Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 47 of 117
Found at i:11054461 original size:67 final size:66
Alignment explanation
Indices: 11054364--11054510 Score: 213
Period size: 67 Copynumber: 2.2 Consensus size: 66
11054354 TTTAAGTGCT
* * *
11054364 CCATGAAACTTTAAATTTGAAATGCTTGGAATCACAAAAACTTTTGAATGTTCCTCTAATCAGAG
1 CCATGAAACTTTGAATTTAAAATGCTTGGAATCACAAAAACTTTTGAATGCTCCTCTAATCAGAG
*
11054429 G
66 A
* *
11054430 CCATGAAACTTTGAATATTAAAATGCTTGGAATCATAAAAACTTTTGAATGCTCCTCTAATTAGA
1 CCATGAAACTTTGAAT-TTAAAATGCTTGGAATCACAAAAACTTTTGAATGCTCCTCTAATCAGA
*
11054495 TA
65 GA
*
11054497 CCACGAAACTTTGA
1 CCATGAAACTTTGA
11054511 GTGCTCTCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 15 0.21
67 57 0.79
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (66 bp):
CCATGAAACTTTGAATTTAAAATGCTTGGAATCACAAAAACTTTTGAATGCTCCTCTAATCAGAG
A
Found at i:11054586 original size:66 final size:67
Alignment explanation
Indices: 11054502--11054671 Score: 238
Period size: 67 Copynumber: 2.6 Consensus size: 67
11054492 AGATACCACG
* * * *
11054502 AAAC-TTTGAGTGCT-CTCTAATCGGAGGCTATGAAACTTTAAAT-TTAAAATGCTTGGAATCAT
1 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAATATTAAAAAGCTTGGAATCAT
11054564 AA
66 AA
*
11054566 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACTTTGAATATTAAAAAGCTTGGAATCAT
1 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAATATTAAAAAGCTTGGAATCAT
11054631 AA
66 AA
* * * *
11054633 AAAATTTTTAATGTTCCTCTAATTAGAGGCCATGAAACT
1 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACT
11054672 AGGGACGGCA
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
64 4 0.04
65 9 0.10
66 26 0.28
67 55 0.59
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (67 bp):
AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAATATTAAAAAGCTTGGAATCAT
AA
Found at i:11054587 original size:98 final size:99
Alignment explanation
Indices: 11054417--11054608 Score: 314
Period size: 98 Copynumber: 1.9 Consensus size: 99
11054407 TTGAATGTTC
*
11054417 CTCTAATCAGAGGCCATGAAACTTTGAATATTAAAATGCTTGGAATCATAAAAACTTTTGAATGC
1 CTCTAATCAGAGGCCATGAAACTTTAAATATTAAAATGCTTGGAATCATAAAAACTTTTGAATGC
* *
11054482 TCCTCTAATTAGATACCACGAAACTTTGAGTGCT
66 TCCTCTAATCAGAGACCACGAAACTTTGAGTGCT
* *
11054516 CTCTAATCGGAGGCTATGAAACTTTAAAT-TTAAAATGCTTGGAATCATAAAAACTTTTGAATGC
1 CTCTAATCAGAGGCCATGAAACTTTAAATATTAAAATGCTTGGAATCATAAAAACTTTTGAATGC
* *
11054580 TCCTCTAATCAGAGGCCATGAAACTTTGA
66 TCCTCTAATCAGAGACCACGAAACTTTGA
11054609 ATATTAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
98 60 0.70
99 26 0.30
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (99 bp):
CTCTAATCAGAGGCCATGAAACTTTAAATATTAAAATGCTTGGAATCATAAAAACTTTTGAATGC
TCCTCTAATCAGAGACCACGAAACTTTGAGTGCT
Found at i:11054955 original size:21 final size:20
Alignment explanation
Indices: 11054921--11054973 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
11054911 GATATTTTTA
*
11054921 AATATTTATATTTAAAAAAT
1 AATATTTTTATTTAAAAAAT
11054941 AATATTTTCTATTTAAAAAAT
1 AATATTTT-TATTTAAAAAAT
11054962 AATATTTTTATT
1 AATATTTTTATT
11054974 AATTTCGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTTTATTTAAAAAAT
Found at i:11055522 original size:12 final size:12
Alignment explanation
Indices: 11055505--11055547 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
11055495 ACATCAATCA
11055505 TTTTTTCTCTTT
1 TTTTTTCTCTTT
11055517 TTTTTTCTCTTT
1 TTTTTTCTCTTT
* *
11055529 CTTTTTTTTGTTT
1 -TTTTTTCTCTTT
11055542 TTTTTT
1 TTTTTT
11055548 TAAATATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:11055918 original size:42 final size:42
Alignment explanation
Indices: 11055859--11056001 Score: 214
Period size: 42 Copynumber: 3.4 Consensus size: 42
11055849 AAATGTAAGT
11055859 GATGCAAATGCAAATGTCTTTTTTCTTGATGCAGATACAAGA
1 GATGCAAATGCAAATGTCTTTTTTCTTGATGCAGATACAAGA
*
11055901 GATGCAAATGCAAATGTCTTTTTTCTTGATGTAGATACAAGA
1 GATGCAAATGCAAATGTCTTTTTTCTTGATGCAGATACAAGA
* * * *
11055943 GATGCAAATGCAAATATCTTTTTCCTTGGGATGCAGATGCAAGT
1 GATGCAAATGCAAATGTCTTTTTTCTT--GATGCAGATACAAGA
*
11055987 TATGCAAATGCAAAT
1 GATGCAAATGCAAAT
11056002 ATTTTCATGA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 66 0.72
44 26 0.28
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (42 bp):
GATGCAAATGCAAATGTCTTTTTTCTTGATGCAGATACAAGA
Found at i:11056028 original size:15 final size:15
Alignment explanation
Indices: 11056008--11056038 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11055998 AAATATTTTC
11056008 ATGATGCAAATGCAA
1 ATGATGCAAATGCAA
11056023 ATGATGCAAATGCAA
1 ATGATGCAAATGCAA
11056038 A
1 A
11056039 ATTTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
ATGATGCAAATGCAA
Found at i:11056083 original size:34 final size:35
Alignment explanation
Indices: 11056032--11056107 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 35
11056022 AATGATGCAA
* *
11056032 ATGCAAAATTTTTTCTTGTGATACAGATGTAAGTG
1 ATGCAAAATATTTTCTTGTGATACAGATGCAAGTG
*
11056067 ATGCAAAA-ATTTTCTTGTGATGCAGATGCAAGTG
1 ATGCAAAATATTTTCTTGTGATACAGATGCAAGTG
11056101 ATGCAAA
1 ATGCAAA
11056108 TACAAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 30 0.79
35 8 0.21
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (35 bp):
ATGCAAAATATTTTCTTGTGATACAGATGCAAGTG
Found at i:11056157 original size:38 final size:38
Alignment explanation
Indices: 11055846--11056174 Score: 211
Period size: 38 Copynumber: 8.3 Consensus size: 38
11055836 AAAATACAAG
* *
11055846 TGCAAATGTAAGTGATGCAAATGCAAATGTCTTTTTTCTTGA
1 TGCAAATGCAAGTGATGCAAATGCAAA--T-TTTTTT-GTGA
* * * *
11055888 TGCAGATACAAGAGATGCAAATGCAAATGTCTTTTTTCTTGA
1 TGCAAATGCAAGTGATGCAAATGCAAA--T-TTTTTT-GTGA
* * * * *
11055930 TGTAGATACAAGAGATGCAAATGCAAATATCTTTTTCCTTGGGA
1 TGCAAATGCAAGTGATGCAAATGC-AA-A--TTTTT--TTGTGA
* * * **
11055974 TGCAGATGCAAGTTATGCAAATGCAAATATTTTCATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATTTTTTTGTGA
*
11056012 TGCAAATGCAAATGATGCAAATGCAAAATTTTTTCTTGTGA
1 TGCAAATGCAAGTGATGCAAATGC-AAA-TTTTT-TTGTGA
* * * *
11056053 TACAGATGTAAGTGATGC-AA---AAATTTTCTTGTGA
1 TGCAAATGCAAGTGATGCAAATGCAAATTTTTTTGTGA
* * * *
11056087 TGCAGATGCAAGTGATGCAAATACAAACTTTTTTGTAA
1 TGCAAATGCAAGTGATGCAAATGCAAATTTTTTTGTGA
* *
11056125 TGCAAATGTAAGTGATGCAAATGCAAATTTTTTCT-TAA
1 TGCAAATGCAAGTGATGCAAATGCAAATTTTTT-TGTGA
11056163 T-CAAATGCAAGT
1 TGCAAATGCAAGT
11056175 ACAAATATGA
Statistics
Matches: 238, Mismatches: 37, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
34 22 0.09
35 6 0.03
36 3 0.01
37 10 0.04
38 68 0.29
39 4 0.02
40 10 0.04
41 18 0.08
42 62 0.26
43 8 0.03
44 25 0.11
45 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (38 bp):
TGCAAATGCAAGTGATGCAAATGCAAATTTTTTTGTGA
Found at i:11056287 original size:94 final size:94
Alignment explanation
Indices: 11056138--11056353 Score: 373
Period size: 94 Copynumber: 2.3 Consensus size: 94
11056128 AAATGTAAGT
* ** *
11056138 GATGCAAATGCAAATTTTTTCTTAAT-CAAATGCAAGTACAAATATGATATATGCAAATGCAAGT
1 GATGCAAATGCAAATTTTTTCTTGATGCAAATGCAAGTACAAATACAATAGATGCAAATGCAAGT
11056202 GTCTTTTTTTCTTGTGATATAGATACGAA
66 GTCTTTTTTTCTTGTGATATAGATACGAA
11056231 GATGCAAATGCAAATTTTTTCTTGATGCAAATGCAAGTACAAATACAATAGATGCAAATGCAAGT
1 GATGCAAATGCAAATTTTTTCTTGATGCAAATGCAAGTACAAATACAATAGATGCAAATGCAAGT
11056296 GTCTTTTTTTCTTGTGATATAGATACGAA
66 GTCTTTTTTTCTTGTGATATAGATACGAA
*
11056325 GATGCAAGTGCAAA-TTTTTCTTGATGCAA
1 GATGCAAATGCAAATTTTTTCTTGATGCAA
11056354 GTGCTAATGA
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
93 40 0.34
94 77 0.66
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (94 bp):
GATGCAAATGCAAATTTTTTCTTGATGCAAATGCAAGTACAAATACAATAGATGCAAATGCAAGT
GTCTTTTTTTCTTGTGATATAGATACGAA
Found at i:11056328 original size:44 final size:44
Alignment explanation
Indices: 11056188--11056337 Score: 142
Period size: 44 Copynumber: 3.3 Consensus size: 44
11056178 AATATGATAT
11056188 ATGCAAATGCAAGTGTCTTTTTTTCTTGTGATATAGATACGAAG
1 ATGCAAATGCAAGTGTCTTTTTTTCTTGTGATATAGATACGAAG
* * ** * * *
11056232 ATGCAAATGCAAAT-T-TTTTCTTGATGCAAATGCAAGTACAAATACAATAG
1 ATGCAAATGCAAGTGTCTTTT-TT--T-C--TTGTGA-TATAGATACGA-AG
11056282 ATGCAAATGCAAGTGTCTTTTTTTCTTGTGATATAGATACGAAG
1 ATGCAAATGCAAGTGTCTTTTTTTCTTGTGATATAGATACGAAG
*
11056326 ATGCAAGTGCAA
1 ATGCAAATGCAA
11056338 ATTTTTCTTG
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
42 4 0.05
43 3 0.04
44 26 0.32
45 9 0.11
46 4 0.05
48 4 0.05
49 9 0.11
50 15 0.19
51 3 0.04
52 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.34
Consensus pattern (44 bp):
ATGCAAATGCAAGTGTCTTTTTTTCTTGTGATATAGATACGAAG
Found at i:11056411 original size:33 final size:33
Alignment explanation
Indices: 11056368--11056431 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
11056358 TAATGATGCA
* *
11056368 AATGCGAATGTCTTTTTCATGATGCAAATGCTG
1 AATGCAAATGTCTTTCTCATGATGCAAATGCTG
*
11056401 AATGCAAATGTCTTTCTCATGATGCACATGC
1 AATGCAAATGTCTTTCTCATGATGCAAATGC
11056432 AAGTATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (33 bp):
AATGCAAATGTCTTTCTCATGATGCAAATGCTG
Found at i:11056609 original size:33 final size:32
Alignment explanation
Indices: 11056571--11056638 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
11056561 AAGTGCTAAT
11056571 GATGCAAATACGAATGACTCTTTTTTAATGCCA
1 GATGCAAATACGAATGA-TCTTTTTTAATGCCA
* * * *
11056604 GATGCAAATGCGAATGATTTTTTTTTATGCTA
1 GATGCAAATACGAATGATCTTTTTTAATGCCA
11056636 GAT
1 GAT
11056639 AGATTAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
GATGCAAATACGAATGATCTTTTTTAATGCCA
Found at i:11056751 original size:33 final size:33
Alignment explanation
Indices: 11056643--11056752 Score: 107
Period size: 33 Copynumber: 3.3 Consensus size: 33
11056633 CTAGATAGAT
* * * *
11056643 TAGGCTTAAAATCTTCATTAGAG-GCTAGATAAAC
1 TAGGCTT-AAATTTTCATCA-AGTGCCAGATAACC
