Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 57 of 226
Found at i:18836389 original size:10 final size:10
Alignment explanation
Indices: 18836337--18836408 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 10
18836327 TTTCCTTTTC
18836337 TTTCTTTCTT
1 TTTCTTTCTT
18836347 TTTCTTTCTT
1 TTTCTTTCTT
*
18836357 TCCTCTCTTTTCCT
1 T--T-TC-TTTCTT
*
18836371 TTTCCTTCTT
1 TTTCTTTCTT
18836381 TTTCTTTCTT
1 TTTCTTTCTT
18836391 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
18836403 CTTCTT
1 TTTCTT
18836409 CCCCTCTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
10 29 0.57
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:18836399 original size:33 final size:34
Alignment explanation
Indices: 18836294--18836399 Score: 103
Period size: 34 Copynumber: 3.1 Consensus size: 34
18836284 ATAAATTTTT
*
18836294 TTTTCTCTTCTTCCTT-TCTTTTCTTTCATCCCCTTTCC
1 TTTTC-CTT-TTCCTTCT-TTTTCTTTCAT-TCCTTT-C
* * *
18836332 TTTT-C-TTTCTTTCTTTTTCTTTCTTTCCTCTC
1 TTTTCCTTTTCCTTCTTTTTCTTTCATTCCTTTC
18836364 TTTTCCTTTTCCTTCTTTTTCTTTC-TTCCTTTC
1 TTTTCCTTTTCCTTCTTTTTCTTTCATTCCTTTC
18836397 TTT
1 TTT
18836400 CTTCTTCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 5 0.08
33 15 0.25
34 32 0.54
35 2 0.03
36 1 0.02
38 4 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTCCTTTTCCTTCTTTTTCTTTCATTCCTTTC
Found at i:18836495 original size:27 final size:27
Alignment explanation
Indices: 18836457--18836523 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
18836447 AATTCAAGGG
18836457 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
* **
18836484 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
18836511 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
18836524 TTGCTTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:18836531 original size:27 final size:27
Alignment explanation
Indices: 18836457--18836533 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
18836447 AATTCAAGGG
**
18836457 TGGTGCCGCCAACAAGG-AACCCTTGTT
1 TGGTGCCGCCAAC-AGGCTTCCCTTGTT
*
18836484 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGCTTCCCTTGTT
**
18836511 TGGTGCCGCCAACTTGCTTCCCT
1 TGGTGCCGCCAACAGGCTTCCCT
18836534 CCACCCAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.14, C:0.32, G:0.26, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGCTTCCCTTGTT
Found at i:18836605 original size:16 final size:17
Alignment explanation
Indices: 18836566--18836605 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
18836556 AGTCCAGGTT
18836566 TTTTTTTCTGTTTTTTA
1 TTTTTTTCTGTTTTTTA
*
18836583 TTTTTTT-TGTTTTTTG
1 TTTTTTTCTGTTTTTTA
18836599 TTTTTTT
1 TTTTTTT
18836606 ATATATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTGTTTTTTA
Found at i:18836614 original size:24 final size:24
Alignment explanation
Indices: 18836564--18836615 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
18836554 TCAGTCCAGG
* *
18836564 TTTT-TTTTTCTGTTTTTTATTTT
1 TTTTGTTTTTCTGTTTTTTATATA
18836587 TTTTGTTTTT-TGTTTTTTTATATA
1 TTTTGTTTTTCTG-TTTTTTATATA
18836611 TTTTG
1 TTTTG
18836616 GTAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.83
Consensus pattern (24 bp):
TTTTGTTTTTCTGTTTTTTATATA
Found at i:18836635 original size:27 final size:29
Alignment explanation
Indices: 18836605--18836675 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
18836595 TTTGTTTTTT
*
18836605 TATATATTTTGGTAA-ATAAAAAAA-TTA
1 TATATATTTTGGTAACAAAAAAAAAGTTA
*
18836632 TATATTTTTTGGTAAACAAAAAAAAAGTTA
1 TATATATTTTGGT-AACAAAAAAAAAGTTA
18836662 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
18836676 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 12 0.32
28 4 0.11
29 17 0.45
30 5 0.13
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAACAAAAAAAAAGTTA
Found at i:18838593 original size:30 final size:31
Alignment explanation
Indices: 18838548--18838607 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
18838538 GGAGGTGGGA
*
18838548 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
18838579 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
18838608 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:18838835 original size:9 final size:9
Alignment explanation
Indices: 18838821--18838845 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18838811 TATAGTTTGA
18838821 TATTCGAAT
1 TATTCGAAT
18838830 TATTCGAAT
1 TATTCGAAT
18838839 TATTCGA
1 TATTCGA
18838846 GTAATTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18841999 original size:23 final size:23
Alignment explanation
Indices: 18841969--18842318 Score: 407
Period size: 23 Copynumber: 15.7 Consensus size: 23
18841959 TTAAGTTTAG
18841969 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
18841992 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* * *
18842015 -GTTAGTGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
18842037 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
*
18842060 GGTTAGGGTTTTCAACTTAAATA
1 GGTTAGGGTTTTCAACTTAATTA
* *
18842083 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* *
18842106 GGTTAGGCTTTTCAACTT-A--G
1 GGTTAGGGTTTTCAACTTAATTA
***** *
18842126 GGTTTTTAATTT-AA-TTAGGTTA
1 GGTTAGGGTTTTCAACTTA-ATTA
*
18842148 GG-----CTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
*
18842166 GGTTAGGGTTTTCAACCTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
18842189 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* *
18842212 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* *
18842235 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
* * *
18842258 GTTTAGAGTTTTTAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
18842281 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
18842304 GGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAA
18842319 TTTTTATCAC
Statistics
Matches: 280, Mismatches: 35, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.01
18 9 0.03
19 5 0.02
20 7 0.03
22 22 0.08
23 234 0.84
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTCAACTTAATTA
Found at i:18842085 original size:46 final size:46
Alignment explanation
Indices: 18841969--18842318 Score: 468
Period size: 46 Copynumber: 7.8 Consensus size: 46
18841959 TTAAGTTTAG
18841969 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* * *
18842015 -GTTAGTGTTTTTAATTTAATTAGGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* * *
18842060 GGTTAGGGTTTTCAACTTAAATAGGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* * *
18842106 GGTTAGGCTTTTCAAC---------TTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* *
18842143 GGTTAGGCTTTTCAACTTAATTAGGTTAGGGTTTTCAACCTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* *
18842189 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
* * * * *
18842235 GGTTAGGGTTTTTAATTTAATTAGTTTAGAGTTTTTAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
18842281 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
18842319 TTTTTATCAC
Statistics
Matches: 267, Mismatches: 27, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
37 37 0.14
45 42 0.16
46 188 0.70
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (46 bp):
GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA
Found at i:18842132 original size:37 final size:37
Alignment explanation
Indices: 18842085--18842161 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
18842075 CTTAAATAGG
18842085 TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAAC
1 TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAAC
18842122 TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAAC
1 TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAAC
18842159 TTA
1 TTA
18842162 ATTAGGTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (37 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAAC
Found at i:18842321 original size:69 final size:69
Alignment explanation
Indices: 18841969--18842318 Score: 486
Period size: 69 Copynumber: 5.2 Consensus size: 69
18841959 TTAAGTTTAG
*
18841969 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTA-GTTAGTGTTTTTAATTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
18842033 ATTA
66 ATTA
*
18842037 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATAGGTTAGGGTTTTTAATTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
18842102 ATTA
66 ATTA
* * * * * *
18842106 GGTTAGGCTTTTCAAC---------TTAGGGTTTTTAATTTAATTAGGTTAGGCTTTTCAACTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
18842162 ATTA
66 ATTA
*
18842166 GGTTAGGGTTTTCAACCTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
18842231 ATTA
66 ATTA
* * * * * * *
18842235 GGTTAGGGTTTTTAATTTAATTAGTTTAGAGTTTTTAACTTAATTAGGTTAGGGTTTTCAACTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
18842300 ATTA
66 ATTA
18842304 GGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAA
18842319 TTTTTATCAC
Statistics
Matches: 248, Mismatches: 24, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
60 53 0.21
68 45 0.18
69 150 0.60
