Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 192 of 204
Found at i:57044576 original size:132 final size:132
Alignment explanation
Indices: 57044097--57044569 Score: 788
Period size: 132 Copynumber: 3.6 Consensus size: 132
57044087 GTTTTCTTTG
* *
57044097 ATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
1 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
* * *
57044162 GGAGGTAAAATCTACCATCTTCGATCTACTCCACTACTG-TCTGGGGAGATAAGATCTGTAATCT
66 GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTGTAATCT
57044226 TCA
130 TCA
* *
57044229 ATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
* * *
57044294 GGAGATAAAATCCACCATCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
57044359 CA
131 CA
* *
57044361 ATCTATTCCACTGCTGCCCAGGGAGATGGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
*
57044426 GGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAA-CT
66 GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT-AATCT
*
57044490 TTA
130 TCA
57044493 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
1 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
57044558 GGAGGTAAAATC
66 GGAGGTAAAATC
57044570 TGCCATCAAC
Statistics
Matches: 320, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
132 317 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAG
GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
CA
Found at i:57044664 original size:45 final size:45
Alignment explanation
Indices: 57044613--57044753 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
57044603 GTAAGGCTGG
*
57044613 TATCTTTAATCTGCTTCGCTGTCAATGTAGGAAGGCAATATTTGC
1 TATCTTTAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATTTGC
* * * **
57044658 TATCTTTAA-CTTGCTCCACTG-CAACTG-AGGGAGGCAAGGCTT--
1 TATCTTTAATC-TGCTTCGCTGTCAA-TGTAGGAAGGCAAGATTTGC
* *
57044700 TAT-TTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATTTGC
1 TATCTTT-AATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATTTGC
57044745 TATCTTTAA
1 TATCTTTAA
57044754 CTTGCTCCAC
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
41 3 0.04
42 14 0.19
43 15 0.21
44 15 0.21
45 23 0.32
46 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (45 bp):
TATCTTTAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATTTGC
Found at i:57044732 original size:87 final size:87
Alignment explanation
Indices: 57044581--57044789 Score: 312
Period size: 87 Copynumber: 2.4 Consensus size: 87
57044571 GCCATCAACC
* * * * *
57044581 TGCTCCATTGCAACCGATGGAGGTAAGGCTGGTATCTTTAATCTGCTTCGCTGTCAATGTAGGAA
1 TGCTCCACTGCAACTGAGGGAGGCAAGGCT-TTATCTTTAATCTGCTTCGCTGTCAATGTAGGAA
*
57044646 GGCAATATTTGCTATCTTTAACT
65 GGCAAGATTTGCTATCTTTAACT
* *
57044669 TGCTCCACTGCAACTGAGGGAGGCAAGGCTTTAT-TTTCGATCTGCTTCGCTGTCGATGTAGGAA
1 TGCTCCACTGCAACTGAGGGAGGCAAGGCTTTATCTTT-AATCTGCTTCGCTGTCAATGTAGGAA
57044733 GGCAAGATTTGCTATCTTTAACT
65 GGCAAGATTTGCTATCTTTAACT
*
57044756 TGCTCCACTGCAACTGAGGGAGGCAAGGTTTTAT
1 TGCTCCACTGCAACTGAGGGAGGCAAGGCTTTAT
57044790 AATTTCACTG
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
86 3 0.03
87 82 0.74
88 26 0.23
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (87 bp):
TGCTCCACTGCAACTGAGGGAGGCAAGGCTTTATCTTTAATCTGCTTCGCTGTCAATGTAGGAAG
GCAAGATTTGCTATCTTTAACT
Found at i:57048998 original size:13 final size:13
Alignment explanation
Indices: 57048980--57049005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57048970 TGTTCAATTT
57048980 TTTACTAGAAAAC
1 TTTACTAGAAAAC
57048993 TTTACTAGAAAAC
1 TTTACTAGAAAAC
57049006 AAATCTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:57050773 original size:17 final size:17
Alignment explanation
Indices: 57050753--57050790 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57050743 TTTGATTATA
57050753 AAATATGA-AAAATGTAT
1 AAATATGATAAAA-GTAT
*
57050770 AAATATTATAAAAGTAT
1 AAATATGATAAAAGTAT
57050787 AAAT
1 AAAT
57050791 GTACATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
AAATATGATAAAAGTAT
Found at i:57050934 original size:3 final size:3
Alignment explanation
Indices: 57050926--57050962 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
57050916 ATATGTAAGT
* *
57050926 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57050963 AGTCATAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57050972 original size:14 final size:15
Alignment explanation
Indices: 57050927--57050972 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
57050917 TATGTAAGTA
* *
57050927 TAATAATAATAATAA
1 TAATAATAGTAATAG
57050942 TAATAATAGTAATAG
1 TAATAATAGTAATAG
*
57050957 TAATAA-AGTCATAG
1 TAATAATAGTAATAG
57050971 TA
1 TA
57050973 TAACATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (15 bp):
TAATAATAGTAATAG
Found at i:57052236 original size:20 final size:19
Alignment explanation
Indices: 57052204--57052241 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57052194 ATATATAAAT
*
57052204 TAAAAAAATTAATTACATA
1 TAAAAAAAATAATTACATA
57052223 TAAAAAATAATAATTACAT
1 TAAAAAA-AATAATTACAT
57052242 TATTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAAAAATAATTACATA
Found at i:57054043 original size:44 final size:44
Alignment explanation
Indices: 57053982--57054103 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
57053972 ACCTAATACG
* * * * *
57053982 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTA-TTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TACTGACTTTA
* *
57054026 AT-TCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTTA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTACTGACTTTA
*
57054070 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
57054104 CGCCATATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
43 3 0.05
44 62 0.94
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTGACTTTA
Found at i:57055288 original size:25 final size:26
Alignment explanation
Indices: 57055260--57055308 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
57055250 GTGTCTTGAA
57055260 AAGAA-AAAGGTATT-CAAGAACAACG
1 AAGAATAAA-GTATTGCAAGAACAACG
57055285 AAGAATAAAGTATTGCAAGAACAA
1 AAGAATAAAGTATTGCAAGAACAA
57055309 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14
Consensus pattern (26 bp):
AAGAATAAAGTATTGCAAGAACAACG
Found at i:57068408 original size:25 final size:25
Alignment explanation
Indices: 57068374--57068422 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
57068364 GGAATAAAAC
57068374 TGTATTATTATTGTAATTATATTTT
1 TGTATTATTATTGTAATTATATTTT
*
57068399 TGTATTATTATTGTCATTATATTT
1 TGTATTATTATTGTAATTATATTT
57068423 CTATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (25 bp):
TGTATTATTATTGTAATTATATTTT
Found at i:57068431 original size:25 final size:25
Alignment explanation
Indices: 57068376--57068432 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
57068366 AATAAAACTG
* *
57068376 TATTATTATTGTAATTATATTTTTG
1 TATTATTATTGTAATTATATTTCTA
*
57068401 TATTATTATTGTCATTATATTTCTA
1 TATTATTATTGTAATTATATTTCTA
*
57068426 TTTTATT
1 TATTATT
57068433 TATTTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (25 bp):
TATTATTATTGTAATTATATTTCTA
Found at i:57068471 original size:3 final size:3
Alignment explanation
Indices: 57068463--57068562 Score: 82
Period size: 3 Copynumber: 34.0 Consensus size: 3
57068453 TCTTTTAACC
*
57068463 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTG TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * *
57068509 AAA TTA TAA TATA TTA TTA TCA GTA TTA TAA AT- TTA TTA TGTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
57068555 TTA -TA TTA
1 TTA TTA TTA
57068563 AGTTTCTTCA
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
2 7 0.09
3 65 0.84
4 5 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:57068584 original size:23 final size:22
Alignment explanation
Indices: 57068553--57068600 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
57068543 TATTATGTAT
*
57068553 TATTATA-TTAAGTTTCTTCATA
1 TATTATATTTAA-TTTCGTCATA
57068575 TATTAATATTTAATTTCGTCATA
1 TATT-ATATTTAATTTCGTCATA
57068598 TAT
1 TAT
57068601 CGTCTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (22 bp):
TATTATATTTAATTTCGTCATA
Found at i:57068758 original size:49 final size:47
Alignment explanation
Indices: 57068657--57068767 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 47
57068647 TTTTATAATT
*
57068657 CATACGTACATACATTTTTTATATATATTTTATAACTTAAAACTATA
1 CATACATACATACATTTTTTATATATATTTTATAACTTAAAACTATA
* * *
57068704 TATACATACATATATTCTTTT-TATATATTTTATAGTCTTAAAA-TATAGA
1 CATACATACATACATT-TTTTATATATATTTTATA-ACTTAAAACTAT--A
*
57068753 CATACATACTTACAT
1 CATACATACATACAT
57068768 ATATTTTTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
47 29 0.55
48 11 0.21
49 13 0.25
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.45
Consensus pattern (47 bp):
CATACATACATACATTTTTTATATATATTTTATAACTTAAAACTATA
Found at i:57068865 original size:12 final size:13
Alignment explanation
Indices: 57068844--57068877 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
57068834 CTTTTTTATA
57068844 ATTTTA-TTATTT
1 ATTTTATTTATTT
57068856 A-TTTATTTATTT
1 ATTTTATTTATTT
57068868 ATTTTATTTA
1 ATTTTATTTA
57068878 ATTTTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 8 0.40
13 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:57071192 original size:6 final size:6
Alignment explanation
Indices: 57071175--57071204 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
57071165 TCTTCACTAT
*
57071175 TCACCA TTACCA TCACCA TCACCA TCACCA
1 TCACCA TCACCA TCACCA TCACCA TCACCA
57071205 ACAAAAACTC
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:0.47, G:0.00, T:0.20
Consensus pattern (6 bp):
