Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 8 of 12
Found at i:1143764 original size:61 final size:61
Alignment explanation
Indices: 1143699--1143844 Score: 276
Period size: 61 Copynumber: 2.4 Consensus size: 61
1143689 TTTTTTGATA
1143699 TGAATTA-CTTGATTAAGGGGGAGATTTGTTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1 TGAATTACCTT-ATTAAGGGGGAGATTTGTTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1143760 TGAATTACCTTATTAAGGGGGAGATTTGTTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1 TGAATTACCTTATTAAGGGGGAGATTTGTTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1143821 TGAATTACCTTATTAAGGGGGAGA
1 TGAATTACCTTATTAAGGGGGAGA
1143845 ATGTACAAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
61 81 0.96
62 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (61 bp):
TGAATTACCTTATTAAGGGGGAGATTTGTTAATAAACGGGGGAGATAAAGGAGAGAATGCG
Found at i:1144434 original size:20 final size:20
Alignment explanation
Indices: 1144411--1144483 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1144401 ACAATTCAAA
1144411 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
1144431 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
1144452 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1144472 GTATCGATACAT
1 GTATCGATACAT
1144484 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1144455 original size:21 final size:21
Alignment explanation
Indices: 1144429--1144504 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1144419 ACATGTTGCA
1144429 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
1144450 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
1144468 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
1144491 ATGTATCGATACAT
1 ATGTATCGATACAT
1144505 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:1144462 original size:41 final size:41
Alignment explanation
Indices: 1144411--1144504 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1144401 ACAATTCAAA
* *
1144411 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1144452 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1144493 GTATCGATACAT
1 GTATCGATACAT
1144505 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1144561 original size:13 final size:13
Alignment explanation
Indices: 1144543--1144568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1144533 TACAGCAAGT
1144543 ATGTATCGATACA
1 ATGTATCGATACA
1144556 ATGTATCGATACA
1 ATGTATCGATACA
1144569 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1149798 original size:13 final size:13
Alignment explanation
Indices: 1149780--1149805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1149770 TACACAAAAT
1149780 ATGTATCGATACA
1 ATGTATCGATACA
1149793 ATGTATCGATACA
1 ATGTATCGATACA
1149806 CAAAAAATTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1149803 original size:32 final size:33
Alignment explanation
Indices: 1149762--1149825 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1149752 TAGCCAAACT
* *
1149762 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTATATCGATACAA
1149794 TGTATCGATACACAAAAAATTATATCGATACA
1 TGTATCGATACACAAAAAATTATATCGATACA
1149826 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTATATCGATACAA
Found at i:1150977 original size:79 final size:80
Alignment explanation
Indices: 1150817--1150987 Score: 236
Period size: 79 Copynumber: 2.1 Consensus size: 80
1150807 CAGGGCTGGT
* *** * *
1150817 GTATCCCCGATTATGGAAAATCGGTGTTCTGGAAATAAAATCAGGGGGTGGAGTATCCCCTCGGA
1 GTATCCCCGATTATAGAAAATCGACATTCTGAAAATAAAATCAGGGGGTGGAGTATCCCCTCGAA
1150882 AATAACAAGGTTGGA
66 AATAACAAGGTTGGA
* * *
1150897 GTATCCCTGATTATAGAAAATCGACATTTTGAAAATAAAATC-GGGGTTGGAGTATCCCCTCGAA
1 GTATCCCCGATTATAGAAAATCGACATTCTGAAAATAAAATCAGGGGGTGGAGTATCCCCTCGAA
**
1150961 AATAACGGGGTTGGA
66 AATAACAAGGTTGGA
1150976 GTATCCCCGATT
1 GTATCCCCGATT
1150988 GTGAAAAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 44 0.56
80 35 0.44
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (80 bp):
GTATCCCCGATTATAGAAAATCGACATTCTGAAAATAAAATCAGGGGGTGGAGTATCCCCTCGAA
AATAACAAGGTTGGA
Found at i:1151012 original size:79 final size:78
Alignment explanation
Indices: 1150817--1151033 Score: 222
Period size: 79 Copynumber: 2.7 Consensus size: 78
1150807 CAGGGCTGGT
* ** * * *
1150817 GTATCCCCGATTATGGAAAATCGGTGTTCTGGAAATAAAATCAGGGGGTGGAGTATCCCCTCGGA
1 GTATCCCCGATTATGAAAAATTAGTGTT-TTGAAATAAAATC-GGGGTTGGAGTATCCCCTCGAA
1150882 AATAACAAGGTTGGA
64 AATAACAAGGTTGGA
* * **
1150897 GTATCCCTGATTAT-AGAAAA-TCGACATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 GTATCCCCGATTATGA-AAAATTAG-TGTTTTG-AAATAAAATCGGGGTTGGAGTATCCCCTCGA
**
1150960 AAATAACGGGGTTGGA
63 AAATAACAAGGTTGGA
* * * *
1150976 GTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCAGGTTTAGAGTATCCC
1 GTATCCCCGATTATGAAAAATTAGTGTTTT-GAAATAAAATCGGGGTTGGAGTATCCC
1151034 AGATTGTAAG
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
79 79 0.71
80 33 0.29
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
GTATCCCCGATTATGAAAAATTAGTGTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAA
TAACAAGGTTGGA
Found at i:1151062 original size:130 final size:130
Alignment explanation
Indices: 1150890--1151163 Score: 374
Period size: 130 Copynumber: 2.1 Consensus size: 130
1150880 GAAATAACAA
* * * * *
1150890 GGTTGGAGTATCCCTGATTATAGAAAATCGACATTTTGAAAATAAAATCGGGGTTGGAGTATCCC
1 GGTTAGAGTATCCCAGATTATAGAAAATCAACATTTTAAAAATAAAACCGGGGTTGGAGTATCCC
* *
1150955 CTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTAGAAATAAAA-TC
66 CTCGAAAATAACGGGATTGGAGTATCCCCGATTATG-AAAATTAGATGTTTTAGAAATAAAACT-
1151018 AG
129 AG
* * * *
1151020 GTTTAGAGTATCCCAGATTGTA-AGAAATCAATATTTTAAAAATAAAGCCGGGGTTGGAGTATCC
1 GGTTAGAGTATCCCAGATTATAGA-AAATCAACATTTTAAAAATAAAACCGGGGTTGGAGTATCC
* *
1151084 CCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAATTTGATGTTTTGGAAATAAAACTA
65 CCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAATTAGATGTTTTAGAAATAAAACTA
1151149 G
130 G
*
1151150 GGTTGGAGTATCCC
1 GGTTAGAGTATCCC
1151164 CGAGATGAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
129 8 0.06
130 117 0.93
131 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (130 bp):
GGTTAGAGTATCCCAGATTATAGAAAATCAACATTTTAAAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAATTAGATGTTTTAGAAATAAAACTAG
Found at i:1151080 original size:51 final size:51
Alignment explanation
Indices: 1150966--1151084 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
1150956 TCGAAAATAA
* * * * * *
1150966 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCAGATTGTGAAAAATCAATATTTTAAAAATAAAAC
* * * *
1151017 CAGGTTTAGAGTATCCCAGATTGT-AAGAAATCAATATTTTAAAAATAAAGC
1 CGGGGTTGGAGTATCCCAGATTGTGAA-AAATCAATATTTTAAAAATAAAAC
1151068 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1151085 CTCGAAAATA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 2 0.04
51 52 0.96
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCAGATTGTGAAAAATCAATATTTTAAAAATAAAAC
Found at i:1153511 original size:20 final size:20
Alignment explanation
Indices: 1153486--1153540 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1153476 GTAAACCCAG
*
1153486 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
1153506 AATGTATCAATACAATGAAC
1 AATGTATCGATACAATGAAC
1153526 AATGTATCGATACAA
1 AATGTATCGATACAA
1153541 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1154235 original size:42 final size:42
Alignment explanation
Indices: 1154152--1154506 Score: 245
Period size: 42 Copynumber: 8.2 Consensus size: 42
1154142 AGGATTAAGG
* * * ** *
1154152 AAAAGGAGAATGAAATGGGTCCTGCTCCTTGGGGACTAAGGAA
1 AAAAGGA-AATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
* * *
1154195 AAAAGGAAATAAAATGCATCCTACCCTTTGAAGACAAAGG-A
1 AAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
* * * * *
1154236 AAAAGGAAATTAAATGTGTCCTACTTTTTGAGGACAAA-GAA
1 AAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
* *
1154277 AAAAGAAGAATAAAGTGCGTCCTGCTCTTTG-AGAACTAGAAGGGAAA
1 AAAAGGA-AATAAAATGCGTCCTGCTCTTTGAAG-AC-A-AA-GG-AA
* * * *
1154324 AAGAAGGAAATGAAGTGTGTCCTGC-CGTTTGAAAACTAGAAGGGAA
1 AA-AAGGAAATAAAATGCGTCCTGCTC-TTTGAAGAC-A-AA-GGAA
* * *
1154370 AAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGAA
1 AA-AAGGAAATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
* * *
1154413 AAAAAG-AAGAAAA-GCATCCTGCTCTTTGAAGACAAAAGGGAA
1 AAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGAC-AAA-GGAA
* * * * *
1154455 AAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGGCAAAGGAG
1 AA-AAGGAAATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
1154498 AAAAGGAAA
1 AAAAGGAAA
1154507 AGGCATCTTG
Statistics
Matches: 252, Mismatches: 43, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
40 19 0.08
41 48 0.19
42 60 0.24
43 22 0.09
44 12 0.05
45 17 0.07
46 35 0.14
47 34 0.13
48 5 0.02
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (42 bp):
AAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGACAAAGGAA
Found at i:1154251 original size:41 final size:41
Alignment explanation
Indices: 1154189--1154308 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
1154179 CTTGGGGACT
1154189 AAGGAAAAAAGGAAATAAAATGCATCCTACCCTTTGAAGACA
1 AAGG-AAAAAGGAAATAAAATGCATCCTACCCTTTGAAGACA
* ** ** *
1154231 AAGGAAAAAGGAAATTAAATGTGTCCTACTTTTTGAGGACA
1 AAGGAAAAAGGAAATAAAATGCATCCTACCCTTTGAAGACA
* * * * * *
1154272 AAGAAAAAAGAAGAATAAAGTGCGTCCTGCTCTTTGA
1 AAGGAAAAAGGA-AATAAAATGCATCCTACCCTTTGA
1154309 GAACTAGAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 41 0.64
42 23 0.36
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (41 bp):
AAGGAAAAAGGAAATAAAATGCATCCTACCCTTTGAAGACA
Found at i:1154289 original size:83 final size:83
Alignment explanation
Indices: 1154148--1154308 Score: 182
Period size: 83 Copynumber: 1.9 Consensus size: 83
1154138 TTTGAGGATT
* * * *
1154148 AAGGAAAAGGAGAATGAAATGGGTCCTGCTCCTTGGGGACTAAGGAAAAAAGGAAATAAAATGCA
1 AAGGAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACTAAAGAAAAAAGAAAATAAAATGCA
1154213 TCCTACCCTTTGAAGACA
66 TCCTACCCTTTGAAGACA
* * ** *
1154231 AAGGAAAAAGGA-AATTAAATGTGTCCTACTTTTTGAGGAC-AAAGAAAAAAGAAGAATAAAGTG
1 AAGG-AAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACTAAAGAAAAAAGAA-AATAAAATG
* * *
1154294 CGTCCTGCTCTTTGA
64 CATCCTACCCTTTGA
1154309 GAACTAGAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
82 11 0.17
83 46 0.72
84 7 0.11
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (83 bp):
AAGGAAAAGGAGAATGAAATGGGTCCTACTCCTTGAGGACTAAAGAAAAAAGAAAATAAAATGCA
TCCTACCCTTTGAAGACA
Found at i:1154392 original size:46 final size:47
Alignment explanation
Indices: 1154276--1154486 Score: 214
Period size: 46 Copynumber: 4.7 Consensus size: 47
1154266 AGGACAAAGA
* *
1154276 AAAAAGAA-G-AATAAAGTGCGTCCTGCTCTTTGAGAACTAGAAGGG
1 AAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAAAACTAGAAGGG
*
1154321 AAAAAGAAGGAAATGAAGTGTGTCCTGC-CGTTTGAAAACTAGAAGGG
1 AAAAAGAAGGAAATGAAGTGCGTCCTGCTC-TTTGAAAACTAGAAGGG
**
1154368 -AAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-A-AA-GG