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (69 bp):
GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTTAATTTA
ATTA
Found at i:18842349 original size:25 final size:25
Alignment explanation
Indices: 18842320--18842412 Score: 150
Period size: 25 Copynumber: 3.7 Consensus size: 25
18842310 GGTTTTCAAT
*
18842320 TTTTATCACATCAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTTTA
* *
18842345 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTTTA
18842370 TTTTATTACATCAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTTTA
*
18842395 TTTTATTATATCAAATAA
1 TTTTATTACATCAAATAA
18842413 TATCAAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTTTA
Found at i:18843602 original size:7 final size:7
Alignment explanation
Indices: 18843592--18843623 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
18843582 CATAATACAT
18843592 AATACTA
1 AATACTA
18843599 AATACTA
1 AATACTA
18843606 AATACTA
1 AATACTA
*
18843613 AATACAA
1 AATACTA
18843620 AATA
1 AATA
18843624 TCTATTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:18843602 original size:14 final size:14
Alignment explanation
Indices: 18843585--18843623 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
18843575 TTATATACAT
18843585 AATACATAATACTA
1 AATACATAATACTA
18843599 AATAC-TAAATACTA
1 AATACAT-AATACTA
*
18843613 AATACAAAATA
1 AATACATAATA
18843624 TCTATTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (14 bp):
AATACATAATACTA
Found at i:18844865 original size:51 final size:51
Alignment explanation
Indices: 18844729--18844853 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 51
18844719 CTATTTTAAA
* *
18844729 AAAGGAAATTGAGAGCAAATTGAAATTAAATATGACTTTGAGAGATTTTTG
1 AAAGGAAATTGAGAGAAAATTGAAATTAAATATGAATTTGAGAGATTTTTG
* * *
18844780 GAATGAAATTGAGAGGAAATTGAAATTAAATATGAATTCATGAGA-A-TTTTG
1 AAAGGAAATTGAGAGAAAATTGAAATTAAATATGAATT--TGAGAGATTTTTG
18844831 AAAGGAAATTGAGAGAAAATTGA
1 AAAGGAAATTGAGAGAAAATTGA
18844854 GAAGAAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 59 0.91
52 1 0.02
53 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGGAAATTGAGAGAAAATTGAAATTAAATATGAATTTGAGAGATTTTTG
Found at i:18858078 original size:24 final size:24
Alignment explanation
Indices: 18858046--18858098 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
18858036 TATTTATAGG
* **
18858046 TAAATATATTATGTTAATAAATAT
1 TAAATATATCATACTAATAAATAT
*
18858070 TAAATATATCATACTCATAAATAT
1 TAAATATATCATACTAATAAATAT
18858094 TAAAT
1 TAAAT
18858099 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAATATATCATACTAATAAATAT
Found at i:18862458 original size:24 final size:24
Alignment explanation
Indices: 18862426--18862477 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
18862416 AATCAAAGTC
* *
18862426 AAATATATTATATTGATAAATACT
1 AAATATATTATACTCATAAATACT
18862450 AAATATATTATACTCATAAATACT
1 AAATATATTATACTCATAAATACT
18862474 AAAT
1 AAAT
18862478 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTCATAAATACT
Found at i:18863917 original size:35 final size:35
Alignment explanation
Indices: 18863873--18863939 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
18863863 ATAAAAGTAC
18863873 ATAAATTATAATAAATTAAAAT-AATA-GAATGTCTA
1 ATAAATTATAA-AAA-TAAAATAAATACGAATGTCTA
* *
18863908 ATAATTTATAAACATAAAATAAATACGAATGT
1 ATAAATTATAAAAATAAAATAAATACGAATGT
18863940 TTAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 6 0.21
35 16 0.57
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (35 bp):
ATAAATTATAAAAATAAAATAAATACGAATGTCTA
Found at i:18863955 original size:35 final size:33
Alignment explanation
Indices: 18863889--18863955 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
18863879 TATAATAAAT
*
18863889 TAAAATAATAGAATGTCTAATAATTTATAAACA
1 TAAAATAATAGAATGTCTAATAATATATAAACA
*
18863922 TAAAATAAATACGAATGTTTAA-AATATATTAAAC
1 TAAAAT-AATA-GAATGTCTAATAATATA-TAAAC
18863956 TATTATTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 9 0.31
35 14 0.48
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (33 bp):
TAAAATAATAGAATGTCTAATAATATATAAACA
Found at i:18868910 original size:18 final size:19
Alignment explanation
Indices: 18868869--18868920 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
18868859 TATCTAAAAC
18868869 AATTTAAATTTAAGTAATT
1 AATTTAAATTTAAGTAATT
*
18868888 AATTTATATTT-AGTTAA-T
1 AATTTAAATTTAAG-TAATT
18868906 AATTTTAATATTTAA
1 AA-TTTAA-ATTTAA
18868921 ATTTAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.19
19 17 0.63
20 4 0.15
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
AATTTAAATTTAAGTAATT
Found at i:18870921 original size:29 final size:29
Alignment explanation
Indices: 18870865--18870921 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
18870855 TGACATTTCA
*
18870865 ATAAATTATATTTTTACATAAATTTTTTT
1 ATAAATTATATTTTTACATAAATCTTTTT
* *
18870894 ATAAA-TATATTTTTTATATAACTCTTTT
1 ATAAATTATA-TTTTTACATAAATCTTTT
18870922 AACCTAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (29 bp):
ATAAATTATATTTTTACATAAATCTTTTT
Found at i:18881286 original size:14 final size:14
Alignment explanation
Indices: 18881267--18881306 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18881257 TTGATTGGCA
18881267 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
18881281 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
18881295 GGAAAATGTTTT
1 GTAAAATGTTTT
18881307 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:18881319 original size:34 final size:35
Alignment explanation
Indices: 18881275--18881341 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18881265 CAGTAAAATG
* *
18881275 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
18881309 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
18881342 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:18881328 original size:20 final size:20
Alignment explanation
Indices: 18881290--18881329 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18881280 CGTAAAATGA
**
18881290 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
18881310 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
18881330 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:18886315 original size:13 final size:13
Alignment explanation
Indices: 18886297--18886322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18886287 CCAGAAACTG
18886297 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
18886310 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
18886323 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:18886443 original size:16 final size:16
Alignment explanation
Indices: 18886422--18886453 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18886412 ATCAAGAAAG
18886422 TAGAGGAGGAAAAACA
1 TAGAGGAGGAAAAACA
18886438 TAGAGGAGGAAAAACA
1 TAGAGGAGGAAAAACA
18886454 GCAGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.31, T:0.06
Consensus pattern (16 bp):
TAGAGGAGGAAAAACA
Found at i:18889391 original size:30 final size:30
Alignment explanation
Indices: 18889357--18889424 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
18889347 GAGACACGGA
* *
18889357 CATGTGTCTCAGCCATGTGTGACACATGAC
1 CATGTGTCTCAACCATGTATGACACATGAC
* *
18889387 CATGTGTCTCAACCGTGTATGACACATGTC
1 CATGTGTCTCAACCATGTATGACACATGAC
18889417 CATGTGTC
1 CATGTGTC
18889425 CCTTGTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (30 bp):
CATGTGTCTCAACCATGTATGACACATGAC
Found at i:18891392 original size:14 final size:15
Alignment explanation
Indices: 18891373--18891401 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18891363 TCATAGTAAC
18891373 ATTTTATA-AAAAAT
1 ATTTTATATAAAAAT
18891387 ATTTTATATAAAAAT
1 ATTTTATATAAAAAT
18891402 GCCCTCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTTATATAAAAAT
Found at i:18892002 original size:14 final size:14
Alignment explanation
Indices: 18891968--18891996 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18891958 TCTTGTAAGT
18891968 AAAC-AAGTTTTTC
1 AAACTAAGTTTTTC
18891981 AAACTAAGTTTTTC
1 AAACTAAGTTTTTC
18891995 AA
1 AA
18891997 GGTAAGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
AAACTAAGTTTTTC
Found at i:18896626 original size:21 final size:20
Alignment explanation
Indices: 18896586--18896627 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
18896576 ACAAAATTAC
*
18896586 TTTATATTTTAATTTAATTT
1 TTTATATTTTAATATAATTT
18896606 TTTATTATTTTAA-ATATATTT
1 TTTA-TATTTTAATATA-ATTT
18896627 T
1 T
18896628 AATAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATATTTTAATATAATTT
Found at i:18896797 original size:29 final size:29
Alignment explanation
Indices: 18896746--18896822 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
18896736 CTTTAATTTT
* *
18896746 TAATATAATTCAGTCTTTATATTTTTATAATG
1 TAAT-TAATT-AGT-TTAATATTTTTATAACG
*
18896778 CT-ATTAATTAGTTTAATATTTTTTTAACG
1 -TAATTAATTAGTTTAATATTTTTATAACG
18896807 TAATTAATTAGTTTAA
1 TAATTAATTAGTTTAA
18896823 ATAGTTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.03
29 28 0.70
30 3 0.08
31 5 0.12
32 2 0.05