*
11056677 TAGGCTCAAATTTTCATCAAGTGCCAGATAACC
1 TAGGCTTAAATTTTCATCAAGTGCCAGATAACC
* * *
11056710 T-GAACTTAAATTTTCATCAAGTGCCAGTTAAGC
1 TAG-GCTTAAATTTTCATCAAGTGCCAGATAACC
11056743 TAGGCTTAAA
1 TAGGCTTAAA
11056753 AATTCTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
32 3 0.05
33 53 0.84
34 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
TAGGCTTAAATTTTCATCAAGTGCCAGATAACC
Found at i:11057697 original size:14 final size:14
Alignment explanation
Indices: 11057674--11057711 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11057664 CTCATTTCTT
11057674 TTTC-TTTTTTTTC
1 TTTCATTTTTTTTC
11057687 ATTT-ATTTTTTTTC
1 -TTTCATTTTTTTTC
11057701 TTTCATTTTTT
1 TTTCATTTTTT
11057712 CTTCCCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCATTTTTTTTC
Found at i:11057750 original size:12 final size:11
Alignment explanation
Indices: 11057735--11057764 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
11057725 TTGCTTTACT
11057735 TTTTTTTTTTGC
1 TTTTTTTTTT-C
11057747 TTTTTTTTTTC
1 TTTTTTTTTTC
11057758 TTTTTTT
1 TTTTTTT
11057765 GTTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:11057762 original size:18 final size:18
Alignment explanation
Indices: 11057722--11057761 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11057712 CTTCCCTCTG
11057722 TTTTTGCTTTACTTTTTT
1 TTTTTGCTTTACTTTTTT
11057740 TTTTTGCTTT--TTTTTT
1 TTTTTGCTTTACTTTTTT
11057756 TCTTTT
1 T-TTTT
11057762 TTTGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 4 0.19
18 10 0.48
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTGCTTTACTTTTTT
Found at i:11057763 original size:20 final size:18
Alignment explanation
Indices: 11057734--11057770 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
11057724 TTTGCTTTAC
11057734 TTTTTTTTTTTGCTTTTTT
1 TTTTTTTTTTTG-TTTTTT
11057753 TTTTCTTTTTTTGTTTTT
1 TTTT-TTTTTTTGTTTTT
11057771 AAATCTCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTTTGTTTTTT
Found at i:11058116 original size:19 final size:19
Alignment explanation
Indices: 11058094--11058136 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11058084 ATTTTAACAA
*
11058094 TTTTTTTTCT-TTTTTTTGT
1 TTTTTTTT-TGTTTTTTTGG
11058113 TTTTTTTTTGTTTTTTTGG
1 TTTTTTTTTGTTTTTTTGG
11058132 TTTTT
1 TTTTT
11058137 GCATTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTGTTTTTTTGG
Found at i:11058117 original size:20 final size:20
Alignment explanation
Indices: 11058094--11058169 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
11058084 ATTTTAACAA
*
11058094 TTTTTTTTCTTTTTTTTGTT
1 TTTTTTTTCTTTTTTTGGTT
*
11058114 TTTTTTTTGTTTTTTTGGTT
1 TTTTTTTTCTTTTTTTGGTT
* **
11058134 TTTGCATTTTCTATTTTGGGGCTT
1 TTT--TTTTTCT-TTTTTTGG-TT
11058158 TTTTTTTTCTTT
1 TTTTTTTTCTTT
11058170 CCTGTCCCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 21 0.47
21 2 0.04
22 11 0.24
23 6 0.13
24 5 0.11
ACGTcount: A:0.03, C:0.07, G:0.12, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTGGTT
Found at i:11058122 original size:11 final size:11
Alignment explanation
Indices: 11058094--11058129 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
11058084 ATTTTAACAA
*
11058094 TTTTTTT-TCT
1 TTTTTTTGTTT
11058104 TTTTTTTGTTT
1 TTTTTTTGTTT
11058115 TTTTTTTGTTT
1 TTTTTTTGTTT
11058126 TTTT
1 TTTT
11058130 GGTTTTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:11058278 original size:20 final size:20
Alignment explanation
Indices: 11058253--11058290 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11058243 TGTCATAATC
*
11058253 ATTTTTTTTCTTTTTTTTCT
1 ATTTTTTCTCTTTTTTTTCT
11058273 ATTTTTTCTCTTTTTTTT
1 ATTTTTTCTCTTTTTTTT
11058291 TGTTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (20 bp):
ATTTTTTCTCTTTTTTTTCT
Found at i:11058279 original size:18 final size:16
Alignment explanation
Indices: 11058254--11058329 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 16
11058244 GTCATAATCA
11058254 TTTTTTTTCTTTTTTT
1 TTTTTTTTCTTTTTTT
11058270 TCTATTTTTTCTCTTTTTT
1 T-T-TTTTTTCT-TTTTTT
11058289 TTTGTTTTTCATTTTTTT
1 TTT-TTTTTC-TTTTTTT
*
11058307 GTTTTTTTTGTTATTATTT
1 -TTTTTTTTCTT-TT-TTT
11058326 TTTT
1 TTTT
11058330 ATATGCCCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 32 0.63
19 14 0.27
ACGTcount: A:0.05, C:0.07, G:0.04, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTT
Found at i:11058303 original size:24 final size:23
Alignment explanation
Indices: 11058263--11058327 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
11058253 ATTTTTTTTC
*
11058263 TTTTTTTT-CTATT-TTTTCTCT-
1 TTTTTTTTGTTATTATTTT-TCTG
* *
11058284 TTTTTTTTGTTTTTCATTTTTTTG
1 TTTTTTTTGTTATT-ATTTTTCTG
11058308 TTTTTTTTGTTATTATTTTT
1 TTTTTTTTGTTATTATTTTT
11058328 TTATATGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 8 0.22
24 17 0.47
ACGTcount: A:0.06, C:0.06, G:0.05, T:0.83
Consensus pattern (23 bp):
TTTTTTTTGTTATTATTTTTCTG
Found at i:11058318 original size:9 final size:9
Alignment explanation
Indices: 11058254--11058315 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
11058244 GTCATAATCA
11058254 TTTTTTTTC
1 TTTTTTTTC
11058263 TTTTTTTTC
1 TTTTTTTTC
*
11058272 TATTTTTTC
1 TTTTTTTTC
11058281 TCTTTTTTT-
1 T-TTTTTTTC
*
11058290 TTGTTTTTC
1 TTTTTTTTC
* *
11058299 ATTTTTTTG
1 TTTTTTTTC
11058308 TTTTTTTT
1 TTTTTTTT
11058316 GTTATTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.14
9 32 0.73
10 6 0.14
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:11060940 original size:30 final size:30
Alignment explanation
Indices: 11060900--11060970 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
11060890 ATGTGTATAA
11060900 AATAGGATGCATATACTATCCATTGATATG
1 AATAGGATGCATATACTATCCATTGATATG
* *
11060930 AATGGGATGCATGTACTATCCATTGATATG
1 AATAGGATGCATATACTATCCATTGATATG
*
11060960 GATAGGATGCA
1 AATAGGATGCA
11060971 ATGCATGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (30 bp):
AATAGGATGCATATACTATCCATTGATATG
Found at i:11065840 original size:144 final size:144
Alignment explanation
Indices: 11065460--11065868 Score: 425
Period size: 144 Copynumber: 2.8 Consensus size: 144
11065450 CATTTTTGAA
* * *
11065460 ATTTTAAAACATCAAAAATCAAGAAATATTATAAGATT-ATGATCTGAAAAGTTT-TGTGAAATT
1 ATTTTAAAACATCAAAAATCATGAAATATTATAAGATTGA-GATCTGAAAAGTTTCAG-AAAATT
* * *
11065523 TCGAGCTCAAAAAGGCTAAAATACGAAAATA-CCTTTATGAGGGTATTTTGGTAATTTCATACTT
64 TCGAGCTCAAAAAGGCTAAATTACAAAAATATCC-TTATAAGGGTATTTTGGTAATTTCATACTT
11065587 TCAGGGATACTACTATG
128 TCAGGGATACTACTATG
* * * * * * * * *
11065604 ATTCTAAACTCACCAAAAATCATGAAATGTTACAAAAGTGAGATCTAAAAAGTTTCACAAAATTT
1 ATTTTAAA-ACATCAAAAATCATGAAATATTATAAGATTGAGATCTGAAAAGTTTCAGAAAATTT
* * * * * *
11065669 CAAGATCGAAAAGGCCAAATTACAAAAAAATCCCTATAAGGGTATTTTGGTAATTTCATACTTTT
65 CGAGCTCAAAAAGGCTAAATTACAAAAATATCCTTATAAGGGTATTTTGGTAATTTCATAC-TTT
* *
11065734 CA-GG-TACTGCTGTG
129 CAGGGATACTACTATG
* * * * *
11065748 ATTTTAAAAGAATCAAAAATCATGAAATATTATAGGATTGAGGTCCGAAAGGTTTCAAGAAAATT
1 ATTTTAAAA-CATCAAAAATCATGAAATATTATAAGATTGAGATCTGAAAAGTTTC-AGAAAATT
* * * *
11065813 T-GAGCTCAAAAAAGTTAAATTACAAAAATATCATTATAAGGGTATTTTAGTAATTT
64 TCGAGCTCAAAAAGGCTAAATTACAAAAATATCCTTATAAGGGTATTTTGGTAATTT
11065869 AACCTTTCTT
Statistics
Matches: 211, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
144 102 0.48
145 101 0.48
146 8 0.04
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (144 bp):
ATTTTAAAACATCAAAAATCATGAAATATTATAAGATTGAGATCTGAAAAGTTTCAGAAAATTTC
GAGCTCAAAAAGGCTAAATTACAAAAATATCCTTATAAGGGTATTTTGGTAATTTCATACTTTCA
GGGATACTACTATG
Found at i:11066333 original size:67 final size:68
Alignment explanation
Indices: 11066171--11066357 Score: 268
Period size: 67 Copynumber: 2.8 Consensus size: 68
11066161 TTAGAGATTA
* *
11066171 AATCATAAAAACTTTTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTGAAAATTAAAAATGC
1 AATCATAAAAAC-TTTTGAATGCTCCTCTAATCAGAGGCTATGAAACTTTGAAAATTAAAAATGC
11066236 TTAG
65 TTAG
** * * *
11066240 AATCCCAAAAACTTTTGAATGCTCCTCTAATCAAAGGCTATGAAATTTTGAATATT-AAAATGCT
1 AATCATAAAAACTTTTGAATGCTCCTCTAATCAGAGGCTATGAAACTTTGAAAATTAAAAATGCT
*
11066304 TGG
66 TAG
* *
11066307 AATCATAAAAACTTTTGAATGTTCCTCTAATTAGAGGCTATGAAACTTTGA
1 AATCATAAAAACTTTTGAATGCTCCTCTAATCAGAGGCTATGAAACTTTGA
11066358 GTGCTCATCT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
67 55 0.53
68 39 0.38
69 10 0.10
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (68 bp):
AATCATAAAAACTTTTGAATGCTCCTCTAATCAGAGGCTATGAAACTTTGAAAATTAAAAATGCT
TAG
Found at i:11066353 original size:34 final size:34
Alignment explanation
Indices: 11066315--11066388 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
11066305 GGAATCATAA
* * *
11066315 AAACTTTTGAATGTTCCTCTAATTAGAGGCTATG
1 AAACTTTTGAATGCTCATCTAATCAGAGGCTATG
*
11066349 AAAC-TTTGAGTGCTCATCTAATCAGAGGCTATG
1 AAACTTTTGAATGCTCATCTAATCAGAGGCTATG
11066382 AAACTTT
1 AAACTTT
11066389 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (34 bp):
AAACTTTTGAATGCTCATCTAATCAGAGGCTATG
Found at i:11066422 original size:99 final size:100
Alignment explanation
Indices: 11066248--11066458 Score: 307
Period size: 99 Copynumber: 2.1 Consensus size: 100
11066238 AGAATCCCAA
* * * *
11066248 AAACTTTTGAATGCTCCTCTAATCAAAGGCTATGAAATTTTGAATATTAAAATGCTTGGAATCAT
1 AAAC-TTTGAATGCTCATCTAATCAAAGGCTATGAAACTTTAAATATTAAAATGCTTGGAATCAC
* * * *
11066313 AAAAACTTTTGAATGTTCCTCTAATTAGAGGCTATG
65 AAAAACTTTTGAATGCTCCTCTAATCAAAGGCCATG
* *
11066349 AAACTTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTTAAAT-TTAAAATGCTTGGAATCACA
1 AAACTTTGAATGCTCATCTAATCAAAGGCTATGAAACTTTAAATATTAAAATGCTTGGAATCACA
*
11066413 AAAACTTTTGAATGCTCTTCTAATCAAAGGCCATG
66 AAAACTTTTGAATGCTCCTCTAATCAAAGGCCATG
11066448 AAACTTTGAAT
1 AAACTTTGAAT
11066459 ATTAAAATGC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
99 59 0.60
100 35 0.36
