Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 29 of 127
Found at i:6065492 original size:19 final size:18
Alignment explanation
Indices: 6065469--6065524 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 18
6065459 TTTTTCATTC
*
6065469 ATTTTTTTTCTTTTTTTT
1 ATTTTTTTTTTTTTTTTT
*
6065487 ATTTTTTTCTTTTTTTTTC
1 ATTTTTTT-TTTTTTTTTT
6065506 ATTTTTTCTTTTTTTTTTT
1 ATTTTTT-TTTTTTTTTTT
6065525 TTCAAGCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 24 0.73
20 1 0.03
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (18 bp):
ATTTTTTTTTTTTTTTTT
Found at i:6065493 original size:17 final size:16
Alignment explanation
Indices: 6065470--6065526 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 16
6065460 TTTTCATTCA
6065470 TTTTTTTTCTTTTTTT
1 TTTTTTTTCTTTTTTT
6065486 TATTTTTTTCTTTTTTT
1 T-TTTTTTTCTTTTTTT
6065503 TTCATTTTTTCTTTTTTT
1 TT--TTTTTTCTTTTTTT
6065521 TTTTTT
1 TTTTTT
6065527 CAAGCATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.16
17 16 0.42
18 16 0.42
ACGTcount: A:0.04, C:0.07, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTT
Found at i:6065507 original size:37 final size:34
Alignment explanation
Indices: 6065457--6065526 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
6065447 CCTTGAGTCC
6065457 TCTTTTTCATTCATTTTTTTTCTTTTTTTTATTTTTT
1 TCTTTTTCATTCA--TTTTTTCTTTTTTTT-TTTTTT
**
6065494 TCTTTTTTTTTCATTTTTTCTTTTTTTTTTTTT
1 TCTTTTTCATTCATTTTTTCTTTTTTTTTTTTT
6065527 CAAGCATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 5 0.16
35 15 0.48
37 11 0.35
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (34 bp):
TCTTTTTCATTCATTTTTTCTTTTTTTTTTTTTT
Found at i:6075954 original size:27 final size:28
Alignment explanation
Indices: 6075923--6076003 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 28
6075913 TAATTTCGGG
6075923 AAAAATTGATACTTTCAACTTTTCTT-C
1 AAAAATTGATACTTTCAACTTTTCTTAC
* * * *
6075950 AAAAATTCAT-CTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTT--CAACTT-TTCTT-AC
6075981 AAAAATTGATACTTTCAACTTTT
1 AAAAATTGATACTTTCAACTTTT
6076004 TCCCAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
26 4 0.10
27 9 0.21
28 5 0.12
29 6 0.14
30 5 0.12
31 9 0.21
32 4 0.10
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAAATTGATACTTTCAACTTTTCTTAC
Found at i:6075993 original size:58 final size:58
Alignment explanation
Indices: 6075863--6076108 Score: 234
Period size: 58 Copynumber: 4.2 Consensus size: 58
6075853 TTTGTACAGG
* ** ***
6075863 GAAAAATTGATACTTTCAACTTAGTTTCAAAAATATTTTTTTTG-AAACTTTAATTTCGG
1 GAAAAATTGATACTTTCAACTT-TTTTCAAAAAT-TCATTTTTGAAAACTTTAATTTTAA
* *
6075922 GAAAAATTGATACTTTCAACTTTTCTTCAAAAATTCATCTTTGAAAAC-TTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTT-TTCAAAAATTCATTTTTGAAAACTTTAATTTTAA
* *
6075980 GAAAAATTGATACTTTCAACTTTTTCCCAAAAA-T-ATTTTTCGAAAACTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTTT-TCAAAAATTCATTTTT-GAAAACTTTAATTTTAA
* * *** *
6076038 GGAAAATTGATACTTTCAACTTTTCCTCAAAACCCCTTTTTTTGAAAA-TTT-ATTCTTAA
1 GAAAAATTGATACTTTCAACTTTT-TTCAAAAATTC-ATTTTTGAAAACTTTAATT-TTAA
6076097 GAAAAATTGATA
1 GAAAAATTGATA
6076109 ATATTTTTTG
Statistics
Matches: 157, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
56 5 0.03
57 8 0.05
58 82 0.52
59 52 0.33
60 5 0.03
61 5 0.03
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTTCAAAAATTCATTTTTGAAAACTTTAATTTTAA
Found at i:6076082 original size:117 final size:115
Alignment explanation
Indices: 6075863--6076108 Score: 318
Period size: 117 Copynumber: 2.1 Consensus size: 115
6075853 TTTGTACAGG
*
6075863 GAAAAATTGATACTTTCAACTTAGTTTCAAAAATATTTTTTTTGAAACTTTAATTTCGGGAAAAA
1 GAAAAATTGATACTTTCAACTTA-TTTCAAAAATA-TTTTTTCGAAACTTTAATTTCGGGAAAAA
* ** *
6075928 TTGATACTTTCAACTTTTCTTCAAAAATTCATCTTTGAAAACTTATTTTTAA
64 TTGATACTTTCAACTTTTCCTCAAAAACCCATCTTTGAAAACTTATTCTTAA
*
6075980 GAAAAATTGATACTTTCAACTT-TTTCCCAAAAATA-TTTTTCGAAAACTTTAATTTTGAGG-AA
1 GAAAAATTGATACTTTCAACTTATTT--CAAAAATATTTTTTCG-AAACTTTAATTTCG-GGAAA
* * * *
6076042 AATTGATACTTTCAACTTTTCCTCAAAACCCCTTTTTTTGAAAATTTATTCTTAA
62 AATTGATACTTTCAACTTTTCCTCAAAAACCC-ATCTTTGAAAACTTATTCTTAA
6076097 GAAAAATTGATA
1 GAAAAATTGATA
6076109 ATATTTTTTG
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
115 9 0.08
116 43 0.38
117 62 0.54
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTATTTCAAAAATATTTTTTCGAAACTTTAATTTCGGGAAAAATT
GATACTTTCAACTTTTCCTCAAAAACCCATCTTTGAAAACTTATTCTTAA
Found at i:6076141 original size:38 final size:37
Alignment explanation
Indices: 6076075--6076146 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
6076065 CAAAACCCCT
6076075 TTTTTTGAAAATTTATTCTTAAGAAAAATTGATAATA
1 TTTTTTGAAAATTTATTCTTAAGAAAAATTGATAATA
* *
6076112 TTTTTTGAAAACTTTAATT-TTGAGGAAAATTGATA
1 TTTTTTGAAAA-TTT-ATTCTTAAGAAAAATTGATA
6076147 CTTTCAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 11 0.35
38 17 0.55
39 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (37 bp):
TTTTTTGAAAATTTATTCTTAAGAAAAATTGATAATA
Found at i:6076196 original size:97 final size:96
Alignment explanation
Indices: 6076011--6076204 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 96
6076001 TTTTCCCAAA
* *
6076011 AATATTTTTCGAAAACTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACCCCTT
1 AATATTTTTCGAAAACTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACACATT
* *
6076076 TTTTTGAAAATTTATTCTTAAGAAAAATTGAT
66 TTTTGGAAAATTTATTCTAAAG-AAAATTGAT
* * * *
6076108 AATATTTTTTGAAAACTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCC-CTAAATATATT
1 AATATTTTTCGAAAACTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACACATT
* *
6076172 TTTTGGAAAGCTTGTTTTC-AAAGAAAATTGAT
66 TTTTGGAAA-ATT-TATTCTAAAGAAAATTGAT
6076204 A
1 A
6076205 CTTTCAACTT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
96 24 0.28
97 57 0.67
98 4 0.05
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (96 bp):
AATATTTTTCGAAAACTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAACACATT
TTTTGGAAAATTTATTCTAAAGAAAATTGAT
Found at i:6076296 original size:45 final size:45
Alignment explanation
Indices: 6076247--6076334 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
6076237 GGATTTTATT
* *
6076247 TAAAGAAAA-TAAAATAATAAA-ACAAAATGAAAGTGAAAATAAAAA
1 TAAAGAAAAGTAAAATAA-AAATAAAAAAT-AAAATGAAAATAAAAA
*
6076292 TAAAGAAAAGTAAAATAAAAATAAAAAATAAAATGAAGATAAA
1 TAAAGAAAAGTAAAATAAAAATAAAAAATAAAATGAAAATAAA
6076335 TAAACAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 24 0.63
46 14 0.37
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (45 bp):
TAAAGAAAAGTAAAATAAAAATAAAAAATAAAATGAAAATAAAAA
Found at i:6076306 original size:21 final size:22
Alignment explanation
Indices: 6076276--6076316 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
6076266 AAACAAAATG
6076276 AAAGTGAAAATAAAAATAAAGA
1 AAAGTGAAAATAAAAATAAAGA
6076298 AAAGT-AAAATAAAAATAAA
1 AAAGTGAAAATAAAAATAAA
6076317 AAATAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAGTGAAAATAAAAATAAAGA
Found at i:6076334 original size:18 final size:18
Alignment explanation
Indices: 6076252--6076325 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
6076242 TTATTTAAAG
*
6076252 AAAATAAAATAATAAAA-C
1 AAAATAAAA-AATAAAATA
* *
6076270 AAAAT-GAAAGTGAAAATA
1 AAAATAAAAAAT-AAAATA
6076288 AAAATAAAGAAAAGTAAAATA
1 AAAAT-AA-AAAA-TAAAATA
6076309 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
6076326 GAAGATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 2 0.04
17 6 0.13
18 16 0.36
19 4 0.09
20 2 0.04
21 14 0.31
22 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAATAAAATA
Found at i:6076736 original size:19 final size:19
Alignment explanation
Indices: 6076700--6076738 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6076690 AACTCCGGTT
* *
6076700 GAATATCATCGGATTCTGG
1 GAATATCATCGAAATCTGG
*
6076719 GAATTTCATCGAAATCTGG
1 GAATATCATCGAAATCTGG
6076738 G
1 G
6076739 TTTTTCATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (19 bp):
GAATATCATCGAAATCTGG
Found at i:6077275 original size:21 final size:22
Alignment explanation
Indices: 6077251--6077299 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6077241 AAAAATTAAC
6077251 AGATAAATTA-AAAATA-ATAAT
1 AGATAAATTATAAAATATA-AAT
*
6077272 AGATAAATTATAACATATAAAT
1 AGATAAATTATAAAATATAAAT
6077294 AGATAA
1 AGATAA
