Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 73 of 74
Found at i:14150877 original size:59 final size:57
Alignment explanation
Indices: 14150775--14150931 Score: 158
Period size: 59 Copynumber: 2.8 Consensus size: 57
14150765 CAAGGAAAAA
* * * * * *
14150775 TTGATATTTCAACTTT-TCCT-TAAATTTTGAAAATTA-TCTTTTATTTAAGGAAATT
1 TTGATATATCAAATTTGTCCTCAAAATTTTG-AAATTATTTTTTTATTCAAGAAAATT
* * *
14150830 TTGATATATCAAATTTTTCCTCAAATTTTTTTGAAATTATTTTTTTATTCATGAAAATT
1 TTGATATATCAAATTTGTCCTCAAA--ATTTTGAAATTATTTTTTTATTCAAGAAAATT
* * *
14150889 TTGATATTTCAACTTTGTCCTCAAAATTTTAAAATTATTTTTT
1 TTGATATATCAAATTTGTCCTCAAAATTTTGAAATTATTTTTT
14150932 AAGGAAAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
55 14 0.17
56 4 0.05
57 18 0.21
58 6 0.07
59 42 0.50
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.53
Consensus pattern (57 bp):
TTGATATATCAAATTTGTCCTCAAAATTTTGAAATTATTTTTTTATTCAAGAAAATT
Found at i:14150954 original size:20 final size:19
Alignment explanation
Indices: 14150919--14150972 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
14150909 TCAAAATTTT
14150919 AAAA-TTATTTTTTAAGGA
1 AAAATTTATTTTTTAAGGA
14150937 AAAATTTATTTATTTAAGGA
1 AAAATTTATTT-TTTAAGGA
* *
14150957 AAAATTAATATTTTAA
1 AAAATTTATTTTTTAA
14150973 TATTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 4 0.12
19 11 0.34
20 17 0.53
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
AAAATTTATTTTTTAAGGA
Found at i:14150988 original size:19 final size:20
Alignment explanation
Indices: 14150961--14150998 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14150951 TAAGGAAAAA
14150961 TTAATATTTT-AATATTTTTC
1 TTAATATTTTGAA-ATTTTTC
14150981 TTAA-ATTTTGAAATTTTT
1 TTAATATTTTGAAATTTTT
14150999 TTTGTTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTAATATTTTGAAATTTTTC
Found at i:14152061 original size:42 final size:42
Alignment explanation
Indices: 14152001--14152139 Score: 141
Period size: 42 Copynumber: 3.4 Consensus size: 42
14151991 CAAAGCCTCA
* *
14152001 CATTTTATTTTTCAAAAGTTCTTAAGCCTCGATTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTCTAAAGCCTC-ATTGTGGGGAAG
* **
14152044 CATTTTA-TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAG
1 CATTTTATTTTTCAAAAGTTCTAAAGCCTC-ATTGTGGGGAAG
14152086 C-----ATTTTTC-AAAGTT-TCAAAGCCTCAGTTGTGGGGAAG
1 CATTTTATTTTTCAAAAGTTCT-AAAGCCTCA-TTGTGGGGAAG
14152123 CATTTTATTTTTCAAAA
1 CATTTTATTTTTCAAAA
14152140 ATTTCAAAGC
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
36 1 0.01
37 25 0.32
38 5 0.06
42 37 0.47
43 10 0.13
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (42 bp):
CATTTTATTTTTCAAAAGTTCTAAAGCCTCATTGTGGGGAAG
Found at i:14152105 original size:37 final size:38
Alignment explanation
Indices: 14152051--14152128 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
14152041 GAGCATTTTA
14152051 TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAGCAT
1 TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAGCAT
* * **
14152089 TTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGGAAGCAT
1 TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAGCAT
14152126 TTT
1 TTT
14152129 ATTTTTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 31 0.86
38 5 0.14
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (38 bp):
TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAGCAT
Found at i:14152116 original size:79 final size:80
Alignment explanation
Indices: 14152007--14152176 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 80
14151997 CTCACATTTT
* * *
14152007 ATTTTTCAAAAGTTCTTAAGCCTCGATTGTGGGGGAGCATTTTA-TTTTCAAAAGTTCCAAAGCC
1 ATTTTTC-AAAGTTCTAAAGCCTCGATTGTGGGGAAGCATTTTATTTTTCAAAAATTCCAAAGCC
14152071 TCAATTGTAAGGAAGC
65 TCAATTGTAAGGAAGC
*
14152087 ATTTTTCAAAGTT-TCAAAGCCTC-AGTTGTGGGGAAGCATTTTATTTTTCAAAAATTTCAAAGC
1 ATTTTTCAAAGTTCT-AAAGCCTCGA-TTGTGGGGAAGCATTTTATTTTTCAAAAATTCCAAAGC
* * * * *
14152150 TTTAGTTGTTAGGGAGC
64 CTCAATTGTAAGGAAGC
14152167 ATTTTTCAAA
1 ATTTTTCAAA
14152177 AAAAAAAAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 30 0.38
80 46 0.59
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (80 bp):
ATTTTTCAAAGTTCTAAAGCCTCGATTGTGGGGAAGCATTTTATTTTTCAAAAATTCCAAAGCCT
CAATTGTAAGGAAGC
Found at i:14152157 original size:43 final size:42
Alignment explanation
Indices: 14152001--14152171 Score: 133
Period size: 43 Copynumber: 4.1 Consensus size: 42
14151991 CAAAGCCTCA
* * **
14152001 CATTTTATTTTTCAAAAGTTCTTAAGCCTC-GATTGTGGGGGAG
1 CATTTTATTTTTCAAAATTTC-AAAGCCTCAG-TTGTTAGGGAG
* * * *
14152044 CATTTTA-TTTTCAAAAGTTCCAAAGCCTCAATTGTAAGGAAG
1 CATTTTATTTTTCAAAA-TTTCAAAGCCTCAGTTGTTAGGGAG
* *
14152086 C-----ATTTTTCAAAGTTTCAAAGCCTCAGTTG-TGGGGAAG
1 CATTTTATTTTTCAAAATTTCAAAGCCTCAGTTGTTAGGG-AG
* *
14152123 CATTTTATTTTTCAAAAATTTCAAAGCTTTAGTTGTTAGGGAG
1 CATTTTATTTTTC-AAAATTTCAAAGCCTCAGTTGTTAGGGAG
14152166 CATTTT
1 CATTTT
14152172 TCAAAAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
36 2 0.02
37 19 0.19
38 8 0.08
42 32 0.32
43 35 0.35
44 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (42 bp):
CATTTTATTTTTCAAAATTTCAAAGCCTCAGTTGTTAGGGAG
Found at i:14155963 original size:58 final size:59
Alignment explanation
Indices: 14155845--14156005 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 59
14155835 ATATTTAAAT
* *
14155845 AGAAAAA-TTGATATTTCAACT-TTTC-CTTAAA--TTTTGAAAATTATTTTTTGTTTAA
1 AGAAAAATTTGATACTTCAACTCTTTCTC-AAAATTTTTTGAAAATTATTTTTTGTTTAA
* * * *
14155900 AG-AAAATTTGATATTTTAACTTTTTTCTCAAAATTTTTTG-AAATTATTTTTT-TATTTA
1 AGAAAAATTTGATACTTCAAC-TCTTTCTCAAAATTTTTTGAAAATTATTTTTTGT-TTAA
14155958 AGAAAAATTTGATACTTCAACTCTTTCTCAAAA--TTTT-AAAATTATTTT
1 AGAAAAATTTGATACTTCAACTCTTTCTCAAAATTTTTTGAAAATTATTTT
14156006 ATTGAGGAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
54 4 0.04
55 14 0.15
56 15 0.16
57 8 0.09
58 29 0.32
59 21 0.23
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (59 bp):
AGAAAAATTTGATACTTCAACTCTTTCTCAAAATTTTTTGAAAATTATTTTTTGTTTAA
Found at i:14155965 original size:59 final size:58
Alignment explanation
Indices: 14155845--14156005 Score: 178
Period size: 59 Copynumber: 2.9 Consensus size: 58
14155835 ATATTTAAAT
* * *
14155845 AGAAAAA-TTGATATTTCAACTTTTCCT-TAAA--TTTTGAAAATTATTTTTTGTTTA
1 AGAAAAATTTGATATTTCAACTTTTTCTCAAAATTTTTTGAAAATTATTTTTTATTTA
*
14155899 A-AGAAAATTTGATATTTTAACTTTTTTCTCAAAATTTTTTG-AAATTATTTTTTTATTTA
1 AGA-AAAATTTGATATTTCAAC-TTTTTCTCAAAATTTTTTGAAAATTA-TTTTTTATTTA
* *
14155958 AGAAAAATTTGATACTTCAACTCTTTCTCAAAA--TTTT-AAAATTATTTT
1 AGAAAAATTTGATATTTCAACTTTTTCTCAAAATTTTTTGAAAATTATTTT
14156006 ATTGAGGAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
53 1 0.01
54 5 0.05
55 16 0.18
56 16 0.18
57 3 0.03
58 17 0.19
59 32 0.35
60 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (58 bp):
AGAAAAATTTGATATTTCAACTTTTTCTCAAAATTTTTTGAAAATTATTTTTTATTTA
Found at i:14156150 original size:56 final size:56
Alignment explanation
Indices: 14156019--14156150 Score: 128
Period size: 56 Copynumber: 2.4 Consensus size: 56
14156009 GAGGAAAATT
** * * *
14156019 TTATTTATTTATTT-AAAGTAAAATTAATATTTTAATTTTTTTCTCAAATTTTGCAA
1 TTATTT-TTTATTTAAAAAAAAAATTAATATCTTAATTTTTTCCTCAAATTCTGCAA
** *
14156075 TTA-TTTTTGCTTAAGAAAAAAAATTAATATCTTGATTTTTTCCTC-AATTGCCT-CAA
1 TTATTTTTTATTTAA-AAAAAAAATTAATATCTTAATTTTTTCCTCAAATT--CTGCAA
14156131 TTATTTTTTATTTAAAAAAA
1 TTATTTTTTATTTAAAAAAA
14156151 TTAATATTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
54 5 0.08
55 7 0.11
56 39 0.64
57 10 0.16
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (56 bp):
TTATTTTTTATTTAAAAAAAAAATTAATATCTTAATTTTTTCCTCAAATTCTGCAA
Found at i:14161426 original size:60 final size:59
Alignment explanation
Indices: 14161237--14161456 Score: 284
Period size: 61 Copynumber: 3.7 Consensus size: 59
14161227 TCTTGTGTAG
* *
14161237 GGAAAATTGATACTTTTAACTTTTGCCCAAAAATA---TTATTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTTGAAAATTTATTTTTAA
* * **
14161294 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTGAAAATTT-ATTTTTAA
* * *
14161355 AGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTGAAAATTTATTTTTAA
*
14161415 GGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTT
14161457 GATTTTTTTA
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 30 0.21
60 50 0.35
61 59 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAAATTTATTTTTAA
Found at i:14161507 original size:15 final size:15
Alignment explanation
Indices: 14161496--14161555 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
14161486 GATAAAAGTG
14161496 AAAATAAAAAAAATA
1 AAAATAAAAAAAATA
** *
14161511 AAAATAAGTAAAACA
1 AAAATAAAAAAAATA
14161526 AAAATAAAAATAAGATA
1 AAAATAAAAA-AA-ATA
*
14161543 AAGATAAAAAAAA
1 AAAATAAAAAAAA
14161556 GATTAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAAATA
Found at i:14161528 original size:21 final size:22