33 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.53
Consensus pattern (29 bp):
TAATTAATTAGTTTAATATTTTTATAACG
Found at i:18898249 original size:3 final size:3
Alignment explanation
Indices: 18898241--18898271 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18898231 CAAACTTTTC
*
18898241 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18898272 CATATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18900437 original size:2 final size:2
Alignment explanation
Indices: 18900430--18900468 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18900420 TTCAGTACGC
18900430 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
18900469 ACGCGCACGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:18901938 original size:31 final size:31
Alignment explanation
Indices: 18901901--18901961 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
18901891 TGAAATTTTC
18901901 TCGAATCGAGTCGAGTGAGATGAAATTCGAA
1 TCGAATCGAGTCGAGTGAGATGAAATTCGAA
*
18901932 TCGAATCGAGTCGATTGAGATGAAATTCGA
1 TCGAATCGAGTCGAGTGAGATGAAATTCGA
18901962 TTCAATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (31 bp):
TCGAATCGAGTCGAGTGAGATGAAATTCGAA
Found at i:18902811 original size:29 final size:31
Alignment explanation
Indices: 18902768--18902827 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
18902758 GAGGTAGGAG
18902768 GGGAAGGGAGTAAAAGTTTTG-GAGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGAGAAAAGT
*
18902798 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGAGAAAAGT
18902828 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGAGAAAAGT
Found at i:18905428 original size:63 final size:63
Alignment explanation
Indices: 18905345--18905490 Score: 186
Period size: 63 Copynumber: 2.3 Consensus size: 63
18905335 ACCCCTGGAG
** * * * *
18905345 AATGTGTTGATGCAAAGAATGATTGTGCGTGTTGTGGA-GCTTGTGTAAAATAAACTGGTGTTA
1 AATGTGTTGATGCAGGGAATGATTGTGCGTGTTGT-GATGCTTATGTAAAATAAACTAGAGCTA
* * *
18905408 AATGTGCTGATGCAGGGAATGATTGTGTGTGTTGTGATGCTTATGTAAAATAAACTAGAGCTG
1 AATGTGTTGATGCAGGGAATGATTGTGCGTGTTGTGATGCTTATGTAAAATAAACTAGAGCTA
*
18905471 AAGGTGTTGATGCAGGGAAT
1 AATGTGTTGATGCAGGGAAT
18905491 TGTTGTGTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 2 0.03
63 69 0.97
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.33
Consensus pattern (63 bp):
AATGTGTTGATGCAGGGAATGATTGTGCGTGTTGTGATGCTTATGTAAAATAAACTAGAGCTA
Found at i:18907232 original size:59 final size:60
Alignment explanation
Indices: 18907052--18907234 Score: 194
Period size: 59 Copynumber: 3.0 Consensus size: 60
18907042 TAAATAATTT
* *
18907052 AATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
* * * * * ** * * *
18907112 AATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT-ATAA
1 AA-TCATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TTAATAA
18907173 AAT-ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
18907232 AAT
1 AAT
18907235 TCAATATAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
58 3 0.03
59 36 0.38
60 17 0.18
61 35 0.37
62 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (60 bp):
AATCATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA
Found at i:18907235 original size:10 final size:10
Alignment explanation
Indices: 18907173--18907245 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
18907163 AATACTATAA
18907173 AATATAATTT
1 AATATAATTT
*
18907183 AAAATAA-TT
1 AATATAATTT
*
18907192 -AT-T-ATTA
1 AATATAATTT
18907199 AATATAATTT
1 AATATAATTT
**
18907209 AATA-AAAAT
1 AATATAATTT
18907218 -ATATAATTT
1 AATATAATTT
* *
18907227 AATAAAATTC
1 AATATAATTT
18907237 AATATAATT
1 AATATAATT
18907246 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:18907284 original size:117 final size:118
Alignment explanation
Indices: 18907060--18907296 Score: 424
Period size: 120 Copynumber: 2.0 Consensus size: 118
18907050 TTAATCATAT
*
18907060 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TAATATT
18907125 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
18907180 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-AATA-TA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTA
*
18907243 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
18907296 T
1 T
18907297 GTATAATCTA
Statistics
Matches: 115, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
116 5 0.04
117 50 0.43
118 4 0.03
120 56 0.49
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (118 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
Found at i:18907286 original size:21 final size:20
Alignment explanation
Indices: 18907261--18907307 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
18907251 TATATGAATT
*
18907261 TACTAAAATCATAATATATAA
1 TACTAAAA-AATAATATATAA
*
18907282 TACTATAAAAATAATGTATAA
1 TACTA-AAAAATAATATATAA
18907303 T-CTAA
1 TACTAA
18907308 TTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 16 0.70
22 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TACTAAAAAATAATATATAA
Found at i:18907309 original size:64 final size:62
Alignment explanation
Indices: 18907117--18907296 Score: 200
Period size: 54 Copynumber: 3.0 Consensus size: 62
18907107 AATAAAATTC
*
18907117 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
1 TTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAAT
* * * *
18907181 TTAAAATAATTATTATTAAATAT-AATTTA--ATAA--A-AATATATAAT--T-TAATAA-AAT
1 TTAATATAATTATTCTT--ATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
*
18907235 TCAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
1 TTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
18907297 GTATAATCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
52 4 0.04
53 6 0.06
54 17 0.18
55 4 0.04
56 4 0.04
57 2 0.02
58 10 0.11
59 10 0.11
60 2 0.02
61 5 0.05
62 6 0.06
63 9 0.10
64 11 0.12
65 4 0.04
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (62 bp):
TTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
Found at i:18908757 original size:49 final size:49
Alignment explanation
Indices: 18908685--18908789 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
18908675 CTTAAGAAAA
* * *
18908685 AAAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
18908734 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
18908783 AAAATTA
1 AAAATTA
18908790 TAACACATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.31
Consensus pattern (49 bp):
AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
Found at i:18910945 original size:27 final size:28
Alignment explanation
Indices: 18910906--18910976 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
18910896 TCAATAATAA
*
18910906 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
18910935 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
18910965 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
18910977 CAAATTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:18912569 original size:24 final size:24
Alignment explanation
Indices: 18912542--18912593 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18912532 TTAGTAAGTC
*
18912542 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18912566 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18912590 AAAT
1 AAAT
18912594 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18914537 original size:24 final size:24
Alignment explanation
Indices: 18914510--18914561 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18914500 TTAGTAAGTC
*
18914510 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18914534 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18914558 AAAT
1 AAAT
18914562 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18921432 original size:29 final size:28
Alignment explanation
Indices: 18921400--18921486 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
18921390 TCATAAGAAC
18921400 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
18921429 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
18921453 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
18921483 ATTT
1 ATTT
18921487 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:18921662 original size:67 final size:66
Alignment explanation
Indices: 18921587--18921799 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
18921577 ATTATAATGT
*
18921587 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATAATTAAA-TATTTATTATTGATATTAATAATCTTATTA
18921651 AA
65 AA
* * ** * * * * * *
18921653 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATAATTA-AATATTTATTATTGATATTAATA-ATCTT
18921713 AATTAAAA
61 -ATT-AAA
* * *
18921721 TATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATAATT-AAATATTTATTATTGATATTAATAATCTTAT
18921786 TAAA
63 TAAA
18921790 ATTTAAATAA
1 ATTTAAATAA
18921800 CATTAACAAT
Statistics
Matches: 106, Mismatches: 25, Indels: 31
0.65 0.15 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 17 0.16
69 21 0.20
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATAATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:18921697 original size:137 final size:138
