Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 56 of 127
Found at i:11037487 original size:18 final size:18
Alignment explanation
Indices: 11037454--11037488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11037444 AAATATAAAC
**
11037454 AAAAAAAAAGGTAAAAGT
1 AAAAAAAAAGAAAAAAGT
11037472 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
11037489 AAATAAGATG
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:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAGT
Found at i:11038768 original size:17 final size:17
Alignment explanation
Indices: 11038746--11038779 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11038736 GCTTATGATC
11038746 TAAACTTTTTTTTTTCA
1 TAAACTTTTTTTTTTCA
11038763 TAAACTTTTTTTTTTCA
1 TAAACTTTTTTTTTTCA
11038780 AAAAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TAAACTTTTTTTTTTCA
Found at i:11038788 original size:17 final size:17
Alignment explanation
Indices: 11038751--11038788 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11038741 TGATCTAAAC
* *
11038751 TTTTTTTTTTCATAAAC
1 TTTTTTTTTTCAAAAAA
11038768 TTTTTTTTTTCAAAAAA
1 TTTTTTTTTTCAAAAAA
11038785 TTTT
1 TTTT
11038789 GATCTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTTCAAAAAA
Found at i:11038833 original size:13 final size:13
Alignment explanation
Indices: 11038807--11038848 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
11038797 TTAAAGAAAG
*
11038807 AAAA-AAAAAGAA
1 AAAATAAAAATAA
*
11038819 AAACTAAAAATAA
1 AAAATAAAAATAA
11038832 AAAATAAAAATAA
1 AAAATAAAAATAA
11038845 AAAA
1 AAAA
11038849 GTTTACTACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 3 0.12
13 23 0.88
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.10
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:11039501 original size:12 final size:12
Alignment explanation
Indices: 11039486--11039511 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11039476 TTTTTTAATG
11039486 ATTTAATAAAAA
1 ATTTAATAAAAA
11039498 ATTTAATAAAAA
1 ATTTAATAAAAA
11039510 AT
1 AT
11039512 CTAAAATGAT
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:0.00, T:0.35
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:11043030 original size:11 final size:11
Alignment explanation
Indices: 11043014--11043044 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11043004 TGAAATCTAG
*
11043014 GACATGTAACT
1 GACATGCAACT
11043025 GACATGCAACT
1 GACATGCAACT
11043036 GACATGCAA
1 GACATGCAA
11043045 TACTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (11 bp):
GACATGCAACT
Found at i:11043593 original size:29 final size:28
Alignment explanation
Indices: 11043548--11043626 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
11043538 CAAAAAATAA
* *
11043548 AAAATAAAAAATAATAT-TATATTATATT
1 AAAATAATAAATAATATAAAT-TTATATT
11043576 AAAATAATAAATAAATATAAATTTATATT
1 AAAATAATAAAT-AATATAAATTTATATT
* *
11043605 CAAATAATGAAACAATAATAAA
1 AAAATAAT-AAATAAT-ATAAA
11043627 GTAATGGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 11 0.26
29 22 0.51
30 10 0.23
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAATAATAAATAATATAAATTTATATT
Found at i:11057509 original size:59 final size:58
Alignment explanation
Indices: 11057446--11057884 Score: 580
Period size: 59 Copynumber: 7.5 Consensus size: 58
11057436 GTTTTTGTGC
* * **
11057446 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAAATATTCTTTTGAAACTTTAATTTCG
1 AGGAAAATTGATACTTTCAACTTTTCCC-AAAAAATATTTTTTTGAAACTTTATTTTTA
*
11057505 AGGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAAACTTTTATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTG-AAAC-TTTATTTTTA
* * *
11057564 AAGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAAT-ATTTTTTTGAAACTTTATTTTTA
* *
11057624 AGGAAAATTGATACTTTCGACTTTTCCTC-AAAAATATTTTTTTGAAATTTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAACTTTATTTTTA
* ** * * *
11057682 AGAAAAATTGATACTTTCAACTTTTTTCAAAAAATGTTTGTTTGAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAACTTT-ATTTTTA
* *
11057741 AAGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAATTTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATA-TTTTTTTGAAACTTTATTTTTA
* *
11057800 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAAT-CTTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAACTTTATTTTTA
*
11057857 AGGAAAATTGATAGTTTCAACTTTTCCC
1 AGGAAAATTGATACTTTCAACTTTTCCC
11057885 CAAATTTTTT
Statistics
Matches: 339, Mismatches: 31, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
57 62 0.18
58 69 0.20
59 140 0.41
60 51 0.15
61 8 0.02
62 9 0.03
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (58 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAACTTTATTTTTA
Found at i:11057691 original size:177 final size:175
Alignment explanation
Indices: 11057446--11057900 Score: 666
Period size: 177 Copynumber: 2.6 Consensus size: 175
11057436 GTTTTTGTGC
* * * **
11057446 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAA
1 AGGAAAATTGATACTTTCAACTTTTCCC--AAAAATATTTTTTTGAAAATTTATTTTTAAGGAAA
*
11057511 ATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTTTATTTTCAAAGAAAATTGAT
64 ATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAAAGAAAATTGAT
11057576 ACTTTCAACTTTTCCTCAAAAAT-TGATTTTTTTGAAAATTTATTTTTA
129 ACTTTCAACTTTTCCTCAAAAATAT--TTTTTTTGAAAATTTATTTTTA
* * *
11057624 AGGAAAATTGATACTTTCGACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAAGAAAAA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAA
**
11057689 TTGATACTTTCAACTTTTTTCAAAAA-ATGTTTGTTTG-AAACTTTGATTTTCAAAGAAAATTGA
65 TTGATACTTTCAACTTTTCCCAAAAATAT-TTT-TTTGAAAACTTTGATTTTCAAAGAAAATTGA
*
11057752 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTA
128 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTA
11057800 AGGAAAATTGATACTTTCAACTTTTCCCAAAAA-ATCTTTTTTGAAAATTTATTTTTAAGGAAAA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAATAT-TTTTTTGAAAATTTATTTTTAAGGAAAA
* * * *
11057864 TTGATAGTTTCAACTTTTCCCCAAATTTTTTTTTTGA
65 TTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGA
11057901 TTTTTATTTA
Statistics
Matches: 250, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
174 6 0.02
175 56 0.22
176 50 0.20
177 106 0.42
178 31 0.12
179 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (175 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAAAGAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTA
Found at i:11057714 original size:27 final size:27
Alignment explanation
Indices: 11057684--11057774 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
11057674 TATTTTTAAG
11057684 AAAAATTGATACTTTCAACTTTTTTCA
1 AAAAATTGATACTTTCAACTTTTTTCA
* ** *
11057711 AAAAA-TGTTTGTTTGAAACTTTGATTTTCAA
1 AAAAATTGATACTTT-CAAC-TT--TTTTC-A
*
11057742 AGAAAATTGATACTTTCAACTTTTCCTCA
1 A-AAAATTGATACTTTCAACTTTT-TTCA
11057771 AAAA
1 AAAA
11057775 TATTTTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 15
0.66 0.13 0.21
Matches are distributed among these distances:
26 6 0.13
27 8 0.17
28 5 0.11
29 4 0.09
30 7 0.15
31 4 0.09
32 7 0.15
33 6 0.13
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTTCA
Found at i:11057961 original size:17 final size:17
Alignment explanation
Indices: 11057914--11057974 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
11057904 TTATTTAAAG
11057914 AAAATAGAATAATAAAAC-
1 AAAATA-AA-AATAAAACA
*
11057932 AAAA-AAAAGTAAAACA
1 AAAATAAAAATAAAACA
*
11057948 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAACA
*
11057965 AAGATAAAAA
1 AAAATAAAAA
11057975 GAATATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.19
16 6 0.16
17 20 0.54
18 4 0.11
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:11057971 original size:11 final size:11
Alignment explanation
Indices: 11057914--11057973 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
11057904 TTATTTAAAG
11057914 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
11057927 AAAACAAAAA-
1 AAAATAAAAAT
*
11057937 AAAGTAAAACA-
1 AAAATAAAA-AT
11057948 AAAATAAAAAT
1 AAAATAAAAAT
*
11057959 AAAATAAAGAT
1 AAAATAAAAAT
11057970 AAAA
1 AAAA
11057974 AGAATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 8 0.20
11 25 0.62
12 2 0.05
13 5 0.12
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:11058004 original size:4 final size:4
Alignment explanation
Indices: 11057997--11058028 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
11057987 AACTTAATCT
11057997 AATA AATAA AATA AATA AATA AATA AATA AAT
1 AATA AAT-A AATA AATA AATA AATA AATA AAT
11058029 TCAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:11058586 original size:25 final size:23
Alignment explanation
Indices: 11058547--11058596 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
11058537 CGGAATCTAG
*
11058547 AAATTTTCCAAAAATTTCCAAAA
1 AAATTTTCCAAAAATCTCCAAAA
*
11058570 AAATTTTCGCCAAAAATCTCTAAAA
1 AAATTTT--CCAAAAATCTCCAAAA
11058595 AA
1 AA
11058597 TTATTTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
25 16 0.70
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTTTCCAAAAATCTCCAAAA
Found at i:11059083 original size:5 final size:5
Alignment explanation
Indices: 11059058--11059127 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
11059048 AAAAAATTAT
* *
11059058 ATAAA ATAATA ATAAT A-AAA ATAAAA ATACAA A-AAA TGTAAA ATACAA
1 ATAAA ATAA-A ATAAA ATAAA AT-AAA ATA-AA ATAAA -ATAAA ATA-AA