1 AAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAAAACTAGAAGGG
** * * *
1154411 AAAAA-AA-G-AA-GAAAAGCATCCTGCTCTTTGAAGAC-AAAAGGG
1 AAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAAAACTAGAAGGG
* *
1154453 -AAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGA
1 AAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGA
1154487 GGGCAAAGGA
Statistics
Matches: 142, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
40 22 0.15
41 8 0.06
42 5 0.04
43 5 0.04
44 8 0.06
45 27 0.19
46 35 0.25
47 32 0.23
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (47 bp):
AAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAAAACTAGAAGGG
Found at i:1154434 original size:40 final size:40
Alignment explanation
Indices: 1154389--1154528 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 40
1154379 ATGAAGTGCG
1154389 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAGAAAAGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAGAAAAGCA
* * * **
1154429 TCCTGCTCTTTGAAGACAAAAGGGAAAAGAAGGAAATGAAATGTG
1 TCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAAG-AA-GAAAAGCA
* *
1154474 TCCTGCTCTTTGAGGGCAAAGG-AGAAAAG--GAAAAGGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAGAAAA-GCA
*
1154512 TCTTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1154529 TAAAAAATGC
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
37 4 0.05
38 16 0.20
40 16 0.20
41 6 0.08
42 8 0.10
43 5 0.06
44 5 0.06
45 20 0.25
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (40 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAGAAAAGCA
Found at i:1154460 original size:85 final size:84
Alignment explanation
Indices: 1154343--1154533 Score: 253
Period size: 85 Copynumber: 2.3 Consensus size: 84
1154333 ATGAAGTGTG
* * *
1154343 TCCTGC-CGTTTGAAAACTAGAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACA
1 TCCTGCTC-TTTGAAGACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACA
1154407 AAGGAAAAAAAGAAGAAAA-GCA
65 AAGG-AAAAAAG--GAAAAGGCA
* *
1154429 TCCTGCTCTTTGAAGAC-AAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGGCAA
1 TCCTGCTCTTTGAAGACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAA
*
1154493 AGGAGAAAAGGAAAAGGCA
66 AGGAAAAAAGGAAAAGGCA
* *
1154512 TCTTGCTCTTTGAGGACTAAAA
1 TCCTGCTCTTTGAAGACTAAAA
1154534 AATGCCACCA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
82 5 0.05
83 18 0.19
84 10 0.11
85 46 0.49
86 14 0.15
87 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (84 bp):
TCCTGCTCTTTGAAGACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAA
AGGAAAAAAGGAAAAGGCA
Found at i:1154665 original size:62 final size:62
Alignment explanation
Indices: 1154497--1154995 Score: 540
Period size: 62 Copynumber: 8.1 Consensus size: 62
1154487 GGGCAAAGGA
* * * *
1154497 GAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
* * * * ** * *
1154559 GAAAAG-AAAAGGCATCCGGCTCTTTAAGGGCTAAAAGGTGCCACCAACTCATATAGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
* * * *
1154620 GAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAGAGATGCCACCAACTTATGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
** * *
1154682 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAGAAA-AGTGCCACCAACTTGTGTGGGCTTC
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGA-TGCCACCAACTTGTGTGGGCTTT
* * * * * *
1154745 GAAAAG-AAAAGGCGTTCTGCTCTTTGAGGACTAAAGGGTGCCACTAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
** ** * * *
1154806 GAAAAGAAAAAGGTGTCCTATTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTATGGGCTTC
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGATGCCACCAACTTGTGTGGGCTTT
* * ** * *
1154869 G-AAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGTGTCAATAGCTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGA-TGCCACCAACTTGTGTGGGCTTT
* * * *
1154931 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGCGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
1154992 GAAA
1 GAAA
1154996 GGCGTCCTGC
Statistics
Matches: 365, Mismatches: 63, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
61 100 0.27
62 212 0.58
63 53 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (62 bp):
GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
Found at i:1154876 original size:186 final size:184
Alignment explanation
Indices: 1154497--1154995 Score: 640
Period size: 186 Copynumber: 2.7 Consensus size: 184
1154487 GGGCAAAGGA
* * * *
1154497 GAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAA
1 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGC-TTGAA
* * * * ** * *
1154562 AAGAAAAGGCATCCGGCTCTTTAAGGGCTAAAAGGTGCCACCAACTCATATAGGCTTTGAAAAGA
65 AAGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * *
1154627 AAAAGGCGTCCTACTCTTTGAGGACTAAGAGATGCCACCAACTTATGTGGGCTTT
130 AAAAGGCGTCCTACTCTTTGAGGACTAAAAGATGCCACCAACTTATATGGGCTTC
** *
1154682 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCGA
1 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTT-GA
* * * *
1154747 AAAGAAAAGGCGTTCTGCTCTTTGAGGACTAAAGGGTGCCACTAGCTTGTGTGGGCTTTGAAAAG
64 AAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * *
1154812 AAAAAGGTGTCCTATTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTATGGGCTTC
129 AAAAAGGCGTCCTACTCTTTGAGGACTA-AAAGATGCCACCAACTTATATGGGCTTC
* * ** * *
1154869 G-AAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAAAGTGTCAATAGCTCGTGTGGGCTTTAA
1 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTGAA
*
1154933 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGCGCTTTGAAA
65 AA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAA
1154996 GGCGTCCTGC
Statistics
Matches: 269, Mismatches: 40, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
185 35 0.13
186 209 0.78
187 25 0.09
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (184 bp):
GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTGAAA
AGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
AAAGGCGTCCTACTCTTTGAGGACTAAAAGATGCCACCAACTTATATGGGCTTC
Found at i:1155103 original size:94 final size:94
Alignment explanation
Indices: 1154945--1155467 Score: 719
Period size: 94 Copynumber: 5.6 Consensus size: 94
1154935 GGAAAAGGCA
* * *
1154945 TCCTGCTCTTTGAGGACT--AAAGGGTGCCACCAACTTGTGTGCGCTTTGAAAGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGGGAA--GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
* *
1155008 TTTAAGGACTAAAGGGTGAAAGGAGAGAGCG
64 TTTGAGGACTAAAAGGTGAAAGGAGAGAGCG
* * * *
1155039 TCTTGCTCTTTGAAGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* * *
1155104 TGAGGACTAAACGGTAAAAGGAGAGAGCA
66 TGAGGACTAAAAGGTGAAAGGAGAGAGCG
1155133 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
1155198 TGAGGACTAAAAGGTGAAAGGAGAGAGCA
66 TGAGGACTAAAAGGTGAAAGGAGAGAGCG
* * * * * * *
1155227 TCCTGCTTTTTGAAGTCTGGGAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGTGTCTTTCTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
1155292 TGAGGACTAAAAGGTGAAAGGAGAGAGTG
66 TGAGGACTAAAAGGTGAAAGGAGAGAGCG
* * * * * * **
1155321 TTCTGCTTTTTGAGGACTGAGAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCATTTTGCTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1155386 TGAGGACT-AAAGCGTGAAAGGAGAGAGCG
66 TGAGGACTAAAAG-GTGAAAGGAGAGAGCG
* *
1155415 TCATGTTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1155468 AGAAGGCGTT
Statistics
Matches: 383, Mismatches: 43, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
93 4 0.01
94 377 0.98
96 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (94 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAAAAGGTGAAAGGAGAGAGCG
Found at i:1156475 original size:12 final size:12
Alignment explanation
Indices: 1156450--1156490 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1156440 GGTTCTTTTC
*
1156450 TTTTCTCTTT-T
1 TTTTTTCTTTGT
1156461 TTTTTTCTTTGT
1 TTTTTTCTTTGT
1156473 TTTGTTT-TTTGT
1 TTT-TTTCTTTGT
1156485 TTTTTT
1 TTTTTT
1156491 TCTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 12 0.44
12 12 0.44
13 3 0.11
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTGT
Found at i:1168912 original size:79 final size:78
Alignment explanation
Indices: 1168764--1168947 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 78
1168754 ATTTGTGTTC
* * **
1168764 TGAAAATAAAATCAGGG-TGGAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCTTAATTATA
1 TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCAATTATA
*
1168828 GAAAATTGACAT-TG
66 AAAAATT-A-ATGTG
* ** * *
1168842 TGAAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTA
1 TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCAATTATA
* *
1168907 AAAAATTAGTGTT
66 AAAAATTAATGTG
* *
1168920 TTAGAAATAAAATCGGGGTTAGAGTATC
1 TGA-AAATAAAATCGGGGTTGGAGTATC
1168948 TCTGATTGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.01
78 20 0.22
79 68 0.76
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (78 bp):
TGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCAATTATA
AAAAATTAATGTG
Found at i:1168955 original size:51 final size:51
Alignment explanation
Indices: 1168882--1168997 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
1168872 TCGAAAATAA
* * * *
1168882 CGGGGTTGGAGTATCCCCGATTGTAAAAAATTAGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAAAAATAAAAT
* * * * *
1168933 CGGGGTTAGAGTATCTCTGATTGTAAGAAATCAATATTTTAAAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAAAAATAAAAT
1168984 CGGGGTTGGAGTAT
1 CGGGGTTGGAGTAT
1168998 TCCCTCGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTAAAAAATCAATATTTTAAAAATAAAAT
Found at i:1169104 original size:130 final size:130
Alignment explanation
Indices: 1168844--1169077 Score: 337
Period size: 130 Copynumber: 1.8 Consensus size: 130
1168834 TGACATTGTG
* **
1168844 AAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAA
1 AAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTACAAA
* * * *
1168909 AAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCTCTGATTGTAAGAAATCAATATTTTA
66 AAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAATATCTCTGAATGTAAGAAATCAAAAATTTA
* *
1168974 AAAATAAAGTCGGGGTTGGAGTATTCCC-TCGAAAATAACGGGATTGGAGTATCCCCGATTACGA
1 AAAATAAAATCGGGGTTGGAGTA-TCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTACAA
* *
1169038 AAAATT-GATGTTTTGGAAATAAAATCGGGGTTGGAATATC
65 AAAATTAG-TGTTTTAGAAATAAAATCGGGGTTAGAATATC
1169078 CTCGAGATGA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
129 1 0.01
130 89 0.95
131 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
AAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATTACAAA
AAATTAGTGTTTTAGAAATAAAATCGGGGTTAGAATATCTCTGAATGTAAGAAATCAAAAATTTA
Found at i:1172402 original size:20 final size:19
Alignment explanation
Indices: 1172377--1172446 Score: 115
Period size: 20 Copynumber: 3.6 Consensus size: 19
1172367 GTAAACCCAG
1172377 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
1172396 TAATGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
1172416 CAATGTATCGATACAATG-A
1 -AATGTATCGATACAATGAA
1172435 AATGTATCGATA
1 AATGTATCGATA
1172447 AAAATTGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 12 0.24
19 1 0.02
20 36 0.73
