Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 113 of 193
Found at i:36209274 original size:2 final size:2
Alignment explanation
Indices: 36209267--36209291 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36209257 TATTGGCCAG
36209267 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 T
36209292 CAATTTACAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36210453 original size:25 final size:26
Alignment explanation
Indices: 36210425--36210479 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
36210415 TTTAAAGTTA
*
36210425 TAATTATTTTAA-ATTTTTAT-AAATG
1 TAATT-TTTTAACATATTTATCAAATG
*
36210450 TAA-TTTTTAACATATTTATCAAATT
1 TAATTTTTTAACATATTTATCAAATG
36210475 TAATT
1 TAATT
36210480 CACATGATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.24
24 8 0.32
25 10 0.40
26 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
TAATTTTTTAACATATTTATCAAATG
Found at i:36217959 original size:7 final size:7
Alignment explanation
Indices: 36217892--36217960 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
36217882 TCAAAAAAAA
36217892 GTCAACG
1 GTCAACG
*
36217899 GTCAA-T
1 GTCAACG
*
36217905 GTCAACA
1 GTCAACG
* *
36217912 ATCAACA
1 GTCAACG
*
36217919 GTCAATG
1 GTCAACG
*
36217926 GTCAACT
1 GTCAACG
*
36217933 GTTAACG
1 GTCAACG
*
36217940 GTCAATG
1 GTCAACG
36217947 GTCAACG
1 GTCAACG
36217954 GTCAACG
1 GTCAACG
36217961 AGTTAGGTCG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
6 5 0.10
7 43 0.90
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (7 bp):
GTCAACG
Found at i:36217960 original size:21 final size:21
Alignment explanation
Indices: 36217891--36217960 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
36217881 CTCAAAAAAA
36217891 AGTCAACGGTCAAT-GTCAAC
1 AGTCAACGGTCAATGGTCAAC
* *
36217911 AATCAACAGTCAATGGTCAAC
1 AGTCAACGGTCAATGGTCAAC
* *
36217932 TGTTAACGGTCAATGGTCAAC
1 AGTCAACGGTCAATGGTCAAC
*
36217953 GGTCAACG
1 AGTCAACG
36217961 AGTTAGGTCG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 12 0.29
21 29 0.71
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
AGTCAACGGTCAATGGTCAAC
Found at i:36223363 original size:30 final size:30
Alignment explanation
Indices: 36223329--36223423 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
36223319 GTAAAGTGGT
* *
36223329 AATTTTTGATGAAATCGAGATTAAAAATGG
1 AATTTTTGATGAAATCGGGGTTAAAAATGG
*
36223359 AA-TTTTG--GAAAGTTCGGGGGT-AAAATGG
1 AATTTTTGATGAAA--TCGGGGTTAAAAATGG
*
36223387 TAATTTTTGATGAAATCGGGGTTAAAAATAG
1 -AATTTTTGATGAAATCGGGGTTAAAAATGG
36223418 AATTTT
1 AATTTT
36223424 AAAAGGTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.08
28 7 0.13
29 12 0.23
30 20 0.38
31 6 0.11
32 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
AATTTTTGATGAAATCGGGGTTAAAAATGG
Found at i:36223388 original size:59 final size:59
Alignment explanation
Indices: 36223317--36223630 Score: 283
Period size: 59 Copynumber: 5.1 Consensus size: 59
36223307 GAAGATTTAA
* * *
36223317 GGGTAAAGTGGTAATTTTTGATGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGG
* * *
36223376 GGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATAGAATTTT-AAAAGGTTTGG
1 GGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAA-GTTTGG
* * * * * *
36223435 GGGTAAAATGGTAATTTTGGGTGTAATC-AGGGTTAAAAATGTAATTTTGGAAATTTTAG
1 GGGTAAAATGGTAATTTTTGATGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTTGG
* * * * * *
36223494 GGGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGGATGTTGGAAAGTTTAGGAAGTT
1 GGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAAT-TTTG---G---A--AAGTT
36223559 TGG
57 TGG
* * * *
36223562 GGGTAAAATGGTATTTTTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTGA
1 GGGTAAAATGGTA--ATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGG
36223622 GGGTCAAAA
1 GGGT-AAAA
36223631 ATAATTTTTT
Statistics
Matches: 208, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
58 3 0.01
59 131 0.63
60 17 0.08
61 4 0.02
62 1 0.00
63 1 0.00
65 1 0.00
66 1 0.00
68 22 0.11
69 9 0.04
70 18 0.09
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGG
Found at i:36223450 original size:118 final size:123
Alignment explanation
Indices: 36223317--36223618 Score: 339
Period size: 118 Copynumber: 2.5 Consensus size: 123
36223307 GAAGATTTAA
* * * *
36223317 GGGTAAAGTGGTAATTTTTGATGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTCGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
* *
36223382 AATGGTAATTTTTGATGAAATCGGGGTTAAAAATAGAAT-TT-TAAA-A-G-GTTTGG
66 AATGGTAATTTTTGATAAAATCGGGGTTAAAAATAGAATGTTGGAAATAGGAGTTTGG
* * * * *
36223435 GGGTAAAATGGTAATTTTGGGTGTAATC-AGGGTTAAAAATGTAATTTTGGAAATTTTAGGGGTA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTA
* * * *
36223499 AAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGGATGTTGGAAAGTTTAGGAAGTTTGG
65 AAATGGTAATTTTTGATAAAATCGGGGTTAAAAATAGAATGTTGGAAA---TAGG-AGTTTGG
* *
36223562 GGGTAAAATGGTATTTTTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTT
1 GGGTAAAATGGTA--ATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
36223619 TGAGGGTCAA
Statistics
Matches: 150, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
117 1 0.01
118 88 0.59
119 2 0.01
120 3 0.02
124 1 0.01
125 1 0.01
127 19 0.13
128 19 0.13
129 16 0.11
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (123 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
AATGGTAATTTTTGATAAAATCGGGGTTAAAAATAGAATGTTGGAAATAGGAGTTTGG
Found at i:36223531 original size:30 final size:30
Alignment explanation
Indices: 36223320--36223531 Score: 88
Period size: 30 Copynumber: 7.2 Consensus size: 30
36223310 GATTTAAGGG
* * * * * *
36223320 TAAAGTGGTAATTTTTGATGAAATCGAGAT
1 TAAAATGGTAATTTTTGGTAAAATTGGGGT
* *
36223350 TAAAAATGG-AA-TTTTGG-AAAGTTCGGGGG
1 T-AAAATGGTAATTTTTGGTAAAATT-GGGGT
* * *
36223379 TAAAATGGTAATTTTTGATGAAATCGGGGT
1 TAAAATGGTAATTTTTGGTAAAATTGGGGT
* *
36223409 TAAAAATAG-AA--TTT--TAAAAGGTTTGGGGG
1 T-AAAATGGTAATTTTTGGTAAAA---TTGGGGT
* ** **
36223438 TAAAATGGTAATTTTGGGTGTAATCAGGGT
1 TAAAATGGTAATTTTTGGTAAAATTGGGGT
*
36223468 TAAAAAT-GTAA-TTTTGG-AAATTTTAGGGG-
1 T-AAAATGGTAATTTTTGGTAAA-ATT-GGGGT
36223497 TAAAATGGTAATTTTTGGTAAAATTGGGGT
1 TAAAATGGTAATTTTTGGTAAAATTGGGGT
36223527 TAAAA
1 TAAAA
36223532 ATGGGATGTT
Statistics
Matches: 130, Mismatches: 31, Indels: 42
0.64 0.15 0.21
Matches are distributed among these distances:
26 4 0.03
28 25 0.19
29 33 0.25
30 40 0.31
31 25 0.19
33 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (30 bp):
TAAAATGGTAATTTTTGGTAAAATTGGGGT
Found at i:36224739 original size:24 final size:26
Alignment explanation
Indices: 36224712--36224759 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
36224702 TTTTTTTATA
36224712 TTATTAAT-AAATA-TCATTATTACT
1 TTATTAATAAAATATTCATTATTACT
*
36224736 TTATTATTAAAATATTCATTATTA
1 TTATTAATAAAATATTCATTATTA
36224760 TTAAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATTAATAAAATATTCATTATTACT
Found at i:36224766 original size:19 final size:19
Alignment explanation
Indices: 36224736--36224781 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
36224726 CATTATTACT
*
36224736 TTATTATT-AAAATATTCA
1 TTATTATTAAAAACATTCA
*
36224754 TTATTATTAAAAACATTTA
1 TTATTATTAAAAACATTCA
36224773 TTATTATTA
1 TTATTATTA
36224782 TTAATATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAAACATTCA
Found at i:36225518 original size:17 final size:17
Alignment explanation
Indices: 36225498--36225549 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
36225488 ATTATTTCAT
*
36225498 ATTTAAGCTAAATTTAA
1 ATTTAAACTAAATTTAA
36225515 ATTTAGAAC-AAATTTAA
1 ATTTA-AACTAAATTTAA
*
36225532 ATTTAAATTAAATTTAA
1 ATTTAAACTAAATTTAA
36225549 A
1 A
36225550 CTTAGAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
ATTTAAACTAAATTTAA
Found at i:36225536 original size:34 final size:35
Alignment explanation
Indices: 36225498--36225564 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36225488 ATTATTTCAT
* *
36225498 ATTTAAGCTAAATTTAAATTTAG-AACAAATTTAA
1 ATTTAAACTAAATTTAAACTTAGAAACAAATTTAA
*
36225532 ATTTAAATTAAATTTAAACTTAGAAACAAATTT
1 ATTTAAACTAAATTTAAACTTAGAAACAAATTT
36225565 GAAACCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 20 0.69
35 9 0.31
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (35 bp):
ATTTAAACTAAATTTAAACTTAGAAACAAATTTAA
Found at i:36226285 original size:200 final size:200
Alignment explanation
Indices: 36225937--36226454 Score: 736
Period size: 200 Copynumber: 2.6 Consensus size: 200
36225927 AGTTTCTTTG
* *
36225937 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGTTCTCATTGATCGT
1 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGTTCGCATTGAGCGT
* * * *
36226002 TG-GTTTGATTTGGTCTTCTTTTTAGTGTCTCATCAGGAAGATGACCGCCTCGCTTATTTTAATT
66 TGAG-TTGGTAT--TCTTC--TCT-GTATCTCATCAGGAAGATGACCGCCTCGCTTATTTTAATT
* * * * *
36226066 CGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCATTTTTCTGTATTTCATCAGGAAGCTA
125 CGCTTCTCTAGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTA
36226131 ACCATTTTATT
190 ACCATTTTATT
* *
36226142 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGCATTGAGCGT
1 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGTTCGCATTGAGCGT
* * *
36226207 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGATGATGACCGCCTCTG-TTGTTTTAATTTGCTT
66 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC-GCTTATTTTAATTCGCTT
36226271 CTCTAGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
130 CTCTAGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
36226336 TTTATT
195 TTTATT
** * * **
36226342 GTTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGA-TTGATTCGTGTTGAGCG
1 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTG-TTCGCATTGAGCG
*
36226406 TTGAATTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGC
65 TTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGC
36226455 CGTCTTGTTG
Statistics
Matches: 283, Mismatches: 26, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
199 4 0.01
200 202 0.71
201 3 0.01
203 5 0.02
205 68 0.24
206 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (200 bp):
ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGTTCGCATTGAGCGT
TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTATTTTAATTCGCTTC
TCTAGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATT
TTATT
Found at i:36235729 original size:58 final size:59
Alignment explanation
Indices: 36235483--36235887 Score: 423
Period size: 59 Copynumber: 6.9 Consensus size: 59
36235473 TTGGGAAAAT
* * * * * * *
36235483 TTAGGGTTAAGAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGGTAATTTTTGATGAAA
1 TTAGGGTTAAAAATGGAATTTTGGAAAG-TTTGGGGGTAAAATGGTAATTTTTGGTGAAA
* * * * * *
36235542 TAAGGATGAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTTGT-AAA
1 TTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
* * * * * * *
36235600 ATCGAGGTTAAAAATAGAATTTT-AAAAGGTTTAGGGGTAAAATGGTAATTTTGGGTGTAA
1 TTAG-GGTTAAAAATGGAATTTTGGAAA-GTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
*
36235660 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT-AAATGGTAATTTTTGGTGAAA
1 TTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
* * * * *
36235718 TTAGGGTTAAAAAT-GAGATTTTGGAAAGTTTAGGGCTAAAATGGTAACTTTGGGTAAAA
1 TTAGGGTTAAAAATGGA-ATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
* *
36235777 TTAGGGTTAAAAATGGAATTTTGGAAAATTCT-GAGGTAAAATGGTAA-TTTTGGTGAAA
1 TTAGGGTTAAAAATGGAATTTTGGAAAGTT-TGGGGGTAAAATGGTAATTTTTGGTGAAA
*
36235835 TTTA-GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTCAAAAT-ATAATTTTTG
1 -TTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT-AAAATGGTAATTTTTG
36235888 ATAGTTTAGG
Statistics
Matches: 290, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.01
58 98 0.34
59 176 0.61
60 13 0.04
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.35
Consensus pattern (59 bp):
TTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
Found at i:36235758 original size:117 final size:119
Alignment explanation
Indices: 36235550--36235865 Score: 416
Period size: 117 Copynumber: 2.7 Consensus size: 119