101 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (100 bp):
AAACTTTGAATGCTCATCTAATCAAAGGCTATGAAACTTTAAATATTAAAATGCTTGGAATCACA
AAAACTTTTGAATGCTCCTCTAATCAAAGGCCATG
Found at i:11066467 original size:166 final size:167
Alignment explanation
Indices: 11066185--11066522 Score: 543
Period size: 166 Copynumber: 2.0 Consensus size: 167
11066175 ATAAAAACTT
*
11066185 TTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTGAAAATTAAAAATGCTTAGAATCCCAAAA
1 TTTGAATGCTCATCTAATCAGAGGCCATGAAACTTT-AAAATTAAAAATGCTTAGAATCACAAAA
* * * *
11066250 ACTTTTGAATGCTCCTCTAATCAAAGGCTATGAAATTTTGAATATTAAAATGCTTGGAATCATAA
65 ACTTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTGAATATTAAAATGCTTAGAATCACAA
* * *
11066315 AAACTTTTGAATGTTCCTCTAATTAGAGGCTATGAAAC
130 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAAC
* * * *
11066353 TTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTT-AAATTTAAAATGCTTGGAATCACAAAAA
1 TTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTAAAATTAAAAATGCTTAGAATCACAAAAA
*
11066417 CTTTTGAATGCTCTTCTAATCAAAGGCCATGAAACTTTGAATATTAAAATGCTTAGAATCACAAA
66 CTTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTGAATATTAAAATGCTTAGAATCACAAA
11066482 AACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAAC
131 AACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAAC
11066519 TTTG
1 TTTG
11066523 GATTTTAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 123 0.78
168 34 0.22
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (167 bp):
TTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTAAAATTAAAAATGCTTAGAATCACAAAAA
CTTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTGAATATTAAAATGCTTAGAATCACAAA
AACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAAC
Found at i:11066488 original size:67 final size:66
Alignment explanation
Indices: 11066349--11066534 Score: 275
Period size: 67 Copynumber: 2.8 Consensus size: 66
11066339 AGAGGCTATG
* * * *
11066349 AAAC-TTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTTAAATTTAAAATGCTTGGAATCACA
1 AAACTTTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTGAATTTAAAATGCTTAGAATCACA
11066413 A
66 A
* *
11066414 AAACTTTTGAATGCTCTTCTAATCAAAGGCCATGAAACTTTGAATATTAAAATGCTTAGAATCAC
1 AAACTTTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTGAAT-TTAAAATGCTTAGAATCAC
11066479 AA
65 AA
* *
11066481 AAACTTTTGAATGCTCCTCTAATCAGAGGCCATGAAACTTTGGATTTTAAAATG
1 AAACTTTTGAATGCTCATCTAATCAGAGGCCATGAAACTTT-GAATTTAAAATG
11066535 GTTTTCCCCA
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
65 4 0.04
66 35 0.32
67 67 0.61
68 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (66 bp):
AAACTTTTGAATGCTCATCTAATCAGAGGCCATGAAACTTTGAATTTAAAATGCTTAGAATCACA
A
Found at i:11066955 original size:15 final size:15
Alignment explanation
Indices: 11066916--11066960 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
11066906 ACATCAATCA
11066916 TTTTTCTC-TT-TTT
1 TTTTTCTCTTTCTTT
11066929 TTTTTCTCTTTCCTTT
1 TTTTTCTCTTT-CTTT
*
11066945 TTTTTGT-TTTCTTT
1 TTTTTCTCTTTCTTT
11066959 TT
1 TT
11066961 AAATATTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 3 0.11
16 9 0.32
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTCTCTTTCTTT
Found at i:11067366 original size:44 final size:42
Alignment explanation
Indices: 11067268--11067444 Score: 152
Period size: 44 Copynumber: 4.3 Consensus size: 42
11067258 ATGCAAATTT
*
11067268 AAGTGATGCAAATG-AGAATGTCTTTTTTCTTGATGCAGATAC
1 AAGTGATGCAAATGTA-AATGTCTTTTTCCTTGATGCAGATAC
* *
11067310 AAGAGATGCAAATGTAAATGTCTTTTTCCTTCTGATGCAGATGC
1 AAGTGATGCAAATGTAAATGTCTTTTTCC-T-TGATGCAGATAC
* * * *
11067354 AAGTGATACAAATGTAAATG---TTTT-CATGATGCAAATGC
1 AAGTGATGCAAATGTAAATGTCTTTTTCCTTGATGCAGATAC
* * * * * *
11067392 AAGTAATGCAAATGCAAA-AT-TTTTTCTTGTGATGCATATGC
1 AAGTGATGCAAATGTAAATGTCTTTTTCCT-TGATGCAGATAC
11067433 AAGTGATGCAAA
1 AAGTGATGCAAA
11067445 ATTTTTCTTG
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
38 26 0.23
39 4 0.04
40 1 0.01
41 26 0.23
42 25 0.22
43 2 0.02
44 29 0.26
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGTGATGCAAATGTAAATGTCTTTTTCCTTGATGCAGATAC
Found at i:11067384 original size:38 final size:38
Alignment explanation
Indices: 11067290--11067546 Score: 209
Period size: 38 Copynumber: 6.6 Consensus size: 38
11067280 TGAGAATGTC
* * * *
11067290 TTTTTTCTTGATGCAGATACAAGAGATGCAAATGTAAA
1 TTTTTTCGTGATGCAAATGCAAGTGATGCAAATGTAAA
* * *
11067328 TGTCTTTTTCCTTCTGATGCAGATGCAAGTGATACAAATGTAAA
1 --T-TTTTT-C--GTGATGCAAATGCAAGTGATGCAAATGTAAA
* * * *
11067372 TGTTTTCATGATGCAAATGCAAGTAATGCAAATGCAAAA
1 TTTTTTCGTGATGCAAATGCAAGTGATGCAAATG-TAAA
*
11067411 TTTTTTCTTGTGATGCATATGCAAGTGATGC--A---AAA
1 TTTTTTC--GTGATGCAAATGCAAGTGATGCAAATGTAAA
* * * **
11067446 TTTTTCTTGTGATGCAAATGCAAGTGATACGAATACAAA
1 TTTTT-TCGTGATGCAAATGCAAGTGATGCAAATGTAAA
* *
11067485 TTTTTTTGTGATGCAAATGTAAGTGATGCAAATGTAAA
1 TTTTTTCGTGATGCAAATGCAAGTGATGCAAATGTAAA
*
11067523 TTTTTTCTTGATGCAAATGCAAGT
1 TTTTTTCGTGATGCAAATGCAAGT
11067547 ACGAATATGA
Statistics
Matches: 179, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
34 20 0.11
35 8 0.04
36 2 0.01
38 72 0.40
39 18 0.10
40 2 0.01
41 28 0.16
42 2 0.01
44 27 0.15
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (38 bp):
TTTTTTCGTGATGCAAATGCAAGTGATGCAAATGTAAA
Found at i:11067455 original size:34 final size:34
Alignment explanation
Indices: 11067403--11067516 Score: 140
Period size: 34 Copynumber: 3.2 Consensus size: 34
11067393 AGTAATGCAA
*
11067403 ATGCAAAATTTTTTCTTGTGATGCATATGCAAGTG
1 ATGCAAAA-TTTTTCTTGTGATGCAAATGCAAGTG
11067438 ATGCAAAATTTTTCTTGTGATGCAAATGCAAGTG
1 ATGCAAAATTTTTCTTGTGATGCAAATGCAAGTG
* *
11067472 ATACGAATACAAATTTTT-TTGTGATGCAAATGTAAGTG
1 AT--G--CA-AAATTTTTCTTGTGATGCAAATGCAAGTG
11067510 ATGCAAA
1 ATGCAAA
11067517 TGTAAATTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
33 2 0.03
34 28 0.40
35 8 0.11
36 2 0.03
38 22 0.31
39 8 0.11
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (34 bp):
ATGCAAAATTTTTCTTGTGATGCAAATGCAAGTG
Found at i:11067467 original size:113 final size:111
Alignment explanation
Indices: 11067332--11067546 Score: 288
Period size: 113 Copynumber: 1.9 Consensus size: 111
11067322 TGTAAATGTC
* **
11067332 TTTTTCCTTCTGATGCAGATGCAAGTGATACAAATGTAAATGTTTTCATGATGCAAATGCAAGTA
1 TTTTTCCTTCTGATGCAAATGCAAGTGATACAAATACAAATGTTTTCATGATGCAAATGCAAGTA
*
11067397 ATGCAAATGCAAAATTTTTTCTTGTGATGCATATGCAAGTGATGCAAAA
66 ATGCAAATG-AAAATTTTTTC-T-TGATGCAAATGCAAGTGATGCAAAA
* * * ** * *
11067446 TTTTT-CTTGTGATGCAAATGCAAGTGATACGAATACAAATTTTTTTGTGATGCAAATGTAAGTG
1 TTTTTCCTTCTGATGCAAATGCAAGTGATACAAATACAAATGTTTTCATGATGCAAATGCAAGTA
*
11067510 ATGCAAATGTAAATTTTTTCTTGATGCAAATGCAAGT
66 ATGCAAATGAAAATTTTTTCTTGATGCAAATGCAAGT
11067547 ACGAATATGA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
110 15 0.17
111 1 0.01
112 10 0.11
113 58 0.65
114 5 0.06
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (111 bp):
TTTTTCCTTCTGATGCAAATGCAAGTGATACAAATACAAATGTTTTCATGATGCAAATGCAAGTA
ATGCAAATGAAAATTTTTTCTTGATGCAAATGCAAGTGATGCAAAA
Found at i:11067512 original size:15 final size:15
Alignment explanation
Indices: 11067492--11067521 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11067482 AAATTTTTTT
11067492 GTGATGCAAATGTAA
1 GTGATGCAAATGTAA
11067507 GTGATGCAAATGTAA
1 GTGATGCAAATGTAA
11067522 ATTTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
GTGATGCAAATGTAA
Found at i:11068079 original size:33 final size:34
Alignment explanation
Indices: 11068005--11068088 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 34
11067995 TTCACCAAAT
* ** *
11068005 GCCAGTTAAGCTAGGCTTAAAAATTTTTTTTAGA
1 GCCAATTAAGCTAGGCTTAAAAATTTTACTAAGA
*
11068039 GCC-ATTAAGCTAGGCTT-AAAATTTTACTAAGG
1 GCCAATTAAGCTAGGCTTAAAAATTTTACTAAGA
*
11068071 GCCAATTAAACTAGGCTT
1 GCCAATTAAGCTAGGCTT
11068089 GCATGCTCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
32 14 0.33
33 26 0.60
34 3 0.07
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (34 bp):
GCCAATTAAGCTAGGCTTAAAAATTTTACTAAGA
Found at i:11068574 original size:12 final size:13
Alignment explanation
Indices: 11068557--11068585 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11068547 CTAGAGCTAC
11068557 TTTTATTTTT-AT
1 TTTTATTTTTAAT
11068569 TTTTATTTTTAAT
1 TTTTATTTTTAAT
11068582 TTTT
1 TTTT
11068586 TTCTTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:11068974 original size:18 final size:18
Alignment explanation
Indices: 11068938--11068991 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
11068928 TTCCACCCAC
*
11068938 TCATTTCTTTTTCTGTTTT
1 TCATTTATTTTTCT-TTTT
11068957 TCATTTATTTTTCTTTTT
1 TCATTTATTTTTCTTTTT
11068975 TC-TTTCATTTTTTCTTT
1 TCATTT-A-TTTTTCTTT
11068992 CCCTCTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.09
18 7 0.22
19 22 0.69
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (18 bp):
TCATTTATTTTTCTTTTT
Found at i:11068985 original size:12 final size:12
Alignment explanation
Indices: 11068955--11068992 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11068945 TTTTTCTGTT
*
11068955 TTTCATTTATT-
1 TTTCATTTTTTC
11068966 TTTC-TTTTTTC
1 TTTCATTTTTTC
11068977 TTTCATTTTTTC
1 TTTCATTTTTTC
11068989 TTTC
1 TTTC
11068993 CCTCTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCATTTTTTC
Found at i:11069021 original size:19 final size:20
Alignment explanation
Indices: 11068997--11069039 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
11068987 TCTTTCCCTC
11068997 TTTTTTTGCTTTGCTTTT-T
1 TTTTTTTGCTTTGCTTTTGT
**
11069016 TTTTTTTTTTTTGCTTTTGT
1 TTTTTTTGCTTTGCTTTTGT
11069036 TTTT
1 TTTT
11069040 CTTTTCTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (20 bp):
TTTTTTTGCTTTGCTTTTGT
Found at i:11069038 original size:24 final size:24