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1173855 original size:62 final size:62
Alignment explanation
Indices: 1173753--1173875 Score: 201
Period size: 62 Copynumber: 2.0 Consensus size: 62
1173743 GGAATCGAGC
* * *
1173753 TTTCATGAAAGGAATTGACTCATTAAGCTAAAAAATATACAAATTAAGAACGAGAACTGACA
1 TTTCATGAAAAGAATTGACTCATTAAGCTAAAAAAAATACAAATTAAGAAAGAGAACTGACA
* *
1173815 TTTCATGAAAAGAATTGACTCTTTAGGCTAAAAAAAATACAAATTAAGAAAGAGAACTGAC
1 TTTCATGAAAAGAATTGACTCATTAAGCTAAAAAAAATACAAATTAAGAAAGAGAACTGAC
1173876 TCCTCTGTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (62 bp):
TTTCATGAAAAGAATTGACTCATTAAGCTAAAAAAAATACAAATTAAGAAAGAGAACTGACA
Found at i:1173911 original size:62 final size:62
Alignment explanation
Indices: 1173755--1173911 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 62
1173745 AATCGAGCTT
* * * * * *
1173755 TCATGAAAGGAATTGACTCATTAAGCTAAAAAATATACAAATTAAGAACGAGAACTGACATT
1 TCATGAAAAGAACTAACTCATTAGGCTAAAAAATATACAAATTAAGAAAGAGAACTGACATC
* * * *
1173817 TCATGAAAAGAATTGACTCTTTAGGCTAAAAAAAATACAAATTAAGAAAGAGAACTGAC-TCC
1 TCATGAAAAGAACTAACTCATTAGGCTAAAAAATATACAAATTAAGAAAGAGAACTGACAT-C
* * *
1173879 TCTGTGGAAAGAACTAACTCGTTAGGCTAAAAA
1 TC-ATGAAAAGAACTAACTCATTAGGCTAAAAA
1173912 TATCATTCTC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
61 1 0.01
62 56 0.68
63 25 0.30
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (62 bp):
TCATGAAAAGAACTAACTCATTAGGCTAAAAAATATACAAATTAAGAAAGAGAACTGACATC
Found at i:1174216 original size:54 final size:53
Alignment explanation
Indices: 1174036--1174672 Score: 586
Period size: 54 Copynumber: 12.4 Consensus size: 53
1174026 TTAAAAAAAT
* * * *
1174036 ATTTTATATTAAATATGTTTTTAATTTTT-TTATTTTTTAAATAGTAATTCAAG
1 ATTTAATATAAAATATATTTTTAATTTTTATTA-TTTTTAAATAGTAATTTAAG
* * * *
1174089 GTTTAATAT-AAAT-T-TTTTAAATTTTTTAATATTTTTAAATGGTAAGTTT-AG
1 ATTTAATATAAAATATATTTTTAA-TTTTTATTATTTTTAAATAGTAA-TTTAAG
* * *
1174140 ATTTAATATAAAATATATTTTTTAATTTTTATTATCTTTTAACTAGTAGTTTGAG
1 ATTTAATATAAAATATA-TTTTTAATTTTTATTAT-TTTTAAATAGTAATTTAAG
* ** *
1174195 ATTTAATATAAAATATATTTTTAAATTTTATTATTTTTAAATAGTAATTCGAT
1 ATTTAATATAAAATATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
* *
1174248 ATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGG
1 ATTTAATATAAAATATA-TTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
* * * * *
1174302 ATTTAATATAAAATA-CTTTTAAATTTTTTATTATTTTTAAATATTAATTCAAT
1 ATTTAATATAAAATATATTTTTAA-TTTTTATTATTTTTAAATAGTAATTTAAG
* * *
1174355 ATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGCAATTCAGG
1 ATTTAATATAAAATATA-TTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
*
1174409 ATTTAATAT--AA-A-A----T-A-TTTTATTATTTTTAAATAGTAATTCAAG
1 ATTTAATATAAAATATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
* ** * * *
1174452 ATTCAATATAAAATAT-TTTTTGTTTTTTATT-TTTTAAAAAAGTAATTTGA-
1 ATTTAATATAAAATATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
1174502 ATTTAATAT-AAA-ATATTTTT-ATTTTTATTA----T--AT--TAATTTGAA-
1 ATTTAATATAAAATATATTTTTAATTTTTATTATTTTTAAATAGTAATTT-AAG
* *
1174544 ATTTAATATAAAATAT-TTATT-ATTTTTATTATTTTTTAAATAATAATTTAAG
1 ATTTAATATAAAATATATTTTTAATTTTTATTA-TTTTTAAATAGTAATTTAAG
* *
1174596 ATTTAATATAAAATATATATTTTTAATCTTTTATTATTTTCTAAATAATAATTTAAA
1 ATTTAATAT-AAA-ATATATTTTTAAT-TTTTATTATTTT-TAAATAGTAATTTAAG
1174653 ATTTAATATAAAATAT-TTTT
1 ATTTAATATAAAATATATTTT
1174673 AAATAATAAT
Statistics
Matches: 492, Mismatches: 48, Indels: 87
0.78 0.08 0.14
Matches are distributed among these distances:
41 6 0.01
42 10 0.02
43 52 0.11
44 3 0.01
45 3 0.01
46 1 0.00
48 11 0.02
49 8 0.02
50 18 0.04
51 47 0.10
52 42 0.09
53 84 0.17
54 117 0.24
55 49 0.10
56 9 0.02
57 32 0.07
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (53 bp):
ATTTAATATAAAATATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAG
Found at i:1174340 original size:107 final size:105
Alignment explanation
Indices: 1174033--1174672 Score: 599
Period size: 107 Copynumber: 6.2 Consensus size: 105
1174023 AGATTAAAAA
* * *
1174033 AATATTTTATATTAAATAT-GTTTTTAATTTTT-TTATTTTTTAAATAGTAATTCAAGG-TTTAA
1 AATATTTAATATAAAATATATTTTTTAATTTTTATTA-TTTTTAAATAGTAATTC-AGGATTTAA
* * *
1174095 TAT-AAATTTTTTAAATTTTTTAATATTTTTAAATGGTAAGTT-
64 TATAAAATATTTTAAA-TTTTTATTATTTTTAAATAGTAA-TTC
* * * * *
1174137 TAGATTTAATATAAAATATATTTTTTAATTTTTATTATCTTTTAACTAGTAGTT-TGAGATTTAA
1 AATATTTAATATAAAATATATTTTTTAATTTTTATTAT-TTTTAAATAGTAATTCAG-GATTTAA
1174201 TATAAAATATATTTTTAAA-TTTTATTATTTTTAAATAGTAATTC
64 TAT-AAA-ATA-TTTTAAATTTTTATTATTTTTAAATAGTAATTC
*
1174245 GATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAATA
1 AATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAATA
*
1174310 TAAAATACTTTTAAATTTTTTATTATTTTTAAATATTAATTC
66 TAAAATA-TTTTAAA-TTTTTATTATTTTTAAATAGTAATTC
*
1174352 AATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGCAATTCAGGATTTAATA
1 AATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAATA
1174417 T-AAA-A---T--A-TTTTATTATTTTTAAATAGTAATTC
66 TAAAATATTTTAAATTTTTATTATTTTTAAATAGTAATTC
* * * * * *
1174449 AAGATTCAATATAAAATAT-TTTTTGT--TTTTTATT-TTTTAAAAAAGTAATT-TGAATTTAAT
1 AATATTTAATATAAAATATATTTTT-TAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAAT
* * *
1174509 ATAAAATATTTT-TATTTTTATTA-TATT--A-A-T--TTG
65 ATAAAATATTTTAAATTTTTATTATTTTTAAATAGTAATTC
* * * *
1174542 AA-ATTTAATAT-AAA-ATATTTATT-ATTTTTATTATTTTTTAAATAATAATTTAAGATTTAAT
1 AATATTTAATATAAAATATATTTTTTAATTTTTATTA-TTTTTAAATAGTAATTCAGGATTTAAT
* * *
1174603 ATAAAATATATATTTTTAATCTTTTATTATTTTCTAAATAATAATTT
65 AT--AA-A-ATATTTTAAAT-TTTTATTATTTT-TAAATAGTAATTC
*
1174650 AAAATTTAATATAAAATAT-TTTT
1 AATATTTAATATAAAATATATTTT
1174673 AAATAATAAT
Statistics
Matches: 451, Mismatches: 42, Indels: 80
0.79 0.07 0.14
Matches are distributed among these distances:
90 3 0.01
91 15 0.03
92 8 0.02
93 27 0.06
94 25 0.06
95 10 0.02
96 8 0.02
97 44 0.10
98 8 0.02
99 7 0.02
100 16 0.04
101 3 0.01
102 1 0.00
104 17 0.04
105 26 0.06
106 31 0.07
107 113 0.25
108 63 0.14
109 11 0.02
110 13 0.03
111 2 0.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (105 bp):
AATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAATA
TAAAATATTTTAAATTTTTATTATTTTTAAATAGTAATTC
Found at i:1174463 original size:150 final size:147
Alignment explanation
Indices: 1174107--1174672 Score: 450
Period size: 150 Copynumber: 3.7 Consensus size: 147
1174097 TAAATTTTTT
* * *
1174107 AAAT-TTTTTAATATTTTTAAATGGTAAGTT-TAGATTTAATATAAAATATATTTTTTAA-TTTT
1 AAATATTTTTATTATTTTTAAATAGTAA-TTCAAGATTTAATAT-AAA-ATA-TTTTTAATTTTT
* * * * * * *
1174169 TATTATCTTTTAACTAGTAGTTTGAGATTTAATATAAAATATATTTTTAAATTTTATTATTTTTA
62 TATTAT-TTTTAAATAATAATTT-AAATTTAATATAAAATATATTTTTTATTTTTATTA-TATTA
* *
1174234 AATAGTAATTCGATATTTAATATAAAATATA
124 AATAG--A----A-ATTCAAGATAAAATATA
*** * *
1174265 TTTTTTAATTTTTATTATTTTTAAATAGTAATTCAGGATTTAATATAAAATACTTTTAAATTTTT
1 --AAAT-ATTTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAAAATA-TTTTTAATTTTT
* * *
1174330 TATTATTTTTAAATATTAATTCAATATTTAATATAAAATATATTTTTTAATTTTTATTATTTTTA
62 TATTATTTTTAAATAATAATTTAA-ATTTAATATAAAATATATTTTTT-ATTTTTATTA-TATTA
* * **
1174395 AATAGCAATTCAGGATTTAATATA
124 AATAGAAATTCAAGATAAAATATA
* **
1174419 AAATA-TTTTATTATTTTTAAATAGTAATTCAAGATTCAATATAAAATATTTTTTGTTTTTTA-T
1 AAATATTTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATTTTTTATT
* * * *
1174482 -TTTTTAAAAAAGTAATTTGAATTTAATAT-AAA-ATA-TTTTTATTTTTATTATATTAATTTGA
66 ATTTTTAAATAA-TAATTTAAATTTAATATAAAATATATTTTTTATTTTTATTATATTAAATAGA
* * *
1174543 AATTTAATATAAAATATT
130 AATTCAAGATAAAATATA
* * * * *
1174561 TATTATTTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAAATATATATTTTTAATCTT
1 AAATATTTTTATTA-TTTTTAAATAGTAATTCAAGATTTAATAT--AA-A-ATATTTTTAATTTT
1174626 TTATTATTTTCTAAATAATAATTTAAAATTTAATATAAAATAT-TTTT
61 TTATTATTTT-TAAATAATAATTT-AAATTTAATATAAAATATATTTT
1174673 AAATAATAAT
Statistics
Matches: 332, Mismatches: 54, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
142 22 0.07
143 18 0.05
144 31 0.09
145 3 0.01
146 5 0.02
147 19 0.06
148 21 0.06
149 12 0.04
150 51 0.15
151 17 0.05
152 4 0.01
153 5 0.02
154 12 0.04
155 1 0.00
159 1 0.00
160 44 0.13
161 35 0.11
162 31 0.09
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (147 bp):
AAATATTTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATTTTTTATT
ATTTTTAAATAATAATTTAAATTTAATATAAAATATATTTTTTATTTTTATTATATTAAATAGAA
ATTCAAGATAAAATATA
Found at i:1174480 original size:43 final size:43
Alignment explanation
Indices: 1174381--1174478 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
1174371 ATTTTTTAAT
* *
1174381 TTTTATTATTTTTAAATAGCAATTCAGGATTTAATATAAAATA
1 TTTTATTATTTTTAAATAGCAATTCAAGATTCAATATAAAATA
*
1174424 TTTTATTATTTTTAAATAGTAATTCAAGATTCAATATAAAATA
1 TTTTATTATTTTTAAATAGCAATTCAAGATTCAATATAAAATA
*
1174467 TTTT-TTGTTTTT
1 TTTTATTATTTTT
1174479 TATTTTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (43 bp):
TTTTATTATTTTTAAATAGCAATTCAAGATTCAATATAAAATA
Found at i:1174526 original size:42 final size:43
Alignment explanation
Indices: 1174475--1174570 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 43
1174465 TATTTTTTGT
1174475 TTTTTATTTTTTAAAAAAGTAATTTG-AATTTAATATAAAATA
1 TTTTTATTTTTTAAAAAAGTAATTTGAAATTTAATATAAAATA
** * *
1174517 TTTTTA-TTTTTATTATATTAATTTGAAATTTAATATAAAATA
1 TTTTTATTTTTTAAAAAAGTAATTTGAAATTTAATATAAAATA
1174559 TTTATTATTTTT
1 TTT-TTATTTTT
1174571 ATTATTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 15 0.32
42 25 0.53
43 3 0.06
44 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (43 bp):
TTTTTATTTTTTAAAAAAGTAATTTGAAATTTAATATAAAATA
Found at i:1174539 original size:41 final size:43
Alignment explanation
Indices: 1174494--1174575 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 43
1174484 TTTAAAAAAG
1174494 TAATTTG-AATTTAATATAAAATATTT-TTATTTTTATTATAT
1 TAATTTGAAATTTAATATAAAATATTTATTATTTTTATTATAT
1174535 TAATTTGAAATTTAATATAAAATATTTATTATTTTTATTAT
1 TAATTTGAAATTTAATATAAAATATTTATTATTTTTATTAT
1174576 TTTTTAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 7 0.18
42 19 0.49
43 13 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (43 bp):
TAATTTGAAATTTAATATAAAATATTTATTATTTTTATTATAT
Found at i:1174635 original size:57 final size:53
Alignment explanation
Indices: 1174535--1174673 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 53
1174525 TTTATTATAT
*
1174535 TAATTTGAAATTTAATAT-AAA-ATATTTATTATTTTTATTATTTTTTAAATAA
1 TAATTT-AAATTTAATATAAAATATATTTATTATTTTTATTATTTTCTAAATAA
*
1174587 TAATTTAAGATTTAATATAAAATATATATTTTTAATCTTTTATTATTTTCTAAATAA
1 TAATTTAA-ATTTAATATAAAATATAT-TTATT-AT-TTTTATTATTTTCTAAATAA
*
1174644 TAATTTAAAATTTAATATAAAATATTTTTA
1 TAATTT-AAATTTAATATAAAATATATTTA
1174674 AATAATAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
51 2 0.03
52 15 0.20
53 3 0.04
54 4 0.05
55 4 0.05
56 4 0.05
57 42 0.55
58 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (53 bp):
TAATTTAAATTTAATATAAAATATATTTATTATTTTTATTATTTTCTAAATAA
Found at i:1174645 original size:94 final size:90
Alignment explanation
Indices: 1174357--1174645 Score: 241
Period size: 93 Copynumber: 3.1 Consensus size: 90