TCACCA
Found at i:57072528 original size:30 final size:30
Alignment explanation
Indices: 57072465--57072566 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
57072455 TAAAAAATAA
* *
57072465 AAATTGCATTTTGACCCTTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
57072495 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * * *
57072525 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
57072555 AAATTTCATTTT
1 AAATTTCATTTT
57072567 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:57072961 original size:3 final size:3
Alignment explanation
Indices: 57072953--57072998 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
57072943 GCTAGACTTT
*
57072953 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
57072999 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57072971 original size:10 final size:10
Alignment explanation
Indices: 57072956--57072984 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
57072946 AGACTTTGAA
57072956 GAAGAAGAAG
1 GAAGAAGAAG
57072966 GAAGAAGAAG
1 GAAGAAGAAG
57072976 GAAGAAGAA
1 GAAGAAGAA
57072985 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:57072971 original size:13 final size:13
Alignment explanation
Indices: 57072953--57072998 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
57072943 GCTAGACTTT
57072953 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
57072966 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
57072979 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
57072990 GAAGAAGAA
1 GAAGAAGAA
57072999 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:57072996 original size:24 final size:24
Alignment explanation
Indices: 57072953--57073012 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
57072943 GCTAGACTTT
* *
57072953 GAAGAAGAAGA-AGGAAGAAGAAG
1 GAAGAAGAAAAGAGGAAGAAGAAA
57072976 GAAGAAGAAAAGAGGAAGAAGAAA
1 GAAGAAGAAAAGAGGAAGAAGAAA
* *
57073000 GAAAAAAAAAAGA
1 GAAGAAGAAAAGA
57073013 AAAATCCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAAGAAAAGAGGAAGAAGAAA
Found at i:57073114 original size:6 final size:6
Alignment explanation
Indices: 57073103--57073138 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
57073093 AGAAAAAAAC
*
57073103 AACAAA AACAAA AACAAA AACAAA AAAAAGA AACAA
1 AACAAA AACAAA AACAAA AACAAA AACAA-A AACAA
57073139 GCCTAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:57073121 original size:21 final size:19
Alignment explanation
Indices: 57073097--57073138 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
57073087 AGCCCAAGAA
57073097 AAAAACAACAAAAACAAAAAC
1 AAAAACAA-AAAAA-AAAAAC
*
57073118 AAAAACAAAAAAAAGAAAC
1 AAAAACAAAAAAAAAAAAC
57073137 AA
1 AA
57073139 GCCTAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAACAAAAAAAAAAAAC
Found at i:57073522 original size:17 final size:16
Alignment explanation
Indices: 57073489--57073537 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
57073479 TTTATGCATT
57073489 TTTATATTTATATTTTTAA
1 TTTA-ATTTA-ATTTTT-A
57073508 TTTAATTTAATTTTTA
1 TTTAATTTAATTTTTA
* *
57073524 TTTTATTTTATTTT
1 TTTAATTTAATTTT
57073538 AAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 5 0.18
19 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTAATTTAATTTTTA
Found at i:57073927 original size:19 final size:21
Alignment explanation
Indices: 57073888--57073928 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57073878 AATTTTGTGT
*
57073888 AAAAAATCCAGTGTTTTCAAA
1 AAAAAATCCAGTGTTTCCAAA
57073909 AAAAAATCCA-T-TTTCCAAA
1 AAAAAATCCAGTGTTTCCAAA
57073928 A
1 A
57073929 TTTTTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAAATCCAGTGTTTCCAAA
Found at i:57073998 original size:18 final size:17
Alignment explanation
Indices: 57073924--57074086 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
57073914 ATCCATTTTC
* *
57073924 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
57073942 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
57073960 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
57073976 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
57073993 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
57074011 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
57074028 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
57074046 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
57074063 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
57074081 CAAAAA
1 CAAAAA
57074087 AAAAATCTCG
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:57074086 original size:35 final size:34
Alignment explanation
Indices: 57073924--57074086 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
57073914 ATCCATTTTC
* * * *
57073924 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
57073960 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
57073993 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
57074028 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
57074063 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
57074087 AAAAATCTCG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:57074101 original size:39 final size:38
Alignment explanation
Indices: 57074047--57074175 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 38
57074037 TCTTGTTTTC
*
57074047 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAA
1 AAAAATCTC-GTGTTTT-AAAATTTTCGTGTTTTCAAAAA
*
57074087 AAAAATCTCGTGTTTCATAAATTTT-G-GTTTT-AAAAA
1 AAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAAAA
* * * *
57074123 AAATAT-T-ATGTCTTAAAATTCTCGTGTTTTCAAAACA
1 AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA-A
*
57074160 AGAAATTCTCGTGTTT
1 A-AAAATCTCGTGTTT
57074176 CAATCGGATC
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 14 0.20
37 7 0.10
38 5 0.07
39 14 0.20
40 12 0.17
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (38 bp):
AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAAA
Found at i:57078404 original size:29 final size:30
Alignment explanation
Indices: 57078345--57078402 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57078335 TCCGAGCCTT
*
57078345 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
57078375 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
57078403 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:57078632 original size:13 final size:13
Alignment explanation
Indices: 57078614--57078645 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57078604 TTTCCAGCAA
57078614 TTATGAATTTATT
1 TTATGAATTTATT
57078627 TTATGAATTTATT
1 TTATGAATTTATT
*
57078640 TGATGA
1 TTATGA
57078646 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:57078853 original size:50 final size:50
Alignment explanation
Indices: 57078740--57078981 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
57078730 ATTTGGGTAA
* * *
57078740 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
57078796 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
57078846 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
57078896 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
57078946 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
57078982 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:57078929 original size:100 final size:103
Alignment explanation
Indices: 57078740--57078989 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
57078730 ATTTGGGTAA
57078740 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
57078805 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
57078846 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
57078908 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
57078946 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
57078990 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:57085846 original size:29 final size:30
Alignment explanation
Indices: 57085787--57085844 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57085777 TCCGAGCCTT
*
57085787 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
57085817 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
57085845 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:57086074 original size:13 final size:13
Alignment explanation
Indices: 57086056--57086087 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57086046 TTTCCAGCAA
57086056 TTATGAATTTATT
1 TTATGAATTTATT
57086069 TTATGAATTTATT
1 TTATGAATTTATT
*
57086082 TGATGA
1 TTATGA
57086088 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:57086295 original size:50 final size:50
Alignment explanation
Indices: 57086182--57086423 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
57086172 ATTTGGGTAA
* * *
57086182 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
57086238 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
57086288 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
57086338 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
57086388 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
57086424 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:57086371 original size:100 final size:103
Alignment explanation
Indices: 57086182--57086431 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
57086172 ATTTGGGTAA
57086182 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
57086247 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
57086288 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
57086350 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
57086388 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
57086432 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:57096834 original size:190 final size:188