36235540 AATAAGGATG
* * * * *
36235550 AAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTTGT-AAAATCGAGGTTAAAAA
1 AAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATTAG-GGTTAAAAA
* * * ** *
36235614 T-AGAATTTT-AAAAGGTTTAGGGGTAAAATGGTAATTTTGGGTGTAATTGGGGTT
65 TGAGAATTTTGGAAA-GTTTAGGGCTAAAATGGTAACTTTGGGTAAAATTAGGGTT
36235668 AAAAATGGAATTTTGGAAAGTTTGGGGGT-AAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAT
1 AAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAT
36235732 GAG-ATTTTGGAAAGTTTAGGGCTAAAATGGTAACTTTGGGTAAAATTAGGGTT
66 GAGAATTTTGGAAAGTTTAGGGCTAAAATGGTAACTTTGGGTAAAATTAGGGTT
* *
36235785 AAAAATGGAATTTTGGAAAATTCT-GAGGTAAAATGGTAA-TTTTGGTGAAATTTA-GGTTAAAA
1 AAAAATGGAATTTTGGAAAGTT-TGGGGGTAAAATGGTAATTTTTGGTGAAA-TTAGGGTTAAAA
36235847 ATG-GAATTTTGGAAAGTTT
64 ATGAGAATTTTGGAAAGTTT
36235866 GGGGGTCAAA
Statistics
Matches: 178, Mismatches: 13, Indels: 15
0.86 0.06 0.07
Matches are distributed among these distances:
116 1 0.01
117 127 0.71
118 50 0.28
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.35
Consensus pattern (119 bp):
AAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAT
GAGAATTTTGGAAAGTTTAGGGCTAAAATGGTAACTTTGGGTAAAATTAGGGTT
Found at i:36235817 original size:28 final size:28
Alignment explanation
Indices: 36235550--36235861 Score: 135
Period size: 29 Copynumber: 10.7 Consensus size: 28
36235540 AATAAGGATG
* * *
36235550 AAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAAATGGAATTTTGGAAAATT-TAGGTT
* **
36235579 -AAAATGGTAATTTTTTGTAAAATCGAGGTT
1 AAAAATGG-AA--TTTTGGAAAATTTAGGTT
* *
36235609 AAAAATAGAATTTT--AAAAGGTTTAGGGGT
1 AAAAATGGAATTTTGGAAAA--TTTA-GGTT
** **
36235638 -AAAATGGTAATTTTGGGTGTAATTGGGGTT
1 AAAAATGG-AATTTT-GG-AAAATTTAGGTT
* * *
36235668 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAAATGGAATTTTGGAAAATTT-AGGTT
*
36235697 --AAATGGTAATTTTTGGTGAAA-TTAGGGTT
1 AAAAATGG-AA-TTTTGG-AAAATTTA-GGTT
* *
36235726 AAAAAT-GAGATTTTGGAAAGTTTAGGGCT
1 AAAAATGGA-ATTTTGGAAAATTTA-GGTT
*
36235755 -AAAATGGTAACTTTGGGTAAAA-TTAGGGTT
1 AAAAATGG-AA-TTTTGG-AAAATTTA-GGTT
36235785 AAAAATGGAATTTTGGAAAATTCTGAGG-T
1 AAAAATGGAATTTTGGAAAATT-T-AGGTT
*
36235814 -AAAATGGTAATTTTGGTGAAATTTAGGTT
1 AAAAATGG-AATTTTGG-AAAATTTAGGTT
36235843 AAAAATGGAATTTTGGAAA
1 AAAAATGGAATTTTGGAAA
36235862 GTTTGGGGGT
Statistics
Matches: 217, Mismatches: 32, Indels: 69
0.68 0.10 0.22
Matches are distributed among these distances:
26 4 0.02
27 6 0.03
28 47 0.22
29 69 0.32
30 50 0.23
31 39 0.18
33 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (28 bp):
AAAAATGGAATTTTGGAAAATTTAGGTT
Found at i:36236826 original size:24 final size:26
Alignment explanation
Indices: 36236799--36236846 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
36236789 TTTTTTTATA
36236799 TTATTAAT-AAATA-TCATTATTACT
1 TTATTAATAAAATATTCATTATTACT
*
36236823 TTATTATTAAAATATTCATTATTA
1 TTATTAATAAAATATTCATTATTA
36236847 TTAAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATTAATAAAATATTCATTATTACT
Found at i:36236853 original size:19 final size:19
Alignment explanation
Indices: 36236823--36236868 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
36236813 CATTATTACT
*
36236823 TTATTATT-AAAATATTCA
1 TTATTATTAAAAACATTCA
*
36236841 TTATTATTAAAAACATTTA
1 TTATTATTAAAAACATTCA
36236860 TTATTATTA
1 TTATTATTA
36236869 TTGATGCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAAACATTCA
Found at i:36237594 original size:17 final size:16
Alignment explanation
Indices: 36237583--36237651 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 16
36237573 TATTTAAGCT
36237583 AAATTTAAATTTAGAAC
1 AAATTTAAATTTA-AAC
*
36237600 AAATTTAAATTTAAAA
1 AAATTTAAATTTAAAC
*
36237616 ATGAATTTTAAATTTAAATTT
1 A--AA-TTTAAATTTAAA--C
36237637 AAA-TTAAATTTAAAC
1 AAATTTAAATTTAAAC
36237652 TTAGAAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.07
17 24 0.55
18 2 0.05
19 14 0.32
21 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTTAAATTTAAAC
Found at i:36237643 original size:11 final size:12
Alignment explanation
Indices: 36237582--36237650 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 12
36237572 ATATTTAAGC
36237582 TAAATTTAAATT
1 TAAATTTAAATT
*
36237594 TAGAA--CAAATT
1 TA-AATTTAAATT
*
36237605 TAAATTTAAAAAT
1 TAAATTT-AAATT
* *
36237618 GAATTTTAAATT
1 TAAATTTAAATT
36237630 TAAATTTAAA-T
1 TAAATTTAAATT
36237641 TAAATTTAAA
1 TAAATTTAAA
36237651 CTTAGAAACA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 18 0.40
12 14 0.31
13 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:36237645 original size:5 final size:6
Alignment explanation
Indices: 36237582--36237650 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
36237572 ATATTTAAGC
* * * *
36237582 TAAATT TAAATT TAGAA-- CAAATT TAAATT TAAAAAT GAATTT TAAATT
1 TAAATT TAAATT TA-AATT TAAATT TAAATT T-AAATT TAAATT TAAATT
36237630 TAAATT TAAA-T TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAA
36237651 CTTAGAAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 36 0.72
7 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:36237665 original size:42 final size:42
Alignment explanation
Indices: 36237582--36237665 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
36237572 ATATTTAAGC
* **
36237582 TAAATTTAAATTTAGAACAAATTTAAATTTAAAAATGAATTT
1 TAAATTTAAATTTAGAACAAATTTAAACTTAAAAACAAATTT
* *
36237624 TAAATTTAAATTTA-AATTAAATTTAAACTTAGAAACAAATTT
1 TAAATTTAAATTTAGAA-CAAATTTAAACTTAAAAACAAATTT
36237666 GAAACCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (42 bp):
TAAATTTAAATTTAGAACAAATTTAAACTTAAAAACAAATTT
Found at i:36238345 original size:30 final size:30
Alignment explanation
Indices: 36238311--36238368 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
36238301 CAGATTTAGC
*
36238311 TCGACTAACCAAATCACTGAATACCCTAAA
1 TCGACTAACCAAATCACTAAATACCCTAAA
36238341 TCGACTAACCAAATCACTAAATACCCTA
1 TCGACTAACCAAATCACTAAATACCCTA
36238369 TCATGATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.21
Consensus pattern (30 bp):
TCGACTAACCAAATCACTAAATACCCTAAA
Found at i:36239487 original size:12 final size:12
Alignment explanation
Indices: 36239470--36239504 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
36239460 AAAATCCTTC
36239470 ATAATTATAAAT
1 ATAATTATAAAT
36239482 ATAATTATAATAT
1 ATAATTATAA-AT
36239495 ATAA-TATAAA
1 ATAATTATAAA
36239505 GTCTATAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 15 0.68
13 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTATAAAT
Found at i:36240729 original size:21 final size:21
Alignment explanation
Indices: 36240703--36240766 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
36240693 CTCGAAAAAA
*
36240703 GTCAACGATCAACGGTCAACT
1 GTCAACGATCAACGGTCAACG
* *
36240724 GTCAACGATTAACGATCAACG
1 GTCAACGATCAACGGTCAACG
36240745 GTCAACTG-TCAACGGTCAACG
1 GTCAAC-GATCAACGGTCAACG
36240766 G
1 G
36240767 GTCGGGTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (21 bp):
GTCAACGATCAACGGTCAACG
Found at i:36240766 original size:7 final size:7
Alignment explanation
Indices: 36240703--36240766 Score: 74
Period size: 7 Copynumber: 9.1 Consensus size: 7
36240693 CTCGAAAAAA
36240703 GTCAACG
1 GTCAACG
*
36240710 ATCAACG
1 GTCAACG
*
36240717 GTCAACT
1 GTCAACG
36240724 GTCAACG
1 GTCAACG
* *
36240731 ATTAACG
1 GTCAACG
*
36240738 ATCAACG
1 GTCAACG
*
36240745 GTCAACT
1 GTCAACG
36240752 GTCAACG
1 GTCAACG
36240759 GTCAACG
1 GTCAACG
36240766 G
1 G
36240767 GTCGGGTCGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:36241377 original size:30 final size:30
Alignment explanation
Indices: 36241346--36241403 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
36241336 TTTATTTTAT
36241346 TTTAAAAATATT-TTTATTAGGATTTAATA
1 TTTAAAAATATTATTTATTAGGATTTAATA
* * *
36241375 TTTAAAGATATTATTTATTTGTATTTAAT
1 TTTAAAAATATTATTTATTAGGATTTAAT
36241404 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (30 bp):
TTTAAAAATATTATTTATTAGGATTTAATA
Found at i:36241645 original size:18 final size:18
Alignment explanation
Indices: 36241622--36241656 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36241612 TATAAATTAA
36241622 AAAGTCCAATTACAAAAG
1 AAAGTCCAATTACAAAAG
36241640 AAAGTCCAATTACAAAA
1 AAAGTCCAATTACAAAA
36241657 TATAGGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAGTCCAATTACAAAAG
Found at i:36243587 original size:29 final size:29
Alignment explanation
Indices: 36243554--36243880 Score: 122
Period size: 29 Copynumber: 11.2 Consensus size: 29
36243544 CCCAAACTTT
36243554 CCAAAATT-CCATTTTTTAACCCGATTTCA
1 CCAAAATTACCA-TTTTTAACCCGATTTCA
* *
36243583 CCAAAAATTACCA-TTTTACCCCAAACTTT--
1 CC-AAAATTACCATTTTTAACCC-GA-TTTCA
*
36243612 CC-AAACT-CCTATTTTTAACCCCGATTTCA
1 CCAAAATTACC-ATTTTTAA-CCCGATTTCA
* *
36243641 CCAAAATTACCA-TTTTACCCCCAAACTTT--
1 CCAAAATTACCATTTTTA-ACCC-GA-TTTCA
*
36243670 CCAAAATT-CCATTTTTAACCCCGATTGCA
1 CCAAAATTACCATTTTTAA-CCCGATTTCA
* *
36243699 CCCAAAATTACCA-TTTTACCCTCGAACCTT--
1 -CCAAAATTACCATTTTTAACC-CG-A-TTTCA
* * * *
36243729 CTAAAATT-CTATTTTTAACCCCAATTCA
1 CCAAAATTACCATTTTTAACCCGATTTCA
* *
36243757 CTAAAAATTACCA-TTTTACCCACGAACTTT--
1 C-CAAAATTACCATTTTTAACC-CG-A-TTTCA
*
36243787 CCAAAATT-CCATTTTTAATCTCGATTTCA
1 CCAAAATTACCATTTTTAA-CCCGATTTCA
* *
36243816 TCAAAAATTACCA-TTTTACCCTCGAACTTT--
1 -CCAAAATTACCATTTTTAACC-CG-A-TTTCA
*
36243846 CCAAAA-TCCCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTTAA-CCCGATTTCA
36243875 CCAAAA
1 CCAAAA
36243881 ATTATCACTT
Statistics
Matches: 221, Mismatches: 33, Indels: 88
0.65 0.10 0.26
Matches are distributed among these distances:
26 4 0.02
27 17 0.08
28 23 0.10
29 102 0.46
30 49 0.22
31 20 0.09
32 6 0.03
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (29 bp):
CCAAAATTACCATTTTTAACCCGATTTCA
Found at i:36243735 original size:59 final size:59
Alignment explanation
Indices: 36243548--36243925 Score: 498
Period size: 59 Copynumber: 6.5 Consensus size: 59
36243538 TTGACCCCCA
*
36243548 AACTTTCCAAAATTCCATTTTTTAA-CCCGATTTCACCAAAAATTACCATTTTACCC-CA
1 AACTTTCCAAAATTCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * *
36243606 AACTTTCC-AAACTCCTATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* *
36243664 AACTTTCCAAAATTCCATTTTTAACCCCGATTGCACCCAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * * * * *
36243723 AACCTTCTAAAATTCTATTTTTAACCCC-AATTCACTAAAAATTACCATTTTACCCACG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * *
36243781 AACTTTCCAAAATTCCATTTTTAATCTCGATTTCATCAAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * *
36243840 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTATCACTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * *
36243899 AA-TCTTCTAAAATCCCATTCTTAACCC
1 AACT-TTCCAAAATTCCATTTTTAACCC
36243926 TAAATTTTCC
Statistics
Matches: 283, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
57 31 0.11
58 100 0.35
59 152 0.54
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
Found at i:36243789 original size:117 final size:117
Alignment explanation
Indices: 36243548--36243925 Score: 503
Period size: 117 Copynumber: 3.2 Consensus size: 117
36243538 TTGACCCCCA
*
36243548 AACTTTCCAAAATTCCATTTTTTAA-CCCGATTTCACCAAAAATTACCATTTTACCC-CAAACTT
1 AACTTTCCAAAATTCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAACTT
* * * *
36243611 TCCAAACTCCTATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCA
65 TCCAAAATCCTATTTTTAACCCCGATTTCACAAAAATTACCATTTTACCCACG
* * *
36243664 AACTTTCCAAAATTCCATTTTTAACCCCGATTGCACCCAAAATTACCATTTTACCCTCGAACCTT
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
* * *
36243729 CTAAAATTCTATTTTTAACCCC-AATTCACTAAAAATTACCATTTTACCCACG
66 CCAAAATCCTATTTTTAACCCCGATTTCAC-AAAAATTACCATTTTACCCACG
* * *
36243781 AACTTTCCAAAATTCCATTTTTAATCTCGATTTCATCAAAAATTACCATTTTACCCTCGAACTTT
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
* * * *
36243846 CCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTATCACTTTACCCTCG
66 CCAAAATCCTATTTTTAACCCCGATTTCA-CAAAAATTACCATTTTACCCACG
* * *
36243899 AA-TCTTCTAAAATCCCATTCTTAACCC
1 AACT-TTCCAAAATTCCATTTTTAACCC