Alignment explanation
Indices: 18921543--18921808 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 138
18921533 TAAGAATATG
* *
18921543 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * * *
18921608 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
18921673 TTTCTGCT
131 TTTCTGCT
****
18921681 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
18921745 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
18921809 TAATCATTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 112 0.96
138 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:18921719 original size:18 final size:17
Alignment explanation
Indices: 18921691--18921725 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18921681 AATTATAAGA
*
18921691 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18921708 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18921726 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18921790 original size:70 final size:69
Alignment explanation
Indices: 18921577--18921791 Score: 170
Period size: 70 Copynumber: 3.1 Consensus size: 69
18921567 ATATACCAAA
* * * * *
18921577 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTA-TGATAATAATA
18921642 ATCTT
65 ATCTT
* ** * * ** * * * * * * *
18921647 ATTAAAATTTAAATAACAATAA-CAAATTT--CTGCTAATTATAAGAATT-TTATTA-AATTATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAAT-ATAATTAAAATATTTATTATGATAATAATA
*
18921707 TATTTT
65 -ATCTT
18921713 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTA-TGATAATAAT
18921778 AATCTT
64 AATCTT
18921784 ATTAAAAT
1 ATTAAAAT
18921792 TTAAATAACA
Statistics
Matches: 102, Mismatches: 34, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
65 5 0.05
66 6 0.06
67 22 0.22
68 13 0.13
69 15 0.15
70 29 0.28
71 6 0.06
72 6 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:18921841 original size:137 final size:138
Alignment explanation
Indices: 18921576--18921894 Score: 348
Period size: 137 Copynumber: 2.3 Consensus size: 138
18921566 TATATACCAA
* * * * * *
18921576 AATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* ** * *
18921641 AATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAATTATAAGAATTTTATTAAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAACCAAAACAATTTTATTAAATTAT
*
18921706 -A-TATTTT
130 AAGAATTTT
18921713 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* * *
18921778 AATCTTATTAAAATTTAAATAACATTAAC-AATAATCAT-TTACCAAAACAATTTTCTGCT-AAT
66 AATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCTAACCAAAACAATTTTAT--TAAAT
18921840 TATAAGAATTTT
127 TATAAGAATTTT
* *
18921852 -ATTAAATTATATATTTTAATTAA-AA-TATATTTAATTATAATTA
1 AATTAAA--ATATA-TTTAA-TAATAATTATGTTTAAATATAATTA
18921895 TGTTTAAATA
Statistics
Matches: 155, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
136 15 0.10
137 95 0.61
138 9 0.06
139 5 0.03
140 21 0.14
141 7 0.05
142 3 0.02
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (138 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAACCAAAACAATTTTATTAAATTATA
AGAATTTT
Found at i:18921844 original size:156 final size:156
Alignment explanation
Indices: 18921667--18921994 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
18921657 AAATAACAAT
*
18921667 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
18921732 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
18921797 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
18921823 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
18921888 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
18921953 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
18921979 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
18921995 GGGTATTCTA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:18921875 original size:18 final size:18
Alignment explanation
Indices: 18921847--18921895 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
18921837 AATTATAAGA
18921847 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
18921864 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
18921880 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
18921896 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:18921881 original size:16 final size:16
Alignment explanation
Indices: 18921847--18921901 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
18921837 AATTATAAGA
18921847 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
18921864 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
18921880 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
18921894 ATGTTTAA
1 AT-TTTAA
18921902 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:18922111 original size:44 final size:45
Alignment explanation
Indices: 18922047--18922131 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
18922037 CCTCTATTCC
* *
18922047 ATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTAT
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
***
18922091 ATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
18922132 ATACACCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
Found at i:18922138 original size:16 final size:16
Alignment explanation
Indices: 18922117--18922185 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
18922107 GATTAGCTAT
18922117 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18922133 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18922150 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
18922166 TATATCTCTAATCCAA
1 TACACCTCTAATCCAA
18922182 TACA
1 TACA
18922186 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18922159 original size:33 final size:32
Alignment explanation
Indices: 18922117--18922185 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
18922107 GATTAGCTAT
18922117 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
18922150 TACACCTCTAATCCAATATATCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
18922182 TACA
1 TACA
18922186 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:18925297 original size:17 final size:17
Alignment explanation
Indices: 18925277--18925322 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
18925267 AAAATAAAAT
*
18925277 AATTTTAAAAATTTTAA
1 AATTTAAAAAATTTTAA
*
18925294 AATTTAAAAAACTTTAA
1 AATTTAAAAAATTTTAA
* *
18925311 AACTTCAAAAAT
1 AATTTAAAAAAT
18925323 AACTTAATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTTAAAAAATTTTAA
Found at i:18926047 original size:22 final size:22
Alignment explanation
Indices: 18926022--18926071 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
18926012 TTAAAATATT
* *
18926022 TTAATTTTTAAAAATTTAATAA
1 TTAAATTTAAAAAATTTAATAA
*
18926044 TTAAATTTAAAAAATTTAATAG
1 TTAAATTTAAAAAATTTAATAA
18926066 TTAAAT
1 TTAAAT
18926072 GACTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAATTTAAAAAATTTAATAA
Found at i:18926890 original size:17 final size:17
Alignment explanation
Indices: 18926863--18926900 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
18926853 TATACATTTC
18926863 TTTTGATTTTACTTTAAA
1 TTTTGATTTTA-TTTAAA
*
18926881 TTTT-ATTTTATTTCAA
1 TTTTGATTTTATTTAAA
18926897 TTTT
1 TTTT
18926901 TAATATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTGATTTTATTTAAA
Found at i:18933812 original size:26 final size:25
Alignment explanation
Indices: 18933783--18933832 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18933773 TTAGTAGTTT
*
18933783 TTTAAATCTTATTAAACTCCTAAAAA
1 TTTAAATCTTA-TAAACCCCTAAAAA
* *
18933809 TTTACATTTTATAAACCCCTAAAA
1 TTTAAATCTTATAAACCCCTAAAA
18933833 GTACACCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTAAATCTTATAAACCCCTAAAAA
Found at i:18945969 original size:19 final size:19
Alignment explanation
Indices: 18945928--18945970 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18945918 ATAAACTTAT
*
18945928 TAAAAGTATTAAAAAGTTT
1 TAAAAGTATTAAAAAGTTA
*
18945947 TAAAAGTTTTAAAAA-TATA
1 TAAAAGTATTAAAAAGT-TA
18945966 TAAAA
1 TAAAA
18945971 AAAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAAAGTATTAAAAAGTTA
Found at i:18946257 original size:8 final size:8
Alignment explanation
Indices: 18946246--18946349 Score: 55
Period size: 8 Copynumber: 12.0 Consensus size: 8
18946236 TTTTTTTAAA
18946246 AAAATTAT
1 AAAATTAT
18946254 AAAATTAT
1 AAAATTAT
*
18946262 AAAATTTTAG
1 AAAA--TTAT
*
18946272 AAAATTGT
1 AAAATTAT
* *
18946280 AAAAATAG
1 AAAATTAT
*
18946288 AAAGTTAT
1 AAAATTAT
*
18946296 AAAAAATTAC
1 --AAAATTAT
*
18946306 ATAAGTTATT
1 A-AAATTA-T
*
18946316 AAAATTGTT
1 AAAATT-AT
18946325 AAATATTAT
1 AAA-ATTAT
*
18946334 AAAATTTT
1 AAAATTAT
18946342 AAAATTAT
1 AAAATTAT
18946350 TGGCCCTTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
8 36 0.51
9 17 0.24
10 17 0.24
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:18946275 original size:18 final size:18
Alignment explanation
Indices: 18946254--18946342 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
18946244 AAAAAATTAT
