Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 146 of 204
Found at i:44042105 original size:13 final size:13
Alignment explanation
Indices: 44042089--44042130 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
44042079 ATCGAAGTTT
44042089 AAAAAAATTCAAA
1 AAAAAAATTCAAA
44042102 AAAAAAATTC--A
1 AAAAAAATTCAAA
44042113 AAAAAAATTCAAA
1 AAAAAAATTCAAA
44042126 AAAAA
1 AAAAA
44042131 GTGACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:44042138 original size:24 final size:24
Alignment explanation
Indices: 44042089--44042144 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
44042079 ATCGAAGTTT
*
44042089 AAAAAAATTCAAAAAAAAAATTCA
1 AAAAAAATTCAAAAAAAAAATACA
*
44042113 AAAAAAATTC-AAAAAAAAGTGACA
1 AAAAAAATTCAAAAAAAAAAT-ACA
44042137 AAAAAAAT
1 AAAAAAAT
44042145 CGAGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAAAAATTCAAAAAAAAAATACA
Found at i:44043117 original size:23 final size:22
Alignment explanation
Indices: 44043086--44043152 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
44043076 ATTGAGAGAC
44043086 GAAA-AAAATAAATT-GAAGAAA
1 GAAAGAAAATAAATTAGAA-AAA
* *
44043107 GAAGAGAAAATGAGTTAGAAAAA
1 GAA-AGAAAATAAATTAGAAAAA
44043130 GAAAGAAAA-AAA--AGAAAAA
1 GAAAGAAAATAAATTAGAAAAA
44043149 GAAA
1 GAAA
44043153 TTGCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 11 0.28
21 4 0.10
22 7 0.18
23 14 0.36
24 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (22 bp):
GAAAGAAAATAAATTAGAAAAA
Found at i:44043143 original size:9 final size:10
Alignment explanation
Indices: 44043123--44043152 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
44043113 AAAATGAGTT
44043123 AGAAAAAGAA
1 AGAAAAAGAA
44043133 AGAAAAA-AA
1 AGAAAAAGAA
44043142 AGAAAAAGAA
1 AGAAAAAGAA
44043152 A
1 A
44043153 TTGCAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:44043147 original size:6 final size:6
Alignment explanation
Indices: 44043123--44043221 Score: 72
Period size: 6 Copynumber: 15.8 Consensus size: 6
44043113 AAAATGAGTT
* * * * *
44043123 AGAAAA AGAAAGA AAAAAA AGAAAA AGAAAT TGCAAA AGAAAA AGAAAT
1 AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
* * * * *
44043172 CGAAAA AGTAAG AGAAAA AGAAAA TGAAGAAA AGAAAA TTGAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AG-A-AAA AGAAAA -AGAAAA AGAAA
44043222 TTGAGATTGA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
6 53 0.77
7 12 0.17
8 4 0.06
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (6 bp):
AGAAAA
Found at i:44050911 original size:25 final size:25
Alignment explanation
Indices: 44050796--44050908 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
44050786 GACACACCAC
* ** * *
44050796 AGCTCTTATGAGCTTATTGCTTCTT
1 AGCTCGTATGAGCTTACCGATTCAT
*
44050821 AGCTCATATGAGCTTACCGATTC-T
1 AGCTCGTATGAGCTTACCGATTCAT
* *
44050845 CAGCTCGTATAAGCTTACCGATTCAC
1 -AGCTCGTATGAGCTTACCGATTCAT
* * *
44050871 AGCTCGCGA-GAGCATATCGATTCAT
1 AGCTCG-TATGAGCTTACCGATTCAT
44050896 AGCTCGTATGAGC
1 AGCTCGTATGAGC
44050909 ATACATGTAC
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.03
25 68 0.96
26 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTCAT
Found at i:44060245 original size:11 final size:11
Alignment explanation
Indices: 44060229--44060253 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44060219 TTAAGCTTTA
44060229 GATTATTATTT
1 GATTATTATTT
44060240 GATTATTATTT
1 GATTATTATTT
44060251 GAT
1 GAT
44060254 GATATTCTTA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
GATTATTATTT
Found at i:44085070 original size:6 final size:6
Alignment explanation
Indices: 44085059--44085088 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
44085049 TTTTAAAAAA
44085059 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
44085089 TTTAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:44090444 original size:19 final size:19
Alignment explanation
Indices: 44090420--44090484 Score: 82
Period size: 16 Copynumber: 3.4 Consensus size: 19
44090410 TTTATTTTTC
44090420 TTTATTTTTATTTTATTAT
1 TTTATTTTTATTTTATTAT
44090439 TTTA---TTATTTTATTAT
1 TTTATTTTTATTTTATTAT
44090455 TTTATTATTTATTATTTATTAT
1 TTTATT-TTTA-T-TTTATTAT
44090477 TTTATTTT
1 TTTATTTT
44090485 GTTATTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
16 16 0.40
19 4 0.10
20 3 0.08
21 3 0.08
22 14 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTTTATTTTATTAT
Found at i:44090462 original size:27 final size:30
Alignment explanation
Indices: 44090432--44090495 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
44090422 TATTTTTATT
44090432 TTATTATTTTATTATTTTATTATT-TTA-TTA
1 TTATTA-TTTATTATTTTATT-TTGTTATTTA
44090462 TTTATTATTTATTATTTTATTTTGTTATTTA
1 -TTATTATTTATTATTTTATTTTGTTATTTA
44090493 TTA
1 TTA
44090496 CTATATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.06
30 20 0.65
31 9 0.29
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (30 bp):
TTATTATTTATTATTTTATTTTGTTATTTA
Found at i:44090463 original size:38 final size:36
Alignment explanation
Indices: 44090408--44090491 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 36
44090398 GACAACCTAA
44090408 TTTTTATTTTTCTTTATTT-TTATTTTATTATTTTAT
1 TTTTTATTTTTCTTTATTTATTA-TTTATTATTTTAT
44090444 TATTTTATTATTT-TATTATTTATTATTTATTATTTTAT
1 T-TTTTATT-TTTCT-TTATTTATTATTTATTATTTTAT
44090482 TTTGTTATTT
1 TTT-TTATTT
44090492 ATTACTATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
36 1 0.02
37 11 0.26
38 28 0.65
39 3 0.07
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (36 bp):
TTTTTATTTTTCTTTATTTATTATTTATTATTTTAT
Found at i:44090491 original size:8 final size:8
Alignment explanation
Indices: 44090427--44090482 Score: 98
Period size: 8 Copynumber: 7.2 Consensus size: 8
44090417 TTCTTTATTT
44090427 TTATTTTA
1 TTATTTTA
44090435 TTATTTTA
1 TTATTTTA
44090443 TTATTTTA
1 TTATTTTA
44090451 TTATTTTA
1 TTATTTTA
44090459 TTA-TTTA
1 TTATTTTA
44090466 TTA-TTTA
1 TTATTTTA
44090473 TTATTTTA
1 TTATTTTA
44090481 TT
1 TT
44090483 TTGTTATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 14 0.30
8 33 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:44090502 original size:20 final size:20
Alignment explanation
Indices: 44090466--44090504 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44090456 TTATTATTTA
* *
44090466 TTATTTATTATTTTATTTTG
1 TTATTTATTACTATATTTTG
44090486 TTATTTATTACTATATTTT
1 TTATTTATTACTATATTTT
44090505 TTTTGGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTATTACTATATTTTG
Found at i:44090506 original size:27 final size:25
Alignment explanation
Indices: 44090408--44090506 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 25
44090398 GACAACCTAA
* *
44090408 TTTTTATTT-TTCTTTA-TTTTTAT
1 TTTTTATTTATTATATATTTTTTAT
44090431 TTTATTA-TT-TTAT-TATTTTATTAT
1 TTT-TTATTTATTATATATTTT-TTAT
*
44090455 TTTATTATTTATTATTTATTATTTTAT
1 TTT-TTATTTATTATATATT-TTTTAT
44090482 TTTGTTATTTATTACTATATTTTTT
1 TTT-TTATTTATTA-TATATTTTTT
44090507 TTGGATATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.03
23 11 0.17
24 14 0.22
25 2 0.03
26 4 0.06
27 25 0.38
28 7 0.11
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTTATTTATTATATATTTTTTAT
Found at i:44091857 original size:113 final size:107
Alignment explanation
Indices: 44091604--44091922 Score: 342
Period size: 107 Copynumber: 2.9 Consensus size: 107
44091594 ACAAAAATTT
* * ** * *
44091604 TTAAGAATGTGTTGGGCTGAGTAACCGGGGTAAGGTGCTTGAGTTGTCATC-CTATTTCGCATCA
1 TTAAGAGTATGTTGGGCTGAGTAACC-GGGTGGGGTGCTTGAGTTGTCATCTCTCTTT-GCGTCA
* ** **
44091668 AAAGGTTTAATATATTCTTA-AGGAAAGAAAAGCTCATAATAAA
64 AAAGGTTCAATATATTCTTAGAAAAAAGAAAAAATCATAATAAA
** *
44091711 TTAAGAGTATGTTAAGCTGAGTAACCGGCGTGGGGTGCTTGAGTTGTTATCTCTCTTTGCGTCAA
1 TTAAGAGTATGTTGGGCTGAGTAACCGG-GTGGGGTGCTTGAGTTGTCATCTCTCTTTGCGTCAA
44091776 AAGGTTCAATATATTCTTACGAAAAAAGACATATATAAAT-ATAATAAA
65 AAGGTTCAATATATTCTTA-GAAAAAAG--A-A-A-AAATCATAATAAA
* * *
44091824 TTAGGAGTATGTTGGGCTGAGTAACCTGGGTGGGGTGCTTG-GCTGTCATCTCTCTTCGCGTCAA
1 TTAAGAGTATGTTGGGCTGAGTAACC-GGGTGGGGTGCTTGAGTTGTCATCTCTCTTTGCGTCAA
44091888 AAGGTTCAATATATTCTTAAGCAAAAAA-AAAAAAT
65 AAGGTTCAATATATTCTT-AG-AAAAAAGAAAAAAT
44091923 GTGTCTTAAT
Statistics
Matches: 180, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
106 2 0.01
107 69 0.38
108 6 0.03
109 6 0.03
110 1 0.01
111 1 0.01
112 40 0.22
113 51 0.28
114 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (107 bp):
TTAAGAGTATGTTGGGCTGAGTAACCGGGTGGGGTGCTTGAGTTGTCATCTCTCTTTGCGTCAAA
AGGTTCAATATATTCTTAGAAAAAAGAAAAAATCATAATAAA
Found at i:44093697 original size:9 final size:9
Alignment explanation
Indices: 44093683--44093713 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44093673 GTTAAACGAA
44093683 TCGAGTTAT
1 TCGAGTTAT
*
44093692 TCGAGTTAA
1 TCGAGTTAT
44093701 TCGAGTTAT
1 TCGAGTTAT
44093710 TCGA
1 TCGA
44093714 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:44093781 original size:9 final size:9
Alignment explanation
Indices: 44093767--44093803 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44093757 TGAGTTTTCG
44093767 AATTCGAAT
1 AATTCGAAT
44093776 AATTCGAAT
1 AATTCGAAT
*
44093785 AATTCAAAT
1 AATTCGAAT
44093794 AATTCGAAT
1 AATTCGAAT
44093803 A
1 A
44093804 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44097071 original size:5 final size:5
Alignment explanation
Indices: 44097061--44097086 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44097051 CTCGAAAATT
44097061 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
44097087 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:44099576 original size:17 final size:17
Alignment explanation
Indices: 44099554--44099586 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44099544 TAATTATACT
44099554 TGTTAATGCAATTACAG
1 TGTTAATGCAATTACAG
*
44099571 TGTTAATGCTATTACA
1 TGTTAATGCAATTACA
44099587 TATATTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (17 bp):
TGTTAATGCAATTACAG
Found at i:44100049 original size:6 final size:6
Alignment explanation
Indices: 44100038--44100067 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
44100028 ATTATAATAA
*
44100038 TTAATT TTAATT TTAATT TTAATG TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
44100068 ATTTGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
TTAATT
Found at i:44101453 original size:25 final size:24
Alignment explanation
Indices: 44101425--44101486 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
44101415 ACAGATACTC
* *
44101425 AGCTCGTATGAGCTTATCGTTATTT
1 AGCTCGTATGAGCTTACCGTT-TAT
* *
44101450 AGCTCGGAAGAGCTTACCGTTTAT
1 AGCTCGTATGAGCTTACCGTTTAT
44101474 AGCTCGTATGAGC
1 AGCTCGTATGAGC
44101487 ATACATGTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGTTTAT
Found at i:44103700 original size:58 final size:58