Alignment explanation
Indices: 11068997--11069044 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11068987 TCTTTCCCTC
*
11068997 TTTTTTTGCTTTGCTTTTTTTTTT
1 TTTTTTTGCTTTGCTTTTTCTTTT
11069021 TTTTTTTGCTTTTG-TTTTTCTTTT
1 TTTTTTTGC-TTTGCTTTTTCTTTT
11069045 CTCGCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (24 bp):
TTTTTTTGCTTTGCTTTTTCTTTT
Found at i:11069044 original size:19 final size:19
Alignment explanation
Indices: 11069006--11069044 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11068996 CTTTTTTTGC
* *
11069006 TTTGCTTTTTTTTTTTTTT
1 TTTGCTTTTGTTTTTCTTT
11069025 TTTGCTTTTGTTTTTCTTT
1 TTTGCTTTTGTTTTTCTTT
11069044 T
1 T
11069045 CTCGCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (19 bp):
TTTGCTTTTGTTTTTCTTT
Found at i:11069051 original size:20 final size:19
Alignment explanation
Indices: 11069009--11069053 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11068999 TTTTTGCTTT
* * *
11069009 GCTTTTTTTTTTTTTTTTT
1 GCTTTTTTTTTCTTTTCTC
11069028 GCTTTTGTTTTTCTTTTCTC
1 GCTTTT-TTTTTCTTTTCTC
11069048 GCTTTT
1 GCTTTT
11069054 AAATCTTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (19 bp):
GCTTTTTTTTTCTTTTCTC
Found at i:11069551 original size:24 final size:25
Alignment explanation
Indices: 11069520--11069577 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
11069510 TGTCATAACC
11069520 ATTTTTTTCTTCTTTC-TTTTCTCTT
1 ATTTTTTTCTT-TTTCATTTTCTCTT
* *
11069545 -TTTTTTTGTTTTTCATTTTTTCTT
1 ATTTTTTTCTTTTTCATTTTCTCTT
11069569 CATTTTTTT
1 -ATTTTTTT
11069578 GGTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
26 7 0.25
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (25 bp):
ATTTTTTTCTTTTTCATTTTCTCTT
Found at i:11081008 original size:20 final size:21
Alignment explanation
Indices: 11080972--11081023 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11080962 CCCGAAATTA
11080972 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
11080994 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
11081015 AT-AAATATT
1 ATAAAATATT
11081024 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:11081014 original size:21 final size:22
Alignment explanation
Indices: 11080972--11081023 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11080962 CCCGAAATTA
11080972 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
11080994 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
11081015 AT-AAATATT
1 ATAAAATATT
11081024 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:11081031 original size:30 final size:30
Alignment explanation
Indices: 11080988--11081057 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
11080978 TATTATTTTT
* * *
11080988 TAAA-ATAT-AAAATATTATTTTTTAAATA
1 TAAATATATAAAAATATCATTATATAAATA
*
11081016 TAAATATTTAAAAATATCATTATATAAATA
1 TAAATATATAAAAATATCATTATATAAATA
*
11081046 TATATATATAAA
1 TAAATATATAAA
11081058 TAATTAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.12
29 3 0.09
30 27 0.79
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAATATATAAAAATATCATTATATAAATA
Found at i:11081310 original size:40 final size:40
Alignment explanation
Indices: 11081255--11081341 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
11081245 TCCCTAATCA
* *
11081255 TTAGTGGTGTTTTATTTTATAAATGCCATTAAATTCAAAT
1 TTAGTGGTGTTTTATTTTATAAATGCCACTAAATACAAAT
*
11081295 TTAGTGGTGTTTTATTTTATAAATGCCGCTAAATACAAAT
1 TTAGTGGTGTTTTATTTTATAAATGCCACTAAATACAAAT
11081335 TTAGTGG
1 TTAGTGG
11081342 CATTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (40 bp):
TTAGTGGTGTTTTATTTTATAAATGCCACTAAATACAAAT
Found at i:11081878 original size:3 final size:3
Alignment explanation
Indices: 11081870--11081914 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11081860 CATATACATA
11081870 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11081915 ATAACATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11082577 original size:232 final size:231
Alignment explanation
Indices: 11082150--11082834 Score: 889
Period size: 232 Copynumber: 2.9 Consensus size: 231
11082140 TATGTTGTAT
* * *
11082150 ATCACATCATCTCAATTTAAAACCAATTTTAAAGTAATTTAACTTTTCTAATTTATCTACAGTTA
1 ATCACTTCATCTCAATTTAAAACAAATTTTAAAGTAATTTATCTTTTCTAATTTATCTACAGTTA
* * * * * *
11082215 ATATGAGAAGTTAAATTTATCACAATTTTTGAAAATATTATTTAATATCTTTAATATTTTTCATA
66 ATATAAGTATTTAAATTTATCACAATTTTTAAAAATATTATTTAATATCTTT-ATTTTTTTTATA
* * *
11082280 AATAATTATTACATTATCTTT-AGTTTTTAAATATATTTCACAAAGAAAATATGAAAAAA-ATAT
130 AATAATCATTACATTATTTTTCAGCTTTTAAATATATTTCAC-AAGAAAA-ATGAAAAAATATAT
* *
11082343 ATAAATACCATAACAACTTTAAGAAAGTTTATCCTATAC
193 ATAAATACCAAAACAACTTTAAGAAAGTCTATCCTATAC
*
11082382 ATCA-TCTCATCTCAATTTAAAACAAATTTTAAAGTAATTTATCTTTTCTAATTTTTC-AGCAGT
1 ATCACT-TCATCTCAATTTAAAACAAATTTTAAAGTAATTTATCTTTTCTAATTTATCTA-CAGT
* *
11082445 TAAAATAAGTATTTAAATTTATCATAATTTTTAAAAATATTATTTAATATCTTTATTTTTTTTTT
64 TAATATAAGTATTTAAATTTATCACAATTTTTAAAAATATTATTTAATATCTTTA--TTTTTTTT
* *
11082510 ATAAATAATCCTTACATTATTTTTCAGCTTTTAAATGTATTTCACAA-AAAAATGAAAAAATATA
127 ATAAATAATCATTACATTATTTTTCAGCTTTTAAATATATTTCACAAGAAAAATGAAAAAATATA
* * * **
11082574 TATAAATACCAAAACAATTTTAGGAAAGTCTCTTGTATAC
192 TATAAATACCAAAACAACTTTAAGAAAGTCTATCCTATAC
* * * * * *
11082614 ATTACTTCATCTTAATTTAAAATAAATTTTAAAATAATTTATCTTTTCTAATTTATCTATAATTA
1 ATCACTTCATCTCAATTTAAAACAAATTTTAAAGTAATTTATCTTTTCTAATTTATCTACAGTTA
*
11082679 ATATGAA-TATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTATTTTTTTTATA
66 ATAT-AAGTATTTAAATTTATCACAATTTTTAAAAATATTATTTAATATCTTTATTTTTTTTATA
**
11082743 AATAATCATTACATTA-TCCTCAGCTTTTAAATATATTTCACAAGAAAAATGTGACAAAAATATA
130 AATAATCATTACATTATTTTTCAGCTTTTAAATATATTTCACAAGAAAAA--TGA-AAAAATATA
* ** *
11082807 AATAAATATTAAAACAACTTCAAGAAAG
192 TATAAATACCAAAACAACTTTAAGAAAG
11082835 CCTTTATTGC
Statistics
Matches: 396, Mismatches: 44, Indels: 25
0.85 0.09 0.05
Matches are distributed among these distances:
229 24 0.06
230 31 0.08
231 11 0.03
232 248 0.63
233 64 0.16
234 18 0.05
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (231 bp):
ATCACTTCATCTCAATTTAAAACAAATTTTAAAGTAATTTATCTTTTCTAATTTATCTACAGTTA
ATATAAGTATTTAAATTTATCACAATTTTTAAAAATATTATTTAATATCTTTATTTTTTTTATAA
ATAATCATTACATTATTTTTCAGCTTTTAAATATATTTCACAAGAAAAATGAAAAAATATATATA
AATACCAAAACAACTTTAAGAAAGTCTATCCTATAC
Found at i:11083020 original size:43 final size:43
Alignment explanation
Indices: 11082972--11083056 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
11082962 TTTTTATGAT
*
11082972 AGGTACTATTTCACT-AAACATATTATTCACTCCTTCAAGTAAA
1 AGGTACTATTTCA-TGAAACATATTATTCACTCCATCAAGTAAA
*
11083015 AGGTACTATTTCATGAAACATATTATTCACTCCATCATGTAA
1 AGGTACTATTTCATGAAACATATTATTCACTCCATCAAGTAA
11083057 GATTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (43 bp):
AGGTACTATTTCATGAAACATATTATTCACTCCATCAAGTAAA
Found at i:11083085 original size:20 final size:18
Alignment explanation
Indices: 11083060--11083100 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 18
11083050 CATGTAAGAT
11083060 TTTTTTTATCAGTTGTAATA
1 TTTTTTT-T-AGTTGTAATA
11083080 -TTTTTTTAGTTGTAATA
1 TTTTTTTTAGTTGTAATA
11083097 TTTT
1 TTTT
11083101 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.50
18 4 0.20
19 6 0.30
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (18 bp):
TTTTTTTTAGTTGTAATA
Found at i:11084857 original size:79 final size:80
Alignment explanation
Indices: 11084726--11084883 Score: 266
Period size: 79 Copynumber: 2.0 Consensus size: 80
11084716 TGCTTATTAA
* * *
11084726 TATTTTATTATTAAGATAATTAGTAATAATTCTGATTGTGAATATCTATAAATGTATGTGTTGGA
1 TATTTTATTATTAAGATAATTAGTAATAATTATGATTGTGAATATCTATAAATATATGTATTGGA
11084791 TAAG-AAAATGAGAG
66 TAAGAAAAATGAGAG
11084805 TATTTTATTA-TAATGATAATTAGTAATAATTATGATTGTGAATATCTATAAATATATGTATTGG
1 TATTTTATTATTAA-GATAATTAGTAATAATTATGATTGTGAATATCTATAAATATATGTATTGG
11084869 ATAAGAAAAATGAGA
65 ATAAGAAAAATGAGA
11084884 AAGCCAATCA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
78 3 0.04
79 62 0.84
80 9 0.12
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.41
Consensus pattern (80 bp):
TATTTTATTATTAAGATAATTAGTAATAATTATGATTGTGAATATCTATAAATATATGTATTGGA
TAAGAAAAATGAGAG
Found at i:11090592 original size:2 final size:2
Alignment explanation
Indices: 11090585--11090615 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11090575 GTAATATGTC
11090585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11090616 AGGCTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11093290 original size:8 final size:8
Alignment explanation
Indices: 11093279--11093314 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
11093269 TTATTATCTC
*
11093279 TTGATTAA
1 TTGATCAA
11093287 TTGATCAA
1 TTGATCAA
11093295 TTGATCAAA
1 TTGATC-AA
11093304 TTGATCAA
1 TTGATCAA
11093312 TTG
1 TTG
11093315 TTTGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (8 bp):
TTGATCAA
Found at i:11100921 original size:6 final size:7
Alignment explanation
Indices: 11100903--11100929 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11100893 ATTCAAAATT
11100903 TAAAAAA
1 TAAAAAA
11100910 TAAAAAA
1 TAAAAAA
11100917 TAAAAAA
1 TAAAAAA
11100924 TAAAAA
1 TAAAAA
11100930 GGCAAAGGTA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:11101689 original size:16 final size:17
Alignment explanation
Indices: 11101663--11101696 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
11101653 TTATGACAGG
11101663 TGAAGGGGGTGAAACCT
1 TGAAGGGGGTGAAACCT
11101680 TGAA-GGGGTGAAACCT
1 TGAAGGGGGTGAAACCT
11101696 T
1 T
11101697 ATTGCAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (17 bp):
TGAAGGGGGTGAAACCT
Found at i:11105596 original size:46 final size:48
Alignment explanation
Indices: 11105504--11105600 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