6077300 GTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (22 bp):
AGATAAATTATAAAATATAAAT
Found at i:6077348 original size:20 final size:20
Alignment explanation
Indices: 6077288--6077336 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
6077278 ATTATAACAT
* *
6077288 ATAAATAGATAAGTA-AT-A
1 ATAAATATATAACTAGATAA
*
6077306 ATAAATATATAACTAGGTAA
1 ATAAATATATAACTAGATAA
6077326 ATAAATATATA
1 ATAAATATATA
6077337 TATATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 13 0.50
19 1 0.04
20 12 0.46
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (20 bp):
ATAAATATATAACTAGATAA
Found at i:6077452 original size:15 final size:14
Alignment explanation
Indices: 6077397--6077457 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 14
6077387 AAAAAATGAT
6077397 AATAA-TAATAATA
1 AATAAGTAATAATA
*
6077410 AAGATA-TATATATATA
1 AATA-AGTA-ATA-ATA
6077426 AAT-AGTAATAATA
1 AATAAGTAATAATA
6077439 AATAAGTAAATAATA
1 AATAAGT-AATAATA
6077454 AATA
1 AATA
6077458 CATAAAAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 9 0.22
14 10 0.25
15 16 0.40
16 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAAGTAATAATA
Found at i:6077462 original size:8 final size:7
Alignment explanation
Indices: 6077397--6077516 Score: 60
Period size: 7 Copynumber: 17.3 Consensus size: 7
6077387 AAAAAATGAT
6077397 AATAAT-
1 AATAATA
6077403 AATAATA
1 AATAATA
*
6077410 AAGATATA
1 AATA-ATA
*
6077418 TATATATA
1 AATA-ATA
*
6077426 AATAGT-
1 AATAATA
6077432 AATAATA
1 AATAATA
6077439 AATAAGTA
1 AATAA-TA
6077447 AATAATA
1 AATAATA
6077454 AATACATA
1 AATA-ATA
6077462 AA-AGATA
1 AATA-ATA
*
6077469 AA-GA-A
1 AATAATA
6077474 AAT-ATA
1 AATAATA
*
6077480 TATATATA
1 AATA-ATA
6077488 ATATAA-A
1 A-ATAATA
6077495 ATATAA-A
1 A-ATAATA
6077502 AATAAT-
1 AATAATA
6077508 AATAATA
1 AATAATA
6077515 AA
1 AA
6077517 AAAAAAAGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.04
6 25 0.27
7 32 0.35
8 28 0.30
9 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:6077515 original size:15 final size:15
Alignment explanation
Indices: 6077397--6077518 Score: 55
Period size: 15 Copynumber: 8.1 Consensus size: 15
6077387 AAAAAATGAT
6077397 AATAATAATAATAAA
1 AATAATAATAATAAA
* *
6077412 GAT-AT-ATATATATA
1 AATAATAATA-ATAAA
*
6077426 AATAGTAATAAT--A
1 AATAATAATAATAAA
6077439 AATAAGTAAATAATAAA
1 AATAA-T-AATAATAAA
*
6077456 TACATAA-AA-GATAAA
1 -A-ATAATAATAATAAA
6077471 GAA-AATATATATATATAA
1 -AATAATA-ATA-ATA-AA
*
6077489 TATAA-AAT-ATAAA
1 AATAATAATAATAAA
6077502 AATAATAATAATAAA
1 AATAATAATAATAAA
6077517 AA
1 AA
6077519 AAAAAGTGGA
Statistics
Matches: 80, Mismatches: 10, Indels: 34
0.65 0.08 0.27
Matches are distributed among these distances:
13 16 0.20
14 17 0.21
15 25 0.31
16 7 0.09
17 6 0.08
18 5 0.06
19 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:6077845 original size:21 final size:22
Alignment explanation
Indices: 6077796--6077845 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
6077786 TAAATAATGA
6077796 ATATTTATTTATATAAAAAAGT
1 ATATTTATTTATATAAAAAAGT
* *
6077818 A-AATTATTT-T-TAAAAATTGT
1 ATATTTATTTATATAAAAA-AGT
6077838 ATATTTAT
1 ATATTTAT
6077846 AATTATAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 12 0.52
22 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATTTATTTATATAAAAAAGT
Found at i:6079013 original size:19 final size:17
Alignment explanation
Indices: 6078966--6079013 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
6078956 ACTTAATCAT
*
6078966 TTCATATTTTAAATTAA
1 TTCAAATTTTAAATTAA
*
6078983 TTCAACTTTTAAATTTATA
1 TTCAAATTTTAAA-TTA-A
*
6079002 TTGAAATTTTAA
1 TTCAAATTTTAA
6079014 CCAAGCTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 3 0.12
19 11 0.44
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (17 bp):
TTCAAATTTTAAATTAA
Found at i:6079631 original size:3 final size:3
Alignment explanation
Indices: 6079623--6079654 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6079613 GCAAACACCA
6079623 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6079655 ATTAAACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6088537 original size:9 final size:9
Alignment explanation
Indices: 6088517--6088563 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
6088507 TATTTTGATA
*
6088517 AAATAAAAT
1 AAATTAAAT
*
6088526 AAATTAATT
1 AAATTAAAT
6088535 AAATTAAAT
1 AAATTAAAT
6088544 -AATTAAAT
1 AAATTAAAT
6088552 AAA-TAAAT
1 AAATTAAAT
6088560 AAAT
1 AAAT
6088564 ACCAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 16 0.48
9 17 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATTAAAT
Found at i:6088554 original size:4 final size:4
Alignment explanation
Indices: 6088517--6088564 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
6088507 TATTTTGATA
* *
6088517 AAAT AAAAT AAATT AATT AAATT AAAT AATT AAAT AAAT AAAT AAAT A
1 AAAT -AAAT AAA-T AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT A
6088565 CCAAAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 26 0.70
5 11 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:6088973 original size:19 final size:19
Alignment explanation
Indices: 6088949--6088985 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6088939 ATATGGCCAA
*
6088949 AAAACTCGTTGAAAAATTC
1 AAAACTCGTCGAAAAATTC
6088968 AAAACTCGTCGAAAAATT
1 AAAACTCGTCGAAAAATT
6088986 TTGTCGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (19 bp):
AAAACTCGTCGAAAAATTC
Found at i:6089760 original size:40 final size:40
Alignment explanation
Indices: 6089661--6089799 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 40
6089651 AGGCAATAAA
*
6089661 ACTTTGAAAAATAAAATGGCTCCCCTGAATAGAGG-CAACAG
1 ACTTTGAAAAAT-AAATGGCTCCTCTGAATAGAGGTCAA-AG
* * * *
6089702 AACTTT-AGAAAATTAATGGCTTCTCTGAATAGAGGTTAATG
1 -ACTTTGA-AAAATAAATGGCTCCTCTGAATAGAGGTCAAAG
* *
6089743 ACTTTGAAAAATAAATGGCTCCTCT-AATCAAAGGCTCAACG
1 ACTTTGAAAAATAAATGGCTCCTCTGAAT-AGAGG-TCAAAG
*
6089784 ACTTTGGAAAATAAAT
1 ACTTTGAAAAATAAAT
6089800 AAATTCTCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
39 3 0.04
40 25 0.31
41 41 0.51
42 12 0.15
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (40 bp):
ACTTTGAAAAATAAATGGCTCCTCTGAATAGAGGTCAAAG
Found at i:6089795 original size:41 final size:41
Alignment explanation
Indices: 6089742--6090008 Score: 270
Period size: 41 Copynumber: 6.5 Consensus size: 41
6089732 AGAGGTTAAT
* * * *
6089742 GACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAAC
1 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
* *** * * * *
6089783 GACTTTGGAAAATAAATAAATTCTCTAAGCAGAAGCACCAT
1 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
* *
6089824 GA-TTTCAAAAATAAA-TGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
* * * *
6089863 AACTTTGAAGAGTAAATTGCTCCTCTAAAT-AAAGGCAACCAC
1 GACTTTGAAAAATAAATTGCTCCTCT-AATCAGAGGC-ACCAC
* *
6089905 AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
* * * * *
6089946 AACTTTGGAAAACAAATTACTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
6089987 GACTTTGAAAAATAAATTGCTC
1 GACTTTGAAAAATAAATTGCTC
6090009 ATTAACAATC
Statistics
Matches: 184, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
39 18 0.10
40 21 0.11
41 109 0.59
42 36 0.20
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.23
Consensus pattern (41 bp):
GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCACCAC
Found at i:6089938 original size:83 final size:82
Alignment explanation
Indices: 6089743--6090008 Score: 297
Period size: 83 Copynumber: 3.3 Consensus size: 82
6089733 GAGGTTAATG
* * * * * * * * * *
6089743 ACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAACGACTTTGGAAAATAAATAAATTCTC
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAACAAATTACTCCTC
* **
6089808 TAAGCAGAA-GCACCATG
66 TAAACA-AAGGCACCACA
* ** *
6089825 A-TTTCAAAAATAAA-TGCTCCTCTAAACAGAGGCACCACAACTTT-GAAGAGTAAATTGCTCCT
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAA-AACAAATTACTCCT
*
6089887 CTAAATAAAGGCAACCACA
65 CTAAACAAAGGC-ACCACA
6089906 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAACAAATTACTCCTC
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAACAAATTACTCCTC
* *
6089971 TAAACAGAGGCACCACG
66 TAAACAAAGGCACCACA
6089988 ACTTTGAAAAATAAATTGCTC
1 ACTTTGAAAAATAAATTGCTC
6090009 ATTAACAATC
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 5 0.03