1174347 AATTCAATAT
** * *
1174357 TTAATATAAAATATATTTTTTAATTTTTATTA-TTTTTAAATAGCAATTCAGGATTTAATATAAA
1 TTAATAT-AAA-ATA-TTTTT-ATTTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAA
* * *
1174421 ATATT-TTATTATTTTTAAATAGTAATTCAAGA
62 ATATTATTTTTATTTTT-ATTA-T-TTTCAA-A
* *
1174453 TTCAATATAAAATATTTTT-TGTTTT-TTATTTTTTAAAAAAGTAATTTGA-ATTTAATATAAAA
1 TT-AATATAAAATATTTTTAT-TTTTATTATTTTTTAAATAA-TAATTTAAGATTTAATATAAAA
* * *
1174515 TATTTTTATTTTTA-TTATATTAATTTGAAA
63 TA---TTATTTTTATTTTTATTATTTTCAAA
1174545 TTTAATATAAAATATTTATTATTTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAAAT
1 -TTAATATAAAATATTT-TTATTTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAAAT
1174610 ATATATTTTTAATCTTTTATTATTTTCTAAA
64 AT-TATTTTT-AT-TTTTATTATTTTC-AAA
1174641 -TAATA
1 TTAATA
1174646 ATTTAAAATT
Statistics
Matches: 158, Mismatches: 17, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
91 1 0.01
92 26 0.16
93 48 0.30
94 44 0.28
95 16 0.10
96 13 0.08
97 10 0.06
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (90 bp):
TTAATATAAAATATTTTTATTTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAAATAT
TATTTTTATTTTTATTATTTTCAAA
Found at i:1174683 original size:144 final size:138
Alignment explanation
Indices: 1174424--1174690 Score: 308
Period size: 144 Copynumber: 1.9 Consensus size: 138
1174414 ATATAAAATA
*
1174424 TTTTATTATTTTTAAATAGTAATTCAAGATTCAATATAAAATATTTTTTGTTTTTTATTTTTTAA
1 TTTTATTATTTTTAAATAATAATTCAAGATTCAATATAAAATATTTTTTGTTTTTTATTTTTTAA
* * *
1174489 AAAAGTAATTTGAATTTAATATAAAATATTTTTATTTTTATTATATTAATTTGAAATTTAATATA
66 AAAAGTAATTTAAATTTAATATAAAATATTTTTA----TA-TATAATAATTTAAAATTTAATATA
1174554 AAATATTTATTAT
126 AAATATTTATTAT
* *
1174567 TTTTATTATTTTTTAAATAATAATTTAAGATTTAATATAAAATATATATTTT-TAATCTTTTATT
1 TTTTATTA-TTTTTAAATAATAATTCAAGATTCAATATAAAATAT-T-TTTTGT--T-TTTTA-T
*
1174631 ATTTTCTAAATAA-TAATTTAAAATTTAATATAAAATATTTTTA-A-ATAATAATTTAAAATT
59 -TTTT-TAAAAAAGTAATTT-AAATTTAATATAAAATATTTTTATATATAATAATTTAAAATT
1174691 AAAAATATTA
Statistics
Matches: 107, Mismatches: 7, Indels: 19
0.80 0.05 0.14
Matches are distributed among these distances:
143 8 0.07
144 47 0.44
145 2 0.02
146 5 0.05
147 1 0.01
148 5 0.05
149 1 0.01
150 10 0.09
151 28 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (138 bp):
TTTTATTATTTTTAAATAATAATTCAAGATTCAATATAAAATATTTTTTGTTTTTTATTTTTTAA
AAAAGTAATTTAAATTTAATATAAAATATTTTTATATATAATAATTTAAAATTTAATATAAAATA
TTTATTAT
Found at i:1174708 original size:14 final size:14
Alignment explanation
Indices: 1174689--1174716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1174679 TAATTTAAAA
1174689 TTAAAAATATTATT
1 TTAAAAATATTATT
1174703 TTAAAAATATTATT
1 TTAAAAATATTATT
1174717 GCTCATAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAAATATTATT
Found at i:1178223 original size:49 final size:49
Alignment explanation
Indices: 1178151--1178248 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
1178141 TGCTTTGTTG
*
1178151 AAACATCTAGTTCTGTAGCTTCTTCTTGCGTTACTATTGTTTAAAGTGT
1 AAACATCTAATTCTGTAGCTTCTTCTTGCGTTACTATTGTTTAAAGTGT
1178200 AAACATCTAATTCTGTAGCTTCTTCTTGCGTTACTATTGTTTAAAGTGT
1 AAACATCTAATTCTGTAGCTTCTTCTTGCGTTACTATTGTTTAAAGTGT
1178249 GAAAAGTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.45
Consensus pattern (49 bp):
AAACATCTAATTCTGTAGCTTCTTCTTGCGTTACTATTGTTTAAAGTGT
Found at i:1183432 original size:158 final size:154
Alignment explanation
Indices: 1183062--1183600 Score: 529
Period size: 158 Copynumber: 3.5 Consensus size: 154
1183052 CTGGGTAGGT
* * * * * *
1183062 TCATAAATGGGATGAACCTATCTTGAATACACATCTTTGGCAT---AGCATCCTGATGGCAACCT
1 TCATAAATGGGATGAACCTATCCTAAATACCCATCTTTAGCATAAAAGCATCCCGATGACAACCT
* * * * * *
1183124 AGG-GTAAGTTCCT-AAAAAATTACGAAAATACCCCTATGGGTATACATTTGACATGAAAATATC
66 AGGACTCAGTT-CTAAAAAAATTATGAAAATGCCCCTATAGGTATAC--TTGACATGAAAGTAT-
* * *
1183187 TTGGTAATGCTAAAAGACTTAAAAAGGA
127 TTGGTTATACAAAAAGACTTAAAAAGGA
* * *
1183215 TCATAAATGGGATGAACCTATCCTGAATA-CTACCTTTAGCATAAAAGCATCCCGATGACAACCT
1 TCATAAATGGGATGAACCTATCCTAAATACCCATCTTTAGCATAAAAGCATCCCGATGACAACCT
1183279 AGGACTCAGTTCTAAAAAAATTATGAAAATGCCCCTATAGGTATATCTTCGACATGAAAGTATGT
66 AGGACTCAGTTCTAAAAAAATTATGAAAATGCCCCTATAGGTATA-CTT-GACATGAAAGTAT-T
* *
1183344 TGGTTATTCAAAAAAGAACTTAAAAAGAA
128 TGGTTATAC-AAAAAG-ACTTAAAAAGGA
* * **
1183373 TCATAAAT-GGACGAACCTATCCTAAATACCCATCTTTAGCATAAAAGCATCCCGGTGACAAATT
1 TCATAAATGGGATGAACCTATCCTAAATACCCATCTTTAGCATAAAAGCATCCCGATGACAACCT
* * * * * *
1183437 AAGACTTAGTTTTAGAAAAATTATGAAAATGCCCCTATAGGTATACCTTTAGCATGAAAGTATCT
66 AGGACTCAGTTCTAAAAAAATTATGAAAATGCCCCTATAGGTATA-CTTGA-CATGAAAGTATTT
* * * *
1183502 CGATA-ACCCTAAAGGACTTAAAAAGGA
129 GGTTATA--CAAAAAGACTTAAAAAGGA
* * * * * *
1183529 TCATATATGGTATGAACCTATCCTAAATACCCA-CATTTGGCATAAAAGCATCTCGGTGACAACT
1 TCATAAATGGGATGAACCTATCCTAAATACCCATC-TTTAGCATAAAAGCATCCCGATGACAACC
1183593 TAGGACTC
65 TAGGACTC
1183601 GATACGAAAA
Statistics
Matches: 325, Mismatches: 46, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
152 9 0.03
153 28 0.09
155 24 0.07
156 72 0.22
157 87 0.27
158 105 0.32
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (154 bp):
TCATAAATGGGATGAACCTATCCTAAATACCCATCTTTAGCATAAAAGCATCCCGATGACAACCT
AGGACTCAGTTCTAAAAAAATTATGAAAATGCCCCTATAGGTATACTTGACATGAAAGTATTTGG
TTATACAAAAAGACTTAAAAAGGA
Found at i:1184063 original size:20 final size:20
Alignment explanation
Indices: 1184028--1184079 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1184018 CTAAAATTTT
*
1184028 TATCGATACAATAAGTTAATG
1 TATCGATAC-ATAAGTGAATG
*
1184049 TATTGATACATAAGTGAATG
1 TATCGATACATAAGTGAATG
1184069 TATCGATACAT
1 TATCGATACAT
1184080 GCTTATAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Found at i:1184487 original size:161 final size:161
Alignment explanation
Indices: 1184222--1184545 Score: 603
Period size: 161 Copynumber: 2.0 Consensus size: 161
1184212 TTTTGACCTA
1184222 AATGTATCGATACATGCAGGCTATTTTGACTATTTCAAGCCACATTTCAGTCTTCACATTATCTA
1 AATGTATCGATACATGCAGGCTATTTTGACTATTTCAAGCCACATTTCAGTCTTCACATTATCTA
*
1184287 TTCAAAATCGATTTAAACACATGCTTTGCATCAAGAATCATAAAAAATCATACCAAGTTTCATCT
66 TTCAAAATCAATTTAAACACATGCTTTGCATCAAGAATCATAAAAAATCATACCAAGTTTCATCT
1184352 TTGGGGTTGTAATTAAATTTAAACAAGTATC
131 TTGGGGTTGTAATTAAATTTAAACAAGTATC
* * *
1184383 AATGTATCTATACATGCAGGCTATTTTGACTATTTCAAGCCACATTTTAGTCTTCACATTATTTA
1 AATGTATCGATACATGCAGGCTATTTTGACTATTTCAAGCCACATTTCAGTCTTCACATTATCTA
1184448 TTCAAAATCAATTTAAACACATGCTTTGCATCAAGAATCATAAAAAATCATACCAAGTTTCATCT
66 TTCAAAATCAATTTAAACACATGCTTTGCATCAAGAATCATAAAAAATCATACCAAGTTTCATCT
*
1184513 TTGGGGTTGTAATTAAATTTAAACAAGTTTC
131 TTGGGGTTGTAATTAAATTTAAACAAGTATC
1184544 AA
1 AA
1184546 AACCCAATTT
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 158 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (161 bp):
AATGTATCGATACATGCAGGCTATTTTGACTATTTCAAGCCACATTTCAGTCTTCACATTATCTA
TTCAAAATCAATTTAAACACATGCTTTGCATCAAGAATCATAAAAAATCATACCAAGTTTCATCT
TTGGGGTTGTAATTAAATTTAAACAAGTATC
Found at i:1186541 original size:78 final size:78
Alignment explanation
Indices: 1186451--1186636 Score: 221
Period size: 79 Copynumber: 2.4 Consensus size: 78
1186441 GTGTTCTCTT
* ** ** * *
1186451 GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGAT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAAT-ATTTAGAAAAAAAACCGGGAT
1186515 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
* * * * *
1186529 GAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATA-TTTAGAAAAAAAACCGGGAT
1186594 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
* *
1186608 GGAAGTAACGGGGTTGGAGTATCCCCAAT
1 GAAAATAACGGGGTTGGAGTATCCCCAAT
1186637 GAAATAACGA
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 37 0.40
79 54 0.59
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (78 bp):
GAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATATTTAGAAAAAAAACCGGGATT
GGAGTATCCCCTC
Found at i:1186628 original size:28 final size:28
Alignment explanation
Indices: 1186588--1186659 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1186578 GGAATAAAGC
** *
1186588 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
1186616 CGGGGTTGGAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
1186644 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1186660 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAAGGAAATAA
Found at i:1186651 original size:107 final size:107
Alignment explanation
Indices: 1186509--1186822 Score: 319
Period size: 107 Copynumber: 2.9 Consensus size: 107
1186499 GAAAAAAAAT
* * *
1186509 CGGGATTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCCAATTACGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCAT-G-AAATAACGGGGTTGGAGTATCCCCAACTACGAAAAATCAATA
* * * *
1186573 -TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
64 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * ** ***
1186616 CGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTAT
1 CGGGGTTGGAGTATCCCC-ATGAAATAACGGGGTTGGAGTATCCCCAACTACGAAAAATCAATAT
*
1186681 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
65 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * ** ***
1186724 CGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTG
1 CGGGGTTGGAGTATCCCC-ATGAAATAACGGGGTTGGAGTATCCCCAACTACGAA-AAATCAAT-
* *
1186788 TTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
63 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
1186823 GATTATAGAA
Statistics
Matches: 180, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
107 77 0.43
108 68 0.38
109 35 0.19
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCATGAAATAACGGGGTTGGAGTATCCCCAACTACGAAAAATCAATATT
TTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:1186728 original size:108 final size:109
Alignment explanation
Indices: 1186573--1186822 Score: 378
Period size: 108 Copynumber: 2.3 Consensus size: 109
1186563 GAAATCAATA
* ** * *
1186573 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCAATG
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG
*
1186638 AAATAACGAGGTTGGAGTATCCTCGACTGTGAA-AAATTGGT-AT
66 -AATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGAT
*
1186681 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG
* * * *
1186746 ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTT
66 AATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGAT
1186790 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1186823 GATTATAGAA
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
107 28 0.22
108 67 0.52
109 34 0.26
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (109 bp):
TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG
AATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGAT
Found at i:1186735 original size:28 final size:27
Alignment explanation
Indices: 1186700--1186770 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1186690 TAAAATCGGA
**
1186700 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
1186728 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