11059106 ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA AT
11059128 GAAGAGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
4 5 0.09
5 28 0.52
6 21 0.39
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:11059125 original size:15 final size:16
Alignment explanation
Indices: 11059058--11059127 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
11059048 AAAAAATTAT
*
11059058 ATAAAATAATAATA-AT
1 ATAAAATAA-AATACAA
11059074 A-AAAATAAAAATACAA
1 ATAAAAT-AAAATACAA
*
11059090 A-AAATGTAAAATACAA
1 ATAAA-ATAAAATACAA
11059106 ATAAAATAAAATA-AA
1 ATAAAATAAAATACAA
11059121 ATAAAAT
1 ATAAAAT
11059128 GAAGAGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 18 0.38
16 25 0.53
17 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (16 bp):
ATAAAATAAAATACAA
Found at i:11059137 original size:21 final size:21
Alignment explanation
Indices: 11059096--11059144 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11059086 ACAAAAAATG
*
11059096 TAAAATACAAATAAAATAAAA
1 TAAAATACAAATAAAAGAAAA
*
11059117 TAAAATA-AAATGAAGAGAAAA
1 TAAAATACAAAT-AAAAGAAAA
*
11059138 AAAAATA
1 TAAAATA
11059145 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (21 bp):
TAAAATACAAATAAAAGAAAA
Found at i:11059397 original size:43 final size:42
Alignment explanation
Indices: 11059336--11059633 Score: 361
Period size: 41 Copynumber: 7.1 Consensus size: 42
11059326 TTTGATCAAA
** * * * * *
11059336 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATT
* * * ** * *
11059379 GCTCCTCTAATCAGAGGCTCAATAACTTTGAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AGAAAGTAAATT
11059422 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * *
11059463 GTTCCTCTAAACAGAGACACTACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
11059504 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* *
11059546 ACTCCCCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* *
11059587 ACTCCTCTAAACAGAGGCACCACGATTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
11059628 GCTCCT
1 GCTCCT
11059634 TGGCAATCAT
Statistics
Matches: 229, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
41 126 0.55
42 41 0.18
43 58 0.25
44 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
Found at i:11059574 original size:124 final size:125
Alignment explanation
Indices: 11059359--11059633 Score: 381
Period size: 124 Copynumber: 2.2 Consensus size: 125
11059349 GAGGCTCAAT
* * * * * *
11059359 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAATAACTTTGAAAAAAATAAATTGC
1 GACTTTG-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAAAATAAATTAC
* ** *
11059424 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGACACTAC
64 TCCCCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGACACCAC
* * * *
11059486 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AGAAAGTAAATTACTC
1 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAAAATAAATTACTC
*
11059550 CCCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
66 CCCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGACACCAC
*
11059610 GATTTTGGAAAGTAAATTGCTCCT
1 GACTTTGGAAAGTAAATTGCTCCT
11059634 TGGCAATCAT
Statistics
Matches: 132, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
124 91 0.69
125 30 0.23
126 4 0.03
127 7 0.05
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (125 bp):
GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAAAATAAATTACTC
CCCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGACACCAC
Found at i:11059584 original size:83 final size:83
Alignment explanation
Indices: 11059411--11059632 Score: 349
Period size: 83 Copynumber: 2.7 Consensus size: 83
11059401 TAACTTTGAA
* * *
11059411 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATTGTTCCTCTAAAC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCCCTAAAC
*
11059475 AGAGACACTACGACTTTG
66 AGAGACACCACGACTTTG
* *
11059493 GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTACTCCCCTAAAC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCCCTAAAC
*
11059558 AGAGGCACCACGACTTTG
66 AGAGACACCACGACTTTG
* *
11059576 AAAAGTAAATTACTCCTCTAAACAGAGGCACCACGATTTTG-GAAAGTAAATTGCTCC
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCC
11059633 TTGGCAATCA
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
82 55 0.43
83 73 0.57
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (83 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCCCTAAAC
AGAGACACCACGACTTTG
Found at i:11060664 original size:8 final size:8
Alignment explanation
Indices: 11060648--11060688 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
11060638 TTCACTTTTC
*
11060648 TTTCTTTT
1 TTTCATTT
11060656 TTTCA--T
1 TTTCATTT
11060662 TTTCATTT
1 TTTCATTT
*
11060670 TTTTATTT
1 TTTCATTT
11060678 TTTCATTT
1 TTTCATTT
11060686 TTT
1 TTT
11060689 TTAAGTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
6 6 0.21
8 22 0.79
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCATTT
Found at i:11069106 original size:59 final size:58
Alignment explanation
Indices: 11068991--11069387 Score: 532
Period size: 58 Copynumber: 6.7 Consensus size: 58
11068981 TTTTTATGCA
11068991 GAAAAGTTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAG
1 GAAAA-TTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTATTTTTAAG
* * * *
11069052 GAAAATTGATACTTTCAACTTTTCC-CAAAAATATCTTTTTGGAAACTTTTATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAA-ATTTATTTTTAAG
* *
11069111 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTAAAAATTTATTTTTGAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTATTTTTAAG
* * *
11069171 AAAAATTGATACTTTCAATTTTTTCC-CAAAAATATTTTTTT-AAAATTTTTTTTTTAAG
1 GAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTTGAAAA-TTTATTTTTAAG
* * **
11069229 AAAAATTGATACATTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
*
11069287 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTGAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAAATTTATTTTTAAG
11069346 GAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTATTTT
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTT-TTTT
11069388 TATTTTTATT
Statistics
Matches: 300, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
57 12 0.04
58 102 0.34
59 100 0.33
60 64 0.21
61 20 0.07
62 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
Found at i:11069432 original size:6 final size:6
Alignment explanation
Indices: 11069421--11069488 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
11069411 ATAATAAAAC
* *
11069421 AAAATA AAAATA AAAATA AAAATA AAAGT- AAAACA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
11069468 AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAA
11069489 GAATATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
5 8 0.15
6 46 0.85
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:11069436 original size:17 final size:17
Alignment explanation
Indices: 11069403--11069488 Score: 86
Period size: 17 Copynumber: 4.9 Consensus size: 17
11069393 TTATTTAAAG
11069403 AAAATAGAATAAT-AAAAC
1 AAAATA-AA-AATAAAAAC
*
11069421 AAAATAAAAATAAAAATA
1 AAAATAAAAATAAAAA-C
*
11069439 AAAATAAAAGT-AAAAC
1 AAAATAAAAATAAAAAC
*
11069455 AAAAATAAAAATAAAAAT
1 -AAAATAAAAATAAAAAC
*
11069473 AAAATAAAGATAAAAA
1 AAAATAAAAATAAAAA
11069489 GAATATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
16 3 0.05
17 35 0.60
18 20 0.34
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAAAC
Found at i:11069498 original size:23 final size:23
Alignment explanation
Indices: 11069421--11069488 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
11069411 ATAATAAAAC
11069421 AAAATAAAAATAAAAATAAAAATA
1 AAAAT-AAAATAAAAATAAAAATA
* *
11069445 AAAGTAAAACAAAAATAAAAATA
1 AAAATAAAATAAAAATAAAAATA
*
11069468 AAAATAAAATAAAGATAAAAA
1 AAAATAAAATAAAAATAAAAA
11069489 GAATATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (23 bp):
AAAATAAAATAAAAATAAAAATA
Found at i:11069528 original size:12 final size:12
Alignment explanation
Indices: 11069398--11069540 Score: 55
Period size: 12 Copynumber: 11.3 Consensus size: 12
11069388 TATTTTTATT
11069398 TAAAGAAAATAGAA
1 TAAA-AAAATA-AA
11069412 TAATAAAACA-AAA
1 TAA-AAAA-ATAAA
11069425 TAAAAATAA-AAA
1 TAAAAA-AATAAA
*
11069437 TAAAAATAA-AAG
1 TAAAAA-AATAAA
*
11069449 TAAAACAA-AAA
1 TAAAAAAATAAA
11069460 TAAAAATAA-AAA
1 TAAAAA-AATAAA
11069472 TAAAATAAAGATAAA
1 T-AAA-AAA-ATAAA
* *
11069487 -AAGAATATTAAA
1 TAA-AAAAATAAA
** *
11069499 TAAACTTAATCTAA
1 TAAA-AAAAT-AAA
11069513 TAAAAAAATAAA
1 TAAAAAAATAAA
*
11069525 TAAACAAATAAA
1 TAAAAAAATAAA
11069537 TAAA
1 TAAA
11069541 TTCAAAAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
11 9 0.09
12 51 0.49
13 22 0.21
14 17 0.16
15 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:11070566 original size:6 final size:6
Alignment explanation
Indices: 11070558--11070588 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11070548 AATATAAAAT
*
11070558 AATAAT AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
11070589 TGAAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:11070583 original size:36 final size:34
Alignment explanation
Indices: 11070517--11070583 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
11070507 AATACCCAAG
*
11070517 ATAAAAAAAATAATAAAAGAAAAGAGAAAAAAAT
1 ATAAAAAAAATAATAAAAGAAAAAAGAAAAAAAT
*
11070551 ATAAAATAATAATAATAAAA-ATAAAAATAAAAA
1 ATAAAA-AA-AATAATAAAAGA-AAAAAGAAAAA