Alignment explanation
Indices: 57096028--57096913 Score: 1030
Period size: 190 Copynumber: 4.8 Consensus size: 188
57096018 GCTTCCAAGG
* * *
57096028 AAATCAACTTCATATTGCG-GAAATGAGTTGAACCTCGGGCACGCC---GGTA---TTAGTGTAT
1 AAATCAAC-TCATATTGCGAGAAGTGAGTT-AGCCTCGGGCACGCCGTAGGTATTTTTAGTTTAT
57096086 GTTTTAAATTAGACTTCATA-TGCGAGAGG-AGTTAAGCCTTTTAATTTTGTTTTTC--AATCAA
64 GTTTTAAATT-GACTTCATATTGCGAGAGGTAGTTAAGCCTTTTAATTTTG-TTTTCAAAATCAA
57096147 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAAAA
127 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTTTT-AAAA
** *
57096211 AAAAAAACTCATATTGCGAGAA-TGAGTTA-CC-CGGGGCACGCC-TAGGTATTTTTATTTTAT-
1 AAATCAACTCATATTGCGAGAAGTGAGTTAGCCTC-GGGCACGCCGTAGGTATTTTTAGTTTATG
*
57096271 TTTTAAATTGAC-TC-TATTGCGAGAGG-AGTTAAACCTTTTAATTTTGTTTTTCAAAATCAACT
65 TTTTAAATTGACTTCATATTGCGAGAGGTAGTTAAGCCTTTTAATTTTG-TTTTCAAAATCAACT
*
57096333 CATATTGCGAGAAA-GAGTT-AGCCTCAAAACACGTTGAGGATATTTTTAAA-TTTTTAAAA
129 CATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG-TA-TTTTAAATTTTTTAAAA
* * *
57096392 AAA-CAACTCATATTGCGAGAAGTGAGTTAGCCTCCGGTCTCG-CGATCGGTATTTTTAGTTTAT
1 AAATCAACTCATATTGCGAGAAGTGAGTTAGCCT-CGGGCACGCCG-TAGGTATTTTTAGTTTAT
57096455 G-TTTAAATTGAC-TCATATTGC-AGAGGTGAGTTAAGCCTTTTAA-TTTGTTTTTCAAAATTCA
64 GTTTTAAATTGACTTCATATTGCGAGAGGT-AGTTAAGCCTTTTAATTTTG-TTTTCAAAA-TCA
*
57096516 ACTCATATTGCGGAGAGAGA-AAGATTGAGCCTCAA-ACACGTTGAGGTATTTTTAAATTTTTTA
126 ACTCATATTGC-GAGA-A-ATGAG-TTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTTTTA
57096579 AAA
186 AAA
*
57096582 AAATCAACTC-TATT-CGAGAAGTGAGTGAGCCATCGGGCACGCCG-AGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAAGTGAGTTAGCC-TCGGGCACGCCGTAGGTATTTTTAGTTTATG
*
57096644 TTTTAAATTGACTTCATATTGCGAAAGGTA-TTAAGCCTTTTAATCTTTTGTTTTCAAAATCAAC
65 TTTTAAATTGACTTCATATTGCGAGAGGTAGTTAAGCCTTTTAA--TTTTGTTTTCAAAATCAAC
57096708 TCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTA-TTTAAATTTTTTTAAAA
128 TCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAAA-TTTTTTAAAA
*
57096768 ATAATCAACTCATA-T-CGAAGAAGTGAGTATGAGCC-CGGGCACTGCCGAAAGGTA-TTTTAGT
1 A-AATCAACTCATATTGCG-AGAAGTGAGT-T-AGCCTCGGGCAC-GCCG-TAGGTATTTTTAGT
57096829 TTATGTTTT-AATTGACTTTCATA-T-CGACGAGGTGAGTTAAGCCTTTTAATTTTGTTTTCAAA
60 TTATGTTTTAAATTGAC-TTCATATTGCGA-GAGGT-AGTTAAGCCTTTTAATTTTGTTTTC-AA
57096891 AATCAACTCATATTGCGAGAAAT
121 AATCAACTCATATTGCGAGAAAT
57096914 AATATGAGCT
Statistics
Matches: 629, Mismatches: 21, Indels: 99
0.84 0.03 0.13
Matches are distributed among these distances:
179 1 0.00
180 28 0.04
181 17 0.03
182 83 0.13
183 32 0.05
184 66 0.10
185 33 0.05
186 39 0.06
187 31 0.05
188 52 0.08
189 89 0.14
190 108 0.17
191 46 0.07
192 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (188 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTAGCCTCGGGCACGCCGTAGGTATTTTTAGTTTATGT
TTTAAATTGACTTCATATTGCGAGAGGTAGTTAAGCCTTTTAATTTTGTTTTCAAAATCAACTCA
TATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAAATTTTTTAAAA
Found at i:57097028 original size:122 final size:120
Alignment explanation
Indices: 57096770--57097028 Score: 318
Period size: 121 Copynumber: 2.1 Consensus size: 120
57096760 TTTTAAAAAT
* *
57096770 AATCAACTCATA-T-CGAAGAAGTGAGTATGAGCCCGGGCACTGCCGAAAGGTATTTTAGTTTAT
1 AATCAACTCATATTGCG-AGAAAT-AATATGAGCCCGGGCACTGCCGAAAGGTATTTTAGTTTAT
*
57096833 GTTTTAATTGACTTTCATATCGACGAGGTGAGTTAAGCCTTTTAATTTTGTTTTCAAA
64 GTTTTAATTGAC-TTCATATCGACGAGGTGAGTAAAGCCTTTTAATTTTGTTTTCAAA
*
57096891 AATCAACTCATATTGCGAGAAATAATATGAGCTCGGGCAC-GCCG-AAGGTATTATTAG-TTATG
1 AATCAACTCATATTGCGAGAAATAATATGAGCCCGGGCACTGCCGAAAGGTATT-TTAGTTTATG
*
57096953 TTTTAAATTGAC-TCATATTTCGA-TAGGTGAGTAAAAGCCTCTTTAATTTTTGTTTTCAAAA
65 TTTT-AATTGACTTCATA--TCGACGAGGTGAGT-AAAGCCT-TTTAA-TTTTGTTTTC-AAA
57097014 AAT-AACTCATATTGC
1 AATCAACTCATATTGC
57097029 AAGAGGTGAG
Statistics
Matches: 123, Mismatches: 5, Indels: 19
0.84 0.03 0.13
Matches are distributed among these distances:
118 5 0.04
119 25 0.20
120 25 0.20
121 32 0.26
122 28 0.23
123 8 0.07
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (120 bp):
AATCAACTCATATTGCGAGAAATAATATGAGCCCGGGCACTGCCGAAAGGTATTTTAGTTTATGT
TTTAATTGACTTCATATCGACGAGGTGAGTAAAGCCTTTTAATTTTGTTTTCAAA
Found at i:57097044 original size:122 final size:122
Alignment explanation
Indices: 57096751--57097045 Score: 342
Period size: 122 Copynumber: 2.4 Consensus size: 122
57096741 ACGTTGAGTA
* * *
57096751 TTTAAATTT-TTTTAAAAATAATCAACTCATATCG-AAGAAGTGAGTATGAGCCCGGGCACTGCC
1 TTTAATTTTGTTTTCAAAA-AATCAACTCATATTGCAAGAAGTGAGTATGAGCCCGGGCACTGCC
*
57096814 GAAAGGTATTTTAGTTTATGTTTTAATTGACTTTCATATCGACGAGGTGAGTTAAGCCT
65 GAAAGGTATTTTAGTTTATGTTTTAATTGAC-TTCATATCGACGAGGTGAGTAAAGCCT
* * * *
57096873 TTTAATTTTGTTTTC-AAAAATCAACTCATATTGCGAGAAAT-AATATGAGCTCGGGCAC-GCCG
1 TTTAATTTTGTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTATGAGCCCGGGCACTGCCG
*
57096935 -AAGGTATTATTAG-TTATGTTTTAAATTGAC-TCATATTTCGA-TAGGTGAGTAAAAGCCT
66 AAAGGTATT-TTAGTTTATGTTTT-AATTGACTTCATA--TCGACGAGGTGAGT-AAAGCCT
*
57096993 CTTTAATTTTTGTTTTCAAAAAAT-AACTCATATTGCAAGAGGTGAGT-TGAGCC
1 -TTTAA-TTTTGTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTATGAGCC
57097046 TCGTCACATG
Statistics
Matches: 148, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
118 5 0.03
119 25 0.17
120 25 0.17
121 34 0.23
122 47 0.32
123 12 0.08
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (122 bp):
TTTAATTTTGTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTATGAGCCCGGGCACTGCCG
AAAGGTATTTTAGTTTATGTTTTAATTGACTTCATATCGACGAGGTGAGTAAAGCCT
Found at i:57097202 original size:80 final size:83
Alignment explanation
Indices: 57097013--57097211 Score: 202
Period size: 80 Copynumber: 2.4 Consensus size: 83
57097003 TGTTTTCAAA
57097013 AAAT-AACTCATATTGCAAGAGGTGAGTTGAGCCTC-GTCACATGCTGAGGTATTTCAATTTATG
1 AAATCAACTCATATTGCAAG-GGTGAGTTGAGCCTCAGTCACA--CTGAGGTATTTCAATTTATG
** *
57097076 TTTTTTTCAATCTAGCTTTTC
63 TGCTTTACAATCTAGCTTTTC
* * * *
57097097 AAA-CAACTTACATTGCGAGAG-GAGTTGAGCCTCAAG-CAC-CTGAGGTATTTCAA-TT-TGCT
1 AAATCAACTCATATTGCAAGGGTGAGTTGAGCCTC-AGTCACACTGAGGTATTTCAATTTATG-T
57097156 GCTTTACAATTCTA-CTTTTC
64 GCTTTACAA-TCTAGCTTTTC
*
57097176 AAATCAACTCATATT-CAAGGGTGAGTTGAGTCTCAG
1 AAATCAACTCATATTGCAAGGGTGAGTTGAGCCTCAG
57097212 GCCACACGCT
Statistics
Matches: 96, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
78 2 0.02
79 24 0.25
80 38 0.40
82 12 0.12
83 4 0.04
84 16 0.17
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (83 bp):
AAATCAACTCATATTGCAAGGGTGAGTTGAGCCTCAGTCACACTGAGGTATTTCAATTTATGTGC
TTTACAATCTAGCTTTTC
Found at i:57098333 original size:3 final size:3
Alignment explanation
Indices: 57098310--57098372 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
57098300 GGAGAAGAGA
* *
57098310 AAG AAG ACAG AA- AA- AAA AAG AAG AAG AA- AGG AAG AAG AAG AAG
1 AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
57098353 AAG -AG AAAG AAG AAA AAG AA
1 AAG AAG -AAG AAG AAG AAG AA
57098373 AGAAAAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
2 7 0.14
3 38 0.76
4 5 0.10
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57098335 original size:20 final size:20
Alignment explanation
Indices: 57098310--57098386 Score: 61
Period size: 22 Copynumber: 3.7 Consensus size: 20
57098300 GGAGAAGAGA
*
57098310 AAGAAGACAGAAAAAAAAAG
1 AAGAAGAAAGAAAAAAAAAG
*
57098330 AAGAAGAAAGGAAGAAGAAGAAG
1 AAGAAGAAA-GAA-AA-AAAAAG
57098353 AAG-AGAAAGAAGAAAAAGAAAG
1 AAGAAGAAAG-A-AAAAA-AAAG
57098375 AA-AA-AAAGAAAA
1 AAGAAGAAAGAAAA
57098387 TAATAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
19 3 0.06
20 9 0.19
21 10 0.21
22 16 0.34
23 9 0.19
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (20 bp):
AAGAAGAAAGAAAAAAAAAG
Found at i:57098344 original size:14 final size:13
Alignment explanation
Indices: 57098302--57098385 Score: 81
Period size: 12 Copynumber: 6.8 Consensus size: 13
57098292 GAGACAACGG
57098302 AGAAG-AGAAAGA
1 AGAAGAAGAAAGA
* *
57098314 AGACAGAAAAAAAA
1 AGA-AGAAGAAAGA
57098328 AGAAGAAGAAAG-
1 AGAAGAAGAAAGA
57098340 -GAAGAAG-AAGA
1 AGAAGAAGAAAGA
57098351 AGAAG-AGAAAGA
1 AGAAGAAGAAAGA
*
57098363 AGAAAAAGAAAGA
1 AGAAGAAGAAAGA
*
57098376 A-AAAAAGAAA
1 AGAAGAAGAAA
57098386 ATAATAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
10 3 0.05
11 9 0.15
12 24 0.39
13 17 0.28
14 8 0.13
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAGA
Found at i:57098373 original size:6 final size:6
Alignment explanation
Indices: 57098320--57098408 Score: 51
Period size: 6 Copynumber: 14.5 Consensus size: 6
57098310 AAGAAGACAG
* *
57098320 AAAA-A AAAAGA AGAAGA AAGGAAGA AGAAGA AGAAGAGA AAGAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AA--AAGA AAAAGA A-AA-AGA AA-AAGA AAAAGA
* * *
57098372 AAGAA-A AAAAG- AAAATA ATAA-A AAAATA AAAAGA AAA
1 AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
57098409 GAAGAAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
5 14 0.21
6 33 0.50
7 9 0.14
8 10 0.15
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:57098386 original size:17 final size:17
Alignment explanation
Indices: 57098322--57098407 Score: 54
Period size: 17 Copynumber: 4.9 Consensus size: 17
57098312 GAAGACAGAA
57098322 AAAAAAAGAAGAAGAAAG
1 AAAAAAAGAA-AAGAAAG
* *
57098340 -GAAGAAGAAGAAG-AAG
1 AAAAAAAGAA-AAGAAAG
*
57098356 AGAAAGAAGAAAAAGAAAG
1 A-AAAAAAG-AAAAGAAAG
*
57098375 AAAAAAAGAAAATAATA-
1 AAAAAAAGAAAAGAA-AG
57098392 AAAAAATA-AAAAGAAA
1 AAAAAA-AGAAAAGAAA
57098408 AGAAGAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.07
17 29 0.52
18 17 0.30
19 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAGAAAG
Found at i:57100525 original size:10 final size:10