Alignment explanation
Indices: 44103605--44103721 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
44103595 AAGAAGATGG
*
44103605 TCCCTTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACACTTTTATTAATAAATT
1 TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACACTTTTATTAATAAATT
* * *
44103663 TCCCCTAACCTTTTTTGTTTTTCTTATTTTATTACTTTAACATTTTTATTAATAAATT
1 TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACACTTTTATTAATAAATT
44103721 T
1 T
44103722 ACTACAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (58 bp):
TCCCCTAACCCTTTTTGTTTTCCTTATTTTATTACTTTAACACTTTTATTAATAAATT
Found at i:44106356 original size:18 final size:17
Alignment explanation
Indices: 44106342--44106457 Score: 101
Period size: 18 Copynumber: 6.4 Consensus size: 17
44106332 ACCAAAAATT
44106342 TATTTAAAATTAAAAAA
1 TATTTAAAATTAAAAAA
44106359 GTATTTAAAATATTTAAAAAA
1 -TATTT-AAA-A-TTAAAAAA
44106380 TATTTTAAAATTAAAAAA
1 TA-TTTAAAATTAAAAAA
*
44106398 -ATTTAAAAATATTTTAAAAA
1 TATTT--AAA-A-TTAAAAAA
44106418 TATTTTAAAATTAAAAAA
1 TA-TTTAAAATTAAAAAA
* *
44106436 AATTAAAAATT-AAAAA
1 TATTTAAAATTAAAAAA
44106452 TATTTA
1 TATTTA
44106458 TTATATCGGG
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
16 12 0.15
17 9 0.11
18 24 0.29
19 6 0.07
20 16 0.20
21 12 0.15
22 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TATTTAAAATTAAAAAA
Found at i:44106378 original size:10 final size:10
Alignment explanation
Indices: 44106354--44106428 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
44106344 TTTAAAATTA
44106354 AAAAAGTATTT
1 AAAAA-TATTT
44106365 -AAAATATTT
1 AAAAATATTT
44106374 AAAAAATATTT
1 -AAAAATATTT
*
44106385 -TAAA-A-TT
1 AAAAATATTT
*
44106392 AAAAAAATTT
1 AAAAATATTT
44106402 AAAAATATTTT
1 AAAAATA-TTT
44106413 AAAAATATTT
1 AAAAATATTT
*
44106423 TAAAAT
1 AAAAAT
44106429 TAAAAAAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 9 0.17
10 20 0.37
11 19 0.35
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (10 bp):
AAAAATATTT
Found at i:44106378 original size:39 final size:37
Alignment explanation
Indices: 44106335--44106454 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 37
44106325 AATAAATACC
*
44106335 AAAAATTTATTTAAAATTAAAAAAGTATTTAAAATATTT
1 AAAAATATATTTAAAATTAAAAAA--ATTTAAAATATTT
44106374 AAAAA-ATATTTTAAAATTAAAAAAATTTAAAAATATTTT
1 AAAAATATA-TTTAAAATTAAAAAAATTT-AAAATA-TTT
*
44106413 AAAAATAT-TTTAAAATTAAAAAAAATTAAAA-A-TT
1 AAAAATATATTTAAAATTAAAAAAATTTAAAATATTT
44106447 AAAAATAT
1 AAAAATAT
44106455 TTATTATATC
Statistics
Matches: 75, Mismatches: 2, Indels: 13
0.83 0.02 0.14
Matches are distributed among these distances:
34 10 0.13
36 1 0.01
37 8 0.11
38 26 0.35
39 28 0.37
40 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (37 bp):
AAAAATATATTTAAAATTAAAAAAATTTAAAATATTT
Found at i:44106384 original size:38 final size:36
Alignment explanation
Indices: 44106335--44106456 Score: 158
Period size: 38 Copynumber: 3.3 Consensus size: 36
44106325 AATAAATACC
*
44106335 AAAAATTTATTTAAAATTAAAAAAGTATTTAAAATATTT
1 AAAAATAT-TTTAAAATTAAAAAA--ATTTAAAATATTT
44106374 AAAAAATATTTTAAAATTAAAAAAATTTAAAAATATTTT
1 -AAAAATATTTTAAAATTAAAAAAATTT-AAAATA-TTT
*
44106413 AAAAATATTTTAAAATTAAAAAAAATTAAAA-A-TT
1 AAAAATATTTTAAAATTAAAAAAATTTAAAATATTT
44106447 AAAAATATTT
1 AAAAATATTT
44106457 ATTATATCGG
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
34 12 0.15
36 1 0.01
37 8 0.10
38 32 0.41
39 18 0.23
40 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
AAAAATATTTTAAAATTAAAAAAATTTAAAATATTT
Found at i:44114732 original size:14 final size:15
Alignment explanation
Indices: 44114713--44114741 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44114703 GGAGGTACAC
44114713 GTATTGC-AGCCAAA
1 GTATTGCAAGCCAAA
44114727 GTATTGCAAGCCAAA
1 GTATTGCAAGCCAAA
44114742 TTTTTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (15 bp):
GTATTGCAAGCCAAA
Found at i:44119112 original size:3 final size:3
Alignment explanation
Indices: 44119104--44119147 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
44119094 ATGCTCAAAA
44119104 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG A
44119148 GCATATGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44119475 original size:41 final size:41
Alignment explanation
Indices: 44119430--44119565 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
44119420 GATTTTCGTG
* *
44119430 AAGCGTCGCTAATGCTCTAGCCTTTAGTGGCGTTTTCTT-AT
1 AAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTT-TTAAT
*
44119471 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTTAAT
1 AAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTTAAT
* * * * * *
44119512 AAGCGCCACTAATGATCTGGTCATTAGCGGCGTTTTTGGAA-
1 AAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTT-TAAT
*
44119553 AAGCGCCGGTAAT
1 AAGCGCCGCTAAT
44119566 ACTGTGTCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 79 0.95
42 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTTAAT
Found at i:44119580 original size:41 final size:42
Alignment explanation
Indices: 44119452--44119581 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 42
44119442 TGCTCTAGCC
* * * * *
44119452 TTTAGTGGCGTTTTCT-TATAAGCGCCGCTAATGCTCTGG-CC
1 TTTAGCGGCGTTTT-TGAATAAGCGCCACTAATGATCTGGTCA
*
44119493 TTTAGCGGCGTTTTTTAATAAGCGCCACTAATGATCTGGTCA
1 TTTAGCGGCGTTTTTGAATAAGCGCCACTAATGATCTGGTCA
**
44119535 -TTAGCGGCGTTTTTGGAA-AAGCGCCGGTAAT-A-CTGTGTCA
1 TTTAGCGGCGTTTTT-GAATAAGCGCCACTAATGATCTG-GTCA
44119575 TTTAGCG
1 TTTAGCG
44119582 ACGCTTGTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
39 3 0.04
40 6 0.08
41 64 0.84
42 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGAATAAGCGCCACTAATGATCTGGTCA
Found at i:44120302 original size:25 final size:25
Alignment explanation
Indices: 44120273--44120326 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
44120263 TACAAGATAA
44120273 TGATCAAATTTACTGTTTTAGGGCT
1 TGATCAAATTTACTGTTTTAGGGCT
*
44120298 TGATCAAATTTATTGTTTTAGGGCT
1 TGATCAAATTTACTGTTTTAGGGCT
44120323 TGAT
1 TGAT
44120327 GTTTAGCGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.46
Consensus pattern (25 bp):
TGATCAAATTTACTGTTTTAGGGCT
Found at i:44120638 original size:27 final size:28
Alignment explanation
Indices: 44120594--44120653 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
44120584 ATAGAAAAAG
* * *
44120594 ATATA-TATGCAACTATATATATATGTT
1 ATATATTATGAAACTATATAAATATATT
44120621 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACTATATAAATATATT
44120648 A-ATATT
1 ATATATT
44120654 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (28 bp):
ATATATTATGAAACTATATAAATATATT
Found at i:44121314 original size:115 final size:117
Alignment explanation
Indices: 44121082--44121328 Score: 284
Period size: 115 Copynumber: 2.1 Consensus size: 117
44121072 GCTCGGGCCT
* * * * * * *
44121082 TTAGCGGCGGTTTTTCCTAAAGCGCCACAAATATTTCTTTAATACGACATCGTTTAGTGTTCTGC
1 TTAGCGGCGGTTTTACATAAAGCGCCACAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
* *
44121147 TCTGGTCGAAAAATTCGACAAAACGACGTCGCTTTGATGATGTTTATCGGTA
66 TCTGGTCGAAAAATTAGACAAAACGACATCGCTTTGATGATGTTTATCGGTA
* * * *
44121199 TTAGCGGCGGTTTTACATAAA-CGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTA
1 TTAGCGGCGGTTTTACATAAAGCGCCACAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
* * * * * *
44121263 TTTGGTTG-AAAGTTAGACAAAACGACATCGTTTTTAT-ACTGTTTATTGGTA
66 TCTGGTCGAAAAATTAGACAAAACGACATCGCTTTGATGA-TGTTTATCGGTA
*
44121314 TTAGCGGCGTTTTTA
1 TTAGCGGCGGTTTTA
44121329 TAAAAAATGC
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
114 1 0.01
115 49 0.45
116 40 0.37
117 19 0.17
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (117 bp):
TTAGCGGCGGTTTTACATAAAGCGCCACAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
TCTGGTCGAAAAATTAGACAAAACGACATCGCTTTGATGATGTTTATCGGTA
Found at i:44124045 original size:21 final size:21
Alignment explanation
Indices: 44124019--44124087 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
44124009 CAACAACTTA
** *
44124019 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCACAGCGAGAG
* *
44124040 AAGCAGAGGCTACAGTGAGAG
1 AAGCAGAGGCCACAGCGAGAG
44124061 AAGCAGAGGCCACAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
44124082 AAGCAG
1 AAGCAG
44124088 CGATAAAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCACAGCGAGAG
Found at i:44124570 original size:43 final size:42
Alignment explanation
Indices: 44124523--44124614 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
44124513 ACCAAATAGT
*
44124523 GGCGTTTGTGAAATAAGCGCCACTA-AGGAACACTACTGTTAGC
1 GGCGTTTGTG-AACAAGCGCCACTATA-GAACACTACTGTTAGC
* * * * *
44124566 GGCGTTTTTGACCAAGCGCCGCTATAGAACATTACTTTTAGC
1 GGCGTTTGTGAACAAGCGCCACTATAGAACACTACTGTTAGC
44124608 GGCGTTT
1 GGCGTTT
44124615 TCTTCCTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 32 0.76
43 10 0.24
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
GGCGTTTGTGAACAAGCGCCACTATAGAACACTACTGTTAGC
Found at i:44124638 original size:43 final size:42
Alignment explanation
Indices: 44124536--44124722 Score: 193
Period size: 43 Copynumber: 4.4 Consensus size: 42
44124526 GTTTGTGAAA
* * *
44124536 TAAGCGCCACTAAGGAACACT-A-CTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* *
44124579 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
*
44124621 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
44124663 TAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTG
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-C
*
44124708 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
44124723 TTAGCAACGT
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 36 0.29
43 67 0.53
44 21 0.17
45 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:44124742 original size:15 final size:15
Alignment explanation
Indices: 44124722--44124757 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44124712 CGCCGCAAAA
44124722 GTTAGCAACGTTGTC
1 GTTAGCAACGTTGTC
**
44124737 GTTAGCGGCGTTGTC
1 GTTAGCAACGTTGTC
44124752 GTTAGC
1 GTTAGC
44124758 GGCATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.33
Consensus pattern (15 bp):
GTTAGCAACGTTGTC
Found at i:44124758 original size:15 final size:15
Alignment explanation
Indices: 44124730--44124760 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44124720 AAGTTAGCAA
44124730 CGTTGTCGTTAGCGG
1 CGTTGTCGTTAGCGG
44124745 CGTTGTCGTTAGCGG
1 CGTTGTCGTTAGCGG
44124760 C
1 C
44124761 ATTTTTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.39, T:0.32
Consensus pattern (15 bp):
CGTTGTCGTTAGCGG
Found at i:44124852 original size:22 final size:22
Alignment explanation
Indices: 44124809--44124852 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44124799 TAGTGGCGTT
* ***
44124809 AAAAAGCGCCGCTAATGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
44124831 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
44124853 TTCTGGTGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:44128111 original size:16 final size:16
Alignment explanation
Indices: 44128090--44128122 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44128080 AGACATGAAC
44128090 ATTATTAATGTTAATA
1 ATTATTAATGTTAATA
44128106 ATTATTAATGTTAATA
1 ATTATTAATGTTAATA
44128122 A
1 A
44128123 ATTCAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTATTAATGTTAATA
Found at i:44129167 original size:23 final size:23
Alignment explanation
Indices: 44129125--44129189 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
44129115 AAAAAATTTG
44129125 AAATGTTTTATAATAT-TATTTTTA
1 AAAT-TTTTA-AATATATATTTTTA
44129149 AAATTTTTAAATATATATTTTTA
1 AAATTTTTAAATATATATTTTTA
44129172 AAA--TTTAAATATAT-TTTT
1 AAATTTTTAAATATATATTTT
44129190 AATAATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.10
21 11 0.28
22 5 0.12
23 16 0.40
24 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATTTTTAAATATATATTTTTA
Found at i:44129202 original size:21 final size:19
Alignment explanation
Indices: 44129136--44129204 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 19
44129126 AATGTTTTAT
44129136 AATATTATTTTTAAAATTTTTAA
1 AATA-TATTTTTAAAA---TTAA
*
44129159 ATATATATTTTTAAAATTTA
1 A-ATATATTTTTAAAATTAA
44129179 AATATATTTTTAATAATATAA
1 AATATATTTTTAA-AAT-TAA
44129200 AATAT
1 AATAT
44129205 TTAAATATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 12 0.29
20 7 0.17
21 7 0.17
23 12 0.29
24 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATATTTTTAAAATTAA
Found at i:44129290 original size:18 final size:19
Alignment explanation
Indices: 44129267--44129303 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44129257 TTTAAATGTA
44129267 AATTTTAAATAT-CTTTTT
1 AATTTTAAATATACTTTTT
*
44129285 AATTTTACATATACTTTTT
1 AATTTTAAATATACTTTTT
44129304 TAAATTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTAAATATACTTTTT
Found at i:44129501 original size:22 final size:21
Alignment explanation
Indices: 44129455--44129510 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
44129445 ACTTTATTTA
* *
44129455 AAAAATATATATTAAAAAGTT
1 AAAAATATAAATTAAAAAATT
*
44129476 -AAAATGTAAATTAAAAAAATT
1 AAAAATATAAATT-AAAAAATT
*
44129497 AAAAATATATATTA
1 AAAAATATAAATTA
44129511 TAACTGGTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 10 0.36
21 8 0.29
22 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAAATATAAATTAAAAAATT
Found at i:44130163 original size:63 final size:65
Alignment explanation
Indices: 44130056--44130182 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 65
44130046 TGCCAGCCAT
* *
44130056 TACATTTTTCGAGTCCCAAGGCAAATTTTTTTTTTTACTTTGGGACA-CAGATGGCCAACACCAG
1 TACATTTTTCAAGTACCAAGGCAAATTTTTTTTTTTACTTTGGGACATCA-ATGGCCAACACCAG
44130120 G
65 G
* *
44130121 TACATTTTTCAAGTACCAATGC-AA-TTTTTTTTTTACTTTGGGACATTAATGGCCAACACCAG
1 TACATTTTTCAAGTACCAAGGCAAATTTTTTTTTTTACTTTGGGACATCAATGGCCAACACCAG
44130183 TGTCAATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
63 35 0.61
64 3 0.05
65 19 0.33
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (65 bp):
TACATTTTTCAAGTACCAAGGCAAATTTTTTTTTTTACTTTGGGACATCAATGGCCAACACCAGG
Found at i:44130582 original size:90 final size:90
Alignment explanation
Indices: 44130447--44130754 Score: 438
Period size: 90 Copynumber: 3.4 Consensus size: 90
44130437 ATAAAATATA
* * * *
44130447 AAATTCAAACAAGA-ATAATACGCACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
44130511 GGTAAAATTAATAAACGAAAATTTT
66 GGTAAAATTAATAAACGAAAATTTT
* *
44130536 AAATTCAAACTACATATAATACGGGCTAAATTAAATTTAAATACCCAACAAATTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
* * ** *
44130601 GATAAAATTAGTGTACGAAATTTTT
66 GGTAAAATTAATAAACGAAAATTTT
* * **
44130626 AAATTCAAACTATATATAACACAAACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
* *
44130691 GGTAAAATTAATACACAAAAATTTT
66 GGTAAAATTAATAAACGAAAATTTT
* *
44130716 AAATTCAATCTACATATAATACGGACTAGATTAAATTTA
1 AAATTCAAACTACATATAATACGGACTAAATTAAATTTA
44130755 TAAATACAAA
Statistics
Matches: 189, Mismatches: 29, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
89 12 0.06
90 177 0.94
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (90 bp):
AAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCCAACAAATTACAAACAGATG
GGTAAAATTAATAAACGAAAATTTT
Found at i:44133385 original size:18 final size:18
Alignment explanation
Indices: 44133354--44133403 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
44133344 ATAAGAAAAC
*
44133354 ATTTTGAAATTGAATAATG
1 ATTTGGAAA-TGAATAATG
*
44133373 ATTTGTAAATGAATAATG
1 ATTTGGAAATGAATAATG
*
44133391 TTTTGGAAATGAA
1 ATTTGGAAATGAA
44133404 CGACACGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (18 bp):
ATTTGGAAATGAATAATG
Found at i:44134327 original size:111 final size:112
Alignment explanation
Indices: 44134129--44134349 Score: 297
Period size: 111 Copynumber: 2.0 Consensus size: 112
44134119 CCGAAAAAGG
* *
44134129 TGGTGTCAGCCATCAGTGTTCCAAAATTAAAAAAAAATTGCATTGGGAGTCAAAAAAATGTACTT
1 TGGTGTCAGCCATCAGTGTCCCAAAATTAAAAAAAAATTGCATTGGGAGTCAAAAAAATGTACCT
** * *
44134194 GGTGTTGGCCATCTACTTGCCAGCACCCAAATTTTTTTTAAATGTCAC
66 GGTGCCGGCCATCTACTGGCCAGCAACCAAA-TTTTTTTAAATGTCAC
** *
44134242 TGGTGTCAGCCATCAGTGTCCCAAAA-T-AAAAAAAATGTGTC-TTGGGAG-CCGAAATATGTAC
1 TGGTGTCAGCCATCAGTGTCCCAAAATTAAAAAAAAAT-TG-CATTGGGAGTCAAAAAAATGTAC
*
44134303 CTGGTGCCGGCCATCTACTGGCCAGCAACTAAATTTTTTTAAATGTC
64 CTGGTGCCGGCCATCTACTGGCCAGCAACCAAATTTTTTTAAATGTC
44134350 TCTAGTGCCG
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
110 14 0.15
111 46 0.48
112 10 0.10
113 26 0.27
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (112 bp):
TGGTGTCAGCCATCAGTGTCCCAAAATTAAAAAAAAATTGCATTGGGAGTCAAAAAAATGTACCT
GGTGCCGGCCATCTACTGGCCAGCAACCAAATTTTTTTAAATGTCAC
Found at i:44137250 original size:30 final size:30
Alignment explanation
Indices: 44137214--44137310 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
44137204 GCCACAAAGT
* * *
44137214 AGTTCATTTCACCCGGATATGGGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
** *
44137244 AGTTCATATCACCTTGACATGGGCAGTTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
*
44137274 AGTTCATATCACCCAGACATAGGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
44137304 AGTTCAT
1 AGTTCAT
44137311 TTCCCTCCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATGGGCGGTTCG
Found at i:44140531 original size:16 final size:16
Alignment explanation
Indices: 44140510--44140612 Score: 70
Period size: 16 Copynumber: 6.2 Consensus size: 16
44140500 ATAAAACATT
*
44140510 AAATTTTAAAATTTTA
1 AAATTTAAAAATTTTA
*
44140526 AAATTTTAAAATGTTTA
1 AAATTTAAAAAT-TTTA
44140543 AATATCTTAAAAATTAATTA
1 AA-AT-TTAAAAATT--TTA
*
44140563 AAAATTAAAAATTTATA
1 AAATTTAAAAATTT-TA
* *
44140580 AAAATT--ATA-TTTA
1 AAATTTAAAAATTTTA
44140593 AAA-TTAAAAATATTTA
1 AAATTTAAAAAT-TTTA
44140609 AAAT
1 AAAT
44140613 ATACATTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
12 2 0.03
13 5 0.07
14 4 0.06
15 2 0.03
16 20 0.28
17 14 0.19
18 12 0.17
19 8 0.11
20 5 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
AAATTTAAAAATTTTA
Found at i:44140544 original size:9 final size:8
Alignment explanation
Indices: 44140510--44140582 Score: 65
Period size: 8 Copynumber: 8.4 Consensus size: 8
44140500 ATAAAACATT
44140510 AAATTTTA
1 AAATTTTA
44140518 AAATTTTA
1 AAATTTTA
44140526 AAATTTTA
1 AAATTTTA
44140534 AAATGTTTA
1 AAAT-TTTA
*
44140543 AATATCTTAA
1 AA-AT-TTTA
44140553 AAATTAATTA
1 AAATT--TTA
* *
44140563 AAAATTAA
1 AAATTTTA
44140571 AAATTTATA
1 AAATTT-TA
44140580 AAA
1 AAA
44140583 ATTATATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
8 28 0.53
9 12 0.23
10 13 0.25
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (8 bp):
AAATTTTA
Found at i:44140570 original size:18 final size:17
Alignment explanation
Indices: 44140549--44140586 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
44140539 TTTAAATATC
44140549 TTAAAAATTAATTAAAAA
1 TTAAAAATTAA-TAAAAA
*
44140567 TTAAAAATTTATAAAAA
1 TTAAAAATTAATAAAAA
44140584 TTA
1 TTA
44140587 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAAAATTAATAAAAA
Found at i:44140613 original size:9 final size:9
Alignment explanation
Indices: 44140510--44140614 Score: 53
Period size: 8 Copynumber: 11.7 Consensus size: 9
44140500 ATAAAACATT
44140510 AAAT-TTTA
1 AAATATTTA
44140518 AAAT-TTTA
1 AAATATTTA
44140526 AAAT-TTTA
1 AAATATTTA
*
44140534 AAATGTTT-
1 AAATATTTA
44140542 AAATATCTTAA
1 AAATAT-TT-A
*
44140553 AAATTAATTA
1 AAA-TATTTA
*
44140563 AAA-ATTAA
1 AAATATTTA
44140571 AAAT-TTATAA
1 AAATATT-T-A
*
44140581 AAATTATATTT
1 AAA-TAT-TTA
*
44140592 AAA-ATTAA
1 AAATATTTA
44140600 AAATATTTA
1 AAATATTTA
44140609 AAATAT
1 AAATAT
44140615 ACATTTAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
8 37 0.49
9 17 0.22
10 8 0.11
11 9 0.12
12 4 0.05
13 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (9 bp):
AAATATTTA
Found at i:44140620 original size:29 final size:28
Alignment explanation
Indices: 44140542--44140625 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 28
44140532 TAAAATGTTT
*
44140542 AAATATCTTAAAAATTAATTAAAAATTAA
1 AAATAT-TTAAAAATTAATTTAAAATTAA
44140571 AAAT-TTATAAAAATTATATTTAAAATTAA
1 AAATATT-TAAAAATTA-ATTTAAAATTAA
44140600 AAATATTT-AAAATATACATTTAAAAT
1 AAATATTTAAAAAT-TA-ATTTAAAAT
44140626 ATTATAAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.02
28 15 0.31
29 31 0.63
30 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATATTTAAAAATTAATTTAAAATTAA
Found at i:44140704 original size:70 final size:66
Alignment explanation
Indices: 44140621--44140801 Score: 169
Period size: 70 Copynumber: 2.7 Consensus size: 66
44140611 ATATACATTT
* *
44140621 AAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAA-TAATATATTTTAAAA
1 AAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATTAA-A-A-ATT-AAA
44140685 AATTA
62 AATTA
** *
44140690 AAACAAATTATAAAACAAATTAA-AAATATT-ATAA-AACA-A--ATTAAAAATTAAAAATTAAA
1 AAA-AAATTATAAAACAAA-TAATAAAT-TTGA-AAGGTCATATCTTTAAAAATTAAAAATTAAA
*
44140749 AATTT
62 AATTA
* *
44140754 AAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAA
1 AAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
44140802 TATTTAAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
62 7 0.08
63 20 0.22
64 11 0.12
65 2 0.02
66 7 0.08
67 8 0.09
68 3 0.03
69 4 0.04
70 21 0.23
71 7 0.08
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (66 bp):
AAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATTAAAAATTAAAAATT
A
Found at i:44140705 original size:12 final size:12
Alignment explanation