11070584 TAAAATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 3 0.11
36 19 0.68
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (34 bp):
ATAAAAAAAATAATAAAAGAAAAAAGAAAAAAAT
Found at i:11071438 original size:129 final size:129
Alignment explanation
Indices: 11071281--11071542 Score: 339
Period size: 129 Copynumber: 2.0 Consensus size: 129
11071271 TATATATTAT
* * * * * *
11071281 AAAAATGATCATTTAAGGTATTTTTGTACACAAACGCCTTAATTGATTAATTATAAATAATTCAA
1 AAAAAGGATCATTTAAGGCATTTCTGTACACAAACGCCTTAATTGATCAATTATAAAAAAAT-AA
* * * * *
11071346 AA-G-ATCAATTAATGCGTTCGTGTATAGAAACACCTTAAATGATTGATCAATTAGGGCGTTACA
65 AATGTATCAATTAAGGCGTTCGTATACAAAAACACCTTAAATGATTGATCAATTAAGGCGTTA-A
11071409 A
129 A
* *
11071410 AAAAAGGATCATTTAAGGCATTTCTGTACACAAATGCCTTAATTGATCAGTTATAAAAAAATAAA
1 AAAAAGGATCATTTAAGGCATTTCTGTACACAAACGCCTTAATTGATCAATTATAAAAAAATAAA
* * * *
11071475 ATGTATCATTTAAGGTGTTTGTATACAAAAACACCTTAAATGATTGATCAATTAAGGCTTTAAA
66 ATGTATCAATTAAGGCGTTCGTATACAAAAACACCTTAAATGATTGATCAATTAAGGCGTTAAA
11071539 AAAA
1 AAAA
11071543 TAAAAAGATA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 4 0.04
129 61 0.54
130 49 0.43
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (129 bp):
AAAAAGGATCATTTAAGGCATTTCTGTACACAAACGCCTTAATTGATCAATTATAAAAAAATAAA
ATGTATCAATTAAGGCGTTCGTATACAAAAACACCTTAAATGATTGATCAATTAAGGCGTTAAA
Found at i:11071571 original size:59 final size:58
Alignment explanation
Indices: 11071499--11071667 Score: 137
Period size: 49 Copynumber: 3.1 Consensus size: 58
11071489 GTGTTTGTAT
**
11071499 ACAAAAACACCTTAAATGATTGATCAATTAAGGCTTTAAAAAAATAAAAAGATAATTTA
1 ACAAAAATGCCTTAAATGATTGATCAATTAAGGC-TTAAAAAAATAAAAAGATAATTTA
* * *
11071558 ACAAAAATGCCTT--A--ATTGATCAGTT-A----TAAAAAAATAAAATGTTTCAA-TTA
1 ACAAAAATGCCTTAAATGATTGATCAATTAAGGCTTAAAAAAATAAAAAG-AT-AATTTA
* * * *
11071608 A-GACATTGCCTTAAATGATTGATCAATTAAGGCCTTAAAAAAAT-AAAAGATCATTTA
1 ACAAAAATGCCTTAAATGATTGATCAATTAAGG-CTTAAAAAAATAAAAAGATAATTTA
11071665 ACA
1 ACA
11071668 GAGACGTCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 29
0.66 0.10 0.23
Matches are distributed among these distances:
49 22 0.27
50 5 0.06
51 3 0.04
53 10 0.12
54 2 0.02
55 10 0.12
56 1 0.01
57 6 0.07
58 4 0.05
59 20 0.24
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.29
Consensus pattern (58 bp):
ACAAAAATGCCTTAAATGATTGATCAATTAAGGCTTAAAAAAATAAAAAGATAATTTA
Found at i:11071697 original size:108 final size:105
Alignment explanation
Indices: 11071503--11071744 Score: 317
Period size: 107 Copynumber: 2.3 Consensus size: 105
11071493 TTGTATACAA
* * *
11071503 AAACACCTTAAATGATTGATCAATTAAGGCTTTAAAAAAATAAAAAGATAATTTAACAAAAATGC
1 AAACGCCTTAAATGATTGATCAATTAAGGCCTTAAAAAAATAAAAAGATAATTTAACAAAAACGC
*
11071568 CTTAATTGATCAGTTATAAAAAAATAAAATGTTTCAATTA-AG
66 CTTAATTGATCAGTTATAAAAAAA-AAAATG-ATC-ATTATAG
** * * *
11071610 ACATTGCCTTAAATGATTGATCAATTAAGGCCTTAAAAAAAT-AAAAGATCATTTAACAGAGACG
1 A-AACGCCTTAAATGATTGATCAATTAAGGCCTTAAAAAAATAAAAAGATAATTTAACAAAAACG
* *
11071674 TCTTAATTGATTAGTTATAAAAAAAAAAATGATCATTATAG
65 CCTTAATTGATCAGTTATAAAAAAAAAAATGATCATTATAG
* *
11071715 AAACGTCTTAAATGATTAATCAATTAAGGC
1 AAACGCCTTAAATGATTGATCAATTAAGGC
11071745 ATTATAGACA
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
104 29 0.25
105 5 0.04
106 6 0.05
107 42 0.36
108 36 0.31
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.30
Consensus pattern (105 bp):
AAACGCCTTAAATGATTGATCAATTAAGGCCTTAAAAAAATAAAAAGATAATTTAACAAAAACGC
CTTAATTGATCAGTTATAAAAAAAAAAATGATCATTATAG
Found at i:11071724 original size:46 final size:48
Alignment explanation
Indices: 11071643--11071732 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
11071633 ATTAAGGCCT
* *
11071643 TAAAAAAATAAAAGATCATTTAACAGAGACGTCTTAATTGATTAGTTA
1 TAAAAAAATAAAAGATCATTTAACAGAAACGTCTTAAATGATTAGTTA
*
11071691 TAAAAAAA-AAAATGATCA-TT-ATAGAAACGTCTTAAATGATTA
1 TAAAAAAATAAAA-GATCATTTAACAGAAACGTCTTAAATGATTA
11071733 ATCAATTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 19 0.50
47 6 0.16
48 13 0.34
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (48 bp):
TAAAAAAATAAAAGATCATTTAACAGAAACGTCTTAAATGATTAGTTA
Found at i:11072160 original size:61 final size:63
Alignment explanation
Indices: 11071959--11072204 Score: 256
Period size: 61 Copynumber: 3.9 Consensus size: 63
11071949 TTGTGTAACT
* *
11071959 AAATGCCTTAATTAATCTCTTTATACAA-TTTATAAAAGATCAATTAAGGCATTTGGTTACAC
1 AAATGCCTTAATTGATCTCTTTATACAATTTTATAAAAGATCAATTAAGGCATTTGGTAACAC
* * *
11072021 AAAATGCCTTAATTGATC-CTTTTTAGAAATGTTTTATATAAAAGATCAATTAAGGCGTCTAT-G
1 -AAATGCCTTAATTGATCTCTTTATA-CAA---TTT-TATAAAAGATCAATTAAGGCAT-T-TGG
11072084 TAAC-C
58 TAACAC
**
11072089 AAATGCCTTAATTGATCTCTTTATACAA-TTT-GCAAAGATCAATTAAGGCATTTGGTAACAC
1 AAATGCCTTAATTGATCTCTTTATACAATTTTATAAAAGATCAATTAAGGCATTTGGTAACAC
* * * * *
11072150 AAACGTCTTAATTGATCT-TTTGTA-AATTTTATAAAGGATCAATTAAGGCGTTTGG
1 AAATGCCTTAATTGATCTCTTTATACAATTTTATAAAAGATCAATTAAGGCATTTGG
11072205 CACTTTGAAC
Statistics
Matches: 153, Mismatches: 17, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
59 3 0.02
60 14 0.09
61 54 0.35
62 7 0.05
63 20 0.13
67 21 0.14
68 28 0.18
69 5 0.03
70 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (63 bp):
AAATGCCTTAATTGATCTCTTTATACAATTTTATAAAAGATCAATTAAGGCATTTGGTAACAC
Found at i:11072223 original size:122 final size:127
Alignment explanation
Indices: 11071963--11072276 Score: 322
Period size: 122 Copynumber: 2.5 Consensus size: 127
11071953 GTAACTAAAT
* * * *
11071963 GCCTTAATTAATCTCTTTATACAATTTATAAAAGATCAATTAAGGCATTTGGTTACACAAAATGC
1 GCCTTAATTGATCTCTTTATACAATTTAGAAAAGATCAATTAAGGCATTTGGTAACACAAAACGC
* *
11072028 CTTAATTGATCCTTTTTAGAAATGTTTTATATAAAAGATCAATTAAGGCGTCTATGTAACCAAAT
66 CTTAATTGATCCTTTTTA-AAA--TTTTATATAAAAGATCAATTAAGGCGTCTATGGAACCAAAC
* *
11072093 GCCTTAATTGATCTCTTTATACAATTT-GCAAAGATCAATTAAGGCATTTGGTAACAC-AAACGT
1 GCCTTAATTGATCTCTTTATACAATTTAGAAAAGATCAATTAAGGCATTTGGTAACACAAAACGC
* * **
11072156 CTTAATTGAT-CTTTTGT-AAA-TTT-TATAAAGGATCAATTAAGGCGT-T-TGGCACTTTGAAC
66 CTTAATTGATCCTTTT-TAAAATTTTATATAAAAGATCAATTAAGGCGTCTATGGAAC--CAAAC
* * * ** * *
11072215 GCCTTAATTGATCCTTTTTATA-AATTAAAAACAAGATCAACCAAGGCATTTAGTTACACAAA
1 GCCTTAATTGAT-CTCTTTATACAATTTAGAA-AAGATCAATTAAGGCATTTGGTAACACAAA
11072277 CAACATAATT
Statistics
Matches: 157, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
120 4 0.03
121 1 0.01
122 39 0.25
123 12 0.08
124 23 0.15
125 2 0.01
126 3 0.02
127 5 0.03
128 15 0.10
129 27 0.17
130 26 0.17
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (127 bp):
GCCTTAATTGATCTCTTTATACAATTTAGAAAAGATCAATTAAGGCATTTGGTAACACAAAACGC
CTTAATTGATCCTTTTTAAAATTTTATATAAAAGATCAATTAAGGCGTCTATGGAACCAAAC
Found at i:11072642 original size:20 final size:20
Alignment explanation
Indices: 11072617--11072657 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11072607 TCAATAAGGG
*
11072617 ATGCTTTGCAAATGAACGAA
1 ATGCTTTGCAAATGAAAGAA
*
11072637 ATGCTTTGGAAATGAAAGAA
1 ATGCTTTGCAAATGAAAGAA
11072657 A
1 A
11072658 ACCCCAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (20 bp):
ATGCTTTGCAAATGAAAGAA
Found at i:11076513 original size:158 final size:156
Alignment explanation
Indices: 11076236--11076758 Score: 472
Period size: 158 Copynumber: 3.4 Consensus size: 156
11076226 TCTATTTCTT
* * * * * * * *
11076236 GTTATGTATTGGGCTTATTGATGAACTACTTTTATAGTAATTGAAAGACTAAAATTTGTAGGATA
1 GTTATGTATTGTGATTGTTGATGAACTACATTTATAGTAATTCAAAGCCTAAAA-TTATAGGAAA
*** * * *** * ** ** * *
11076301 TTCTTTATTGAACTAGATAGT-TTATTGTGTGTATTGTGATATAATGACATTGTGAAAGGTTAAA
65 TTCAAAATTAAACTAGAAAGTGTT-TTGTACATATAGAAATGCAATGACTTTGTGAAAGGTGAAA
11076365 ACTATTGCATATTTTGCTTTGTGATTTT-
129 ACTATTGC-TATTTTGCTTTGTGATTTTA
*
11076393 GATTATGTATTGTGATTGTTGATGAACTACCTTTATAGTAATTCAAAGCCTATAAATTATAGGAA
1 G-TTATGTATTGTGATTGTTGATGAACTACATTTATAGTAATTCAAAGCCTA-AAATTATAGGAA
* * * *
11076458 ATTCAAAATTAAACTAGAAAGTGTTTTGTACTTATAGAGATGCAGTGACTTTGTGAAAAGTGAAA
64 ATTCAAAATTAAACTAGAAAGTGTTTTGTACATATAGAAATGCAATGACTTTGTGAAAGGTGAAA
* *
11076523 ACTATTGCGTATATTGCTTTGTAATTTTA
129 ACTATTGC-TATTTTGCTTTGTGATTTTA
* * * * *
11076552 GTTGA-ATATTGTGATTATTGATGAAGTATATTTATAGCT-ATTCAAAGCCTAAAAATTATAGTA
1 GTT-ATGTATTGTGATTGTTGATGAACTACATTTATAG-TAATTCAAAGCCT-AAAATTATAGGA
** * * * * *
11076615 AATTCAGTATTAAACTAGATAGTGTTTTGTGCATATTGAAATGCAATGACTTTGTGAAAGGCGAC
63 AATTCAAAATTAAACTAGAAAGTGTTTTGTACATATAGAAATGCAATGACTTTGTGAAAGGTGAA
* * *
11076680 AAC---T-CT-TTTT-TTTTATGATTCTA
128 AACTATTGCTATTTTGCTTTGTGATTTTA
* *
11076703 GTTTTGTATTATGATTGTTGATGAACTACATTTATAGTAATTCAAAGCCTAAAATT
1 GTTATGTATTGTGATTGTTGATGAACTACATTTATAGTAATTCAAAGCCTAAAATT
11076759 TGTAAGAAAT
Statistics
Matches: 302, Mismatches: 55, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
150 7 0.02
151 50 0.17
152 3 0.01
153 1 0.00
154 1 0.00
155 1 0.00
157 1 0.00
158 229 0.76
159 9 0.03
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (156 bp):
GTTATGTATTGTGATTGTTGATGAACTACATTTATAGTAATTCAAAGCCTAAAATTATAGGAAAT
TCAAAATTAAACTAGAAAGTGTTTTGTACATATAGAAATGCAATGACTTTGTGAAAGGTGAAAAC
TATTGCTATTTTGCTTTGTGATTTTA
Found at i:11077733 original size:22 final size:22
Alignment explanation
Indices: 11077705--11077746 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11077695 TTATTGATGA
11077705 AATGTCGACAGAATACCAATGG
1 AATGTCGACAGAATACCAATGG
*
11077727 AATGTCGACGGAATACCAAT
1 AATGTCGACAGAATACCAAT
11077747 AAATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