Alignment explanation
Indices: 57100492--57100527 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
57100482 ATCTTCATGC
*
57100492 AAAACAAAAA
1 AAAATAAAAA
57100502 AAAA-AAAAA
1 AAAATAAAAA
57100511 AAAATAAAAA
1 AAAATAAAAA
57100521 AAAATAA
1 AAAATAA
57100528 TTTCCTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.92, C:0.03, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:57102533 original size:22 final size:18
Alignment explanation
Indices: 57102505--57102563 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 18
57102495 CGTGTAGAGG
57102505 AGAAGAAGAAATAGTAAAGAAA
1 AGAAGAAGAAA-AG--AA-AAA
57102527 AGAAGAAGAAGAAGAAAAA
1 AGAAGAAGAA-AAGAAAAA
57102546 AGAAGAAG-AAAGAAAAA
1 AGAAGAAGAAAAGAAAAA
57102563 A
1 A
57102564 AATTAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.25
18 1 0.03
19 11 0.31
20 2 0.06
22 12 0.33
23 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (18 bp):
AGAAGAAGAAAAGAAAAA
Found at i:57102546 original size:19 final size:19
Alignment explanation
Indices: 57102505--57102565 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
57102495 CGTGTAGAGG
*
57102505 AGAAGAAGAAATAGTAAAGAAA
1 AGAAGAAG-AA-AG-AAAAAAA
57102527 AGAAGAAG-AAGAAGAAAAA
1 AGAAGAAGAAAGAA-AAAAA
57102546 AGAAGAAGAAAGAAAAAAA
1 AGAAGAAGAAAGAAAAAAA
57102565 A
1 A
57102566 TTAACAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 2 0.06
19 20 0.56
20 6 0.17
22 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (19 bp):
AGAAGAAGAAAGAAAAAAA
Found at i:57102548 original size:16 final size:17
Alignment explanation
Indices: 57102520--57102563 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
57102510 AAGAAATAGT
57102520 AAAGAAAAGAAGAAGAAG
1 AAAGAAAA-AAGAAGAAG
57102538 -AAGAAAAAAGAAGAAG
1 AAAGAAAAAAGAAGAAG
57102554 AAAGAAAAAA
1 AAAGAAAAAA
57102564 AATTAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAGAAG
Found at i:57115854 original size:9 final size:9
Alignment explanation
Indices: 57115837--57115873 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
57115827 TGAGTTTTCG
57115837 AATTCGAAT
1 AATTCGAAT
*
57115846 AACTCGAAT
1 AATTCGAAT
57115855 AATTCGAAT
1 AATTCGAAT
57115864 AATTCGAAT
1 AATTCGAAT
57115873 A
1 A
57115874 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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:57115912 original size:8 final size:8
Alignment explanation
Indices: 57115901--57115925 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57115891 ACATTTTTAC
57115901 CCCAAACT
1 CCCAAACT
57115909 CCCAAACT
1 CCCAAACT
57115917 CCCAAACT
1 CCCAAACT
57115925 C
1 C
57115926 TTTTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (8 bp):
CCCAAACT
Found at i:57125096 original size:17 final size:17
Alignment explanation
Indices: 57125071--57125104 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57125061 AGAATCATAG
* *
57125071 ATTTGGAATCTTACAAA
1 ATTTAGAATCTAACAAA
57125088 ATTTAGAATCTAACAAA
1 ATTTAGAATCTAACAAA
57125105 TCATTTCCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (17 bp):
ATTTAGAATCTAACAAA
Found at i:57129650 original size:17 final size:16
Alignment explanation
Indices: 57129602--57129650 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
57129592 TTCTCAACAT
*
57129602 AGTTGTTCTCAATGTAG
1 AGTTGTTCTCAAT-AAG
*
57129619 AGGTTGTTCTAAATAAG
1 A-GTTGTTCTCAATAAG
57129636 AGTTGTTCCTCAATA
1 AGTTGTT-CTCAATA
57129651 CTGGCTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.22
17 10 0.37
18 11 0.41
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (16 bp):
AGTTGTTCTCAATAAG
Found at i:57130630 original size:16 final size:17
Alignment explanation
Indices: 57130600--57130631 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57130590 TATGGTGGTT
57130600 ATTGTTATAAATAAAAA
1 ATTGTTATAAATAAAAA
57130617 ATTGTTAT-AATAAAA
1 ATTGTTATAAATAAAA
57130632 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTGTTATAAATAAAAA
Found at i:57132554 original size:55 final size:55
Alignment explanation
Indices: 57132494--57132605 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
57132484 TGTTGTTATC
* * * *
57132494 TTTTTCACATAACATATTTGGATTGTGAATTCATAAATTACTTAGAATTATAAAT
1 TTTTTCACATAACATATTTGGATTATGAACTCATAAAATAATTAGAATTATAAAT
* *
57132549 TTTTTCACATGACATATTTGGATTATGAACTCATAAAATAATTAGAATTATAGAT
1 TTTTTCACATAACATATTTGGATTATGAACTCATAAAATAATTAGAATTATAAAT
57132604 TT
1 TT
57132606 GGAACCTTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (55 bp):
TTTTTCACATAACATATTTGGATTATGAACTCATAAAATAATTAGAATTATAAAT
Found at i:57134904 original size:20 final size:20
Alignment explanation
Indices: 57134844--57134920 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
57134834 CGAACCAAAA
57134844 TTCGGATTCGA-GTTTAGGG
1 TTCGGATTCGAGGTTTAGGG
* * * * *
57134863 TTAGTATTCGGGGTTCAAGG
1 TTCGGATTCGAGGTTTAGGG
*
57134883 TTCGGATTTGAGGTTTAGGG
1 TTCGGATTCGAGGTTTAGGG
* *
57134903 TTCAAGATTCGAGATTTA
1 TTC-GGATTCGAGGTTTA
57134921 AGATTTATAA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
19 8 0.19
20 23 0.55
21 11 0.26
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (20 bp):
TTCGGATTCGAGGTTTAGGG
Found at i:57144205 original size:105 final size:106
Alignment explanation
Indices: 57144036--57144247 Score: 300
Period size: 105 Copynumber: 2.0 Consensus size: 106
57144026 AAAATGAGCA
* * * * *
57144036 TTCTTATTTTCAGGGATTCGAGACATCGTGCCCTACCTTATGGGGCATGATTCTCTTCCTGATTA
1 TTCTTATTTTCAGGGATTCGAGACATCGTACCCTAACTTACGAGGCATGATTCTCTTCCCGATTA
*
57144101 ACTTGAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
66 ACTCGAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
** * *
57144142 TTCTTATTTTTGGGGATTCGAGACATC-TACCCTAACTTACGAGGCGTGATTTTCTTCCCGATTA
1 TTCTTATTTTCAGGGATTCGAGACATCGTACCCTAACTTACGAGGCATGATTCTCTTCCCGATTA
* * *
57144206 ACTCGAAATATGAAGGCATTTTTCATAAAATTTGATTTAAT
66 ACTCGAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
57144247 T
1 T
57144248 AGCAATATTT
Statistics
Matches: 93, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
105 68 0.73
106 25 0.27
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (106 bp):
TTCTTATTTTCAGGGATTCGAGACATCGTACCCTAACTTACGAGGCATGATTCTCTTCCCGATTA
ACTCGAAATACGAAGACATTCTTCATAAAATTTGATTTAAT
Found at i:57151067 original size:29 final size:30
Alignment explanation
Indices: 57151006--57151070 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
57150996 AGAAAAAGCC
57151006 TTTTTTTTAAAATTTACCGAAATGGGCTGA
1 TTTTTTTTAAAATTTACCGAAATGGGCTGA
** * * *
57151036 TTTTTTTTATTATTTATCGGAATGGTCT-A
1 TTTTTTTTAAAATTTACCGAAATGGGCTGA
57151065 TTTTTT
1 TTTTTT
57151071 GGGAAATCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.55
Consensus pattern (30 bp):
TTTTTTTTAAAATTTACCGAAATGGGCTGA
Found at i:57151725 original size:55 final size:56
Alignment explanation
Indices: 57151589--57151772 Score: 266
Period size: 56 Copynumber: 3.3 Consensus size: 56
57151579 ATGTAAGAAA
* * *
57151589 TAGTAAAATTTATGAAATAAACTAAAATTATTAAGTCCAGAAATTGCGTTAATGGT
1 TAGTAAAATTTATGAAATAAGCTAAAATTATTAAGTCCAAAAATTGTGTTAATGGT
* * *
57151645 TAGTAAAA-TTATCAAAATATG-TAAAATTATTAAG-CCAAAAATTGTATTAATGGT
1 TAGTAAAATTTAT-GAAATAAGCTAAAATTATTAAGTCCAAAAATTGTGTTAATGGT
*
57151699 TAGTAAAATTTATGAAATAAGCTAAAATTATTAAGTCCAAAATTTGTGTTAATGGT
1 TAGTAAAATTTATGAAATAAGCTAAAATTATTAAGTCCAAAAATTGTGTTAATGGT
*
57151755 TAGTAAAATTTATCAAAT
1 TAGTAAAATTTATGAAAT
57151773 TAAGTTAGGT
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 31 0.27
55 34 0.30
56 48 0.42
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (56 bp):
TAGTAAAATTTATGAAATAAGCTAAAATTATTAAGTCCAAAAATTGTGTTAATGGT
Found at i:57151804 original size:29 final size:29
Alignment explanation
Indices: 57151770--57152164 Score: 622
Period size: 29 Copynumber: 13.8 Consensus size: 29
57151760 AAATTTATCA
*
57151770 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
57151799 AATTAATTTAGATTAAGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
57151828 AATTAATTTAGATTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
57151857 AATTAATTTAGGGTTAGGGTTAGGGTTTTT
1 AATTAATTTA-GGTTAGGGTTAGGGTTTTT
*
57151887 AATTAAGTTAGGTTAGGGTTAGGG--TTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
57151914 --TTAA-TTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
57151940 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
57151969 AGTTAATTTAGGTTAGGGTTAGGATTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
57151998 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
57152027 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
57152056 AATTAATTTAGGTTAGAGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
57152085 AATTAAGTTAGGTTAGGGTTAAGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
57152114 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAATTTAGGTTAGGGTTAGGGTTTTT
*
57152143 AATTAAGTTAGGTTA-GGTTAGG
1 AATTAATTTAGGTTAGGGTTAGG
57152165 TTAGGTTAGG
Statistics
Matches: 342, Mismatches: 18, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
24 17 0.05
25 4 0.01
26 3 0.01
27 3 0.01
28 11 0.03
29 277 0.81
30 27 0.08
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (29 bp):
AATTAATTTAGGTTAGGGTTAGGGTTTTT
Found at i:57152159 original size:5 final size:5
Alignment explanation
Indices: 57152149--57152179 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
57152139 TTTTAATTAA
57152149 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
1 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
57152180 GTTTTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (5 bp):
GTTAG
Found at i:57152275 original size:26 final size:25
Alignment explanation