18946254 AAAATTATAAAATTTTAG
1 AAAATTATAAAATTTTAG
* *
18946272 AAAATTGTAAAA--ATAG
1 AAAATTATAAAATTTTAG
* ** *
18946288 AAAGTTATAAAAAATTAC
1 AAAATTATAAAATTTTAG
*
18946306 ATAAGTTATTAAAATTGTTA-
1 A-AAATTA-TAAAATT-TTAG
*
18946326 AATATTATAAAATTTTA
1 AAAATTATAAAATTTTA
18946343 AAATTATTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 13 0.23
17 3 0.05
18 21 0.38
19 10 0.18
20 6 0.11
21 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (18 bp):
AAAATTATAAAATTTTAG
Found at i:18946301 original size:26 final size:26
Alignment explanation
Indices: 18946244--18946304 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18946234 AATTTTTTTA
* * *
18946244 AAAAAATTATAAAATTATAAAATTTT
1 AAAAAATTATAAAAATAGAAAATTAT
* * *
18946270 AGAAAATTGTAAAAATAGAAAGTTAT
1 AAAAAATTATAAAAATAGAAAATTAT
18946296 AAAAAATTA
1 AAAAAATTA
18946305 CATAAGTTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAAATTATAAAAATAGAAAATTAT
Found at i:18950105 original size:14 final size:14
Alignment explanation
Indices: 18950086--18950112 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18950076 AATTGGTTTA
18950086 AAATCAAACTTAAT
1 AAATCAAACTTAAT
18950100 AAATCAAACTTAA
1 AAATCAAACTTAA
18950113 ATTTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATCAAACTTAAT
Found at i:18951240 original size:27 final size:29
Alignment explanation
Indices: 18951183--18951240 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
18951173 AACTTTTAAC
*
18951183 TTTTAAAAATAAAAAATATATGTATTGTA
1 TTTTAAAAATAAAAAATATATGTATTATA
*
18951212 TTTTAAAAATAAAGAATATA-GT-TTATA
1 TTTTAAAAATAAAAAATATATGTATTATA
18951239 TT
1 TT
18951241 CGGTTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 2 0.07
29 19 0.70
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTTAAAAATAAAAAATATATGTATTATA
Found at i:18955114 original size:47 final size:47
Alignment explanation
Indices: 18955045--18955138 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
18955035 TAGACGAGGG
18955045 ACGTTCGATTTCACCGATCACCGTTGATCATTTTAGAACATAAATAC
1 ACGTTCGATTTCACCGATCACCGTTGATCATTTTAGAACATAAATAC
18955092 ACGTTCGATTTCACCGATCACCGTTGATCATTTTAGAACATAAATAC
1 ACGTTCGATTTCACCGATCACCGTTGATCATTTTAGAACATAAATAC
18955139 TATCAATCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (47 bp):
ACGTTCGATTTCACCGATCACCGTTGATCATTTTAGAACATAAATAC
Found at i:18957850 original size:28 final size:28
Alignment explanation
Indices: 18957819--18957875 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
18957809 TAAAAAATTT
18957819 TAAAACAAATATTAAAACAAAAAACAAA
1 TAAAACAAATATTAAAACAAAAAACAAA
* * * *
18957847 TAAAACAATTCTTAAAACAATACACAAA
1 TAAAACAAATATTAAAACAAAAAACAAA
18957875 T
1 T
18957876 TGAAAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (28 bp):
TAAAACAAATATTAAAACAAAAAACAAA
Found at i:18957991 original size:21 final size:21
Alignment explanation
Indices: 18957948--18957988 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18957938 AATTAATAAT
*
18957948 AAAATAAAAATATATTTGATTA
1 AAAATAAAAATATATAT-ATTA
18957970 AAAAT-AAAATATATATATT
1 AAAATAAAAATATATATATT
18957989 TAATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATAAAAATATATATATTA
Found at i:18963546 original size:37 final size:37
Alignment explanation
Indices: 18963496--18963569 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
18963486 TTGGAACATC
*
18963496 ACTGTAAGTTCCGTTTAACTATTGTTATTACTATCAT
1 ACTGTAAGTTCCGTTTAACTACTGTTATTACTATCAT
18963533 ACTGTAAGTTCCGTTTAACTACTGTTATTACTATCAT
1 ACTGTAAGTTCCGTTTAACTACTGTTATTACTATCAT
18963570 TATTAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (37 bp):
ACTGTAAGTTCCGTTTAACTACTGTTATTACTATCAT
Found at i:18963557 original size:20 final size:20
Alignment explanation
Indices: 18963496--18963557 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
18963486 TTGGAACATC
18963496 ACTGTAAGTTCCGTTTAACT
1 ACTGTAAGTTCCGTTTAACT
* * * * *
18963516 ATTGTTA-TTAC-TATCA-T
1 ACTGTAAGTTCCGTTTAACT
18963533 ACTGTAAGTTCCGTTTAACT
1 ACTGTAAGTTCCGTTTAACT
18963553 ACTGT
1 ACTGT
18963558 TATTACTATC
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 6 0.21
20 11 0.38
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (20 bp):
ACTGTAAGTTCCGTTTAACT
Found at i:18967837 original size:18 final size:18
Alignment explanation
Indices: 18967814--18967858 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
18967804 CGCAAAGAAG
18967814 GTAAGCAATC-CTTCTTAT
1 GTAAGCAA-CGCTTCTTAT
18967832 GTAAGCAACGCTTCTTAT
1 GTAAGCAACGCTTCTTAT
18967850 GTAAGCAAC
1 GTAAGCAAC
18967859 AAACCTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (18 bp):
GTAAGCAACGCTTCTTAT
Found at i:18970902 original size:5 final size:6
Alignment explanation
Indices: 18970887--18970911 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18970877 AAAAAAATTA
18970887 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
18970912 TTTTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18970939 original size:7 final size:7
Alignment explanation
Indices: 18970927--18970959 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18970917 AAAGTATTTT
18970927 AAAATTA
1 AAAATTA
18970934 AAAATTA
1 AAAATTA
18970941 AAAATTA
1 AAAATTA
18970948 AAAATTA
1 AAAATTA
18970955 AAAAT
1 AAAAT
18970960 ATATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:18974769 original size:15 final size:15
Alignment explanation
Indices: 18974749--18974806 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
18974739 TACAATGGCA
18974749 TCAATT-ATGCAATAC
1 TCAATTCATG-AATAC
18974764 TCAATTCATGAATAC
1 TCAATTCATGAATAC
18974779 ATC-ATTCCAT-ACCATAC
1 -TCAATT-CATGA--ATAC
18974796 TCAATTCATGA
1 TCAATTCATGA
18974807 GTATATAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
15 15 0.42
16 13 0.36
17 8 0.22
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (15 bp):
TCAATTCATGAATAC
Found at i:18975126 original size:41 final size:39
Alignment explanation
Indices: 18975017--18975129 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 39
18975007 ATTAGATATT
* *
18975017 TCGAAGTAAGAATTTGATACCCAGTGTCTCATCGACTAAA
1 TCGAAGTAA-AATTTGACACCCAGTGTCTCATCGAATAAA
* * *
18975057 TCGAAGT-AAA-TTGGCACCCAAT-TCCTCATCGAATATA
1 TCGAAGTAAAATTTGACACCCAGTGT-CTCATCGAATAAA
18975094 TCCGAAGTAATAATTTGACACCCAGTGTCTCATCGA
1 T-CGAAGTAA-AATTTGACACCCAGTGTCTCATCGA
18975130 CTCGAAGTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
36 1 0.02
37 21 0.35
38 8 0.13
39 2 0.03
40 9 0.15
41 18 0.30
42 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (39 bp):
TCGAAGTAAAATTTGACACCCAGTGTCTCATCGAATAAA
Found at i:18976001 original size:10 final size:10
Alignment explanation
Indices: 18975986--18976061 Score: 59
Period size: 10 Copynumber: 7.8 Consensus size: 10
18975976 AAACCCTAAC
18975986 CTTTCTTTCT
1 CTTTCTTTCT
18975996 CTTTCTTTC-
1 CTTTCTTTCT
18976005 CTTTCCTTTCT
1 CTTT-CTTTCT
*
18976016 GTTTCTTTCT
1 CTTTCTTTCT
* *
18976026 TTTTCGTT-T
1 CTTTCTTTCT
*
18976035 -GTTCTTTCT
1 CTTTCTTTCT
* *
18976044 ATTTCTTTTT
1 CTTTCTTTCT
*
18976054 ATTTCTTT
1 CTTTCTTT
18976062 ATTTGTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
8 5 0.09
9 6 0.11
10 41 0.75
11 3 0.05
ACGTcount: A:0.03, C:0.22, G:0.04, T:0.71
Consensus pattern (10 bp):
CTTTCTTTCT
Found at i:18976041 original size:18 final size:16
Alignment explanation
Indices: 18975987--18976061 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 16
18975977 AACCCTAACC
*
18975987 TTTCTTTCTCTTTC-T
1 TTTCTTTCTTTTTCTT
* * *
18976002 TTCCTTTC-CTTTCTG
1 TTTCTTTCTTTTTCTT
18976017 TTTCTTTCTTTTTCGTT
1 TTTCTTTCTTTTTC-TT
*
18976034 TGTTCTTTCTATTTCTT
1 T-TTCTTTCTTTTTCTT
*
18976051 TTTATTTCTTT
1 TTTCTTTCTTT
18976062 ATTTGTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 5 0.10
15 14 0.29
16 12 0.25
17 5 0.10
18 12 0.25
ACGTcount: A:0.03, C:0.21, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTCTTTCTTTTTCTT
Found at i:18976095 original size:9 final size:9
Alignment explanation
Indices: 18976076--18976143 Score: 53
Period size: 9 Copynumber: 8.3 Consensus size: 9
18976066 GTTTTTTATT
18976076 ATATAATATA
1 ATAT-ATATA
18976086 ATATATATA
1 ATATATATA
18976095 ATATATAT-
1 ATATATATA
*
18976103 AT-TA-ATC
1 ATATATATA
*
18976110 AT-TA-AGA
1 ATATATATA
18976117 ATATATAT-
1 ATATATATA
18976125 AT-TA-ATA
1 ATATATATA
18976132 ATATATATA
1 ATATATATA
18976141 ATA
1 ATA
18976144 AACTTATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
6 4 0.08
7 13 0.27
8 8 0.16
9 20 0.41
10 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
ATATATATA
Found at i:18976995 original size:41 final size:43
Alignment explanation
Indices: 18976916--18977097 Score: 203
Period size: 42 Copynumber: 4.3 Consensus size: 43
18976906 AACTAGAAAA
*
18976916 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGCTTTT-CAAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAAC
* * *
18976958 AAACGCCGTTAAAGACCAAGA-CTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAAC
* * * * *
18977000 AAACGCCACAAAAGACCAAGACCTTTAGCTGTG-TTTTGCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CCAAC