AATGTCGACAGAATACCAATGG
Found at i:11077805 original size:11 final size:11
Alignment explanation
Indices: 11077791--11077839 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
11077781 ATTATAAACC
11077791 AATTATCGATG
1 AATTATCGATG
*
11077802 AATTACCGATG
1 AATTATCGATG
*
11077813 GATTAGT-GATG
1 AATTA-TCGATG
*
11077824 AATTATCAATG
1 AATTATCGATG
11077835 AATTA
1 AATTA
11077840 CTAATGGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 30 0.97
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (11 bp):
AATTATCGATG
Found at i:11077839 original size:22 final size:22
Alignment explanation
Indices: 11077798--11077873 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
11077788 ACCAATTATC
* *
11077798 GATGAATTACCGATGGATTAGT
1 GATGAATTACCAATGAATTAGT
* *
11077820 GATGAATTATCAATGAATTACT
1 GATGAATTACCAATGAATTAGT
* ** *
11077842 AATGGCTTACCAATTG-ATTACT
1 GATGAATTACCAA-TGAATTAGT
11077864 GATGAATTAC
1 GATGAATTAC
11077874 TGAAAGATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 40 0.95
23 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (22 bp):
GATGAATTACCAATGAATTAGT
Found at i:11079462 original size:20 final size:19
Alignment explanation
Indices: 11079413--11079462 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
11079403 ATCTTTTCAA
11079413 TTTTTGATTTTCTTTCTCT
1 TTTTTGATTTTCTTTCTCT
** * *
11079432 TTTTTCTTTTTTTTTTTGCT
1 TTTTTGATTTTCTTTCT-CT
11079452 TTTTTGATTTT
1 TTTTTGATTTT
11079463 GACTTATTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (19 bp):
TTTTTGATTTTCTTTCTCT
Found at i:11081927 original size:19 final size:19
Alignment explanation
Indices: 11081905--11081947 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11081895 AATTTTTATG
11081905 AAATTA-ATT-TTTATATATA
1 AAATTATATTATTTA-AT-TA
11081924 AAATTATATTATTTAATTA
1 AAATTATATTATTTAATTA
11081943 AAATT
1 AAATT
11081948 CAAAATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 5 0.23
21 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTATATTATTTAATTA
Found at i:11082383 original size:16 final size:17
Alignment explanation
Indices: 11082345--11082385 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11082335 ATTCGAGTTA
*
11082345 ATTTATATTTATGTATT
1 ATTTATATTTATATATT
*
11082362 -TATATATTTA-ATATT
1 ATTTATATTTATATATT
11082377 ATTTATATT
1 ATTTATATT
11082386 AATTGTCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTATATTTATATATT
Found at i:11082849 original size:12 final size:12
Alignment explanation
Indices: 11082827--11082861 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11082817 TTAAAGTTCC
11082827 ATTTCTTAAAATA
1 ATTT-TTAAAATA
11082840 ATTTTTAAAATA
1 ATTTTTAAAATA
*
11082852 ATTTTCAAAA
1 ATTTTTAAAA
11082862 ACTGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:11082884 original size:23 final size:25
Alignment explanation
Indices: 11082853--11082907 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
11082843 TTTAAAATAA
*
11082853 TTTTCAAAAACTGAT-TTTTTT-TT
1 TTTTGAAAAACTGATATTTTTTATT
*
11082876 TTTTGAAAAATTGATATTTTTTATT
1 TTTTGAAAAACTGATATTTTTTATT
*
11082901 GTTTGAA
1 TTTTGAA
11082908 TAATTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 13 0.48
24 6 0.22
25 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (25 bp):
TTTTGAAAAACTGATATTTTTTATT
Found at i:11083028 original size:3 final size:3
Alignment explanation
Indices: 11083020--11083050 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11083010 ATACTTATCT
11083020 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11083051 ATGTCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11083678 original size:10 final size:11
Alignment explanation
Indices: 11083663--11083691 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
11083653 TATATTTTAA
11083663 ATTAAAAAAT-
1 ATTAAAAAATG
11083673 ATTAAAAAATG
1 ATTAAAAAATG
11083684 ATTAAAAA
1 ATTAAAAA
11083692 TAGTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
ATTAAAAAATG
Found at i:11083749 original size:18 final size:17
Alignment explanation
Indices: 11083698--11083749 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
11083688 AAAATAGTTA
11083698 TATTATTAAAACAATAT
1 TATTATTAAAACAATAT
**
11083715 TATTATTTTGAACAATAT
1 TATTA-TTAAAACAATAT
*
11083733 TAATTATTAAAATAATA
1 T-ATTATTAAAACAATA
11083750 AAATATTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.18
18 19 0.68
19 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
TATTATTAAAACAATAT
Found at i:11085192 original size:4 final size:4
Alignment explanation
Indices: 11085183--11085213 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
11085173 GGCAAATCGT
11085183 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
11085214 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:11088278 original size:30 final size:30
Alignment explanation
Indices: 11088238--11088313 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
11088228 TTGATTTATG
* *
11088238 TTAAGAGTTTATTT-AGGTATAAAATAAATA
1 TTAAGAGTTTATTTGA-ATACAAAATAAATA
* *
11088268 TTAAGGGTTTATTTGAATACAAAATAAATG
1 TTAAGAGTTTATTTGAATACAAAATAAATA
*
11088298 TTAAGTGTTTATTTGA
1 TTAAGAGTTTATTTGA
11088314 TTGCTAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 39 0.98
31 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (30 bp):
TTAAGAGTTTATTTGAATACAAAATAAATA
Found at i:11088331 original size:30 final size:30
Alignment explanation
Indices: 11088258--11088332 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
11088248 ATTTAGGTAT
11088258 AAAATAAATA-TTAAGGGTTTATTTGAATAC
1 AAAATAAA-AGTTAAGGGTTTATTTGAATAC
* * * *
11088288 AAAATAAATGTTAAGTGTTTATTTGATTGC
1 AAAATAAAAGTTAAGGGTTTATTTGAATAC
* *
11088318 TAATTAAAAGTTAAG
1 AAAATAAAAGTTAAG
11088333 AACTTATTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.39
Consensus pattern (30 bp):
AAAATAAAAGTTAAGGGTTTATTTGAATAC
Found at i:11106206 original size:13 final size:15
Alignment explanation
Indices: 11106175--11106211 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
11106165 CTCTCTGGTT
11106175 CTCTCTTCCTTCTTA
1 CTCTCTTCCTTCTTA
*
11106190 CTCTCTTCC-TC-TC
1 CTCTCTTCCTTCTTA
11106203 CTCTCTTCC
1 CTCTCTTCC
11106212 AGCTCAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (15 bp):
CTCTCTTCCTTCTTA
Found at i:11109891 original size:11 final size:13
Alignment explanation
Indices: 11109875--11109906 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
11109865 CTCTCTCTAA
11109875 TTCTCTCTT-CT-
1 TTCTCTCTTCCTC
11109886 TTCTCTCTTCCTC
1 TTCTCTCTTCCTC
11109899 TTCTCTCT
1 TTCTCTCT
11109907 ATTTTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 2 0.11
13 8 0.42
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (13 bp):
TTCTCTCTTCCTC
Found at i:11110065 original size:32 final size:32
Alignment explanation
Indices: 11110029--11110092 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
11110019 GTTTTCCAGT
11110029 AAAAAAGTAAGAGGTTAATCCATACTTAGCAC
1 AAAAAAGTAAGAGGTTAATCCATACTTAGCAC
*
11110061 AAAAAAGTAAGGGGTTAATCCATACTTAGCAC
1 AAAAAAGTAAGAGGTTAATCCATACTTAGCAC
11110093 CTACGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (32 bp):
AAAAAAGTAAGAGGTTAATCCATACTTAGCAC
Found at i:11114301 original size:26 final size:25
Alignment explanation
Indices: 11114266--11114315 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
11114256 TAATATTTAT
*
11114266 AATAATATAAATTATTAAAATATAAA
1 AATAACATAAATTA-TAAAATATAAA
11114292 AATAACATAAATTATAAAATATAA
1 AATAACATAAATTATAAAATATAA
11114316 TTAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAACATAAATTATAAAATATAAA
Found at i:11114320 original size:18 final size:17
Alignment explanation
Indices: 11114274--11114322 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11114264 ATAATAATAT
* *
11114274 AAATTATTAAAATATAA
1 AAATAATTAAATTATAA
*
11114291 AAATAACATAAATTATAA
1 AAATAA-TTAAATTATAA
11114309 AATATAATTAAATT
1 AA-ATAATTAAATT
11114323 TTAAGTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 17 0.65
19 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAATTAAATTATAA
Found at i:11114391 original size:15 final size:15
Alignment explanation
Indices: 11114371--11114412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11114361 TATGATACGA
11114371 TATAATTAATATATG
1 TATAATTAATATATG
*
11114386 TATAATTAAT-TATT
1 TATAATTAATATATG
11114400 TA-AATATAATATA
1 TATAAT-TAATATA
11114413 AATAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TATAATTAATATATG
Found at i:11114422 original size:10 final size:10
Alignment explanation
Indices: 11114400--11114474 Score: 73
Period size: 10 Copynumber: 7.6 Consensus size: 10
11114390 ATTAATTATT
11114400 TAAATATAATA
1 TAAATA-AATA
11114411 TAAATAAATA
1 TAAATAAATA
11114421 TAAAT-AATA
1 TAAATAAATA
* *
11114430 CAAATATATA
1 TAAATAAATA
*
11114440 TAAATAACTA
1 TAAATAAATA
*
11114450 T-AATTAATA
1 TAAATAAATA
* *
11114459 TAGATATATA
1 TAAATAAATA
11114469 TAAATA
1 TAAATA
11114475 GACACGATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
9 15 0.29
10 30 0.59
11 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
TAAATAAATA
Found at i:11114429 original size:19 final size:19
Alignment explanation
Indices: 11114405--11114474 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
11114395 TTATTTAAAT
11114405 ATAATATAAATAAATATAA
1 ATAATATAAATAAATATAA
* *
11114424 ATAATACAAATATATATAA
1 ATAATATAAATAAATATAA