36243926 TAAATTTTCC
Statistics
Matches: 227, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
115 7 0.03
116 52 0.23
117 123 0.54
118 44 0.19
119 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (117 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
CCAAAATCCTATTTTTAACCCCGATTTCACAAAAATTACCATTTTACCCACG
Found at i:36247039 original size:23 final size:23
Alignment explanation
Indices: 36246912--36247040 Score: 134
Period size: 23 Copynumber: 5.5 Consensus size: 23
36246902 GAACACTAGC
*
36246912 GTGCTCTCTGTTTAGCAC-GTCT
1 GTGCTCTCTGTTTAGCACTGTGT
* * *
36246934 CATGCTCTCTATTATTAACACTGTGT
1 -GTGCTCTCT-GT-TTAGCACTGTGT
* *
36246960 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGTTTAGCACTGTGT
* * *
36246983 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGTTTAGCACTGTGT
*
36247006 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGTTTAGCACTGTGT
36247029 GTGCTCTCTGTT
1 GTGCTCTCTGTT
36247041 GCCCAGCACT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
23 70 0.80
24 1 0.01
25 14 0.16
26 3 0.03
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGTTTAGCACTGTGT
Found at i:36247079 original size:69 final size:69
Alignment explanation
Indices: 36246952--36247087 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
36246942 CTATTATTAA
*
36246952 CACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGT
1 CACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGT
36247017 TTAG
66 TTAG
*
36247021 CACTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGTACTTTG-GTACTTT
1 CACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGTACTTTGTGTACTCT
36247082 CTGTTT
62 CTGTTT
36247088 GTTCCGTATA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
68 2 0.03
69 30 0.49
70 11 0.18
71 13 0.21
72 5 0.08
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (69 bp):
CACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGT
TTAG
Found at i:36252485 original size:5 final size:5
Alignment explanation
Indices: 36252477--36252553 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
36252467 AATGAAAAGT
* * *
36252477 TTTAA TTTAA TTAAA TAT-A TTT-- TTATAA TTTAA TTAAA TTT-A TTT--
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT-TAA TTTAA TTTAA TTTAA TTTAA
36252522 TTATAA TTTAA TTTAA TTTAA TTTTAA TTTAA
1 TT-TAA TTTAA TTTAA TTTAA -TTTAA TTTAA
36252554 AAGTATCTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
3 4 0.07
4 9 0.15
5 37 0.63
6 9 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:36252509 original size:28 final size:25
Alignment explanation
Indices: 36252477--36252553 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 25
36252467 AATGAAAAGT
36252477 TTTAATTTAATTAAATATATTTTTA
1 TTTAATTTAATTAAATATATTTTTA
*
36252502 --TAATTTAATTAAATTTATTTTTA
1 TTTAATTTAATTAAATATATTTTTA
* * *
36252525 --TAATTTAATTTAATTTAATTTTAA
1 TTTAATTTAATTAAATAT-ATTTTTA
36252549 TTTAA
1 TTTAA
36252554 AAGTATCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
23 37 0.80
24 6 0.13
26 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAATTTAATTAAATATATTTTTA
Found at i:36252539 original size:23 final size:23
Alignment explanation
Indices: 36252479--36252547 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
36252469 TGAAAAGTTT
*
36252479 TAATTTAATTAAATATATTTTTA
1 TAATTTAATTAAATTTATTTTTA
36252502 TAATTTAATTAAATTTATTTTTA
1 TAATTTAATTAAATTTATTTTTA
* *
36252525 TAATTTAATTTAATTTAATTTTA
1 TAATTTAATTAAATTTATTTTTA
36252548 ATTTAAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTTAATTAAATTTATTTTTA
Found at i:36257440 original size:26 final size:26
Alignment explanation
Indices: 36257388--36257440 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
36257378 CAAATTTGCC
**
36257388 TTTAAATTAAATAATAATATTTTAAT
1 TTTAAATTAAATAATAATATTAAAAT
36257414 TTTAAATTAATATAA-AATATTAAAAT
1 TTTAAATTAA-ATAATAATATTAAAAT
36257440 T
1 T
36257441 ATATAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTAAATTAAATAATAATATTAAAAT
Found at i:36258694 original size:34 final size:34
Alignment explanation
Indices: 36258656--36258723 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
36258646 AAAGTGAGAA
36258656 CTAAAGGTAAGTTGAAAGAGAATATGATCGATAT
1 CTAAAGGTAAGTTGAAAGAGAATATGATCGATAT
*
36258690 CTAAAGGTAAGTTGAAAGAGTATATGATCGATAT
1 CTAAAGGTAAGTTGAAAGAGAATATGATCGATAT
36258724 TTGTACATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (34 bp):
CTAAAGGTAAGTTGAAAGAGAATATGATCGATAT
Found at i:36261479 original size:6 final size:6
Alignment explanation
Indices: 36261465--36261494 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
36261455 CCTTGTATCA
*
36261465 AAACCC AAACTC AAACTC AAACTC AAACTC
1 AAACTC AAACTC AAACTC AAACTC AAACTC
36261495 GAACCCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (6 bp):
AAACTC
Found at i:36261503 original size:18 final size:18
Alignment explanation
Indices: 36261465--36261503 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36261455 CCTTGTATCA
*
36261465 AAACCCAAACTCAAACTC
1 AAACCCAAACTCAAACCC
* *
36261483 AAACTCAAACTCGAACCC
1 AAACCCAAACTCAAACCC
36261501 AAA
1 AAA
36261504 TCCTAAACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.36, G:0.03, T:0.10
Consensus pattern (18 bp):
AAACCCAAACTCAAACCC
Found at i:36265924 original size:11 final size:11
Alignment explanation
Indices: 36265908--36265954 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
36265898 TGATGAATCG
36265908 AATTAAAATTT
1 AATTAAAATTT
36265919 AATT--AATTAT
1 AATTAAAATT-T
*
36265929 ATATTTAAATTT
1 A-ATTAAAATTT
36265941 AATTAAAATTT
1 AATTAAAATTT
36265952 AAT
1 AAT
36265955 CTAATGAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
9 4 0.13
10 2 0.06
11 19 0.61
12 2 0.06
13 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTAAAATTT
Found at i:36265936 original size:16 final size:15
Alignment explanation
Indices: 36265908--36265959 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 15
36265898 TGATGAATCG
36265908 AATTAAAATTTAATT
1 AATTAAAATTTAATT
*
36265923 AATTATATATTTAAATTT
1 AATTA-AAATTT-AA-TT
36265941 AATTAAAATTTAATCT
1 AATTAAAATTTAAT-T
36265957 AAT
1 AAT
36265960 GAGCTCAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 6 0.19
16 11 0.35
17 7 0.23
18 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTAAAATTTAATT
Found at i:36266797 original size:21 final size:22
Alignment explanation
Indices: 36266768--36266808 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36266758 AATATTTAAT
**
36266768 ATTATAAATTTTCTATTTTTTA
1 ATTATAAATTTAATATTTTTTA
36266790 ATTA-AAATTTAATATTTTT
1 ATTATAAATTTAATATTTTT
36266809 ACTTTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTATAAATTTAATATTTTTTA
Found at i:36267657 original size:15 final size:15
Alignment explanation
Indices: 36267615--36267658 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
36267605 TTAAAAAATA
36267615 TATTATTTTTAA-TT
1 TATTATTTTTAATTT
* *
36267629 TAGTATTTAATAATTT
1 TATTATTT-TTAATTT
36267645 TATTATTTTTAATT
1 TATTATTTTTAATT
36267659 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 9 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TATTATTTTTAATTT
Found at i:36270470 original size:71 final size:71
Alignment explanation
Indices: 36270354--36270495 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
36270344 TATATAAGCC
36270354 CTTGCACTTACATAGTAAAGGATACAATCCTCCGACTCCAATTCTCTCATCTGATCCATCTCTTT
1 CTTGCACTTACATAGTAAAGGATACAATCCTCCGACTCCAATTCTCTCATCTGATCCATCTCTTT
36270419 ATCCCA
66 ATCCCA
36270425 CTTGCACTTACATAGTAAAGGATACAATCCTCCGACTCCAATTCTCTCATCTGATCCATCTCTTT
1 CTTGCACTTACATAGTAAAGGATACAATCCTCCGACTCCAATTCTCTCATCTGATCCATCTCTTT
36270490 ATCCCA
66 ATCCCA
36270496 TTCTTTTGTG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.27, C:0.32, G:0.08, T:0.32
Consensus pattern (71 bp):
CTTGCACTTACATAGTAAAGGATACAATCCTCCGACTCCAATTCTCTCATCTGATCCATCTCTTT
ATCCCA
Found at i:36271661 original size:2 final size:2
Alignment explanation
Indices: 36271654--36271680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36271644 GAATTCCACC
36271654 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36271681 AAATTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36277357 original size:27 final size:27
Alignment explanation
Indices: 36277309--36277369 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
36277299 AAACGAAACT
*
36277309 TTTTGGATACTCGAGGGTAAAATGGTAA
1 TTTT-GATACTCGAGGGCAAAATGGTAA
* *
36277337 TTTTGATTCTCGGGGGCAAAATGGTAA
1 TTTTGATACTCGAGGGCAAAATGGTAA
36277364 TTTTGA
1 TTTTGA
36277370 GAAATTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTTGATACTCGAGGGCAAAATGGTAA
Found at i:36277484 original size:29 final size:29
Alignment explanation
Indices: 36277442--36277663 Score: 116
Period size: 29 Copynumber: 7.7 Consensus size: 29
36277432 AATCGGGATA
* * *
36277442 AAAAACGGAGTTTTTGGACAT-TCGAGGGT
1 AAAAATGGAATTTTTGGAAATGTCG-GGGT
36277471 -AAAATGGTAA-TTTTGGAAATGTCGGGGT
1 AAAAATGG-AATTTTTGGAAATGTCGGGGT
* *
36277499 CAAAAATGGAATTTTT-GAAATTTTAGGGGT
1 -AAAAATGGAATTTTTGGAAA-TGTCGGGGT
* * * * *
36277529 GAAAATGTAATTTTGGGAAATTTAGGGGT
1 AAAAATGGAATTTTTGGAAATGTCGGGGT
* * * *
36277558 TAAAATGGAATTTTT-TAAAGTTTAGGGGT
1 AAAAATGGAATTTTTGGAAA-TGTCGGGGT
* * * **
36277587 AAAAATGTAATTTTTGGAAGTTTCAAGGT
1 AAAAATGGAATTTTTGGAAATGTCGGGGT
* *
36277616 CAAAAATAGAA-TTTTGG-AATTTCGGGGGT
1 -AAAAATGGAATTTTTGGAAATGTC-GGGGT
* * *
36277645 GAAAACGTAATTTTTGGAA
1 AAAAATGGAATTTTTGGAA
36277664 GTTTTAGGGT
Statistics
Matches: 152, Mismatches: 28, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
28 33 0.22
29 86 0.57
30 33 0.22
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAATGTCGGGGT
Found at i:36277539 original size:58 final size:59
Alignment explanation
Indices: 36277467--36277693 Score: 239
Period size: 58 Copynumber: 3.9 Consensus size: 59
36277457 GGACATTCGA
* *
36277467 GGGT-AAAATGGTAA-TTTTGGAAATGTCGGGGTCAAAAATGGAATTTTTGAAATTTTAG
1 GGGTGAAAAT-GTAATTTTTGGAAATTTCAGGGTCAAAAATGGAATTTTTGAAATTTTAG
* * * *
36277525 GGGTGAAAATGTAATTTTGGGAAATTT-AGGGGT-TAAAATGGAATTTTTTAAAGTTTAG
1 GGGTGAAAATGTAATTTTTGGAAATTTCA-GGGTCAAAAATGGAATTTTTGAAATTTTAG
* * * * * **
36277583 GGGTAAAAATGTAATTTTTGGAAGTTTCAAGGTCAAAAATAGAA-TTTTGGAATTTCGG
1 GGGTGAAAATGTAATTTTTGGAAATTTCAGGGTCAAAAATGGAATTTTTGAAATTTTAG
* * * * *
36277641 GGGTGAAAACGTAATTTTTGGAAGTTTTAGGGTCAAAAATGTAATTTTGGAAA
1 GGGTGAAAATGTAATTTTTGGAAATTTCAGGGTCAAAAATGGAATTTTTGAAA
36277694 AAAATTAGGG
Statistics
Matches: 138, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
58 104 0.75
59 34 0.25
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (59 bp):
GGGTGAAAATGTAATTTTTGGAAATTTCAGGGTCAAAAATGGAATTTTTGAAATTTTAG
Found at i:36277673 original size:29 final size:30
Alignment explanation
Indices: 36277494--36277692 Score: 164
Period size: 29 Copynumber: 6.8 Consensus size: 30
36277484 TGGAAATGTC
* *
36277494 GGGGTCAAAAATGGAATTTTT-GAAATTTTA
1 GGGGT-AAAAATGTAATTTTTGGAAGTTTTA
* * *
36277524 GGGGTGAAAATGTAATTTTGGGAA-ATTTA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTA
* * **
36277553 GGGGTTAAAATGGAATTTTTTAAAG-TTTA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTA
*
36277582 GGGGTAAAAATGTAATTTTTGGAAGTTTCA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTA
* **
36277612 -AGGTCAAAAATAG-AA-TTTTGGAA-TTTCG
1 GGGGT-AAAAAT-GTAATTTTTGGAAGTTTTA
* *
36277640 GGGGTGAAAACGTAATTTTTGGAAGTTTTA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTTA
36277670 -GGGTCAAAAATGTAA-TTTTGGAA
1 GGGGT-AAAAATGTAATTTTTGGAA
36277693 AAAAATTAGG
Statistics
Matches: 136, Mismatches: 23, Indels: 21
0.76 0.13 0.12
Matches are distributed among these distances:
27 1 0.01
28 10 0.07
29 94 0.69
30 30 0.22
31 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTTA
Found at i:36280471 original size:21 final size:21
Alignment explanation
Indices: 36280432--36280471 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36280422 TTTATTTAAA
*
36280432 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
36280453 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