Alignment explanation
Indices: 14161504--14161544 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14161494 TGAAAATAAA
14161504 AAAAATAAAAATAAG-TAAAAC
1 AAAAATAAAAATAAGATAAAAC
14161525 AAAAATAAAAATAAGATAAA
1 AAAAATAAAAATAAGATAAA
14161545 GATAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAATAAGATAAAAC
Found at i:14161974 original size:20 final size:20
Alignment explanation
Indices: 14161949--14161988 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14161939 TTCATCGGAT
*
14161949 TCTGGGTTTTGTCGTCGAAA
1 TCTGGGTTTTGTCATCGAAA
*
14161969 TCTGGGTTTTTTCATCGAAA
1 TCTGGGTTTTGTCATCGAAA
14161989 GTTCGTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (20 bp):
TCTGGGTTTTGTCATCGAAA
Found at i:14161999 original size:11 final size:11
Alignment explanation
Indices: 14161983--14162008 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14161973 GGTTTTTTCA
14161983 TCGAAAGTTCG
1 TCGAAAGTTCG
14161994 TCGAAAGTTCG
1 TCGAAAGTTCG
14162005 TCGA
1 TCGA
14162009 TTTTTGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (11 bp):
TCGAAAGTTCG
Found at i:14162520 original size:30 final size:32
Alignment explanation
Indices: 14162444--14162521 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
14162434 AAAAGAAAAC
*
14162444 AAAAAATAATAATACTAATCAGATAATAAAGA
1 AAAAAATAATAAAACTAATCAGATAATAAAGA
* **
14162476 AAAAAATCAGATAAAATTAA-CAGATAATTTA-A
1 AAAAAAT-A-ATAAAACTAATCAGATAATAAAGA
14162508 AAAAAATAATAAAA
1 AAAAAATAATAAAA
14162522 AAATAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 6 0.15
31 1 0.03
32 15 0.38
33 10 0.25
34 8 0.20
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (32 bp):
AAAAAATAATAAAACTAATCAGATAATAAAGA
Found at i:14162565 original size:3 final size:3
Alignment explanation
Indices: 14162557--14162587 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14162547 TATATTACAA
14162557 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14162588 ATATATAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14162583 original size:17 final size:17
Alignment explanation
Indices: 14162561--14162618 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
14162551 TTACAAAATA
14162561 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
14162578 ATAATAATAAATATATAACT
1 ATAATAAT-AATA-ATAA-T
14162598 AT-ATAAATAA-AATACAT
1 ATAAT-AATAATAATA-AT
14162615 ATAA
1 ATAA
14162619 ATATTAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
17 14 0.40
18 7 0.20
19 8 0.23
20 6 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:14162590 original size:12 final size:11
Alignment explanation
Indices: 14162557--14162592 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
14162547 TATATTACAA
14162557 AATAATAATAAT
1 AATAATAAT-AT
14162569 AATAATAATAT
1 AATAATAATAT
14162580 AATAATAAATAT
1 AATAAT-AATAT
14162592 A
1 A
14162593 TAACTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATAATAT
Found at i:14162593 original size:14 final size:14
Alignment explanation
Indices: 14162560--14162606 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
14162550 ATTACAAAAT
14162560 AATA-ATAATAAT-
1 AATATATAATAATA
14162572 AATAATATAATAATA
1 AAT-ATATAATAATA
14162587 AATATATAACTATATA
1 AATATATAA-TA-ATA
14162603 AATA
1 AATA
14162607 AAATACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 1 0.03
14 14 0.47
15 5 0.17
16 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AATATATAATAATA
Found at i:14162687 original size:9 final size:10
Alignment explanation
Indices: 14162667--14162710 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
14162657 ATACATATGT
14162667 TAATACATAA
1 TAATACATAA
14162677 TAATA-ATAA
1 TAATACATAA
14162686 TAAATA-ATAA
1 T-AATACATAA
14162696 -AATACATAA
1 TAATACATAA
14162705 -AATACA
1 TAATACA
14162711 AAAGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.12
9 15 0.47
10 13 0.41
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
TAATACATAA
Found at i:14162898 original size:1 final size:1
Alignment explanation
Indices: 14162892--14162952 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
14162882 AACATTGTCA
* * * * * * *
14162892 TTTTTTTGTTTTTTTTTTGTTTTTTTGTGTTTTTTTGTTTTTTTTTGTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14162953 ACCAAAGCTC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:14162907 original size:10 final size:10
Alignment explanation
Indices: 14162892--14162952 Score: 81
Period size: 10 Copynumber: 6.2 Consensus size: 10
14162882 AACATTGTCA
14162892 TTTTTTTGTT
1 TTTTTTTGTT
*
14162902 TTTTTTT-TG
1 TTTTTTTGTT
*
14162911 TTTTTTTGTG
1 TTTTTTTGTT
14162921 TTTTTTTGTT
1 TTTTTTTGTT
14162931 TTTTTTTGTGT
1 TTTTTTTGT-T
14162942 TTTTTTT-TT
1 TTTTTTTGTT
14162951 TT
1 TT
14162953 ACCAAAGCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
9 11 0.23
10 28 0.60
11 8 0.17
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:14162916 original size:18 final size:20
Alignment explanation
Indices: 14162892--14162949 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
14162882 AACATTGTCA
14162892 TTTTTTTGT-TTTTTTTTTG
1 TTTTTTTGTGTTTTTTTTTG
14162911 TTTTTTTGTGTTTTTTTGTT-
1 TTTTTTTGTGTTTTTTT-TTG
14162931 TTTTTTTGTGTTTTTTTTT
1 TTTTTTTGTGTTTTTTTTT
14162950 TTTACCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.30
20 24 0.65
21 2 0.05
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (20 bp):
TTTTTTTGTGTTTTTTTTTG
Found at i:14163050 original size:40 final size:40
Alignment explanation
Indices: 14162959--14163421 Score: 586
Period size: 40 Copynumber: 11.1 Consensus size: 40
14162949 TTTTACCAAA
* * *
14162959 GCTCCTCTAAACAGAAGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-ATAAATT
* **
14163002 GCTCCTCTAAACAGAGGCACTATAACTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
**
14163042 GCTCCTCTAAACAGAGGCACCATAACTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
14163082 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATT
*
14163123 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
* * *
14163163 GCTCTTTTAAACAGAGGCACCACGACTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
*
14163203 GCTCATCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-TAAATT
* *
14163245 GCTCCTCTAAACAAAGGCACCACGACTTT-AAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAA-AATAAATT
14163285 GCTCCTCTATTTTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 G-----C-----TCCTCTAAACAGAGGCACCACGACTTTG-AAAATAAATT
*
14163336 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
*
14163376 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAACTT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAA-TAAATT
14163418 GCTC
1 GCTC
14163422 TTTGACGATC
Statistics
Matches: 380, Mismatches: 22, Indels: 37
0.87 0.05 0.08
Matches are distributed among these distances:
40 197 0.52
41 79 0.21
42 42 0.11
43 24 0.06
45 1 0.00
46 1 0.00
50 26 0.07
51 8 0.02
52 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
Found at i:14163155 original size:81 final size:81
Alignment explanation
Indices: 14162959--14163421 Score: 601
Period size: 81 Copynumber: 5.5 Consensus size: 81
14162949 TTTTACCAAA
* * * *
14162959 GCTCCTCTAAACAGAAGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACTA
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-ATAAATTGCTCCTCTAAACAGAGGCACCA
**
14163024 TAACTTTGAAAA-TAAATT
63 CGACTTTGAAAAGTAAATT
**
14163042 GCTCCTCTAAACAGAGGCACCATAACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
14163107 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
* * *
14163123 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
14163188 CTTTG-AAAGTAAATT
66 CTTTGAAAAGTAAATT
* *
14163203 GCTCATCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAAAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-TAAATTGCTCCTCTAAACAGAGGCACCAC
*
14163268 GACTTT-AAGAGTAAATT
64 GACTTTGAAAAGTAAATT
14163285 GCTCCTCTATTTTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAG
1 G-----C-----TCCTCTAAACAGAGGCACCACGACTTTG-AAAATAAATTGCTCCTCTAAACAG
14163350 AGGCACCACGACTTTG-AAAGTAAATT
55 AGGCACCACGACTTTGAAAAGTAAATT
*
14163376 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAACTTGCTC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAA-TAAATTGCTC
14163422 TTTGACGATC
Statistics
Matches: 339, Mismatches: 23, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
80 78 0.23
81 108 0.32
82 52 0.15
83 24 0.07
86 1 0.00
87 1 0.00
91 44 0.13
92 30 0.09
93 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATT
Found at i:14163175 original size:121 final size:122
Alignment explanation
Indices: 14162959--14163424 Score: 625
Period size: 121 Copynumber: 3.7 Consensus size: 122
14162949 TTTTACCAAA
* * * * *
14162959 GCTCCTCTAAACAGAAGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACTA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