80 40 0.26
81 17 0.11
82 39 0.25
83 51 0.33
84 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.23
Consensus pattern (82 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAACAAATTACTCCTC
TAAACAAAGGCACCACA
Found at i:6090346 original size:44 final size:44
Alignment explanation
Indices: 6090285--6090389 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 44
6090275 TTCAAGGCTT
* * * *
6090285 TTCAAAGGTTCTCATTTGGCGAA-CTTGGA-ATTTATATCCAAAAA
1 TTCAAAGCTTTTCATTT-G-GAATCTTGGAGATTCACATCCAAAAA
*
6090329 -TCTAAAGCTTTTCATTT-GAATTTTGGAGATTCACATCCAAAAA
1 TTC-AAAGCTTTTCATTTGGAATCTTGGAGATTCACATCCAAAAA
6090372 TTCAAAGCTTTTCATTTG
1 TTCAAAGCTTTTCATTTG
6090390 AGTTCAAAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
41 3 0.06
42 5 0.10
43 29 0.57
44 14 0.27
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (44 bp):
TTCAAAGCTTTTCATTTGGAATCTTGGAGATTCACATCCAAAAA
Found at i:6090621 original size:22 final size:21
Alignment explanation
Indices: 6090574--6090632 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
6090564 GGTTTCACTC
6090574 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
**
6090596 CTCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
6090618 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
6090633 CAAAATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:6091810 original size:30 final size:29
Alignment explanation
Indices: 6091764--6091850 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 29
6091754 CTTTTCATCT
* ***
6091764 TTTTTTTCTTTTTTTTTCATTTTCCCCTC
1 TTTTTTTCTTTTTTTTTCATTTTCACAAA
*
6091793 TTTTTTTCTTTTTTTTTTCACCTTTCACAAA
1 TTTTTTTC-TTTTTTTTTCA-TTTTCACAAA
6091824 TTTTTTTCCTTTTTTTTTCATCTTTCA
1 TTTTTTT-CTTTTTTTTTCAT-TTTCA
6091851 TCCATTGTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.17
30 11 0.23
31 28 0.58
32 1 0.02
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTTTTCTTTTTTTTTCATTTTCACAAA
Found at i:6101385 original size:17 final size:17
Alignment explanation
Indices: 6101363--6101396 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6101353 GTCAATTAAA
6101363 AAAAAAGGTAAAAATTT
1 AAAAAAGGTAAAAATTT
* *
6101380 AAAAAATGTGAAAATTT
1 AAAAAAGGTAAAAATTT
6101397 GCATGAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (17 bp):
AAAAAAGGTAAAAATTT
Found at i:6101977 original size:18 final size:20
Alignment explanation
Indices: 6101941--6101980 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6101931 TTTGCATGAA
*
6101941 TTTGCATTATTAATATTATT
1 TTTGCATGATTAATATTATT
6101961 TTTGCATGA-TAAT-TTATT
1 TTTGCATGATTAATATTATT
6101979 TT
1 TT
6101981 CCTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTGCATGATTAATATTATT
Found at i:6102017 original size:25 final size:25
Alignment explanation
Indices: 6102000--6102081 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 25
6101990 TTTGTTTGCA
6102000 TAATTAATATATTTATTTGTGTGAT
1 TAATTAATATATTTATTTGTGTGAT
* **
6102025 TTATT-A-ATA--TATTTGCATGAT
1 TAATTAATATATTTATTTGTGTGAT
*
6102046 T-ATTAATATATTTATTTGTATGAT
1 TAATTAATATATTTATTTGTGTGAT
6102070 TATATTTAATAT
1 TA-A-TTAATAT
6102082 GATTACAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 3 0.07
23 3 0.07
24 13 0.28
25 4 0.09
26 1 0.02
27 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (25 bp):
TAATTAATATATTTATTTGTGTGAT
Found at i:6102057 original size:45 final size:47
Alignment explanation
Indices: 6101983--6102121 Score: 167
Period size: 47 Copynumber: 3.0 Consensus size: 47
6101973 TTTATTTTCC
** * *
6101983 TAATATATTTGTTTGCATAATTAATATATTTATTTGTGTGATT-TA-T
1 TAATATATTTGCATG-ATTATTAATATATTTATTTGTATGATTATATT
6102029 TAATATATTTGCATGATTATTAATATATTTATTTGTATGATTATATT
1 TAATATATTTGCATGATTATTAATATATTTATTTGTATGATTATATT
* * * *
6102076 TAATATGA-TTACAAGATTATTAATATATTTATTTGCATAATTATAT
1 TAATAT-ATTTGCATGATTATTAATATATTTATTTGTATGATTATAT
6102122 ATTTAATTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
45 25 0.30
46 15 0.18
47 41 0.50
48 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (47 bp):
TAATATATTTGCATGATTATTAATATATTTATTTGTATGATTATATT
Found at i:6102139 original size:32 final size:32
Alignment explanation
Indices: 6102103--6102164 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
6102093 TATTAATATA
6102103 TTTATTTGCATAATTATATATTTAATTGCATG
1 TTTATTTGCATAATTATATATTTAATTGCATG
* *
6102135 TTTATTTGCATGATTATGTATTTAATTGCA
1 TTTATTTGCATAATTATATATTTAATTGCA
6102165 AATTTTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.53
Consensus pattern (32 bp):
TTTATTTGCATAATTATATATTTAATTGCATG
Found at i:6110085 original size:52 final size:52
Alignment explanation
Indices: 6109950--6110106 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
6109940 TATAACCATA
* * * * **
6109950 CAAACTTGCCCATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCTCT-TTCTTTTAGAATTCTTCTCTTGCAAGT
* * *
6110002 CAAATTTGCCTATTAAGAAT-CTTTTTCCTTTTAGAATTCTTCTCTTGCAATT
1 CAAACTTGCCTATTAAGAATCCTCTTT-CTTTTAGAATTCTTCTCTTGCAAGT
* * *
6110054 CAAACTTACCTATTAAGAATCCTCTTTCTTTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTTCTTTTAGAATTCTTCTCTTGCAAGT
6110106 C
1 C
6110107 TTCTTATCCA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.92
53 5 0.06
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTCTTTCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:6110147 original size:11 final size:11
Alignment explanation
Indices: 6110131--6110172 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
6110121 GCAATATCTG
6110131 ACAAATCTCAA
1 ACAAATCTCAA
6110142 ACAAATCTCAA
1 ACAAATCTCAA
*
6110153 ACAAATCCCAA
1 ACAAATCTCAA
6110164 ACAAATCTC
1 ACAAATCTC
6110173 TTATGGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:6110460 original size:25 final size:25
Alignment explanation
Indices: 6110385--6110461 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
6110375 TAAGCTTACT
*
6110385 TCTTCCCATGTCTCAAACCA--AGC
1 TCTTCCCATGTCTCGAACCATCAGC
* * * *
6110408 TCTTCCTATATCTCGAACTATCAAC
1 TCTTCCCATGTCTCGAACCATCAGC
*
6110433 TCTTCCCATGTCTCGAACCATCGGC
1 TCTTCCCATGTCTCGAACCATCAGC
6110458 TCTT
1 TCTT
6110462 TTCACATCTT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
23 16 0.38
25 26 0.62
ACGTcount: A:0.22, C:0.36, G:0.09, T:0.32
Consensus pattern (25 bp):
TCTTCCCATGTCTCGAACCATCAGC
Found at i:6111103 original size:52 final size:52
Alignment explanation
Indices: 6111017--6111163 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
6111007 TATAACCATA
* * * *
6111017 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCAATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCCTGTAAGT
* * * *
6111069 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGTAATT
1 CAAACTTGCCAATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCCTGTAAGT
* *
6111121 CAAACTTACCAATTAAGAATCCTCTTT-CTTTTGGAATTCTTCT
1 CAAACTTGCCAATTAAGAAT-CTCTTTCCTTTTAGAATTCTTCT
6111164 TTTGCAAGTC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
52 78 0.94
53 5 0.06
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCAATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCCTGTAAGT
Found at i:6112159 original size:9 final size:9
Alignment explanation
Indices: 6112145--6112174 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6112135 GTTTGTTGGC
6112145 TTTTTTCCT
1 TTTTTTCCT
6112154 TTTTTTCC-
1 TTTTTTCCT
6112162 TTTTTTCCT
1 TTTTTTCCT
6112171 TTTT
1 TTTT
6112175 AGAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:6112165 original size:7 final size:8
Alignment explanation
Indices: 6112144--6112174 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
6112134 TGTTTGTTGG
6112144 CTTTTTTC
1 CTTTTTTC
6112152 CTTTTTTTC
1 C-TTTTTTC
6112161 CTTTTTTC
1 CTTTTTTC
6112169 CTTTTT
1 CTTTTT
6112175 AGAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
CTTTTTTC
Found at i:6112632 original size:17 final size:17
Alignment explanation
Indices: 6112607--6112650 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6112597 AAGCCATTTT
*
6112607 AAAAA-AAAAAAGAATC
1 AAAAACAAAAAAAAATC
*
6112623 AAAAACAAAAAAAAATT
1 AAAAACAAAAAAAAATC
*
6112640 GAAAACAAAAA
1 AAAAACAAAAA
6112651 GTTTGATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAACAAAAAAAAATC
Found at i:6112837 original size:20 final size:20
Alignment explanation
Indices: 6112808--6112850 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6112798 TGATTCAATC
