 AAGATATAAT
* *
8391332 TGAGCCAGAGATCATTGCTCAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCCTTAAA
1 TGAGCCAGAGATCATTGCTGAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCTTTAAA
* *
8391397 GAAAAAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTCGACTAATGCTGTCAATGCC
66 GAAAAAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGCTAATGCTGTCAATGCC
8391462 TATC-AA-A-T-TT-A-CATG-
131 TATCAAAGATTCTTAACCATGA
* * *
8391477 T-AGCCAGAGATAATTGCTGATTGTCCAATATCTCTTATGCAAACTTTATGTCCTTTGCTTTAAA
1 TGAGCCAGAGATCATTGCTGAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCTTTAAA
*
8391541 GAAAAGGAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGTTAATGCTGTCAATG
66 GAAAA--AATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGCTAATGCTGTCAATG
8391606 CCTATCAAAGTATTTCCATTAAGCCATGA
129 CCTATCAAAG-A-TT-C-TTAA-CCATGA
*
8391635 TGGAGCCAGAAATCATTGCTGAATGTCCAATATCTCTTATGC-AA----A--TCCTTTTCTTTAA
1 T-GAGCCAGAGATCATTGCTGAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCTTTAA
* * * *
8391693 AGAAAAAAAATCTTCAGT-CATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAAT
65 AG--AAAAAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGCTAATGCTGTCAAT
*
8391757 GCCTATAAAAG
128 GCCTATCAAAG
8391768 TATTTCACAT
Statistics
Matches: 256, Mismatches: 17, Indels: 29
0.85 0.06 0.10
Matches are distributed among these distances:
144 63 0.25
145 1 0.00
146 61 0.24
147 2 0.01
149 1 0.00
151 1 0.00
152 52 0.20
153 24 0.09
154 2 0.01
155 6 0.02
157 4 0.02
158 1 0.00
159 2 0.01
160 36 0.14
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (152 bp):
TGAGCCAGAGATCATTGCTGAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCTTTAAA
GAAAAAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGCTAATGCTGTCAATGCC
TATCAAAGATTCTTAACCATGA
Found at i:8391756 original size:152 final size:157
Alignment explanation
Indices: 8391333--8391778 Score: 459
Period size: 146 Copynumber: 2.9 Consensus size: 157
8391323 AGATATAATT
* * * * *
8391333 GAGCCAGAGATCATTGCTCAATGTCCAATATCTCTTATGCAAACTTTATGTCCTTTTCCTTAAAG
1 GAGCCAGAAATAATTGCTGAATGTCCAATATCTCTTATGCAAA---TA-GTCCTTTGCTTTAAAG
* * ** * *
8391398 --AAAAAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTCGACTAATGCTGTCAATGC
62 AAAAAAAATCTTCAGTCCATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAATGC
*
8391461 CTAT-CAA--A--T----TT-A--CATG-T-
127 CTATAAAAGTATTTCACATTAAGCCATGATG
* *
8391478 -AGCCAGAGATAATTGCTGATTGTCCAATATCTCTTATGCAAACTTTATGTCCTTTGCTTTAAAG
1 GAGCCAGAAATAATTGCTGAATGTCCAATATCTCTTATGCAAA---TA-GTCCTTTGCTTTAAAG
** * * * *
8391542 AAAAGGAATCTTCAGTCCATTTTCACATTAAAATATGACATTGACTTGGTTAATGCTGTCAATGC
62 AAAAAAAATCTTCAGTCCATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAATGC
*
8391607 CTATCAAAGTATTTC-CATTAAGCCATGATG
127 CTATAAAAGTATTTCACATTAAGCCATGATG
* *
8391637 GAGCCAGAAATCATTGCTGAATGTCCAATATCTCTTATGC-AA-A-TCCTTTTCTTTAAAGAAAA
1 GAGCCAGAAATAATTGCTGAATGTCCAATATCTCTTATGCAAATAGTCCTTTGCTTTAAAGAAAA
8391699 AAAATCTTCAGT-CATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAATGCCTAT
66 AAAATCTTCAGTCCATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAATGCCTAT
8391763 AAAAGTATTTCACATT
131 AAAAGTATTTCACATT