Indices: 57152245--57152293 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
57152235 CTTCAAAAAT
57152245 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
57152271 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
57152294 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:57153390 original size:7 final size:7
Alignment explanation
Indices: 57153380--57153411 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
57153370 TTATATACAT
57153380 AATACTA
1 AATACTA
57153387 AATACTA
1 AATACTA
57153394 AATACTA
1 AATACTA
57153401 AATACTA
1 AATACTA
57153408 AATA
1 AATA
57153412 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:57154392 original size:15 final size:14
Alignment explanation
Indices: 57154372--57154401 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57154362 ATAATTATCT
57154372 AAAAATACTTAAATA
1 AAAAAT-CTTAAATA
57154387 AAAAATCTTAAATA
1 AAAAATCTTAAATA
57154401 A
1 A
57154402 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATCTTAAATA
Found at i:57154535 original size:31 final size:29
Alignment explanation
Indices: 57154494--57154561 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
57154484 ACCATTGATG
*
57154494 AAAATATAAAAAAAATTTA-AAATTATTTTTA
1 AAAAAATAAAAAAAA-TTAGAAATTA--TTTA
*
57154525 AAAAAATAAAAAAAATTAGTAATTATTTA
1 AAAAAATAAAAAAAATTAGAAATTATTTA
57154554 AAAAAATA
1 AAAAAATA
57154562 GATTTGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 12 0.35
30 3 0.09
31 19 0.56
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAGAAATTATTTA
Found at i:57154590 original size:22 final size:22
Alignment explanation
Indices: 57154565--57154615 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
57154555 AAAAATAGAT
57154565 TTGAGAGAATTTTGAAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
* *
57154587 TTGAAAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
57154609 TTGAGAG
1 TTGAGAG
57154616 GATTAGAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGAAAGGAAA
Found at i:57159439 original size:2 final size:2
Alignment explanation
Indices: 57159432--57159457 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57159422 ATTTCATTTC
57159432 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
57159458 TTTCGACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57159810 original size:23 final size:23
Alignment explanation
Indices: 57159784--57160054 Score: 373
Period size: 23 Copynumber: 11.7 Consensus size: 23
57159774 TCTACCCTGT
*
57159784 TTGGACAGCATATATATACCAAA
1 TTGGACAGCATATATACACCAAA
*
57159807 TTGGACAGCATATATACCCCAAA
1 TTGGACAGCATATATACACCAAA
* *
57159830 TTGGATAGCATTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
* * *
57159853 TCGGATAGCATTTTATACACCAAA
1 TTGGACAGCA-TATATACACCAAA
*
57159877 TTGGATAGCATATATACACCAAA
1 TTGGACAGCATATATACACCAAA
57159900 TTGGACAGCATATATACACCAAA
1 TTGGACAGCATATATACACCAAA
*
57159923 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
*
57159946 TTGGACAGCATTTTATACACCAAA
1 TTGGACAGCA-TATATACACCAAA
*
57159970 TTGGA-AGCATATATACACTAAA
1 TTGGACAGCATATATACACCAAA
* *
57159992 TTGGACAGCAATTTATACACTAAA
1 TTGGACAGC-ATATATACACCAAA
* *
57160016 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
57160039 TTGGACAGCATATATA
1 TTGGACAGCATATATA
57160055 TATACCTAGT
Statistics
Matches: 227, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.07
23 150 0.66
24 61 0.27
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATATATACACCAAA
Found at i:57159879 original size:70 final size:69
Alignment explanation
Indices: 57159784--57160054 Score: 391
Period size: 70 Copynumber: 3.9 Consensus size: 69
57159774 TCTACCCTGT
* * * * *
57159784 TTGGACAGCATATATATACCAAATTGGACAGCATATATACCCCAAATTGGATAGCATTTATACAC
1 TTGGACAGCATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACAC
57159849 CAAA
66 CAAA
* * *
57159853 TCGGATAGCATTTTATACACCAAATTGGATAGCATATATACACCAAATTGGACAGCATATATACA
1 TTGGACAGCA-TTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACA
57159918 CCAAA
65 CCAAA
*
57159923 TTGGACAGCATTTATACACCAAATTGGACAGCATTTTATACACCAAATTGGA-AGCATATATACA
1 TTGGACAGCATTTATACACCAAATTGGACAGCA-TATATACACCAAATTGGACAGCATATATACA
*
57159987 CTAAA
65 CCAAA
* * *
57159992 TTGGACAGCAATTTATACACTAAATTGGACAACATTTATACACCAAATTGGACAGCATATATA
1 TTGGACAGC-ATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATA
57160055 TATACCTAGT
Statistics
Matches: 183, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
69 73 0.40
70 110 0.60
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (69 bp):
TTGGACAGCATTTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATATATACAC
CAAA
Found at i:57159892 original size:93 final size:92
Alignment explanation
Indices: 57159784--57160049 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 92
57159774 TCTACCCTGT
* * *
57159784 TTGGACAGCATATATATACCAAATTGGACAGCATATATACCCCAAATTGGATAGCATTTATACAC
1 TTGGA-AGCATATATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATTTATACAC
* *
57159849 CAAATCGGATAGCATTTTATACACCAAA
65 CAAATTGGACAGCATTTTATACACCAAA
57159877 TTGGATAGCATATATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATTTATACAC
1 TTGGA-AGCATATATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATTTATACAC
57159942 CAAATTGGACAGCATTTTATACACCAAA
65 CAAATTGGACAGCATTTTATACACCAAA
* * * *
57159970 TTGGAAGCATATATACACTAAATTGGACAGCAATTTATACACTAAATTGGACAACATTTATACAC
1 TTGGAAGCATATATACACCAAATTGGACAGC-ATATATACACCAAATTGGACAGCATTTATACAC
57160035 CAAATTGGACAGCAT
65 CAAATTGGACAGCAT
57160050 ATATATATAC
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 25 0.15
93 137 0.85
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (92 bp):
TTGGAAGCATATATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATTTATACACC
AAATTGGACAGCATTTTATACACCAAA
Found at i:57161109 original size:43 final size:43
Alignment explanation
Indices: 57161062--57161143 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
57161052 ATCACATAAC
* *
57161062 GATGCCACTGTCCCAAACAGGGTCTTACACG-TAAACACAAGTT
1 GATGCCAATGTCCCAAACAGAGTCTTACACGAT-AACACAAGTT
* * *
57161105 GATGCCAATGTCGCAGACATAGTCTTACACGATAACACA
1 GATGCCAATGTCCCAAACAGAGTCTTACACGATAACACA
57161144 TAACGGAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 32 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (43 bp):
GATGCCAATGTCCCAAACAGAGTCTTACACGATAACACAAGTT
Found at i:57162257 original size:13 final size:13
Alignment explanation
Indices: 57162239--57162263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57162229 ACAAACAATA
57162239 AAATTTTCACACG
1 AAATTTTCACACG
57162252 AAATTTTCACAC
1 AAATTTTCACAC
57162264 ATATTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:57162543 original size:38 final size:38
Alignment explanation
Indices: 57162439--57162546 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
57162429 TCTACTGTCG
** * * *
57162439 CTATTAAATTGAATACATGTTAAACATGCCTACTATTA
1 CTATTAAACCGAATACATGTTAAGCATGTCTACTACTA
* *
57162477 CTATTAAACCTAATATATGTTAAGCATGTCTACTACTA
1 CTATTAAACCGAATACATGTTAAGCATGTCTACTACTA
* * *
57162515 TTGTTGAACCGAATACATGTTAAGCATGTCTA
1 CTATTAAACCGAATACATGTTAAGCATGTCTA
57162547 TTGTTCTTGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (38 bp):
CTATTAAACCGAATACATGTTAAGCATGTCTACTACTA
Found at i:57162796 original size:87 final size:87
Alignment explanation
Indices: 57162641--57162834 Score: 223
Period size: 87 Copynumber: 2.2 Consensus size: 87
57162631 AATAATCAGC
* * *
57162641 AACACTGGTGGTTTATCCACGAATTTACTAGCAGCTTTTATCTAAAATTATGTTGTGCACTCACA
1 AACACTGGTGGTTCATCCACGAATTTACTAGCAACTTTTATCTAAAATTACGTTGTGCACTCACA
57162706 ACCTACTGACAGTTTATCTACA
66 ACCTACTGACAGTTTATCTACA
** * *
57162728 AACACTGGTGGTTCATCTGC-AATCTTACT-GACAACTTTTATCTGCAAA-TACGTTGTGCATTC
1 AACACTGGTGGTTCATCCACGAAT-TTACTAG-CAACTTTTATCT-AAAATTACGTTGTGCACTC
* ** *
57162790 ATAACCTACTGGTAGTTTATCTGCA
63 ACAACCTACTGACAGTTTATCTACA
* *
57162815 GACACTGGTGGTTCAACCAC
1 AACACTGGTGGTTCATCCAC
57162835 AAACTGGAGT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 4 0.04
87 82 0.92
88 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (87 bp):
AACACTGGTGGTTCATCCACGAATTTACTAGCAACTTTTATCTAAAATTACGTTGTGCACTCACA
ACCTACTGACAGTTTATCTACA
Found at i:57169346 original size:6 final size:6
Alignment explanation
Indices: 57169335--57169366 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
57169325 ATTCTTTAAA
57169335 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA
57169367 TTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:57171420 original size:11 final size:12
Alignment explanation
Indices: 57171391--57171420 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57171381 ACAGGGGGGC
57171391 TCTCTTTTTTTT
1 TCTCTTTTTTTT
57171403 TCTCTTTTTTTT
1 TCTCTTTTTTTT
57171415 TC-CTTT
1 TCTCTTT
57171421 CTCGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TCTCTTTTTTTT
Found at i:57181083 original size:46 final size:44
Alignment explanation
Indices: 57181016--57181340 Score: 178
Period size: 46 Copynumber: 7.5 Consensus size: 44
57181006 ATTATACAGG
*
57181016 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
57181062 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * * *
57181106 TCCTATCTCCTTGAGATTACAATAGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
57181145 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* * *
57181186 TTTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * * *
57181232 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
* * * * **
57181275 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGATTCA-GA
* *
57181319 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