11105494 AATATGATAG
11105504 AATTAAAACGATTATTAAGATTTAAAAAAAAACAGTAGTATAAAAGAA
1 AATTAAAACGATTATTAAGATTTAAAAAAAAACAGTAGTATAAAAGAA
11105552 AATTAAAACGATTATTAAGATTT-AAAAAAAA-AGTAGTATAAAAGAA
1 AATTAAAACGATTATTAAGATTTAAAAAAAAACAGTAGTATAAAAGAA
11105598 AAT
1 AAT
11105601 GTGGAATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 18 0.37
47 8 0.16
48 23 0.47
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (48 bp):
AATTAAAACGATTATTAAGATTTAAAAAAAAACAGTAGTATAAAAGAA
Found at i:11106011 original size:10 final size:10
Alignment explanation
Indices: 11105987--11106022 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11105977 TGCCAAATAT
*
11105987 TCTCTCTC-C
1 TCTCTCTCTG
11105996 TCTCTCTCTG
1 TCTCTCTCTG
11106006 TCTCTCTCTG
1 TCTCTCTCTG
11106016 TCTCTCT
1 TCTCTCT
11106023 TTCAGTGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.00, C:0.44, G:0.06, T:0.50
Consensus pattern (10 bp):
TCTCTCTCTG
Found at i:11108235 original size:26 final size:26
Alignment explanation
Indices: 11108206--11108260 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
11108196 CAATGATAAG
11108206 TTACTCCTTTTGTATTGTAGCTTCAA
1 TTACTCCTTTTGTATTGTAGCTTCAA
*
11108232 TTACTCCTTTTGTATTGTAGTTTCAA
1 TTACTCCTTTTGTATTGTAGCTTCAA
11108258 TTA
1 TTA
11108261 TAGACATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (26 bp):
TTACTCCTTTTGTATTGTAGCTTCAA
Found at i:11116970 original size:21 final size:21
Alignment explanation
Indices: 11116934--11116991 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
11116924 GCATAAACAT
*
11116934 AATAAAATGATGAATGCATGAC
1 AATATAAT-ATGAATGCATGAC
*
11116956 AATATAATATTAATGCATGAC
1 AATATAATATGAATGCATGAC
11116977 AATATAATATGAATG
1 AATATAATATGAATG
11116992 ATAGATAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (21 bp):
AATATAATATGAATGCATGAC
Found at i:11117135 original size:6 final size:6
Alignment explanation
Indices: 11117124--11117171 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
11117114 GAATTAAGAT
* *
11117124 TTAGGG TTAGGG TTAGGG TTAGGG TT-GGCG TTGGGG TTTAAGG TTAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG-G TTAGGG -TTAGGG TTAGG
11117172 TGTTTAAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 2 0.06
6 28 0.78
7 6 0.17
ACGTcount: A:0.15, C:0.02, G:0.48, T:0.35
Consensus pattern (6 bp):
TTAGGG
Found at i:11117147 original size:18 final size:20
Alignment explanation
Indices: 11117123--11117171 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
11117113 AGAATTAAGA
11117123 TTTAGGGTTAGG-GTTAGGG
1 TTTAGGGTTAGGCGTTAGGG
*
11117142 -TTAGGGTT-GGCGTTGGGG
1 TTTAGGGTTAGGCGTTAGGG
*
11117160 TTTAAGGTTAGG
1 TTTAGGGTTAGG
11117172 TGTTTAAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 7 0.28
20 2 0.08
ACGTcount: A:0.14, C:0.02, G:0.47, T:0.37
Consensus pattern (20 bp):
TTTAGGGTTAGGCGTTAGGG
Found at i:11117186 original size:20 final size:20
Alignment explanation
Indices: 11117161--11117202 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11117151 GCGTTGGGGT
11117161 TTAAGG-TTAGGTGTTTAAGG
1 TTAAGGTTTAGGT-TTTAAGG
11117181 TTAAGGTTTAGGTTTTAAGG
1 TTAAGGTTTAGGTTTTAAGG
11117201 TT
1 TT
11117203 TCGATTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
TTAAGGTTTAGGTTTTAAGG
Found at i:11117306 original size:14 final size:15
Alignment explanation
Indices: 11117268--11117306 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
11117258 TTTGATGGAA
11117268 TTTGGGGTTTCAAGT
1 TTTGGGGTTTCAAGT
*
11117283 TTTGGAGTTTCAAG-
1 TTTGGGGTTTCAAGT
11117297 TTTGGGGTTT
1 TTTGGGGTTT
11117307 TATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (15 bp):
TTTGGGGTTTCAAGT
Found at i:11120122 original size:3 final size:3
Alignment explanation
Indices: 11120114--11120165 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11120104 TTACTTTTTC
11120114 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11120162 TTA T
1 TTA T
11120166 ATATGTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11122626 original size:37 final size:37
Alignment explanation
Indices: 11122578--11122674 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
11122568 TTACTCCCTT
* * *
11122578 TAGAGGTTTTGAAAATTTGAAAATAGC-TCATCCAAAA
1 TAGAGGCTTTGAAACTTTGAAAATAGCTTC-CCCAAAA
*
11122615 TAGAGGCTTTGAAACTTTGAAAATGGCTTCCCCAAAA
1 TAGAGGCTTTGAAACTTTGAAAATAGCTTCCCCAAAA
*
11122652 CAGAGGCTTTGAAACTTTGAAAA
1 TAGAGGCTTTGAAACTTTGAAAA
11122675 AATCGTGCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 52 0.96
38 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (37 bp):
TAGAGGCTTTGAAACTTTGAAAATAGCTTCCCCAAAA
Found at i:11122923 original size:62 final size:62
Alignment explanation
Indices: 11122822--11122941 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
11122812 CTTGTGAATC
* * * *
11122822 TTAAAATTAAAATAGGTTCAGCTTGAAAGACTTACGAATCTTACCTGAATGACTTATAAATG
1 TTAAAATTAAAATAGATTCAGCTTGAAAAACTCACGAATCTTACCTGAAGGACTTATAAATG
* * * *
11122884 TTAAAATTAAAATAGATTCAGTTTGAAAAACTCATGAATCTTACTTGGAGGACTTATA
1 TTAAAATTAAAATAGATTCAGCTTGAAAAACTCACGAATCTTACCTGAAGGACTTATA
11122942 GATTATGCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (62 bp):
TTAAAATTAAAATAGATTCAGCTTGAAAAACTCACGAATCTTACCTGAAGGACTTATAAATG
Found at i:11123119 original size:63 final size:62
Alignment explanation
Indices: 11122985--11123120 Score: 146
Period size: 63 Copynumber: 2.2 Consensus size: 62
11122975 AAAGTAATAG
* * * * * *
11122985 AAATCTCAAAATTTAAATAGATTCAGCTTGGAAGACTTAAGTATCTTGCCCGGAAGACTTAT
1 AAATCTCAAAATTAAAATAGATTAAGCTCGGAAGACTTAAGAATCTTACCCGGAAGACTTAA
* * ** * **
11123047 AAATATCAAAATTAAAAATAGATTAAGCTCGGAAGACTTATGAATCTTACTTGGATGTTTTAA
1 AAATCTCAAAATT-AAAATAGATTAAGCTCGGAAGACTTAAGAATCTTACCCGGAAGACTTAA
11123110 AAATCTCAAAA
1 AAATCTCAAAA
11123121 ATCTTTGAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
62 12 0.20
63 47 0.80
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (62 bp):
AAATCTCAAAATTAAAATAGATTAAGCTCGGAAGACTTAAGAATCTTACCCGGAAGACTTAA
Found at i:11123251 original size:50 final size:48
Alignment explanation
Indices: 11123191--11123321 Score: 138
Period size: 51 Copynumber: 2.6 Consensus size: 48
11123181 ATGGCTTTTC
* * *
11123191 CTAAATAGAGGCTTTGAAATTTTAAAAATCTTGTTTGAAAATGGCTCCCT
1 CTAAACAGAGGCTTTGAAATTTAAAAAAT-TTGTTTGAAAATGACT-CCT
* * * *
11123241 CTAAACAGAGGCCTTGACATTTAAAAAAAATTTGTTTGACAATGACTCTT
1 CTAAACAGAGGCTTTGAAATTT--AAAAAATTTGTTTGAAAATGACTCCT
11123291 CATAAACAGAGG-TTCTGAAATTTAAAAAATT
1 C-TAAACAGAGGCTT-TGAAATTTAAAAAATT
11123322 ATTTTTCTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
49 8 0.12
50 23 0.34
51 31 0.46
52 6 0.09
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (48 bp):
CTAAACAGAGGCTTTGAAATTTAAAAAATTTGTTTGAAAATGACTCCT
Found at i:11127586 original size:13 final size:13
Alignment explanation
Indices: 11127568--11127592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11127558 ATCTAAATTC
11127568 ACCATGCCTGTAG
1 ACCATGCCTGTAG
11127581 ACCATGCCTGTA
1 ACCATGCCTGTA
11127593 CTTCCACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (13 bp):
ACCATGCCTGTAG
Found at i:11127927 original size:84 final size:86
Alignment explanation
Indices: 11127816--11127983 Score: 295
Period size: 84 Copynumber: 2.0 Consensus size: 86
11127806 TGTGGGGAAA
* *
11127816 AAAAAGAAAAAGAAATTGTAACTTTGAATGAATGAAATAATAGAGGAAATGTAAATGTAAAACAT
1 AAAAAGAAAAAGAAATTGTAACTTTGAATGAATGAAATAATAGAGGAAATGCAAATGTAAAACAC
11127881 TAGTCATTTTATTAAAATGAT
66 TAGTCATTTTATTAAAATGAT
11127902 AAAAAG-AAAA-AAATTGTAACTTTGAATGAATGAAATAATAGAGGAAATGCAAATGTAAAACAC
1 AAAAAGAAAAAGAAATTGTAACTTTGAATGAATGAAATAATAGAGGAAATGCAAATGTAAAACAC
*
11127965 TAGTCATTTTATTGAAATG
66 TAGTCATTTTATTAAAATG
11127984 GTAACGGAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 69 0.87
85 4 0.05
86 6 0.08
ACGTcount: A:0.52, C:0.05, G:0.15, T:0.28
Consensus pattern (86 bp):
AAAAAGAAAAAGAAATTGTAACTTTGAATGAATGAAATAATAGAGGAAATGCAAATGTAAAACAC
TAGTCATTTTATTAAAATGAT
Found at i:11134088 original size:72 final size:72
Alignment explanation
Indices: 11133998--11134133 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
11133988 GATGGGTCCC
* *
11133998 AAAACTGATTAGCTGCTCAATTTAAATGTTCCTTAATCACTACTAGGATAAGAAATGCAATCTAT
1 AAAACTGATTAGCTGCTCAATTTAAATGTTCCTCAATCACTACTAAGATAAGAAATGCAATCTAT
11134063 CGATCCT
66 CGATCCT
* *
11134070 AAAATTGATTAGTTGCTCAATTTAAATGTTCCTCAATCACTACTAAGATAAGAAATGCAATCTA
1 AAAACTGATTAGCTGCTCAATTTAAATGTTCCTCAATCACTACTAAGATAAGAAATGCAATCTA
11134134 CCTATATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (72 bp):
AAAACTGATTAGCTGCTCAATTTAAATGTTCCTCAATCACTACTAAGATAAGAAATGCAATCTAT
CGATCCT
Found at i:11135186 original size:3 final size:3
Alignment explanation
Indices: 11135178--11135207 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11135168 TTCATTTTCC
*
11135178 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11135208 GAAAGAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11137751 original size:16 final size:16
Alignment explanation
Indices: 11137730--11137763 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11137720 TCATTTCAAT
11137730 TTTTTTTTGCTTCTTC
1 TTTTTTTTGCTTCTTC
* *
11137746 TTTTTTTTTCTTTTTC
1 TTTTTTTTGCTTCTTC
11137762 TT
1 TT
11137764 CCTTTCCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTTGCTTCTTC
Found at i:11139626 original size:48 final size:47
Alignment explanation
Indices: 11139552--11139854 Score: 275
Period size: 47 Copynumber: 6.3 Consensus size: 47
11139542 TTTTTTGAAC
* * *
11139552 TTGTTTGAAAAAGGCTCATATGAAATAGGCATCAAACTTTAAAAAAT
1 TTGTTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAAT
*
11139599 TTGTTTGGAAAATGGCTCCTATAAAATAGGCAAT-AAACTTTAGAAAAT
1 TTGTTTGGAAAA-GGCTCCTATAAAATAGGC-ATCAAACTTTAAAAAAT
*** * * *
11139647 CCATCTGGAAAAAGCTCTTATAAAATAGGCATCAAACTTTAAAAAAT