36280472 TGCTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:36280521 original size:23 final size:21
Alignment explanation
Indices: 36280479--36280519 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36280469 AATTGCTGAT
*
36280479 AAAAGTTCTATATATCTATAG
1 AAAAGTTCGATATATCTATAG
*
36280500 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
36280520 TAATTAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:36280621 original size:14 final size:14
Alignment explanation
Indices: 36280602--36280630 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36280592 TAGATAAATA
36280602 ATAATCTATATAAC
1 ATAATCTATATAAC
36280616 ATAATCTATATAAC
1 ATAATCTATATAAC
36280630 A
1 A
36280631 AAGTAAAAAA
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:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:36282347 original size:19 final size:19
Alignment explanation
Indices: 36282325--36282364 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36282315 TTTTACTTTT
*
36282325 ATTATACTTTTCT-ATTCTA
1 ATTAAACTTTT-TGATTCTA
36282344 ATTAAACTTTTTGATTCTA
1 ATTAAACTTTTTGATTCTA
36282363 AT
1 AT
36282365 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTAAACTTTTTGATTCTA
Found at i:36286159 original size:17 final size:17
Alignment explanation
Indices: 36286137--36286226 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 17
36286127 AACCAAACAT
36286137 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* ** *
36286154 TTTAAAATTCA-AATATA
1 TTT-AAATTTATTTTAAA
* *
36286171 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
* * *
36286188 TTTGAATCTAGTTTAAA
1 TTTAAATTTATTTTAAA
*
36286205 TTT-AATGTTATTATAAA
1 TTTAAAT-TTATTTTAAA
36286222 TTTAA
1 TTTAA
36286227 TGTCCAATAT
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
16 9 0.17
17 37 0.70
18 7 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:36286239 original size:18 final size:17
Alignment explanation
Indices: 36286201--36286239 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36286191 GAATCTAGTT
* *
36286201 TAAATTTAATGTTATTA
1 TAAATTTAATGTCAATA
36286218 TAAATTTAATGTCCAATA
1 TAAATTTAATGT-CAATA
36286236 TAAA
1 TAAA
36286240 AATTAAGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TAAATTTAATGTCAATA
Found at i:36288211 original size:29 final size:29
Alignment explanation
Indices: 36288161--36288416 Score: 191
Period size: 29 Copynumber: 8.8 Consensus size: 29
36288151 ATAGGTACCT
** *
36288161 AAACTATCCAAAAATTGTATTTTGACCCTT
1 AAACT-TCCAAAAATTCCATTTTGACCCTC
* * * **
36288191 GAACTTTCAAAAATTCAATTTTTGACCCAA
1 AAACTTCCAAAAATTCCA-TTTTGACCCTC
*
36288221 AAACTTCC-AAAATTCCATTTTG-CCCCC
1 AAACTTCCAAAAATTCCATTTTGACCCTC
*
36288248 AAACTTCCAAAAATTCCATTTTTACCCTC
1 AAACTTCCAAAAATTCCATTTTGACCCTC
* * ** * *
36288277 GAACTCCCAAAAATTATATTTTTAAACCC-G
1 AAACTTCCAAAAATTCCA-TTTT-GACCCTC
* * *
36288307 AAACTTCCAAAAATTACATTTTTACCGTC
1 AAACTTCCAAAAATTCCATTTTGACCCTC
* *
36288336 GAACTTCCAAAAATTCCATTTTAACCACCTC
1 AAACTTCCAAAAATTCCATTTTGA-C-CCTC
*
36288367 AAAACTT-CAAAAATTACATTTT-A-CCTCC
1 -AAACTTCCAAAAATTCCATTTTGACCCT-C
*
36288395 GAACTTCCAAAAATTCCATTTT
1 AAACTTCCAAAAATTCCATTTT
36288417 TAAACCCGAA
Statistics
Matches: 182, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
27 19 0.10
28 36 0.20
29 61 0.34
30 40 0.22
31 21 0.12
32 5 0.03
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTGACCCTC
Found at i:36288327 original size:59 final size:59
Alignment explanation
Indices: 36288222--36288584 Score: 329
Period size: 59 Copynumber: 6.4 Consensus size: 59
36288212 TTGACCCAAA
** * *
36288222 AACTTCC-AAAATTCCA-TTTT-GCCCCCAAACTTCCAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTAAACCCGAAACTTCCAAAAATTACATTTTTACCCTCG
* ** *
36288278 AACTCCCAAAAATTATATTTTTAAACCCGAAACTTCCAAAAATTACATTTTTACCGTCG
1 AACTTCCAAAAATTCCATTTTTAAACCCGAAACTTCCAAAAATTACATTTTTACCCTCG
*
36288337 AACTTCCAAAAATTCCA-TTTTAACCACCTCAAAACTT-CAAAAATTACA-TTTTA-CCTCCG
1 AACTTCCAAAAATTCCATTTTTAA--ACC-CGAAACTTCCAAAAATTACATTTTTACCCT-CG
*
36288396 AACTTCCAAAAATTCCATTTTTAAACCCGAAACTT-C---AA-T---TTTTT-CCCCCG
1 AACTTCCAAAAATTCCATTTTTAAACCCGAAACTTCCAAAAATTACATTTTTACCCTCG
* *
36288446 AACATCCAAAAATTCCATTTTT-AACCTCGAAACTTCCAAAAATTACATTTTT-GCCTCCG
1 AACTTCCAAAAATTCCATTTTTAAACC-CGAAACTTCCAAAAATTACATTTTTACCCT-CG
** * *
36288505 AACTTTTAAAAATTCCATTTTT-AACCCTGAAACTTTC-AGAATTACCA-TTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTAAACCC-GAAACTTCCAAAAATTA-CATTTTTACCCTCG
* *
36288563 AA-TGTTCAAAAACTCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
36288585 GATATCGATT
Statistics
Matches: 257, Mismatches: 26, Indels: 46
0.78 0.08 0.14
Matches are distributed among these distances:
49 4 0.02
50 31 0.12
51 7 0.03
53 1 0.00
54 4 0.02
55 1 0.00
56 6 0.02
57 16 0.06
58 53 0.21
59 107 0.42
60 20 0.08
61 7 0.03
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (59 bp):
AACTTCCAAAAATTCCATTTTTAAACCCGAAACTTCCAAAAATTACATTTTTACCCTCG
Found at i:36288400 original size:88 final size:88
Alignment explanation
Indices: 36288249--36288538 Score: 241
Period size: 88 Copynumber: 3.4 Consensus size: 88
36288239 TTTGCCCCCA
* * *
36288249 AACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATTATATTTTTAAACCCGAAACTTC
1 AACTTCCAAAAATTCCATTTTAACCCTCAAACTCCCAAAAATTACATTTTTAAACCCGAAACTTC
36288314 CAAAAATTACATTTTTACCGTCG
66 CAAAAATTACATTTTTACCGTCG
* *
36288337 AACTTCCAAAAATTCCATTTTAACCACCTCAAAACT-TCAAAAATTACA-TTTT-ACCTCCG-AA
1 AACTTCCAAAAATTCCATTTTAA-C-CCTC-AAACTCCCAAAAATTACATTTTTAAAC-CCGAAA
*
36288398 CTTCCAAAAATTCCATTTTTA------
62 CTTCCAAAAATTACATTTTTACCGTCG
* * * ** * * *
36288419 AAC--CCGAAACTTCAATTTTTTCCCCCGAACAT-CCAAAAATTCCATTTTT-AACCTCGAAACT
1 AACTTCCAAAAATTCCATTTTAACCCTCAAAC-TCCCAAAAATTACATTTTTAAACC-CGAAACT
*
36288480 TCCAAAAATTACATTTTTGCC-TCCG
64 TCCAAAAATTACATTTTTACCGT-CG
** *
36288505 AACTTTTAAAAATTCCATTTTTAACCCTGAAACT
1 AACTTCCAAAAATTCCA-TTTTAACCCTCAAACT
36288539 TTCAGAATTA
Statistics
Matches: 157, Mismatches: 28, Indels: 34
0.72 0.13 0.16
Matches are distributed among these distances:
77 3 0.02
78 15 0.10
79 9 0.06
80 34 0.22
82 3 0.02
86 3 0.02
88 54 0.34
89 18 0.11
90 14 0.09
91 4 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (88 bp):
AACTTCCAAAAATTCCATTTTAACCCTCAAACTCCCAAAAATTACATTTTTAAACCCGAAACTTC
CAAAAATTACATTTTTACCGTCG
Found at i:36288418 original size:29 final size:29
Alignment explanation
Indices: 36288191--36288527 Score: 222
Period size: 29 Copynumber: 11.8 Consensus size: 29
36288181 TTTGACCCTT
* * *
36288191 GAACTTTCAAAAATTCAATTTTTGACC-CAA
1 GAACTTCCAAAAATTCCATTTTT-ACCTC-C
* * *
36288221 AAACTTCC-AAAATTCCA-TTTTGCCCCC
1 GAACTTCCAAAAATTCCATTTTTACCTCC
*
36288248 AAACTTCCAAAAATTCCATTTTTACC-CTC
1 GAACTTCCAAAAATTCCATTTTTACCTC-C
* ** *
36288277 GAACTCCCAAAAATTATATTTTTAAAC-CC
1 GAACTTCCAAAAATTCCATTTTT-ACCTCC
*
36288306 GAAACTTCCAAAAATTACATTTTTACCGT-C
1 G-AACTTCCAAAAATTCCATTTTTACC-TCC
* *
36288336 GAACTTCCAAAAATTCCATTTTAACCACCTCA
1 GAACTTCCAAAAATTCCATTTT---TACCTCC
* *
36288368 AAACTT-CAAAAATTACA-TTTTACCTCC
1 GAACTTCCAAAAATTCCATTTTTACCTCC
36288395 GAACTTCCAAAAATTCCATTTTTA-----
1 GAACTTCCAAAAATTCCATTTTTACCTCC
* * * * *
36288419 -AAC--CCGAAACTTCAATTTTTTCCCCC
1 GAACTTCCAAAAATTCCATTTTTACCTCC
*
36288445 GAACATCCAAAAATTCCATTTTTAACCT-C
1 GAACTTCCAAAAATTCCATTTTT-ACCTCC
* *
36288474 GAAACTTCCAAAAATTACATTTTTGCCTCC
1 G-AACTTCCAAAAATTCCATTTTTACCTCC
**
36288504 GAACTTTTAAAAATTCCATTTTTA
1 GAACTTCCAAAAATTCCATTTTTA
36288528 ACCCTGAAAC
Statistics
Matches: 243, Mismatches: 39, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
21 14 0.06
23 3 0.01
27 23 0.09
28 25 0.10
29 101 0.42
30 58 0.24
31 11 0.05
32 8 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (29 bp):
GAACTTCCAAAAATTCCATTTTTACCTCC
Found at i:36288454 original size:109 final size:109
Alignment explanation
Indices: 36288335--36288539 Score: 308
Period size: 109 Copynumber: 1.9 Consensus size: 109
36288325 TTTTTACCGT
*
36288335 CGAACTTCCAAAAATTCCATTTTAACCACCTCAAAACTT-CAAAAATTACA-TTTTACCTCCGAA
1 CGAACATCCAAAAATTCCATTTTAA--ACCTCAAAACTTCCAAAAATTACATTTTTACCTCCGAA
36288398 CTTCCAAAAATTCCATTTTTAAACCC-GAAACTTCAATTTTTTCCCC
64 CTTCCAAAAATTCCATTTTT-AACCCTGAAACTTCAATTTTTTCCCC
* * *
36288444 CGAACATCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATTACATTTTTGCCTCCGAACT
1 CGAACATCCAAAAATTCCATTTTAAACCTCAAAACTTCCAAAAATTACATTTTTACCTCCGAACT
**
36288509 TTTAAAAATTCCATTTTTAACCCTGAAACTT
66 TCCAAAAATTCCATTTTTAACCCTGAAACTT
36288540 TCAGAATTAC
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
107 11 0.13
108 16 0.18
109 60 0.69
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (109 bp):
CGAACATCCAAAAATTCCATTTTAAACCTCAAAACTTCCAAAAATTACATTTTTACCTCCGAACT
TCCAAAAATTCCATTTTTAACCCTGAAACTTCAATTTTTTCCCC
Found at i:36290604 original size:17 final size:16
Alignment explanation
Indices: 36290584--36290628 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
36290574 TAAATTTTAG
36290584 ATAAATTTAAACCTAAA
1 ATAAATTTAAACC-AAA
**
36290601 ATAAATTTAATTCAAA
1 ATAAATTTAAACCAAA
*
36290617 ACAAATTTAAAC
1 ATAAATTTAAAC
36290629 TCTGTTGGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATTTAAACCAAA
Found at i:36293386 original size:11 final size:11
Alignment explanation
Indices: 36293347--36293388 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
36293337 GTTTAATTTG
36293347 ATTAAATAAATT
1 ATTAAA-AAATT
36293359 ATTAAAAAATT
1 ATTAAAAAATT
*
36293370 CA-TAAAAAAAT
1 -ATTAAAAAATT
36293381 ATTAAAAA
1 ATTAAAAA
36293389 GTTAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 19 0.70
12 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:36298201 original size:2 final size:2
Alignment explanation
Indices: 36298194--36298233 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
36298184 TTGACGCATA
36298194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36298234 GGGATTGATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36298566 original size:10 final size:10
Alignment explanation
Indices: 36298551--36298584 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
36298541 ATATTTATAC
36298551 TTTTTAATGA
1 TTTTTAATGA
*
36298561 TTTTTAA-AA
1 TTTTTAATGA
36298570 TTTTTAATGA
1 TTTTTAATGA
36298580 TTTTT
1 TTTTT
36298585 TTTGAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTTTAATGA
Found at i:36298880 original size:9 final size:9
Alignment explanation
Indices: 36298866--36298903 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
36298856 AACTAAAATC
36298866 TTGAGAGAA
1 TTGAGAGAA
*
36298875 TTGAGAGAG
1 TTGAGAGAA
36298884 TTGAGAGAA
1 TTGAGAGAA
36298893 TTGAGAGAA
1 TTGAGAGAA
36298902 TT
1 TT
36298904 TGAATGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:36303888 original size:27 final size:27
Alignment explanation
Indices: 36303858--36303910 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36303848 TTTTAGGTTG
36303858 AAAT-TAATTGTAATT-TTTATAATAATA
1 AAATATAATT-TAATTATTT-TAATAATA
*
36303885 AAATATAATTTTATTATTTTAATAAT
1 AAATATAATTTAATTATTTTAATAAT
36303911 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
AAATATAATTTAATTATTTTAATAATA
Found at i:36303918 original size:15 final size:15
Alignment explanation
Indices: 36303898--36303930 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36303888 TATAATTTTA
36303898 TTATTTTAATAATTT
1 TTATTTTAATAATTT
*
36303913 TTATTTTTATAATTT
1 TTATTTTAATAATTT
36303928 TTA
1 TTA
36303931 AATGATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTAATAATTT
Found at i:36304098 original size:2 final size:2
Alignment explanation
Indices: 36304085--36304118 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
36304075 AATATTTAAA
36304085 AT AT AT AGT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
36304119 TAAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:36304099 original size:11 final size:10
Alignment explanation
Indices: 36304085--36304118 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
36304075 AATATTTAAA
36304085 ATATATAGTAT
1 ATATATA-TAT
36304096 ATATATA-AT
1 ATATATATAT
36304105 ATATATATAT
1 ATATATATAT
36304115 ATAT