*
6112808 TTTTATTATCAATTTGAATT
1 TTTTAGTATCAATTTGAATT
**
6112828 TTTTAGTATCCGTTTGAATT
1 TTTTAGTATCAATTTGAATT
6112848 TTT
1 TTT
6112851 CAATCACTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTAGTATCAATTTGAATT
Found at i:6113203 original size:5 final size:5
Alignment explanation
Indices: 6113176--6113224 Score: 62
Period size: 6 Copynumber: 9.0 Consensus size: 5
6113166 TTTTTTCAAC
6113176 ATTTT CATTTT CATTTT ATTTTT ATTTT ACTTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT -ATTTT A-TTTT ATTTT A-TTTT ATTTT ATTTT ATTTT
6113225 TGTTGTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 20 0.49
6 21 0.51
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:6113225 original size:6 final size:6
Alignment explanation
Indices: 6113176--6113270 Score: 56
Period size: 6 Copynumber: 16.2 Consensus size: 6
6113166 TTTTTTCAAC
* * *
6113176 ATTTTC ATTTTC A-TTTT ATTTTT A-TTTT ACTTTT A-TTTT A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* ** **
6113220 ATTTTT GTTGTTT -TTTAGG ATTTTT ATTATTT ATTTTT ATAATT ATTTTT
1 ATTTTT ATT-TTT ATTT-TT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
6113270 A
1 A
6113271 AAAAAAATTA
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
5 20 0.28
6 40 0.56
7 12 0.17
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:6113225 original size:11 final size:11
Alignment explanation
Indices: 6113176--6113224 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
6113166 TTTTTTCAAC
*
6113176 ATTTTCATTTTC
1 ATTTT-ATTTTT
6113188 ATTTTATTTTT
1 ATTTTATTTTT
*
6113199 ATTTTACTTTT
1 ATTTTATTTTT
6113210 ATTTTA-TTTT
1 ATTTTATTTTT
6113220 ATTTT
1 ATTTT
6113225 TGTTGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
10 9 0.26
11 21 0.60
12 5 0.14
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:6113844 original size:12 final size:12
Alignment explanation
Indices: 6113829--6113862 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6113819 AGGTTTATTT
6113829 AAATAATAAAAA
1 AAATAATAAAAA
*
6113841 AAATAATGAAAA
1 AAATAATAAAAA
*
6113853 TAATAATAAA
1 AAATAATAAA
6113863 TAATAATGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAATAATAAAAA
Found at i:6114086 original size:12 final size:12
Alignment explanation
Indices: 6114071--6114102 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6114061 AAATAATAAT
*
6114071 AATAACATCAAC
1 AATAACAACAAC
6114083 AATAACAACAAC
1 AATAACAACAAC
6114095 AATAACAA
1 AATAACAA
6114103 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.22, G:0.00, T:0.12
Consensus pattern (12 bp):
AATAACAACAAC
Found at i:6114110 original size:12 final size:12
Alignment explanation
Indices: 6114065--6114111 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
6114055 TCACATAAAT
*
6114065 AATAATAATAAC
1 AATAACAATAAC
6114077 -ATCAACAATAAC
1 AAT-AACAATAAC
*
6114089 AACAACAATAAC
1 AATAACAATAAC
*
6114101 AATAATAATAA
1 AATAACAATAA
6114112 TAATCATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 2 0.07
12 26 0.90
13 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (12 bp):
AATAACAATAAC
Found at i:6114227 original size:12 final size:12
Alignment explanation
Indices: 6114210--6114236 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6114200 AATGGTCAAC
6114210 TTTCTCAAAATT
1 TTTCTCAAAATT
6114222 TTTCTCAAAATT
1 TTTCTCAAAATT
6114234 TTT
1 TTT
6114237 TTGAATGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTCTCAAAATT
Found at i:6117710 original size:20 final size:20
Alignment explanation
Indices: 6117687--6117727 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6117677 AAAGAATTGC
6117687 CCCCTTATCCACAATGCAGA
1 CCCCTTATCCACAATGCAGA
6117707 CCCCTTATCCACAATGCAGA
1 CCCCTTATCCACAATGCAGA
6117727 C
1 C
6117728 GTTGTAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.41, G:0.10, T:0.20
Consensus pattern (20 bp):
CCCCTTATCCACAATGCAGA
Found at i:6119339 original size:3 final size:3
Alignment explanation
Indices: 6119331--6119383 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6119321 AACAAGGTAT
6119331 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6119379 ATA AT
1 ATA AT
6119384 GATCTTAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6122303 original size:17 final size:16
Alignment explanation
Indices: 6122281--6122317 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
6122271 TACATTTATT
6122281 TTTTATTATTTATTGTA
1 TTTTATTATTTATT-TA
6122298 TTTTATTATTTATTTA
1 TTTTATTATTTATTTA
6122314 TTTT
1 TTTT
6122318 GCGTTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:6125923 original size:3 final size:3
Alignment explanation
Indices: 6125915--6125949 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6125905 ATTAAGTTGA
6125915 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6125950 GATGATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6126739 original size:3 final size:3
Alignment explanation
Indices: 6126731--6126773 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6126721 AAGGTACGTA
6126731 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6126774 TCCCAAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6130084 original size:8 final size:8
Alignment explanation
Indices: 6130071--6130120 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
6130061 CGGCATGAAA
6130071 AAAAAAGG
1 AAAAAAGG
6130079 AAAAAAGG
1 AAAAAAGG
6130087 AAAAAAGAAG
1 AAAAAAG--G
6130097 AAGAAAAGG
1 AA-AAAAGG
6130106 -AAAAAGG
1 AAAAAAGG
6130113 AGAAAAAG
1 A-AAAAAG
6130121 AAAGTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 6 0.16
8 16 0.43
9 7 0.19
10 3 0.08
11 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:6130116 original size:18 final size:19
Alignment explanation
Indices: 6130067--6130110 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6130057 TGTTCGGCAT
*
6130067 GAAAAAAAAAGGAA-AAAAG
1 GAAAAAAGAA-GAAGAAAAG
6130086 GAAAAAAGAAGAAGAAAAG
1 GAAAAAAGAAGAAGAAAAG
6130105 GAAAAA
1 GAAAAA
6130111 GGAGAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
GAAAAAAGAAGAAGAAAAG
Found at i:6130130 original size:27 final size:26
Alignment explanation
Indices: 6130071--6130143 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
6130061 CGGCATGAAA
6130071 AAAAAAGGAAAAAAGGA-AAAAAGAAG
1 AAAAAAGG-AAAAAGGAGAAAAAGAAG
6130097 AAGAAAAGGAAAAAGGAGAAAAAGAAAG
1 AA-AAAAGGAAAAAGGAGAAAAAG-AAG
* *
6130125 TAAAAATGAAAAATGGAGA
1 AAAAAAGGAAAAA-GGAGA
6130144 GTTTGAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.24
27 22 0.54
28 9 0.22
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAAAAAGGAAAAAGGAGAAAAAGAAG
Found at i:6130137 original size:28 final size:26
Alignment explanation
Indices: 6130071--6130143 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
6130061 CGGCATGAAA
6130071 AAAAAAGGAAAAAAGGA-AAAAAGAAG
1 AAAAAA-GAAAAAAGGAGAAAAAGAAG
*
6130097 AAGAAAAGGAAAAAGGAGAAAAAGAAAG
1 AA-AAAAGAAAAAAGGAGAAAAAG-AAG
* *
6130125 TAAAAATGAAAAATGGAGA
1 -AAAAAAGAAAAAAGGAGA
6130144 GTTTGAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.28
27 10 0.26
28 16 0.41
29 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAAAAAGAAAAAAGGAGAAAAAGAAG
Found at i:6131277 original size:36 final size:36
Alignment explanation
Indices: 6131235--6131304 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
6131225 TGTAAACATT
* * *
6131235 TAATTTTGTTTTACTTAATGATTTCGTGTTCTAAAC
1 TAATTTTGCTTTACTTAATGATTCCGTATTCTAAAC
* *
6131271 TAATTTTGCTTTGCTTAGTGATTCCGTATTCTAA
1 TAATTTTGCTTTACTTAATGATTCCGTATTCTAA
6131305 CTTATGTTCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (36 bp):
TAATTTTGCTTTACTTAATGATTCCGTATTCTAAAC
Found at i:6132290 original size:271 final size:271
Alignment explanation
Indices: 6131800--6132336 Score: 1011
Period size: 271 Copynumber: 2.0 Consensus size: 271
6131790 ACCCATCAAA
*
6131800 TCCAAGCCACACTACCAGCCACCCTACAGCCACTATGGCGACTGAATTTTAGTTGCCAGTCACTT
1 TCCAAGCCACACTACCAGCCACCCTACAGCCACTATAGCGACTGAATTTTAGTTGCCAGTCACTT
* *
6131865 CAACAACCTAGCAACACCCTTTCTCTCCCAGACTTTGGTCTACTATCTGTGTCTTCTCTGTGATC
66 CAACAACCTAGCAACACCCTTTCTCTCCCAGACTATGGTCTACTATCTCTGTCTTCTCTGTGATC
6131930 CCCAAATCCCTTTTAAGACTAAACAATCATAACAAATGAGGAGGCCATCTTTTTAGACACCAGAA
131 CCCAAATCCCTTTTAAGACTAAACAATCATAACAAATGAGGAGGCCATCTTTTTAGACACCAGAA
* *