** * * * **
14163024 TAACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTGAAAATAAATT
65 CGACTTTGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAATAAATT
14163082 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
14163146 GACTTTGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAGTAAATT
66 GACTTTGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAATAAATT
* *
14163203 GCTCATCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAAAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
14163268 GACTTT-AAGAGTAAATTGCTCCTCTATTTTCCTCTAAACAGAGGCACCACGACTTTGAAAAATA
66 GACTTTGAA-AGTAAATTG---CTC----TT--T-TAAACAGAGGCACCACGACTTTG-AAAATA
14163332 AATT
119 AATT
14163336 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
14163399 GACTTTGGAAAAGTAACTTGCTCTTT
66 GACTTT-G-AAAGTAAATTGCTCTTT
14163425 GACGATCATG
Statistics
Matches: 308, Mismatches: 19, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
121 109 0.35
122 50 0.16
123 28 0.09
124 1 0.00
125 3 0.01
126 2 0.01
129 2 0.01
130 3 0.01
131 40 0.13
132 23 0.07
133 45 0.15
134 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (122 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAATAAATT
Found at i:14163322 original size:50 final size:51
Alignment explanation
Indices: 14163247--14163344 Score: 162
Period size: 50 Copynumber: 1.9 Consensus size: 51
14163237 AGTAAATTGC
* *
14163247 TCCTCTAAACAAAGGCACCACGACTTT-AAGAGTAAATTGCTCCTCTATTT
1 TCCTCTAAACAAAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTATTT
*
14163297 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTA
1 TCCTCTAAACAAAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTA
14163345 AACAGAGGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 26 0.59
51 18 0.41
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (51 bp):
TCCTCTAAACAAAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTATTT
Found at i:14163339 original size:213 final size:203
Alignment explanation
Indices: 14162959--14163421 Score: 628
Period size: 213 Copynumber: 2.2 Consensus size: 203
14162949 TTTTACCAAA
* * * * *
14162959 GCTCCTCTAAACAGAAGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATTGCTCATCTAAACAGAGGCACC
* * *
14163023 ATAACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACCATAACTTTGAAAATAAATTGCTCCT
64 ACAACTTTGAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAAAATAAATTGCTCCT
*
14163088 CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
129 CTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
14163153 AAAGTAAATT
194 AAAGTAAATT
* *
14163163 GCTCTTTTAAACAGAGGCACCACGACTTT-G-AAAGTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
* * *
14163226 GACTTTGAGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTT-AAGAGTAAATTGCTCC
66 AACTTTGA-AAA-TAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAA-AATAAATTG----
14163290 TCTATTTTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA
124 -C-----TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA
14163355 CCACGACTTTGAAAGTAAATT
183 CCACGACTTTGAAAGTAAATT
*
14163376 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAACTTGCTC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTC
14163422 TTTGACGATC
Statistics
Matches: 226, Mismatches: 17, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
200 1 0.00
201 35 0.15
202 6 0.03
203 40 0.18
204 24 0.11
208 1 0.00
213 105 0.46
214 1 0.00
215 13 0.06
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (203 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
AACTTTGAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAAAATAAATTGCTCCTCT
AAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
AGTAAATT
Found at i:14163364 original size:91 final size:92
Alignment explanation
Indices: 14163208--14163384 Score: 313
Period size: 91 Copynumber: 1.9 Consensus size: 92
14163198 AAATTGCTCA
*
14163208 TCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTT
1 TCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTT
14163273 T-AAGAGTAAATTGCTCCTCTATTTTCC
66 TGAA-AGTAAATTGCTCCTCTATTTTCC
*
14163300 TCTAAACAGAGGCACCACGACTTTGA-AAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTT
1 TCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTT
14163364 TGAAAGTAAATTGCTCCTCTA
66 TGAAAGTAAATTGCTCCTCTA
14163385 AACAGAGGCA
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
91 54 0.66
92 28 0.34
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (92 bp):
TCTAAACAGAGGCACCACGACTTTGAGAAAATAAATTGCTCCTCTAAACAAAGGCACCACGACTT
TGAAAGTAAATTGCTCCTCTATTTTCC
Found at i:14164690 original size:20 final size:20
Alignment explanation
Indices: 14164644--14164692 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14164634 TCCTTTTTCA
14164644 TTTTTTCATTTCTTTCTTCT
1 TTTTTTCATTTCTTTCTTCT
* * *
14164664 TTCTTTCTTTTTTTTCCTT-T
1 TTTTTTCATTTCTTT-CTTCT
14164684 TTTTTTCAT
1 TTTTTTCAT
14164693 CATCTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTCATTTCTTTCTTCT
Found at i:14168639 original size:62 final size:61
Alignment explanation
Indices: 14168564--14168731 Score: 248
Period size: 62 Copynumber: 2.7 Consensus size: 61
14168554 GTTCTTGTGT
* *
14168564 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTTGATTTCC
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAAAAATTT-ATTTCC
* **
14168626 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTAAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTTTTAAAAATTTATTTCC
*
14168688 AAGAAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTT
1 AAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTT
14168732 AATTTTTTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
61 7 0.07
62 68 0.70
63 22 0.23
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (61 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAAAAATTTATTTCC
Found at i:14168803 original size:21 final size:22
Alignment explanation
Indices: 14168778--14168819 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
14168768 GTGAAAATAA
14168778 AAAAACTAAAAAAAAG-TAAAAC
1 AAAAA-TAAAAAAAAGATAAAAC
*
14168800 AAAAATAAAAATAAGATAAA
1 AAAAATAAAAAAAAGATAAA
14168820 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAAAGATAAAAC
Found at i:14169266 original size:11 final size:11
Alignment explanation
Indices: 14169250--14169275 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14169240 TCTGAGTTTT
14169250 TTCGCCGGAAG
1 TTCGCCGGAAG
14169261 TTCGCCGGAAG
1 TTCGCCGGAAG
14169272 TTCG
1 TTCG
14169276 TCGGTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.23
Consensus pattern (11 bp):
TTCGCCGGAAG
Found at i:14169614 original size:53 final size:53
Alignment explanation
Indices: 14169532--14169637 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
14169522 TGTTTTTGTT
14169532 CTGTGTGTTCTTCATTCTGTTCCAGAGGTCCCTTTTATAGGGATTGATCAGGA
1 CTGTGTGTTCTTCATTCTGTTCCAGAGGTCCCTTTTATAGGGATTGATCAGGA
*
14169585 CTGTGTGTTCTTCATTCTGTTCCATAGGTCCCTTTTATAGGGATTGATCAGGA
1 CTGTGTGTTCTTCATTCTGTTCCAGAGGTCCCTTTTATAGGGATTGATCAGGA
14169638 GTTCCTGATC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (53 bp):
CTGTGTGTTCTTCATTCTGTTCCAGAGGTCCCTTTTATAGGGATTGATCAGGA
Found at i:14169900 original size:4 final size:4
Alignment explanation
Indices: 14169893--14169977 Score: 66
Period size: 4 Copynumber: 20.5 Consensus size: 4
14169883 AAAAAATAAT
* * * *
14169893 AATA AATA TAT- AAT- AATA AATA TATA ACTA TATA AATAA AATA CATATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA -A-ATA
*
14169942 AATA TTAACA AATA AATA AATA AATA AATA AATA AA
1 AATA --AATA AATA AATA AATA AATA AATA AATA AA
14169978 GATATACATA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
3 5 0.08
4 48 0.74
5 6 0.09
6 6 0.09
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:14169935 original size:45 final size:45
Alignment explanation
Indices: 14169885--14169977 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
14169875 ATTACAAAAA
* * * *
14169885 AAAATA-ATAATAAATATATAA-TAATAAATATATAACTATATAAAT
1 AAAATACAT-ATAAATAT-TAACAAATAAATAAATAAATAAATAAAT
14169930 AAAATACATATAAATATTAACAAATAAATAAATAAATAAATAAAT
1 AAAATACATATAAATATTAACAAATAAATAAATAAATAAATAAAT
14169975 AAA
1 AAA
14169978 GATATACATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 3 0.07
45 37 0.88
46 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (45 bp):
AAAATACATATAAATATTAACAAATAAATAAATAAATAAATAAAT
Found at i:14170016 original size:16 final size:16
Alignment explanation
Indices: 14169887--14170029 Score: 70
Period size: 16 Copynumber: 8.8 Consensus size: 16
14169877 TACAAAAAAA
14169887 AATAATAATAAAT-AT
1 AATAATAATAAATAAT
14169902 -ATAATAATAAAT-AT
1 AATAATAATAAATAAT
14169916 -ATAACTATATAAATAA-
1 AATAA-TA-ATAAATAAT
*
14169932 AATACAT-ATAAATATT
1 AATA-ATAATAAATAAT
*