1 ATAT
36304119 TAAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 6 0.27
11 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATATATAT
Found at i:36306942 original size:28 final size:28
Alignment explanation
Indices: 36306911--36306970 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
36306901 AAAATATTTA
*
36306911 AAAACTATTAAAAGTAGAAAAA-AAATAT
1 AAAACTA-TAAAAGTACAAAAAGAAATAT
* * *
36306939 AAAATTATAGAAGTACAAAAAGCAATAT
1 AAAACTATAAAAGTACAAAAAGAAATAT
36306967 AAAA
1 AAAA
36306971 ATTACTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.20
Consensus pattern (28 bp):
AAAACTATAAAAGTACAAAAAGAAATAT
Found at i:36307213 original size:17 final size:17
Alignment explanation
Indices: 36307191--36307270 Score: 124
Period size: 17 Copynumber: 4.7 Consensus size: 17
36307181 ATCCAAACAG
36307191 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
36307208 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* *
36307225 AGTTTAAATTTATTTGA
1 AATTTAAATTTATTTTA
*
36307242 AATTTAAATTTATTGTA
1 AATTTAAATTTATTTTA
*
36307259 AATTTAAGTTTA
1 AATTTAAATTTA
36307271 AAAATTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:36307287 original size:6 final size:6
Alignment explanation
Indices: 36307191--36307272 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
36307181 ATCCAAACAG
* * *
36307191 AATTTA AATTT- ATTTTA AATTTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
36307236 -ATTTGA AATTTA AATTT- -ATTGTA AATTTA AGTTTA AA
1 AATTT-A AATTTA AATTTA AATT-TA AATTTA AATTTA AA
36307273 AATTATTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 7 0.11
5 9 0.15
6 38 0.62
7 7 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (6 bp):
AATTTA
Found at i:36309203 original size:29 final size:30
Alignment explanation
Indices: 36309153--36309544 Score: 295
Period size: 29 Copynumber: 13.4 Consensus size: 30
36309143 GAGGCCTTTG
*
36309153 AACTTCTCAAAAAATTACA-TTTTACCTTCA
1 AACTTCTC-AAAAATTACATTTTTACCCTCA
36309183 AACTTCTCAAAAATTACATTTTTTACCCTCA
1 AACTTCTCAAAAATTACA-TTTTTACCCTCA
* * * *
36309214 AACTT-TTAAAAATCACATTTTTGCCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCTCA
*
36309243 AACTTCTTAAAAATTACATTTTTACCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* * *
36309273 AACTT-TCAAAAATCATATTTTTACCCCCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* * *
36309302 AACTTCT-TAAAATTACATTTTTACCTTTA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
36309331 AACTT-TCAAAAATCATATTTTTACCC-CA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
*
36309359 AACTTCTCAAAAATTACACTTTTT-CCCT-G
1 AACTTCTCAAAAATTACA-TTTTTACCCTCA
* *
36309388 AACTTC-CAAAAATCACA-TTTTACCC-CG
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* * *
36309415 AACTTTTCCAAAATTACCATTTTT-CCCTCG
1 AACTTCTCAAAAATTA-CATTTTTACCCTCA
* * ** *
36309445 AAC--ATCAAAAATTACCATTTTGATACT-G
1 AACTTCTCAAAAATTA-CATTTTTACCCTCA
*
36309473 AACTTTTC-AAAATTACCA-TTTTACCCTC-
1 AACTTCTCAAAAATTA-CATTTTTACCCTCA
* *
36309501 AACTT-TCCAAAAAATCACATTTTCGA-CCTCA
1 AACTTCT-C-AAAAATTACATTTT-TACCCTCA
36309532 AACTT-TCTAAAAA
1 AACTTCTC-AAAAA
36309545 GTTTGATTTT
Statistics
Matches: 296, Mismatches: 42, Indels: 48
0.77 0.11 0.12
Matches are distributed among these distances:
26 4 0.01
27 10 0.03
28 56 0.19
29 124 0.42
30 80 0.27
31 22 0.07
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTTACCCTCA
Found at i:36316981 original size:506 final size:506
Alignment explanation
Indices: 36316022--36317037 Score: 1951
Period size: 506 Copynumber: 2.0 Consensus size: 506
36316012 CATCTTTTTT
* *
36316022 AATGATGACGAAATACCCCAAGAGGTATGAGGTCAACAAAAGTGCTACATATCACCACTCACTGT
1 AATGATAACGAAATACCCCAAGAGGTATGAGGTCAACAAAAGCGCTACATATCACCACTCACTGT
*
36316087 AAAGGTTACACACTGCCTGGTGTATTGATTGACAACGGTTCAGCCTTAAATGTTCTGCCATTGAC
66 AAAGGTTACACACTGCCTGGTGTATTGATTAACAACGGTTCAGCCTTAAATGTTCTGCCATTGAC
36316152 AACATTGAAGAGGTTACCAATCGATAGTTCTCATATGAAGACATGCCATAATATAGTGAGAGCCT
131 AACATTGAAGAGGTTACCAATCGATAGTTCTCATATGAAGACATGCCATAATATAGTGAGAGCCT
36316217 TTGATGGAACAGAAAGAAAAGTTATGGGTCGGATCGAGATACCACTATCAATTGGTCCAAACTCA
196 TTGATGGAACAGAAAGAAAAGTTATGGGTCGGATCGAGATACCACTATCAATTGGTCCAAACTCA
36316282 TACGAAGTGGACTTCTTAGTAATGGATATCAAACCAAGTTACAACTGCTTGCTTGGAAGACCGTG
261 TACGAAGTGGACTTCTTAGTAATGGATATCAAACCAAGTTACAACTGCTTGCTTGGAAGACCGTG
*
36316347 GATCCATTCGGCAGGAGCAGTGCCGTCATCATTACACCAGAAGCTGAAATTGGTGATCGAGATAT
326 GATCCATTCGGCAGGAGCAGTGCCGTCATCATTACACCAGAAGCTGAAATTGGTGATCGAGAGAT
36316412 GATTAGTCACAATCAATGTTGAGGAGGACATAATAGTGTCAATAAAAAATTATGCGCCATACGTT
391 GATTAGTCACAATCAATGTTGAGGAGGACATAATAGTGTCAATAAAAAATTATGCGCCATACGTT
36316477 GGAGCAGATGAAAAAGCCTTGGAATGTTCTTTCTGGTCCTTGGAGTTCGTC
456 GGAGCAGATGAAAAAGCCTTGGAATGTTCTTTCTGGTCCTTGGAGTTCGTC
*
36316528 AATGATAACGAAATACCCCAAGAGGTATGAGGTCAATAAAAGCGCTACATATCACCACTCACTGT
1 AATGATAACGAAATACCCCAAGAGGTATGAGGTCAACAAAAGCGCTACATATCACCACTCACTGT
*
36316593 AAAGGTTACACACTGCCTGTTGTATTGATTAACAACGGTTCAGCCTTAAATGTTCTGCCATTGAC
66 AAAGGTTACACACTGCCTGGTGTATTGATTAACAACGGTTCAGCCTTAAATGTTCTGCCATTGAC
*
36316658 AGCATTGAAGAGGTTACCAATCGATAGTTCTCATATGAAGACATGCCATAATATAGTGAGAGCCT
131 AACATTGAAGAGGTTACCAATCGATAGTTCTCATATGAAGACATGCCATAATATAGTGAGAGCCT
36316723 TTGATGGAACAGAAAGAAAAGTTATGGGTCGGATCGAGATACCACTATCAATTGGTCCAAACTCA
196 TTGATGGAACAGAAAGAAAAGTTATGGGTCGGATCGAGATACCACTATCAATTGGTCCAAACTCA
*
36316788 TACGAAGTGGACTTCTTAGTAATGGATATCAAACCAAGTTACAACTGCTTGCTTGGAAGATCGTG
261 TACGAAGTGGACTTCTTAGTAATGGATATCAAACCAAGTTACAACTGCTTGCTTGGAAGACCGTG
36316853 GATCCATTCGGCAGGAGCAGTGCCGTCATCATTACACCAGAAGCTGAAATTGGTGATCGAGAGAT
326 GATCCATTCGGCAGGAGCAGTGCCGTCATCATTACACCAGAAGCTGAAATTGGTGATCGAGAGAT
36316918 GATTAGTCACAATCAATGTTGAGGAGGACATAATAGTGTCAATAAAAAATTATGCGCCATACGTT
391 GATTAGTCACAATCAATGTTGAGGAGGACATAATAGTGTCAATAAAAAATTATGCGCCATACGTT
*
36316983 GGAGTAGATGAAAAAGCCTTGGAATGTTCTTTCTGGTCCTTGGAGTTCGTC
456 GGAGCAGATGAAAAAGCCTTGGAATGTTCTTTCTGGTCCTTGGAGTTCGTC
36317034 AATG
1 AATG
36317038 CAACCTTTGT
Statistics
Matches: 501, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
506 501 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (506 bp):
AATGATAACGAAATACCCCAAGAGGTATGAGGTCAACAAAAGCGCTACATATCACCACTCACTGT
AAAGGTTACACACTGCCTGGTGTATTGATTAACAACGGTTCAGCCTTAAATGTTCTGCCATTGAC
AACATTGAAGAGGTTACCAATCGATAGTTCTCATATGAAGACATGCCATAATATAGTGAGAGCCT
TTGATGGAACAGAAAGAAAAGTTATGGGTCGGATCGAGATACCACTATCAATTGGTCCAAACTCA
TACGAAGTGGACTTCTTAGTAATGGATATCAAACCAAGTTACAACTGCTTGCTTGGAAGACCGTG
GATCCATTCGGCAGGAGCAGTGCCGTCATCATTACACCAGAAGCTGAAATTGGTGATCGAGAGAT
GATTAGTCACAATCAATGTTGAGGAGGACATAATAGTGTCAATAAAAAATTATGCGCCATACGTT
GGAGCAGATGAAAAAGCCTTGGAATGTTCTTTCTGGTCCTTGGAGTTCGTC
Found at i:36321656 original size:25 final size:24
Alignment explanation
Indices: 36321628--36321674 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36321618 TTCTTGACAA
*
36321628 AAATTTGCCTCCTTATTCTTTCAAT
1 AAATTT-CCACCTTATTCTTTCAAT
*
36321653 AAATTTCGACCTTATTCTTTCA
1 AAATTTCCACCTTATTCTTTCA
36321675 TAATCTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATTTCCACCTTATTCTTTCAAT
Found at i:36322436 original size:39 final size:39
Alignment explanation
Indices: 36322391--36322804 Score: 202
Period size: 39 Copynumber: 10.6 Consensus size: 39
36322381 CCAGCCAATA
* *
36322391 TCTTACCCCGAGCTTGGGACAGATTGCAGCTATTCGATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* * * * ** *
36322430 TTTTACCCCGAGCTTGGGGTAGA-T-CATCATCAGCCAATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGC-T-ATTCGATC
* * * * * * *
36322469 TCTTGCCCTGAGCCTAGGACAGATTACAACTATCCGATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* * * **
36322508 TCTTACCCCGAGCTTGGGGCAGA-T-CATCATCAGTAAATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGC-T-ATTCGATC
* * * ** *
36322547 TTTTATCCCGAGCCTGGGGCAGATTGTAGCCGTTCGATT
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* * * * * ** *
36322586 TTTTACCTCGAGCTTGGGGCA-AAT-CATCATCAGCCAATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGC-T-ATTCGATC
* *
36322625 TCTTACCCCGAGCCTGGGACAGATTGCAGCCATTCGATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* * * *
36322664 TCTTACCCCTAGCCTAGGACAGA-T-CATC-A-TCAGCAAATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTC-G---ATC
* * *
36322703 TCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* * * *
36322742 TTTTACCCCGAGCATGGGGCAGATTGTAGCCATTCGATC
1 TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
* *
36322781 T-TTAACCCTGAGCCTGGGACAGAT
1 TCTT-ACCCCGAGCCTGGGGCAGAT
36322805 CATCATCAGC
Statistics
Matches: 277, Mismatches: 77, Indels: 42
0.70 0.19 0.11
Matches are distributed among these distances:
35 2 0.01
36 2 0.01
37 11 0.04
38 9 0.03
39 233 0.84
40 6 0.02
41 11 0.04
42 2 0.01
43 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
TCTTACCCCGAGCCTGGGGCAGATTGCAGCTATTCGATC
Found at i:36322464 original size:78 final size:78
Alignment explanation
Indices: 36322270--36322765 Score: 550
Period size: 78 Copynumber: 6.4 Consensus size: 78
36322260 GATTAAAGAT
* * * * *
36322270 TTCGATCCTTTACCCCGAGCATGGGGCAAATCATTACCAGCCAATCTCTTACCCCGAGCATGAGG
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTG-GG
*
36322335 -TAGATT---GCCA
65 ACAGATTGCAGCCA
* * * * * * *
36322345 TTCAATCTCTTACCCCGAGCATGAGGCAAATCATCACCAGCCAATATCTTACCCCGAGCTTGGGA
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
*
36322410 CAGATTGCAGCTA
66 CAGATTGCAGCCA
* * * * *
36322423 TTCGATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAGCCAATCTCTTGCCCTGAGCCTAGGA
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
* * *
36322488 CAGATTACAACTA
66 CAGATTGCAGCCA
* * * ** * * *
36322501 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTAAATCTTTTATCCCGAGCCTGGGG
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
* *
36322566 CAGATTGTAGCCG
66 CAGATTGCAGCCA
* * * *
36322579 TTCGATTTTTTACCTCGAGCTTGGGGCAAATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
36322644 CAGATTGCAGCCA
66 CAGATTGCAGCCA
* * * * * * *
36322657 TTCGATCTCTTACCCCTAGCCTAGGACAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGG
1 TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
*
36322722 CAAATTGCAGCCA
66 CAGATTGCAGCCA
*
36322735 TCCGATCTTTTACCCCGAGCATGGGGCAGAT
1 TTCGATCTTTTACCCCGAGCATGGGGCAGAT
36322766 TGTAGCCATT
Statistics
Matches: 349, Mismatches: 68, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
74 2 0.01
75 60 0.17
78 287 0.82
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (78 bp):
TTCGATCTTTTACCCCGAGCATGGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
CAGATTGCAGCCA
Found at i:36322821 original size:156 final size:153
Alignment explanation
Indices: 36322270--36322826 Score: 511
Period size: 156 Copynumber: 3.6 Consensus size: 153
36322260 GATTAAAGAT
* * * * * * *
36322270 TTCGATCCTTTACCCCGAGCATGGGGCAAATCATTACCAGCCAATCTCTTACCCCGAGCATGAGG
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGAT-ATCATCAGCCAATCTCTTACCCTGAGCCTG-GG
* * * * * *
36322335 -TAGAT-TGC--CATTCAATCTCTTACCCCGAGCATGAGGCAAATCATCACCAGCCAATATCTTA
64 ACAGATAT-CAACATCCAATCTCTTACCCCGAGCAT-AGGCAGATCATCATCAGCAAATCTCTTA
* * *
36322396 CCCCGAGCTTGGGACAGATTGCAGCTA
127 CCCCGAGCCTGGGGCAGATTGCAGCCA
* * *
36322423 TTCGATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAGCCAATCTCTTGCCCTGAGCCTAGGA
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGAT-ATCATCAGCCAATCTCTTACCCTGAGCCTGGGA
* * * * *
36322488 CAGAT-TACAACTATCCGATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAGTAAATCTTTTA
65 CAGATAT-CAAC-ATCCAATCTCTTACCCCGAGCAT-AGGCAGATCATCATCAGCAAATCTCTTA
* * *
36322552 TCCCGAGCCTGGGGCAGATTGTAGCCG
127 CCCCGAGCCTGGGGCAGATTGCAGCCA
* * * *
36322579 TTCGATTTTTTACCTCGAGCTTGGGGCAAATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGA
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGAT-ATCATCAGCCAATCTCTTACCCTGAGCCTGGGA
* * * * *
36322644 CAGAT-TGCAGCCATTCGATCTCTTACCCCTAGCCTAGGACAGATCATCATCAGCAAATCTCTTA
65 CAGATAT-CA-ACATCCAATCTCTTACCCCGAGCATAGG-CAGATCATCATCAGCAAATCTCTTA
*
36322708 CCCCGAGCCTGGGGCAAATTGCAGCCA
127 CCCCGAGCCTGGGGCAGATTGCAGCCA
* * * *