6131995 GCCCTGGTAAAATACTACTACAACAACACCAAGACCAACTCTACCGAGACCCCTAAGCACTACTG
196 GACCTGGTAAAATACTAATACAACAACACCAAGACCAACTCTACCGAGACCCCTAAGCACTACTG
6132060 TCCCCATCTCC
261 TCCCCATCTCC
6132071 TCCAAGCCACACTACCAGCCACCCTACAGCCACTATAGCGACTGAATTTTAGTTGCCAGTCACTT
1 TCCAAGCCACACTACCAGCCACCCTACAGCCACTATAGCGACTGAATTTTAGTTGCCAGTCACTT
6132136 CAACAACCTAGCAACACCCTTTCTCTCCCAGACTATGGTCTACTATCTCTGTCTTCTCTGTGATC
66 CAACAACCTAGCAACACCCTTTCTCTCCCAGACTATGGTCTACTATCTCTGTCTTCTCTGTGATC
* *
6132201 CCTAAATCCCTTTTAAGACTAAACAATCATAACAAATGAGGAGGCCATCTTTTTGGACACCAGAA
131 CCCAAATCCCTTTTAAGACTAAACAATCATAACAAATGAGGAGGCCATCTTTTTAGACACCAGAA
6132266 GACCTGGTAAAATACTAATACAACAACACCAAGACCAACTCTACCGAGACCCCTAAGCACTACTG
196 GACCTGGTAAAATACTAATACAACAACACCAAGACCAACTCTACCGAGACCCCTAAGCACTACTG
6132331 TCCCCA
261 TCCCCA
6132337 AGTCACCGTT
Statistics
Matches: 259, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
271 259 1.00
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.24
Consensus pattern (271 bp):
TCCAAGCCACACTACCAGCCACCCTACAGCCACTATAGCGACTGAATTTTAGTTGCCAGTCACTT
CAACAACCTAGCAACACCCTTTCTCTCCCAGACTATGGTCTACTATCTCTGTCTTCTCTGTGATC
CCCAAATCCCTTTTAAGACTAAACAATCATAACAAATGAGGAGGCCATCTTTTTAGACACCAGAA
GACCTGGTAAAATACTAATACAACAACACCAAGACCAACTCTACCGAGACCCCTAAGCACTACTG
TCCCCATCTCC
Found at i:6134040 original size:127 final size:127
Alignment explanation
Indices: 6133879--6134131 Score: 429
Period size: 127 Copynumber: 2.0 Consensus size: 127
6133869 AAAACTCATT
6133879 AAATTTCAATTTGATAAGATATAGTACTACATATATATTCATTAGATGAGAGCCAAATAAATAAT
1 AAATTTCAATTTGATAAGATATAGTACTACATATATATTCATTAGATGAGAGCCAAATAAATAAT
* *
6133944 GAATATTTATTTATATAAAATAGTCA-TTTATTTTTAAAAGTTGTGCATGTATAAATACAATG
66 GAATATTTATTTATATAAAATA-TCAGTTTATTTTTAAAAATTGTACATGTATAAATACAATG
6134006 AAATTTCAATTTGATAAGATAT-GATACTACATATATATTCATTAGATGAGAGCCAAATAAATAA
1 AAATTTCAATTTGATAAGATATAG-TACTACATATATATTCATTAGATGAGAGCCAAATAAATAA
* * *
6134070 TGAATATTTATTTGTATAAAATATTAGTTTATTTTTAAAAATTGTACATGTATAATTACAAT
65 TGAATATTTATTTATATAAAATATCAGTTTATTTTTAAAAATTGTACATGTATAAATACAAT
6134132 TATCTATTCT
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
126 3 0.03
127 116 0.97
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (127 bp):
AAATTTCAATTTGATAAGATATAGTACTACATATATATTCATTAGATGAGAGCCAAATAAATAAT
GAATATTTATTTATATAAAATATCAGTTTATTTTTAAAAATTGTACATGTATAAATACAATG
Found at i:6135554 original size:13 final size:13
Alignment explanation
Indices: 6135517--6135557 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
6135507 TCAAAATTTG
6135517 ATTTAAATTTAAT
1 ATTTAAATTTAAT
*
6135530 ATATATATATTTAAT
1 AT-T-TAAATTTAAT
6135545 ATTTAAATTTAAT
1 ATTTAAATTTAAT
6135558 CTAAATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 11 0.46
14 2 0.08
15 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAAATTTAAT
Found at i:6136564 original size:115 final size:115
Alignment explanation
Indices: 6136362--6136572 Score: 377
Period size: 115 Copynumber: 1.8 Consensus size: 115
6136352 AGTATCTCAC
*
6136362 AAGGAAAAATTATATTTATAATGATCCATCGAGATACACATTAACTATTAGTGCCTTACACAAGA
1 AAGGAAAAATTATATTTATAATGATCCATCGAGATACACATTAACTATTAGTGCCTTACACAAAA
*
6136427 ATGATAAGCTCTTTAAGTATTTAATGACCTATTAGTTAAGTATGCAAATT
66 ATAATAAGCTCTTTAAGTATTTAATGACCTATTAGTTAAGTATGCAAATT
* *
6136477 AAGGAAAAATTATATTTATAATGATCCATTGAGATACACATTAATTATTAGTGCCTTACACAAAA
1 AAGGAAAAATTATATTTATAATGATCCATCGAGATACACATTAACTATTAGTGCCTTACACAAAA
*
6136542 ATAATTAGCTCTTTAAGTATTTAATGACCTA
66 ATAATAAGCTCTTTAAGTATTTAATGACCTA
6136573 AAGAGATATA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 91 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (115 bp):
AAGGAAAAATTATATTTATAATGATCCATCGAGATACACATTAACTATTAGTGCCTTACACAAAA
ATAATAAGCTCTTTAAGTATTTAATGACCTATTAGTTAAGTATGCAAATT
Found at i:6144549 original size:21 final size:22
Alignment explanation
Indices: 6144525--6144570 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
6144515 AAAAGATGAA
6144525 AATGATGAA-TAAAT-ATTAAAT
1 AATGAT-AAGTAAATAATTAAAT
6144546 AATGATAAGTAAATAATTAAAT
1 AATGATAAGTAAATAATTAAAT
6144568 AAT
1 AAT
6144571 TTATTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.09
21 11 0.48
22 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
AATGATAAGTAAATAATTAAAT
Found at i:6145858 original size:43 final size:43
Alignment explanation
Indices: 6145797--6145884 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
6145787 ACAAACTAAG
6145797 ATAATAACAAACAATAGCTTTAACATGAAACATGTAAAATAAC
1 ATAATAACAAACAATAGCTTTAACATGAAACATGTAAAATAAC
**
6145840 ATAATAACAAACAATAGCTTTAACATGAAATTTGTAAAATAAC
1 ATAATAACAAACAATAGCTTTAACATGAAACATGTAAAATAAC
6145883 AT
1 AT
6145885 GTGAGAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (43 bp):
ATAATAACAAACAATAGCTTTAACATGAAACATGTAAAATAAC
Found at i:6147843 original size:17 final size:17
Alignment explanation
Indices: 6147821--6147857 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6147811 AAAAATAAAT
6147821 TTATAAATATCTTACAA
1 TTATAAATATCTTACAA
6147838 TTATAAATATCTTACAA
1 TTATAAATATCTTACAA
6147855 TTA
1 TTA
6147858 ACAAACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATAAATATCTTACAA
Found at i:6161274 original size:19 final size:20
Alignment explanation
Indices: 6161247--6161287 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6161237 TATAAACAAT
* *
6161247 AATAGTAATAGT-TCAATAA
1 AATAATAATAGTAACAATAA
6161266 AATAATAATAGTAACAATAA
1 AATAATAATAGTAACAATAA
6161286 AA
1 AA
6161288 CTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
AATAATAATAGTAACAATAA
Found at i:6164542 original size:16 final size:16
Alignment explanation
Indices: 6164523--6164577 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
6164513 AAGTTGGATT
*
6164523 AATTTAAATTTGAATC
1 AATTTAAATTTAAATC
*
6164539 AATTTAAATTTAAATT
1 AATTTAAATTTAAATC
* *
6164555 ATTTTAAGTTTAAATC
1 AATTTAAATTTAAATC
6164571 AATTTAA
1 AATTTAA
6164578 CTTTGAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTAAATTTAAATC
Found at i:6164592 original size:32 final size:32
Alignment explanation
Indices: 6164520--6164590 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
6164510 TTTAAGTTGG
* *
6164520 ATTAATTTAAATTTGAATCAATTTAAATTTAA
1 ATTATTTTAAATTTAAATCAATTTAAATTTAA
* * *
6164552 ATTATTTTAAGTTTAAATCAATTTAACTTTGA
1 ATTATTTTAAATTTAAATCAATTTAAATTTAA
6164584 A-TATTTT
1 ATTATTTT
6164591 TATCTTGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 6 0.18
32 28 0.82
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (32 bp):
ATTATTTTAAATTTAAATCAATTTAAATTTAA
Found at i:6165057 original size:18 final size:20
Alignment explanation
Indices: 6165036--6165089 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
6165026 ATAAATATAT
*
6165036 ATTAATATAT-AT-TTTTTA
1 ATTAATATATAATAATTTTA
*
6165054 ATTAAAATATAATAATTTTA
1 ATTAATATATAATAATTTTA
* *
6165074 ATTAATCTAAAATAAT
1 ATTAATATATAATAAT
6165090 AATTTATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 9 0.31
19 2 0.07
20 18 0.62
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAATATATAATAATTTTA
Found at i:6165563 original size:13 final size:13
Alignment explanation
Indices: 6165545--6165608 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
6165535 TAAAATTATA
6165545 ATTATAATTAAAT
1 ATTATAATTAAAT
* *
6165558 ATTATATTTATAT
1 ATTATAATTAAAT
* *
6165571 AAT-TAATTAAAA
1 ATTATAATTAAAT
* *
6165583 ATTTTAATATTAA-
1 ATTATAAT-TAAAT
6165596 ATTATAATTAAAT
1 ATTATAATTAAAT
6165609 TAAAATCATT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
12 11 0.29
13 24 0.63
14 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATAATTAAAT
Found at i:6165563 original size:19 final size:18
Alignment explanation
Indices: 6165534--6165614 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 18
6165524 TATTTTTATT
6165534 TTAAAATTATAATTATAA
1 TTAAAATTATAATTATAA
*
6165552 TTAAATATTATATTTAT-A
1 TTAAA-ATTATAATTATAA
* *
6165570 -TAATTAATTAAAAATTTTAA
1 TTAA--AATT-ATAATTATAA
*
6165590 TATTAAATTATAATTA-AA
1 T-TAAAATTATAATTATAA
6165608 TTAAAAT
1 TTAAAAT
6165615 CATTGAATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
17 8 0.17
18 12 0.25
19 21 0.44
20 5 0.10
22 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATTATAATTATAA
Found at i:6165805 original size:29 final size:30
Alignment explanation
Indices: 6165772--6165841 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