14169948 AACAAATAAATAAATAAAT
1 AA-TAAT-AATAAAT-AAT
14169967 AAATAAATAA-AGATATACAT
1 -AAT-AATAATA-A-ATA-AT
** *
14169987 -ATGTTAATACATAAT
1 AATAATAATAAATAAT
14170002 AATAATAATAAATAAT
1 AATAATAATAAATAAT
14170018 AA-AATATATAAA
1 AATAATA-ATAAA
14170030 ATACCAAAGA
Statistics
Matches: 100, Mismatches: 10, Indels: 35
0.69 0.07 0.24
Matches are distributed among these distances:
14 18 0.18
15 15 0.15
16 32 0.32
17 9 0.09
18 11 0.11
19 6 0.06
20 9 0.09
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:14171657 original size:35 final size:35
Alignment explanation
Indices: 14171611--14171687 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
14171601 ATCCCAATCT
* * *
14171611 AAAAAAAATTCATTACAAATTGACTAATCTGCTTG
1 AAAAAGAATTCATTACAAAATGACTAATCTACTTG
14171646 AAAAAGAATTCATTACAAAATGACTAATCTACTTG
1 AAAAAGAATTCATTACAAAATGACTAATCTACTTG
14171681 AAAAAGA
1 AAAAAGA
14171688 CTTAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (35 bp):
AAAAAGAATTCATTACAAAATGACTAATCTACTTG
Found at i:14172319 original size:25 final size:25
Alignment explanation
Indices: 14172283--14172335 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
14172273 AAATATTGCT
*
14172283 CATAACATGGAGCGTGAATCAAACC
1 CATAACAAGGAGCGTGAATCAAACC
*
14172308 CATAACAAGGAGTGTGAATCAAACC
1 CATAACAAGGAGCGTGAATCAAACC
14172333 CAT
1 CAT
14172336 GTTTGAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (25 bp):
CATAACAAGGAGCGTGAATCAAACC
Found at i:14175165 original size:28 final size:28
Alignment explanation
Indices: 14175133--14175196 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
14175123 TTTTAGCGGT
*
14175133 TTTTTAGGATT-TTAGGATGATTTTGGAG
1 TTTTTAGGATTCTTAGCA-GATTTTGGAG
*
14175161 TTTTTAAGG-TTCTTAGCAGTTTTTGGAG
1 TTTTT-AGGATTCTTAGCAGATTTTGGAG
14175189 -TTTTAGGA
1 TTTTTAGGA
14175197 CGGTTTTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 3 0.10
27 4 0.13
28 16 0.52
29 8 0.26
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (28 bp):
TTTTTAGGATTCTTAGCAGATTTTGGAG
Found at i:14175183 original size:48 final size:48
Alignment explanation
Indices: 14175125--14175258 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 48
14175115 ACCAACATTT
* *
14175125 TTAGCGGTTTTTTAGGATTTTAGGATGATTTT-GGAGTTTTTA-AGGTTC
1 TTAGCAGTTTTTTAGGATTTTAGGATGATTTTAGGA-TTCTTAGA-GTTC
* * *
14175173 TTAGCAG-TTTTT-GGAGTTTTAGGACGGTTTTAGGATTCTTAGAGTTT
1 TTAGCAGTTTTTTAGGA-TTTTAGGATGATTTTAGGATTCTTAGAGTTC
* *
14175220 TTAGTAGTTTTTTAAGG-TTTCAGGATGATTTTAAGGATT
1 TTAGCAGTTTTTT-AGGATTTTAGGATGATTTT-AGGATT
14175259 TTAAAGCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
46 3 0.04
47 32 0.46
48 27 0.39
49 6 0.09
50 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (48 bp):
TTAGCAGTTTTTTAGGATTTTAGGATGATTTTAGGATTCTTAGAGTTC
Found at i:14175270 original size:48 final size:46
Alignment explanation
Indices: 14175131--14175291 Score: 130
Period size: 48 Copynumber: 3.4 Consensus size: 46
14175121 ATTTTTAGCG
* * *
14175131 GTTTTTTAGGATTTTAGGATGATTTT-GGAGTTTTTAAGGTTCTTAGCA
1 GTTTTTTAGG-TTTTAGGATGATTTTAGGA-TTTTAAAGCTT-TTAGTA
* * * * *
14175179 G-TTTTTGGAGTTTTAGGACGGTTTTAGGATTCTTAGAGTTTTTAGTA
1 GTTTTTTAG-GTTTTAGGATGATTTTAGGATT-TTAAAGCTTTTAGTA
*
14175226 GTTTTTTAAGGTTTCAGGATGATTTTAAGGATTTTAAAGCTTTTAGT-
1 GTTTTTT-AGGTTTTAGGATGATTTT-AGGATTTTAAAGCTTTTAGTA
* * *
14175273 GATTTTTGGGGTTTAGGAT
1 GTTTTTTAGGTTTTAGGAT
14175292 AATTGAAGGC
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
46 9 0.10
47 33 0.37
48 41 0.46
49 7 0.08
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (46 bp):
GTTTTTTAGGTTTTAGGATGATTTTAGGATTTTAAAGCTTTTAGTA
Found at i:14175719 original size:29 final size:29
Alignment explanation
Indices: 14175677--14175758 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
14175667 CTTGAATTAT
* * *
14175677 TTTATTTTTAAATAAATTTGTATATTTTTA
1 TTTATATTTAAATAAATTT-TATATTATGA
14175707 -TTATATTTAAATAAAATTTTATATTATGA
1 TTTATATTTAAAT-AAATTTTATATTATGA
*
14175736 TTTATATCTAAATAAATATTTAT
1 TTTATATTTAAATAAAT-TTTAT
14175759 TTTAAATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 23 0.51
30 22 0.49
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTATATTTAAATAAATTTTATATTATGA
Found at i:14175741 original size:30 final size:31
Alignment explanation
Indices: 14175677--14175756 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
14175667 CTTGAATTAT
* * *
14175677 TTTATTTTTAAAT-AAATTTGTATATTTTTA
1 TTTATATTTAAATAAAATTTGTATATTATGA
14175707 -TTATATTTAAATAAAATTT-TATATTATGA
1 TTTATATTTAAATAAAATTTGTATATTATGA
*
14175736 TTTATATCTAAATAAATATTT
1 TTTATATTTAAATAAA-ATTT
14175757 ATTTTAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 19 0.44
30 20 0.47
31 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTATATTTAAATAAAATTTGTATATTATGA
Found at i:14175855 original size:30 final size:29
Alignment explanation
Indices: 14175780--14175869 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 29
14175770 GAATATTTAT
* * *
14175780 GTTAAGGGCTTATTTAAACATAAATTTAAA
1 GTTAAAGGTTTATTTAAATATAAA-TTAAA
*
14175810 GTTTAAGGTTTTATTTAAATATAAATTAAGA
1 GTTAAAGG-TTTATTTAAATATAAATTAA-A
*
14175841 GTTAAAGGTTTATTTGAATATAAATTAAA
1 GTTAAAGGTTTATTTAAATATAAATTAAA
14175870 TATTAACTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 29 0.56
31 22 0.42
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (29 bp):
GTTAAAGGTTTATTTAAATATAAATTAAA
Found at i:14178552 original size:14 final size:14
Alignment explanation
Indices: 14178543--14178571 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14178533 ACTAATAAGA
14178543 TAACTTTAATAAAG
1 TAACTTTAATAAAG
14178557 TAACTTTAATAAAG
1 TAACTTTAATAAAG
14178571 T
1 T
14178572 TGAGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
TAACTTTAATAAAG
Found at i:14178647 original size:22 final size:22
Alignment explanation
Indices: 14178619--14178661 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14178609 TTGATACTTG
14178619 ACACAAAGTTGACATTGGCATA
1 ACACAAAGTTGACATTGGCATA
14178641 ACACAAAGTTGACATTGGCAT
1 ACACAAAGTTGACATTGGCAT
14178662 GACAATCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (22 bp):
ACACAAAGTTGACATTGGCATA
Found at i:14182528 original size:11 final size:11
Alignment explanation
Indices: 14182512--14182536 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14182502 AGATAGAGTG
14182512 AACAATATTTT
1 AACAATATTTT
14182523 AACAATATTTT
1 AACAATATTTT
14182534 AAC
1 AAC
14182537 TTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (11 bp):
AACAATATTTT
Found at i:14185597 original size:17 final size:17
Alignment explanation
Indices: 14185575--14185607 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14185565 ACCAACCAAT
14185575 GACCTTTTTAAGGTTAC
1 GACCTTTTTAAGGTTAC
*
14185592 GACCTTTTTGAGGTTA
1 GACCTTTTTAAGGTTA
14185608 AAGCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (17 bp):
GACCTTTTTAAGGTTAC
Found at i:14187546 original size:12 final size:12
Alignment explanation
Indices: 14187529--14187555 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14187519 TGAAGTGACA
14187529 TTACTTCTATGT
1 TTACTTCTATGT
14187541 TTACTTCTATGT
1 TTACTTCTATGT
14187553 TTA
1 TTA
14187556 TATAGGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (12 bp):
TTACTTCTATGT
Found at i:14189144 original size:186 final size:185
Alignment explanation
Indices: 14188822--14189172 Score: 598
Period size: 186 Copynumber: 1.9 Consensus size: 185
14188812 GAAAATCCAT
*
14188822 ATATGACATACCATAAAATCATGAATCATAAATTAAATAATTTAATTCAAAATCAAAAAATTAAA
1 ATATGACATACCATAAAATCATGAATCATAAATTAAATAATTTAATTCAAAATAAAAAAATTAAA
* *
14188887 AAGAATAGTCAACAAAAAATCAAAATTCAATGAAACTCAAGCTCTCTTATGAATTATTAATTATT
66 AAGAATAGTCAACAAAAAATCAAAATTCAATGAAACTCAAGCTCTCTTATGAATTATTAATCATC
*
14188952 AATTCTTTTAGTAGAATATAAAAACTAGAATGATAGTAACAATTCAAAATCATGA
131 AATTCTTTTAGTAGAATATAAAAACTAGAAAGATAGTAACAATTCAAAATCATGA
* *
14189007 ATATGACATACCATAACATCATGAATTATAAATTAAATAATTTAATTCAAAATAAAAAAAATTAA
1 ATATGACATACCATAAAATCATGAATCATAAATTAAATAATTTAATTCAAAAT-AAAAAAATTAA
14189072 AAAGAATAGTCAACAAAAAAGT-AAAATTCAAT-AAAGCTCAAGCTCTCTTATGAATTATTAATC
65 AAAGAATAGTCAACAAAAAA-TCAAAATTCAATGAAA-CTCAAGCTCTCTTATGAATTATTAATC
*
14189135 ATCAATTCTTTTAGTAGAATATAAAAATTAGAAAGATA
128 ATCAATTCTTTTAGTAGAATATAAAAACTAGAAAGATA
14189173 ATAATAGGAA
Statistics
Matches: 156, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
185 54 0.35
186 101 0.65
187 1 0.01
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (185 bp):
ATATGACATACCATAAAATCATGAATCATAAATTAAATAATTTAATTCAAAATAAAAAAATTAAA
AAGAATAGTCAACAAAAAATCAAAATTCAATGAAACTCAAGCTCTCTTATGAATTATTAATCATC
AATTCTTTTAGTAGAATATAAAAACTAGAAAGATAGTAACAATTCAAAATCATGA
Found at i:14192847 original size:6 final size:6
Alignment explanation
Indices: 14192832--14192862 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
14192822 AAAACAATCA