Indices: 44140688--44140736 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
44140678 TTTAAAAAAT
44140688 TAAAACAAATTA
1 TAAAACAAATTA
44140700 TAAAACAAA-T-
1 TAAAACAAATTA
*
44140710 TAAAA-ATATTA
1 TAAAACAAATTA
44140721 TAAAACAAATTA
1 TAAAACAAATTA
44140733 -AAAA
1 TAAAA
44140737 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 10 0.31
12 14 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAACAAATTA
Found at i:44140722 original size:21 final size:21
Alignment explanation
Indices: 44140684--44140768 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
44140674 ATATTTTAAA
*
44140684 AAATTAAAACAAATTATAAAAC
1 AAATTAAAA-ATATTATAAAAC
44140706 AAATTAAAAATATTATAAAAC
1 AAATTAAAAATATTATAAAAC
* *
44140727 AAATT-AAAA-ATTAAAAATTAA
1 AAATTAAAAATATTATAAA--AC
*
44140748 AAATTTAAAATATTATAAAAC
1 AAATTAAAAATATTATAAAAC
44140769 TAATAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
19 7 0.13
20 4 0.07
21 23 0.43
22 13 0.24
23 7 0.13
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATTAAAAATATTATAAAAC
Found at i:44140749 original size:6 final size:7
Alignment explanation
Indices: 44140727--44140758 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44140717 ATTATAAAAC
44140727 AAATTAA
1 AAATTAA
44140734 AAATTAA
1 AAATTAA
44140741 AAATTAA
1 AAATTAA
*
44140748 AAATTTA
1 AAATTAA
44140755 AAAT
1 AAAT
44140759 ATTATAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:44142180 original size:7 final size:7
Alignment explanation
Indices: 44142168--44142193 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44142158 ACTGAGATAC
44142168 GATACTT
1 GATACTT
44142175 GATACTT
1 GATACTT
44142182 GATACTT
1 GATACTT
44142189 GATAC
1 GATAC
44142194 CTGAGTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (7 bp):
GATACTT
Found at i:44145587 original size:21 final size:20
Alignment explanation
Indices: 44145558--44145597 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
44145548 GTCTGAGGAC
44145558 TAAAGTGGAAACAAATTAAAAT
1 TAAAGTGG-AA-AAATTAAAAT
44145580 TAAA-TGGAAAAATTAAAA
1 TAAAGTGGAAAAATTAAAA
44145598 AGAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 3 0.17
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (20 bp):
TAAAGTGGAAAAATTAAAAT
Found at i:44147092 original size:94 final size:93
Alignment explanation
Indices: 44146949--44148063 Score: 1221
Period size: 94 Copynumber: 11.9 Consensus size: 93
44146939 CAGTTTCATC
* * *** * * *
44146949 TTGCTCCATTGCAACTTCAAGGAGATAATG-TTTTTTATTGTAG-TCTCAATCCGACCCACTGCA
1 TTGCTCCACTGCAACTTCAGGGAGATAA-GATTCGCTATGGTAGAT-TCAATCTGACCCACTACA
*
44147012 ACTTCAGGGGTATAGGATTTGTAGCTTCACC
64 ACTTCAGGGGTATAGGATTTGTAGCTTCA-A
* * ** *
44147043 TTGCTCCATTGCAACTTCAGGGAGATAATATTTTCTATGGCAGATTCAATCTGACCCACTACAAC
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAAC
* *
44147108 TTCAAGGATATAGGATTTGTAG-TTCAA
66 TTCAGGGGTATAGGATTTGTAGCTTCAA
* * *
44147135 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCTGACCCACTGCAA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
* * *
44147200 CTTTACGGGTATAGGATTTGTAGCTTAAA
65 CTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * * * * * **
44147229 TTTGTTCCATTGCAATTTCAAGGAGATAAGATT-TCTATGGCAGATTCAATCCGACCCGTTACAA
1 -TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
* *
44147293 CTTTAGGGGTATAGGATTTGTAGCTTTAA
65 CTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * *
44147322 TCTACTTCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATTTGACCCACTACAA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
44147387 CTTCAGGGGTATAGGATTTGTAGCTTCAA
65 CTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * * **
44147416 TTTGCTCCACTAG-AACTTCAAGGAGATAAGATTTGCTATGGCA-ACTTCAATCCGACCCGTTAC
1 -TTGCTCCACT-GCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTAC
* *
44147479 AACTTTAGGGGTATAGGATTTGTAGCTTTAA
63 AACTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * *
44147510 TCTACTTCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATTTGACCCACTACAA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
* *
44147575 CTTTAGGGATATAGGATTTGTAGCTTC-A
65 CTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * *
44147603 TCTGCTCCACTACAACTTCAGGGAGATAAGTTTTGCTATGGTAGATTCAATC-CAGCCCACTACA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGA-CCCACTACA
* *
44147667 ACTTCAGAGGTATAGGATTTGTAACTTC-A
64 ACTTCAGGGGTATAGGATTTGTAGCTTCAA
* * **
44147696 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATGGTAGATTCAATCTGACCCACTTTAA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAA
* *
44147761 CTTCAGGGGTATAGGATTTGTAACTTTAA
65 CTTCAGGGGTATAGGATTTGTAGCTTCAA
* * * * * * * * * *
44147790 TCTACTCTACTGTAACTTTAGGGAAATAAGATTCGCTATGGTA-ACTTTAATGTAACCCATTGCA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACA
*
44147854 ACTTTAGGGGTATAGGATTTGTAGCTTCAA
64 ACTTCAGGGGTATAGGATTTGTAGCTTCAA
* *
44147884 TTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTA-ACTTCAAT-TCGACCCACTGC
1 -TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCT-GACCCACTAC
* * *
44147947 AACGTCAGGGGTATAAGATTTGTAGCTTTAA
63 AACTTCAGGGGTATAGGATTTGTAGCTTCAA
* *
44147978 TATGCTCCACTACAACTTCAAGGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCCACTACA
1 T-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACA
*
44148042 ACTTCATGGGTATAGGATTTGT
64 ACTTCAGGGGTATAGGATTTGT
44148064 GATTTTACTG
Statistics
Matches: 872, Mismatches: 128, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
92 3 0.00
93 323 0.37
94 539 0.62
95 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (93 bp):
TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAAC
TTCAGGGGTATAGGATTTGTAGCTTCAA
Found at i:44147433 original size:44 final size:44
Alignment explanation
Indices: 44146986--44148063 Score: 320
Period size: 50 Copynumber: 23.1 Consensus size: 44
44146976 ATGTTTTTTA
* *
44146986 TTGTAG-TCTCAATCCGACCCACTGCAACTTCAGGGGTATAGGAT
1 TTGTAGCT-TCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * * **
44147030 TTGTAGCTTC-ACCTTG-CTCCATTGCAACTTCAGGGAG-ATAATATT
1 TTGTAGCTTCAATC-TGAC-CCACTACAACTTCAGGG-GTATAGGA-T
* * *
44147075 TTCTATGGCAGATTCAATCTGACCCACTACAACTTCAAGGATATAGGAT
1 TTGTA--GC---TTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* *
44147124 TTGTAG-TTCAATCT-ACTCCACTGCAACTTCAGGGAG-ATAAGATTT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAGGG-GTATAGGA--T
* * * *
44147169 GCTATGGTAGATTCAATCTGACCCACTGCAACTTTACGGGTATAGGAT
1 --T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * ** * * * * *
44147217 TTGTAGCTTAAATTTGTTCCATTGCAATTTCAAGGAG-ATAAGAT
1 TTGTAGCTTCAATCTGACCCACTACAACTTC-AGGGGTATAGGAT
* * ** *
44147261 TTCTATGGCAGATTCAATCCGACCCGTTACAACTTTAGGGGTATAGGAT
1 TTGTA--GC---TTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * * * *
44147310 TTGTAGCTTTAATCT-ACTTCACTGCAACTTCAGAGAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAG-GGGTATAGGA-T
* *
44147355 CGCTATGGTAGATTCAATTTGACCCACTACAACTTCAGGGGTATAGGAT
1 ---T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * * *
44147404 TTGTAGCTTCAATTTG-CTCCACTAGAACTTCAAGGAG-ATAAGAT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTC-AGGGGTATAGGAT
* ** *
44147448 TTGCTATGGCAACTTCAATCCGACCCGTTACAACTTTAGGGGTATAGGAT
1 TTG-TA--G---CTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * * * *
44147498 TTGTAGCTTTAATCT-ACTTCACTGCAACTTCAGAGAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAG-GGGTATAGGA-T
* * * *
44147543 CGCTATGGTAGATTCAATTTGACCCACTACAACTTTAGGGATATAGGAT
1 ---T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
*
44147592 TTGTAGCTTC-ATCTG-CTCCACTACAACTTCAGGGAG-ATAAGTTTTGCT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAGGG-GTAT-AG----GAT
* * * *
44147640 ATGGTAGATTCAATC-CAGCCCACTACAACTTCAGAGGTATAGGAT
1 -TTGTAGCTTCAATCTGA-CCCACTACAACTTCAGGGGTATAGGAT
* * * *
44147685 TTGTAACTTC-ATCTG-CTCCACTGCAACTTCAGGAAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAGG-GGTATAGGA-T
* **
44147729 CACTATGGTAGATTCAATCTGACCCACTTTAACTTCAGGGGTATAGGAT
1 ---T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* * * ** * ** *
44147778 TTGTAACTTTAATCT-ACTCTACTGTAACTTTAGGGAAATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAGGGGTATAGGA-T
* * * * * * *
44147823 CGCTATGGTAACTTTAATGTAACCCATTGCAACTTTAGGGGTATAGGAT
1 ---T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
* *
44147872 TTGTAGCTTCAATTTG-CTCCACTACAACTTCAGGGAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTCAGGG-GTATAGGA-T
* * * *
44147917 CGCTATGGTAACTTCAAT-TCGACCCACTGCAACGTCAGGGGTATAAGAT
1 ---T-T-GTAGCTTCAATCT-GACCCACTACAACTTCAGGGGTATAGGAT
* * * *
44147966 TTGTAGCTTTAATATG-CTCCACTACAACTTCAAGGAG-ATAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTACAACTTC-AGGGGTATAGGA-T
* *
44148011 CGCTATGGTAACTTCAATCTGACCCACTACAACTTCATGGGTATAGGAT
1 ---T-T-GTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
44148060 TTGT
1 TTGT
44148064 GATTTTACTG
Statistics
Matches: 766, Mismatches: 153, Indels: 230
0.67 0.13 0.20
Matches are distributed among these distances:
42 4 0.01
43 84 0.11
44 242 0.32
45 41 0.05
46 9 0.01
47 9 0.01
48 14 0.02
49 78 0.10
50 269 0.35
51 16 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
Found at i:44147709 original size:374 final size:373
Alignment explanation
Indices: 44146994--44148063 Score: 1375
Period size: 374 Copynumber: 2.9 Consensus size: 373
44146984 TATTGTAGTC
* * ** *
44146994 TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCACCTTGCTCCATTGCAACT
1 TCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACT
* * * * * *
44147059 TCAGGGAGATAATATTTTCTATGGCAGA-TTCAATCTGACCCACTACAACTTCAAGGATATAGGA
66 TCAGGGAGATAAGATTTGCTATGGCA-ACTTCAATCTGACCCATTACAACTTTAGGGGTATAGGA
* *
44147123 TTTGTAG-TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATC
130 TTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATT
* * * * *
44147187 TGACCCACTGCAACTTTACGGGTATAGGATTTGTAGCTTAAATTTGTTCCATTGCAATTTCAAGG
195 TGACCCACTGCAACTTTA-GGGTATAGGATTTGTAGCTT-AATATGCTCCACTACAACTTCAAGG
* ** * *
44147252 AGATAAGATTT-CTATGGCAGATTCAATCCGACCCGTTACAACTTTAGGGGTATAGGATTTGTAG
258 AGATAAGATTTGCTATGGTAGATTCAATCCGACCCACTACAACTTCA-GGGTATAGGATTTGTAA
* *
44147316 CTTTAATCTACTTCACTGCAACTTCA-GAGAGATAAGATTCGCTATGGTAGAT
322 CTTTAATCTACTCCACTGCAACTTCAGGA-AGATAAGATTCACTATGGTAGAT
*
44147368 TCAATTTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAG-AAC
1 TCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACT-GCAAC
* * *
44147432 TTCAAGGAGATAAGATTTGCTATGGCAACTTCAATCCGACCCGTTACAACTTTAGGGGTATAGGA
65 TTCAGGGAGATAAGATTTGCTATGGCAACTTCAATCTGACCCATTACAACTTTAGGGGTATAGGA
* * *
44147497 TTTGTAGCTTTAATCTACTTCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGATTCAATT
130 TTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATT
* * * *
44147562 TGACCCACTACAACTTTAGGGATATAGGATTTGTAGCTTCATCTGCTCCACTACAACTTCAGGGA
195 TGACCCACTGCAACTTTAGGG-TATAGGATTTGTAGCTTAATATGCTCCACTACAACTTCAAGGA
*
44147627 GATAAGTTTTGCTATGGTAGATTCAATCC-AGCCCACTACAACTTCAGAGGTATAGGATTTGTAA
259 GATAAGATTTGCTATGGTAGATTCAATCCGA-CCCACTACAACTTCAG-GGTATAGGATTTGTAA
* *
44147691 C-TTCATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATGGTAGAT
322 CTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTCACTATGGTAGAT
** * * * * * *
44147742 TCAATCTGACCCACTTTAACTTCAGGGGTATAGGATTTGTAACTTTAATCTACTCTACTGTAACT
1 TCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACT
* * * * * * * *
44147807 TTAGGGAAATAAGATTCGCTATGGTAACTTTAATGTAACCCATTGCAACTTTAGGGGTATAGGAT
66 TCAGGGAGATAAGATTTGCTATGGCAACTTCAATCTGACCCATTACAACTTTAGGGGTATAGGAT
* * *
44147872 TTGTAGCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTA-ACTTCAATT
131 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATT
* * * *
44147936 CGACCCACTGCAACGTCAGGGGTATAAGATTTGTAGCTTTAATATGCTCCACTACAACTTCAAGG
195 TGACCCACTGCAACTTTA-GGGTATAGGATTTGTAGC-TTAATATGCTCCACTACAACTTCAAGG
* *
44148001 AGATAAGATTCGCTATGGTA-ACTTCAATCTGACCCACTACAACTTCATGGGTATAGGATTTGT
258 AGATAAGATTTGCTATGGTAGA-TTCAATCCGACCCACTACAACTTCA-GGGTATAGGATTTGT
44148064 GATTTTACTG
Statistics
Matches: 607, Mismatches: 74, Indels: 29
0.85 0.10 0.04
Matches are distributed among these distances:
373 3 0.00
374 387 0.64
375 215 0.35
376 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (373 bp):
TCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTGCAACT
TCAGGGAGATAAGATTTGCTATGGCAACTTCAATCTGACCCATTACAACTTTAGGGGTATAGGAT
TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGATTCAATTT
GACCCACTGCAACTTTAGGGTATAGGATTTGTAGCTTAATATGCTCCACTACAACTTCAAGGAGA
TAAGATTTGCTATGGTAGATTCAATCCGACCCACTACAACTTCAGGGTATAGGATTTGTAACTTT
AATCTACTCCACTGCAACTTCAGGAAGATAAGATTCACTATGGTAGAT
Found at i:44147825 original size:468 final size:468
Alignment explanation
Indices: 44146994--44148063 Score: 1453
Period size: 468 Copynumber: 2.3 Consensus size: 468
44146984 TATTGTAGTC
* * *
44146994 TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGC-TTCACCTTGCTCCATTGCAAC
1 TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATC-TGCTCCACTGCAAC
* * ** * *
44147058 TTCAGGGAGATAATATTTTCTATGGCAGATTCAATCTGACCCACTACAACTTCAAGGATATAGGA
65 TTCAGAGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAACTTCAGGGATATAGGA
* *
44147123 TTTGTAGTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCT
130 TTTGTAGTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCA
* * * * * * *
44147188 GACCCACTGCAACTTTACGGGTATAGGATTTGTAGCTTAAATTTGTTCCATTGCAATTTCAAGGA
195 GACCCACTACAACTTCACGGGTATAGGATTTGTAACTTAAATCTGCTCCACTGCAACTTCAAGGA
* * * *
44147253 GATAAGATTTCTATGGCAGATTCAATCCGACCCGTTACAACTTTAGGGGTATAGGATTTGTAGCT
260 GATAAGATTACTATGGCAGATTCAATCCGACCCCTTACAACTTCAGGGGTATAGGATTTGTAACT
* * *
44147318 TTAATCTACTTCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAGA-TTCAATTTGACCCAC
325 TTAATCTACTTCACTGCAACTTCAGAGAAATAAGATTCGCTATGGTA-ACTTCAATGTAACCCAC
*
44147382 TACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTAGAACTTCAAGGAGATAAGA
389 TACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTACAACTTCAAGGAGATAAGA
*
44147447 TTTGCTATGGCAACT
454 TTCGCTATGGCAACT
** * * * *
44147462 TCAATCCGACCCGTTACAACTTTAGGGGTATAGGATTTGTAGCTTTAATCTACTTCACTGCAACT
1 TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTGCAACT
* *
44147527 TCAGAGAGATAAGATTCGCTATGGTAGATTCAATTTGACCCACTACAACTTTAGGGATATAGGAT
66 TCAGAGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAACTTCAGGGATATAGGAT
* *
44147592 TTGTAGCTTC-ATCTGCTCCACTACAACTTCAGGGAGATAAGTTTTGCTATGGTAGATTCAATCC
131 TTGTAG-TTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAAT-C
*
44147656 AG-CCCACTACAACTTCA-GAGGTATAGGATTTGTAACTT-CATCTGCTCCACTGCAACTTC-AG
194 AGACCCACTACAACTTCACG-GGTATAGGATTTGTAACTTAAATCTGCTCCACTGCAACTTCAAG
* * *
44147717 GAAGATAAGATTCACTATGGTAGATTCAATCTGACCCACTT-TAACTTCAGGGGTATAGGATTTG
258 G-AGATAAGATT-ACTATGGCAGATTCAATCCGACCC-CTTACAACTTCAGGGGTATAGGATTTG
* * * *
44147781 TAACTTTAATCTAC-TCTACTGTAACTTTAGGGAAATAAGATTCGCTATGGTAACTTTAATGTAA
320 TAACTTTAATCTACTTC-ACTGCAACTTCAGAGAAATAAGATTCGCTATGGTAACTTCAATGTAA
* * * *
44147845 CCCATTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTACAACTTCAGGGAGA
384 CCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTACAACTTCAAGGAGA
*
44147910 TAAGATTCGCTATGGTAACT
449 TAAGATTCGCTATGGCAACT
* * * * *
44147930 TCAATTCGACCCACTGCAACGTCAGGGGTATAAGATTTGTAGCTTTAATATGCTCCACTACAACT
1 TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTGCAACT
44147995 TCA-AGGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCCACTACAACTTCATGGG-TATAG
66 TCAGA-GAGATAAGATTCGCTATGGTAGA-TTCAATCTGACCCACTACAACTTCA-GGGATATAG
44148057 GATTTGT
128 GATTTGT
44148064 GATTTTACTG
Statistics
Matches: 527, Mismatches: 63, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
466 3 0.01
467 32 0.06
468 478 0.91
469 14 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (468 bp):
TCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTGCAACT
TCAGAGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACTACAACTTCAGGGATATAGGAT
TTGTAGTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCAG
ACCCACTACAACTTCACGGGTATAGGATTTGTAACTTAAATCTGCTCCACTGCAACTTCAAGGAG
ATAAGATTACTATGGCAGATTCAATCCGACCCCTTACAACTTCAGGGGTATAGGATTTGTAACTT
TAATCTACTTCACTGCAACTTCAGAGAAATAAGATTCGCTATGGTAACTTCAATGTAACCCACTA
CAACTTCAGGGGTATAGGATTTGTAGCTTCAATTTGCTCCACTACAACTTCAAGGAGATAAGATT
CGCTATGGCAACT
Found at i:44157667 original size:74 final size:74
Alignment explanation
Indices: 44157573--44157723 Score: 266
Period size: 74 Copynumber: 2.0 Consensus size: 74
44157563 GTCACTCCCC
* *
44157573 AAAAGGTCGATAGTCTGAAGACTAAAGAGGAAACAAATTAAAATTGAATGGAAAAATTAAAAAGA
1 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
44157638 AAAGAAAAA
66 AAAGAAAAA
* *
44157647 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGCACAATTAAAAAGA
1 AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
44157712 AAAGAAAAA
66 AAAGAAAAA
44157721 AAA
1 AAA
44157724 TTCAAAGTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.16
Consensus pattern (74 bp):
AAAAGGTCGATAGTCTGAAGACTAAAGAAGAAACAAATTAAAATTAAATGGAAAAATTAAAAAGA
AAAGAAAAA
Found at i:44158709 original size:32 final size:32
Alignment explanation
Indices: 44158673--44158737 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
44158663 CGGCAGTTGG
*
44158673 AGAACAATTAAATGGAGCAGTTAAATTATACA
1 AGAACAATTAAATAGAGCAGTTAAATTATACA
44158705 AGAACAATTAAATAGAGCAGTTAAATTATACA
1 AGAACAATTAAATAGAGCAGTTAAATTATACA
44158737 A
1 A
44158738 TTAAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (32 bp):
AGAACAATTAAATAGAGCAGTTAAATTATACA
Found at i:44165121 original size:16 final size:14
Alignment explanation
Indices: 44165100--44165134 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
44165090 CCAAAAAAAG
44165100 TAATTAATTTAGAAAT
1 TAATTAATTT--AAAT
44165116 TAATTAATTTAAAT
1 TAATTAATTTAAAT
44165130 TAATT
1 TAATT
44165135 GAACAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
16 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TAATTAATTTAAAT
Found at i:44170274 original size:30 final size:30
Alignment explanation
Indices: 44170233--44170333 Score: 100
Period size: 30 Copynumber: 3.3 Consensus size: 30
44170223 AATAAATTAA
44170233 CATGAATTAATATAAAATATGAATGAAAAT
1 CATGAATTAATATAAAATATGAATGAAAAT
* * * *
44170263 CATGCATTAATACATACAT-T-AAT-AAATTAA
1 CATGAATTAATATA-AAATATGAATGAAA--AT
*
44170293 CATGAATTAATATAAAATATGCATGAAAAT
1 CATGAATTAATATAAAATATGAATGAAAAT
44170323 CATGTAATTAA
1 CATG-AATTAA
44170334 GCATAATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 3 0.05
29 6 0.11
30 32 0.58
31 11 0.20
32 3 0.05
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (30 bp):
CATGAATTAATATAAAATATGAATGAAAAT
Found at i:44172380 original size:9 final size:9
Alignment explanation
Indices: 44172366--44172402 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44172356 TATAGTTTGA
44172366 TATTCGAAT
1 TATTCGAAT
44172375 TATTCGAAT
1 TATTCGAAT
*
44172384 TATTCGAGT
1 TATTCGAAT
44172393 TATTCGAAT
1 TATTCGAAT
44172402 T
1 T
44172403 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44173755 original size:2 final size:2
Alignment explanation
Indices: 44173748--44173790 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
44173738 ATCTTTGATT
44173748 TA TA TA TA TA TA TA TA TA TA TA TA 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
44173790 T
1 T
44173791 TGCTTGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44190017 original size:21 final size:21
Alignment explanation
Indices: 44189987--44190054 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
44189977 ACTCACAAAG
*
44189987 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTGACTTAGAC
** *
44190007 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTGACTTAGAC
44190028 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTAGAC
44190052 AAA
1 AAA
44190055 TCTTTTTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.16
21 16 0.43
23 1 0.03
24 14 0.38
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTAGAC
Found at i:44198971 original size:21 final size:21
Alignment explanation
Indices: 44198945--44198995 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
44198935 CTACAACTTA
*
44198945 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCAAGAG
**
44198966 AAGCAGAGGCGGCAGTGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
44198987 AAGCAGAGG
1 AAGCAGAGG
44198996 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.47, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:44199431 original size:43 final size:43
Alignment explanation
Indices: 44199377--44199541 Score: 151
Period size: 42 Copynumber: 3.9 Consensus size: 43
44199367 GTTTTTGTAT
44199377 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAAA
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAAA
* * * *
44199420 AAAAGCACCGCTAAAGAACATGATCTTTAGTGGCG-CT-TAATA
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAA-A
** * * ** * * *
44199462 AAAATTGCCACTAAAGATCATGTTCTTTAGCAGCGCTTAG-AAG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTGTAAA
44199505 AAAA-CGCCGCTAAAGAACATG-CTCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGAACATGAC-CTTTAGCGGCGTTT
44199542 TTGTTTGTAA
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
41 5 0.05
42 53 0.55
43 36 0.38
44 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAAA
Found at i:44201198 original size:21 final size:21
Alignment explanation
Indices: 44201172--44201214 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44201162 ATACTTTTTC