8391779 TAATGATGGA
Statistics
Matches: 262, Mismatches: 22, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
144 59 0.23
146 62 0.24
147 2 0.01
149 1 0.00
151 1 0.00
152 58 0.22
153 32 0.12
154 2 0.01
155 2 0.01
157 4 0.02
158 1 0.00
159 2 0.01
160 36 0.14
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (157 bp):
GAGCCAGAAATAATTGCTGAATGTCCAATATCTCTTATGCAAATAGTCCTTTGCTTTAAAGAAAA
AAAATCTTCAGTCCATTTCCACATTAAAATATGACATTGACTTGGGTAAAGCAGTCAATGCCTAT
AAAAGTATTTCACATTAAGCCATGATG
Found at i:8392626 original size:29 final size:29
Alignment explanation
Indices: 8392560--8392631 Score: 67
Period size: 30 Copynumber: 2.5 Consensus size: 29
8392550 TATTCCATCT
*
8392560 AAATAAAAATTTAATTAGATGTAAATAAA
1 AAATAAAAAATTAATTAGATGTAAATAAA
* * *
8392589 TATTGAAAAGATTAATT-GATTGT-AATAAA
1 AAAT-AAAAAATTAATTAGA-TGTAAATAAA
*
8392618 AAATAAAAACTTAA
1 AAATAAAAAATTAA
8392632 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
28 8 0.24
29 12 0.36
30 13 0.39
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.32
Consensus pattern (29 bp):
AAATAAAAAATTAATTAGATGTAAATAAA
Found at i:8395230 original size:23 final size:23
Alignment explanation
Indices: 8395159--8395230 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
8395149 CTTTGGAATG
* *
8395159 TTATTTTTATTTTATTTTATAATA
1 TTATTTTT-TTTTATTATAAAATA
* * *
8395183 TAATTTTTTTTTA-AAAAAAAGTA
1 TTATTTTTTTTTATTATAAAA-TA
*
8395206 TTATTCTTTTTTATTATAAAATA
1 TTATTTTTTTTTATTATAAAATA
8395229 TT
1 TT
8395231 TTATCATCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
22 3 0.08
23 22 0.59
24 12 0.32
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (23 bp):
TTATTTTTTTTTATTATAAAATA
Found at i:8395696 original size:15 final size:16
Alignment explanation
Indices: 8395658--8395745 Score: 117
Period size: 15 Copynumber: 5.6 Consensus size: 16
8395648 AGTTTAGAAG
8395658 TTTGGATTTAAGAGAT
1 TTTGGATTTAAGAGAT
8395674 TTTGGATTTAAGAG-T
1 TTTGGATTTAAGAGAT
* *
8395689 TTTTGATTTAAGGGAT
1 TTTGGATTTAAGAGAT
*
8395705 TTTGGATTTTA-AGAT
1 TTTGGATTTAAGAGAT
*
8395720 TTTGGATTTGAGAGGAT
1 TTTGGATTTAAGA-GAT
8395737 TTTGGATTT
1 TTTGGATTT
8395746 TAGGAATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
15 26 0.41
16 25 0.40
17 12 0.19
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (16 bp):
TTTGGATTTAAGAGAT
Found at i:8395737 original size:32 final size:33
Alignment explanation
Indices: 8395658--8395747 Score: 134
Period size: 31 Copynumber: 2.8 Consensus size: 33
8395648 AGTTTAGAAG
8395658 TTTGGATTTAAGA-GATTTTGGA-TTTAAGAGT
1 TTTGGATTTAAGAGGATTTTGGATTTTAAGAGT
*
8395689 TTTTGATTTAAG-GGATTTTGGATTTTAAGA-T
1 TTTGGATTTAAGAGGATTTTGGATTTTAAGAGT
*
8395720 TTTGGATTTGAGAGGATTTTGGATTTTA
1 TTTGGATTTAAGAGGATTTTGGATTTTA
8395748 GGAATTTTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
31 31 0.58
32 22 0.42
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (33 bp):
TTTGGATTTAAGAGGATTTTGGATTTTAAGAGT
Found at i:8397353 original size:16 final size:17
Alignment explanation
Indices: 8397332--8397365 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8397322 ATTATTATTG
8397332 TTATTATT-TTAAAAAA
1 TTATTATTATTAAAAAA
8397348 TTATTATTATTAAAAAA