14192832 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
14192863 GAAAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14193918 original size:3 final size:3
Alignment explanation
Indices: 14193910--14193938 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14193900 GCTAAAAGCT
14193910 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14193939 GAATTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14195600 original size:51 final size:52
Alignment explanation
Indices: 14195539--14195642 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 52
14195529 TGGACAAGAA
*
14195539 GACTTGCAAGAGAAGAATTCTAAAAAGA-AAGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAGAAGGATTCTTAATAGGCAAGTTT
* * ** *
14195590 GACTTACAAGAGAAGAATTCTAAGACGAGTGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAGAAGGATTCTTAATAGGCAAGTTT
14195642 G
1 G
14195643 TATGGTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 25 0.54
52 21 0.46
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAAGAGAAGGATTCTTAATAGGCAAGTTT
Found at i:14198203 original size:17 final size:17
Alignment explanation
Indices: 14198183--14198217 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14198173 TTTTTTGAAC
14198183 TTTA-GTTTTTTATATTT
1 TTTACGTTTTTT-TATTT
14198200 TTTACGTTTTTTTATTT
1 TTTACGTTTTTTTATTT
14198217 T
1 T
14198218 ATTTATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTACGTTTTTTTATTT
Found at i:14198668 original size:33 final size:32
Alignment explanation
Indices: 14198626--14198695 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
14198616 CACTGAAGAG
14198626 AACTTAGATATCATCACCGAGAAAATA-TAAAT
1 AACTTAGATATCATCACCGAGAAAA-AGTAAAT
* **
14198658 AACTTCAGATATCATTATTGAGAAAAAGTAAAT
1 AACTT-AGATATCATCACCGAGAAAAAGTAAAT
14198691 AACTT
1 AACTT
14198696 TGGATATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 6 0.18
33 27 0.82
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.29
Consensus pattern (32 bp):
AACTTAGATATCATCACCGAGAAAAAGTAAAT
Found at i:14198832 original size:9 final size:10
Alignment explanation
Indices: 14198820--14198867 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
14198810 TAAAATGAGC
14198820 AAAATC-CCA
1 AAAATCACCA
*
14198829 AAAATCACTA
1 AAAATCACCA
*
14198839 AAAACCACCA
1 AAAATCACCA
14198849 AAAA-CACCA
1 AAAATCACCA
*
14198858 AAAACCACCA
1 AAAATCACCA
14198868 CTTGAAGCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 15 0.44
10 19 0.56
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAATCACCA
Found at i:14198851 original size:10 final size:10
Alignment explanation
Indices: 14198826--14198867 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
14198816 GAGCAAAATC
*
14198826 CCAAAAATCA
1 CCAAAAACCA
*
14198836 CTAAAAACCA
1 CCAAAAACCA
14198846 CCAAAAA-CA
1 CCAAAAACCA
14198855 CCAAAAACCA
1 CCAAAAACCA
14198865 CCA
1 CCA
14198868 CTTGAAGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.60, C:0.36, G:0.00, T:0.05
Consensus pattern (10 bp):
CCAAAAACCA
Found at i:14198851 original size:19 final size:19
Alignment explanation
Indices: 14198826--14198867 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14198816 GAGCAAAATC
*
14198826 CCAAAAATCACTAAAAACCA
1 CCAAAAA-CACCAAAAACCA
14198846 CCAAAAACACCAAAAACCA
1 CCAAAAACACCAAAAACCA
14198865 CCA
1 CCA
14198868 CTTGAAGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.60, C:0.36, G:0.00, T:0.05
Consensus pattern (19 bp):
CCAAAAACACCAAAAACCA
Found at i:14200539 original size:13 final size:13
Alignment explanation
Indices: 14200521--14200561 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
14200511 TAGGGTCAAT
*
14200521 GTTAGGTTTTAGG
1 GTTAGGGTTTAGG
*
14200534 GTTAGGGATTA-G
1 GTTAGGGTTTAGG
14200546 GTTAGGGTTTAGG
1 GTTAGGGTTTAGG
14200559 GTT
1 GTT
14200562 TAGGTGGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
GTTAGGGTTTAGG
Found at i:14200559 original size:19 final size:18
Alignment explanation
Indices: 14200529--14200566 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
14200519 ATGTTAGGTT
14200529 TTAGGGTTAGGGATTAGG
1 TTAGGGTTAGGGATTAGG
*
14200547 TTAGGGTTTAGGGTTTAGG
1 TTAGGG-TTAGGGATTAGG
14200566 T
1 T
14200567 GGTAGTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (18 bp):
TTAGGGTTAGGGATTAGG
Found at i:14200574 original size:19 final size:19
Alignment explanation
Indices: 14200552--14200594 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14200542 TTAGGTTAGG
14200552 GTTTAGGGTTT-AGGTGGTA
1 GTTTAGGGTTTGA-GTGGTA
*
14200571 GTTTAGGGTTTGAGTGGTG
1 GTTTAGGGTTTGAGTGGTA
14200590 GTTTA
1 GTTTA
14200595 AAACACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (19 bp):
GTTTAGGGTTTGAGTGGTA
Found at i:14200936 original size:49 final size:49
Alignment explanation
Indices: 14200804--14200940 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 49
14200794 TGTTTGAGAT
* * * * *
14200804 TTTAAGGTTTAGGGTAGGTTTAGGTTCTAGGTCAAGGTTTGGGGTTTAA
1 TTTAAGGTTTAGGGTTGGTTTAGGGTCTAGGTTAGGGTTTAGGGTTTAA
* * *
14200853 TTTAGGGTTT-GGGTTGGTTTATGGTCTAGGTTAGGGTTTAGGGTTTGA
1 TTTAAGGTTTAGGGTTGGTTTAGGGTCTAGGTTAGGGTTTAGGGTTTAA
* * *
14200901 TTTAAGGTTTAAGGTTGGTTTGGGGTCAAGGTTAGGGTTT
1 TTTAAGGTTTAGGGTTGGTTTAGGGTCTAGGTTAGGGTTT
14200941 GGTTCAGGAT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 40 0.54
49 34 0.46
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.43
Consensus pattern (49 bp):
TTTAAGGTTTAGGGTTGGTTTAGGGTCTAGGTTAGGGTTTAGGGTTTAA
Found at i:14201174 original size:30 final size:30
Alignment explanation
Indices: 14201138--14201232 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 30
14201128 GGTTGGTTTT
*
14201138 AGGGTTTGAGGTAGGTTTAGGCTCTAGGTA
1 AGGGTTTGGGGTAGGTTTAGGCTCTAGGTA
* * *
14201168 AGGGTTTGGGGTTCA-GTTTAGGGTTTAGGTT
1 AGGGTTTGGGG-T-AGGTTTAGGCTCTAGGTA
*
14201199 AGAGTTTGGGGTAGGTTTAGGCTCTAGGTCA
1 AGGGTTTGGGGTAGGTTTAGGCTCTAGGT-A
14201230 AGG
1 AGG
14201233 TTTAGTTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
29 1 0.02
30 24 0.46
31 26 0.50
32 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.41, T:0.35
Consensus pattern (30 bp):
AGGGTTTGGGGTAGGTTTAGGCTCTAGGTA
Found at i:14201277 original size:42 final size:41
Alignment explanation
Indices: 14201170--14201280 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
14201160 TCTAGGTAAG
* * *
14201170 GGTTTGGGGTTCAGTTTAGGGTTTAGGTTAGAGTTTGGGGTA
1 GGTTTGGGGTT-AGGTTAGGGTTTAGGTTAAAGTTTAGGGTA
* * * * * *
14201212 GGTTTAGGCTCTAGGTCAAGGTTTAGTTTAAAGTTTAGGGTT
1 GGTTTGGGGT-TAGGTTAGGGTTTAGGTTAAAGTTTAGGGTA
14201254 GGTTTGGGGTTAAGGTTAGGGTTTAGG
1 GGTTTGGGGTT-AGGTTAGGGTTTAGG
14201281 GTTAGAGCTT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
41 1 0.02
42 51 0.96
43 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.40, T:0.40
Consensus pattern (41 bp):
GGTTTGGGGTTAGGTTAGGGTTTAGGTTAAAGTTTAGGGTA
Found at i:14203561 original size:19 final size:17
Alignment explanation
Indices: 14203537--14203585 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 17
14203527 AATTCTCCAA
14203537 AAACCCAAAAACCACCTTG
1 AAACCCAAAAACCA--TTG
*
14203556 AAACCCAAAAATCATTG
1 AAACCCAAAAACCATTG
14203573 AAATCCCAAAAAC
1 AAA-CCCAAAAAC
14203586 TACTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.53, C:0.31, G:0.04, T:0.12
Consensus pattern (17 bp):
AAACCCAAAAACCATTG
Found at i:14204602 original size:18 final size:18
Alignment explanation
Indices: 14204579--14204613 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14204569 CACCAAAACA
14204579 AAAAACCCCAAAA-CCATT
1 AAAAA-CCCAAAAGCCATT
14204597 AAAAACCCAAAAGCCAT
1 AAAAACCCAAAAGCCAT
14204614 ACCTCAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.57, C:0.31, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAACCCAAAAGCCATT
Found at i:14204730 original size:18 final size:18
Alignment explanation
Indices: 14204709--14204749 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
14204699 TTAAAAACCA
14204709 AAAAACCAATAAAAGTCT
1 AAAAACCAATAAAAGTCT
*
14204727 AAAAACCATTAAAAGTCT
1 AAAAACCAATAAAAGTCT
14204745 AAAAA
1 AAAAA
14204750 TACCCCCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.15, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAACCAATAAAAGTCT
Found at i:14207694 original size:15 final size:15
Alignment explanation
Indices: 14207671--14207701 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14207661 CTGTGAATTA
14207671 GATACTAAAGAAAAT
1 GATACTAAAGAAAAT
*
14207686 GATATTAAAGAAAAT
1 GATACTAAAGAAAAT
14207701 G
1 G
14207702 TAGTAACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (15 bp):
GATACTAAAGAAAAT
Found at i:14208152 original size:3 final size:3
Alignment explanation
Indices: 14208144--14208172 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14208134 AAGACAACTT