* *
11114443 ATAACTAT-AATTAATATAG
1 ATAA-TATAAATAAATATAA
11114462 ATATATATAAATA
1 ATA-ATATAAATA
11114475 GACACGATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 35 0.85
20 6 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (19 bp):
ATAATATAAATAAATATAA
Found at i:11114440 original size:29 final size:29
Alignment explanation
Indices: 11114401--11114474 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
11114391 TTAATTATTT
11114401 AAATATAATATAAATAAATATAAATAATAC
1 AAATAT-ATATAAATAAATATAAATAATAC
* * *
11114431 AAATATATATAAATAACTATAATTAATAT
1 AAATATATATAAATAAATATAAATAATAC
*
11114460 AGATATATATAAATA
1 AAATATATATAAATA
11114475 GACACGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATATATATAAATAAATATAAATAATAC
Found at i:11114484 original size:29 final size:29
Alignment explanation
Indices: 11114403--11114495 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
11114393 AATTATTTAA
* * * * *
11114403 ATATAATATAAATAAATATAAATAATACAA
1 ATAT-ATATAAATAACTACAATTAATATAG
*
11114433 ATATATATAAATAACTATAATTAATATAG
1 ATATATATAAATAACTACAATTAATATAG
* *
11114462 ATATATATAAATAGAC-ACGATTAATATAT
1 ATATATATAAATA-ACTACAATTAATATAG
11114491 ATATA
1 ATATA
11114496 AAAAATATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
29 49 0.89
30 6 0.11
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATATATAAATAACTACAATTAATATAG
Found at i:11115154 original size:16 final size:17
Alignment explanation
Indices: 11115133--11115164 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11115123 AATAAACATG
11115133 AAATATATATT-TTTTA
1 AAATATATATTATTTTA
11115149 AAATATATATTATTTT
1 AAATATATATTATTTT
11115165 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATATATTATTTTA
Found at i:11116521 original size:37 final size:38
Alignment explanation
Indices: 11116471--11116549 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
11116461 TTTACACTGT
11116471 ACAAAATTGATCCCTCCTCTA-TATAATAATATATTTA
1 ACAAAATTGATCCCTCCTCTATTATAATAATATATTTA
*
11116508 ACAAAATTGATCCCTCCTTTATTATAATAATATATTTA
1 ACAAAATTGATCCCTCCTCTATTATAATAATATATTTA
11116546 ACAA
1 ACAA
11116550 TATAATATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 20 0.50
38 20 0.50
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.38
Consensus pattern (38 bp):
ACAAAATTGATCCCTCCTCTATTATAATAATATATTTA
Found at i:11117099 original size:29 final size:31
Alignment explanation
Indices: 11117036--11117101 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
11117026 TTTATTATTC
* *
11117036 TTAAAATATTATTTTTATTAGTATAATAATA
1 TTAAAATATAATATTTATTAGTATAATAATA
11117067 TTAAAATAGTAATATTTATTA-T-TAA-AATA
1 TTAAAATA-TAATATTTATTAGTATAATAATA
11117096 TTAAAA
1 TTAAAA
11117102 ATATTTATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.31
30 3 0.09
31 9 0.28
32 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (31 bp):
TTAAAATATAATATTTATTAGTATAATAATA
Found at i:11117109 original size:21 final size:20
Alignment explanation
Indices: 11117085--11117126 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11117075 GTAATATTTA
*
11117085 TTATTAAAATATTAAAAATAT
1 TTATGAAAATATT-AAAATAT
*
11117106 TTATGAAATTATTAAAATAT
1 TTATGAAAATATTAAAATAT
11117126 T
1 T
11117127 CATTTTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTATGAAAATATTAAAATAT
Found at i:11117147 original size:81 final size:83
Alignment explanation
Indices: 11117003--11117213 Score: 184
Period size: 81 Copynumber: 2.5 Consensus size: 83
11116993 TTCATATTAA
* * * * **
11117003 TATT-TTAAAATATTTAAAATAGTTTTATTATTCTTAAAATATTATTTTTATTAGTATAATAATA
1 TATTATTAAAATATTAAAAATA-TTTTATAATTATTAAAATATTATTTTTATGAAAATAATAATA
11117067 TTA-A-AATA-GTAATATT
65 TTATATAATACGTAATATT
*
11117083 TATTATTAAAATATTAAAAATA-TTTATGAAATTATTAAAATATTCA-TTTTATGAAAATACTAA
1 TATTATTAAAATATTAAAAATATTTTAT--AATTATTAAAATATT-ATTTTTATGAAAATAATAA
* *
11117146 TATTATTATATTACTTAATATT
63 TATTA-TATAATACGTAATATT
* * * **
11117168 AATTATTAAACTAATAAAAATATTATT-TAATATATTATTATATTAT
1 TATTATTAAAATATTAAAAATATT-TTATAAT-TATTAAAATATTAT
11117214 AAAATAATAA
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
79 5 0.05
80 4 0.04
81 47 0.45
82 1 0.01
83 1 0.01
84 7 0.07
85 36 0.34
86 2 0.02
87 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (83 bp):
TATTATTAAAATATTAAAAATATTTTATAATTATTAAAATATTATTTTTATGAAAATAATAATAT
TATATAATACGTAATATT
Found at i:11117192 original size:39 final size:39
Alignment explanation
Indices: 11117071--11117236 Score: 97
Period size: 39 Copynumber: 4.0 Consensus size: 39
11117061 ATAATATTAA
*
11117071 AATAGTAATATT-TATTATTAAAATATTAAAAATATTTATGAAATT
1 AATA-TAATATTATATTA-TAAAATAATAAAAATA-TTAT----TT
* * * * * *
11117116 ATTAAAATATTCATTTTATGAAAATACTAATATTATTATATT
1 AATATAATATT-ATATTAT-AAAATAATAAAAATATTAT-TT
* *
11117158 ACT-TAATATTA-ATTATTAAACTAATAAAAATATTATTT
1 AATATAATATTATATTA-TAAAATAATAAAAATATTATTT
*
11117196 AATATATTATTATATTATAAAATAATAATATAATA-TATTT
1 AATATAATATTATATTATAAAATAATAA-A-AATATTATTT
11117236 A
1 A
11117237 TTATTGAAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
38 4 0.04
39 35 0.36
40 13 0.13
41 10 0.10
42 5 0.05
44 6 0.06
45 8 0.08
46 16 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (39 bp):
AATATAATATTATATTATAAAATAATAAAAATATTATTT
Found at i:11119503 original size:17 final size:17
Alignment explanation
Indices: 11119467--11119521 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
11119457 AACGAAGGTT
* *
11119467 AAAATTAAAT-ATACAA
1 AAAATAAAATAATAAAA
11119483 AAAATAAAA-AACTAAAA
1 AAAATAAAATAA-TAAAA
*
11119500 AAAACAAAATAATAAAA
1 AAAATAAAATAATAAAA
*
11119517 TAAAT
1 AAAAT
11119522 GAATGAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.29
17 20 0.65
18 2 0.06
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAATAAAA
Found at i:11119712 original size:25 final size:25
Alignment explanation
Indices: 11119657--11119713 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
11119647 ATATAATATT
*
11119657 AAGTTT-AAGTTTAAATTTAATTTT
1 AAGTTTAAAGTTTAAATTTAATTTG
11119681 AAGTTTAAAGTTTAAAATTTAATTTG
1 AAGTTTAAAGTTT-AAATTTAATTTG
11119707 AA-TTTAA
1 AAGTTTAA
11119714 TTAAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.20
25 11 0.37
26 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (25 bp):
AAGTTTAAAGTTTAAATTTAATTTG
Found at i:11119725 original size:15 final size:15
Alignment explanation
Indices: 11119707--11119748 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
11119697 ATTTAATTTG
11119707 AATTTAATTAAATTA
1 AATTTAATTAAATTA
** *
11119722 AATTTTTTTAATTTA
1 AATTTAATTAAATTA
11119737 AATTTAATTAAA
1 AATTTAATTAAA
11119749 GATAAAAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTAATTAAATTA
Found at i:11119742 original size:6 final size:6
Alignment explanation
Indices: 11119655--11119743 Score: 57
Period size: 6 Copynumber: 15.7 Consensus size: 6
11119645 GTATATAATA
* * * *
11119655 TTAAGT TTAAGT TTAAAT TTAATT TTAAGT TTAAAGT TTAAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TT-AAAT TTAAAT
* *
11119704 TTGAAT TT-AA- TTAAA- TTAAAT TT---T TTTAAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
11119744 TTAAAGATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.04
4 2 0.03
5 14 0.20
6 42 0.60
7 6 0.09
8 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:11119846 original size:22 final size:24
Alignment explanation
Indices: 11119821--11119882 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 24
11119811 TTATTTTTGA
* *
11119821 TAAAATTTTAATTA-TTTAT-ATT
1 TAAAATTTAAAATATTTTATCATT
11119843 TAAAA-TTAAAATATTTTATCATT
1 TAAAATTTAAAATATTTTATCATT
11119866 TAAAATAATTAAAATAT
1 TAAAAT--TTAAAATAT
11119883 AAAATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.18
22 10 0.30
23 8 0.24
26 9 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATTTAAAATATTTTATCATT
Found at i:11119894 original size:18 final size:18
Alignment explanation
Indices: 11119871--11119925 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
11119861 TCATTTAAAA
11119871 TAATTAAAATATAAAATT
1 TAATTAAAATATAAAATT
*
11119889 TAATTAAACTCATAAATAATT
1 TAATTAAAAT-AT-AA-AATT
11119910 TAAATT-AAATATAAAA
1 T-AATTAAAATATAAAA
11119926 ATATTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 4 0.13
21 8 0.26
22 4 0.13
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATTAAAATATAAAATT
Found at i:11119931 original size:21 final size:20
Alignment explanation
Indices: 11119872--11119936 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
11119862 CATTTAAAAT
*
11119872 AATTAAA-ATATAAAATTT-
1 AATTAAATATAAAAAATTTA
*
11119890 AATTAAACTCATAAATAATTTA
1 AATTAAA-T-ATAAAAAATTTA
11119912 AATTAAATATAAAAATATTTA
1 AATTAAATATAAAAA-ATTTA
11119933 AATT
1 AATT
11119937 TAATTTAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 7 0.18
20 6 0.15
21 19 0.49
22 7 0.18
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAATATAAAAAATTTA
Found at i:11119943 original size:32 final size:30
Alignment explanation
Indices: 11119905--11119982 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 30
11119895 AACTCATAAA
11119905 TAATTTAAATTAAATATAAAAATATTTAAATT
1 TAATTTAAATTAAA-AT-AAAATATTTAAATT
* *
11119937 TAATTTAATCAATAAAATAAATTATTTAAATT
1 TAATTTAA--ATTAAAATAAAATATTTAAATT
*
11119969 TAAATTTAATTTAA
1 T-AATTTAAATTAA
11119983 TAATTATCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 3 0.08
32 22 0.56
33 9 0.23
34 5 0.13