6165762 CAAATATATA
6165772 TATAATGACAAAATTCAATAA-AA-TTAAAT
1 TATAATGACAAAATTCAA-AATAATTTAAAT
* *
6165801 TATAATGACGAAATTCAAAATAATTTGAAT
1 TATAATGACAAAATTCAAAATAATTTAAAT
*
6165831 TATAAAGACAA
1 TATAATGACAA
6165842 TAGAGTATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.06
29 19 0.54
30 14 0.40
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (30 bp):
TATAATGACAAAATTCAAAATAATTTAAAT
Found at i:6168822 original size:11 final size:11
Alignment explanation
Indices: 6168806--6168830 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6168796 ACATGACACA
6168806 TTAATAATATG
1 TTAATAATATG
6168817 TTAATAATATG
1 TTAATAATATG
6168828 TTA
1 TTA
6168831 TACTCATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TTAATAATATG
Found at i:6168825 original size:45 final size:45
Alignment explanation
Indices: 6168772--6168862 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
6168762 TCATAACAAA
*
6168772 TTAATAATACATAAAACTCATAATACATGACACATTAATAATATG
1 TTAATAATACATAAAACTCATAATACATGACACATAAATAATATG
** * * * *
6168817 TTAATAATATGTTATACTCATAATACGTGATACATAAATAATATG
1 TTAATAATACATAAAACTCATAATACATGACACATAAATAATATG
6168862 T
1 T
6168863 GTGCGTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (45 bp):
TTAATAATACATAAAACTCATAATACATGACACATAAATAATATG
Found at i:6169614 original size:13 final size:13
Alignment explanation
Indices: 6169596--6169621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6169586 CTCAACATTT
6169596 TTTTATTTTTTTA
1 TTTTATTTTTTTA
6169609 TTTTATTTTTTTA
1 TTTTATTTTTTTA
6169622 ATCTAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:6175187 original size:29 final size:30
Alignment explanation
Indices: 6175111--6175197 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
6175101 AAAATCTTTA
* *
6175111 AAAAATAATACTATAGGGACTAAATTTCTT
1 AAAAATAATACTATAAGAACTAAATTTCTT
* * *
6175141 AAAAATAATATTACAAGAATTAAATTTCTT
1 AAAAATAATACTATAAGAACTAAATTTCTT
*
6175171 -TAAATAATACTATAAGAACTAAATTTC
1 AAAAATAATACTATAAGAACTAAATTTC
6175198 AAAAAATTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
29 23 0.48
30 25 0.52
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAAATAATACTATAAGAACTAAATTTCTT
Found at i:6175204 original size:29 final size:29
Alignment explanation
Indices: 6175110--6175204 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
6175100 TAAAATCTTT
* *
6175110 AAAAAATAATACTATAGGGACTAAATTTC
1 AAAAAATAATACTATAAGAACTAAATTTC
* * * *
6175139 TTAAAAATAATATTACAAGAATTAAATTTC
1 -AAAAAATAATACTATAAGAACTAAATTTC
***
6175169 TTTAAATAATACTATAAGAACTAAATTTC
1 AAAAAATAATACTATAAGAACTAAATTTC
6175198 AAAAAAT
1 AAAAAAT
6175205 TGAAGAGTAC
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 28 0.55
30 23 0.45
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAAATAATACTATAAGAACTAAATTTC
Found at i:6175518 original size:73 final size:73
Alignment explanation
Indices: 6175347--6175518 Score: 168
Period size: 73 Copynumber: 2.3 Consensus size: 73
6175337 AAACTATTTT
* * * * * **
6175347 TTTTTAATTTTAGAAACATCATCTTTATTGAGTTTTGAAAACTATATTTTTTCATGTTTTTGATA
1 TTTTT-ATCTTAGAAACATCATCTTTATTGAATTCTAAAAAATATATTTTTTCATGTTTTCAATA
* *
6175412 AATACTGTA
65 AAGACTGCA
* ** *
6175421 TTTTCTATCTTA-AAACGTTGTCTTTGTTGAATTCTAAAAAATATAATTTTTT-ATGTTTTCAAT
1 TTTT-TATCTTAGAAACATCATCTTTATTGAATTCTAAAAAATAT-ATTTTTTCATGTTTTCAAT
*
6175484 AAAGATTGCA
64 AAAGACTGCA
*
6175494 TTTTTATCTTAGAAATATCATCTTT
1 TTTTTATCTTAGAAACATCATCTTT
6175519 TCAATAAAGA
Statistics
Matches: 77, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
72 7 0.09
73 53 0.69
74 16 0.21
75 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (73 bp):
TTTTTATCTTAGAAACATCATCTTTATTGAATTCTAAAAAATATATTTTTTCATGTTTTCAATAA
AGACTGCA
Found at i:6175552 original size:38 final size:37
Alignment explanation
Indices: 6175476--6175556 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 37
6175466 ATTTTTTATG
* *
6175476 TTTTCAATAAAGATTGCATTTTTATCTTAGAAATATCAT
1 TTTTCAATAAAGATT--ATTTTTATCTTAAAAACATCAT
*
6175515 CTTTTCAATAAAGACTT-TTTTTATTTTAAAAACATCAT
1 -TTTTCAATAAAGA-TTATTTTTATCTTAAAAACATCAT
6175553 TTTT
1 TTTT
6175557 GTTAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 4 0.11
38 18 0.49
40 13 0.35
41 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (37 bp):
TTTTCAATAAAGATTATTTTTATCTTAAAAACATCAT
Found at i:6175592 original size:90 final size:93
Alignment explanation
Indices: 6175492--6175676 Score: 252
Period size: 93 Copynumber: 2.0 Consensus size: 93
6175482 ATAAAGATTG
* * * * *
6175492 CATTTTTATCTTAGAAATATCATC-TTTTCAATAAAG-ACTTTTTTTATTTTAAAAACATCATTT
1 CATTTTTATCTTAGAAATATCATCTTTTTCAACAAAGCACATTATTTA-TCTAAAAACATCATCT
*
6175555 TTGTTAAATTTTGAAAAAT-AT-TTTTTT
65 TTGTTAAATTTTAAAAAATAATGTTTTTT
*
6175582 CATTTTTATCTTAGAAATATTATCTTTTTCAACAAAGACCACATTATTTATCTAAAAACATCATC
1 CATTTTTATCTTAGAAATATCATCTTTTTCAACAAAG--CACATTATTTATCTAAAAACATCATC
6175647 TTTGTTAAATTTTAAAAAATAATGTTTTTT
64 TTTGTTAAATTTTAAAAAATAATGTTTTTT
6175677 ATATTCTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
90 23 0.28
91 11 0.13
93 32 0.39
94 10 0.12
95 6 0.07
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (93 bp):
CATTTTTATCTTAGAAATATCATCTTTTTCAACAAAGCACATTATTTATCTAAAAACATCATCTT
TGTTAAATTTTAAAAAATAATGTTTTTT
Found at i:6175762 original size:73 final size:73
Alignment explanation
Indices: 6175607--6175763 Score: 165
Period size: 73 Copynumber: 2.2 Consensus size: 73
6175597 AATATTATCT
* *
6175607 TTTTCAACAAAGACCACATTATTTATCTAAAAACATCATCTTTGTTAAATTTTAAAAAATAATGT
1 TTTTCAACAAAGACCACATTATTTATCTAAAAACATCATCTTTGTCAAATTATAAAAAATAATGT
*
6175672 TTTTTATA
66 TTTTCATA
** * * * ** * *
6175680 TTCTT-AACAAAGACCATGTTTTTTATTTTAAAAACCTTGTTTTTGTCAAATTATGAAAAATAAT
1 TT-TTCAACAAAGACCACATTATTTA-TCTAAAAACATCATCTTTGTCAAATTATAAAAAATAAT
*
6175744 -TTTTTCATG
64 GTTTTTCATA
6175753 TTTTCAACAAA
1 TTTTCAACAAA
6175764 AAAATCATGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
72 2 0.03
73 34 0.50
74 32 0.47
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (73 bp):
TTTTCAACAAAGACCACATTATTTATCTAAAAACATCATCTTTGTCAAATTATAAAAAATAATGT
TTTTCATA
Found at i:6176892 original size:33 final size:33
Alignment explanation
Indices: 6176850--6176912 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
6176840 GGATCAGTCA
* * *
6176850 GCAACAATGTTAATTTCATAGAAACTAAAATCG
1 GCAACAATGTTAATTCCAAAGAAACCAAAATCG
*
6176883 GCAATAATGTTAATTCCAAAGAAACCAAAA
1 GCAACAATGTTAATTCCAAAGAAACCAAAA
6176913 CTTTAAAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (33 bp):
GCAACAATGTTAATTCCAAAGAAACCAAAATCG
Found at i:6177320 original size:10 final size:10
Alignment explanation
Indices: 6177305--6177330 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6177295 TAATAAAGTT
6177305 TTAAAATTTA
1 TTAAAATTTA
6177315 TTAAAATTTA
1 TTAAAATTTA
6177325 TTAAAA
1 TTAAAA
6177331 AACATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:6177992 original size:21 final size:18
Alignment explanation
Indices: 6177966--6178016 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
6177956 TCTTCTCATT
6177966 TTTATTACTTATATTTTTGA
1 TTTATTACTTA-ATTTTT-A
* *
6177986 TATTATTAATCAATTTTTA
1 T-TTATTACTTAATTTTTA
6178005 TTTATTACTTAA
1 TTTATTACTTAA
6178017 AAAAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 7 0.27
21 8 0.31
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATTACTTAATTTTTA
Found at i:6178885 original size:21 final size:21
Alignment explanation
Indices: 6178861--6178905 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
6178851 TGACCTCCTT
*
6178861 TTCACCAAAAGGAGCCTCCAC
1 TTCACCAAAAAGAGCCTCCAC
6178882 TTCACCAAAAAGAGCCTCCAC
1 TTCACCAAAAAGAGCCTCCAC
6178903 TTC
1 TTC
6178906 CCTAGATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.38, G:0.11, T:0.18
Consensus pattern (21 bp):
TTCACCAAAAAGAGCCTCCAC
Found at i:6179056 original size:10 final size:10
Alignment explanation
Indices: 6179041--6179073 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
6179031 GGATTGTGTA
6179041 TATTTTTTTG
1 TATTTTTTTG
6179051 TATTTTTTTG
1 TATTTTTTTG
6179061 TATTATTTTTG
1 TATT-TTTTTG
6179072 TA
1 TA
6179074 GCGTCTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (10 bp):
TATTTTTTTG
Found at i:6179401 original size:19 final size:19
Alignment explanation