1 TTATTATTATTAAAAAA
8397365 T
1 T
8397366 ATAGACCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTATTATTAAAAAA
Found at i:8397607 original size:36 final size:36
Alignment explanation
Indices: 8397567--8397637 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
8397557 GGACTGAATC
* *
8397567 GCAAGTCAGAGAAATAAAAATAACTGGGATTAAACT
1 GCAAGTCAGAAAAATAAAAACAACTGGGATTAAACT
* *
8397603 GCAAGTCAGAAAAATAAAAGCAATTGGGATTAAAC
1 GCAAGTCAGAAAAATAAAAACAACTGGGATTAAAC
8397638 CATGAGTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.18
Consensus pattern (36 bp):
GCAAGTCAGAAAAATAAAAACAACTGGGATTAAACT
Found at i:8397775 original size:37 final size:37
Alignment explanation
Indices: 8397713--8397831 Score: 157
Period size: 37 Copynumber: 3.2 Consensus size: 37
8397703 GATTAAATCA
*
8397713 CAAGTCAAGAAGTAAAGAATTGATCGGGACAACACCG
1 CAAGTCAAGAAGTAAAGAATCGATCGGGACAACACCG
* * *
8397750 CTAGTCGAGAAGTAAAGAATCGATCGGGACAATACCG
1 CAAGTCAAGAAGTAAAGAATCGATCGGGACAACACCG
* * * *
8397787 CAAGTCAAAAAATAAAGAATCAATCGGGATAACACCG
1 CAAGTCAAGAAGTAAAGAATCGATCGGGACAACACCG
*
8397824 TAAGTCAA
1 CAAGTCAA
8397832 AATTGTGAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (37 bp):
CAAGTCAAGAAGTAAAGAATCGATCGGGACAACACCG
Found at i:8397989 original size:34 final size:34
Alignment explanation
Indices: 8397904--8398016 Score: 131
Period size: 34 Copynumber: 3.3 Consensus size: 34
8397894 GAGGAGAGCG
* * *
8397904 GGATTAAACCATGAGTAAGAGAAATACTAAG-GATCA
1 GGATTAAACCACGAATCAGAG-AATA--AAGAGATCA
* *
8397940 AGATTAAACCGCGAATCAGAGAATAAAGAGATC-
1 GGATTAAACCACGAATCAGAGAATAAAGAGATCA
8397973 GTGATTAAACCACGAATCAGAGAATAAAGAGATCA
1 G-GATTAAACCACGAATCAGAGAATAAAGAGATCA
8398008 GGATTAAAC
1 GGATTAAAC
8398017 TACAAATTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
33 3 0.04
34 43 0.64
35 5 0.07
36 16 0.24
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (34 bp):
GGATTAAACCACGAATCAGAGAATAAAGAGATCA
Found at i:8398204 original size:173 final size:172
Alignment explanation
Indices: 8397963--8398328 Score: 445
Period size: 173 Copynumber: 2.1 Consensus size: 172
8397953 AATCAGAGAA
* * * * *
8397963 TAAAGAGATCGTGATTAAACCACGAATCAGAGAATAAAGAGATCAGGATTAAACTACAAATTAAA
1 TAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAGGATTAAACCACAAATAAAA
* * * *
8398028 AAAA-GATGTTAA-CTCGAATTGAATCACAAGTCACAAAATAAGGAA-ACCGAGAATAAACCACG
66 AAAATGAAGATAACCT-GAATTGAATCACAAGTCAAAAAATAA-AAAGACCGAGAATAAACCACG
* * *
8398090 GGTCAGAGGTTAACAATAACAATCTAGATT-AACTGCGATTTTAAAT
129 AGTCAGAGGTTAAC---AACAATCGAGATTAAACTACGATTTTAAAT
* * * *
8398136 TAAAGTGATCGGGATTGAACTACGAATCAGAGAATAAAAAGATC-GAGATTAAACCGCAAATAAA
1 TAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAG-GATTAAACCACAAATAAA
* * *
8398200 AAAAATGAAGATAACCTGGATTGAATCACAAGTCAAAAAATAAAAAGATCGAGAATAAACCATGA
65 AAAAATGAAGATAACCTGAATTGAATCACAAGTCAAAAAATAAAAAGACCGAGAATAAACCACGA
* *
8398265 GTCAGAGGTTAACAACAATCGAGATTAAATTATGATTTTAAAT
130 GTCAGAGGTTAACAACAATCGAGATTAAACTACGATTTTAAAT
*
8398308 TAAAGAGATCAAGATTGAACC
1 TAAAGAGATCGAGATTGAACC
8398329 GTGAATAAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
171 12 0.07
172 31 0.19
173 61 0.37
174 58 0.35