57181341 CAGAGTAGAT
Statistics
Matches: 216, Mismatches: 43, Indels: 42
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.11
40 1 0.00
41 27 0.12
42 7 0.03
43 32 0.15
44 52 0.24
45 2 0.01
46 69 0.32
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:57183108 original size:2 final size:2
Alignment explanation
Indices: 57183101--57183127 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57183091 TCCCAATTCT
57183101 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
57183128 CTATTTACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57183193 original size:16 final size:16
Alignment explanation
Indices: 57183174--57183223 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
57183164 TTATTTTAAC
57183174 CTTAATATATTATGTA
1 CTTAATATATTATGTA
* *
57183190 CTTATTATGTTA---A
1 CTTAATATATTATGTA
57183203 CCTTAATATATTATGTA
1 -CTTAATATATTATGTA
57183220 CTTA
1 CTTA
57183224 TTATGTTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (16 bp):
CTTAATATATTATGTA
Found at i:57183205 original size:30 final size:30
Alignment explanation
Indices: 57183164--57183230 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
57183154 CATCATATGT
*
57183164 TTATTTTAACCTTAATATATTATGTACTTA
1 TTATGTTAACCTTAATATATTATGTACTTA
57183194 TTATGTTAACCTTAATATATTATGTACTTA
1 TTATGTTAACCTTAATATATTATGTACTTA
57183224 TTATGTT
1 TTATGTT
57183231 CCTGTCTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (30 bp):
TTATGTTAACCTTAATATATTATGTACTTA
Found at i:57193103 original size:43 final size:40
Alignment explanation
Indices: 57193045--57193143 Score: 128
Period size: 43 Copynumber: 2.4 Consensus size: 40
57193035 CGAACATAAT
*
57193045 TAATAACACATAATAACGATGAATGAGACAACAATAAATAAC-A
1 TAATAACA-ATAATAACGATAAAT-A-A-AACAATAAATAACAA
57193088 TAATAACAATAAATAACGATAAATAAAACAATAAATAACAA
1 TAATAACAAT-AATAACGATAAATAAAACAATAAATAACAA
*
57193129 TAATAACAACAATAA
1 TAATAACAATAATAA
57193144 ATAACAACGA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
40 18 0.35
41 11 0.21
42 3 0.06
43 20 0.38
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (40 bp):
TAATAACAATAATAACGATAAATAAAACAATAAATAACAA
Found at i:57193117 original size:22 final size:21
Alignment explanation
Indices: 57193037--57193169 Score: 107
Period size: 22 Copynumber: 6.1 Consensus size: 21
57193027 TAAACTATCG
*
57193037 AACATAATTAATAACACAT-AAT
1 AACATAA-TAACAACA-ATAAAT
57193059 AACGATGAATGAGACAACAATAAAT
1 AAC-AT-AAT-A-ACAACAATAAAT
57193084 AACATAAT---AACAATAAAT
1 AACATAATAACAACAATAAAT
57193102 AACGATAAATAA-AACAATAAAT
1 AAC-AT-AATAACAACAATAAAT
57193124 AACAATAATAACAACAATAAAT
1 AAC-ATAATAACAACAATAAAT
*
57193146 AACA-ACGATAATAACAATAAAT
1 AACATA--ATAACAACAATAAAT
57193168 AA
1 AA
57193170 TACAACGCAT
Statistics
Matches: 96, Mismatches: 3, Indels: 24
0.78 0.02 0.20
Matches are distributed among these distances:
18 13 0.14
19 2 0.02
20 4 0.04
21 6 0.06
22 47 0.49
23 6 0.06
24 7 0.07
25 11 0.11
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.20
Consensus pattern (21 bp):
AACATAATAACAACAATAAAT
Found at i:57193156 original size:25 final size:24
Alignment explanation
Indices: 57193087--57193184 Score: 91
Period size: 22 Copynumber: 4.2 Consensus size: 24
57193077 AATAAATAAC
*
57193087 ATAATAACAATAAAT--AACGATAA
1 ATAACAACAATAAATACAACGAT-A
*
57193110 ATAA-AACAATAAAT--AACAATA
1 ATAACAACAATAAATACAACGATA
57193131 ATAACAACAATAAATAACAACGATA
1 ATAACAACAATAAAT-ACAACGATA
*
57193156 ATAACAATAA-ATAATACAACGCATA
1 ATAACAACAATA-AATACAACG-ATA
57193181 ATAA
1 ATAA
57193185 GACAATATTA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
21 5 0.08
22 25 0.38
23 4 0.06
24 7 0.11
25 25 0.38
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.19
Consensus pattern (24 bp):
ATAACAACAATAAATACAACGATA
Found at i:57193308 original size:16 final size:16
Alignment explanation
Indices: 57193289--57193321 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57193279 AAAATGGGTG
57193289 ATAATAATAAC-AACAA
1 ATAATAA-AACAAACAA
57193305 ATAATAAAACAAACAA
1 ATAATAAAACAAACAA
57193321 A
1 A
57193322 CCGAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
ATAATAAAACAAACAA
Found at i:57194462 original size:22 final size:24
Alignment explanation
Indices: 57194436--57194479 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57194426 GAAAATTATT
57194436 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
57194458 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
57194480 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:57194622 original size:68 final size:67
Alignment explanation
Indices: 57194543--57194743 Score: 287
Period size: 59 Copynumber: 3.1 Consensus size: 67
57194533 TCAAGTTTGT
*
57194543 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAAATAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAC-AATAATAATTTGAT
57194608 AAA
65 AAA
*
57194611 TTTACTAATCAAATGCTAGATTTTATTACAACAATTAATAC----AAT----TAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
57194668 AA
66 AA
57194670 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAA-TAATAATTTGAT
*
57194733 AAT
65 AAA
57194736 TTTACTAA
1 TTTACTAA
57194744 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
62 1 0.01
64 3 0.03
66 22 0.18
68 39 0.32
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
AA
Found at i:57194753 original size:16 final size:16
Alignment explanation
Indices: 57194732--57194773 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
57194722 AATAATTTGA
*
57194732 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
57194748 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
57194764 TAGTTTTAAT
1 TAATTTTAAT
57194774 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:57194757 original size:22 final size:23
Alignment explanation
Indices: 57194747--57194802 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
57194737 TTACTAACAA
* * *
57194747 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
57194769 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
57194792 TTAATTTTAAT
1 TTAATTTTAAT
57194803 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:57196928 original size:15 final size:15
Alignment explanation
Indices: 57196908--57196957 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
57196898 TTTATTTAAT
57196908 ATATATAATAATATA
1 ATATATAATAATATA
* *
57196923 ATATATTATATTATA
1 ATATATAATAATATA
* *
57196938 TTATATAATAAAATA
1 ATATATAATAATATA
57196953 ATATA
1 ATATA
57196958 CATAACATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATAATAATATA
Found at i:57197458 original size:23 final size:22
Alignment explanation
Indices: 57197429--57197471 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
57197419 TAATTCACAT
*
57197429 ACATATATATTTTTCTTATATGA
1 ACATATATATCTTT-TTATATGA
57197452 ACATATATATCTTTTTATAT
1 ACATATATATCTTTTTATAT
57197472 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
ACATATATATCTTTTTATATGA
Found at i:57202569 original size:9 final size:9
Alignment explanation
Indices: 57202555--57202580 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
57202545 TTTATTTTAA
57202555 AAAAAAATT
1 AAAAAAATT
57202564 AAAAAAATT
1 AAAAAAATT
57202573 AAAAAAAT
1 AAAAAAAT
57202581 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:57205734 original size:46 final size:46
Alignment explanation
Indices: 57205633--57206004 Score: 457
Period size: 46 Copynumber: 8.6 Consensus size: 46
57205623 TACATATGAT
*
57205633 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
57205676 CACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
57205722 CACTTATTACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
57205768 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57205804 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
57205850 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57205886 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
57205932 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAACTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
57205978 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
57206005 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 16, Indels: 43
0.83 0.05 0.12
Matches are distributed among these distances:
36 57 0.20
38 5 0.02
39 1 0.00
40 4 0.01
41 4 0.01
42 4 0.01
43 11 0.04
44 10 0.03
45 19 0.07
46 175 0.60
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:57205809 original size:36 final size:36
Alignment explanation
Indices: 57205768--57205922 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
57205758 CTAAGGCTAA
57205768 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
57205804 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
57205846 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
57205886 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
57205922 C
1 C
57205923 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:57205871 original size:128 final size:123
Alignment explanation
Indices: 57205768--57206004 Score: 340
Period size: 128 Copynumber: 1.9 Consensus size: 123
57205758 CTAAGGCTAA
*
57205768 CACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
* *
57205828 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
*
57205886 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACT
* *
57205951 TGATCAGATAAGTGTAACTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
57206005 AGTACTCAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
118 29 0.28
120 3 0.03
122 1 0.01
123 1 0.01
124 1 0.01
128 68 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (123 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:57205964 original size:82 final size:82