Indices: 6179365--6179433 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
6179355 GATTCTGTTC
*
6179365 TTTTTTTTTG--TTTCGTA
1 TTTTTTTTTGTATTTTGTA
6179382 TTTTTTTTTGTATTTTGTA
1 TTTTTTTTTGTATTTTGTA
* * *
6179401 TTATTTTATATATTTT-TA
1 TTTTTTTTTGTATTTTGTA
* *
6179419 TTGTATTTTGTATTT
1 TTTTTTTTTGTATTT
6179434 ATATTTATAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 10 0.24
18 13 0.31
19 19 0.45
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.75
Consensus pattern (19 bp):
TTTTTTTTTGTATTTTGTA
Found at i:6179416 original size:26 final size:26
Alignment explanation
Indices: 6179386--6179458 Score: 67
Period size: 30 Copynumber: 2.7 Consensus size: 26
6179376 TTCGTATTTT
*
6179386 TTTTTGTATTTTGTATTATTTTATATA
1 TTTTTGTATTTTGTATTATATT-TATA
6179413 TTTTTATTGTATTTTGTATTTATATTTATA
1 --TTT-TTGTATTTTGTA-TTATATTTATA
* *
6179443 -CTTTGTATTTTATATT
1 TTTTTGTATTTTGTATT
6179459 TCTGGATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 2 0.05
26 11 0.28
27 1 0.03
29 3 0.08
30 16 0.41
31 6 0.15
ACGTcount: A:0.22, C:0.01, G:0.07, T:0.70
Consensus pattern (26 bp):
TTTTTGTATTTTGTATTATATTTATA
Found at i:6179423 original size:30 final size:32
Alignment explanation
Indices: 6179383--6179442 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
6179373 TGTTTCGTAT
*
6179383 TTTTTTTTGTATTTTGTA-TTAT-TTTATATA
1 TTTTTATTGTATTTTGTATTTATATTTATATA
6179413 TTTTTATTGTATTTTGTATTTATATTTATA
1 TTTTTATTGTATTTTGTATTTATATTTATA
6179443 CTTTGTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 17 0.63
31 4 0.15
32 6 0.22
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (32 bp):
TTTTTATTGTATTTTGTATTTATATTTATATA
Found at i:6181526 original size:30 final size:30
Alignment explanation
Indices: 6181491--6181566 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
6181481 ACTTTGCATA
*
6181491 TAAATAAATTCTTAAACTTTAATTTATA-T
1 TAAATAAATTCTTAAACTTTAATTTATACC
* *
6181520 TCAAATAAA-TCATTTAACCTTTAATTTGTACC
1 T-AAATAAATTC--TTAAACTTTAATTTATACC
6181552 TAAATAAATTCTTAA
1 TAAATAAATTCTTAA
6181567 TATAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 22 0.56
32 3 0.08
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (30 bp):
TAAATAAATTCTTAAACTTTAATTTATACC
Found at i:6186295 original size:11 final size:12
Alignment explanation
Indices: 6186273--6186302 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
6186263 CACATTAACA
6186273 AATTACAAAAAT
1 AATTACAAAAAT
6186285 AATTA-AAAAAT
1 AATTACAAAAAT
6186296 AATTACA
1 AATTACA
6186303 TACTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (12 bp):
AATTACAAAAAT
Found at i:6189187 original size:171 final size:169
Alignment explanation
Indices: 6188864--6189198 Score: 591
Period size: 171 Copynumber: 2.0 Consensus size: 169
6188854 TTTAGATAAT
* **
6188864 TTAAGGTGCTAGCTAGCTTGGATGAAGAGCCTAAGACCGAGGACATATCCTACTTTCCCACTTTT
1 TTAAGGTGCTAACTAGCTTGGACAAAGAGCCTAAGACCGAGGACATATCCTACTTTCCCACTTTT
*
6188929 TTTTTCTTTTACTCTTCTTTTTTATCAACCATTCCATATGATTAAAAGCAACTGATCCTACAGCA
66 TTTTTCTTTTACTCTTCTTTTTTATCAACCATTCCATACGATTAAAAGCAACTGATCCTACAGCA
6188994 GTTGACTTCATAGGGTTTAGCCTGTCAAACTTACAACTA
131 GTTGACTTCATAGGGTTTAGCCTGTCAAACTTACAACTA
*
6189033 TTAAGGTGCTAACTAGCTTGGCCAAAGAGCCTAAGACCGAGGACATATCCTACTTTCCCACTTTA
1 TTAAGGTGCTAACTAGCTTGGACAAAGAGCCTAAGACCGAGGACATATCCTACTTTCCCACTTT-
6189098 TTTTTTCTTTTACTCTTCTTTTTTTATCAACCATTCCATACGATTAAAAGCAACTGATCCTACAG
65 TTTTTTCTTTTACTCTTC-TTTTTTATCAACCATTCCATACGATTAAAAGCAACTGATCCTACAG
6189163 CAGTTGACTTCATATGGG-TTAGCCTGTCAAACTTAC
129 CAGTTGACTTCATA-GGGTTTAGCCTGTCAAACTTAC
6189199 CGATTTTTCT
Statistics
Matches: 158, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
169 60 0.38
170 18 0.11
171 77 0.49
172 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (169 bp):
TTAAGGTGCTAACTAGCTTGGACAAAGAGCCTAAGACCGAGGACATATCCTACTTTCCCACTTTT
TTTTTCTTTTACTCTTCTTTTTTATCAACCATTCCATACGATTAAAAGCAACTGATCCTACAGCA
GTTGACTTCATAGGGTTTAGCCTGTCAAACTTACAACTA
Found at i:6194181 original size:2 final size:2
Alignment explanation
Indices: 6194176--6194237 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
6194166 GTCAAAAAAG
* *
6194176 TA TA TA TA TA TA TA TA TA TC TA TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
6194218 TA T- TA TG TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
6194238 TTTTTATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6196259 original size:21 final size:21
Alignment explanation
Indices: 6196235--6196277 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6196225 TTTAAAGTAG
**
6196235 TAAAATTTGAATTTTAATAAT
1 TAAAATTAAAATTTTAATAAT
6196256 TAAAATTAAAATTTTAATAAT
1 TAAAATTAAAATTTTAATAAT
6196277 T
1 T
6196278 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAAATTAAAATTTTAATAAT
Found at i:6198676 original size:12 final size:12
Alignment explanation
Indices: 6198644--6198677 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6198634 ATGTTAGAAT
6198644 TATTATATTAAA
1 TATTATATTAAA
*
6198656 TATCATATTAAA
1 TATTATATTAAA
*
6198668 TATTTTATTA
1 TATTATATTA
6198678 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTATATTAAA
Found at i:6198706 original size:18 final size:17
Alignment explanation
Indices: 6198672--6198707 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
6198662 ATTAAATATT
6198672 TTATTATAATTTAAAAA
1 TTATTATAATTTAAAAA
6198689 TTATTCATAATATTAAAAA
1 TTATT-ATAAT-TTAAAAA
6198708 AAAAAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATTATAATTTAAAAA
Found at i:6199036 original size:18 final size:20
Alignment explanation
Indices: 6199008--6199046 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
6198998 AAAATATTAA
*
6199008 TCATAATTCATTAAA-AAAT
1 TCATAATTCATAAAAGAAAT
6199027 TCAT-ATTCATAAAAGAAAT
1 TCATAATTCATAAAAGAAAT
6199046 T
1 T
6199047 TAACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
TCATAATTCATAAAAGAAAT
Found at i:6201891 original size:12 final size:12
Alignment explanation
Indices: 6201874--6201898 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6201864 TACATTTTAA
6201874 TTATATATATTT
1 TTATATATATTT
6201886 TTATATATATTT
1 TTATATATATTT
6201898 T
1 T
6201899 AATTTGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATATATTT
Found at i:6219816 original size:26 final size:26
Alignment explanation
Indices: 6219775--6219837 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
6219765 AATTCAATAT
6219775 GAATC-AATTTTTTTTTATTTGATTG
1 GAATCAAATTTTTTTTTATTTGATTG
6219800 GAATCAAATTTTTTTTTATTTGATTG
1 GAATCAAATTTTTTTTTATTTGATTG
6219826 GAATCAAATTTT
1 GAATCAAATTTT
6219838 AATATTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.14
26 32 0.86
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.56
Consensus pattern (26 bp):
GAATCAAATTTTTTTTTATTTGATTG
Found at i:6219937 original size:16 final size:16
Alignment explanation
Indices: 6219913--6219943 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6219903 AACTGAACTG
6219913 ATTTATATATATTTTA
1 ATTTATATATATTTTA
*
6219929 ATTTTTATATATTTT
1 ATTTATATATATTTT
6219944 TTAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATATATATTTTA
Found at i:6219937 original size:18 final size:19
Alignment explanation
Indices: 6219914--6219956 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
6219904 ACTGAACTGA
6219914 TTTATATATATTTT-AATT
1 TTTATATATATTTTAAATT
*
6219932 TTTATATATTTTTTAAATT
1 TTTATATATATTTTAAATT
6219951 TTTATA
1 TTTATA
6219957 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATATATTTTAAATT
Found at i:6220778 original size:28 final size:26
Alignment explanation
Indices: 6220717--6220781 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 26
6220707 AATGGCAACA
*
6220717 TATAGATAAATATAAATATATTTAAT
1 TATATATAAATATAAATATATTTAAT
6220743 T-T-T-T-AATATAAATTATAATTTAAT
1 TATATATAAATATAAA-TAT-ATTTAAT
6220767 TATATATAAATATAA
1 TATATATAAATATAA
6220782 TTTTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
22 8 0.25
23 4 0.12
24 8 0.25
25 2 0.06
26 2 0.06
27 1 0.03
28 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TATATATAAATATAAATATATTTAAT
Found at i:6220856 original size:15 final size:16
Alignment explanation
Indices: 6220836--6220865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6220826 ATACATATAT
6220836 GTAAAT-ATAAAATAA
1 GTAAATAATAAAATAA
6220851 GTAAATAATAAAATA
1 GTAAATAATAAAATA