1 TTGTTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAAT
* * * * *
11139694 CTATTTGGACAAGGGTTCCTATAAAATAAGCATCAAACTTTTAAAAAAAT
1 TTGTTTGGA-AAAGGCTCCTATAAAATAGGCATCAAAC-TTT-AAAAAAT
* * * *
11139744 CTATTTGGAAAATGGCTCCTATAAGATAGGGATCAAACTTTAGAAAAAAAAT
1 TTGTTTGGAAAA-GGCTCCTATAAAATAGGCATCAAACTTT----AAAAAAT
* * ** *
11139796 TAGTCTATAAAAGACTCCTATAAAATAGGCATCAAACTTTAAAAAAT
1 TTGTTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAAT
* *
11139843 TTGATTGAAAAA
1 TTGTTTGGAAAA
11139855 AGTCTGTTTG
Statistics
Matches: 209, Mismatches: 37, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
46 2 0.01
47 61 0.29
48 60 0.29
49 10 0.05
50 37 0.18
51 25 0.12
52 14 0.07
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.29
Consensus pattern (47 bp):
TTGTTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAAT
Found at i:11139691 original size:95 final size:97
Alignment explanation
Indices: 11139558--11140202 Score: 301
Period size: 99 Copynumber: 6.4 Consensus size: 97
11139548 GAACTTGTTT
* * * *
11139558 GAAAAAGGCTCATATGAAATAGGCATCAAACTTTAAAAAATTTGTTTGGAAAATGGCTCCTATAA
1 GAAAAA-GCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGAAAAGGGCTCCTATAA
* *
11139623 AATAGGCAAT-AAAC-TTT-AGAAAATCCATCTG
65 AATAAGC-ATCAAACTTTTAAAAAAATCCATCTG
* * *
11139654 GAAAAAGCTCTTATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGACAAGGGTTCCTATAAA
1 GAAAAAGCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGAAAAGGGCTCCTATAAA
* *
11139719 ATAAGCATCAAACTTTTAAAAAAATCTATTTG
66 ATAAGCATCAAACTTTTAAAAAAATCCATCTG
* * * * * ** *
11139751 GAAAATGGCTCCTATAAGATAGGGATCAAACTTTAGAAAAAAAAT-TAGTCTATAAAA-GACTCC
1 GAAAA-AGCTCATATAAAATAGGCATCAAACTTT----AAAAAATCTA-TTTGGAAAAGGGCTCC
* * **
11139814 TATAAAATAGGCATCAAAC-TTTAAAAAATTTGAT-TG
60 TATAAAATAAGCATCAAACTTTTAAAAAAATCCATCTG
* * *
11139850 AAAAAAGTCTGTTTGGAAAAGGGCTTATATCAAATAGGCATTAAACTTTTTAAAAAATCTATTTG
1 GAAAAAG-C----T---------C--ATATAAAATAGGCATCAAAC--TTTAAAAAATCTATTTG
* * * * * * * * *
11139915 GAAGAA-GACTCCAATAAAATAGGCATAAAAATTTCTTAAAAAGATCAATATA
48 GAA-AAGGGCTCCTATAAAATAAGCAT-CAAACTT-TTAAAAAAATCCATCTG
* * * * *
11139967 AAAAAAGGCTCATATTAAATAGGCATTAAACTTTAAAAAATCTATTTAGAAAAGGGC-CTTTATA
1 GAAAAA-GCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGAAAAGGGCTC-CTATA
* * *
11140031 AAATAAGTATCAAAC-TTT-AAAAAATCTATCTA
64 AAATAAGCATCAAACTTTTAAAAAAATCCATCTG
* * * * * * * * *
11140063 GAAAAAGGTTCTTATCAAATGGGTATTAAATTTTAAAAAAAC-ATTTGTCCGAAAAAAGGCTCCT
1 GAAAAA-GCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTG---G-AAAAGGGCTCCT
* * * *
11140127 ATAAAATAGGCATCAAA-TTTT-AAAAAATCTATTTA
61 ATAAAATAAGCATCAAACTTTTAAAAAAATCCATCTG
* * * * * *
11140162 GAAAAGGGTTCCTATAAAATACGTAGCAAACTTTAAAAAAT
1 GAAAA-AGCTCATATAAAATAGGCATCAAACTTTAAAAAAT
11140203 TTGTCTAGAA
Statistics
Matches: 428, Mismatches: 78, Indels: 83
0.73 0.13 0.14
Matches are distributed among these distances:
94 2 0.00
95 65 0.15
96 54 0.13
97 18 0.04
98 27 0.06
99 83 0.19
100 45 0.11
101 24 0.06
102 31 0.07
103 1 0.00
104 1 0.00
112 12 0.03
113 24 0.06
114 18 0.04
115 1 0.00
116 13 0.03
117 8 0.02
118 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (97 bp):
GAAAAAGCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGAAAAGGGCTCCTATAAA
ATAAGCATCAAACTTTTAAAAAAATCCATCTG
Found at i:11139764 original size:50 final size:47
Alignment explanation
Indices: 11139555--11139842 Score: 292
Period size: 48 Copynumber: 5.9 Consensus size: 47
11139545 TTTGAACTTG
* * * * *
11139555 TTTGAAAAAGGCTCATATGAAATAGGCATCAAACTTTAAAAAATTTG
1 TTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAATCTA
* *
11139602 TTTGGAAAATGGCTCCTATAAAATAGGCAAT-AAACTTTAGAAAATCCA
1 TTTGGAAAA-GGCTCCTATAAAATAGGC-ATCAAACTTTAAAAAATCTA
* * *
11139650 TCTGGAAAAAGCTCTTATAAAATAGGCATCAAACTTTAAAAAATCTA
1 TTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAATCTA
* * *
11139697 TTTGGACAAGGGTTCCTATAAAATAAGCATCAAACTTTTAAAAAAATCTA
1 TTTGGA-AAAGGCTCCTATAAAATAGGCATCAAAC-TTT-AAAAAATCTA
* *
11139747 TTTGGAAAATGGCTCCTATAAGATAGGGATCAAACTTTAGAAAAAAAAT-TA
1 TTTGGAAAA-GGCTCCTATAAAATAGGCATCAAACTTT----AAAAAATCTA
* ** *
11139798 GTCTATAAAAGACTCCTATAAAATAGGCATCAAACTTTAAAAAAT
1 -TTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAAT
11139843 TTGATTGAAA
Statistics
Matches: 201, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 51 0.25
48 60 0.30
49 10 0.05
50 37 0.18
51 27 0.13
52 14 0.07
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (47 bp):
TTTGGAAAAGGCTCCTATAAAATAGGCATCAAACTTTAAAAAATCTA
Found at i:11139845 original size:145 final size:141
Alignment explanation
Indices: 11139574--11139842 Score: 344
Period size: 145 Copynumber: 1.9 Consensus size: 141
11139564 GGCTCATATG
* * *
11139574 AAATAGGCATCAAACTTTAAAAAATTTGTTTGGAAAATGGCTCCTATAAAATAGGCAATAAACTT
1 AAATAAGCATCAAACTTTAAAAAATCTATTTGGAAAATGGCTCCTATAAAATAGGCAATAAACTT
*** *
11139639 TAGAAAATCCATCTGGAAAAAGCTCTTATAAAATAGGCATCAAACTTTAAAAAATCTATTTGGAC
66 TAGAAAAAAAATCTGGAAAAAGCTCCTATAAAATAGGCATCAAACTTTAAAAAA--TATTTGGAC
11139704 AAGGGTTCCTATA
129 AAGGGTTCCTATA
* *
11139717 AAATAAGCATCAAACTTTTAAAAAAATCTATTTGGAAAATGGCTCCTATAAGATAGG-GATCAAA
1 AAATAAGCATCAAAC-TTT-AAAAAATCTATTTGGAAAATGGCTCCTATAAAATAGGCAAT-AAA
*
11139781 CTTTAGAAAAAAAAT-TAGTCTATAAAAGACTCCTATAAAATAGGCATCAAACTTTAAAAAAT
63 CTTTAGAAAAAAAATCT-G--GA-AAAAG-CTCCTATAAAATAGGCATCAAACTTTAAAAAAT
11139843 TTGATTGAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
143 14 0.13
144 6 0.06
145 50 0.46
147 2 0.02
148 5 0.05
149 31 0.29
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (141 bp):
AAATAAGCATCAAACTTTAAAAAATCTATTTGGAAAATGGCTCCTATAAAATAGGCAATAAACTT
TAGAAAAAAAATCTGGAAAAAGCTCCTATAAAATAGGCATCAAACTTTAAAAAATATTTGGACAA
GGGTTCCTATA
Found at i:11140046 original size:48 final size:48
Alignment explanation
Indices: 11139850--11140294 Score: 227
Period size: 48 Copynumber: 9.1 Consensus size: 48
11139840 AATTTGATTG
* * * * *
11139850 AAAAAAGTCTGTTTGGAAAAGGGCT-TATATCAAATAGGCATTAAACTTTTT
1 AAAAAA-TCTATTTAGAAAAGGGCTCT-TATAAAATAGGTATCAAAC--TTT
* * ** * * *
11139901 AAAAAATCTATTTGGAAGAA-GACTCCAATAAAATAGGCATAAAAATTTCTT
1 AAAAAATCTATTTAGAA-AAGGGCTCTTATAAAATAGGTAT-CAAA-CT-TT
* * * * * * * *
11139952 AAAAAGATCAATATAAAAAAAGGCTCATATTAAATAGGCATTAAACTTT
1 AAAAA-ATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
*
11140001 AAAAAATCTATTTAGAAAAGGGC-CTTTATAAAATAAGTATCAAACTTT
1 AAAAAATCTATTTAGAAAAGGGCTC-TTATAAAATAGGTATCAAACTTT
* * * * * * *
11140049 AAAAAATCTATCTAGAAAAAGGTTCTTATCAAATGGGTATTAAATTTT
1 AAAAAATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
* * * * * *
11140097 AAAAAAAC-ATTTGTCCGAAAAAAGGCTCCTATAAAATAGGCATCAAATTTT
1 AAAAAATCTA-TT-T-AG-AAAAGGGCTCTTATAAAATAGGTATCAAACTTT
* * * *
11140148 AAAAAATCTATTTAGAAAAGGGTTCCTATAAAATACGTAGCAAACTTT
1 AAAAAATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
* * * * * * * * * * *
11140196 AAAAAATTTGTCTAGAAAAGGACTGTAATCAAATACGCATTAAACTCT
1 AAAAAATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
* * * * **
11140244 -GAAAATTTGTCTAG-AAAGGGCTCTTATAAAATAGAAATCAAACTTT
1 AAAAAATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
11140290 AAAAA
1 AAAAA
11140295 CTAATCTCAT
Statistics
Matches: 304, Mismatches: 75, Indels: 34
0.74 0.18 0.08
Matches are distributed among these distances:
46 23 0.08
47 18 0.06
48 140 0.46
49 10 0.03
50 29 0.10
51 59 0.19
52 25 0.08
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (48 bp):
AAAAAATCTATTTAGAAAAGGGCTCTTATAAAATAGGTATCAAACTTT
Found at i:11140238 original size:147 final size:146
Alignment explanation
Indices: 11139967--11140239 Score: 372
Period size: 147 Copynumber: 1.9 Consensus size: 146
11139957 GATCAATATA
* *
11139967 AAAAAAGGCTCATATTAAATAGGCATTAAACTTTAAAAAATCTATTTAGAAAAGGGCCTTTATAA
1 AAAAAAGGCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTAGAAAAGGGCC-TTATAA
* * ** *
11140032 AATAAGTATCAAACTTTAAAAAATCTATCTAGAAAAAGGTTCTTATCAAATGGGTATTAAATTTT
65 AATAAGTAGCAAACTTTAAAAAATCTATCTAGAAAAAGGTACTTATCAAATACGCATTAAATTTT
11140097 AAAAAAACATTTGTCCG
130 AAAAAAACATTTGTCCG
* *
11140114 AAAAAAGGCTCCTATAAAATAGGCATCAAATTTTAAAAAATCTATTTAGAAAAGGGTTCC-TATA
1 AAAAAAGGCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTAGAAAAGGG--CCTTATA
* * *
11140178 AAATACGTAGCAAACTTTAAAAAATTTGTCTAG-AAAAGG-ACTGTAATCAAATACGCATTAAA
64 AAATAAGTAGCAAACTTTAAAAAATCTATCTAGAAAAAGGTACT-T-ATCAAATACGCATTAAA
11140240 CTCTGAAAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
145 2 0.02
146 7 0.06
147 99 0.90
149 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (146 bp):
AAAAAAGGCTCATATAAAATAGGCATCAAACTTTAAAAAATCTATTTAGAAAAGGGCCTTATAAA
ATAAGTAGCAAACTTTAAAAAATCTATCTAGAAAAAGGTACTTATCAAATACGCATTAAATTTTA
AAAAAACATTTGTCCG
Found at i:11140942 original size:14 final size:15
Alignment explanation
Indices: 11140917--11140945 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11140907 CACCTCCAAG
11140917 ATTTGAAAACTCAAA
1 ATTTGAAAACTCAAA
11140932 ATTTG-AAACTCAAA
1 ATTTGAAAACTCAAA
11140946 TATCACTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (15 bp):
ATTTGAAAACTCAAA
Found at i:11142561 original size:5 final size:5
Alignment explanation
Indices: 11142544--11142597 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
11142534 CGATCATCCC
* * *
11142544 TTTCT TTTCCT TTTCT TTACT TTTCT TTTTT TTTCCT CTTCT TTTCT TTT-T
1 TTTCT TTT-CT TTTCT TTTCT TTTCT TTTCT TTT-CT TTTCT TTTCT TTTCT
11142595 TTT
1 TTT
11142598 ATTATTACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
4 4 0.10
5 29 0.71
6 8 0.20
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:11142568 original size:21 final size:21
Alignment explanation
Indices: 11142545--11142597 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11142535 GATCATCCCT