36322735 TCCGATCTTTTACCCCGAGCATGGGGCAGAT-T-GT-AGCCATTCGATCTTTAACCCTGAGCCTG
1 TTCGATCTTTTACCCCGAGCTTGGGGCAGATATCATCAGCCAATC--TC-TT-ACCCTGAGCCTG
* *
36322797 GGACAGATCATCATCAGCCAATCTCTTACC
62 GGACAGAT-ATCAACATCCAATCTCTTACC
36322827 AGATCATGGG
Statistics
Matches: 333, Mismatches: 59, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
152 9 0.03
153 59 0.18
154 3 0.01
155 5 0.02
156 253 0.76
157 3 0.01
158 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (153 bp):
TTCGATCTTTTACCCCGAGCTTGGGGCAGATATCATCAGCCAATCTCTTACCCTGAGCCTGGGAC
AGATATCAACATCCAATCTCTTACCCCGAGCATAGGCAGATCATCATCAGCAAATCTCTTACCCC
GAGCCTGGGGCAGATTGCAGCCA
Found at i:36323289 original size:16 final size:16
Alignment explanation
Indices: 36323270--36323326 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
36323260 ACCCAAACAG
36323270 AATTTAAAATTTTTTA
1 AATTTAAAATTTTTTA
*
36323286 AATTTAAATTTATTTTA
1 AATTTAAAATT-TTTTA
*
36323303 AGTTT-AAATTTATTTGA
1 AATTTAAAATTT-TTT-A
36323320 AATTTAA
1 AATTTAA
36323327 TTTATTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.03
16 17 0.52
17 14 0.42
18 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
AATTTAAAATTTTTTA
Found at i:36323293 original size:6 final size:6
Alignment explanation
Indices: 36323282--36323351 Score: 53
Period size: 6 Copynumber: 12.3 Consensus size: 6
36323272 TTTAAAATTT
* *
36323282 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAA TTT--A TTTGAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
*
36323327 TTT--A TTGTAAA TTTAAG TTTAAA TT
1 TTTAAA TT-TAAA TTTAAA TTTAAA TT
36323352 ATCTAAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 7 0.13
5 10 0.19
6 28 0.54
7 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:36323303 original size:17 final size:17
Alignment explanation
Indices: 36323270--36323347 Score: 97
Period size: 17 Copynumber: 4.7 Consensus size: 17
36323260 ACCCAAACAG
*
36323270 AATTTAAAATT-TTTTA
1 AATTTAAATTTATTTTA
36323286 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* *
36323303 AGTTTAAATTTATTTGA
1 AATTTAAATTTATTTTA
*
36323320 AATTT-AATTTATTGTA
1 AATTTAAATTTATTTTA
*
36323336 AATTTAAGTTTA
1 AATTTAAATTTA
36323348 AATTATCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 24 0.45
17 29 0.55
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:36323309 original size:33 final size:34
Alignment explanation
Indices: 36323270--36323342 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
36323260 ACCCAAACAG
*
36323270 AATTTAAAATTT-TTT-AAATTTAAATTTATTTTA
1 AATTTAAAATTTATTTGAAATTT-AATTTATTGTA
*
36323303 AGTTT-AAATTTATTTGAAATTTAATTTATTGTA
1 AATTTAAAATTTATTTGAAATTTAATTTATTGTA
36323336 AATTTAA
1 AATTTAA
36323343 GTTTAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 6 0.18
33 21 0.62
34 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (34 bp):
AATTTAAAATTTATTTGAAATTTAATTTATTGTA
Found at i:36324053 original size:17 final size:17
Alignment explanation
Indices: 36324027--36324134 Score: 155
Period size: 17 Copynumber: 6.3 Consensus size: 17
36324017 ACCCATTTTG
36324027 AATTTATTTTAAGA-TTA
1 AATTTATTTTAA-ATTTA
*
36324044 AATTTGTTTTAAATTTA
1 AATTTATTTTAAATTTA
36324061 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
36324078 AATTTAATTTAAGTTTA
1 AATTTATTTTAAATTTA
36324095 AATTTATTTTCAAATTTA
1 AATTTATTTT-AAATTTA
*
36324113 AATTTATTATAAATTTA
1 AATTTATTTTAAATTTA
36324130 AATTT
1 AATTT
36324135 CAATGACCAA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
16 1 0.01
17 66 0.80
18 15 0.18
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:36324060 original size:6 final size:6
Alignment explanation
Indices: 36324051--36324134 Score: 88
Period size: 6 Copynumber: 14.5 Consensus size: 6
36324041 TTAAATTTGT
* *
36324051 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
36324097 TTT-AT TTTCAAA TTTAAA TTT--A TTATAAA TTTAAA TTT
1 TTTAAA TTT-AAA TTTAAA TTTAAA TT-TAAA TTTAAA TTT
36324135 CAATGACCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
4 3 0.05
5 14 0.22
6 41 0.63
7 7 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:36324071 original size:11 final size:11
Alignment explanation
Indices: 36324057--36324112 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
36324047 TTGTTTTAAA
36324057 TTTAAATTTAT
1 TTTAAATTTAT
*
36324068 TTTAAATTTAAA
1 TTTAAATTT-AT
*
36324080 TTT-AATTTAAG
1 TTTAAATTT-AT
36324091 TTTAAATTTAT
1 TTTAAATTTAT
36324102 TTTCAAATTTA
1 TTT-AAATTTA
36324113 AATTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 23 0.59
12 16 0.41
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:36325592 original size:30 final size:29
Alignment explanation
Indices: 36325556--36325867 Score: 198
Period size: 29 Copynumber: 10.7 Consensus size: 29
36325546 CTCAAAAGGT
* *
36325556 CCCTAAACATTTCTAAAATTACATTTTAAC
1 CCCTAAAC-TTTCCAAAATTACATTTTGAC
36325586 CCCTAAACTTTTCCAAAATTACATTTTGAC
1 CCCTAAAC-TTTCCAAAATTACATTTTGAC
* *
36325616 CCTTAAACTTCCCAAAATTACATTTTGAC
1 CCCTAAACTTTCCAAAATTACATTTTGAC
*
36325645 CCCTAAA-TTTACCCAAATTTACCATTTTG-C
1 CCCTAAACTTT--CCAAAATTA-CATTTTGAC
* * *
36325675 CCCTAAACTTTCTAAAATTCCATTTTTA-
1 CCCTAAACTTTCCAAAATTACATTTTGAC
**
36325703 CCCTTGA-TTTCACCAAAATTACCATTTT-AC
1 CCCTAAACTTT--CCAAAATTA-CATTTTGAC
* * *
36325733 CCCCAAACTTTCCAAAATTCCATTTTTAC
1 CCCTAAACTTTCCAAAATTACATTTTGAC
*
36325762 CTCC--AATTTTACCAAAATTACCATTTT-A-
1 C-CCTAAACTTT-CCAAAATTA-CATTTTGAC
* * *
36325790 CCCTCAAACCTTCTAAAATT-CTATTTTTA-
1 CCCT-AAACTTTCCAAAATTAC-ATTTTGAC
* ** *
36325819 ACCTCGATTTTACCAAAATTACCATTTT-AC
1 CCCTAAACTTT-CCAAAATTA-CATTTTGAC
* *
36325849 CCTTAAATTTTCCAAAATT
1 CCCTAAACTTTCCAAAATT
36325868 TTATTTTTGA
Statistics
Matches: 224, Mismatches: 35, Indels: 47
0.73 0.11 0.15
Matches are distributed among these distances:
27 6 0.03
28 33 0.15
29 87 0.39
30 84 0.38
31 14 0.06
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACATTTTGAC
Found at i:36325631 original size:29 final size:29
Alignment explanation
Indices: 36325556--36325792 Score: 178
Period size: 30 Copynumber: 8.1 Consensus size: 29
36325546 CTCAAAAGGT
* * *
36325556 CCCTAAACATTTCTAAAATTACATTTTAAC
1 CCCTAAAC-TTCCCAAAATTACATTTTGAC
*
36325586 CCCTAAACTTTTCCAAAATTACATTTTGAC
1 CCCTAAAC-TTCCCAAAATTACATTTTGAC
*
36325616 CCTTAAACTTCCCAAAATTACATTTTGAC
1 CCCTAAACTTCCCAAAATTACATTTTGAC
* *
36325645 CCCTAAATTTACCCAAATTTACCATTTTG-C
1 CCCTAAACTT-CCCAAAATTA-CATTTTGAC
* * * *
36325675 CCCTAAACTTTCTAAAATTCCATTTTTA-
1 CCCTAAACTTCCCAAAATTACATTTTGAC
** *
36325703 CCCTTGATTTCACCAAAATTACCATTTT-AC
1 CCCTAAACTTC-CCAAAATTA-CATTTTGAC
* * * *
36325733 CCCCAAACTTTCCAAAATTCCATTTTTAC
1 CCCTAAACTTCCCAAAATTACATTTTGAC
** *
36325762 CTCC-AATTTTACCAAAATTACCATTTT-AC
1 C-CCTAAACTTCCCAAAATTA-CATTTTGAC
36325791 CC
1 CC
36325793 TCAAACCTTC
Statistics
Matches: 168, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
28 20 0.12
29 68 0.40
30 73 0.43
31 7 0.04
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTCCCAAAATTACATTTTGAC
Found at i:36325637 original size:59 final size:58
Alignment explanation
Indices: 36325559--36325867 Score: 272
Period size: 58 Copynumber: 5.3 Consensus size: 58
36325549 AAAAGGTCCC
*
36325559 TAAACATTTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTA-CATTTTGACCCT
1 TAAAC-TTTCCAAAATTACATTTTAACCCCTAAA-TTTTCCAAAATTACCATTTT-ACCCT
* * * * * *
36325619 TAAACTTCCCAAAATTACATTTTGACCCCTAAATTTACCCAAATTTACCATTTTGCCCC
1 TAAACTTTCCAAAATTACATTTTAACCCCTAAATTT-TCCAAAATTACCATTTTACCCT
* * * ** * *
36325678 TAAACTTTCTAAAATTCCATTTTTA-CCCTTGATTTCACCAAAATTACCATTTTACCCC
1 TAAACTTTCCAAAATTACATTTTAACCCCTAAATTT-TCCAAAATTACCATTTTACCCT
* * *
36325736 CAAACTTTCCAAAATTCCATTTTTACCTCC--AATTTTACCAAAATTACCATTTTACCCT
1 TAAACTTTCCAAAATTACATTTTAACC-CCTAAATTTT-CCAAAATTACCATTTTACCCT
* * * **
36325794 CAAACCTTCTAAAATT-CTATTTTTAA--CCTCGATTTTACCAAAATTACCATTTTACCCT
1 TAAACTTTCCAAAATTAC-A-TTTTAACCCCTAAATTTT-CCAAAATTACCATTTTACCCT
*
36325852 TAAATTTTCCAAAATT
1 TAAACTTTCCAAAATT
36325868 TTATTTTTGA
Statistics
Matches: 210, Mismatches: 30, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
56 2 0.01
57 1 0.00
58 131 0.62
59 63 0.30
60 13 0.06
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (58 bp):
TAAACTTTCCAAAATTACATTTTAACCCCTAAATTTTCCAAAATTACCATTTTACCCT
Found at i:36325743 original size:58 final size:58
Alignment explanation
Indices: 36325598--36325910 Score: 294
Period size: 58 Copynumber: 5.4 Consensus size: 58
36325588 CTAAACTTTT
** * * * *
36325598 CCAAAATTA-CATTTTGACCCTTAAACTTCCCAAAATTACATTTTGACCCCTAAATTT-A
1 CCAAAATTACCATTTT-ACCCCCAAACTTTCCAAAATTCCATTTTTA-CCCTCAATTTCA
* * * * **
36325656 CCCAAATTTACCATTTTGCCCCTAAACTTTCTAAAATTCCATTTTTACCCTTGATTTCA
1 -CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCTCAATTTCA
*
36325715 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTA-CCTCCAATTTTA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCT-CAATTTCA
* * * * * * *
36325773 CCAAAATTACCATTTTACCCTCAAACCTTCTAAAATTCTATTTTTAACCTCGATTTTA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCTCAATTTCA
** * **
36325831 CCAAAATTACCATTTTACCCTTAAATTTTCCAAAATTTTATTTTTGA-CC-CAATTTCAA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTT-ACCCTCAATTTC-A
* *
36325889 CCAAAGTTACCATTTTGCCCCC
1 CCAAAATTACCATTTTACCCCC
36325911 GGGTATCCAA
Statistics
Matches: 216, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
57 8 0.04
58 165 0.76
59 37 0.17
60 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (58 bp):
CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCTCAATTTCA
Found at i:36325828 original size:116 final size:115
Alignment explanation
Indices: 36325598--36325909 Score: 369
Period size: 116 Copynumber: 2.7 Consensus size: 115
36325588 CTAAACTTTT
* * *
36325598 CCAAAATTA-CATTTTGACCCTTAAACTTCCCAAAATTACATTTTGACCCCTAAATTTACCCAAA
1 CCAAAATTACCATTTT-ACCCTTAAACTTTCCAAAATTACATTTTTACCCC-AATTTTA-CCAAA
* * * * *
36325662 TTTACCATTTTGCCCCTAAACTTTCTAAAATTCCATTTTTACCCTTGATTTCA
63 ATTACCATTTTACCCCTAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
** *
36325715 CCAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCTCCAATTTTACCAAAAT
1 CCAAAATTACCATTTTACCCTTAAACTTTCCAAAATTACATTTTTACC-CCAATTTTACCAAAAT
* *
36325780 TACCATTTTA-CCCTCAAACCTTCTAAAATTCTATTTTTAACCTCGATTTTA
65 TACCATTTTACCCCT-AAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
* ** * *
36325831 CCAAAATTACCATTTTACCCTTAAATTTTCCAAAATTTTATTTTTGA-CCCAATTTCAACCAAAG
1 CCAAAATTACCATTTTACCCTTAAACTTTCCAAAATTACATTTTT-ACCCCAATTT-TACCAAAA
*
36325895 TTACCATTTTGCCCC
64 TTACCATTTTACCCC
36325910 CGGGTATCCA
Statistics
Matches: 168, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
115 11 0.07
116 103 0.61
117 46 0.27
118 8 0.05
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (115 bp):
CCAAAATTACCATTTTACCCTTAAACTTTCCAAAATTACATTTTTACCCCAATTTTACCAAAATT
ACCATTTTACCCCTAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
Found at i:36327994 original size:29 final size:28
Alignment explanation
Indices: 36327961--36328075 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
36327951 GGCCCCCGAA
* *
36327961 CAACTTTTAAAAATTACATTTTTACCCT
1 CAACTTTCAAAAATCACATTTTTACCCT
36327989 CGAACTTTCAAAAATCACATTTATT-CCC-
1 C-AACTTTCAAAAATCACATTT-TTACCCT
* *
36328017 CACACTTCTTAAAAATTACATTTTTACCCT
1 CA-ACTT-TCAAAAATCACATTTTTACCCT
*
36328047 CAAACTTCCAAAAATCACATTTTTGACCC
1 C-AACTTTCAAAAATCACATTTTT-ACCC
36328076 CGATTTTTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.01
28 8 0.11
29 51 0.71
30 11 0.15
31 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (28 bp):
CAACTTTCAAAAATCACATTTTTACCCT
Found at i:36328214 original size:28 final size:28
Alignment explanation
Indices: 36328141--36328216 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
36328131 ACCCAAACTT
* **
36328141 TTCCAAAATTACTATTTGCCTTCGAACA
1 TTCCAAAATTACCATTTTACTTCGAACA
*
36328169 TTCAAAAATTACCATTTTACTCTCGAACA
1 TTCCAAAATTACCATTTTACT-TCGAACA
36328198 -TCCAAAATTACCATTTTAC
1 TTCCAAAATTACCATTTTAC
36328217 CCTCAAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 35 0.83
29 7 0.17