14208144 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14208173 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14208177 original size:3 final size:3
Alignment explanation
Indices: 14208171--14208213 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14208161 ATAATAATAA
14208171 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14208214 TTAAAATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14210593 original size:2 final size:2
Alignment explanation
Indices: 14210586--14210610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14210576 AATATTATTA
14210586 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 C
14210611 CTTGTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:14211059 original size:31 final size:31
Alignment explanation
Indices: 14211024--14211089 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
14211014 ATCCGAATCC
14211024 GTCGGGTTTTAATTTGATTCGATTTTTTAAG
1 GTCGGGTTTTAATTTGATTCGATTTTTTAAG
14211055 GTCGGGTTTTAATTTGATTCGATTTTTTAAG
1 GTCGGGTTTTAATTTGATTCGATTTTTTAAG
14211086 GTCG
1 GTCG
14211090 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (31 bp):
GTCGGGTTTTAATTTGATTCGATTTTTTAAG
Found at i:14211224 original size:12 final size:12
Alignment explanation
Indices: 14211209--14211267 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
14211199 AAATTATTTT
14211209 TTTAATTTTATA
1 TTTAATTTTATA
*
14211221 TTTAATTATATA
1 TTTAATTTTATA
**
14211233 TTTTTTTATATATA
1 TTTAATT-T-TATA
14211247 TTTAATTTTATA
1 TTTAATTTTATA
14211259 TTTATATTT
1 TTTA-ATTT
14211268 AAAATAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 24 0.63
13 5 0.13
14 9 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:14211240 original size:16 final size:17
Alignment explanation
Indices: 14211215--14211268 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
14211205 TTTTTTTAAT
14211215 TTTATATTTAATTATATA
1 TTTAT-TTTAATTATATA
14211233 TTT-TTTT-A-TATATA
1 TTTATTTTAATTATATA
14211247 TTTAATTTTATATT-TATA
1 TTT-ATTTTA-ATTATATA
14211265 TTTA
1 TTTA
14211269 AAATAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 7 0.23
17 2 0.06
18 11 0.35
19 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTTTAATTATATA
Found at i:14211246 original size:14 final size:15
Alignment explanation
Indices: 14211227--14211259 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
14211217 TATATTTAAT
14211227 TATATATTT-TTTTA
1 TATATATTTATTTTA
14211241 TATATATTTAATTTTA
1 TATATATTT-ATTTTA
14211257 TAT
1 TAT
14211260 TTATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATATTTATTTTA
Found at i:14211246 original size:26 final size:28
Alignment explanation
Indices: 14211203--14211261 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
14211193 ATAAAAAAAT
*
14211203 TATTTTTTTAATTTTATATTTAATTATA
1 TATTTTTTTAATTATATATTTAATTATA
*
14211231 TATTTTTTT-A-TATATATTTAATTTTA
1 TATTTTTTTAATTATATATTTAATTATA
14211257 TATTT
1 TATTT
14211262 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.66
27 1 0.03
28 9 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TATTTTTTTAATTATATATTTAATTATA
Found at i:14211884 original size:14 final size:13
Alignment explanation
Indices: 14211852--14211890 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
14211842 GTTTCATTCG
14211852 TAAAAAATATTTT
1 TAAAAAATATTTT
**
14211865 CGAAAAATGATTTT
1 TAAAAAAT-ATTTT
14211879 TAAAAAATATTT
1 TAAAAAATATTT
14211891 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (13 bp):
TAAAAAATATTTT
Found at i:14212148 original size:8 final size:8
Alignment explanation
Indices: 14212131--14212165 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
14212121 TTCTTTTTTA
14212131 TATT-ATT
1 TATTAATT
14212138 TATTAATT
1 TATTAATT
14212146 TATTAA-T
1 TATTAATT
14212153 TATTAATT
1 TATTAATT
14212161 TATTA
1 TATTA
14212166 TATTAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTAATT
Found at i:14212149 original size:15 final size:15
Alignment explanation
Indices: 14212131--14212186 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
14212121 TTCTTTTTTA
14212131 TATTATTTATTAATT
1 TATTATTTATTAATT
*
14212146 TATTAATTATTAATT
1 TATTATTTATTAATT
* * *
14212161 TATTATATTAATAGTA
1 TATTAT-TTATTAATT
14212177 TATTATTTAT
1 TATTATTTAT
14212187 AAATAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTTATTAATT
Found at i:14214302 original size:2 final size:2
Alignment explanation
Indices: 14214295--14214325 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14214285 TTCATAATGG
*
14214295 AT AT AT AT AT AC 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
14214326 GATTTAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14220557 original size:34 final size:34
Alignment explanation
Indices: 14220519--14220591 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
14220509 ATGCCACTAC
* * *
14220519 ATTAGTGGTGTTTGTATGTGAAAAATGTCGCTAT
1 ATTAGTGATGTTTGTATGTGAAAAACGTCGATAT
* *
14220553 ATTAGTGATGTTTGTATTTGGAAAACGTCGATAT
1 ATTAGTGATGTTTGTATGTGAAAAACGTCGATAT
14220587 ATTAG
1 ATTAG
14220592 CGGCATTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.41
Consensus pattern (34 bp):
ATTAGTGATGTTTGTATGTGAAAAACGTCGATAT
Found at i:14220632 original size:34 final size:34
Alignment explanation
Indices: 14220563--14220636 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
14220553 ATTAGTGATG
* * *
14220563 TTTGTATTTGGAAAACGTCGATATATTAGCGGCA
1 TTTGTATTTAGAAAACGTCGATATATTAACAGCA
* *
14220597 TTTGTATTTAGAAAACG-CTACTATATTAATAGCA
1 TTTGTATTTAGAAAACGTCGA-TATATTAACAGCA
14220631 TTTGTA
1 TTTGTA
14220637 CCTTTGACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.06
34 32 0.94
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (34 bp):
TTTGTATTTAGAAAACGTCGATATATTAACAGCA
Found at i:14225159 original size:189 final size:185
Alignment explanation
Indices: 14224916--14225495 Score: 720
Period size: 185 Copynumber: 3.1 Consensus size: 185
14224906 AGTGAAGGCA
*** **
14224916 TTTTTTTAGAACAAACGTGTTTAATAATTTTTTAAAAAATTTTT-GAGATTATTAAAGGCATCTT
1 TTTTTTTAGAACAAACACCTTTAATAATTTTTTTTAAAATTTTTAG-GATTATTAAAGGCATCTT
* * * * *
14224980 TCAGTGAAAAACACCTTCAATATTTCACAACTCAAATTTTAAGATAATTATTGATGGTGTTTATT
65 TCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAGACAATTAGTGAAGGTGTTTATT
* * * * * *
14225045 CTAGGAAAATGCCTTTACTAATTTCTTCTAATTTACGTACATAATAATTAGAGATGTCT
130 CTAGAAAAATGTCTTCACTAA-TTCTTTTAATTTACGTACATAATTATTAGA-A-GTAT
* * **
14225104 TTTTTTTAGAATAAACACCTTTAATAGTTTTCTTTTAAAATTTTTAGGATTATTAAAGGTGTC-T
1 TTTTTTTAGAACAAACACCTTTAATAATTTT-TTTTAAAATTTTTAGGATTATTAAAGGCATCTT
**
14225168 TCTAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGTGTTTAT
65 TC-AGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAGACAATTAGTGAAGGTGTTTAT
*
14225233 TCTAGAAAAATGTCTTCACTAATTCTTTTTAATTTACGTACATAATTATT-GAAG-GT
129 TCTAGAAAAATGTCTTCACTAATTC-TTTTAATTTACGTACATAATTATTAGAAGTAT
** *
14225289 TTTTTTTAGAACAAATGCCTTCAATAATTTTTTCTTAAAATTTTTAGGATTATTAAAGGCATCTT
1 TTTTTTTAGAACAAACACCTTTAATAATTTTTT-TTAAAATTTTTAGGATTATTAAAGGCATCTT
* * * * * * * *
14225354 CCAATGAAAAATGCCTTCAATTTTTCATAACTTAAATTTTAAGACAGTTAGTAAAGGCGTTTATT
65 TCAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAGACAATTAGTGAAGGTGTTTATT
*
14225419 CTAGAAAAATGTCTTCACTAATTCTTTTAATTTACGTACATATTTATTA-AAGGTAT
130 CTAGAAAAATGTCTTCACTAATTCTTTTAATTTACGTACATAATTATTAGAA-GTAT
*
14225475 TATTTTTAGAACAAACACCTT
1 TTTTTTTAGAACAAACACCTT
14225496 CACTAATTCC
Statistics
Matches: 340, Mismatches: 43, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
184 27 0.08
185 134 0.39
186 22 0.06
187 1 0.00
188 34 0.10
189 121 0.36
190 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (185 bp):
TTTTTTTAGAACAAACACCTTTAATAATTTTTTTTAAAATTTTTAGGATTATTAAAGGCATCTTT
CAGTGAAAAATACCTTCAATTTTTCACAACTCAAATTTTAAGACAATTAGTGAAGGTGTTTATTC
TAGAAAAATGTCTTCACTAATTCTTTTAATTTACGTACATAATTATTAGAAGTAT
Found at i:14225553 original size:62 final size:62
Alignment explanation
Indices: 14225431--14225565 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 62
14225421 AGAAAAATGT
* * *
14225431 CTTCACTAATTCTTTTAATTTACGTACATATTTATTAAAGGTATTATTTTTAGAACAAACAC
1 CTTCACTAATTCTTTTAATTTACGTACATAATTATGAAAGGTAATATTTTTAGAACAAACAC
** *
14225493 CTTCACTAATTCCTTTTAATTTTTGTACATAATTATGGAAGGTAAT-TTTTTACTG-A-AAACAC
1 CTTCACTAATT-CTTTTAATTTACGTACATAATTATGAAAGGTAATATTTTTA--GAACAAACAC
*
14225555 CTTCAATAATT
1 CTTCACTAATT
14225566 TTTATTCAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
62 33 0.52
63 29 0.46
64 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (62 bp):
CTTCACTAATTCTTTTAATTTACGTACATAATTATGAAAGGTAATATTTTTAGAACAAACAC
Found at i:14226048 original size:28 final size:28
Alignment explanation
Indices: 14225999--14226057 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
14225989 TGCTGAACTT
* * * * *
14225999 TATTGTGTGATATTATTTTGCTGAATGG
1 TATTGTATGATATTAGTATGCTAAATCG
*