* * *
18977043 AAACGCCGCTAAAGAACAA-ACCTTTTGCGGCGCTTCTCGCAA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CAAC
18977085 AAACGCCGCTAAA
1 AAACGCCGCTAAA
18977098 AACATGATCT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
41 15 0.13
42 68 0.58
43 34 0.29
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAAC
Found at i:18977089 original size:85 final size:84
Alignment explanation
Indices: 18976914--18977091 Score: 198
Period size: 85 Copynumber: 2.1 Consensus size: 84
18976904 CTAACTAGAA
* * * * *
18976914 AAAAACGCCGCTAAAGATCAAGACCTTTAGCGGCGCTTTTCAACAAACGCCGTTAAAGACCAAGA
1 AAAAACGCCACAAAAGACCAAGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTAAAGAACAAGA
* *
18976979 CTTTAGTGGCGCTTTTCCC
66 CTTTAGCGGCGCTTCTCCC
* * * *
18976998 ACAAACGCCACAAAAGACCAAGACCTTTAGCTGTG-TTTTGCCCACAAACGCCGCTAAAGAACAA
1 AAAAACGCCACAAAAGACCAAGACCTTTAGCGGCGCTTTT--CAACAAACGCCGCTAAAGAACAA
* *
18977062 -ACCTTTTGCGGCGCTTCTCGC
64 GA-CTTTAGCGGCGCTTCTCCC
18977083 AAAAACGCC
1 AAAAACGCC
18977092 GCTAAAAACA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
83 4 0.05
84 30 0.39
85 43 0.56
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (84 bp):
AAAAACGCCACAAAAGACCAAGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTAAAGAACAAGA
CTTTAGCGGCGCTTCTCCC
Found at i:18982757 original size:90 final size:88
Alignment explanation
Indices: 18982646--18982814 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
18982636 AATCCCTAAC
* *
18982646 CCCTAACCCCTAACTATTAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAAT
1 CCCTAACCCCTAACTACTAACCCCTAAACCTTATTT-A-ATATAAATTAAAAAATACTAATTAAC
*
18982711 CTAAACCTTAAACCCTATCTCGAAT
64 CTAAACCCTAAACCCTATCTCGAAT
* *
18982736 CCCTAACCCCTAACCT-CTAACCCCTAAACCTTATTTAATATAGATTAAAACATACTAATTAACC
1 CCCTAACCCCTAA-CTACTAACCCCTAAACCTTATTTAATATAAATTAAAAAATACTAATTAACC
*
18982800 TAAACCCTAAGCCCT
65 TAAACCCTAAACCCT
18982815 GACTTGACAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 37 0.51
89 1 0.01
90 32 0.44
91 2 0.03
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (88 bp):
CCCTAACCCCTAACTACTAACCCCTAAACCTTATTTAATATAAATTAAAAAATACTAATTAACCT
AAACCCTAAACCCTATCTCGAAT
Found at i:18982921 original size:14 final size:15
Alignment explanation
Indices: 18982902--18982934 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
18982892 TATAAACCAG
18982902 AATCCCTAAT-CCAT
1 AATCCCTAATCCCAT
18982916 AATCCCTAATCCCAT
1 AATCCCTAATCCCAT
18982931 AATC
1 AATC
18982935 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (15 bp):
AATCCCTAATCCCAT
Found at i:18983005 original size:14 final size:14
Alignment explanation
Indices: 18982983--18983019 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18982973 ATCTTAAATT
*
18982983 AACCCTATACCCTA
1 AACCATATACCCTA
*
18982997 AACCATATACCTTA
1 AACCATATACCCTA
18983011 AACCATATA
1 AACCATATA
18983020 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:18983025 original size:14 final size:14
Alignment explanation
Indices: 18982995--18983028 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18982985 CCCTATACCC
*
18982995 TAAACCATATACCT
1 TAAACCATATACAT
*
18983009 TAAACCATATATAT
1 TAAACCATATACAT
18983023 TAAACC
1 TAAACC
18983029 CTAAACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCATATACAT
Found at i:18983194 original size:30 final size:30
Alignment explanation
Indices: 18983159--18983249 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
18983149 TTTAAAATTA
18983159 TTTTAAATAATAGTATTTTAATTTTTCTAT
1 TTTTAAATAATAGTATTTTAATTTTTCTAT
* *
18983189 TTTTAACA-AATA-T-TTTTCTATGTTTTTTA-
1 TTTTAA-ATAATAGTATTTT-AAT-TTTTCTAT
*
18983218 TTTTAGATAATAGTATTTTAATTTTTCTAT
1 TTTTAAATAATAGTATTTTAATTTTTCTAT
18983248 TT
1 TT
18983250 ATCCAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
28 5 0.10
29 18 0.37
30 21 0.43
31 5 0.10
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (30 bp):
TTTTAAATAATAGTATTTTAATTTTTCTAT
Found at i:18983243 original size:29 final size:28
Alignment explanation
Indices: 18983157--18983249 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
18983147 ATTTTAAAAT
18983157 TATTTTAAATAATAGTATTTTAATTTTTC
1 TATTTT-AATAATAGTATTTTAATTTTTC
* * *
18983186 TATTTTTAACAA-A-TATTTTTCTATGTTTTT
1 TA-TTTTAATAATAGTA-TTTT-AAT-TTTTC
18983216 TATTTTAGATAATAGTATTTTAATTTTTC
1 TATTTTA-ATAATAGTATTTTAATTTTTC
18983245 TATTT
1 TATTT
18983250 ATCCAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 22 0.43
30 15 0.29
31 5 0.10
32 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (28 bp):
TATTTTAATAATAGTATTTTAATTTTTC
Found at i:18983413 original size:41 final size:41
Alignment explanation
Indices: 18983345--18983494 Score: 189
Period size: 41 Copynumber: 3.7 Consensus size: 41
18983335 AAATGTTTTT
* *
18983345 GCGGCGCTTTTTCAAAATA--CCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTGAAAA-ACGCCGCTAAAGCCCTGAGCATTA
* * *
18983385 GCGGCGCTTATTGGAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGCCCTGAGCATTA
*
18983426 GCGGCG-TTTTTGAAAAATCACCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTGAAAAA-CGCCGCTAAAGCCCTGAGCATTA
* *
18983467 GCGGCGCTTTTTCAAAAACGCCACTAAA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAA
18983495 TCCCCAAAAG
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 23 0.24
41 60 0.64
42 10 0.11
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTGAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:18983485 original size:82 final size:81
Alignment explanation
Indices: 18983345--18983499 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 81
18983335 AAATGTTTTT
* * ** *
18983345 GCGGCGCTTTTTCAAAATACCGCTAAAGCTCTGAGCATTAGCGGCGCTTATTGGAAAACGCCGCT
1 GCGGCGCTTTTTAAAAATACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTCAAAAACGCCACT
18983410 AAAGCCCCGAGCATTA
66 AAAGCCCCGAGCATTA
*
18983426 GCGGCG-TTTTTGAAAAATCACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCA
1 GCGGCGCTTTTT-AAAAAT-ACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTCAAAAACGCCA
*
18983490 CTAAATCCCC
64 CTAAAGCCCC
18983500 AAAAGGTTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
80 5 0.08
81 11 0.17
82 49 0.75
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (81 bp):
GCGGCGCTTTTTAAAAATACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTCAAAAACGCCACT
AAAGCCCCGAGCATTA
Found at i:18983618 original size:40 final size:40
Alignment explanation
Indices: 18983552--18983666 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
18983542 TGTTTTTCTA
* * * * *
18983552 AAAAACGCCGCTAATTC-TCATTTTTAGTGGCGCTTTCCT-
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCG-TTTCATG
* *
18983591 AAAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTATG
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTCATG
** * *
18983631 AAAAGCGCAACTAATGCTCGATTTTTAGCGACGTTT
1 AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTT
18983667 TTTTGTCCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
39 19 0.31
40 43 0.69
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTCATG
Found at i:18983667 original size:40 final size:40
Alignment explanation
Indices: 18983591--18983667 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
18983581 GCGCTTTCCT
** * *
18983591 AAAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTATG
1 AAAAGCGCAACTAATGCTCGATCTTTAGCGACGTTTTATG
*
18983631 AAAAGCGCAACTAATGCTCGATTTTTAGCGACGTTTT
1 AAAAGCGCAACTAATGCTCGATCTTTAGCGACGTTTT
18983668 TTTGTCCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (40 bp):
AAAAGCGCAACTAATGCTCGATCTTTAGCGACGTTTTATG
Found at i:18992037 original size:4 final size:4
Alignment explanation
Indices: 18992028--18992064 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
18992018 ACATCAAGTA
18992028 AAAT AAAT -AA- AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
18992065 ACTATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 4 0.13
4 27 0.87
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:18992044 original size:26 final size:24
Alignment explanation
Indices: 18992013--18992095 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
18992003 TAAATATACC
18992013 AATAAACATCAAGTAAAATAAATAAA
1 AATAAACAT-AA-TAAAATAAATAAA
*
18992039 AATAAATA-AAT-AAATAAATAAA
1 AATAAACATAATAAAATAAATAAA
*
18992061 TA-AAACTATATATAAAA-AAATAAA
1 AATAAAC-ATA-ATAAAATAAATAAA
*
18992085 AATAAAAATAA
1 AATAAACATAA
18992096 AAATGTGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
21 3 0.06
22 13 0.28
23 3 0.06
24 15 0.32
25 6 0.13
26 7 0.15
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (24 bp):
AATAAACATAATAAAATAAATAAA
Found at i:18992075 original size:16 final size:14
Alignment explanation
Indices: 18992029--18992082 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
18992019 CATCAAGTAA
18992029 AATAAATAAAA-AT
1 AATAAATAAAATAT
18992042 AAATAAAT-AAATA-
1 -AATAAATAAAATAT
18992055 AATAAATAAAACTAT
1 AATAAATAAAA-TAT
18992070 ATATAAA-AAAATA
1 A-ATAAATAAAATA