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATTTAAATTAAAATAAAATATTTAAATT
Found at i:11121083 original size:18 final size:19
Alignment explanation
Indices: 11121060--11121095 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11121050 TATTGATCAA
11121060 TAATTA-TTTTTTATTAAT
1 TAATTAGTTTTTTATTAAT
11121078 TAATTAGTTTTTTATTAA
1 TAATTAGTTTTTTATTAA
11121096 ATAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TAATTAGTTTTTTATTAAT
Found at i:11123342 original size:42 final size:42
Alignment explanation
Indices: 11123254--11123425 Score: 211
Period size: 42 Copynumber: 4.1 Consensus size: 42
11123244 TTAAAAGAAA
* * * * *
11123254 AAAAT-AACAAAGCTTCTCTAAATAGAGGCTCAATGACTTTTA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGAC-TTTG
* * * *
11123296 AAAATAAACAAAGCTCCTATAAATAGAGCCTCAACGACTTTG
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
* *
11123338 AAAATAAATAAAGCTCCTCTAAACAAAGGCTTAACGACTTTG
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
*
11123380 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAATGACTTTAG
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTT-G
11123423 AAA
1 AAA
11123426 GCAAATTGCT
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 82 0.72
43 32 0.28
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (42 bp):
AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG
Found at i:11123449 original size:41 final size:40
Alignment explanation
Indices: 11123308--11123684 Score: 274
Period size: 42 Copynumber: 9.2 Consensus size: 40
11123298 AATAAACAAA
* * * * * *
11123308 GCTCCTATAAATAGAGCCTCAACGACTTTGAAAATAAATAAA
1 GCTCCTCTAAATAAAGGCTCAACAACTTTGAAAGTAAAT--T
* * * * **
11123350 GCTCCTCTAAACAAAGGCTTAACGACTTTGAAAATAAACAAA
1 GCTCCTCTAAATAAAGGCTCAACAACTTTGAAAGT-AA-ATT
* ** *
11123392 GCTCCTCTAAACAAAGGCTCAATGACTTTAGAAAGCAAATT
1 GCTCCTCTAAATAAAGGCTCAACAACTTT-GAAAGTAAATT
*
11123433 GCTCCTCTAAATAAAGG-TACCACAACTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCT-CAACAACTTTGAAAGTAAATT
* * * * **
11123473 GCTTCTCCAAACAAAGGCACCTCAACTTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCTCAACAAC-TTTGAAAGTAAATT
* ***
11123514 GCTCCTCTAAA-AAGAGGCACCGTAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAATAA-AGGCTCAACAAC-TTTG-AAAGTAAATT
* * * *
11123556 GCTCCTCTAAATAGAGGCACCACAACTTTGAATGTAAATT
1 GCTCCTCTAAATAAAGGCTCAACAACTTTGAAAGTAAATT
* *
11123596 GCTCCTCTAAATAGAGG-TACCACAACTTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCT-CAACAAC-TTTGAAAGTAAATT
* * * *
11123637 GCTCCTCTAAATAGAGGCAACCACAACTTTAGAAAATAAATT
1 GCTCCTCTAAATAAAGGC-TCAACAACTTT-GAAAGTAAATT
11123679 GCTCCT
1 GCTCCT
11123685 TAACAATCAT
Statistics
Matches: 287, Mismatches: 34, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
40 66 0.23
41 99 0.34
42 114 0.40
43 7 0.02
44 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (40 bp):
GCTCCTCTAAATAAAGGCTCAACAACTTTGAAAGTAAATT
Found at i:11123489 original size:40 final size:40
Alignment explanation
Indices: 11123392--11123684 Score: 336
Period size: 41 Copynumber: 7.2 Consensus size: 40
11123382 AATAAACAAA
* * * ** *
11123392 GCTCCTCTAAACAAAGGCTCAATGACTTTAGAAAGCAAATT
1 GCTCCTCTAAATAAAGGCACCACAACTTT-GAAAGTAAATT
*
11123433 GCTCCTCTAAATAAAGGTACCACAACTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATT
* * * *
11123473 GCTTCTCCAAACAAAGGCACCTCAACTTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCACCACAAC-TTTGAAAGTAAATT
**
11123514 GCTCCTCTAAA-AAGAGGCACCGTAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAATAA-AGGCACCACAAC-TTTG-AAAGTAAATT
* *
11123556 GCTCCTCTAAATAGAGGCACCACAACTTTGAATGTAAATT
1 GCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATT
* *
11123596 GCTCCTCTAAATAGAGGTACCACAACTTTTGAAAGTAAATT
1 GCTCCTCTAAATAAAGGCACCACAAC-TTTGAAAGTAAATT
* *
11123637 GCTCCTCTAAATAGAGGCAACCACAACTTTAGAAAATAAATT
1 GCTCCTCTAAATAAAGGC-ACCACAACTTT-GAAAGTAAATT
11123679 GCTCCT
1 GCTCCT
11123685 TAACAATCAT
Statistics
Matches: 221, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
40 67 0.30
41 98 0.44
42 55 0.25
43 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (40 bp):
GCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATT
Found at i:11123561 original size:123 final size:124
Alignment explanation
Indices: 11123416--11123684 Score: 391
Period size: 123 Copynumber: 2.2 Consensus size: 124
11123406 AGGCTCAATG
* * *
11123416 ACTTTAG-AAAGCAAATTGCTCCTCTAAATAAAGGTACCACAACTTTGAAAGTAAATTGCTTCTC
1 ACTTTAGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTC
* **
11123480 CAAACAAAGGCACCTCAACTTTTGAAAGTAAATTGCTCCTCTAAAAAGAGGC-ACCGTA
66 CAAACAAAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAAAAGAGGCAACCACA
* * *
11123538 ACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAATGTAAATTGCTCCTC
1 ACTTTAGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTC
* * * * *
11123603 TAAATAGAGGTACCACAACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCAACCACA
66 CAAACAAAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAAAAGAGGCAACCACA
11123662 ACTTTAGAAAA-TAAATTGCTCCT
1 ACTTTAGAAAAGTAAATTGCTCCT
11123685 TAACAATCAT
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
122 6 0.05
123 110 0.85
124 14 0.11
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (124 bp):
ACTTTAGAAAAGTAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTGCTCCTC
CAAACAAAGGCACCACAACTTTTGAAAGTAAATTGCTCCTCTAAAAAGAGGCAACCACA
Found at i:11124035 original size:43 final size:42
Alignment explanation
Indices: 11123983--11124064 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
11123973 TTTGGCAAAC
*
11123983 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
11124025 TTGGAGATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
11124065 GTTCAAAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 5 0.14
43 30 0.81
44 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:11125501 original size:29 final size:29
Alignment explanation
Indices: 11125457--11125512 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
11125447 CCTCTTCTCA
* *
11125457 TTTTTTTTTCATTTTCCCT-TTTTTTTCT
1 TTTTTTTTTCACTTTCACTATTTTTTTCT
11125485 TTTTTTTTTCACCTTTCACTATTTTTTT
1 TTTTTTTTTCA-CTTTCACTATTTTTTT
11125513 TTCTCATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 6 0.25
30 7 0.29
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTTTTTCACTTTCACTATTTTTTTCT
Found at i:11130944 original size:18 final size:18
Alignment explanation
Indices: 11130893--11130949 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
11130883 TGAAAACCAT
11130893 AAAACAAAGTGAAT-AAA-
1 AAAACAAA-TGAATAAAAC
* *
11130910 TAAACAATTATGCATAAAAC
1 AAAACAA--ATGAATAAAAC
11130930 AAAACAAATGAATAAAAC
1 AAAACAAATGAATAAAAC
11130948 AA
1 AA
11130950 TCAAATAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 6 0.19
18 16 0.50
19 4 0.12
20 6 0.19
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAACAAATGAATAAAAC
Found at i:11131237 original size:14 final size:16
Alignment explanation
Indices: 11131203--11131239 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
11131193 TGCTGCCCAG
11131203 TCTTTTTTTTTTGTTCA
1 TCTTTTTTTTTTGTT-A
11131220 TCTTTTTTTTTT-TT-
1 TCTTTTTTTTTTGTTA
11131234 TCTTTT
1 TCTTTT
11131240 GGTGCCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (16 bp):
TCTTTTTTTTTTGTTA
Found at i:11146758 original size:20 final size:20
Alignment explanation
Indices: 11146733--11146771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11146723 GTTTATTATA
*
11146733 TTTTTATTTTCTATTTTTTG
1 TTTTTATTTTCAATTTTTTG
11146753 TTTTTATTTTCAATTTTTT
1 TTTTTATTTTCAATTTTTT
11146772 TAATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTCAATTTTTTG
Found at i:11153121 original size:18 final size:19
Alignment explanation
Indices: 11153098--11153136 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
11153088 TTAATTAAAA
11153098 AATT-AAAAAAGAAAAATT
1 AATTAAAAAAAGAAAAATT
11153116 AATTAAAAAAAAGAAAAATT
1 AATT-AAAAAAAGAAAAATT
11153136 A
1 A
11153137 TTGAGGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
20 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AATTAAAAAAAGAAAAATT
Found at i:11153232 original size:29 final size:30
Alignment explanation
Indices: 11153195--11153251 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
11153185 TCCTTGCATC
*
11153195 TAGAGAATATTTTGT-TATTT-ATATATAAA
1 TAGAAAATA-TTTGTATATTTAATATATAAA
11153224 TAGAAAATATTTGTATATTTAATATATA
1 TAGAAAATATTTGTATATTTAATATATA
11153252 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (30 bp):
TAGAAAATATTTGTATATTTAATATATAAA
Found at i:11155201 original size:19 final size:18
Alignment explanation
Indices: 11155167--11155202 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11155157 AATTAAGGGT
*
11155167 ATTTTTTATTATTTTTTC
1 ATTTTTTATTAATTTTTC
11155185 ATTTTTTACTTAATTTTT
1 ATTTTTTA-TTAATTTTT
11155203 TGTGTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTTATTAATTTTTC
Found at i:11155614 original size:20 final size:20
Alignment explanation
Indices: 11155577--11155619 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11155567 TCTAAATTCT
*
11155577 ATAAGAATAAAATTAAATAA
1 ATAAGAATAAAATGAAATAA
11155597 ATAA-AATAAAGATGAAATAA
1 ATAAGAATAAA-ATGAAATAA
11155617 ATA
1 ATA
11155620 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
ATAAGAATAAAATGAAATAA
Found at i:11156447 original size:14 final size:14