175 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (172 bp):
TAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAAAGATCAGGATTAAACCACAAATAAAA
AAAATGAAGATAACCTGAATTGAATCACAAGTCAAAAAATAAAAAGACCGAGAATAAACCACGAG
TCAGAGGTTAACAACAATCGAGATTAAACTACGATTTTAAAT
Found at i:8403177 original size:16 final size:16
Alignment explanation
Indices: 8403156--8403190 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8403146 TGGCAAGGAT
* *
8403156 AAAAAGGATAGCAATG
1 AAAAAGGAAAGAAATG
8403172 AAAAAGGAAAGAAATG
1 AAAAAGGAAAGAAATG
8403188 AAA
1 AAA
8403191 GATGAAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAAGGAAAGAAATG
Found at i:8411033 original size:16 final size:16
Alignment explanation
Indices: 8411012--8411099 Score: 108
Period size: 15 Copynumber: 5.6 Consensus size: 16
8411002 ATTTTAGAGG
8411012 TTTGGATTTAAGAGAT
1 TTTGGATTTAAGAGAT
8411028 TTTGGATTTAAGAG-T
1 TTTGGATTTAAGAGAT
* *
8411043 TTTGGAGTTAAGGGAT
1 TTTGGATTTAAGAGAT
*
8411059 TTTGGATTTTAG-GAT
1 TTTGGATTTAAGAGAT
* *
8411074 TTTGAATTTTAGAAGAT
1 TTTGGATTTAAG-AGAT
8411091 TTTGGATTT
1 TTTGGATTT
8411100 TAGGGGTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
15 27 0.43
16 25 0.40
17 11 0.17
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (16 bp):
TTTGGATTTAAGAGAT
Found at i:8411047 original size:31 final size:31
Alignment explanation
Indices: 8410997--8411102 Score: 126
Period size: 31 Copynumber: 3.4 Consensus size: 31
8410987 AAGGTTAGGG
*
8410997 TTTT-GATTTTAGAGGTTTGGATTTAAGAGA
1 TTTTGGATTTTAGAGTTTTGGATTTAAGAGA
* * *
8411027 TTTTGGATTTAAGAGTTTTGGAGTTAAGGGA
1 TTTTGGATTTTAGAGTTTTGGATTTAAGAGA
* *
8411058 TTTTGGATTTTAG-GATTTTGAATTTTAGAAGA
1 TTTTGGATTTTAGAG-TTTTGGATTTAAG-AGA
8411090 TTTTGGATTTTAG
1 TTTTGGATTTTAG
8411103 GGGTTTTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
30 5 0.08
31 44 0.69
32 15 0.23
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (31 bp):
TTTTGGATTTTAGAGTTTTGGATTTAAGAGA
Found at i:8411093 original size:17 final size:15
Alignment explanation
Indices: 8410991--8411103 Score: 88
Period size: 15 Copynumber: 7.3 Consensus size: 15
8410981 GCTTTAAAGG
*
8410991 TTAGGGTTTT-GATT
1 TTAGGATTTTGGATT
*
8411005 TTA-GAGGTTTGGATT
1 TTAGGA-TTTTGGATT
*
8411020 TAAGAGATTTTGGA-T
1 TTAG-GATTTTGGATT
* *
8411035 TTAAGAGTTTTGGAGT
1 TTAGGA-TTTTGGATT
*
8411051 TAAGGGATTTTGGATT
1 TTA-GGATTTTGGATT
*
8411067 TTAGGATTTTGAATT
1 TTAGGATTTTGGATT
8411082 TTAGAAGATTTTGGATT
1 TTAG--GATTTTGGATT
8411099 TTAGG
1 TTAGG
8411104 GGTTTTAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.01
14 8 0.10
15 32 0.41
16 19 0.24
17 18 0.23
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTGGATT
Found at i:8411570 original size:35 final size:35
Alignment explanation
Indices: 8411512--8411580 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
8411502 ATCATGCATA
*
8411512 AATATATAAAAAAATACTTAAAATAACAAAAAAATAT
1 AATATATAAAAAAATAC-GAAAATAA-AAAAAAATAT
* *
8411549 AATATATAAAAAATTA-GAAAATTAAAAAAAAT
1 AATATATAAAAAAATACGAAAATAAAAAAAAAT
8411581 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 8 0.28
35 6 0.21
37 15 0.52
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (35 bp):
AATATATAAAAAAATACGAAAATAAAAAAAAATAT
Done.