* *
44201172 AAAGTATTTTCTTTTGGGTTA
1 AAAGTATTTTCCTTTGGATTA
44201193 AAAGTATTTTCCTTTGGATTA
1 AAAGTATTTTCCTTTGGATTA
44201214 A
1 A
44201215 TAAATGAATA
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:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (21 bp):
AAAGTATTTTCCTTTGGATTA
Found at i:44204313 original size:43 final size:42
Alignment explanation
Indices: 44204250--44204406 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
44204240 TATGTATTTT
* * *
44204250 CGTGTAAGACCACGTTTGGGACGTTGGCATTGAATTGTG-TATA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGAT-TA
* *
44204293 CGTGTAAGACCATGTCTGGGACATTGGCAACGCATT-TGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGATTA
*
44204335 -GTGTAAGACC-CTGTCTGGGACAATGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TGTGATTA
* * *
44204377 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
44204407 TGTACGAGCC
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.02
41 28 0.29
42 10 0.11
43 54 0.57
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTGTGATTA
Found at i:44204350 original size:41 final size:43
Alignment explanation
Indices: 44204291--44204405 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 43
44204281 GAATTGTGTA
*
44204291 TACGTGTAAGACCATGTCTGGGACATTGGCAACGCAT-T-TGAT
1 TACGTGTAAGACCCTGTCTGGGACATTGGCAACG-ATATGTGAT
* *
44204333 TA-GTGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGAT
1 TACGTGTAAGACCCTGTCTGGGACATTGGCAACGATATGTGAT
* * *
44204375 TACATGTAAGACCAC-GTCTAGGACGTTGGCA
1 TACGTGTAAGACC-CTGTCTGGGACATTGGCA
44204406 TTGTACGAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
40 2 0.03
41 29 0.47
42 8 0.13
43 22 0.35
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
TACGTGTAAGACCCTGTCTGGGACATTGGCAACGATATGTGAT
Found at i:44212255 original size:12 final size:12
Alignment explanation
Indices: 44212238--44212281 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
44212228 TTGGGTTTAG
44212238 AAATAATATAAT
1 AAATAATATAAT
*
44212250 AAATAATAAAAT
1 AAATAATATAAT
* *
44212262 ATATAATATATT
1 AAATAATATAAT
*
44212274 TAATAATA
1 AAATAATA
44212282 ACATATAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATAATATAAT
Found at i:44212267 original size:24 final size:25
Alignment explanation
Indices: 44212239--44212297 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
44212229 TGGGTTTAGA
44212239 AATAATATAATAAATAATAAAATAT
1 AATAATATAATAAATAATAAAATAT
* * *
44212264 -ATAATATATTTAATAATAACATAT
1 AATAATATAATAAATAATAAAATAT
44212288 AATATATATA
1 AATA-ATATA
44212298 TATATGATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 21 0.72
25 3 0.10
26 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATATAATAAATAATAAAATAT
Found at i:44212290 original size:22 final size:21
Alignment explanation
Indices: 44212253--44212294 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
44212243 ATATAATAAA
*
44212253 TAATAAAATATATAATATATT
1 TAATAAAACATATAATATATT
44212274 TAATAATAACATATAATATAT
1 TAATAA-AACATATAATATAT
44212295 ATATATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAAACATATAATATATT
Found at i:44212295 original size:31 final size:30
Alignment explanation
Indices: 44212245--44212302 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
44212235 TAGAAATAAT
44212245 ATAATAAATAATAAAATATATAATATATTTA
1 ATAATAAATAATAAAATATAT-ATATATTTA
*
44212276 ATAATAACAT-ATAATATATATATATAT
1 ATAATAA-ATAATAAAATATATATATAT
44212303 GATATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 6 0.24
31 17 0.68
32 2 0.08
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAATAAATAATAAAATATATATATATTTA
Found at i:44212302 original size:15 final size:15
Alignment explanation
Indices: 44212240--44212307 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
44212230 GGGTTTAGAA
*
44212240 ATAATATAATAAATAAT
1 ATAATAT-ATATAT-AT
*
44212257 AAAATATATAATATAT
1 ATAATATAT-ATATAT
* *
44212273 TTAATA-ATA-ACAT
1 ATAATATATATATAT
44212286 ATAATATATATATAT
1 ATAATATATATATAT
*
44212301 ATGATAT
1 ATAATAT
44212308 TAAAACTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
13 8 0.20
14 4 0.10
15 11 0.28
16 8 0.20
17 9 0.22
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
ATAATATATATATAT
Found at i:44216487 original size:105 final size:105
Alignment explanation
Indices: 44216271--44216583 Score: 393
Period size: 105 Copynumber: 3.0 Consensus size: 105
44216261 GATTTTGGGT
* *
44216271 TATTCAATTACTCATC-AGGAAGATTTGATTTTCTTGATTTTTTTTCCTTTTCTTCATCATCTTC
1 TATTTAATTTCTCATCAAGG-AGATTTGATTTTCTTGA-TTTTTTTCC-TTTCTTCATCATCTTC
* *
44216335 ACTGTTAGAAAAAAAAAGATTTAGGATTTT-AGGCAATTCAACATC
63 ACTGTT--AAAAAAAATGATTTAGGGTTTTGA-GCAATTCAACATC
* * *
44216380 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCATTCTTTATTATCTTCACT
1 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
*
44216445 GTTAAAAAAAATGATTTAGGGTTTTGAACAATTCAACATC
66 GTTAAAAAAAATGATTTAGGGTTTTGAGCAATTCAACATC
* * * *
44216485 TATTTAATTTCTTATCAAGGAGATTTGATTTTCCT-A-TTTTTCCCTTTCTTCATCCTCTTCACT
1 TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
* * *
44216548 ATT-AGAAAAATGAATTTAGGGTTTTGGGCAATTCAA
66 GTTAAAAAAAATG-ATTTAGGGTTTTGAGCAATTCAA
44216584 AATCAACAAT
Statistics
Matches: 182, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
102 8 0.04
103 45 0.25
104 1 0.01
105 65 0.36
106 1 0.01
107 19 0.10
108 9 0.05
109 31 0.17
110 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (105 bp):
TATTTAATTTCTCATCAAGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTCACT
GTTAAAAAAAATGATTTAGGGTTTTGAGCAATTCAACATC
Found at i:44222170 original size:53 final size:53
Alignment explanation
Indices: 44222107--44222212 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
44222097 GCAGTGGATT
*
44222107 TCAAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGCCCGAGAGAGA
1 TCAAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
*
44222160 TCAAAAACCACAACAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
44222213 GAATAGGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.58, C:0.15, G:0.21, T:0.06
Consensus pattern (53 bp):
TCAAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:44223736 original size:25 final size:26
Alignment explanation
Indices: 44223683--44223732 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44223673 TATATATTAC
44223683 TTTTTTTTATTAATATTAAGATTTAA
1 TTTTTTTTATTAATATTAAGATTTAA
* *
44223709 TTTTTTTTGTT-ATTTTAAG-TTTAA
1 TTTTTTTTATTAATATTAAGATTTAA
44223733 ATTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTTTTTTATTAATATTAAGATTTAA
Found at i:44226833 original size:17 final size:16
Alignment explanation
Indices: 44226799--44226846 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
44226789 AATGAACGGT
*
44226799 AGAGAAAAA-AAAAAG
1 AGAGAAAAAGAAGAAG
44226814 AGAGAAAAGAGAAGAAG
1 AGAGAAAA-AGAAGAAG
44226831 AGAAGAAAAAGAAGAA
1 AG-AGAAAAAGAAGAA
44226847 AGGTAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 14 0.48
18 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AGAGAAAAAGAAGAAG
Found at i:44227001 original size:82 final size:81
Alignment explanation
Indices: 44226932--44227151 Score: 295
Period size: 80 Copynumber: 2.7 Consensus size: 81
44226922 TATTAATTAT
*
44226932 TAATTATAAATTAT-TTATATTTAGTGTTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTA
1 TAATTAT--ATTATATTA-ATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTA
44226995 ATTTTTTGTATGAATATTG
63 ATTTTTTGTATGAATATTG
* * *
44227014 TAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA-
1 TAATTATATTAT-ATTAATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAAT
44227078 -TTTTGTATGAATATTG
65 TTTTTGTATGAATATTG
* *
44227094 TAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTATGTAATGAA
1 TAATTATATTAT-ATTAATTTAGTATTTATAGTTTTGGATTAGTATTT-TGT-ATGAA
44227152 GTACATATCA
Statistics
Matches: 129, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
80 68 0.53
81 16 0.12
82 45 0.35
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (81 bp):
TAATTATATTATATTAATTTAGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATT
TTTTGTATGAATATTG
Found at i:44227002 original size:21 final size:22
Alignment explanation
Indices: 44226975--44227023 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
44226965 TTTGGATTAG
44226975 TATTTTGTATGAATATTCTAAT
1 TATTTTGTATGAATATTCTAAT
*
44226997 T-TTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTCTAAT
44227018 TATTTT
1 TATTTT
44227024 ATAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (22 bp):
TATTTTGTATGAATATTCTAAT
Found at i:44227082 original size:19 final size:19
Alignment explanation
Indices: 44227058--44227098 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
44227048 TTGGATTAGT
44227058 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
44227077 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
44227096 ATT
1 ATT
44227099 ATTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:44227111 original size:80 final size:81
Alignment explanation
Indices: 44226958--44227151 Score: 338
Period size: 80 Copynumber: 2.4 Consensus size: 81
44226948 ATATTTAGTG
44226958 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTGTAATTATT
1 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAA-TTTTTGTATGAATATTGTAATTATT
44227022 TTATAATTAATTTTGTA
65 TTATAATTAATTTTGTA
*
44227039 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAA-TTTTGTATGAATATTGTAATTATTT
1 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGTAATTATTT
44227103 TATAATTAATTTTGTA
66 TATAATTAATTTTGTA
44227119 TTTATAGTTTTGGATTAGTATTTATGTAATGAA
1 TTTATAGTTTTGGATTAGTATTT-TGT-ATGAA
44227152 GTACATATCA
Statistics
Matches: 109, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
80 64 0.59
81 10 0.09
82 35 0.32
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.56
Consensus pattern (81 bp):
TTTATAGTTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGTAATTATTT
TATAATTAATTTTGTA
Found at i:44227524 original size:15 final size:15
Alignment explanation
Indices: 44227504--44227536 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44227494 CTGCCACGAC
44227504 ATGTGTACATGGATA
1 ATGTGTACATGGATA
44227519 ATGTGTACATGGATA
1 ATGTGTACATGGATA
44227534 ATG
1 ATG
44227537 AAGTGTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (15 bp):
ATGTGTACATGGATA
Found at i:44230203 original size:27 final size:28
Alignment explanation
Indices: 44230168--44230236 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
44230158 GAAAAATCAG
*
44230168 ACCATTGGCGCCTCTTAACAT-GGCACC
1 ACCAATGGCGCCTCTTAACATAGGCACC
* * *
44230195 ACTAATGGCGCCTC-TCAGATAGGCACC
1 ACCAATGGCGCCTCTTAACATAGGCACC
*
44230222 ACCATTGGCGCCTCT
1 ACCAATGGCGCCTCT