Alignment explanation
Indices: 11156418--11156459 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11156408 TTTCAACAAA
*
11156418 TTATTTGTAATAAAT
1 TTATTTATAAT-AAT
11156433 TTATATT-TAATAAT
1 TTAT-TTATAATAAT
11156447 TTATTTATAATAA
1 TTATTTATAATAA
11156460 CATTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 13 0.52
15 8 0.32
16 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTATTTATAATAAT
Found at i:11157034 original size:7 final size:7
Alignment explanation
Indices: 11157022--11157048 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11157012 AATATGATTT
11157022 TTTTTTA
1 TTTTTTA
11157029 TTTTTTA
1 TTTTTTA
11157036 TTTTTTA
1 TTTTTTA
11157043 TTTTTT
1 TTTTTT
11157049 TTGGATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:11157333 original size:23 final size:24
Alignment explanation
Indices: 11157306--11157353 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11157296 CTTATGCAAT
11157306 ATGTATGAAC-ATAA-TAATATATG
1 ATGTATGAACGATAATTAA-ATATG
*
11157329 ATGTATGCACGATAATTAAATATG
1 ATGTATGAACGATAATTAAATATG
11157353 A
1 A
11157354 ATGATAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 10 0.45
25 3 0.14
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (24 bp):
ATGTATGAACGATAATTAAATATG
Found at i:11157504 original size:26 final size:26
Alignment explanation
Indices: 11157474--11157554 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
11157464 TAAAGTTTGG
11157474 TTAGGGTTTAGGGTTTGGTTTAAGAT
1 TTAGGGTTTAGGGTTTGGTTTAAGAT
11157500 TTAGGGTTTTGGATTGGGTTTAGGTTTTAAGAT
1 TTAGGG-TTT--A--GGGTTT-GG-TTTAAGAT
*
11157533 TTA-GGTTTATGGTTTGAGTTTA
1 TTAGGGTTTAGGGTTTG-GTTTA
11157555 GGTTTTAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
26 11 0.24
27 9 0.20
29 2 0.04
31 9 0.20
32 4 0.09
33 11 0.24
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (26 bp):
TTAGGGTTTAGGGTTTGGTTTAAGAT
Found at i:11157521 original size:19 final size:20
Alignment explanation
Indices: 11157469--11157527 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
11157459 TGGTTTAAAG
11157469 TTTGG-TTAGGGTTTAGGG-
1 TTTGGATTAGGGTTTAGGGT
* * *
11157487 TTTGGTTTAAGATTTAGGGT
1 TTTGGATTAGGGTTTAGGGT
11157507 TTTGGATT-GGGTTTA-GGT
1 TTTGGATTAGGGTTTAGGGT
11157525 TTT
1 TTT
11157528 AAGATTTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.32
19 16 0.47
20 7 0.21
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.51
Consensus pattern (20 bp):
TTTGGATTAGGGTTTAGGGT
Found at i:11157530 original size:33 final size:34
Alignment explanation
Indices: 11157484--11157569 Score: 117
Period size: 33 Copynumber: 2.6 Consensus size: 34
11157474 TTAGGGTTTA
11157484 GGGTTT-GG-TTTAAGATTTAGGGTTT-TGGATT
1 GGGTTTAGGTTTTAAGATTTAGGGTTTATGGATT
*
11157515 GGGTTTAGGTTTTAAGATTTA-GGTTTATGGTTT
1 GGGTTTAGGTTTTAAGATTTAGGGTTTATGGATT
* *
11157548 GAGTTTAGGTTTTAAAATTTAG
1 GGGTTTAGGTTTTAAGATTTAG
11157570 AATTTGGGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
31 6 0.12
32 7 0.15
33 35 0.73
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (34 bp):
GGGTTTAGGTTTTAAGATTTAGGGTTTATGGATT
Found at i:11157580 original size:33 final size:33
Alignment explanation
Indices: 11157517--11157580 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
11157507 TTTGGATTGG
* * *
11157517 GTTTAGGTTTTAAGATTTAGGTTTATGGTTTGA
1 GTTTAGGTTTTAAAATTTAGATTTAGGGTTTGA
11157550 GTTTAGGTTTTAAAATTTAGAATTT-GGGTTT
1 GTTTAGGTTTTAAAATTTAG-ATTTAGGGTTT
11157581 AGGGTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (33 bp):
GTTTAGGTTTTAAAATTTAGATTTAGGGTTTGA
Found at i:11159252 original size:142 final size:141
Alignment explanation
Indices: 11158862--11159282 Score: 382
Period size: 143 Copynumber: 3.0 Consensus size: 141
11158852 CAAATGCACT
* ** * * * * *
11158862 AAAAACCATAAAATAATATAAAATTACGATTTG-AGAGTTTTAATGAAAAATCAACTTCAGGAAG
1 AAAAATCATAAAATAATATAAAAACATGATCTGAAGCGTTTT-ATGAAAAATCAACTTCAAGAAA
* * * * * *
11158926 GTCGAATTATAAAAATACCCCTTAAGGGCATTTTAATAATTTTACACCTTTTGAGGTGCGATTAT
65 GTCAAATTATAAAAATACCCCTAAAAGGCATTTTAATAATTTTACA--TTTTGAGGTGAGATCAA
* *
11158991 GGTTTTTAATGCAC
128 AGTTTTTAATACAC
* * * * *
11159005 AAAAATCATAAAATAATATAAAAACATGATCTGAAGCATTTCATGAAAAATCGACTTCATGATAG
1 AAAAATCATAAAATAATATAAAAACATGATCTGAAGCGTTTTATGAAAAATCAACTTCAAGAAAG
** * * * * *
11159070 ATCAAATTATAAAAATATTCCTAAAAGACAATTTATTAATTCATACATTTTGAGGTGTGATCAAA
66 -TCAAATTATAAAAATACCCCTAAAAGGCATTTTAATAATT-TTACATTTTGAGGTGAGATCAAA
*
11159135 GTTTTTAATACAGT
129 GTTTTTAATACA-C
* * * * *
11159149 AAAAATCATAAAATAAT-TTAAAA-ATTATCTGGAGTGTTTTATGAAAAAACTAACTTCAAGAAA
1 AAAAATCATAAAATAATATAAAAACATGATCTGAAGCGTTTTATGAAAAATC-AACTTCAAGAAA
* * * * *
11159212 GTCAAATTGTAAAAGTACCCCTAAAAGGTATTTTAGTAATTTTACATCTTTCGAGGTAAGATC-A
65 GTCAAATTATAAAAATACCCCTAAAAGGCATTTTAATAATTTTACAT-TTT-GAGGTGAGATCAA
11159276 AGTTTTT
128 AGTTTTT
11159283 TAATGTATCA
Statistics
Matches: 223, Mismatches: 48, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
141 5 0.02
142 64 0.29
143 96 0.43
144 54 0.24
145 4 0.02
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (141 bp):
AAAAATCATAAAATAATATAAAAACATGATCTGAAGCGTTTTATGAAAAATCAACTTCAAGAAAG
TCAAATTATAAAAATACCCCTAAAAGGCATTTTAATAATTTTACATTTTGAGGTGAGATCAAAGT
TTTTAATACAC
Found at i:11161592 original size:18 final size:19
Alignment explanation
Indices: 11161571--11161616 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11161561 AAAAATCAAC
*
11161571 AAAATATAATAAATAA-TA
1 AAAATATAATAAAAAACTA
*
11161589 AAAATGA-AATAAAAAACTT
1 AAAAT-ATAATAAAAAACTA
11161608 AAAATATAA
1 AAAATATAA
11161617 AATGATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATATAATAAAAAACTA
Found at i:11161634 original size:35 final size:35
Alignment explanation
Indices: 11161595--11161661 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
11161585 AATAAAAATG
* * *
11161595 AAAT-AAAAAACTTAAAATATAAAATGATAAAATCA
1 AAATAAAAAAAGTAAAAATA-AAAATGAAAAAATCA
11161630 AAATAAAAAAAGTAAAAATAAAAATGAAAAAA
1 AAATAAAAAAAGTAAAAATAAAAATGAAAAAA
11161662 AAAGCTTGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (35 bp):
AAATAAAAAAAGTAAAAATAAAAATGAAAAAATCA
Found at i:11164480 original size:2 final size:2
Alignment explanation
Indices: 11164473--11164500 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11164463 TTATTCATTC
11164473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11164501 TATTTTCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11164762 original size:185 final size:186
Alignment explanation
Indices: 11164442--11164792 Score: 632
Period size: 185 Copynumber: 1.9 Consensus size: 186
11164432 AAAATGTAAC
11164442 TTTATAAATATAAATGAATCTTTATTCATTCATATATATATATATATATATATATATATTATTTT
1 TTTATAAATATAAATGAATCTTTATTCATTC------A-ATATATATATATATATATATTATTTT
11164507 CTACCTGCTATTTCTTTGTCAATTGTCGTTAAAAAGACAAAATCATGAAGTGTGTTTTGAGTTGT
59 CTACCTGCTATTTCTTTGTCAATTGTCGTTAAAAAGACAAAATCATGAAGTGTGTTTTGAGTTGT
11164572 TTGAACAGGCAAGATGCATGATCTGGCCGTCTATCATGCATATATATATATATATATTATTCA
124 TTGAACAGGCAAGATGCATGATCTGGCCGTCTATCATGCATATATATATATATATATTATTCA
11164635 TTTATAAATATAAATGAATCTTTATTCATTC-ATATATATATATATATATATTATTTTCTACCTG
1 TTTATAAATATAAATGAATCTTTATTCATTCAATATATATATATATATATATTATTTTCTACCTG
11164699 CTATTTCTTTGTCAATTGTCGTTAAAAAGACAAAATCATGAAGTGTGTTTTGAGTTGTTTGAACA
66 CTATTTCTTTGTCAATTGTCGTTAAAAAGACAAAATCATGAAGTGTGTTTTGAGTTGTTTGAACA
11164764 GGCAAGATGCATGATCTGGCCGTCTATCA
131 GGCAAGATGCATGATCTGGCCGTCTATCA
11164793 CGTTAAAGAA
Statistics
Matches: 158, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
185 127 0.80
193 31 0.20
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (186 bp):
TTTATAAATATAAATGAATCTTTATTCATTCAATATATATATATATATATATTATTTTCTACCTG
CTATTTCTTTGTCAATTGTCGTTAAAAAGACAAAATCATGAAGTGTGTTTTGAGTTGTTTGAACA
GGCAAGATGCATGATCTGGCCGTCTATCATGCATATATATATATATATATTATTCA
Found at i:11166514 original size:18 final size:18
Alignment explanation
Indices: 11166493--11166543 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
11166483 TCTGAAATAC
11166493 AAAAATTATAAAAAATTT
1 AAAAATTATAAAAAATTT
* * *
11166511 AAAAAATATGAAATATTTT
1 AAAAATTAT-AAAAAATTT
*
11166530 TAAAATTATAAAAA
1 AAAAATTATAAAAA
11166544 TTAAATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAATTATAAAAAATTT
Found at i:11166751 original size:36 final size:35
Alignment explanation
Indices: 11166711--11166793 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
11166701 TGACAATAGC
* *
11166711 AAAATTTAAAATTTTTTGAAATTTTTTGAAAATA-TA
1 AAAATTTAAAATTTTTT-AAA-ATATTGAAAATATTA
* *
11166747 AAAATATAAAATTTTTTAAAATATTGAAATTATTA
1 AAAATTTAAAATTTTTTAAAATATTGAAAATATTA
11166782 AAAATTTTAAAA
1 AAAA-TTTAAAA
11166794 ATTAAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 9 0.22
35 9 0.22
36 22 0.55
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (35 bp):
AAAATTTAAAATTTTTTAAAATATTGAAAATATTA
Found at i:11166776 original size:25 final size:27
Alignment explanation
Indices: 11166711--11166800 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 27
11166701 TGACAATAGC
* * * *
11166711 AAAATTTAAAATTTTTTGAAATTTTTT
1 AAAATATAAAAATTATTAAAATTTTTT
11166738 GAAAATATAAAAA-TA-TAAAATTTTTT
1 -AAAATATAAAAATTATTAAAATTTTTT
** * *
11166764 AAAATATTGAAATTATTAAAAATTTTA
1 AAAATATAAAAATTATTAAAATTTTTT
11166791 AAAAT-TAAAA
1 AAAATATAAAA
11166801 TTTTAATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
25 10 0.20
26 15 0.30
27 15 0.30