1186755 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1186771 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:1186822 original size:54 final size:51
Alignment explanation
Indices: 1186755--1186885 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
1186745 GATTAACGGG
* * *
1186755 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TCTTGAAAATAAAATCGGA
*
1186809 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTCTTGAAAATAAAATCGGA
*
1186860 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
1186886 TTGAGAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:1189257 original size:33 final size:33
Alignment explanation
Indices: 1189213--1189279 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1189203 AAAATTTCCA
* ***
1189213 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTACCGATACAAAGAAAAATGTATCGATAC
*
1189246 AATGTACCGATACATAGAAAAATGTATCGATAC
1 AATGTACCGATACAAAGAAAAATGTATCGATAC
1189279 A
1 A
1189280 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTACCGATACAAAGAAAAATGTATCGATAC
Found at i:1189323 original size:19 final size:18
Alignment explanation
Indices: 1189299--1189366 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
1189289 CAGTAGCTAA
1189299 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1189318 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1189333 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
1189350 TTATGTATTGATACAAA
1 TTATGTATCGATACAAA
1189367 TTGTTAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1189339 original size:13 final size:13
Alignment explanation
Indices: 1189321--1189345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1189311 ACAATACTTA
1189321 TGTATCGATACAT
1 TGTATCGATACAT
1189334 TGTATCGATACA
1 TGTATCGATACA
1189346 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1189343 original size:32 final size:32
Alignment explanation
Indices: 1189302--1189364 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1189292 TAGCTAATTA
*
1189302 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
1189334 TGTATCGATACAAAACTTATGTATTGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1189365 AATTGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1189446 original size:21 final size:21
Alignment explanation
Indices: 1189422--1189499 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
1189412 CATTTGTAGG
1189422 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
1189443 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1189464 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1189485 ATGTATCGATACATT
1 ATGTATCGATACATT
1189500 TGGATAATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1190333 original size:55 final size:55
Alignment explanation
Indices: 1190247--1190827 Score: 705
Period size: 55 Copynumber: 10.3 Consensus size: 55
1190237 ATAAAGTGTA
* * * * * * **
1190247 TCCTGCTCATTGAGGAGTAAAAAGTGGCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1190302 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1190357 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
1190412 TCCTGCTCTTT-AGAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAG-GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
*
1190473 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
1190532 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
1190591 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
1190645 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1190700 TCCTGCTCTTTGAGGACCGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGA-CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1190755 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1190810 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1190828 AAAAAGCGGA
Statistics
Matches: 478, Mismatches: 25, Indels: 46
0.87 0.05 0.08
Matches are distributed among these distances:
53 2 0.00
54 29 0.06
55 279 0.58
56 15 0.03
59 102 0.21
60 27 0.06
61 16 0.03
62 2 0.00
64 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1191841 original size:11 final size:11
Alignment explanation
Indices: 1191810--1191851 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
1191800 CTTTTCTCTC
*
1191810 TTTTTCTTTGTT
1 TTTTTTTTTG-T
1191822 TTGTTTTTTTGT
1 TT-TTTTTTTGT
1191834 TTTTTTTTTGT
1 TTTTTTTTTGT
1191845 TTTTTTT
1 TTTTTTT
1191852 GTTTTGCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 16 0.57
12 5 0.18
13 7 0.25
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:1191862 original size:11 final size:9
Alignment explanation
Indices: 1191810--1191869 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
1191800 CTTTTCTCTC
*
1191810 TTTTTCTTT
1 TTTTTGTTT
*
1191819 GTTTTGTTT
1 TTTTTGTTT
*
1191828 TTTTGTTTTT
1 TTTT-TGTTT
1191838 TTTTTGTTT
1 TTTTTGTTT
1191847 TTTTTGTTT
1 TTTTTGTTT
**
1191856 TGCTT-TTT
1 TTTTTGTTT
1191864 TTTTTG
1 TTTTTG
1191870 AAGAGAAGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 6 0.15
9 26 0.65
10 8 0.20
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:1191864 original size:28 final size:28
Alignment explanation
Indices: 1191810--1191868 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1191800 CTTTTCTCTC
*
1191810 TTTTTCTTTGTTTTGTTTTTTTGTTTTT
1 TTTTTCTTTGTTTTGTTTTCTTGTTTTT
* *
1191838 TTTTTGTTTTTTTTGTTTTGCTT-TTTTT
1 TTTTTCTTTGTTTTGTTTT-CTTGTTTTT
1191866 TTT
1 TTT
1191869 GAAGAGAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (28 bp):
TTTTTCTTTGTTTTGTTTTCTTGTTTTT
Found at i:1191866 original size:19 final size:18
Alignment explanation
Indices: 1191810--1191868 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
1191800 CTTTTCTCTC
*
1191810 TTTTTCTTTGTTTTGTTT
1 TTTTTTTTTGTTTTGTTT
*
1191828 TTTTGTTTTTTTTTTGTTT
1 TTTT-TTTTTGTTTTGTTT
1191847 TTTTTGTTTTGCTTTT-TTT
1 TTTTT-TTTTG-TTTTGTTT
1191866 TTT
1 TTT
1191869 GAAGAGAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 5 0.14
19 26 0.74
20 4 0.11
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTGTTTTGTTT
Found at i:1199845 original size:28 final size:26
Alignment explanation
Indices: 1199795--1199847 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
1199785 CTGATTTTTT
*
1199795 CATCTTTGAGGATACTCCTACCCCAC
1 CATCTTTGAGGATACTCCAACCCCAC
*
1199821 CATCTTTGAGAGGATACTTCAACCCCA
1 CATCTTT--GAGGATACTCCAACCCCA
1199848 TTTTTACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.26
Consensus pattern (26 bp):
CATCTTTGAGGATACTCCAACCCCAC
Found at i:1199958 original size:78 final size:79
Alignment explanation
Indices: 1199754--1199970 Score: 219
Period size: 78 Copynumber: 2.7 Consensus size: 79
1199744 TCAAAAAGGG
** * * *
1199754 TACTCCAACCCCTGTTTTTAC-TTCTAAAACA-CTGATTTTTTCATCTTTGAGGATACTCCTACC
1 TACTCCAACCCC-GTTTTTACTTTC-AAAACATCAAATTTTTT-ATCTCTAAGGATACTCCGACC
*
1199817 CCACCATCTTTGAGAGGA
63 CCACCATC-TCGAGAGGA
* * * * * *
1199835 TACTTCAACCCCATTTTTACTTTCGAAACATTAAAATTTTCATCTCTAAGGATACTCCGACCCCC
1 TACTCCAACCCCGTTTTTACTTTCAAAACATCAAATTTTTTATCTCTAAGGATACTCCGA-CCCC
1199900 ACC-TC-CGA-AGGA
65 ACCATCTCGAGAGGA
* *
1199912 TTACTGCAACCCCGTTTTTACTTTCAAAACATCAAATTTTTTATCTCTAGGGATACTCC
1 -TACTCCAACCCCGTTTTTACTTTCAAAACATCAAATTTTTTATCTCTAAGGATACTCC
1199971 AACCACATTT
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
77 4 0.04
78 53 0.47
80 30 0.27
81 26 0.23
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (79 bp):
TACTCCAACCCCGTTTTTACTTTCAAAACATCAAATTTTTTATCTCTAAGGATACTCCGACCCCA
CCATCTCGAGAGGA
Found at i:1201586 original size:21 final size:19
Alignment explanation
Indices: 1201562--1201608 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
1201552 AAATTATTGT
*
1201562 AACAAAAATTAAGACAAATAC
1 AACAAAAAATAA-ACAAAT-C
*
1201583 AACAAAAAATAAACATATC
1 AACAAAAAATAAACAAATC
1201602 AACAAAA
1 AACAAAA
1201609 TCCATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.70, C:0.15, G:0.02, T:0.13
Consensus pattern (19 bp):
AACAAAAAATAAACAAATC
Found at i:1202180 original size:11 final size:11
Alignment explanation
Indices: 1202160--1202191 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1202150 AAAATAATCC
1202160 AAAATTAAAAT
1 AAAATTAAAAT
*
1202171 AAATTTAAAAT
1 AAAATTAAAAT
1202182 AAAATTAAAA
1 AAAATTAAAA
1202192 ATTATAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:1202184 original size:16 final size:15
Alignment explanation
Indices: 1202144--1202186 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
1202134 AATAAACAAA
1202144 TAAAATAAAATAATC
1 TAAAATAAAATAATC
* *
1202159 CAAAATTAAAATAAATT
1 TAAAA-TAAAAT-AATC
1202176 TAAAATAAAAT
1 TAAAATAAAAT
1202187 TAAAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 12 0.52
17 7 0.30
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAATAAAATAATC
Found at i:1202615 original size:21 final size:20
Alignment explanation
Indices: 1202591--1202630 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1202581 AAGAATGATC
1202591 TAAAAGAAAATGCAAAATTTA
1 TAAAAGAAAATG-AAAATTTA
* *
1202612 TAAAATAAGATGAAAATTT
1 TAAAAGAAAATGAAAATTT
1202631 TGAAACTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAAGAAAATGAAAATTTA
Found at i:1203681 original size:74 final size:75
Alignment explanation
Indices: 1203520--1203741 Score: 222
Period size: 75 Copynumber: 2.9 Consensus size: 75
1203510 AAATGACACC
* * * * *
1203520 TAATGGACATGTGTTGAAATGAAGGTTCCTACATAACCCTAGACTCGATTTCTAGGTATTATGAC
1 TAAT-GACATGTTTTGACATAAAGGTTCCTACATGACCCTAGACTCAATTT-TAGGTATTATGAC
1203585 CTAAATAACCCT
64 CTAAATAACCCT
* *
1203597 AACATG-CATGTTTTGACATAAAGGTTCC-ACATGATCCTAGACTCAATTTTGAGGTACTT-T-A
1 TA-ATGACATGTTTTGACATAAAGGTTCCTACATGACCCTAGACTCAATTTT-AGGTA-TTATGA
*
1203658 CCTAGATAA-CCT
63 CCTAAATAACCCT
* * *
1203670 TAATGAACATG-TTTGAACACAAAGGTTCCTACATGACCCTAGACTCAATTTTAAGGTAGTATTA
1 TAATG-ACATGTTTTG-ACATAAAGGTTCCTACATGACCCTAGACTCAATTTT-AGGTATTATGA
*
1203734 CATAAATA
63 CCTAAATA
1203742 CACTTAGGCT
Statistics
Matches: 121, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
72 3 0.02
73 8 0.07
74 27 0.22
75 51 0.42
76 28 0.23
77 2 0.02
78 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (75 bp):
TAATGACATGTTTTGACATAAAGGTTCCTACATGACCCTAGACTCAATTTTAGGTATTATGACCT
AAATAACCCT
Found at i:1203736 original size:33 final size:35
Alignment explanation
Indices: 1203699--1203769 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
1203689 CAAAGGTTCC
1203699 TACAT-GAC-CCTAGACTCAATTTTAAGGTAGTAT
1 TACATAGACACCTAGACTCAATTTTAAGGTAGTAT
* * *
1203732 TACATAAATACACTTAGGCTCAATTTTAAGGTAGTAT
1 TACAT--AGACACCTAGACTCAATTTTAAGGTAGTAT
1203769 T
1 T
1203770 TCGTAAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.16
36 2 0.06
37 24 0.77
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (35 bp):
TACATAGACACCTAGACTCAATTTTAAGGTAGTAT
Found at i:1207604 original size:2 final size:2
Alignment explanation
Indices: 1207597--1207621 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1207587 ATTAAGGCCA
1207597 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1207622 CCAGATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1209840 original size:164 final size:166
Alignment explanation
Indices: 1209515--1210464 Score: 1305
Period size: 165 Copynumber: 5.8 Consensus size: 166