14226027 TATTGTATGATATTGGTATGCTAAATCG
1 TATTGTATGATATTAGTATGCTAAATCG
14226055 TAT
1 TAT
14226058 GCTGAATGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.47
Consensus pattern (28 bp):
TATTGTATGATATTAGTATGCTAAATCG
Found at i:14227837 original size:34 final size:34
Alignment explanation
Indices: 14227794--14227862 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
14227784 GATTTAATTT
*
14227794 TAATGCTTATATTTCATTAAATATTGTAGCAGGA
1 TAATACTTATATTTCATTAAATATTGTAGCAGGA
14227828 TAATACTTATATTTCATTAAATATTGTAGCAGGA
1 TAATACTTATATTTCATTAAATATTGTAGCAGGA
14227862 T
1 T
14227863 GTAGGGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (34 bp):
TAATACTTATATTTCATTAAATATTGTAGCAGGA
Found at i:14229379 original size:35 final size:35
Alignment explanation
Indices: 14229333--14229403 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
14229323 CATATATAAA
* * *
14229333 TCAAATATTTTCTGTGCATAAATATACAATTGACT
1 TCAAATATTTTCTGGGCATAAACATACAACTGACT
* *
14229368 TCAAATGTTTTCTGGGCATAAACCTACAACTGACT
1 TCAAATATTTTCTGGGCATAAACATACAACTGACT
14229403 T
1 T
14229404 GACATATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (35 bp):
TCAAATATTTTCTGGGCATAAACATACAACTGACT
Found at i:14234343 original size:22 final size:22
Alignment explanation
Indices: 14234310--14234366 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
14234300 AAAAGCTTTG
*
14234310 CTTAG-AGATCTTATAGATTATA
1 CTTAGAAG-TCTTAAAGATTATA
*
14234332 CTTAGAAGTCTTAAATATTATA
1 CTTAGAAGTCTTAAAGATTATA
*
14234354 -TTCAGAGGTCTTA
1 CTT-AGAAGTCTTA
14234367 CAAATCTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (22 bp):
CTTAGAAGTCTTAAAGATTATA
Found at i:14234448 original size:126 final size:126
Alignment explanation
Indices: 14234215--14234559 Score: 383
Period size: 126 Copynumber: 2.7 Consensus size: 126
14234205 GCCTGAAAAA
* * * * * *
14234215 CTTAAAGATTACATCCAAAGATTTTACAAATCTCAACATCTTTGAATGTTGCACCAATAAGAGGT
1 CTTAAAGATTATATCCAGAGATCTTACAAATCTCAACATCTTTGAATGTTTCTCCAATAAGAGGC
* * * *
14234280 ATTGAAACTTTTAAATTCTAAAA-AGCTTTGCTTAGAGATCTTATAGATTATACTTAGAAGT
66 ATTGAAACTTTAAAATTTTAAAATA-TTTTGCTTAGAGATCTTATAGATTATACTCAGAAGT
* * * ** *
14234341 CTTAAATATTATATTCAGAGGTCTTACAAATCTCAACATCTTTGAATGTTTCTCTTATTAGAGGC
1 CTTAAAGATTATATCCAGAGATCTTACAAATCTCAACATCTTTGAATGTTTCTCCAATAAGAGGC
* * * * *
14234406 ATTGAAACTTTAAAATTTTAAAATATTTT-ATCTGGAGGTCTTATAGATTATGCTCAGAGGT
66 ATTGAAACTTTAAAATTTTAAAATATTTTGCT-TAGAGATCTTATAGATTATACTCAGAAGT
* * * *
14234467 CTTAAAGATTATGTCCAGAGATCTTACAAATCTCAACATCATTGAATGCTTCTCCCATCAA-A-G
1 CTTAAAGATTATATCCAGAGATCTTACAAATCTCAACATCTTTGAATGTTTCTCCAAT-AAGAGG
* * *
14234530 CATTAAAACTTTGAAATTTTAAAATGTTTT
65 CATTGAAACTTTAAAATTTTAAAATATTTT
14234560 CCCTAAAGGT
Statistics
Matches: 183, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
125 29 0.16
126 152 0.83
127 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (126 bp):
CTTAAAGATTATATCCAGAGATCTTACAAATCTCAACATCTTTGAATGTTTCTCCAATAAGAGGC
ATTGAAACTTTAAAATTTTAAAATATTTTGCTTAGAGATCTTATAGATTATACTCAGAAGT
Found at i:14234465 original size:22 final size:22
Alignment explanation
Indices: 14234440--14234492 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
14234430 ATTTTATCTG
*
14234440 GAGGTCTTATAGATTATG-CTCA
1 GAGGTCTTAAAGATTATGTC-CA
14234462 GAGGTCTTAAAGATTATGTCCA
1 GAGGTCTTAAAGATTATGTCCA
*
14234484 GAGATCTTA
1 GAGGTCTTA
14234493 CAAATCTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (22 bp):
GAGGTCTTAAAGATTATGTCCA
Found at i:14234697 original size:122 final size:123
Alignment explanation
Indices: 14234356--14234717 Score: 372
Period size: 122 Copynumber: 2.9 Consensus size: 123
14234346 ATATTATATT
* **
14234356 CAGAGGTCTTACAAATCTCAACATCTTTGAATGTTTCTCTTATTAGAGGCATTGAAACTTT-AAA
1 CAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCCCATTAGAGGCATTGAAACTTTGAAA
* * ** * * * *
14234420 ATTTTAAAATATTTTATCTGGAGGTCTTATAGATTATGCTCAGAGGTCTTAAAGATTATGTC
66 A-TTTAAAATGTTTTACCTAAAGGTCTTACAAATTATGCCCAAAGGTCTT--A-ATTATGTC
* * * * *
14234482 CAGAGATCTTACAAATCTCAACATCATTGAATGCTTCTCCCATCA-AAGCATTAAAACTTTGAAA
1 CAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCCCATTAGAGGCATTGAAACTTTGAAA
* * * *
14234546 TTTTAAAATGTTTTCCCTAAAGGTATTACAAATTATGCCCAAAGGTCTT-TTTATG-C
66 ATTTAAAATGTTTTACCTAAAGGTCTTACAAATTATGCCCAAAGGTCTTAATTATGTC
* * * * * * *
14234602 CTGGAGGTCTTACAAATTTCAACCTCTTTGAATACTCCACCCATTAGAGGCATTGAAATTTTGAA
1 C-AGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCCCATTAGAGGCATTGAAACTTTGAA
* * **
14234667 AATTTAAAATGCTTTACCTAAAGGTCTTACAAATTATACTTAAAGGTCTTA
65 AATTTAAAATGTTTTACCTAAAGGTCTTACAAATTATGCCCAAAGGTCTTA
14234718 GAGATTTTAA
Statistics
Matches: 193, Mismatches: 39, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
120 2 0.01
121 40 0.21
122 58 0.30
125 51 0.26
126 42 0.22
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (123 bp):
CAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCCCATTAGAGGCATTGAAACTTTGAAA
ATTTAAAATGTTTTACCTAAAGGTCTTACAAATTATGCCCAAAGGTCTTAATTATGTC
Found at i:14235175 original size:41 final size:41
Alignment explanation
Indices: 14235130--14235207 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
14235120 CCTTGGTTAT
14235130 GATGCAAATGATATAAAT-ACAAATGTC-TTTCTCATGATATA
1 GATGCAAATGATAT-AATCACAAATGTCATTT-TCATGATATA
* *
14235171 GATGCAAGTGATATAATCACGAATGTCATTTTCATGA
1 GATGCAAATGATATAATCACAAATGTCATTTTCATGA
14235208 CGAATGTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 3 0.09
41 27 0.82
42 3 0.09
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (41 bp):
GATGCAAATGATATAATCACAAATGTCATTTTCATGATATA
Found at i:14235244 original size:18 final size:18
Alignment explanation
Indices: 14235191--14235245 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
14235181 ATATAATCAC
*
14235191 GAATGTCATTTTCATGAC
1 GAATGTCATTTTCATGAT
*
14235209 GAATGTCATTTTTATGAT
1 GAATGTCATTTTCATGAT
*
14235227 GAATGCCATTTTCATGAT
1 GAATGTCATTTTCATGAT
14235245 G
1 G
14235246 TAGATGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (18 bp):
GAATGTCATTTTCATGAT
Found at i:14236657 original size:14 final size:15
Alignment explanation
Indices: 14236634--14236680 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
14236624 CATGCCTTTC
14236634 TTTCTTTGCTTTTTT
1 TTTCTTTGCTTTTTT
14236649 TTT-TTTGCTCTTTTT
1 TTTCTTTGCT-TTTTT
*
14236664 TTTCTTT-ATTTTTT
1 TTTCTTTGCTTTTTT
14236678 TTT
1 TTT
14236681 ATTTTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 14 0.48
15 12 0.41
16 3 0.10
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (15 bp):
TTTCTTTGCTTTTTT
Found at i:14236670 original size:25 final size:26
Alignment explanation
Indices: 14236632--14236680 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14236622 CGCATGCCTT
14236632 TCTTTCTTTGCTTT-TTTTTTTTTGC
1 TCTTTCTTTGCTTTATTTTTTTTTGC
* *
14236657 TCTTTTTTTTCTTTATTTTTTTTT
1 TCTTTCTTTGCTTTATTTTTTTTT
14236681 ATTTTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (26 bp):
TCTTTCTTTGCTTTATTTTTTTTTGC
Found at i:14243440 original size:4 final size:4
Alignment explanation
Indices: 14243431--14243468 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
14243421 TATTTGTTTT
*
14243431 TAAA TAAA TAAA -AAG TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
14243469 GAACCTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:14245240 original size:3 final size:3
Alignment explanation
Indices: 14245232--14245275 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14245222 GGGATGTGGT
14245232 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14245276 TTGGTTGGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14246547 original size:29 final size:29
Alignment explanation
Indices: 14246476--14246544 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
14246466 TCAATTAATT
14246476 TCGAATTGAATTATTTGAAATTAAATTAA
1 TCGAATTGAATTATTTGAAATTAAATTAA
* ** * * *
14246505 TCAAATTTTATTATTT-TATTTTAATTAA
1 TCGAATTGAATTATTTGAAATTAAATTAA
14246533 TCGAATTGAATT
1 TCGAATTGAATT
14246545 TATAAATTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (29 bp):
TCGAATTGAATTATTTGAAATTAAATTAA
Found at i:14250500 original size:18 final size:18
Alignment explanation
Indices: 14250477--14250521 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
14250467 TGAGCTTGAT
* *
14250477 GTTAAGGCTACTCTTAAA
1 GTTAAGGCCACTCCTAAA
* *
14250495 GTTAAGACCATTCCTAAA
1 GTTAAGGCCACTCCTAAA
14250513 GTTAAGGCC
1 GTTAAGGCC
14250522 TAGAAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (18 bp):
GTTAAGGCCACTCCTAAA
Found at i:14259696 original size:22 final size:22
Alignment explanation
Indices: 14259647--14259698 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
14259637 TTTCAAGTAC
*
14259647 AGTTAAAAAACAATAAAAAATA
1 AGTTAAAAAACAACAAAAAATA
* *
14259669 ATTTAAAAAATAACAAAAAGA-A
1 AGTTAAAAAACAACAAAAA-ATA