28 10 0.20
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
AAAATATAAAAATTATTAAAATTTTTT
Found at i:11166896 original size:20 final size:19
Alignment explanation
Indices: 11166866--11166903 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11166856 TAAAAAAATG
*
11166866 AAATATTTTTATAATTTTA
1 AAATATTTTTACAATTTTA
11166885 AAATATTTTTTACAATTTT
1 AAATA-TTTTTACAATTTT
11166904 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATATTTTTACAATTTTA
Found at i:11167089 original size:16 final size:16
Alignment explanation
Indices: 11167068--11167101 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
11167058 AATTTTTTTA
11167068 ATTTTTTAAGTTTTAAT
1 ATTTTTTAA-TTTTAAT
11167085 ATTTTTTAATTTTAAT
1 ATTTTTTAATTTTAAT
11167101 A
1 A
11167102 AATATTTTAG
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:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTTTTAATTTTAAT
Found at i:11169610 original size:13 final size:13
Alignment explanation
Indices: 11169592--11169616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11169582 TATATTATGT
11169592 AAAAAAGAAAAAC
1 AAAAAAGAAAAAC
11169605 AAAAAAGAAAAA
1 AAAAAAGAAAAA
11169617 AGCAATGGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:11170238 original size:24 final size:24
Alignment explanation
Indices: 11170211--11170268 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
11170201 ACAATCTTAC
11170211 AAAAAAAAAAAAAACCTTGTAAAA
1 AAAAAAAAAAAAAACCTTGTAAAA
** **
11170235 AAAAACCAAAAAAACCTTGTTGAA
1 AAAAAAAAAAAAAACCTTGTAAAA
*
11170259 AAACAAAAAA
1 AAAAAAAAAA
11170269 TCTAGTTCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (24 bp):
AAAAAAAAAAAAAACCTTGTAAAA
Found at i:11170280 original size:20 final size:20
Alignment explanation
Indices: 11170243--11170281 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11170233 AAAAAAACCA
* *
11170243 AAAAAACCTTGTTGAAAAAC
1 AAAAAACCTAGTTCAAAAAC
*
11170263 AAAAAATCTAGTTCAAAAA
1 AAAAAACCTAGTTCAAAAA
11170282 AATTAACAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAAAACCTAGTTCAAAAAC
Found at i:11171101 original size:13 final size:13
Alignment explanation
Indices: 11171083--11171120 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11171073 AAAAATATGC
*
11171083 AATAAAGAATAAT
1 AATAAATAATAAT
11171096 AATAAATAATTAAT
1 AATAAATAA-TAAT
11171110 -ATAAATAATAA
1 AATAAATAATAA
11171121 AAATTAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 16 0.70
14 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:11174354 original size:34 final size:33
Alignment explanation
Indices: 11174311--11174432 Score: 126
Period size: 34 Copynumber: 3.7 Consensus size: 33
11174301 GGTCGATTTT
*
11174311 TTATAGTATAGTATGTTATTATATATTATTAGTA
1 TTATAGTATAGTATATTATTATATATTATTA-TA
*
11174345 TTATAGTATAGCATATTATATGATATTATTATTATA
1 TTATAGTATAGTATATTAT-T-ATA-TATTATTATA
*
11174381 TTATATTATA-T-TATTATTAT-TATTATTATA
1 TTATAGTATAGTATATTATTATATATTATTATA
* *
11174411 ATATA-TGATATTATATTATTAT
1 TTATAGT-ATAGTATATTATTAT
11174433 CTTGGTATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.01
30 17 0.22
31 1 0.01
32 11 0.14
33 1 0.01
34 23 0.30
35 1 0.01
36 14 0.18
37 8 0.10
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.55
Consensus pattern (33 bp):
TTATAGTATAGTATATTATTATATATTATTATA
Found at i:11174365 original size:5 final size:5
Alignment explanation
Indices: 11174327--11174520 Score: 119
Period size: 5 Copynumber: 37.2 Consensus size: 5
11174317 TATAGTATGT
* ** *
11174327 TATTA TA-TA TTATTA GTATTA TAGTA TAGCA TATTA TATGA TATTA TTATTA
1 TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* *
11174379 TATTA TATTA TA-T- TATTA TTATTA TTATTA TAATA TATGA TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA
** * * **
11174429 TTATCT- TGGTA TATTA TATTA TTACTA TATTA TCACTA TTATTA T-TGC
1 -TAT-TA TATTA TATTA TATTA -TATTA TATTA T-ATTA -TATTA TATTA
*
11174477 TAATA TCATTA TCATTA TTATTA TATTA TATTA TATTA TATTA T
1 TATTA T-ATTA T-ATTA -TATTA TATTA TATTA TATTA TATTA T
11174521 TATTTTATGT
Statistics
Matches: 149, Mismatches: 25, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
3 2 0.01
4 7 0.05
5 88 0.59
6 49 0.33
7 3 0.02
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:11174376 original size:3 final size:3
Alignment explanation
Indices: 11174368--11174528 Score: 98
Period size: 3 Copynumber: 58.0 Consensus size: 3
11174358 TATTATATGA
*
11174368 TAT TAT TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
11174413 ATAT GA- TAT TA- TAT TAT TA- TCT TGG TA- TAT TA- TAT TAT TAC
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * * *
11174454 TA- TAT TAT CAC TAT TAT TAT TGC TAA TAT CAT TAT CAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11174500 TAT TA- TAT TA- TAT TA- TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11174529 GTTATTTTTC
Statistics
Matches: 121, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
2 26 0.21
3 93 0.77
4 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:11174524 original size:21 final size:21
Alignment explanation
Indices: 11174328--11174520 Score: 105
Period size: 21 Copynumber: 9.0 Consensus size: 21
11174318 ATAGTATGTT
11174328 ATTATA-TATTATTAGTATTAT
1 ATTATATTATTATTA-TATTAT
* ** *
11174349 AGTATAGCA-TATTATATGAT
1 ATTATATTATTATTATATTAT
11174369 ATTATTATTA-TATTATATTAT
1 ATTA-TATTATTATTATATTAT
11174390 ATTATTATTATTATTATTATAATAT
1 ATTA-TATTATTATTA-TAT--TAT
*
11174415 ATGATATTA-TATTATTATCT-T
1 ATTATATTATTATTA-TAT-TAT
** *
11174436 GGTATATTA-TATTATTACTAT
1 ATTATATTATTATTA-TATTAT
* **
11174457 ATTATCACTATTATTAT-TGCT
1 ATTAT-ATTATTATTATATTAT
* *
11174478 AATATCATTATCATTATTATTAT
1 ATTAT-ATTATTATTA-TATTAT
11174501 ATTATATTA-TATTATATTAT
1 ATTATATTATTATTATATTAT
11174521 TATTTTATGT
Statistics
Matches: 135, Mismatches: 26, Indels: 23
0.73 0.14 0.12
Matches are distributed among these distances:
20 15 0.11
21 70 0.52
22 16 0.12
23 23 0.17
24 5 0.04
25 6 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTATATTATTATTATATTAT
Found at i:11174891 original size:23 final size:23
Alignment explanation
Indices: 11174865--11174908 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
11174855 TGGGAGTCAG
11174865 GTTTATGGGATTTTGGT-TTTGGA
1 GTTTAT-GGATTTTGGTGTTTGGA
*
11174888 GTTTCTGGATTTTGGTGTTTG
1 GTTTATGGATTTTGGTGTTTG
11174909 AGAGAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.09, C:0.02, G:0.34, T:0.55
Consensus pattern (23 bp):
GTTTATGGATTTTGGTGTTTGGA
Found at i:11175372 original size:19 final size:18
Alignment explanation
Indices: 11175344--11175384 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
11175334 CGATTGCAAG
11175344 TTTTTTTTTTCATTTTAT
1 TTTTTTTTTTCATTTTAT
*
11175362 TTTTATTTTTTTATTTTAT
1 TTTT-TTTTTTCATTTTAT
11175381 TTTT
1 TTTT
11175385 CTAAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTCATTTTAT
Found at i:11175416 original size:19 final size:19
Alignment explanation
Indices: 11175348--11175426 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 19
11175338 TGCAAGTTTT
*
11175348 TTTTTTCATTTTATTTTTAT
1 TTTTTT-ATTTTATTTTTAG
11175368 TTTTTTATTTTATTTTTCTAAG
1 TTTTTTATTTTA-TTTT-T-AG
*
11175390 TTTATTTTATTTCATTTTTAG
1 -TT-TTTTATTTTATTTTTAG
*
11175411 TTTTTT-TATTATTTTT
1 TTTTTTATTTTATTTTT
11175427 TGACTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.16
19 10 0.20
20 12 0.24
21 3 0.06
22 2 0.04
23 6 0.12
24 9 0.18
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTATTTTTAG
Found at i:11176414 original size:3 final size:3
Alignment explanation
Indices: 11176406--11176459 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
11176396 TTTATATGTA
11176406 TAT TAT TAT ATAGT TAT ATATT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11176454 TTT TAT
1 TAT TAT
11176460 ACTTTATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 2 0.05
3 32 0.73
4 8 0.18
5 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11176423 original size:22 final size:22
Alignment explanation
Indices: 11176397--11176454 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
11176387 TAGAATAGAT
*
11176397 TTATATGTATATTATTATATAG
1 TTATATATATATTATTATATAG
*
11176419 TTATATATTTATTATTATATTA-
1 TTATATATATATTATTATA-TAG
11176441 TTAT-TAT-TATTATT
1 TTATATATATATTATT
11176455 TTTATACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 21 0.64
23 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TTATATATATATTATTATATAG
Found at i:11176445 original size:14 final size:14
Alignment explanation
Indices: 11176404--11176450 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
11176394 GATTTATATG
11176404 TATATTATTATATAGT
1 TATATTATTAT-TA-T
11176420 TATA-TATTTATTAT
1 TATATTA-TTATTAT
11176434 TATATTATTATTAT
1 TATATTATTATTAT
11176448 TAT
1 TAT
11176451 TATTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 15 0.52
15 6 0.21
16 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TATATTATTATTAT
Found at i:11176446 original size:36 final size:36
Alignment explanation
Indices: 11176397--11176467 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
11176387 TAGAATAGAT
11176397 TTATATGTATATTATTATATAGTTATATA-TTTATTA
1 TTATATGTATATTATTAT-TAGTTATATACTTTATTA
* *
11176433 TTATAT-TATTATTATTATTATTTTTATACTTTATT
1 TTATATGTA-TATTATTATTAGTTATATACTTTATT
11176468 TATTTTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (36 bp):
TTATATGTATATTATTATTAGTTATATACTTTATTA
Done.