1209505 TAGGTTTAAA
* * * *
1209515 ATTTTGAAAATTCATCAAATATTATTATTTATTTTATATTAATTCATTTTTCAAGAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* *
1209580 TGTCCATAAATTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTCGAAATATGAAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCGAAATATGAAGTTTTCTACTC
* * *
1209645 CGTAAATTTTTTCAGAAGGATTTTCCTTATTTTTTT
131 CGTAAATTTTTTCAGGAGGATTTTTCTTATTTTTTG
* *
1209681 ATTTTTAAAATTCAT-AAATATTATTATTTGTTTCATATTAATTCAGTTTTCAAAAATTCATTCG
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* * * *
1209745 TTTCTATAAGTTTTGAA-TTTTTCCTTGAAATTCTCTTTTTTTCGAAATATGGAG-TTTCTTACT
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCGAAATATGAAGTTTTC-TACT
** * *
1209808 CCAAAAATTTTTTTAGGAGGATTTTTCTTATTTTCAT-
130 CCGTAAATTTTTTCAGGAGGATTTTTCTTATTTT-TTG
1209845 ATTTTT-AAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* * *
1209909 TTTCCATAAATTGTGAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATACGAAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCGAAATATGAAGTTTTCTACTC
*
1209974 CGTAAATTTTTTCAGGAAGATTTTTCTTATTTTTTG
131 CGTAAATTTTTTCAGGAGGATTTTTCTTATTTTTTG
* * * *
1210010 ACTTTTAAAATT-ATCAAATATTATTATTTATTTCATAGTT-ATTCATTTTTAAAAAATCCATTC
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATA-TTAATTCAGTTTTCAAAAATTCATTC
* * *
1210073 ATTTCCATAAATTTT-AATTTTTT-TTTGAAATT-TCCTTTTTTCTGAAATACGAAATTTTCTAC
65 ATTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTC-GAAATATGAAGTTTTCTAC
* * *
1210135 TTCGTAAATTTTTTGAGGGGGATTTTTCTTATTTTTTG
129 TCCGTAAATTTTTTCAGGAGGATTTTTCTTATTTTTTG
*
1210173 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATGTTAATTCAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* * * *
1210238 TTTCTATAAATTTTAAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGGAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCGAAATATGAAGTTTTCTACTC
** *
1210303 CGTAAATTTTTTTTGG-GGATTTTTCTTGTTTTTTG
131 CGTAAATTTTTTCAGGAGGATTTTTCTTATTTTTTG
* ** * * *
1210338 ATTTTTAAAATTCATAAAATATTATTGCTTATTTCATATTGATTTAGGTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* * *
1210403 TTTCCATGAACTTTGAATTTTTTCCTTGAAATTC-CCTTTTCTTCGAAAAACT-AAGTTTTCTA
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTT-TTCGAAATA-TGAAGTTTTCTA
1210465 TTTTATAAAT
Statistics
Matches: 697, Mismatches: 71, Indels: 33
0.87 0.09 0.04
Matches are distributed among these distances:
162 10 0.01
163 85 0.12
164 207 0.30
165 320 0.46
166 65 0.09
167 10 0.01
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (166 bp):
ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCGAAATATGAAGTTTTCTACTC
CGTAAATTTTTTCAGGAGGATTTTTCTTATTTTTTG
Found at i:1209905 original size:329 final size:329
Alignment explanation
Indices: 1209515--1210464 Score: 1299
Period size: 329 Copynumber: 2.9 Consensus size: 329
1209505 TAGGTTTAAA
* * * *
1209515 ATTTTGAAAATTCATCAAATATTATTATTTATTTTATATTAATTCATTTTTCAAGAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
*
1209580 TGTCCATAAATTTTGAATTTTTTCCTTGAAATTCTT-CTTTTTTCGAAATATGAAGTTTTCTACT
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATT-TTCCTTTTTTCGAAATATGAAGTTTTCTACT
* *
1209644 CCGTAAATTTTTTCAGAAGGATTTTCCTTATTTTTTTATTTTTAAAATTCAT-AAATATTATTAT
130 CCGTAAATTTTTTCAGAAGGATTTTTCTTATTTTTTGATTTTTAAAATTCATAAAATATTATTAT
* * *
1209708 TTGTTTCATATTAATTCAGTTTTCAAAAATTCATTCGTTTCTATAAGTTTTGAATTTTTCCTTGA
195 TTATTTCATATT-ATTCAGTTTTCAAAAATTCATTCATTTCCATAA-TTTTGAATTTTTCCTTGA
* * * *
1209773 AATTCTCTTTTTTTCGAAATATG-GAGTTTCTTACTCCAAAAATTTTTTTAGGAGGATTTTTCTT
258 AATTCTCTTTTTTTCGAAATACGAAATTTTC-TACTCCAAAAATTTTTTGAGGAGGATTTTTCTT
1209837 ATTTTCAT-
322 ATTTT-ATG
1209845 ATTTTT-AAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* *
1209909 TTTCCATAAATTGTGAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATACGAAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGAAGTTTTCTACTC
* *
1209974 CGTAAATTTTTTCAGGAA-GATTTTTCTTATTTTTTGACTTTTAAAATT-ATCAAATATTATTAT
131 CGTAAATTTTTTCA-GAAGGATTTTTCTTATTTTTTGATTTTTAAAATTCATAAAATATTATTAT
* * * **
1210037 TTATTTCATAGTTATTCATTTTTAAAAAATCCATTCATTTCCATAAATTTT-AATTTTTTTTTGA
195 TTATTTCATA-TTATTCAGTTTTCAAAAATTCATTCATTTCCAT-AATTTTGAATTTTTCCTTGA
* * ** *
1210101 AATT-TCCTTTTTTCTGAAATACGAAATTTTCTACTTCGTAAATTTTTTGAGGGGGATTTTTCTT
258 AATTCTCTTTTTTTC-GAAATACGAAATTTTCTACTCCAAAAATTTTTTGAGGAGGATTTTTCTT
*
1210165 ATTTTTTG
322 ATTTTATG
*
1210173 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATGTTAATTCAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* * *
1210238 TTTCTATAAATTTTAAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGGAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGAAGTTTTCTACTC
** * * **
1210303 CGTAAATTTTTTTTG-GGGATTTTTCTTGTTTTTTGATTTTTAAAATTCATAAAATATTATTGCT
131 CGTAAATTTTTTCAGAAGGATTTTTCTTATTTTTTGATTTTTAAAATTCATAAAATATTATTATT
* * *
1210367 TATTTCATATTGATTTAGGTTTCAAAAATTCATTCATTTCCATGAACTTTGAATTTTTTCCTTGA
196 TATTTCATATT-ATTCAGTTTTCAAAAATTCATTCATTTCCAT-AATTTTGAA-TTTTTCCTTGA
* * * * *
1210432 AATTCCCTTTTCTTCGAAAAACTAAGTTTTCTA
258 AATTCTCTTTTTTTCGAAATACGAAATTTTCTA
1210465 TTTTATAAAT
Statistics
Matches: 548, Mismatches: 57, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
327 10 0.02
328 96 0.18
329 393 0.72
330 14 0.03
331 28 0.05
332 7 0.01
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (329 bp):
ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
TTTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGAAGTTTTCTACTC
CGTAAATTTTTTCAGAAGGATTTTTCTTATTTTTTGATTTTTAAAATTCATAAAATATTATTATT
TATTTCATATTATTCAGTTTTCAAAAATTCATTCATTTCCATAATTTTGAATTTTTCCTTGAAAT
TCTCTTTTTTTCGAAATACGAAATTTTCTACTCCAAAAATTTTTTGAGGAGGATTTTTCTTATTT
TATG
Found at i:1212659 original size:110 final size:110
Alignment explanation
Indices: 1212466--1212687 Score: 444
Period size: 110 Copynumber: 2.0 Consensus size: 110
1212456 TGTTTCTTGA
1212466 TGAATTCCCTTGATATTCAACTGTTGGAAACTCAACTTTATAGTCTTGAATGTTGACATACTCGT
1 TGAATTCCCTTGATATTCAACTGTTGGAAACTCAACTTTATAGTCTTGAATGTTGACATACTCGT
1212531 TGGAGATTGAATGATTGTGTTTGTAGTCGTTGTTGTCTTATTTGG
66 TGGAGATTGAATGATTGTGTTTGTAGTCGTTGTTGTCTTATTTGG
1212576 TGAATTCCCTTGATATTCAACTGTTGGAAACTCAACTTTATAGTCTTGAATGTTGACATACTCGT
1 TGAATTCCCTTGATATTCAACTGTTGGAAACTCAACTTTATAGTCTTGAATGTTGACATACTCGT
1212641 TGGAGATTGAATGATTGTGTTTGTAGTCGTTGTTGTCTTATTTGG
66 TGGAGATTGAATGATTGTGTTTGTAGTCGTTGTTGTCTTATTTGG
1212686 TG
1 TG
1212688 CTTGTTTCCG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.43
Consensus pattern (110 bp):
TGAATTCCCTTGATATTCAACTGTTGGAAACTCAACTTTATAGTCTTGAATGTTGACATACTCGT
TGGAGATTGAATGATTGTGTTTGTAGTCGTTGTTGTCTTATTTGG
Found at i:1212810 original size:20 final size:20
Alignment explanation
Indices: 1212785--1212852 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
1212775 GTTTGGGACA
1212785 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
1212805 ATGTATCGATAC-A------
1 ATGTATCGATACAATTCTTC
*
1212818 ATGCATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
1212838 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1212853 GCATCGATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
19 1 0.03
20 26 0.67
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:1212826 original size:33 final size:33
Alignment explanation
Indices: 1212782--1212865 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
1212772 GCCGTTTGGG
*
1212782 ACAATGTATCGATACAATTCTTCATGTATCGAT
1 ACAATGCATCGATACAATTCTTCATGTATCGAT
1212815 ACAATGCATCGATACAATTCTTCATGTATCGAT
1 ACAATGCATCGATACAATTCTTCATGTATCGAT
1212848 ACAATGCATCGATACAAT
1 ACAATGCATCGATACAAT
1212866 GTGCCATGCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (33 bp):
ACAATGCATCGATACAATTCTTCATGTATCGAT
Found at i:1212827 original size:13 final size:13
Alignment explanation
Indices: 1212809--1212866 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1212799 TTCTTCATGT
1212809 ATCGATACAATGC
1 ATCGATACAATGC
1212822 ATCGATACAAT--
1 ATCGATACAATGC
* *
1212833 -TC--TTC-ATGT
1 ATCGATACAATGC
1212842 ATCGATACAATGC
1 ATCGATACAATGC
1212855 ATCGATACAATG
1 ATCGATACAATG
1212867 TGCCATGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
10 4 0.11
12 2 0.06
13 26 0.72
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:1212879 original size:33 final size:32
Alignment explanation
Indices: 1212782--1212884 Score: 145
Period size: 33 Copynumber: 3.1 Consensus size: 32
1212772 GCCGTTTGGG
*
1212782 ACAATGTATCGATACAATTCTTCATGTATCGAT
1 ACAATGCATCGATACAATTC-TCATGTATCGAT
1212815 ACAATGCATCGATACAATTCTTCATGTATCGAT
1 ACAATGCATCGATACAATTC-TCATGTATCGAT
*
1212848 ACAATGCATCGATACAATGTGC-CATGCATCGAT
1 ACAATGCATCGATACAAT-T-CTCATGTATCGAT
1212881 ACAA
1 ACAA
1212885 ACAGTGGTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
33 64 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (32 bp):
ACAATGCATCGATACAATTCTCATGTATCGAT
Found at i:1212957 original size:19 final size:20
Alignment explanation
Indices: 1212913--1212966 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1212903 TTGCCAGTTT
* **
1212913 CATGTATCGATAAAATTGTG
1 CATGTATCGATACAATTGAA
1212933 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1212952 CATGTATCGATACAA
1 CATGTATCGATACAA
1212967 AGCATTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1215484 original size:13 final size:13
Alignment explanation
Indices: 1215466--1215502 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1215456 TAACCCATGT
1215466 ATCGATACATTGC
1 ATCGATACATTGC
* *
1215479 ATCGATACAATGT
1 ATCGATACATTGC
1215492 ATCGATACATT
1 ATCGATACATT
1215503 TGGGTTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:1221679 original size:13 final size:13
Alignment explanation
Indices: 1221661--1221690 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1221651 ACAATTCTTC
1221661 ATGTATCGATACA
1 ATGTATCGATACA
*
1221674 ATGTATCGATATA
1 ATGTATCGATACA
1221687 ATGT
1 ATGT
1221691 GCTATGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1223049 original size:155 final size:153
Alignment explanation
Indices: 1222759--1223406 Score: 757
Period size: 155 Copynumber: 4.2 Consensus size: 153
1222749 GCATTATCCC
* * *
1222759 AAGTCCTTTAGGGGTATCGAGTATTTTTATGTCGAAAGTATTCTCTAGAGGCATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTA-TCCCTAG-GGCATTTTTGTAATTT
* * * * *
1222824 TTTAGAACCGAGTCTTAGGTTGTCACCGGGTCCA-TATTTATGCCGAAGATTGATATTTAGGATA
64 TTTAGAATCGAGTCCTAAGTTATCACCGGGTCCACT-TTTATGCCGAAGATAGATATTTAGGATA
1222888 GGTTCATCTCATCTATTATCCTTTTT
128 GGTTCATCTCATCTATTATCCTTTTT
* * * * *
1222914 AAGTCCTTTAAGGGTGTCGAGTATTTTTACGTCGAAGGTATTCCCTAGGCGCATTTTTATAATTT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTA-TCCCTAGG-GCATTTTTGTAATTT
* *
1222979 TTTAGAATCGAGTCCTAAGTTATCACCGGGTCCACTTTTATGACGAAGATAGATATTTAGGTTAG
64 TTTAGAATCGAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCGAAGATAGATATTTAGGATAG
*
1223044 TTTCATCTCATCTATTATCCTTTTT
129 GTTCATCTCATCTATTATCCTTTTT
** * *
1223069 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTATCTCCTAAAAGCATTTTGGTAAATT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTATC-CCT-AGGGCATTTTTGTAATTT