6220866 TATTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
GTAAATAATAAAATAA
Found at i:6221698 original size:12 final size:11
Alignment explanation
Indices: 6221677--6221710 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6221667 TCTACAAAAT
*
6221677 TAATATATAAA
1 TAATAAATAAA
6221688 TAATAAAATAAA
1 TAAT-AAATAAA
6221700 TAATAAATAAA
1 TAATAAATAAA
6221711 ATTAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:6221707 original size:19 final size:20
Alignment explanation
Indices: 6221672--6221709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6221662 CATTCTCTAC
*
6221672 AAAATTAATATATAAATAAT
1 AAAATAAATATATAAATAAT
6221692 AAAATAAATA-ATAAATAA
1 AAAATAAATATATAAATAA
6221710 AATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAAATATATAAATAAT
Found at i:6222049 original size:24 final size:24
Alignment explanation
Indices: 6222022--6222070 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6222012 AGCAAATGAC
6222022 TTAAAATTAGTT-TTTAAAAATATT
1 TTAAAATTA-TTATTTAAAAATATT
*
6222046 TTAAATTTATTATTTAAAAATATT
1 TTAAAATTATTATTTAAAAATATT
6222070 T
1 T
6222071 ATTTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAAAATTATTATTTAAAAATATT
Found at i:6222070 original size:17 final size:18
Alignment explanation
Indices: 6222050--6222083 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6222040 AATATTTTAA
6222050 ATTTATTAT-TTAAAAAT
1 ATTTATTATATTAAAAAT
*
6222067 ATTTATTTTATTAAAAA
1 ATTTATTATATTAAAAA
6222084 ATAATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATTATATTAAAAAT
Found at i:6222093 original size:19 final size:19
Alignment explanation
Indices: 6222055--6222093 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6222045 TTTAAATTTA
* * *
6222055 TTATTTAAAAATATTTATT
1 TTATTAAAAAATAATAATT
6222074 TTATTAAAAAATAATAATT
1 TTATTAAAAAATAATAATT
6222093 T
1 T
6222094 AATCCAACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTAAAAAATAATAATT
Found at i:6222410 original size:33 final size:34
Alignment explanation
Indices: 6222368--6222442 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
6222358 ATATTTGACC
6222368 ATTTCAATTAAAAAAATAAAAC-AAACTTAACAT
1 ATTTCAATTAAAAAAATAAAACTAAACTTAACAT
6222401 ATTTCAATTAAAAAAATAAAACTAAACTTAACAT
1 ATTTCAATTAAAAAAATAAAACTAAACTTAACAT
6222435 ATTT-AATT
1 ATTTCAATT
6222443 GATCCTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.63
34 15 0.37
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (34 bp):
ATTTCAATTAAAAAAATAAAACTAAACTTAACAT
Found at i:6222674 original size:14 final size:15
Alignment explanation
Indices: 6222646--6222690 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
6222636 TCAATCCAAA
6222646 TAAAATATATATAAT
1 TAAAATATATATAAT
6222661 TAAAATAT-TATAAT
1 TAAAATATATATAAT
6222675 TATATAAGTATATATA
1 TA-A-AA-TATATATA
6222691 TGTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 9 0.35
16 2 0.08
17 3 0.12
18 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TAAAATATATATAAT
Found at i:6229800 original size:20 final size:19
Alignment explanation
Indices: 6229771--6229829 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
6229761 TTAATTTTAA
*
6229771 ATTTTAATATTATTTAATT
1 ATTTTAATATTATTGAATT
6229790 ATTTGTAATATTATTGAATT
1 ATTT-TAATATTATTGAATT
6229810 -TTATT--TATTATT-AATT
1 ATT-TTAATATTATTGAATT
6229826 ATTT
1 ATTT
6229830 ATTTGCATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
19 7 0.19
20 15 0.42
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTTAATATTATTGAATT
Found at i:6229913 original size:15 final size:15
Alignment explanation
Indices: 6229884--6229925 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6229874 AATTCCATTA
*
6229884 TAATT-ATAATTAAT
1 TAATTAATAATAAAT
6229898 TAATTAATAATAAAT
1 TAATTAATAATAAAT
*
6229913 TACTTAATTAATA
1 TAATTAA-TAATA
6229926 TAAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTAATAATAAAT
Found at i:6229919 original size:19 final size:18
Alignment explanation
Indices: 6229845--6229934 Score: 62
Period size: 19 Copynumber: 4.9 Consensus size: 18
6229835 CATTGTTAAT
6229845 ATTAAT-TATAATTAATTA
1 ATTAATATA-AATTAATTA
* *
6229863 AATAATATGTAAATTCCATT-
1 ATTAATA--TAAATT-AATTA
6229883 A-TAAT-TATAATTAATTA
1 ATTAATATA-AATTAATTA
*
6229900 ATTAATAATAAATTACTTA
1 ATTAAT-ATAAATTAATTA
*
6229919 ATTAATATAAAATAAT
1 ATTAATATAAATTAAT
6229935 ATTACCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
16 5 0.09
17 5 0.09
18 17 0.30
19 18 0.32
20 7 0.12
21 5 0.09
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
ATTAATATAAATTAATTA
Found at i:6229921 original size:33 final size:35
Alignment explanation
Indices: 6229846--6229922 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 35
6229836 ATTGTTAATA
* *
6229846 TTAATTATAATTAATTAAATAATATGTAAATTCCAT
1 TTAATTATAATTAATTAAATAATATATAAATT-CAC
*
6229882 TATAATTATAATTAATTAATTAATA-ATAAATT-AC
1 T-TAATTATAATTAATTAAATAATATATAAATTCAC
6229916 TTAATTA
1 TTAATTA
6229923 ATATAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 6 0.16
34 2 0.05
36 7 0.19
37 22 0.59
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (35 bp):
TTAATTATAATTAATTAAATAATATATAAATTCAC
Found at i:6229923 original size:23 final size:24
Alignment explanation
Indices: 6229893--6229939 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
6229883 ATAATTATAA
6229893 TTAATTAAT-TAATAATAA-ATTAC
1 TTAATTAATATAA-AATAATATTAC
6229916 TTAATTAATATAAAATAATATTAC
1 TTAATTAATATAAAATAATATTAC
6229940 CTTTTTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAATTAATATAAAATAATATTAC
Found at i:6230506 original size:161 final size:161
Alignment explanation
Indices: 6230241--6230566 Score: 627
Period size: 161 Copynumber: 2.0 Consensus size: 161
6230231 TATTATTATC
6230241 TAATTAAACTTCATTAATAAACAAAATAGGTAACCCGGATCCCTACATTTTGGGTATATAAAGAA
1 TAATTAAACTTCATTAATAAACAAAATAGGTAACCCGGATCCCTACATTTTGGGTATATAAAGAA
*
6230306 TTAGATTCTGATGATACGGAGAGATTTAGACGTCATTGTGATTCGGAGGGGGCTAGCTGCTTAGA
66 TTAGATTCTGATGATACGGAGAGATTTAGACGTCATTGTGATTCGGAGGGGGCTAGCTCCTTAGA
6230371 CTAATCAATGCAACCAATTAACTTGTAGCTA
131 CTAATCAATGCAACCAATTAACTTGTAGCTA
6230402 TAATTAAACTTCATTAATAAA-AAAAGTAGGTAACCCGGATCCCTACATTTTGGGTATATAAAGA
1 TAATTAAACTTCATTAATAAACAAAA-TAGGTAACCCGGATCCCTACATTTTGGGTATATAAAGA
6230466 ATTAGATTCTGATGATACGGAGAGATTTAGACGTCATTGTGATTCGGAGGGGGCTAGCTCCTTAG
65 ATTAGATTCTGATGATACGGAGAGATTTAGACGTCATTGTGATTCGGAGGGGGCTAGCTCCTTAG
6230531 ACTAATCAATGCAACCAATTAACTTGTAGCTA
130 ACTAATCAATGCAACCAATTAACTTGTAGCTA
6230563 TAAT
1 TAAT
6230567 AATTTATAAT
Statistics
Matches: 163, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
160 4 0.02
161 159 0.98
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (161 bp):
TAATTAAACTTCATTAATAAACAAAATAGGTAACCCGGATCCCTACATTTTGGGTATATAAAGAA
TTAGATTCTGATGATACGGAGAGATTTAGACGTCATTGTGATTCGGAGGGGGCTAGCTCCTTAGA
CTAATCAATGCAACCAATTAACTTGTAGCTA
Found at i:6230819 original size:30 final size:29
Alignment explanation
Indices: 6230736--6230828 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 29
6230726 CTGTACTTTT
** *
6230736 TTATTTTTAGGAATTTAATTCTTATAATA
1 TTATTTTTAAAAATTTAATTCATATAATA
*
6230765 TTA--TTTAAAAAATTAA-TCATTATAATA
1 TTATTTTTAAAAATTTAATTCA-TATAATA
6230792 TTATTTTTAATAAATTTAATTCATATAATA
1 TTATTTTTAA-AAATTTAATTCATATAATA
6230822 TTATTTT
1 TTATTTT
6230829 AATGATTGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 2 0.04
27 20 0.37
29 8 0.15
30 21 0.39
31 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (29 bp):
TTATTTTTAAAAATTTAATTCATATAATA
Found at i:6233371 original size:2 final size:2
Alignment explanation
Indices: 6233366--6233426 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
6233356 GTCAAAAAAG
* *
6233366 TA TA TA TA TA TA TA TA TA TC TA TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
6233408 TA TA TG TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
6233427 TTTTTATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6235450 original size:21 final size:21
Alignment explanation
Indices: 6235426--6235468 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6235416 TTTAAAGTAG
**
6235426 TAAAATTTGAATTTTAATAAT
1 TAAAATTAAAATTTTAATAAT
6235447 TAAAATTAAAATTTTAATAAT
1 TAAAATTAAAATTTTAATAAT
6235468 T
1 T
6235469 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAAATTAAAATTTTAATAAT
Done.