11142545 TTCTTTTCCTTTT-CT-TTACTT
1 TTCTTTT-CTTTTCCTCTT-CTT
*
11142566 TTCTTTTTTTTTCCTCTTCTT
1 TTCTTTTCTTTTCCTCTTCTT
11142587 TTCTTTT-TTTT
1 TTCTTTTCTTTT
11142598 ATTATTACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.28
21 19 0.66
22 2 0.07
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (21 bp):
TTCTTTTCTTTTCCTCTTCTT
Found at i:11142585 original size:26 final size:25
Alignment explanation
Indices: 11142548--11142597 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
11142538 CATCCCTTTC
*
11142548 TTTTCCTTTTCTTTACTTTTCTTTTT
1 TTTTCCTCTTCTTTACTTTT-TTTTT
*
11142574 TTTTCCTCTTCTTTTCTTTTTTTT
1 TTTTCCTCTTCTTTACTTTTTTTT
11142598 ATTATTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCCTCTTCTTTACTTTTTTTTT
Found at i:11144802 original size:37 final size:37
Alignment explanation
Indices: 11144738--11144950 Score: 194
Period size: 37 Copynumber: 5.8 Consensus size: 37
11144728 AAGATATGCA
* * *
11144738 ATGAAATGGAATGCATATGCTACCTATTAAAATGTGT
1 ATGAAATGGAATGCATATACTATCTATTAAAATGTGC
* * * *
11144775 AT-AGGATGGAATGTATATACCATCTATTAACATGTGC
1 ATGA-AATGGAATGCATATACTATCTATTAAAATGTGC
* * *
11144812 ATGAAATGGAATGCATGTACTATCTATTAAGATGTAC
1 ATGAAATGGAATGCATATACTATCTATTAAAATGTGC
* *** * * * * *
11144849 ATAAAATGGAATATGTTTATTATCTATCAAGATGTGT
1 ATGAAATGGAATGCATATACTATCTATTAAAATGTGC
* * *
11144886 ATGAAATGGAATGCATGTACTATCTATCAAAATGTGA
1 ATGAAATGGAATGCATATACTATCTATTAAAATGTGC
* *
11144923 ATGAAATGGAATGCATGTACTATTTATT
1 ATGAAATGGAATGCATATACTATCTATT
11144951 GATGTGGGTA
Statistics
Matches: 142, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
36 1 0.01
37 140 0.99
38 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (37 bp):
ATGAAATGGAATGCATATACTATCTATTAAAATGTGC
Found at i:11144859 original size:74 final size:73
Alignment explanation
Indices: 11144738--11144935 Score: 216
Period size: 74 Copynumber: 2.7 Consensus size: 73
11144728 AAGATATGCA
* * * * ** *
11144738 ATGAAATGGAATGCATATGCTACCTATTAAAATGTGTATAGGATGGAATGTATATACCATCTATT
1 ATGAAATGGAATGCATGTACTATCTATTAAAATGT-AATAAAATGGAATGTATATACCATCTATC
11144803 AACATGTGC
65 AACATGTGC
* * * * **
11144812 ATGAAATGGAATGCATGTACTATCTATTAAGATGTACATAAAATGGAATATGTTTATTATCTATC
1 ATGAAATGGAATGCATGTACTATCTATTAAAATGTA-ATAAAATGGAATGTATATACCATCTATC
* *
11144877 AAGATGTGT
65 AACATGTGC
* *
11144886 ATGAAATGGAATGCATGTACTATCTATCAAAATGTGAATGAAATGGAATG
1 ATGAAATGGAATGCATGTACTATCTATTAAAATGT-AATAAAATGGAATG
11144936 CATGTACTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
74 102 0.99
75 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (73 bp):
ATGAAATGGAATGCATGTACTATCTATTAAAATGTAATAAAATGGAATGTATATACCATCTATCA
ACATGTGC
Found at i:11145220 original size:19 final size:19
Alignment explanation
Indices: 11145187--11145229 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11145177 GATTCAAAGA
*
11145187 TTTTTT-TTTCATTTTTGT
1 TTTTTTCTTTCATTTTGGT
11145205 TGTTTTTCTTTC-TTTTGGT
1 T-TTTTTCTTTCATTTTGGT
11145224 TTTTTT
1 TTTTTT
11145230 TGTTTTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTCATTTTGGT
Found at i:11145236 original size:20 final size:19
Alignment explanation
Indices: 11145187--11145237 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
11145177 GATTCAAAGA
*
11145187 TTTTTTTTTCATTTTTGTTG
1 TTTTTTTTTC-TTTTGGTTG
* *
11145207 TTTTTCTTTCTTTTGGTTT
1 TTTTTTTTTCTTTTGGTTG
11145226 TTTTTGTTTTCT
1 TTTTT-TTTTCT
11145238 GTTTAGAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTCTTTTGGTTG
Found at i:11146338 original size:13 final size:13
Alignment explanation
Indices: 11146320--11146357 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
11146310 CATTAAGGAA
11146320 GATGATGTGGCAT
1 GATGATGTGGCAT
11146333 GATGATGTGGCAT
1 GATGATGTGGCAT
*
11146346 GATGAGGTGGCA
1 GATGATGTGGCA
11146358 ATTCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.42, T:0.26
Consensus pattern (13 bp):
GATGATGTGGCAT
Found at i:11147250 original size:20 final size:21
Alignment explanation
Indices: 11147215--11147253 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11147205 GTTTAGGATT
11147215 GTTTTCAGCTACTGTTTTTCA
1 GTTTTCAGCTACTGTTTTTCA
*
11147236 GTTTTCTGC-ACTGTTTTT
1 GTTTTCAGCTACTGTTTTT
11147254 AAATTCTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.18, G:0.15, T:0.56
Consensus pattern (21 bp):
GTTTTCAGCTACTGTTTTTCA
Found at i:11151426 original size:11 final size:10
Alignment explanation
Indices: 11151386--11151429 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
11151376 TTGGTAATTT
11151386 TTGAAGATTC
1 TTGAAGATTC
*
11151396 TT-AAGTTTC
1 TTGAAGATTC
*
11151405 TTGATGATTC
1 TTGAAGATTC
11151415 TTGGAAGATTC
1 TT-GAAGATTC
11151426 TTGA
1 TTGA
11151430 TCATATGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (10 bp):
TTGAAGATTC
Found at i:11151428 original size:21 final size:21
Alignment explanation
Indices: 11151370--11151430 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 21
11151360 GAAGAAAAGA
* *
11151370 ATGATT-TTGGTA-ATTTTTG
1 ATGATTCTTGGAAGATTCTTG
* *
11151389 AAGATTCTT--AAGTTTCTTG
1 ATGATTCTTGGAAGATTCTTG
11151408 ATGATTCTTGGAAGATTCTTG
1 ATGATTCTTGGAAGATTCTTG
11151429 AT
1 AT
11151431 CATATGTTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
20 2 0.06
21 11 0.34
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.49
Consensus pattern (21 bp):
ATGATTCTTGGAAGATTCTTG
Found at i:11153184 original size:20 final size:20
Alignment explanation
Indices: 11153159--11153206 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
11153149 TTCATTTTTT
*
11153159 AATTTTTTTCAAATTTTC-A
1 AATTTTTTTTAAATTTTCAA
11153178 AATTTTTATTTAAATTTTCAA
1 AATTTTT-TTTAAATTTTCAA
11153199 AATTTTTT
1 AATTTTTT
11153207 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 11 0.42
21 8 0.31
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTTTTAAATTTTCAA
Found at i:11153544 original size:31 final size:31
Alignment explanation
Indices: 11153464--11153563 Score: 114
Period size: 30 Copynumber: 3.3 Consensus size: 31
11153454 GCTAAACTTA
* * *
11153464 AAATCTAATTGATGCTAGCTAAATTGGGCTT
1 AAATCTCATTGATGCCAGCTAAATTTGGCTT
* * * *
11153495 ATATCT-ATCGGTGCCAGCTAAATTTGGCCT
1 AAATCTCATTGATGCCAGCTAAATTTGGCTT
*
11153525 AAATCTCATTGATGCCAGCTAAA-CTGGCTT
1 AAATCTCATTGATGCCAGCTAAATTTGGCTT
11153555 AAATCTCAT
1 AAATCTCAT
11153564 ATTTATCATT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
30 38 0.67
31 19 0.33
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (31 bp):
AAATCTCATTGATGCCAGCTAAATTTGGCTT
Found at i:11156367 original size:24 final size:23
Alignment explanation
Indices: 11156334--11156383 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
11156324 ACCATTTTTG
**
11156334 TTTTTTTTTTCCCTTTTTTCTTT
1 TTTTTTTTTTCCCTTTTCCCTTT
*
11156357 TTTTTTCTTTTTCCTTTTCCCTTT
1 TTTTTT-TTTTCCCTTTTCCCTTT
11156381 TTT
1 TTT
11156384 AATGCCCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTTTCCCTTTTCCCTTT
Found at i:11158774 original size:54 final size:53
Alignment explanation
Indices: 11158672--11158778 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
11158662 TTTTTGAAAG
*
11158672 AATGTTTTTCTTTTCTTTTCTTTTTTTCAAAAATTTAGTTTTATTTGCATTAT
1 AATGTTTTTCTTTTCTTTTCTTTTTTTCAAAAATTTACTTTTATTTGCATTAT
***
11158725 AATGTTTTTCTTTTCTTTTCTTTTTTCTTTTAAATTTACTTTTATTTGCATTAT
1 AATGTTTTTCTTTTCTTTTCTTTTTT-TCAAAAATTTACTTTTATTTGCATTAT
11158779 CATTACCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 26 0.53
54 23 0.47
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.66
Consensus pattern (53 bp):
AATGTTTTTCTTTTCTTTTCTTTTTTTCAAAAATTTACTTTTATTTGCATTAT
Found at i:11159204 original size:3 final size:3
Alignment explanation
Indices: 11159190--11159238 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
11159180 TAAGTGCCTT
* *
11159190 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11159238 A
1 A
11159239 GTTATTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11175610 original size:16 final size:17
Alignment explanation
Indices: 11175589--11175621 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11175579 AGGATATAGA
*
11175589 ACTAT-AGAAATTCACC
1 ACTATAAGAAATCCACC
11175605 ACTATAAGAAATCCACC
1 ACTATAAGAAATCCACC
11175622 TAAGAGACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.27, G:0.06, T:0.21
Consensus pattern (17 bp):
ACTATAAGAAATCCACC
Found at i:11175921 original size:45 final size:45
Alignment explanation
Indices: 11175860--11175954 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
11175850 CTATGTGAAC
* * * *
11175860 ATAATTAGCTGCTGCCTTAAGTCATGGTATTTACATGTGAACACA
1 ATAATTAGCTGATGCCTAAAATCATGGGATTTACATGTGAACACA
* * ** *
11175905 ATAATTAGTTGATGCCTAAAATCATGGGGTTTGTATGTGAACATA
1 ATAATTAGCTGATGCCTAAAATCATGGGATTTACATGTGAACACA
11175950 ATAAT
1 ATAAT
11175955 CATAATTAGA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (45 bp):
ATAATTAGCTGATGCCTAAAATCATGGGATTTACATGTGAACACA
Found at i:11176982 original size:3 final size:3
Alignment explanation
Indices: 11176970--11177083 Score: 55
Period size: 3 Copynumber: 37.3 Consensus size: 3
11176960 GTTTCTTTTG
*
11176970 TAT T-T TAT TAT TATT TAT TAT TAT TAT GTAT TAA TA- TAT ATATT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT -TA-T TAT
* *
11177017 TAT T-T T-T TAT TAT TA- GAT TAGG T-T TA- TAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT -TA-T TAT -TA-T
11177063 TAT TAT TAT TA- TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
11177084 TTTTTTTGTT
Statistics
Matches: 89, Mismatches: 6, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
2 14 0.16
3 50 0.56
4 22 0.25
5 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11177026 original size:39 final size:40
Alignment explanation