* * * ** * *
1223134 TTTAGAATCGAGTCCTAGGATATCATCGGG-CCTGGTTTTATGCCGAAGGTATATATTTAGGATA
64 TTTAGAATCGAGTCCTAAGTTATCACCGGGTCC-ACTTTTATGCCGAAGATAGATATTTAGGATA
* *
1223198 GGTTTATCTCATCTATTAT-TTTTTT
128 GGTTCATCTCATCTATTATCCTTTTT
* *
1223223 AAGTCCTTTAGGGGTATC-AGGTACTTTTATGTCAAAGGTATCCGCTAGGGGTATTTTTGTAATT
1 AAGTCCTTTAGGGGTATCGA-GTACTTTTATGTCGAAGGTATCC-CTA-GGGCATTTTTGTAATT
* * ** ** * * *
1223287 TTTTAAAATCGAGCCCTAAGTTATCATTGGGTCTGCTTTTATGCCGACGGTAGATATTAAGGATA
63 TTTTAGAATCGAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCGAAGATAGATATTTAGGATA
* *
1223352 GGTTCATCCCATCTATTATCCTTTGT
128 GGTTCATCTCATCTATTATCCTTTTT
* *
1223378 AAGTTCTTTAGAGGTATC-AGGTACTTTTA
1 AAGTCCTTTAGGGGTATCGA-GTACTTTTA
1223407 CATTAAAGGT
Statistics
Matches: 426, Mismatches: 57, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
153 3 0.01
154 132 0.31
155 289 0.68
156 2 0.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (153 bp):
AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTATCCCTAGGGCATTTTTGTAATTTTT
TAGAATCGAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCGAAGATAGATATTTAGGATAGGT
TCATCTCATCTATTATCCTTTTT
Found at i:1223404 original size:309 final size:310
Alignment explanation
Indices: 1222759--1223406 Score: 826
Period size: 309 Copynumber: 2.1 Consensus size: 310
1222749 GCATTATCCC
* * * * *
1222759 AAGTCCTTTAGGGGTATCGAGTATTTTTATGTCGAAAGTATTCTCTAGAGGCATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAAGTATTCTCTAAAAGCATTTTGGTAAATT
* * *
1222824 TTTAGAACCGAGTCTTAGGTTGTCACCGGGTCCATATTTATGCCGAAGATTGATATTTAGGATAG
66 TTTAGAACCGAGTCCTAGGATATCACCGGGTCCATATTTATGCCGAAGATTGATATTTAGGATAG
* * *
1222889 GTTCATCTCATCTATTATCCTTTTTAAGTCCTTTAAGGGTGTCGAGTATTTTTACGTCGAAGGTA
131 GTTCATCTCATCTATTATCCTTTTTAAGTCCTTTAAGGGTATCGAGTACTTTTACGTCAAAGGTA
* *
1222954 TTCCCTAGGCGCATTTTTATAATTTTTTAGAATCGAGTCCTAAGTTATCACCGGGTCCACTTTTA
196 TTCCCTAGGCGCATTTTTATAATTTTTTAAAATCGAGCCCTAAGTTATCACCGGGTCCACTTTTA
* * * * *
1223019 TGACGAAGATAGATATTTAGGTTAGTTTCATCTCATCTATTATCCTTTTT
261 TGACGAAGATAGATATTAAGGATAGGTTCATCCCATCTATTATCCTTTGT
*
1223069 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTA-TCTCCTAAAAGCATTTTGGTAAAT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAAGTATTCT-CTAAAAGCATTTTGGTAAAT
* * * *
1223133 TTTTAGAATCGAGTCCTAGGATATCATCGGG-CC-TGGTTTTATGCCGAAGGTAT-ATATTTAGG
65 TTTTAGAACCGAGTCCTAGGATATCACCGGGTCCAT--ATTTATGCCGAAGAT-TGATATTTAGG
* * * *
1223195 ATAGGTTTATCTCATCTATTAT-TTTTTTAAGTCCTTTAGGGGTATC-AGGTACTTTTATGTCAA
127 ATAGGTTCATCTCATCTATTATCCTTTTTAAGTCCTTTAAGGGTATCGA-GTACTTTTACGTCAA
* * * ** **
1223258 AGGTA-TCCGCTAGGGGTATTTTTGTAATTTTTTAAAATCGAGCCCTAAGTTATCATTGGGTCTG
191 AGGTATTCC-CTAGGCGCATTTTTATAATTTTTTAAAATCGAGCCCTAAGTTATCACCGGGTCCA
* * *
1223322 CTTTTATGCCGACGGTAGATATTAAGGATAGGTTCATCCCATCTATTATCCTTTGT
255 CTTTTATGACGAAGATAGATATTAAGGATAGGTTCATCCCATCTATTATCCTTTGT
* *
1223378 AAGTTCTTTAGAGGTATC-AGGTACTTTTA
1 AAGTCCTTTAGGGGTATCGA-GTACTTTTA
1223407 CATTAAAGGT
Statistics
Matches: 292, Mismatches: 39, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
308 6 0.02
309 162 0.55
310 123 0.42
311 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (310 bp):
AAGTCCTTTAGGGGTATCGAGTACTTTTATGTCGAAAGTATTCTCTAAAAGCATTTTGGTAAATT
TTTAGAACCGAGTCCTAGGATATCACCGGGTCCATATTTATGCCGAAGATTGATATTTAGGATAG
GTTCATCTCATCTATTATCCTTTTTAAGTCCTTTAAGGGTATCGAGTACTTTTACGTCAAAGGTA
TTCCCTAGGCGCATTTTTATAATTTTTTAAAATCGAGCCCTAAGTTATCACCGGGTCCACTTTTA
TGACGAAGATAGATATTAAGGATAGGTTCATCCCATCTATTATCCTTTGT
Found at i:1227382 original size:20 final size:20
Alignment explanation
Indices: 1227357--1227396 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1227347 TCCCGTAGCT
1227357 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1227377 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1227397 TACATGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1227469 original size:13 final size:13
Alignment explanation
Indices: 1227451--1227475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1227441 CAATTCATCA
1227451 TGTATCGATACAT
1 TGTATCGATACAT
1227464 TGTATCGATACA
1 TGTATCGATACA
1227476 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1227473 original size:33 final size:33
Alignment explanation
Indices: 1227431--1227495 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1227421 TTTGAAGCAA
1227431 TGTATCGATACAAT-T-CATCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
1227464 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
1227496 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:1227734 original size:22 final size:22
Alignment explanation
Indices: 1227685--1227738 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
1227675 GTATTTTTAC
**
1227685 TTAAAAGCATTTGATTTAAGGT
1 TTAAAAGCATTTGATTTAAACT
*
1227707 TCAAAAGCATTTG-TTTATAACT
1 TTAAAAGCATTTGATTTA-AACT
1227729 TTAAAA-CATT
1 TTAAAAGCATT
1227739 CATTGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
TTAAAAGCATTTGATTTAAACT
Found at i:1228166 original size:19 final size:20
Alignment explanation
Indices: 1228140--1228182 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1228130 GGCTCTCGTT
* *
1228140 TAAAAAATTTCTCCCCTTGA
1 TAAAAATTTTCTCCCCTTAA
1228160 TAAAAATTTTCTCCCCTTAA
1 TAAAAATTTTCTCCCCTTAA
1228180 TAA
1 TAA
1228183 TCGTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATTTTCTCCCCTTAA
Found at i:1236244 original size:20 final size:19
Alignment explanation
Indices: 1236219--1236291 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1236209 TTGCCAGTTT
**
1236219 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1236239 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1236258 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1236279 -ATGTATCGATACA
1 CATGTATCGATACA
1236292 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1236875 original size:22 final size:21
Alignment explanation
Indices: 1236840--1236883 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
1236830 AAAAGTGCAG
1236840 AAAAAGAGAAAAAATGAAAAA
1 AAAAAGAGAAAAAATGAAAAA
*
1236861 AAAAAGATGAGAAAATGAAAAA
1 AAAAAGA-GAAAAAATGAAAAA
1236883 A
1 A
1236884 CATTGCATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAAAGAGAAAAAATGAAAAA
Found at i:1238666 original size:21 final size:20
Alignment explanation
Indices: 1238641--1238693 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1238631 TACAAGCCAA
**
1238641 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
1238662 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1238681 TGTATCGATACAA
1 TGTATCGATACAA
1238694 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1249132 original size:52 final size:52
Alignment explanation
Indices: 1249052--1249182 Score: 199
Period size: 52 Copynumber: 2.5 Consensus size: 52
1249042 CCCGAAATAT
*
1249052 GAAATTTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAG
* * *
1249104 GCAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAG
* * *
1249156 GAAAATTCGCTTGCATGTATTGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
1249183 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAG
Found at i:1249193 original size:52 final size:52
Alignment explanation
Indices: 1249060--1249202 Score: 171
Period size: 52 Copynumber: 2.8 Consensus size: 52
1249050 ATGAAATTTT
** * *
1249060 GCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAATTT
1 GCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTAGGAAAATTC
* ** *
1249112 GCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGAAAATTC
1 GCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTAGGAAAATTC
* * *
1249164 GCTTGCATGTATTGATACA-AAGATCAGTGTATCGATACA
1 GCCTGCATGTATCGATACATAACAT-AGTGTATCGATACA
1249203 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
GCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTAGGAAAATTC
Found at i:1249209 original size:13 final size:13
Alignment explanation
Indices: 1249191--1249215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1249181 CAAAGATCAG
1249191 TGTATCGATACAA
1 TGTATCGATACAA
1249204 TGTATCGATACA
1 TGTATCGATACA
1249216 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1249278 original size:13 final size:13
Alignment explanation
Indices: 1249260--1249343 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
1249250 AGCTTCGTAG
1249260 CGATACATTGTAT
1 CGATACATTGTAT
1249273 CGATACCAAACTTATGTAT
1 CGATA-C--A-TT--GTAT
1249292 CGATACATTGTAT
1 CGATACATTGTAT
1249305 CGATAAAACATTTATGTAT
1 CGAT---ACA--T-TGTAT
1249324 CGATACATTGTAT
1 CGATACATTGTAT
1249337 CGATACA
1 CGATACA
1249344 AGACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 25 0.42
14 2 0.03
15 2 0.03
16 8 0.14
17 2 0.03
18 2 0.03
19 18 0.31
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1249301 original size:32 final size:31
Alignment explanation
Indices: 1249260--1249362 Score: 163
Period size: 32 Copynumber: 3.2 Consensus size: 31
1249250 AGCTTCGTAG
1249260 CGATACATTGTATCGATACCAAACTTATGTAT
1 CGATACATTGTATCGATA-CAAACTTATGTAT
1249292 CGATACATTGTATCGATA-AAACATTTATGTAT
1 CGATACATTGTATCGATACAAAC--TTATGTAT
1249324 CGATACATTGTATCGATACAAGACTTATGTAT
1 CGATACATTGTATCGATACAA-ACTTATGTAT
1249356 CGATACA
1 CGATACA
1249363 AATCATTGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
30 4 0.06
32 59 0.88
33 2 0.03
34 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (31 bp):
CGATACATTGTATCGATACAAACTTATGTAT
Found at i:1249356 original size:19 final size:17
Alignment explanation
Indices: 1249268--1249365 Score: 77
Period size: 19 Copynumber: 5.9 Consensus size: 17
1249258 AGCGATACAT
1249268 TGTATCGATACCAAACTTA
1 TGTATCGATA-CAAA-TTA
1249287 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
*
1249300 TGTATCGATAAAACATTTA
1 TGTATCGATACAA-A-TTA
1249319 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
1249332 TGTATCGATACAAGACTTA
1 TGTATCGATACAA-A-TTA
1249351 TGTATCGATACAAAT
1 TGTATCGATACAAAT
1249366 CATTGAAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.32
14 2 0.03
16 4 0.06
17 1 0.02
18 4 0.06
19 33 0.51
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (17 bp):
TGTATCGATACAAATTA
Found at i:1250625 original size:84 final size:84
Alignment explanation
Indices: 1250524--1250688 Score: 276
Period size: 84 Copynumber: 2.0 Consensus size: 84
1250514 AGCAAAGCAG
* * *
1250524 AGGAGAATTTTGATTTTCTTAGTGTTTTCAGGGTTTAAACTTGAGTCATGGACGTTCGAACATCC
1 AGGAGAATTTTGATTTTCTTAGTGTTTTCAGGGTTTAAACTCGAGTCATAGACGTTCAAACATCC
1250589 ATGACAAAAGGAAAAGCTA
66 ATGACAAAAGGAAAAGCTA
* *
1250608 AGGAGAATTTTGATTTTCTTAGTGTTTTTAGGGTTTAAACTCGAGTCATAGATGTTCAAACATCC
1 AGGAGAATTTTGATTTTCTTAGTGTTTTCAGGGTTTAAACTCGAGTCATAGACGTTCAAACATCC
*
1250673 ATGACAGAAGGAAAAG
66 ATGACAAAAGGAAAAG
1250689 AGTGGTATGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (84 bp):
AGGAGAATTTTGATTTTCTTAGTGTTTTCAGGGTTTAAACTCGAGTCATAGACGTTCAAACATCC
ATGACAAAAGGAAAAGCTA
Found at i:1251741 original size:23 final size:23
Alignment explanation
Indices: 1251715--1251767 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1251705 GTGTTTTGCT
*
1251715 GAGTGTTTAAGCTGTTGAGGGAA
1 GAGTGTTTAAGCTATTGAGGGAA