14259691 AGTTAAAA
1 AGTTAAAA
14259699 CTAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (22 bp):
AGTTAAAAAACAACAAAAAATA
Found at i:14259993 original size:26 final size:30
Alignment explanation
Indices: 14259954--14260021 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 30
14259944 CCTTAATTAC
14259954 ATATA-AATATAAT-ATTTTA-AAATA-AAT
1 ATATATAA-ATAATAATTTTATAAATATAAT
*
14259981 ATAT-TAAATAATAATTTTATTAATATAAT
1 ATATATAAATAATAATTTTATAAATATAAT
14260010 ATATATAAATAA
1 ATATATAAATAA
14260022 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 5 0.14
27 12 0.34
28 4 0.11
29 7 0.20
30 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATATAAATAATAATTTTATAAATATAAT
Found at i:14260715 original size:22 final size:24
Alignment explanation
Indices: 14260690--14260733 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14260680 TATTTTTTAA
14260690 TATAAAT-T-ATATTTTAATTATG
1 TATAAATATAATATTTTAATTATG
*
14260712 TATAAATATAATATTTTTATTA
1 TATAAATATAATATTTTAATTA
14260734 AATTAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATAAATATAATATTTTAATTATG
Found at i:14263229 original size:18 final size:18
Alignment explanation
Indices: 14263186--14263229 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14263176 TTAAATTAAA
*
14263186 ATTAAAATTATTATTTTG
1 ATTAAAATTATAATTTTG
14263204 ATTCAAAATT-TAATTTTG
1 ATT-AAAATTATAATTTTG
14263222 ATCTAAAA
1 AT-TAAAA
14263230 ATAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (18 bp):
ATTAAAATTATAATTTTG
Found at i:14266242 original size:1 final size:1
Alignment explanation
Indices: 14266236--14266275 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
14266226 ATAGTTAGAT
14266236 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14266276 CTCTGTTCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14271589 original size:48 final size:49
Alignment explanation
Indices: 14271414--14271590 Score: 216
Period size: 49 Copynumber: 3.7 Consensus size: 49
14271404 AAAGGCTTAA
* *
14271414 CAGAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCCTCTAAG
1 CAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCTTCTAAG
* * * *
14271462 CATAGGCTCAATAACTTTAAAAATTTTATATTGAAAAAGTTCTTCTAAG
1 CAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCTTCTAAG
* * * * * *
14271511 CAAAGACTCAACAATTTTAAAAATTCTATCTT-AAAAGGCTCTTCCAA-
1 CAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCTTCTAAG
14271558 CAGAGGCTCAACAACTTTAAAAAATTTTATCTT
1 CAGAGGCTCAACAACTTT-AAAAATTTTATCTT
14271591 TTTTGTTAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 15 0.14
48 46 0.43
49 47 0.44
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (49 bp):
CAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCTTCTAAG
Found at i:14280104 original size:18 final size:18
Alignment explanation
Indices: 14280072--14280106 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14280062 TTTTTTAAAA
**
14280072 ATATAAATATTTAAATAT
1 ATATAAATAAATAAATAT
14280090 ATATAAATAAATAAATA
1 ATATAAATAAATAAATA
14280107 AAAAATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAATAAATAT
Found at i:14285012 original size:40 final size:40
Alignment explanation
Indices: 14284968--14285084 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 40
14284958 ACATGATAAT
* * *
14284968 ATACATAATCCAATTCATAATAATCA-AATATACTAA-TCAA
1 ATACAAAATCCAATACAT-ATAATCATAA-ATAATAATTCAA
* *
14285008 ATACAAAATCTAATACATGTAATCATAAATAATAATTCAA
1 ATACAAAATCCAATACATATAATCATAAATAATAATTCAA
* * *
14285048 ATACAAAATCTAATACATGTAGTCATAAATAATAATT
1 ATACAAAATCCAATACATATAATCATAAATAATAATT
14285085 AATCATAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.17
40 57 0.83
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (40 bp):
ATACAAAATCCAATACATATAATCATAAATAATAATTCAA
Found at i:14285312 original size:13 final size:13
Alignment explanation
Indices: 14285294--14285320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14285284 ATTATTATAT
14285294 ATTTTACAAATTA
1 ATTTTACAAATTA
14285307 ATTTTACAAATTA
1 ATTTTACAAATTA
14285320 A
1 A
14285321 ATAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTACAAATTA
Found at i:14285397 original size:13 final size:13
Alignment explanation
Indices: 14285379--14285435 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
14285369 AAAAATTGAC
14285379 ATAAATAATATAA
1 ATAAATAATATAA
**
14285392 ATAAATAATCCAA
1 ATAAATAATATAA
*
14285405 AAAAAGTAATATAAAA
1 ATAAA-TAATAT--AA
14285421 ATAAATAAATATAA
1 ATAAAT-AATATAA
14285435 A
1 A
14285436 ATAGAAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 15 0.44
14 7 0.21
15 1 0.03
16 11 0.32
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (13 bp):
ATAAATAATATAA
Found at i:14285582 original size:13 final size:13
Alignment explanation
Indices: 14285546--14285575 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
14285536 AACGAAAAAA
14285546 CTAGAACAA-TTC
1 CTAGAACAATTTC
14285558 CTAGAACAATTTC
1 CTAGAACAATTTC
14285571 CTAGA
1 CTAGA
14285576 TCGATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (13 bp):
CTAGAACAATTTC
Found at i:14287641 original size:22 final size:24
Alignment explanation
Indices: 14287608--14287654 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
14287598 CTTAGGAATT
14287608 TTTAAAATTAAAA-TTAA-ATTAA
1 TTTAAAATTAAAATTTAAGATTAA
14287630 TTTATAAA-TAAAATTTAAGATTAA
1 TTTA-AAATTAAAATTTAAGATTAA
14287654 T
1 T
14287655 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.41
23 7 0.32
24 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTAAAATTAAAATTTAAGATTAA
Found at i:14287757 original size:18 final size:18
Alignment explanation
Indices: 14287734--14287773 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14287724 CATAAAGAGT
14287734 AAATAAAAATAAA-TAAA
1 AAATAAAAATAAAGTAAA
*
14287751 CAAATAAAATTAAAGTAAA
1 -AAATAAAAATAAAGTAAA
14287770 AAAT
1 AAAT
14287774 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAAAAATAAAGTAAA
Found at i:14287783 original size:28 final size:29
Alignment explanation
Indices: 14287738--14287817 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 29
14287728 AAGAGTAAAT
* *
14287738 AAAAATAAATAAACAAATAAAATTAAAGTA
1 AAAAATTAAT-AATAAATAAAATTAAAGTA
* * *
14287768 AAAAATTTATAA-AAATGAAA-TATAGTA
1 AAAAATTAATAATAAATAAAATTAAAGTA
*
14287795 AATAATTAATAATAAATGAAAAT
1 AAAAATTAATAATAAAT-AAAAT
14287818 ATGTATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 16 0.40
28 11 0.28
29 5 0.12
30 8 0.20
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAATTAATAATAAATAAAATTAAAGTA
Found at i:14288501 original size:2 final size:2
Alignment explanation
Indices: 14288496--14288524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14288486 TTCCTGGTTT
14288496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14288525 CTTATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14288802 original size:28 final size:28
Alignment explanation
Indices: 14288754--14288839 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 28
14288744 TTTTTTTGTC
14288754 TATCATTTTTTTTTGAAACATATTAAAATTA
1 TATCA-TTTTTTTT--AACATATTAAAATTA
*
14288785 TATCATTTTTTTTAACAT-CTAAAATT-
1 TATCATTTTTTTTAACATATTAAAATTA
* *
14288811 T-TTATTTTTTTT-TCATATTTTAAAATTA
1 TATCATTTTTTTTAACATA--TTAAAATTA
14288839 T
1 T
14288840 TTTTATGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
24 3 0.06
25 10 0.21
26 1 0.02
27 14 0.30
28 6 0.13
30 8 0.17
31 5 0.11
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (28 bp):
TATCATTTTTTTTAACATATTAAAATTA
Found at i:14290916 original size:27 final size:28
Alignment explanation
Indices: 14290858--14290917 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
14290848 TAAAATTTTA
*
14290858 AAAATATGGAAAATGTTTTCAGAAATTC
1 AAAATATGGAAAATGTTTTAAGAAATTC
*
14290886 AAAATATTGAAAACT-TTTTAAGAAATT-
1 AAAATATGGAAAA-TGTTTTAAGAAATTC
14290913 AAAAT
1 AAAAT
14290918 CTAAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.17
28 23 0.79
29 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (28 bp):
AAAATATGGAAAATGTTTTAAGAAATTC
Found at i:14297452 original size:24 final size:24
Alignment explanation
Indices: 14297425--14297482 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
14297415 AAAATAGTAA
14297425 GAATGAAGAAAATATAGCTTTGAG
1 GAATGAAGAAAATATAGCTTTGAG
14297449 GAATGAAGAAAATATAGCTTTGAG
1 GAATGAAGAAAATATAGCTTTGAG
**
14297473 GCGTGAAGAA
1 GAATGAAGAA
14297483 CACTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.22
Consensus pattern (24 bp):
GAATGAAGAAAATATAGCTTTGAG
Found at i:14297774 original size:3 final size:3
Alignment explanation
Indices: 14297768--14297793 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14297758 TTTTGAAATA
14297768 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14297794 AAGGTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.