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (28 bp):
TTCCAAAATTACCATTTTACTTCGAACA
Found at i:36328229 original size:28 final size:28
Alignment explanation
Indices: 36328082--36328232 Score: 94
Period size: 28 Copynumber: 5.3 Consensus size: 28
36328072 ACCCCGATTT
* *
36328082 TTTCTAAAATTACCATTTTGTCCC-CAAA
1 TTTCCAAAATTACCATTTT-ACCCTCAAA
** * *
36328110 AATCTAAAATTTACCATTTTAACC-CAAA
1 TTTCCAAAA-TTACCATTTTACCCTCAAA
* * *
36328138 CTTTTCCAAAATTACTA-TTTGCCTTCGAACA
1 --TTTCCAAAATTACCATTTTACCCTC-AA-A
* * *
36328169 -TTCAAAAATTACCATTTTACTCTCGAA
1 TTTCCAAAATTACCATTTTACCCTCAAA
**
36328196 CATCCAAAATTACCATTTTACCCTCAAA
1 TTTCCAAAATTACCATTTTACCCTCAAA
36328224 TTTCCAAAA
1 TTTCCAAAA
36328233 AATCACAATT
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
27 1 0.01
28 60 0.65
29 22 0.24
30 8 0.09
31 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTCCAAAATTACCATTTTACCCTCAAA
Found at i:36333201 original size:30 final size:31
Alignment explanation
Indices: 36333144--36333207 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
36333134 AATATTACTT
*
36333144 TTATTATTATCATATAATAATACTAATA-AA
1 TTATTATTATCATATAATAATAATAATATAA
* *
36333174 TTATTATTATGATATTAAT-TTAATAATATAA
1 TTATTATTATCATA-TAATAATAATAATATAA
36333205 TTA
1 TTA
36333208 ACAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TTATTATTATCATATAATAATAATAATATAA
Found at i:36334149 original size:23 final size:23
Alignment explanation
Indices: 36334123--36334167 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
36334113 TAACAATGAG
36334123 ATCTAAATTTTGAAATTTAAAAT
1 ATCTAAATTTTGAAATTTAAAAT
36334146 ATCTAAATTTTGAAATTTAAAA
1 ATCTAAATTTTGAAATTTAAAA
36334168 AATAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
ATCTAAATTTTGAAATTTAAAAT
Found at i:36336393 original size:21 final size:21
Alignment explanation
Indices: 36336369--36336411 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
36336359 AACGACGAGC
36336369 ATGATGATA-AAGA-CGATGAAG
1 ATGATG-TAGAAGAGCG-TGAAG
36336390 ATGATGTAGAAGAGCGTGAAG
1 ATGATGTAGAAGAGCGTGAAG
36336411 A
1 A
36336412 AGAAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.10
21 16 0.80
22 2 0.10
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.19
Consensus pattern (21 bp):
ATGATGTAGAAGAGCGTGAAG
Found at i:36342303 original size:23 final size:22
Alignment explanation
Indices: 36342273--36342395 Score: 138
Period size: 23 Copynumber: 5.4 Consensus size: 22
36342263 ACACTAGCGC
* * *
36342273 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCAC-TTTTGT
36342296 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
36342319 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
*
36342342 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTTT-TGT
* * *
36342365 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACT-TTTGT
36342388 GCTCTCTG
1 GCTCTCTG
36342396 TTGCCCAGCA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
22 2 0.02
23 86 0.97
24 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (22 bp):
GCTCTCTGATTAGCACTTTTGT
Found at i:36342344 original size:46 final size:46
Alignment explanation
Indices: 36342274--36342395 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
36342264 CACTAGCGCG
* * *
36342274 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTGATTAGCACTTTGTGTA
* *
36342320 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTA
*
36342366 CTCTCTGTTTAGCACTGTGTGTGCTCTCTG
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG
36342396 TTGCCCAGCA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 66 0.97
47 2 0.03
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.43
Consensus pattern (46 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTA
Found at i:36342387 original size:69 final size:66
Alignment explanation
Indices: 36342297--36342441 Score: 186
Period size: 69 Copynumber: 2.1 Consensus size: 66
36342287 ACGTCTCGTG
*
36342297 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATT-AGCACTT-TGTGTGCTCTCTGATTAGTACTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTCAGCACTTATGT-T-CTCTCTG-TTAGTACTT
36342360 TGTGTA
62 TG-GTA
*
36342366 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTTCTCTCTGTTAGTACTTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTTCTCTCTGTTAGTACTTT
36342431 GGTA
63 GGTA
36342435 CTCTCTG
1 CTCTCTG
36342442 CTTGTTCCGT
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
68 2 0.03
69 38 0.55
70 11 0.16
71 7 0.10
72 8 0.12
73 3 0.04
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (66 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTTCTCTCTGTTAGTACTTTGGT
A
Found at i:36342397 original size:23 final size:23
Alignment explanation
Indices: 36342294--36342395 Score: 168
Period size: 23 Copynumber: 4.4 Consensus size: 23
36342284 AGCACGTCTC
36342294 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
36342317 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
36342340 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * *
36342363 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
36342386 GTGCTCTCTG
1 GTGCTCTCTG
36342396 TTGCCCAGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:36343616 original size:58 final size:58
Alignment explanation
Indices: 36343444--36343755 Score: 477
Period size: 59 Copynumber: 5.4 Consensus size: 58
36343434 TGTGGATACC
* * *
36343444 CGGGGGCAAAATGGTGATTTTGGTGAAATCGGGGTT-AAAATGGAATTTTA-AAGATA
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
* *
36343500 CGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGGTTAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTAGAAGATT
* * *
36343560 CGGGGGTAAAATGGTAATTTTGATGAAATCGAGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
36343618 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
*
36343677 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAATATT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
*
36343736 C-GGAGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
36343756 CGGAAGTTTC
Statistics
Matches: 237, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
56 14 0.06
57 12 0.05
58 71 0.30
59 119 0.50
60 21 0.09
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATT
Found at i:36343669 original size:117 final size:118
Alignment explanation
Indices: 36343444--36343755 Score: 497
Period size: 117 Copynumber: 2.7 Consensus size: 118
36343434 TGTGGATACC
* * * *
36343444 CGGGGGCAAAATGGTGATTTTGGTGAAATCGGGGTT-AAAATGGAATTTT-AAAGATACGAGGGT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
36343507 AAAATGGTAATTTTTGATGAAATCGGGGGTTAAAAATGGAATTTTAGAAGATT
66 AAAATGGTAATTTTTGATGAAATCGGGGGTTAAAAATGGAATTTTAGAAGATT
* *
36343560 CGGGGGTAAAATGGTAATTTTGATGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
36343625 AAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTAGAAGATT
66 AAAATGGTAATTTTTGATGAAATCGGGGGTTAAAAATGGAATTTTAGAAGATT
* * *
36343677 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAATATTC-GGAG
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGG
36343741 TAAAATGGTAATTTT
65 TAAAATGGTAATTTT
36343756 CGGAAGTTTC
Statistics
Matches: 181, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
116 32 0.18
117 80 0.44
118 69 0.38
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (118 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
AAAATGGTAATTTTTGATGAAATCGGGGGTTAAAAATGGAATTTTAGAAGATT
Found at i:36344089 original size:161 final size:162
Alignment explanation
Indices: 36343912--36344223 Score: 511
Period size: 162 Copynumber: 1.9 Consensus size: 162
36343902 CTGTAAATCT
* * *
36343912 TGAAAAATTATTGGGCCAATTTCGTAATT-AATAAAAGTTGATTTGGGGATTAAATTAAGACAAA
1 TGAAAAATTATTGGGCCAATTTCATAATTAAATAAAAGTTGATTTGAGGATTAAATTAAAACAAA
* * *
36343976 TTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAG-CTCCTGGTAC
66 TTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAAATGACACGTGGCAGCCT-CTAGTAC
*
36344040 AGTCAAACAGTCAAAGGACTAATTTATAAACCA
130 AGTCAAACAATCAAAGGACTAATTTATAAACCA
*
36344073 TGAAAAATTCTTGGGCCAATTTCATAATTAAATAAAAGTTGATTTGAGGATTAAATTAAAACAAA
1 TGAAAAATTATTGGGCCAATTTCATAATTAAATAAAAGTTGATTTGAGGATTAAATTAAAACAAA
* *
36344138 TTTAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAATGACACGTGGCAGCCTCTAGTACA
66 TTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAAATGACACGTGGCAGCCTCTAGTACA
36344203 GTCAAACAATCAAAGGACTAA
131 GTCAAACAATCAAAGGACTAA
36344224 ATTGAAAGCA
Statistics
Matches: 139, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
161 27 0.19
162 110 0.79
163 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (162 bp):
TGAAAAATTATTGGGCCAATTTCATAATTAAATAAAAGTTGATTTGAGGATTAAATTAAAACAAA
TTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAAATGACACGTGGCAGCCTCTAGTACA
GTCAAACAATCAAAGGACTAATTTATAAACCA
Found at i:36345744 original size:6 final size:6
Alignment explanation
Indices: 36345724--36345822 Score: 100
Period size: 6 Copynumber: 16.8 Consensus size: 6
36345714 AAATTTGATG
* * *
36345724 TTAAAT TTAATAT TTTAAT TT-TAT TTAAAT TTAAAT TCAAA- TTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
36345771 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
36345818 TTAAA
1 TTAAA
36345823 ATCAATTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.05
5 12 0.15
6 51 0.65
7 5 0.06
8 6 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:36345760 original size:17 final size:17
Alignment explanation
Indices: 36345727--36345832 Score: 94
Period size: 17 Copynumber: 6.4 Consensus size: 17
36345717 TTTGATGTTA
*
36345727 AATTTAATATTTTAATTT
1 AATTTAA-ATTTAAATTT
* *
36345745 TATTTAAATTTAAATTC
1 AATTTAAATTTAAATTT
*
36345762 AAATTAAATTTAAA--T
1 AATTTAAATTTAAATTT
36345777 AA-TTAAATTTAAATTT
1 AATTTAAATTTAAATTT
**
36345793 AAAATAAATTTAAATTT
1 AATTTAAATTTAAATTT
* * *
36345810 AA-ATAAATTTAAAATC
1 AATTTAAATTTAAATTT
36345826 AATTTAA
1 AATTTAA
36345833 CTCTAAATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
14 11 0.15
15 2 0.03
16 17 0.23
17 38 0.51
18 6 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAAATTT
Found at i:36345768 original size:11 final size:11
Alignment explanation
Indices: 36345746--36345813 Score: 70
Period size: 11 Copynumber: 6.2 Consensus size: 11
36345736 TTTTAATTTT
36345746 ATTTAAATTTAA
1 ATTTAAA-TTAA
*
36345758 ATTCAAATTAA
1 ATTTAAATTAA
36345769 ATTTAAA-T-A
1 ATTTAAATTAA
36345778 A-TTAAATTTAA
1 ATTTAAA-TTAA
*
36345789 ATTTAAAATAA
1 ATTTAAATTAA
36345800 ATTTAAATTTAA
1 ATTTAAA-TTAA
36345812 AT
1 AT
36345814 AAATTTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 5 0.11
9 2 0.04
10 2 0.04
11 22 0.47
12 16 0.34
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:36345839 original size:27 final size:27
Alignment explanation
Indices: 36345786--36345840 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
36345776 TAATTAAATT
*
36345786 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
36345813 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
36345840 T
1 T
36345841 TAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:36346642 original size:276 final size:271
Alignment explanation
Indices: 36346155--36346902 Score: 1216
Period size: 276 Copynumber: 2.7 Consensus size: 271
36346145 ACTCCAATTT
* *
36346155 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGAATGACGTTGC-CT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
* *
36346219 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCT-CTTCGATTTCAAGCGGATTACGTTGC
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG-GGATGACGTTGC
* * * *
36346283 TCTTACTTCAATTTTAGAGATTAAGACGTGTTATCCACTCTACTTCAATTTCAACGGATTGGCAT
130 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATTGACAT
*
36346348 TGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGTGATGA
195 TGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
*
36346413 CGTTGCCCTTAC
260 CATTGCCCTTAC
36346425 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346490 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTCTACTTCAATTTCAAGGGATGACG