18992083 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 7 0.20
13 6 0.17
14 12 0.34
15 5 0.14
16 5 0.14
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:18992091 original size:12 final size:12
Alignment explanation
Indices: 18992032--18992099 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 12
18992022 CAAGTAAAAT
18992032 AAATAAAAATAAA
1 AAATAAAAAT-AA
*
18992045 TAAATAAATAA-AT
1 -AAATAAA-AATAA
18992058 AAATAAAACTATATA
1 AAATAAAA--ATA-A
*
18992073 TAA-AAAAATAA
1 AAATAAAAATAA
18992084 AAATAAAAATAA
1 AAATAAAAATAA
18992096 AAAT
1 AAAT
18992100 GTGTGTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
11 4 0.09
12 22 0.50
13 2 0.05
14 12 0.27
15 4 0.09
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:18992165 original size:24 final size:25
Alignment explanation
Indices: 18992138--18992191 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
18992128 AAATATAACA
18992138 AAAATATATGT-ATATATGA-ATTAT
1 AAAATATATGTAATATAT-ATATTAT
18992162 AAAATATATGTACATATATATATTAT
1 AAAATATATGTA-ATATATATATTAT
18992188 AAAA
1 AAAA
18992192 ATGTATAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 11 0.41
25 1 0.04
26 15 0.56
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
AAAATATATGTAATATATATATTAT
Found at i:18992388 original size:23 final size:25
Alignment explanation
Indices: 18992361--18992408 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
18992351 TAAGATGATT
*
18992361 TATGAAGAAA-TTAA-ATATTAATA
1 TATGAAGAAACTTAATATAATAATA
18992384 TATGAAGAAACTTAATATAATAATA
1 TATGAAGAAACTTAATATAATAATA
18992409 CATAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
TATGAAGAAACTTAATATAATAATA
Found at i:19009116 original size:21 final size:22
Alignment explanation
Indices: 19009092--19009134 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
19009082 ATCATCAATC
19009092 AAATAATACAAT-AT-AATTTAA
1 AAATAATA-AATAATAAATTTAA
*
19009113 AAATTATAAATAATAAATTTAA
1 AAATAATAAATAATAAATTTAA
19009135 TTCACTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATAAATAATAAATTTAA
Found at i:19013670 original size:70 final size:69
Alignment explanation
Indices: 19013579--19014215 Score: 873
Period size: 70 Copynumber: 9.1 Consensus size: 69
19013569 TTTTCACACC
* * * * *
19013579 AAAAATTGGACAACATATATACAACAATTTGGGCAGCACATATACATCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTG-GCAGCATTTT
19013644 AGCAT
65 AGCAT
* * * * *
19013649 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATACCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTG-GCAGCA-TTT
19013714 TA-CAT
64 TAGCAT
* ** * *
19013719 CAAAATTGGACAGCATATATAAAACAATTTGGGCAGCATAAATATAACAAATTGGGCAGCATTTA
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATT-GGCAGCATTTT
19013784 AGCAT
65 AGCAT
* *
19013789 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATATAACAAATTGGGCAGCATTTA
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATT-GGCAGCATTTT
19013854 AGCAT
65 AGCAT
* *
19013859 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAACATTTA
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATT-GGCAGCATTTT
19013924 AGCAT
65 AGCAT
*
19013929 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACGAATTGGACAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTT
19013994 AGCAT
65 AGCAT
* *
19013999 AAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTT
19014064 AGCAT
65 AGCAT
* * * * *
19014069 AAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTG-GCAGCA-TTT
19014134 TA-CAT
64 TAGCAT
* * * * *
19014139 CAAAACTGGGCAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTA
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGG-CAGCATTTT
19014204 AGCAT
65 AGCAT
19014209 AAAAATT
1 AAAAATT
19014216 ACATGAACAT
Statistics
Matches: 520, Mismatches: 39, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
69 11 0.02
70 497 0.96
71 12 0.02
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (69 bp):
AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGCAGCATTTTA
GCAT
Found at i:19013724 original size:24 final size:22
Alignment explanation
Indices: 19013581--19014200 Score: 226
Period size: 23 Copynumber: 26.6 Consensus size: 22
19013571 TTCACACCAA
* *
19013581 AAATTGGACAACATATATACAAC
1 AAATTGG-CAGCATATATACATC
* *
19013604 AATTTGGGCAGCACATATACATC
1 AAATT-GGCAGCATATATACATC
* *
19013627 AAATTGAGCAGCAT-TTTAGCATAA
1 AAATTG-GCAGCATATATA-CAT-C
*
19013651 AAATTGGACAGCATATATACAAC
1 AAATTGG-CAGCATATATACATC
* * * *
19013674 AATTTGGGCAGCCTATATATACC
1 AAATT-GGCAGCATATATACATC
* *
19013697 AAATTGAGCAGCATTTTTACATC
1 AAATTG-GCAGCATATATACATC
* *
19013720 AAAATTGGACAGCATATATAAAAC
1 -AAATTGG-CAGCATATATACATC
* * * *
19013744 AATTTGGGCAGCATAAATATAAC
1 AAATT-GGCAGCATATATACATC
* *
19013767 AAATTGGGCAGCATTTA-AGCATAA
1 AAATT-GGCAGCATATATA-CAT-C
* *
19013791 AAATTGGACAGCATATATGCAAC
1 AAATTGG-CAGCATATATACATC
* * * *
19013814 AATTTGGGCAGCATAAATATAAC
1 AAATT-GGCAGCATATATACATC
* *
19013837 AAATTGGGCAGCATTTA-AGCATAA
1 AAATT-GGCAGCATATATA-CAT-C
* *
19013861 AAATTGGACAGCATATATGCAAC
1 AAATTGG-CAGCATATATACATC
* * *
19013884 AATTTGGGCAGCATAAATACAAC
1 AAATT-GGCAGCATATATACATC
* * *
19013907 AAATTGGGCAACATTTA-AGCATAA
1 AAATT-GGCAGCATATATA-CAT-C
* *
19013931 AAATTGGACAGCATATATGCAAC
1 AAATTGG-CAGCATATATACATC
* * *
19013954 AATTTGGGCAGCATAAATACAAC
1 AAATT-GGCAGCATATATACATC
* * *
19013977 GAATTGGACAGCAT-TTTAGCATAA
1 AAATTGG-CAGCATATATA-CAT-C
* * *
19014001 AAATTTGACAGCATATATGCACC
1 AAA-TTGGCAGCATATATACATC
* * *
19014024 AATTTGGGCAGCATAAATACAAC
1 AAATT-GGCAGCATATATACATC
* *
19014047 AAATTGGACAGCAT-TTTAGCATAA
1 AAATTGG-CAGCATATATA-CAT-C
* * * *
19014071 AAATTTGACAGCATATGTGCAAC
1 AAA-TTGGCAGCATATATACATC
* * *
19014094 AATTTGGGCAGCATATATATACC
1 AAATT-GGCAGCATATATACATC
* *
19014117 AAATTGAGCAGCATTTTTACATC
1 AAATTG-GCAGCATATATACATC
* *
19014140 AAAACTGGGCAGCATATATACAAC
1 -AAA-TTGGCAGCATATATACATC
* * *
19014164 AATTTGGGCAGCATAAATACAAC
1 AAATT-GGCAGCATATATACATC
19014187 AAATTGGACAGCAT
1 AAATTGG-CAGCAT
19014201 TTAAGCATAA
Statistics
Matches: 439, Mismatches: 115, Indels: 86
0.69 0.18 0.13
Matches are distributed among these distances:
22 24 0.05
23 276 0.63
24 124 0.28
25 15 0.03
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (22 bp):
AAATTGGCAGCATATATACATC
Found at i:19013876 original size:210 final size:210
Alignment explanation
Indices: 19013579--19014215 Score: 988
Period size: 210 Copynumber: 3.0 Consensus size: 210
19013569 TTTTCACACC
* * * * * *
19013579 AAAAATTGGACAACATATATACAACAATTTGGGCAGCACATATACATCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAGCATTTT
* *
19013644 AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATACCAAATTGAGCAGC
66 AGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
* *
19013709 ATTTTTACATCAAAATTGGACAGCATATATAAAACAATTTGGGCAGCATAAATATAACAAATTGG
131 ATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG
*
19013774 GCAGCATTTAAGCAT
196 ACAGCATTTAAGCAT
* *
19013789 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATATAACAAATTGGGCAGCATTTA
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAGCATTTT
* * * * *
19013854 AGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAAC
66 AGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
* * * *
19013919 A-TTTAAGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACGAATTG
131 ATTTTTA-CATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTG
*
19013983 GACAGCATTTTAGCAT
195 GACAGCATTTAAGCAT
* * *
19013999 AAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
1 AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAGCATTTT
* *
19014064 AGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
66 AGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
* *
19014129 ATTTTTACATCAAAACTGGGCAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG
131 ATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG
19014194 ACAGCATTTAAGCAT
196 ACAGCATTTAAGCAT
19014209 AAAAATT
1 AAAAATT
19014216 ACATGAACAT
Statistics
Matches: 383, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
209 4 0.01
210 375 0.98
211 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (210 bp):
AAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGGCAGCATTTT
AGCATAAAAATTGGACAGCATATATGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
ATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGG
ACAGCATTTAAGCAT
Found at i:19014959 original size:28 final size:28
Alignment explanation
Indices: 19014927--19015052 Score: 171
Period size: 28 Copynumber: 4.5 Consensus size: 28
19014917 TTTAATAAGT
** * *
19014927 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
19014955 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
19014983 TCTCACACTTAGCGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
19015011 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
19015039 TCGCACACTTAGTG
1 TCGCACACTTAGTG
19015053 TCGAAAGTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:19016066 original size:23 final size:23