Alignment explanation
Indices: 57205722--57205966 Score: 418
Period size: 82 Copynumber: 3.0 Consensus size: 82
57205712 CTAAGGCTAC
* * * *
57205722 CACTTATTACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
57205787 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
57205804 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
57205869 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
57205886 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
57205951 TGATCAGATAAGTGTA
66 TGATCAGATAAGTGTA
57205967 ACTAATGCTA
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 154 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:57207675 original size:21 final size:21
Alignment explanation
Indices: 57207651--57207692 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57207641 CTTTTTGTTC
*
57207651 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
57207672 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
57207693 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:57208792 original size:106 final size:107
Alignment explanation
Indices: 57208675--57208969 Score: 340
Period size: 108 Copynumber: 2.7 Consensus size: 107
57208665 TATTTAGTTG
* * *
57208675 AACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACGCAAAACATTGC
1 AACGAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAACACAAAACATTGC
* **
57208740 CTCATTTTAAAATTTCGAAAGGATATTCGACTA-TTTGGCCA
66 CTTATTTTAAAATTTAAAAAGGATATTCGACTATTTTGGCCA
* * * * * ** *
57208781 AACGAGTAATCGAAACCCAACACGTTAGGGCACATTTTCTCGAATTTCCAAACTCGAAATACGGT
1 AACGAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAACACAAAACATTGC
* * * * * *
57208846 CTTATTTTGAAAGTTTAAAAAGGGTATTTGGCTATTTTGGTCG
66 CTTATTTT-AAAATTTAAAAAGGATATTCGACTATTTTGGCCA
* * * *
57208889 AACAAGAAATCGAAACCCAGTACGTTAGGGTACATTTTCTCGATTTTCCAAACACAAAACATTGC
1 AACGAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAACACAAAACATTGC
*
57208954 CTTATTTAGAAAATTT
66 CTTATTT-TAAAATTT
57208970 TCTTTTTGAT
Statistics
Matches: 153, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
106 62 0.41
107 19 0.12
108 72 0.47
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (107 bp):
AACGAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAACACAAAACATTGC
CTTATTTTAAAATTTAAAAAGGATATTCGACTATTTTGGCCA
Found at i:57208924 original size:108 final size:106
Alignment explanation
Indices: 57208641--57208949 Score: 350
Period size: 106 Copynumber: 2.9 Consensus size: 106
57208631 ACGACATGGA
* * *
57208641 TTAAAATTT-AAGAGGATATTTGGCTATTTAGTTGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * **
57208705 CACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCATT
66 CACATTTTCTCGAATTTCCAAACGCAAAACACGGCCTCATT
** * * * * * *
57208746 TTAAAATTTCGAAAGGATATTCGACTATTTGGCCAAACGAGTAATCGAAACCCAACACGTTAGGG
1 TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * * * *
57208811 CACATTTTCTCGAATTTCCAAACTCGAAATACGGTCTTATT
66 CACATTTTCTCGAATTTCCAAACGCAAAACACGGCCTCATT
* * * *
57208852 TTGAAAGTTTAAAAAGGGTATTTGGCTATTTTGGTCGAACAAGAAATCGAAACCCAGTACGTTAG
1 TT-AAAATTTAAAAAGGATATTTGGCTA-TTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAG
* * *
57208917 GGTACATTTTCTCGATTTTCCAAACACAAAACA
64 GGCACATTTTCTCGAATTTCCAAACGCAAAACA
57208950 TTGCCTTATT
Statistics
Matches: 165, Mismatches: 36, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
105 9 0.05
106 79 0.48
107 19 0.12
108 58 0.35
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (106 bp):
TTAAAATTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
CACATTTTCTCGAATTTCCAAACGCAAAACACGGCCTCATT
Found at i:57209528 original size:18 final size:21
Alignment explanation
Indices: 57209489--57209532 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57209479 ACATGTATAA
57209489 GTATGTGTATTAATTAAAAAT
1 GTATGTGTATTAATTAAAAAT
57209510 GTATGTGTATT-A-T-AAAAT
1 GTATGTGTATTAATTAAAAAT
57209528 GTATG
1 GTATG
57209533 CATGTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
19 1 0.04
20 1 0.04
21 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (21 bp):
GTATGTGTATTAATTAAAAAT
Found at i:57211844 original size:9 final size:9
Alignment explanation
Indices: 57211795--57211855 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
57211785 TGAAAATCAT
57211795 AAAATATGA
1 AAAATATGA
57211804 AAAA-ATTGTA
1 AAAATA-TG-A
*
57211814 GAAATATGA
1 AAAATATGA
57211823 AAAATTATAGA
1 AAAA-TAT-GA
*
57211834 AATATATGA
1 AAAATATGA
*
57211843 AAAATATTA
1 AAAATATGA
57211852 AAAA
1 AAAA
57211856 ATTTAGATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 1 0.02
9 23 0.55
10 12 0.29
11 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (9 bp):
AAAATATGA
Found at i:57211845 original size:19 final size:19
Alignment explanation
Indices: 57211784--57211845 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
57211774 CATTTTTTCA
*
57211784 ATGAAAATCATA-AAATAT
1 ATGAAAATTATAGAAATAT
* *
57211802 GA-AAAAATTGTAG-AA-AT
1 -ATGAAAATTATAGAAATAT
57211819 ATGAAAAATTATAGAAATAT
1 ATG-AAAATTATAGAAATAT
57211839 ATGAAAA
1 ATGAAAA
57211846 ATATTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 1 0.03
17 2 0.06
18 18 0.55
19 7 0.21
20 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (19 bp):
ATGAAAATTATAGAAATAT
Found at i:57211847 original size:20 final size:18
Alignment explanation
Indices: 57211787--57211838 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
57211777 TTTTTCAATG
*
57211787 AAAATCATA-AAATATGAA
1 AAAATTATAGAAATATG-A
*
57211805 AAAATTGTAGAAATATGA
1 AAAATTATAGAAATATGA
57211823 AAAATTATAGAAATAT
1 AAAATTATAGAAATAT
57211839 ATGAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.27
Consensus pattern (18 bp):
AAAATTATAGAAATATGA
Found at i:57211883 original size:9 final size:9
Alignment explanation
Indices: 57211804--57211922 Score: 55
Period size: 9 Copynumber: 12.6 Consensus size: 9
57211794 TAAAATATGA
*
57211804 AAAAATTGT
1 AAAAATTAT
*
57211813 AGAAA-TAT
1 AAAAATTAT
57211821 GAAAAATTAT
1 -AAAAATTAT
*
57211831 AGAAATATAT
1 AAAAAT-TAT
57211841 GAAAAA-TATT
1 -AAAAATTA-T
57211851 AAAAAATT-T
1 -AAAAATTAT
*
57211860 AGATAAACCTAT
1 A-A-AAA-TTAT
57211872 AAAAATTAT
1 AAAAATTAT
*
57211881 AAAAAATAT
1 AAAAATTAT
* *
57211890 AAAAGCTAAT
1 AAAA-ATTAT
*
57211900 AAAACTTAT
1 AAAAATTAT
*
57211909 AAATATTAT
1 AAAAATTAT
57211918 AAAAA
1 AAAAA
57211923 CATATAAAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
8 3 0.04
9 47 0.57
10 24 0.29
11 7 0.08
12 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:57211929 original size:28 final size:27
Alignment explanation
Indices: 57211842--57211931 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
57211832 GAAATATATG
*
57211842 AAAAA-TATTAAAAAATTTAGATAAACCTAT
1 AAAAATTA-TAAAAAATATA-A-AAA-CTAT
*
57211872 AAAAATTATAAAAAATATAAAAGCTAAT
1 AAAAATTATAAAAAATATAAAAACT-AT
* * *
57211900 AAAACTTATAAATATTATAAAAACATAT
1 AAAAATTATAAAAAATATAAAAAC-TAT
57211928 AAAA
1 AAAA
57211932 TCCTAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 2 0.04
28 30 0.59
29 2 0.04
30 15 0.29
31 2 0.04
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATTATAAAAAATATAAAAACTAT
Found at i:57211940 original size:19 final size:18
Alignment explanation
Indices: 57211881--57211941 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
57211871 TAAAAATTAT
*
57211881 AAAAA-ATATAAAAGCTA
1 AAAAACATATAAAATCTA
*
57211898 ATAAAACTTATAAATAT-TA
1 A-AAAACATATAAA-ATCTA
57211917 TAAAAACATATAAAATCCTA
1 -AAAAACATATAAAAT-CTA
57211937 AAAAA
1 AAAAA
57211942 TAACAGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.03
18 6 0.17
19 24 0.69
20 4 0.11
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAACATATAAAATCTA
Found at i:57218101 original size:17 final size:17
Alignment explanation
Indices: 57218081--57218136 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
57218071 CTCGCATGTT
57218081 TTTTTATATATTATTTA
1 TTTTTATATATTATTTA
* * * *
57218098 TTTTTTTAAATAATTCA
1 TTTTTATATATTATTTA
*
57218115 TTTTTATTTATT-TTTA
1 TTTTTATATATTATTTA
57218131 GTTTTT
1 -TTTTT
57218137 TTAATTTCTG
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTATATATTATTTA
Found at i:57221434 original size:26 final size:24
Alignment explanation
Indices: 57221391--57221441 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
57221381 ATTTTATATT
57221391 TATATATTTTATAATTAAATTTAA
1 TATATATTTTATAATTAAATTTAA
*
57221415 TATATATTTTTATTATTTAAATTTAA
1 TATATA-TTTTA-TAATTAAATTTAA
57221441 T
1 T
57221442 TTTGGTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 5 0.21
26 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATATTTTATAATTAAATTTAA
Found at i:57227064 original size:384 final size:385
Alignment explanation
Indices: 57226323--57227087 Score: 1507
Period size: 384 Copynumber: 2.0 Consensus size: 385
57226313 GAAAAACATG
57226323 TTTTAGGGATTAAAATTGAAAAGTATTGAAATTGTGGAAAAATTCTGAAATTTCATGGAATCCAT
1 TTTTAGGGATTAAAATTGAAAAGTATTGAAATTGTGGAAAAATTCTGAAATTTCATGGAATCCAT
57226388 GGGCTGTTATTGATATTTATGAGAATTATTAGGCTTGAATCAAGGATTATATTGCAATAATTTCA
66 GGGCTGTTATTGATATTTATGAGAATTATTAGGCTTGAATCAAGGATTATATTGCAATAATTTCA
57226453 TTTTCCGAGCCTAGGGATGAATTTGTCATGTATTAAAAGTTTAGGGTCAAATTGGTAATCAACAT
131 TTTTCCGAGCCTAGGGATGAATTTGTCATGTATTAAAAGTTTAGGGTCAAATTGGTAATCAACAT
57226518 TTTATACTAAAACAGTTTTGGGCAGCAGCAGTGGTCTAACTTTGAAAATTCACCAAAAATTTGGG
196 TTTATACTAAAACAGTTTTGGGCAGCAGCAGTGGTCTAACTTTGAAAATTCACCAAAAATTTGGG
57226583 AATTGAATTAGAAGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCTCATAAAAGA
261 AATTGAATTAGAAGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCTCATAAAAGA
57226648 AATGGTGTAAGCAATAGAATTGTAAATCATGAGATATAATAAATTTTGTGAGGCAAATGA
326 AATGGTGTAAGCAATAGAATTGTAAATCATGAGATATAATAAATTTTGTGAGGCAAATGA
57226708 TTTTAGGGATTAAAATTGAAAAGTATTGAAA-TGTGGAAAAATTCTGAAATTTCATGGAATCCAT
1 TTTTAGGGATTAAAATTGAAAAGTATTGAAATTGTGGAAAAATTCTGAAATTTCATGGAATCCAT
57226772 GGGCTGTTATTGATA-TTATGAGAATTATTAGGCTTGAATCAAGGATTATATTGCAATAATTTCA
66 GGGCTGTTATTGATATTTATGAGAATTATTAGGCTTGAATCAAGGATTATATTGCAATAATTTCA
57226836 TTTTCCGAGCCTAGGGATGAATTTGTCATGTATTAAAAGTTTAGGGTCAAATTGGTAATCAACAT
131 TTTTCCGAGCCTAGGGATGAATTTGTCATGTATTAAAAGTTTAGGGTCAAATTGGTAATCAACAT
57226901 TTTATACTAAAACAGTTTTGGGCAGCAGCAGTGGTCTAACTTTGAAAATTCACCAAAAATTTTGG
196 TTTATACTAAAACAGTTTTGGGCAGCAGCAGTGGTCTAACTTTGAAAATTCACCAAAAA-TTTGG
57226966 GAATTGAATTAGAAGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCTCATAAAAG
260 GAATTGAATTAGAAGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCTCATAAAAG
57227031 AAATGGTGTAAGCAATAGAATTGTAAATCATGAGATATAATAAATTTTGTGAGGCAA
325 AAATGGTGTAAGCAATAGAATTGTAAATCATGAGATATAATAAATTTTGTGAGGCAA
57227088 TGTCAGAATG
Statistics
Matches: 379, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
383 173 0.46
384 175 0.46
385 31 0.08
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (385 bp):
TTTTAGGGATTAAAATTGAAAAGTATTGAAATTGTGGAAAAATTCTGAAATTTCATGGAATCCAT
GGGCTGTTATTGATATTTATGAGAATTATTAGGCTTGAATCAAGGATTATATTGCAATAATTTCA
TTTTCCGAGCCTAGGGATGAATTTGTCATGTATTAAAAGTTTAGGGTCAAATTGGTAATCAACAT
TTTATACTAAAACAGTTTTGGGCAGCAGCAGTGGTCTAACTTTGAAAATTCACCAAAAATTTGGG
AATTGAATTAGAAGATGAATAAAATATGAAATTAAAGCTTATTGAGTCTAGTTTCTCATAAAAGA
AATGGTGTAAGCAATAGAATTGTAAATCATGAGATATAATAAATTTTGTGAGGCAAATGA
Found at i:57228301 original size:51 final size:51
Alignment explanation
Indices: 57228220--57228383 Score: 247
Period size: 51 Copynumber: 3.2 Consensus size: 51
57228210 ACTTCTGATC
* * * *
57228220 AGTGACAAGTGATAAATGGTAACTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
57228271 AATGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTAACA
1 AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
57228322 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAGTGACA
1 AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
*
57228373 AGTGACAAGTG
1 AGTGGCAAGTG
57228384 GTAGCTTTAG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (51 bp):
AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:57228332 original size:44 final size:44
Alignment explanation
Indices: 57228276--57228429 Score: 173
Period size: 44 Copynumber: 3.3 Consensus size: 44
57228266 TGACAAATGG
* *
57228276 CAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTAACAAGTGG
1 CAAGTGACAAGTGATAGCTTTAGCTACACTTATCT-A--A-T--C-AGTGA
* *
57228327 CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAGTGA
1 CAAGTGACAAGTGATAGCTTTAGCTACACTTATCTAATCAGTGA
* * *
57228371 CAAGTGACAAGTGGTAGCTTTAGCTGCACTTATCTAATCAGGGA
1 CAAGTGACAAGTGATAGCTTTAGCTACACTTATCTAATCAGTGA
*
57228415 CAAGTGATAAGTGAT
1 CAAGTGACAAGTGAT
57228430 CATACGCAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
44 56 0.60
45 1 0.01
47 1 0.01
48 1 0.01
50 1 0.01
51 34 0.36
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (44 bp):
CAAGTGACAAGTGATAGCTTTAGCTACACTTATCTAATCAGTGA
Found at i:57231119 original size:46 final size:46
Alignment explanation
Indices: 57231053--57231279 Score: 388
Period size: 46 Copynumber: 5.0 Consensus size: 46
57231043 TTTGAGTACT
*
57231053 TCTGATC-AGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57231098 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57231144 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
57231190 TTTGATC-AGGGAC-AAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
57231234 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57231280 AAGCTACCAC
Statistics
Matches: 171, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
44 36 0.21
45 17 0.10
46 118 0.69
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:57231247 original size:90 final size:92
Alignment explanation
Indices: 57231053--57231279 Score: 388
Period size: 90 Copynumber: 2.5 Consensus size: 92
57231043 TTTGAGTACT
* *
57231053 TCTGATC-AGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGGGACAAAGT
57231117 GATAAGTGGTAGCTTTAGCTACACTTA
66 GATAAGTGGTAGCTTTAGCTACACTTA
*
57231144 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATC-AGGGAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGGGACAAAGT
*
57231207 GATAAGTGGTAGTTTTAGCTACACTTA
66 GATAAGTGGTAGCTTTAGCTACACTTA
*
57231234 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
57231280 AAGCTACCAC
Statistics
Matches: 130, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
90 75 0.58
91 12 0.09
92 43 0.33
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (92 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGGGACAAAGT
GATAAGTGGTAGCTTTAGCTACACTTA
Found at i:57231385 original size:46 final size:44
Alignment explanation
Indices: 57231318--57231424 Score: 171
Period size: 46 Copynumber: 2.4 Consensus size: 44
57231308 GTGATAAGAG
57231318 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAA
1 GTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTAATC-A
*
57231364 GTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
1 GTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTAATCA
*
57231408 GGGAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
57231425 ATCATACGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 12 0.20
44 5 0.08
45 19 0.32
46 23 0.39
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (44 bp):
GTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTAATCA
Found at i:57232049 original size:160 final size:152
Alignment explanation
Indices: 57231872--57232184 Score: 464
Period size: 152 Copynumber: 2.0 Consensus size: 152
57231862 TTTTGAGGAT
* *
57231872 ATATTGTGAAAAGTTATAGAAGCATGCTAATGATTTTGAAAGCTTTTTTTTTTCAATTTAGATGA
1 ATATTGTGAAAAGTTATAAAAGCATGCTAATAATTTTGAAAG-------TTTT-AATTTAGATGA
*
57231937 AATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTCTGGTAATGCCTCGTACCCTATT
58 AATTTTATAACTCGGTTAAATACGTTTACAAGTGTATGTGTTCTGGTAATACCTCGTACCCTATT
*
57232002 CCGGTGTTGGATACGGGTAAGGGGTGTTAC
123 CCGGTGTTGGATACGAGTAAGGGGTGTTAC
* * *
57232032 ATATTGTGAAGAGTTATAAAAGCATGTTAATAATTTTGAAAGTTTTAATTTAGATGTAATTTTAT
1 ATATTGTGAAAAGTTATAAAAGCATGCTAATAATTTTGAAAGTTTTAATTTAGATGAAATTTTAT
* *
57232097 AACTCGGTTAAATACGTTTACAAGTGTATGTGTTCTGGTAATATCTCGTACCCTATTTCGGTGTT
66 AACTCGGTTAAATACGTTTACAAGTGTATGTGTTCTGGTAATACCTCGTACCCTATTCCGGTGTT
*
57232162 GGATACGAGTAAGGTGTGTTAC
131 GGATACGAGTAAGGGGTGTTAC
57232184 A
1 A
57232185 GAGCTAAGGT
Statistics
Matches: 143, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
152 101 0.71
153 4 0.03
160 38 0.27
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (152 bp):
ATATTGTGAAAAGTTATAAAAGCATGCTAATAATTTTGAAAGTTTTAATTTAGATGAAATTTTAT
AACTCGGTTAAATACGTTTACAAGTGTATGTGTTCTGGTAATACCTCGTACCCTATTCCGGTGTT
GGATACGAGTAAGGGGTGTTAC
Found at i:57236076 original size:31 final size:32
Alignment explanation
Indices: 57236013--57236076 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
57236003 TTTCCCGAGC
* *
57236013 TGGGCCCGAGCCTAAGAGTCGGGCCCATATTT
1 TGGGCCCGAGCCTAAGAGTCGGGCCAAAATTT
*
57236045 TGGG-CCGGGCCTAAGAGTCGGGCCAAAATTT
1 TGGGCCCGAGCCTAAGAGTCGGGCCAAAATTT
57236076 T
1 T
57236077 TTTCCGGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (32 bp):
TGGGCCCGAGCCTAAGAGTCGGGCCAAAATTT
Found at i:57237731 original size:13 final size:13
Alignment explanation
Indices: 57237713--57237744 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
57237703 CTTATTTTCC
57237713 TTCTCTACACAAT
1 TTCTCTACACAAT
57237726 TTCTCTACACAAT
1 TTCTCTACACAAT
57237739 TTCTCT
1 TTCTCT
57237745 TATTTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (13 bp):
TTCTCTACACAAT
Found at i:57239604 original size:30 final size:30
Alignment explanation
Indices: 57239563--57239702 Score: 106
Period size: 30 Copynumber: 4.7 Consensus size: 30
57239553 CAAATTTTGC
* *
57239563 ATTTT-TT-AAATTACATTTTGA-CATCTGA
1 ATTTTCTTAAAATTACATTTTGACCCT-TAA
*
57239591 ATTTTCTTAAAATTATATTTTGACCCTTAA
1 ATTTTCTTAAAATTACATTTTGACCCTTAA
* * * * *
57239621 ACTTTCCTAAAATTACATTTTAAACCATAA
1 ATTTTCTTAAAATTACATTTTGACCCTTAA
* * * * *
57239651 AATTTCATGAAATTATATTTTTACCCTTAA
1 ATTTTCTTAAAATTACATTTTGACCCTTAA
* * *
57239681 ATTTTCCTATAATTACACTTTG
1 ATTTTCTTAAAATTACATTTTG
57239703 GCCCCAAGAA
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
28 5 0.06
29 2 0.02
30 77 0.90
31 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (30 bp):
ATTTTCTTAAAATTACATTTTGACCCTTAA
Found at i:57240081 original size:16 final size:15
Alignment explanation
Indices: 57240057--57240117 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 15
57240047 CTAGGGTTTG
*
57240057 AGAAAAAAAGAAAGGA
1 AGAAGAAAAGAAA-GA
*
57240073 AGAAGAAAAGGGAAGA
1 AGAAGAAAA-GAAAGA
57240089 AGAAGAAAA-AAAGA
1 AGAAGAAAAGAAAGA
*
57240103 A-AAGAAAAAAAAGA
1 AGAAGAAAAGAAAGA
57240117 A
1 A
57240118 AAAAAATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.17
14 11 0.28
16 19 0.47
17 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAGAAAGA
Found at i:57240108 original size:19 final size:18
Alignment explanation
Indices: 57240057--57240104 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
57240047 CTAGGGTTTG
57240057 AGAAAAAAAGAAAG--GA
1 AGAAAAAAAGAAAGAAGA
* *
57240073 AGAAGAAAAGGGAAGAAGA
1 AGAA-AAAAAGAAAGAAGA
57240092 AGAAAAAAAGAAA
1 AGAAAAAAAGAAA
57240105 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.16
17 8 0.32
18 7 0.28
19 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAGAAAGAAGA
Done.