66 TACTTCAATTTCAGAGATGAAGACGTGTTAT---C-C-ACTCTACTTCAATTTCAAGGGATGACG
* * *
36346555 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGCTATCCACTCTTCTTCGATTTCAAGGTGA-T
126 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGG-GATT
* *
36346619 GACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTTAATTTCAAGGG
190 GACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
*
36346684 GATGACATTGCTCTTAC
255 GATGACATTGCCCTTAC
36346701 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA-GGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346765 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA-GGGATGACGTTGC
* *
36346830 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATTGGCA
130 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA-GGGATTGACA
*
36346895 TTGATCTT
194 TTGCTCTT
36346903 GTTTGGTCTG
Statistics
Matches: 444, Mismatches: 23, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
270 78 0.18
271 99 0.22
272 13 0.03
274 1 0.00
275 48 0.11
276 191 0.43
277 14 0.03
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (271 bp):
TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGACGTTGCT
CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATTGACATT
GCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGAC
ATTGCCCTTAC
Found at i:36346848 original size:203 final size:203
Alignment explanation
Indices: 36346155--36346889 Score: 1231
Period size: 203 Copynumber: 3.6 Consensus size: 203
36346145 ACTCCAATTT
*
36346155 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGAATGACGTTGC-CT
1 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
* * *
36346219 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCT-CTTCGATTTCAAGCGGATTACGTTGC
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
* * * * *
36346283 TCTTACTTCAATTTTAGAGATTAAGACGTGTTATCCACTCTACTTCAATTTCAACGGATTGGCAT
131 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGA-TGACGT
36346348 TGCTCTTAC
195 TGCTCTTAC
* * *
36346357 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGTGATGACGTTGCCCT
1 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346422 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
36346487 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTCTACTTCAATTTCAAGGGATG
131 TCTTACTTCAATTTCAGAGATGAAGACGTGTTAT---C-C-ACTCTACTTCAATTTCAAGGGATG
36346552 ACGTTGCTCTTAC
191 ACGTTGCTCTTAC
* * * *
36346565 TTCAATTTCAGAGATAAAGACGTGCTATCCACTCTTCTTCGATTTCAAGGTGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
* *
36346630 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTTAATTTCAAGGGGATGACATTGC
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
36346695 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGACGTT
131 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGACGTT
36346760 GCTCTTAC
196 GCTCTTAC
*
36346768 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346833 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
66 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
36346890 TGGCATTGAT
Statistics
Matches: 502, Mismatches: 24, Indels: 13
0.93 0.04 0.02
Matches are distributed among these distances:
202 59 0.12
203 193 0.38
204 56 0.11
205 1 0.00
207 1 0.00
208 171 0.34
209 21 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (203 bp):
TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGACGTT
GCTCTTAC
Found at i:36346887 original size:68 final size:68
Alignment explanation
Indices: 36346155--36346889 Score: 1210
Period size: 68 Copynumber: 10.8 Consensus size: 68
36346145 ACTCCAATTT
* *
36346155 TTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGAATGACGTTGC-CT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346219 TAC
66 TAC
* * *
36346222 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCT-CTTCGATTTCAAGCGGATTACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346286 TAC
66 TAC
* * * * *
36346289 TTCAATTTTAGAGATTAAGACGTGTTATCCACTCTACTTCAATTTCAA-CGGATTGGCATTGCTC
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA-TGACGTTGCTC
36346353 TTAC
65 TTAC
* *
36346357 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGTGATGACGTTGCCCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346422 TAC
66 TAC
36346425 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346490 TAC
66 TAC
36346493 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTCTACTTCAATTTCAA-GGGATGACGTT
1 TTCAATTTCAGAGATGAAGACGTGTTAT---C-C-ACTCTACTTCAATTTCAAGGGGATGACGTT
36346557 GCTCTTAC
61 GCTCTTAC
* * * * *
36346565 TTCAATTTCAGAGATAAAGACGTGCTATCCACTCTTCTTCGATTTCAAGGTGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346630 TAC
66 TAC
* *
36346633 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTTAATTTCAAGGGGATGACATTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346698 TAC
66 TAC
36346701 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA-GGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346765 TAC
66 TAC
36346768 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
36346833 TAC
66 TAC
36346836 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
1 TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
36346890 TGGCATTGAT
Statistics
Matches: 623, Mismatches: 34, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
66 22 0.04
67 158 0.25
68 375 0.60
69 3 0.00
71 1 0.00
72 46 0.07
73 18 0.03
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (68 bp):
TTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCT
TAC
Found at i:36358816 original size:30 final size:30
Alignment explanation
Indices: 36358754--36359046 Score: 351
Period size: 30 Copynumber: 9.9 Consensus size: 30
36358744 GGATTTAAGG
* *
36358754 AAGTTTAGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTAGAA
* * *
36358783 AAGTTTCGAGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * *
36358813 AAGTTTTAGGGTTAAAATGTAA-TTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
*
36358842 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * * *
36358872 AAGTTTTAGGGTCAAACTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
*
36358902 AAGTTTTGGGGTTAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
* **
36358932 AAGTTTTGGGGTCAAAATATAATTTGGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
*
36358962 AAGTTTTAGGGTC-AAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * *
36358991 AGGTTTTGGGGTTAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
*
36359021 AAGTTTTGGGGTTAAAATGTAATTTT
1 AAGTTTTGGGGTCAAAATGTAATTTT
36359047 TGGGCAATTT
Statistics
Matches: 226, Mismatches: 34, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
29 67 0.30
30 159 0.70
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTAGAA
Found at i:36358817 original size:59 final size:59
Alignment explanation
Indices: 36358754--36359046 Score: 351
Period size: 59 Copynumber: 4.9 Consensus size: 59
36358744 GGATTTAAGG
* * * * *
36358754 AAGTTTAGGGGTAAAATGGTAATTTTTG-AAAGTTTCGAGGTCAAAATATAATTTTAGAA
1 AAGTTTAGGGGTAAAAT-ATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * *
36358813 AAGTTTTAGGGTTAAAATGTAA-TTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAG-TTTAGGGGTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAA
* *
36358872 AAGTTTTA-GGGTCAAACTATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTAGAA
1 AAG-TTTAGGGGT-AAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * *
36358932 AAGTTTTGGGGTCAAAATATAATTTGGGAAAAGTTTTAGGGTC-AAATGTAATTTTAGAA
1 AAGTTTAGGGGT-AAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAA
* * * *
36358991 AGGTTTTGGGGTTAAAATATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTTT
1 AAGTTTAGGGG-TAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTT
36359047 TGGGCAATTT
Statistics
Matches: 206, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
58 7 0.03
59 104 0.50
60 95 0.46
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (59 bp):
AAGTTTAGGGGTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAA
Found at i:36359008 original size:89 final size:89
Alignment explanation
Indices: 36358754--36359045 Score: 403
Period size: 89 Copynumber: 3.3 Consensus size: 89
36358744 GGATTTAAGG
* ** *
36358754 AAGTTTAGGGGT-AAAATGGTAATTTTTG-AAAG-TTTCGAGGTCAAAATATAATTTTAGAAAAG
1 AAGTTTTGGGGTCAAAAT-GTAATTTGGGAAAAGTTTTAG-GGTC-AAATATAATTTTAGAAAAG
* *
36358816 TTTTAGGGTTAAAATGTAA-TTTGGAA
63 TTTTGGGGTTAAAATGTAATTTTAGAA
* *
36358842 AAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAACTATAATTTTGGAAAAGTT
1 AAGTTTTGGGGTCAAAATGTAATTTGGGAAAAGTTTTAGGGTCAAA-TATAATTTTAGAAAAGTT
36358907 TTGGGGTTAAAATGTAATTTTAGAA
65 TTGGGGTTAAAATGTAATTTTAGAA
* * *
36358932 AAGTTTTGGGGTCAAAATATAATTTGGGAAAAGTTTTAGGGTCAAATGTAATTTTAGAAAGGTTT
1 AAGTTTTGGGGTCAAAATGTAATTTGGGAAAAGTTTTAGGGTCAAATATAATTTTAGAAAAGTTT
*
36358997 TGGGGTTAAAATATAATTTTAGAA
66 TGGGGTTAAAATGTAATTTTAGAA
*
36359021 AAGTTTTGGGGTTAAAATGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
36359046 TTGGGCAATT
Statistics
Matches: 185, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
88 23 0.12
89 108 0.58
90 54 0.29
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (89 bp):
AAGTTTTGGGGTCAAAATGTAATTTGGGAAAAGTTTTAGGGTCAAATATAATTTTAGAAAAGTTT
TGGGGTTAAAATGTAATTTTAGAA
Found at i:36359757 original size:21 final size:21
Alignment explanation
Indices: 36359710--36359759 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
36359700 CTCTTCCTCA
36359710 TTCTTT-TTCTTCTTTTTTGT
1 TTCTTTATTCTTCTTTTTTGT
*
36359730 TTTTTTATTCTTCATTTTTTG-
1 TTCTTTATTCTTC-TTTTTTGT
36359751 TTCTTTATT
1 TTCTTTATT
36359760 TCAAAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 7 0.27
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.78
Consensus pattern (21 bp):
TTCTTTATTCTTCTTTTTTGT
Found at i:36360882 original size:6 final size:6
Alignment explanation
Indices: 36360820--36360913 Score: 70
Period size: 6 Copynumber: 15.7 Consensus size: 6
36360810 TTTAAAAAAA
* * ** *
36360820 AAATTT -AATGTT AAATTT AATGTTT TAATTT TTATTT AAATTT AAATTC
1 AAATTT AAAT-TT AAATTT AA-ATTT AAATTT AAATTT AAATTT AAATTT
*
36360869 AAA-GT AAATTT AAATAATT AAATTT AAA--T AAATTT AAATTT AAAT
1 AAATTT AAATTT AAAT--TT AAATTT AAATTT AAATTT AAATTT AAAT
36360914 AAAATTAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
4 4 0.06
5 6 0.09
6 47 0.67
7 7 0.10
8 6 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:36360904 original size:24 final size:23
Alignment explanation
Indices: 36360853--36360913 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
36360843 TTTAATTTTT
36360853 ATTTAAATTTAAATTCAAAGTAA
1 ATTTAAATTTAAATTCAAAGTAA
*
36360876 ATTTAAATAATTAAATTTAAA-TAA
1 ATTTAAAT--TTAAATTCAAAGTAA
36360900 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
36360914 AAAATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 11 0.31
25 10 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTAAATTTAAATTCAAAGTAA
Found at i:36363238 original size:20 final size:20
Alignment explanation
Indices: 36363213--36363253 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36363203 ATAGTGAGAA
* *
36363213 TATATTTTCTAAATATAAAT
1 TATATTTTCGAAATAAAAAT
36363233 TATATTTTCGAAATAAAAAT
1 TATATTTTCGAAATAAAAAT
36363253 T
1 T
36363254 CTACCAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATTTTCGAAATAAAAAT
Found at i:36366306 original size:21 final size:21
Alignment explanation
Indices: 36366282--36366321 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36366272 AAGAATTGGG
*
36366282 CCAAACGTTTTGTT-TTTTAGC
1 CCAAAC-TTTTATTGTTTTAGC
36366303 CCAAACTTTTATTGTTTTA
1 CCAAACTTTTATTGTTTTA
36366322 TAGTCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (21 bp):
CCAAACTTTTATTGTTTTAGC
Found at i:36366876 original size:17 final size:17
Alignment explanation
Indices: 36366854--36366888 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
36366844 AGTTAATATG
36366854 ATTACTTAAATATAGTA
1 ATTACTTAAATATAGTA
36366871 ATTACTTAAATATAGTA
1 ATTACTTAAATATAGTA
36366888 A
1 A
36366889 CTTTTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (17 bp):
ATTACTTAAATATAGTA
Done.