Alignment explanation
Indices: 19016040--19016228 Score: 130
Period size: 23 Copynumber: 8.1 Consensus size: 23
19016030 CATATTTACT
* *
19016040 CATATATGCACCAATTTGGGCAG
1 CATATATACAACAATTTGGGCAG
* * *
19016063 CATAAATACAACAAATTGGACAG
1 CATATATACAACAATTTGGGCAG
* * *
19016086 CAT-TTTAGCATAAAAATTT-GACAG
1 CATATATA-C--AACAATTTGGGCAG
* *
19016110 CATATGTGCAACAATTTGGGCAG
1 CATATATACAACAATTTGGGCAG
* * * *
19016133 CATATATATACCAAATTGAGCAG
1 CATATATACAACAATTTGGGCAG
* * * **
19016156 CATTTTTACATCAAAACTGGGCAG
1 CATATATACAAC-AATTTGGGCAG
19016180 CATATATACAACAATTTGGGCAG
1 CATATATACAACAATTTGGGCAG
* * *
19016203 CATAAATACAACAAATTGGACAG
1 CATATATACAACAATTTGGGCAG
19016226 CAT
1 CAT
19016229 TTAAGCATAA
Statistics
Matches: 127, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
22 9 0.07
23 83 0.65
24 27 0.21
25 8 0.06
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (23 bp):
CATATATACAACAATTTGGGCAG
Found at i:19016157 original size:70 final size:70
Alignment explanation
Indices: 19016040--19016243 Score: 277
Period size: 70 Copynumber: 2.9 Consensus size: 70
19016030 CATATTTACT
* *
19016040 CATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTT
1 CATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTG
19016105 GACAG
66 GACAG
* * * * * *
19016110 CATATGTGCAACAATTTGGGCAGCATATATATACCAAATT-GAGCAGCATTTTTA-CATCAAAAC
1 CATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGA-CAGCA-TTTTAGCATAAAAAT
*
19016173 TGGGCAG
64 TGGACAG
* *
19016180 CATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATT
1 CATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATT
19016244 ACATGAACAT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
69 6 0.05
70 100 0.88
71 7 0.06
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (70 bp):
CATATATGCAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTG
GACAG
Found at i:19016988 original size:28 final size:28
Alignment explanation
Indices: 19016956--19017081 Score: 171
Period size: 28 Copynumber: 4.5 Consensus size: 28
19016946 TTTAATAAGT
** * *
19016956 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
19016984 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
19017012 TCTCACACTTAGCGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
19017040 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
19017068 TCGCACACTTAGTG
1 TCGCACACTTAGTG
19017082 TCGAAAGTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:19019736 original size:22 final size:21
Alignment explanation
Indices: 19019711--19019751 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19019701 GATAAGTATA
*
19019711 TTTTTTATTTT-GATTATTTTC
1 TTTTTTTTTTTCGATT-TTTTC
19019732 TTTTTTTTTTTCGATTTTTT
1 TTTTTTTTTTTCGATTTTTT
19019752 AGGCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTTTTTTTTCGATTTTTTC
Found at i:19019934 original size:32 final size:32
Alignment explanation
Indices: 19019898--19020005 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
19019888 TATGTTAAGT
19019898 ATGGGATATACTCAAGTTGGGATATCCATGGA
1 ATGGGATATACTCAAGTTGGGATATCCATGGA
* * ** * *
19019930 ATGGGATCCTAAAC-CAACGTCGGGATAT-GTTAAGT
1 ATGGGA---TATACTCAA-GTTGGGATATCCAT-GGA
19019965 ATGGGATATACTCAAGTTGGGATATCCATGGA
1 ATGGGATATACTCAAGTTGGGATATCCATGGA
19019997 ATGGGATAT
1 ATGGGATAT
19020006 CCCTATTAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
32 29 0.51
33 4 0.07
34 4 0.07
35 20 0.35
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (32 bp):
ATGGGATATACTCAAGTTGGGATATCCATGGA
Found at i:19019969 original size:35 final size:33
Alignment explanation
Indices: 19019871--19019971 Score: 91
Period size: 35 Copynumber: 3.0 Consensus size: 33
19019861 CAAAAAATTC
19019871 TTAAACCAACGTCGGGATATGTTAAGTATGGGA
1 TTAAACCAACGTCGGGATATGTTAAGTATGGGA
* * ** * *
19019904 -TATACTCAA-GTTGGGATAT-CCATGGAATGGGA
1 TTAAAC-CAACGTCGGGATATGTTA-AGTATGGGA
19019936 TCCTAAACCAACGTCGGGATATGTTAAGTATGGGA
1 T--TAAACCAACGTCGGGATATGTTAAGTATGGGA
19019971 T
1 T
19019972 ATACTCAAGT
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
31 1 0.02
32 20 0.41
33 3 0.06
34 3 0.06
35 21 0.43
36 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (33 bp):
TTAAACCAACGTCGGGATATGTTAAGTATGGGA
Found at i:19019980 original size:67 final size:67
Alignment explanation
Indices: 19019872--19020003 Score: 264
Period size: 67 Copynumber: 2.0 Consensus size: 67
19019862 AAAAAATTCT
19019872 TAAACCAACGTCGGGATATGTTAAGTATGGGATATACTCAAGTTGGGATATCCATGGAATGGGAT
1 TAAACCAACGTCGGGATATGTTAAGTATGGGATATACTCAAGTTGGGATATCCATGGAATGGGAT
19019937 CC
66 CC
19019939 TAAACCAACGTCGGGATATGTTAAGTATGGGATATACTCAAGTTGGGATATCCATGGAATGGGAT
1 TAAACCAACGTCGGGATATGTTAAGTATGGGATATACTCAAGTTGGGATATCCATGGAATGGGAT
19020004 ATCCCTATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (67 bp):
TAAACCAACGTCGGGATATGTTAAGTATGGGATATACTCAAGTTGGGATATCCATGGAATGGGAT
CC
Found at i:19022079 original size:16 final size:16
Alignment explanation
Indices: 19022014--19022081 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
19022004 CCTTAGAATA
*
19022014 GGATATCCCTAAACCG
1 GGATATCCCTAAACTG
**
19022030 GGATATCCCT-ATTTG
1 GGATATCCCTAAACTG
*
19022045 GGATAT--CTAAAATTG
1 GGATATCCCT-AAACTG
19022060 GGATATCCCTGAAA-TG
1 GGATATCCCT-AAACTG
19022076 GGATAT
1 GGATAT
19022082 TCCCACTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.05
15 18 0.42
16 18 0.42
17 5 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (16 bp):
GGATATCCCTAAACTG
Found at i:19024569 original size:21 final size:23
Alignment explanation
Indices: 19024543--19024587 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
19024533 AAAGGGTATC
*
19024543 TACAAATTAA-ATC-TCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
19024564 TACAAAATAATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
19024587 T
1 T
19024588 GCATATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TACAAAATAATATCTTCTAAGAT
Found at i:19024603 original size:19 final size:19
Alignment explanation
Indices: 19024579--19024690 Score: 170
Period size: 19 Copynumber: 5.9 Consensus size: 19
19024569 AATAATATCT
*
19024579 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
**
19024598 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
19024617 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
19024636 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
19024655 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
19024674 TCTAAGATTGCATATCA
1 TCTAAGATTGCATATCA
19024691 CTGAAGATTA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19024626 original size:38 final size:38
Alignment explanation
Indices: 19024579--19024682 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
19024569 AATAATATCT
*
19024579 TCTAAGATTGCATATCACATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
19024617 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
19024655 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
19024683 GCATATCACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:19029910 original size:22 final size:21
Alignment explanation
Indices: 19029868--19029915 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
19029858 AAATTACTAA
*
19029868 CAACTAAATTAATAATGGATC
1 CAACTAAATTAATAATAGATC
**
19029889 CAACTAAAGTTAATTTTAGATC
1 CAACTAAA-TTAATAATAGATC
19029911 CAACT
1 CAACT
19029916 GCATCTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (21 bp):
CAACTAAATTAATAATAGATC
Found at i:19033446 original size:39 final size:39
Alignment explanation
Indices: 19033387--19033465 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
19033377 TACTAATAAA
* * *
19033387 TTGCTTTTATTGATCCATATAGATATCAATGATGGATAG
1 TTGCTTTTATTAATCAATATAGATATCAATGATCGATAG
19033426 TTGCTTTTATTAATCAATATAGATATCAATGATCGATAG
1 TTGCTTTTATTAATCAATATAGATATCAATGATCGATAG
19033465 T
1 T
19033466 AAAACATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (39 bp):
TTGCTTTTATTAATCAATATAGATATCAATGATCGATAG
Found at i:19039624 original size:21 final size:20
Alignment explanation
Indices: 19039600--19039644 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
19039590 TTTTTCTCAC
*
19039600 TTTATCTA-TTTTTTTGAAGTT
1 TTTATCTACTTTATTT-AA-TT
19039621 TTTATCTACTTTATTTAATT
1 TTTATCTACTTTATTTAATT
19039641 TTTA
1 TTTA
19039645 GAATTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 10 0.45
22 6 0.27
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATCTACTTTATTTAATT
Found at i:19039632 original size:30 final size:29
Alignment explanation
Indices: 19039588--19039651 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19039578 TAGAGGATTC
* *
19039588 ATTTTTTCTCACTTTATCTATTTTTTTGA
1 ATTTTTTCTCACTTTATCTAATTTTTAGA
*
19039617 AGTTTTTATCT-ACTTTATTTAATTTTTAGA
1 A-TTTTT-TCTCACTTTATCTAATTTTTAGA
19039647 ATTTT
1 ATTTT
19039652 CTAAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 5 0.17
30 22 0.73
31 3 0.10
ACGTcount: A:0.22, C:0.09, G:0.05, T:0.64
Consensus pattern (29 bp):
ATTTTTTCTCACTTTATCTAATTTTTAGA
Done.