Indices: 11176973--11177082 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 40
11176963 TCTTTTGTAT
*
11176973 TTTATTATTATTTATTATTATTATGTATTA-ATATATATA
1 TTTATTATTTTTTATTATTATTATGTATTATATATATATA
* *
11177012 TTTATTATTTTTTATTATTAGATTAGGT-TTATATGTATATA
1 TTTATTATTTTTTATTATT--ATTATGTATTATATATATATA
* *
11177053 GTTATATATTTATTATTATTA-TAT-TATTAT
1 TTTAT-TATTTTTTATTATTATTATGTATTAT
11177083 TTTTTTTTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.02
39 24 0.40
40 4 0.07
41 18 0.30
42 13 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (40 bp):
TTTATTATTTTTTATTATTATTATGTATTATATATATATA
Found at i:11177026 original size:49 final size:49
Alignment explanation
Indices: 11176970--11177084 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 49
11176960 GTTTCTTTTG
*
11176970 TATTTTATTATTATTTA-TTATTATTATGTAT-TAATATATATATTTATTAT
1 TATTTTATTATTATTTAGGT-TTA-TATGTATATAAT-TATATATTTATTAT
* *
11177020 T-TTTTATTATTAGATTAGGTTTATATGTATATAGTTATATATTTATTAT
1 TATTTTATTATTA-TTTAGGTTTATATGTATATAATTATATATTTATTAT
*
11177069 TATTATATTATTATTT
1 TATTTTATTATTATTT
11177085 TTTTTTGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
49 35 0.62
50 20 0.36
51 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (49 bp):
TATTTTATTATTATTTAGGTTTATATGTATATAATTATATATTTATTAT
Found at i:11177155 original size:21 final size:21
Alignment explanation
Indices: 11177126--11177165 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11177116 TTATCTTATT
* *
11177126 TTATTTGTTATTATTTTTTTA
1 TTATCTGTTATGATTTTTTTA
*
11177147 TTATCTGTTCTGATTTTTT
1 TTATCTGTTATGATTTTTT
11177166 CCCGATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (21 bp):
TTATCTGTTATGATTTTTTTA
Found at i:11177577 original size:31 final size:31
Alignment explanation
Indices: 11177539--11177604 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
11177529 TTTTAAAAAC
*
11177539 CGGTAACAATTTCGGCGAACATTGAAGTTTT
1 CGGTAACAATTTCGACGAACATTGAAGTTTT
11177570 CGGTAACAATTTCGACGAACATTGAAGTTTT
1 CGGTAACAATTTCGACGAACATTGAAGTTTT
11177601 CGGT
1 CGGT
11177605 GACCTGCCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (31 bp):
CGGTAACAATTTCGACGAACATTGAAGTTTT
Found at i:11178077 original size:4 final size:4
Alignment explanation
Indices: 11178022--11178061 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
11178012 TTTTTTTTTC
* *
11178022 ATTT ATTT GTTT ATTT GTTT ATTT ATTTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATT
11178062 AGATTAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:11178101 original size:11 final size:11
Alignment explanation
Indices: 11178085--11178167 Score: 73
Period size: 10 Copynumber: 7.4 Consensus size: 11
11178075 TTAATATTCT
*
11178085 TTTTATCTTTA
1 TTTTATTTTTA
11178096 TTTTATTTTTA
1 TTTTATTTTTA
*
11178107 TTTT-GTTTT-
1 TTTTATTTTTA
11178116 TTTTATTTTTA
1 TTTTATTTTTA
11178127 -TTTATTTTTA
1 TTTTATTTTTA
*
11178137 CTTTCATTTTTTTA
1 -TTT--TATTTTTA
11178151 TTTTATTATTCTA
1 TTTTATT-TT-TA
11178164 TTTT
1 TTTT
11178168 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.07
10 18 0.31
11 17 0.29
12 4 0.07
13 9 0.15
14 7 0.12
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11178127 original size:31 final size:30
Alignment explanation
Indices: 11178084--11178154 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
11178074 TTTAATATTC
* * **
11178084 TTTTTATCTTTATTTTATTTTTATTTTGTTT
1 TTTTTATTTTTA-TTTATTTTTACTTTCATT
11178115 TTTTTATTTTTATTTATTTTTACTTTCATT
1 TTTTTATTTTTATTTATTTTTACTTTCATT
11178145 TTTTTATTTT
1 TTTTTATTTT
11178155 ATTATTCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (30 bp):
TTTTTATTTTTATTTATTTTTACTTTCATT
Found at i:11178346 original size:59 final size:60
Alignment explanation
Indices: 11178282--11178489 Score: 244
Period size: 60 Copynumber: 3.4 Consensus size: 60
11178272 GGGTTTTTGA
*
11178282 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC-GAAAAATAT-TTTTAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTTCAAAAAAATATATTTTAG
* * * *
11178341 GGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTCAAAAAAATATATATTTTTG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC-AAAAAA-ATATATTTTAG
* * * *
11178403 AGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAATTTTCAAAAAAAAAATGTTTGTGG
1 -GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC-AAAAAAATATATTT-TAG
*
11178464 GGAAAAGTTGAAGGTATCAATTTTCC
1 GGAAAAGTTGAAAGTATCAATTTTCC
11178490 CTACACAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
58 7 0.05
59 33 0.26
60 34 0.26
61 20 0.16
62 9 0.07
63 26 0.20
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.35
Consensus pattern (60 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTCAAAAAAATATATTTTAG
Found at i:11178453 original size:122 final size:129
Alignment explanation
Indices: 11178195--11178489 Score: 351
Period size: 122 Copynumber: 2.3 Consensus size: 129
11178185 AATTTCCAAA
11178195 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAAAATAAATAAATTT
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTT-AAAAAATAAATAAATTT
* *
11178260 AAAAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTT
65 AAAAAAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTT
11178325 C
129 C
* * ** * * *
11178326 ---GAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTC-TT-GGAAAT-CA-AAGTTTC
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAAATAAATAAATTTA
* * *
11178384 AAAAAAATATA-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAATTTTC
66 AAAAAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTC
* *
11178445 AAAAAAAAA-ATGTTTGTGGGGAAAAGTTGAAGGTATCAATTTTCC
1 AAAAAAAAATAT-TTT-TAGGGAAAAGTTGAAAGTATCAATTTTCC
11178490 CTACACAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
119 8 0.06
121 7 0.05
122 42 0.29
123 40 0.28
124 1 0.01
125 4 0.03
127 2 0.01
128 39 0.27
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (129 bp):
AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTTAAAAAATAAATAAATTTA
AAAAAAAAAAAGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTC
Found at i:11194563 original size:21 final size:21
Alignment explanation
Indices: 11194539--11194581 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11194529 TTCCATCCGC
11194539 TGGCACATGGCCTCCATGCCA
1 TGGCACATGGCCTCCATGCCA
* *
11194560 TGGCGCATGGCCTTCATGCCA
1 TGGCACATGGCCTCCATGCCA
11194581 T
1 T
11194582 CTCGCAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.35, G:0.26, T:0.23
Consensus pattern (21 bp):
TGGCACATGGCCTCCATGCCA
Found at i:11194587 original size:21 final size:21
Alignment explanation
Indices: 11194544--11194587 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11194534 TCCGCTGGCA
*
11194544 CATGGCCTCCATGCCATGGCG
1 CATGGCCTCCATGCCATCGCG
* *
11194565 CATGGCCTTCATGCCATCTCG
1 CATGGCCTCCATGCCATCGCG
11194586 CA
1 CA
11194588 AAGTCAGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.23
Consensus pattern (21 bp):
CATGGCCTCCATGCCATCGCG
Found at i:11196319 original size:102 final size:101
Alignment explanation
Indices: 11196186--11196389 Score: 275
Period size: 103 Copynumber: 2.0 Consensus size: 101
11196176 AGGTGTTTTT
* * * *
11196186 GCCAAAAACGCTTTGAATAATCACCTCATAAAAATTGAAGT-GATTATTGAAAGTGATTTTGTCC
1 GCCAAAAACACCTTGAATAATCACCTCATAAAAATTGAAGTGGATTATTGAAAGTAATTTTGGCC
* *
11196250 ATAAACGCATTGAATGACCTATTAAATTTTTTGTAAGG
66 ATAAACGCATTGAATAACCCATT--ATTTTTTGTAAGG
* * * * *
11196288 GCCAAAAACACCTTGAATAATCATCTTATAAAATTTGAAGTGGATTATTGAAGGTAATTTTGGCT
1 GCCAAAAACACCTTGAATAATCACCTCATAAAAATTGAAGTGGATTATTGAAAGTAATTTTGGCC
*
11196353 ATAAACGCCTTGAATAACCCATTATTTTTTGTAAGG
66 ATAAACGCATTGAATAACCCATTATTTTTTGTAAGG
11196389 G
1 G
11196390 ATTATTTAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
101 14 0.16
102 36 0.40
103 39 0.44
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (101 bp):
GCCAAAAACACCTTGAATAATCACCTCATAAAAATTGAAGTGGATTATTGAAAGTAATTTTGGCC
ATAAACGCATTGAATAACCCATTATTTTTTGTAAGG
Found at i:11196785 original size:23 final size:24
Alignment explanation
Indices: 11196742--11196791 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
11196732 TTTTTCTCCT
* *
11196742 AGAATTCTTAAATACCTCGAA-AG
1 AGAATTCTAAAATACCACGAAGAG
*
11196765 AGAATTCTAAAATATCACGAAGAG
1 AGAATTCTAAAATACCACGAAGAG
11196789 AGA
1 AGA
11196792 TGGATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (24 bp):
AGAATTCTAAAATACCACGAAGAG
Found at i:11200005 original size:16 final size:16
Alignment explanation
Indices: 11199984--11200029 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
11199974 TTAAAATAAA
*
11199984 TATAAAATATATACTT
1 TATAAAATATATAATT
*
11200000 TATAAAATATAAAATT
1 TATAAAATATATAATT
*
11200016 TAATTAAATATATA
1 T-ATAAAATATATA
11200030 TCTAGGCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAAATATATAATT
Found at i:11201273 original size:10 final size:10
Alignment explanation
Indices: 11201242--11201285 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
11201232 TATATTTTAT
11201242 AATTTTAAAA
1 AATTTTAAAA
11201252 AATATTTATAAA
1 AAT-TTTA-AAA
11201264 TAATTTTAAAA
1 -AATTTTAAAA
*
11201275 AAATTTAAAA
1 AATTTTAAAA
11201285 A
1 A
11201286 CCAAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 13 0.43
11 7 0.23
12 7 0.23
13 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:11201773 original size:24 final size:25
Alignment explanation
Indices: 11201728--11201783 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
11201718 TAAAATCTAT
**
11201728 AAAAAAATATACTTTTATAA-TTAA
1 AAAAAAATATACTAATATAATTTAA
11201752 AAAAAAATATACTAA-ATAAATTTAA
1 AAAAAAATATACTAATAT-AATTTAA
*
11201777 AGAAAAA
1 AAAAAAA
11201784 GTAAGAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 15 0.56
25 10 0.37
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAAATATACTAATATAATTTAA
Done.