44230237 GAACTATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (28 bp):
ACCAATGGCGCCTCTTAACATAGGCACC
Found at i:44235443 original size:51 final size:51
Alignment explanation
Indices: 44235354--44235482 Score: 131
Period size: 51 Copynumber: 2.5 Consensus size: 51
44235344 AAAGGTCGCA
*
44235354 TGTGTAGTACTATGTGCAGGCTAGT--ATGCGTACCGGATAGCTT-CGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGCGTA-CGGATA--TTACGATCACG
* * * *
44235405 TGTGTAGTACTATGTGCAGGCTACTACATGTGT-TGGATATTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGCGTACGGATATT-ACGATCACG
* *
44235456 GGTTTAGTACTATGTGCAGGCTACTAC
1 TGTGTAGTACTATGTGCAGGCTACTAC
44235483 GTGAACCGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
49 2 0.03
51 60 0.90
53 5 0.07
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGCGTACGGATATTACGATCACG
Found at i:44235505 original size:101 final size:101
Alignment explanation
Indices: 44235299--44235537 Score: 255
Period size: 101 Copynumber: 2.4 Consensus size: 101
44235289 AAAGTGATGG
* * * *
44235299 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAACGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTACCGGAACGAAAGGTCACAGGTGTAGTAC
* * * * *
44235364 TATGTGCAGGCTAGTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
* *** ** * * *
44235400 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTGTTGGATATTAATGGTCACGGGTTTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTACCGGA-ACGAAAGGTCACAGGTGTAGTA
* * *
44235465 CTATGTGCAGGCTACTACGTGAACCGAAAAG-TTTGC
65 CTATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
* *
44235501 TCACGTGTGTAGTACTATGTGAAGGTTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTA
44235538 TCGAATGATA
Statistics
Matches: 113, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
101 73 0.65
102 40 0.35
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTACCGGAACGAAAGGTCACAGGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
Found at i:44250162 original size:83 final size:80
Alignment explanation
Indices: 44249984--44250255 Score: 282
Period size: 82 Copynumber: 3.4 Consensus size: 80
44249974 CAAAATCAAG
* * * * *
44249984 TCTGTTAAACGACATGATTAAATCCTGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAA
1 TCTGTTAAATGGCAGGAATAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAA
44250049 ATC-AA--AATAAAA
66 ATCAAATGAATAAAA
* * * * * *
44250061 TTTATTAAACGGCAGGAATAAATCCCAAAACAAAATTATTTGATTAAGTCTTCGTTTGGAAACAA
1 TCTGTTAAATGGCAGGAATAAATCCCGAAACAAAATTATTTAATTAAATCTT-GTTTGGAAACAA
44250126 AATCAAGATCGAATAAAA
65 AATCAA-AT-GAATAAAA
* * * * ** * *
44250144 TCTGTTAAATGGTAGGAATAAATCCCGAAA-AAAATTAGTCAATTTAATTCTAATTTGGGAGCAA
1 TCTGTTAAATGGCAGGAATAAATCCCGAAACAAAATTATTTAA-TTAAATCTTGTTTGGAAACAA
*
44250208 AATAAAAATTGAATAAAA
65 AAT-CAAA-TGAATAAAA
44250226 TCTGTTAAATGGCAGGAATAAATCCCGAAA
1 TCTGTTAAATGGCAGGAATAAATCCCGAAA
44250256 TATATTTTAT
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
77 43 0.27
78 16 0.10
79 1 0.01
80 1 0.01
82 59 0.36
83 42 0.26
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (80 bp):
TCTGTTAAATGGCAGGAATAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAA
ATCAAATGAATAAAA
Found at i:44250332 original size:87 final size:87
Alignment explanation
Indices: 44250054--44250407 Score: 216
Period size: 87 Copynumber: 4.2 Consensus size: 87
44250044 ACAAAATCAA
* * * ** *
44250054 AATAAAATTTATTAAACGGCAGGAATAAATCCCAAAACA-AAATTATTTGA--TTAAGT-CTTC-
1 AATAAAATTTGTTAAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAATTTTAA-TAC-TCA
* * * * *
44250114 GTTTGGAAACAAAAT-CAAGATCG
64 GTTTGGAAATAACATAAAAAATGG
* * * ** * * * *
44250137 AATAAAATCTGTTAAATGGTAGGAATAAATCCCGAAA-A-AAATTAGTCAA-TTTAATTCT-AAT
1 AATAAAATTTGTTAAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAATTTTAATACTCAGT
* ** * *
44250198 TTGGGAGCAAAAT-AAAAATTG
66 TTGGAAATAACATAAAAAATGG
* * * * *
44250219 AATAAAATCTGTTAAATGGCAGGAATAAATCCCGAAATATATTTTATTTTA-TTTAATTTCTC-G
1 AATAAAATTTGTTAAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAATTTTAA-TACTCAG
*
44250282 TTTGGCAACTAA-ATAAAAAACTGG
65 TTTGG-AAATAACATAAAAAA-TGG
*** *
44250306 AATAAAATTTGTTAAACGGC-GAGAATAAATTTTGAAATAGATTTTATTTAATTTTAATACTCAT
1 AATAAAATTTGTTAAACGGCAG-GAATAAATCCCGAAATAGATTTTATTTAATTTTAATACTCAG
*
44250370 TTTGGAAATAACATAAAAAATGA
65 TTTGGAAATAACATAAAAAATGG
*
44250393 AATAAAATTTATTAA
1 AATAAAATTTGTTAA
44250408 GCAAATCTTA
Statistics
Matches: 220, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
82 64 0.29
83 38 0.17
84 11 0.05
85 11 0.05
86 9 0.04
87 69 0.31
88 18 0.08
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (87 bp):
AATAAAATTTGTTAAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAATTTTAATACTCAGT
TTGGAAATAACATAAAAAATGG
Found at i:44251157 original size:20 final size:20
Alignment explanation
Indices: 44251129--44251182 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
44251119 TTTAAAGGAG
* *
44251129 AAATTAAATCAATTTGATTA
1 AAATCAAATCAATTTAATTA
* *
44251149 AAATCAAATCAAATTAATTG
1 AAATCAAATCAATTTAATTA
*
44251169 AAATCAAATAAATT
1 AAATCAAATCAATT
44251183 AGGATATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATCAAATCAATTTAATTA
Found at i:44252271 original size:17 final size:18
Alignment explanation
Indices: 44252234--44252271 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44252224 TAATATTTTA
*
44252234 ATTTATTAAATAAATAAC
1 ATTTATTAAATAAAGAAC
*
44252252 ATTTATTAAAT-TAGAAC
1 ATTTATTAAATAAAGAAC
44252269 ATT
1 ATT
44252272 AACTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTATTAAATAAAGAAC
Found at i:44277739 original size:13 final size:13
Alignment explanation
Indices: 44277721--44277747 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44277711 AATATAAGAC
44277721 ACATAAAAATCAA
1 ACATAAAAATCAA
44277734 ACATAAAAATCAA
1 ACATAAAAATCAA
44277747 A
1 A
44277748 GCATGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
ACATAAAAATCAA
Found at i:44283628 original size:15 final size:16
Alignment explanation
Indices: 44283601--44283632 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
44283591 CTTTTTACTC
44283601 TAATATAACATACTTG
1 TAATATAACATACTTG
44283617 TAATATAA-ATACTTG
1 TAATATAACATACTTG
44283632 T
1 T
44283633 GGAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATATAACATACTTG
Found at i:44285866 original size:15 final size:15
Alignment explanation
Indices: 44285837--44285867 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44285827 ATAGATGTAT
44285837 AATATAATATTAAAA
1 AATATAATATTAAAA
44285852 AATA-AATATTAAAA
1 AATATAATATTAAAA
44285866 AA
1 AA
44285868 GACATATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATAATATTAAAA
Found at i:44291621 original size:17 final size:16
Alignment explanation
Indices: 44291595--44291626 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44291585 TGATAGGTCT
44291595 CCGACGAGCTTCCAAA
1 CCGACGAGCTTCCAAA
44291611 CCGATCGAGCTTCCAA
1 CCGA-CGAGCTTCCAA
44291627 TAATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (16 bp):
CCGACGAGCTTCCAAA
Found at i:44293007 original size:36 final size:36
Alignment explanation
Indices: 44292917--44293271 Score: 208
Period size: 36 Copynumber: 9.8 Consensus size: 36
44292907 ATTAAAAACG
* * * ** *
44292917 GGTCTAACCCAACTTTTTTTAAAATTACTTTAGACAA
1 GGTCTATCCTAACCTTTTTTAAGGTTGCTTTAGAC-A
* *
44292954 GGTCTAT-CTCAA-TTTTTTTAAGGTTGCTTTACACA
1 GGTCTATCCT-AACCTTTTTTAAGGTTGCTTTAGACA
*
44292989 GGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACA
1 GGTCTATCCTAACCTTTTTT-AAGGTTGCTTTAGACA
* * *
44293026 TGGTGC-AACCCAACC-TTTTTAAGGTTG-TCTTAAACA
1 -GGT-CTATCCTAACCTTTTTTAAGGTTGCT-TTAGACA
44293062 GGTCTATCC-AACCTTTTCTTATAGGTTG-TCTTAGACAA
1 GGTCTATCCTAACCTTTT-TTA-AGGTTGCT-TTAGAC-A
*
44293100 GGTCTATCCTAACC-TTTTTAAGGTTGCCTTAGACA
1 GGTCTATCCTAACCTTTTTTAAGGTTGCTTTAGACA
* * * * * * *
44293135 GCTCTATCCCAATCATTTTTAAAAGTTTCCTTAGACA
1 GGTCTATCCTAA-CCTTTTTTAAGGTTGCTTTAGACA
* * * * * *
44293172 AGTGGTGTCCCAACC-TTTTTAAGGTTACCTTAGACAA
1 GGT-CTATCCTAACCTTTTTTAAGGTTGCTTTAGAC-A
* * * **
44293209 GGTTTATCCCAACC-TTTTTAAGGTTGCCTTAGATG
1 GGTCTATCCTAACCTTTTTTAAGGTTGCTTTAGACA
* * *
44293244 GGTTTATCCCAACCTATTTTAAAGGTTG
1 GGTCTATCCTAACCT-TTTTTAAGGTTG
44293272 GTCTTGATTA
Statistics
Matches: 261, Mismatches: 37, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
34 5 0.02
35 44 0.17
36 100 0.38
37 77 0.30
38 30 0.11
39 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
GGTCTATCCTAACCTTTTTTAAGGTTGCTTTAGACA
Found at i:44293045 original size:73 final size:73
Alignment explanation
Indices: 44292968--44293271 Score: 309
Period size: 73 Copynumber: 4.2 Consensus size: 73
44292958 TATCTCAATT
* * *
44292968 TTTTTAAGGTTGCTTTACACAGGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCA
1 TTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCA
*
44293033 ACCCAACC
66 TCCCAACC
* * * * *
44293041 TTTTTAAGGTTGTCTTAAACAGGTCTAT-CCAACCTTTTCTTATAGGTTGTCTTAGACAAGGT-C
1 TTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTT-TTAAAGGTTGCCTTAGACATGGTGC
*
44293104 TATCCTAACC
65 -ATCCCAACC
* * * * *
44293114 TTTTTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTTAAAAGTTTCCTTAGACAAGTGGTG
1 TTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-A-TGGTG
44293179 --TCCCAACC
64 CATCCCAACC
* * *
44293187 TTTTTAAGGTTACCTTAGACAAGGTTTATCCCAACC-TTTTT-AAGGTTGCCTTAG--ATGGGTT
1 TTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAT-GGTG
*
44293248 TATCCCAACC
64 CATCCCAACC
44293258 TATTTTAAAGGTTG
1 T-TTTT-AAGGTTG
44293272 GTCTTGATTA
Statistics
Matches: 191, Mismatches: 28, Indels: 24
0.79 0.12 0.10
Matches are distributed among these distances:
68 1 0.01
69 4 0.02
71 9 0.05
72 25 0.13
73 128 0.67
74 21 0.11
75 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
TTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACATGGTGCA
TCCCAACC
Found at i:44293123 original size:146 final size:145
Alignment explanation
Indices: 44292946--44293241 Score: 359
Period size: 146 Copynumber: 2.0 Consensus size: 145
44292936 TAAAATTACT
** * * * *
44292946 TTAGACAAGGTCTATCTCAATTTTTTTAAGGTTGCTTTACACAGGTCTATCCTAACCTTTTTTAA
1 TTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTAA
* **
44293011 AGGTTGCCTTAGAC-A-TGGTGCAACCCAACCTTTTTAAGGTTGTCTTAAAC-AGGTCTAT-CCA
66 AAGTTGCCTTAGACAAGTGGTG--ACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCA
*
44293072 ACCTTTTCTTATAGGTTGTC
129 ACC-TTT-TTA-AGGTTGCC
* *
44293092 TTAGACAAGGTCTATC-CTAACCTTTTTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTTA
1 TTAGACAAGGTCTATCTC-AACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTA
* * * *
44293156 AAAGTTTCCTTAGACAAGTGGTGTCCCAACCTTTTTAAGGTTACCTTAGACAAGGTTTATCCCAA
65 AAAGTTGCCTTAGACAAGTGGTGACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCAA
44293221 CCTTTTTAAGGTTGCC
130 CCTTTTTAAGGTTGCC
44293237 TTAGA
1 TTAGA
44293242 TGGGTTTATC
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
145 13 0.10
146 94 0.73
147 11 0.09
148 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (145 bp):
TTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTACACAGCTCTATCCCAACCATTTTTAA
AAGTTGCCTTAGACAAGTGGTGACCCAACCTTTTTAAGGTTACCTTAAACAAGGTCTATCCCAAC
CTTTTTAAGGTTGCC
Found at i:44293154 original size:109 final size:109
Alignment explanation
Indices: 44292968--44293241 Score: 292
Period size: 109 Copynumber: 2.5 Consensus size: 109
44292958 TATCTCAATT
* * * *
44292968 TTTTTAAGGTTGCTTTACAC-AGGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACATGGTGC
1 TTTTTAAGGTTACCTTAGACAAGGTCTATCCTAACC-TTTTT-AAGGTTGCCTTAGACATGCTGC
* * *
44293032 AACCCAACCTTTTT-AAGGTTGT-CTTAAACAGGT-CTAT-CCAACC
64 AACCCAACATTTTTAAAAGTT-TCCTTAAACAAGTGCTATCCCAACC
**
44293075 TTTTCTTATAGGTTGTCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCCTTAGACA-GCT-
1 -TTT-TTA-AGGTTACCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCCTTAGACATGCTG
* * * *
44293138 CTATCCCAATCATTTTTAAAAGTTTCCTTAGACAAGTGGTGTCCCAACC
63 C-AACCCAA-CATTTTTAAAAGTTTCCTTAAACAAGTGCTATCCCAACC
* *
44293187 TTTTTAAGGTTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGA
1 TTTTTAAGGTTACCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCCTTAGA
44293242 TGGGTTTATC
Statistics
Matches: 142, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
107 1 0.01
108 11 0.08
109 71 0.50
110 33 0.23
111 20 0.14
112 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (109 bp):
TTTTTAAGGTTACCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCCTTAGACATGCTGCAA
CCCAACATTTTTAAAAGTTTCCTTAAACAAGTGCTATCCCAACC
Found at i:44293295 original size:109 final size:106
Alignment explanation
Indices: 44292953--44293278 Score: 290
Period size: 109 Copynumber: 3.0 Consensus size: 106
44292943 ACTTTAGACA
* * *
44292953 AGGTCTATCTCAA-TTTTTTTAAGGTTGCTTTACAC-AGGTCTATCCTAACCTTTTTTAAAGGTT
1 AGGTCTATC-CAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACC-TTTTT-AAGGTT
* *
44293016 GCCTTAGACATGGTGC-AACCCAACCT-TTTT-AAGGTTGTCTTAAAC
63 GCCTTAG--ATGGT-CTATCCCAACCTATTTTAAAGGTTGTCTT-GAC
*
44293061 AGGTCTATCCAACCTTTTCTTATAGGTTGTCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTG
1 AGGTCTATCCAACCTTTT-TTA-AGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTG
* * * *
44293126 CCTTAGACAGCTCTATCCCAATC-ATTTTTAAAAGTT-TCCTTAGAC
64 CCTTAGA-TGGTCTATCCCAACCTA-TTTTAAAGGTTGT-CTT-GAC
* * * * * *
44293171 AAGTGGTGTCCCAACC-TTTTTAAGGTTACCTTAGACAAGGTTTATCCCAACCTTTTTAAGGTTG
1 AGGT-CTAT-CCAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTG
*
44293235 CCTTAGATGGGTTTATCCCAACCTATTTTAAAGGTTGGTCTTGA
64 CCTTAGAT-GGTCTATCCCAACCTATTTTAAAGGTT-GTCTTGA
44293279 TTAGGTTTTT
Statistics
Matches: 180, Mismatches: 22, Indels: 31
0.77 0.09 0.13
Matches are distributed among these distances:
107 5 0.03
108 22 0.12
109 89 0.49
110 37 0.21
111 21 0.12
112 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (106 bp):
AGGTCTATCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTCTATCCTAACCTTTTTAAGGTTGCC
TTAGATGGTCTATCCCAACCTATTTTAAAGGTTGTCTTGAC
Found at i:44293983 original size:13 final size:13
Alignment explanation
Indices: 44293965--44293996 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44293955 ATATATATAC
44293965 GCAGTTGAAAAAG
1 GCAGTTGAAAAAG
*
44293978 GCAGTTGAAAAGG
1 GCAGTTGAAAAAG
44293991 GCAGTT
1 GCAGTT
44293997 CCATTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (13 bp):
GCAGTTGAAAAAG
Found at i:44294811 original size:18 final size:18
Alignment explanation
Indices: 44294755--44294811 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
44294745 CTTTCTCATT
**
44294755 TTCAGCAACTTTTTCTTC
1 TTCAGCAACAATTTCTTC
* *
44294773 TTTAGCAACAACTTTC-GC
1 TTCAGCAACAA-TTTCTTC
44294791 TTCAGCAACAATTTCTTC
1 TTCAGCAACAATTTCTTC
44294809 TTC
1 TTC
44294812 TACAACATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 4 0.13
18 23 0.74
19 4 0.13
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (18 bp):
TTCAGCAACAATTTCTTC
Found at i:44294817 original size:18 final size:20
Alignment explanation
Indices: 44294766--44294818 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
44294756 TCAGCAACTT
44294766 TTTCTTCTT-TAGCAACAAC
1 TTTCTTCTTCTAGCAACAAC
*
44294785 TTTC-GCTTC-AGCAACAA-
1 TTTCTTCTTCTAGCAACAAC
44294802 TTTCTTCTTCTA-CAACA
1 TTTCTTCTTCTAGCAACA
44294819 TCAACTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 4 0.14
18 20 0.69
19 5 0.17
ACGTcount: A:0.26, C:0.28, G:0.06, T:0.40
Consensus pattern (20 bp):
TTTCTTCTTCTAGCAACAAC
Found at i:44302949 original size:17 final size:19
Alignment explanation
Indices: 44302924--44302960 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
44302914 AAGCAAAAGA
44302924 ATTTCATA-TTA-TGAGAT
1 ATTTCATATTTAGTGAGAT
*
44302941 ATTTGATATTTAGTGAGAT
1 ATTTCATATTTAGTGAGAT
44302960 A
1 A
44302961 GGGTCAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (19 bp):
ATTTCATATTTAGTGAGAT
Found at i:44303649 original size:13 final size:13
Alignment explanation
Indices: 44303631--44303655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44303621 TTGATACTGT
44303631 ATGCCCTGTTTAC
1 ATGCCCTGTTTAC
44303644 ATGCCCTGTTTA
1 ATGCCCTGTTTA
44303656 AAGGCCTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGCCCTGTTTAC
Found at i:44304739 original size:25 final size:25
Alignment explanation
Indices: 44304693--44304740 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
44304683 CTTTCTTTGA
* *
44304693 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
44304718 TAGTATATACTGAGATTACTATA
1 TAGTATATACTGAAACTACTATA
44304741 AATAGACTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:44311278 original size:18 final size:18
Alignment explanation
Indices: 44311252--44311300 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
44311242 CAATAAAAAA
*
44311252 AACGTTTTG-AAATTGAAT
1 AACGATTTGTAAA-TGAAT
44311270 AACGATTTGTAAATGAAT
1 AACGATTTGTAAATGAAT
* *
44311288 AATGTTTTGTAAA
1 AACGATTTGTAAA
44311301 CGAACGTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (18 bp):
AACGATTTGTAAATGAAT
Found at i:44318670 original size:33 final size:33
Alignment explanation
Indices: 44318615--44318724 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 33
44318605 TACAACATGC
* * *
44318615 AGTAATAGTCTGGGCCTGAGCCCTATGCAGTAAT
1 AGTAACAGTGTGGGCCTTAGCCC-ATGCAGTAAT
44318649 AGT-ACAGTGTGGGCCTTAGCCC--G-A-T-AT
1 AGTAACAGTGTGGGCCTTAGCCCATGCAGTAAT
*
44318676 AGTAACAGTGTGGGCCTTAGCCC--G-A-T-AC
1 AGTAACAGTGTGGGCCTTAGCCCATGCAGTAAT
44318704 AGTAACAGTGTGGGCCTTAGC
1 AGTAACAGTGTGGGCCTTAGC
44318725 TTAATACAGT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
27 5 0.07
28 45 0.63
29 1 0.01
30 1 0.01
33 16 0.23
34 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (33 bp):
AGTAACAGTGTGGGCCTTAGCCCATGCAGTAAT
Found at i:44318686 original size:28 final size:28
Alignment explanation
Indices: 44318647--44318724 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
44318637 CTATGCAGTA
44318647 ATAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ATAGTAACAGTGTGGGCCTTAGCCCGAT
44318674 ATAGTAACAGTGTGGGCCTTAGCCCGAT
1 ATAGTAACAGTGTGGGCCTTAGCCCGAT
*
44318702 ACAGTAACAGTGTGGGCCTTAGC
1 ATAGTAACAGTGTGGGCCTTAGC
44318725 TTAATACAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 5 0.10
28 44 0.90
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (28 bp):
ATAGTAACAGTGTGGGCCTTAGCCCGAT
Found at i:44318731 original size:28 final size:28
Alignment explanation
Indices: 44318652--44318743 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
44318642 CAGTAATAGT
*
44318652 ACAGTGTGGGCCTTAGCCCGATATAGTA
1 ACAGTGTGGGCCTTAGCCCGATACAGTA
44318680 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGGCCTTAGCCCGATACAGTA
***
44318708 ACAGTGTGGGCCTTAGCTTAATACAGTA
1 ACAGTGTGGGCCTTAGCCCGATACAGTA
*
44318736 ACCGTGTG
1 ACAGTGTG
44318744 ATAATGCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCGATACAGTA
Found at i:44319155 original size:54 final size:53
Alignment explanation
Indices: 44319082--44319220 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 53
44319072 TATAACAATC
* * *
44319082 ATTTTACCCTCTGGAGGTATTTCGAT-AGTTTTACCCTTCGAGGGTATTTC-AGTT
1 ATTTTA-CCTTTGGGGGTATTTCGATCA-TTTTACCCTTCAAGGGTATTTCGA-TT
* *
44319136 ATTTTATCCTTTGGGGGTATTTCGGTCATTTTACCCTTCAAGGTTATTTCGATT
1 ATTTTA-CCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGATT
*
44319190 ATTTTACCTTTTGAGGGTATTTC-AGTCATTT
1 ATTTTACC-TTTGGGGGTATTTCGA-TCATTT
44319221 ATTAACTACT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
53 2 0.03
54 69 0.95
55 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.47
Consensus pattern (53 bp):
ATTTTACCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGATT
Found at i:44319220 original size:27 final size:27
Alignment explanation
Indices: 44319080--44319220 Score: 119
Period size: 27 Copynumber: 5.2 Consensus size: 27
44319070 GGTATAACAA
*
44319080 TCATTTTACCCTCTGGA-GGTATTTC-G
1 TCATTTTACCCT-TCGAGGGTATTTCAG
44319106 AT-AGTTTTACCCTTCGAGGGTATTTCAG
1 -TCA-TTTTACCCTTCGAGGGTATTTCAG
* * * * *
44319134 TTATTTTATCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
44319161 TCATTTTACCCTTCAAGGTTATTTC-G
1 TCATTTTACCCTTCGAGGGTATTTCAG
* * *
44319187 ATTATTTTACCTTTTGAGGGTATTTCAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
44319215 TCATTT
1 TCATTT
44319221 ATTAACTACT
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
26 5 0.05
27 83 0.91
28 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:44320310 original size:60 final size:60
Alignment explanation
Indices: 44320238--44320360 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
44320228 GAAGAGAGAA
44320238 AAAGAGAGAATGAAGGATTTGGCAATAAGAGGAGAGGGGGAAGAGGAAAGAAGAAAGCAG
1 AAAGAGAGAATGAAGGATTTGGCAATAAGAGGAGAGGGGGAAGAGGAAAGAAGAAAGCAG
44320298 AAAGAGAGAATGAAGGATTTGGCAATAAGAGGAGAGGGGGAAGAGGAAAGAAGAAAGCAG
1 AAAGAGAGAATGAAGGATTTGGCAATAAGAGGAGAGGGGGAAGAGGAAAGAAGAAAGCAG
44320358 AAA
1 AAA
44320361 AGGACAAACC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.50, C:0.03, G:0.39, T:0.08
Consensus pattern (60 bp):
AAAGAGAGAATGAAGGATTTGGCAATAAGAGGAGAGGGGGAAGAGGAAAGAAGAAAGCAG
Found at i:44323282 original size:16 final size:17
Alignment explanation
Indices: 44323240--44323286 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
44323230 GATAGAAAGT
44323240 ATAACATATATATACGTAC
1 ATAA-ATATATA-ACGTAC
* *
44323259 ATATATATATAAGGTA-
1 ATAAATATATAACGTAC
44323275 ATAAATATATAA
1 ATAAATATATAA
44323287 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATATATAACGTAC
Done.