*
1251738 GAGTGTTTGAGCTATTGAGGGAA
1 GAGTGTTTAAGCTATTGAGGGAA
*
1251761 GATTGTT
1 GAGTGTT
1251768 GGGGGAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.04, G:0.38, T:0.34
Consensus pattern (23 bp):
GAGTGTTTAAGCTATTGAGGGAA
Found at i:1256473 original size:76 final size:75
Alignment explanation
Indices: 1256312--1256494 Score: 197
Period size: 76 Copynumber: 2.4 Consensus size: 75
1256302 ACTTTTACAG
* * * * *
1256312 ACATGTTTTGACATAAAAGTTTCCACATGACCCTAGACTTGGTTTTAAGGCACTATGACCTAAAT
1 ACATGTTTTGACATGAAGGTTTCCACATGACCCAAGACTTGGTTTTAAGACACTATCACCTAAAT
1256377 AACACTAACA
66 AACACTAACA
* * * * * *
1256387 AGCATATTTTGACATGAAGGTTTTCATATGGCCCAAGACTTGGTTTTTGAGATACT-TCACCTAA
1 A-CATGTTTTGACATGAAGGTTTCCACATGACCCAAGACTTGG-TTTTAAGACACTATCACCTAA
** *
1256451 ATAACTTTAATGA
64 ATAACACTAA-CA
*
1256464 ACATGTTTTGGCATGAAGGTTTCCACATGAC
1 ACATGTTTTGACATGAAGGTTTCCACATGAC
1256495 TTTAGGCTCG
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
75 1 0.01
76 74 0.86
77 11 0.13
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (75 bp):
ACATGTTTTGACATGAAGGTTTCCACATGACCCAAGACTTGGTTTTAAGACACTATCACCTAAAT
AACACTAACA
Found at i:1259673 original size:20 final size:21
Alignment explanation
Indices: 1259650--1259704 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1259640 ATAATAAGGC
*
1259650 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
* **
1259670 AATGCATCGATACATGCCTGA
1 AATGTATCGATACATAACTGA
1259691 AATGTATCGATACA
1 AATGTATCGATACA
1259705 GGACCATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:1260954 original size:20 final size:19
Alignment explanation
Indices: 1260899--1260954 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1260889 AAAACCCTTA
*
1260899 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
1260919 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1260939 AATGTATCGATACATG
1 AAAGTATCGATACATG
1260955 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1261042 original size:13 final size:13
Alignment explanation
Indices: 1261024--1261049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1261014 TACACCAAGT
1261024 ATGTATCGATACA
1 ATGTATCGATACA
1261037 ATGTATCGATACA
1 ATGTATCGATACA
1261050 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1261047 original size:32 final size:33
Alignment explanation
Indices: 1261006--1261069 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1260996 TAGCCAAACT
* **
1261006 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1261038 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1261070 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1261142 original size:41 final size:42
Alignment explanation
Indices: 1261054--1261153 Score: 168
Period size: 41 Copynumber: 2.4 Consensus size: 42
1261044 GATACACAAA
**
1261054 AAAT-TGTATCGATACATTGGCTTGTAACGGCTATATTTTTC
1 AAATATGTATCGATACATTGGCTTGTAACGGCTATATTTCAC
1261095 AAATATGTATCGATACATTGGCTTGTAACGG-TATATTTCAC
1 AAATATGTATCGATACATTGGCTTGTAACGGCTATATTTCAC
1261136 AAATATGTATCGATACAT
1 AAATATGTATCGATACAT
1261154 CAAAAATTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
41 30 0.54
42 26 0.46
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (42 bp):
AAATATGTATCGATACATTGGCTTGTAACGGCTATATTTCAC
Found at i:1263884 original size:19 final size:19
Alignment explanation
Indices: 1263860--1263927 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1263850 AATTCAACGA
1263860 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1263879 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1263894 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1263911 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1263928 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1263898 original size:32 final size:32
Alignment explanation
Indices: 1263862--1263924 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1263852 TTCAACGATT
*
1263862 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1263894 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1263925 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1263899 original size:13 final size:13
Alignment explanation
Indices: 1263881--1263905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1263871 ACATAAGTTT
1263881 TGTATCGATACAA
1 TGTATCGATACAA
1263894 TGTATCGATACA
1 TGTATCGATACA
1263906 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1263985 original size:13 final size:13
Alignment explanation
Indices: 1263967--1263993 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1263957 CATTTTTCTG
1263967 TGTATCGATACAT
1 TGTATCGATACAT
1263980 TGTATCGATACAT
1 TGTATCGATACAT
1263993 T
1 T
1263994 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1266510 original size:28 final size:27
Alignment explanation
Indices: 1266442--1266510 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 27
1266432 CTTCACAATC
1266442 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCA-CA
*
1266470 -GGGATACTCCAACCCCGTTATTTC-CGA
1 GGGGATACTCCAACCCCGTTA-ATCAC-A
1266497 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1266511 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 1 0.03
27 21 0.57
28 15 0.41
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCACA
Found at i:1266552 original size:107 final size:105
Alignment explanation
Indices: 1266387--1266780 Score: 334
Period size: 107 Copynumber: 3.7 Consensus size: 105
1266377 TTCTATAATC
* *
1266387 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACTCCGGTTTTA-TTCC--AAAAACACCAATTT-TTCACAATCGGGGATACTC
1266452 CAACCCCGTTAATCATCAGGGATACTCCAACCCCGTTATTTCCGA
62 CAACCCCGTTAATCATCAGGGATACTCCAACCCCGTTA-TTCCGA
* *
1266497 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGGTTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * ** * *
1266561 ATCCTGGTTTTATTTTCA---AAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCAGGGATACTCCAA--CCCCGTTATTCCGA
* * *
1266601 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* * *
1266666 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCAGGGATACTCCAACCCCGTTA-TTCCGA
* * * * *** * * *
1266709 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1266774 CCCGTTA
66 CCCGTTA
1266781 TTTTCGAAAG
Statistics
Matches: 224, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 72 0.32
108 31 0.14
109 8 0.04
110 22 0.10
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCAGGGATACTCCAACCCCGTTATTCCGA
Found at i:1266570 original size:52 final size:51
Alignment explanation
Indices: 1266497--1266666 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
1266487 TTATTTCCGA
*
1266497 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
1266549 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
1266601 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
1266653 GAGGATACTCCAAC
1 GGGGATACTCCAAC
1266667 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:1266650 original size:104 final size:103
Alignment explanation
Indices: 1266329--1266665 Score: 299
Period size: 104 Copynumber: 3.2 Consensus size: 103
1266319 ATCAATTCTC
* * * *
1266329 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
1266393 ACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC--AAAAACACCAATTT-TT
* * * * ** * * ** * *
1266435 CACAATCGGGGATACTCCAACCCCG-TTAATCATCAGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTCA---AAACACCAATTTTCCTTTA-AT-C--
* * *
1266497 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
1266541 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
1266606 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1266646 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
1266666 CCTCGTTATT
Statistics
Matches: 179, Mismatches: 36, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
104 49 0.27
105 16 0.09
106 33 0.18
107 42 0.23
108 9 0.05
109 8 0.04
110 22 0.12
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:1266686 original size:28 final size:28
Alignment explanation
Indices: 1266650--1266726 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1266640 ATTTTTCACA
* * *
1266650 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1266678 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1266706 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1266727 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1266712 original size:212 final size:212
Alignment explanation
Indices: 1266327--1266733 Score: 622
Period size: 212 Copynumber: 1.9 Consensus size: 212
1266317 TTATCAATTC
* *
1266327 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1266392 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
1266457 CCGTTAATCATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTAT
130 CCGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
1266522 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * * *
1266540 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1266604 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
1266667 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
1266732 AT
193 AT
1266734 TCCCAAAATA
Statistics
Matches: 176, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
211 28 0.16
212 70 0.40
213 43 0.24
214 35 0.20
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:1269415 original size:15 final size:15
Alignment explanation
Indices: 1269395--1269425 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1269385 TAAAAATGTC
*
1269395 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1269410 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1269425 C
1 C
1269426 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1271526 original size:13 final size:13
Alignment explanation
Indices: 1271508--1271545 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1271498 CATTTTTCTT
1271508 TGTATCGATACAA
1 TGTATCGATACAA
*
1271521 TGTATCGATACAC
1 TGTATCGATACAA
1271534 TGTATCGATACA
1 TGTATCGATACA
1271546 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1274017 original size:20 final size:21
Alignment explanation
Indices: 1273992--1274046 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1273982 ACCCTTAAAA
* *
1273992 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAAGAT
*
1274012 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAAAAGAT
1274033 GTATCGATACATGT
1 GTATCGATACATGT
1274047 CATTGGGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:1279165 original size:47 final size:50
Alignment explanation
Indices: 1279106--1279220 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 50
1279096 TGAATAGTAC
* * *
1279106 ATGTTTTGATACACTCTGA-TTT-TTACCC-CA-TATCGATACATTTTTTA
1 ATGTATTGATACACTCT-ATTTTGTTACCCACAGTATCGATACATTATTCA
* *
1279153 ATGTATTGATACATTCTATTTTGTTACCCAGATGTATCGATACATTATTCA
1 ATGTATTGATACACTCTATTTTGTTACCCACA-GTATCGATACATTATTCA
1279204 ATGTATTGATACA-TCTA
1 ATGTATTGATACACTCTA
1279221 GTTAGTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
46 1 0.02
47 18 0.31
48 6 0.10
49 1 0.02
50 4 0.07
51 28 0.48
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (50 bp):
ATGTATTGATACACTCTATTTTGTTACCCACAGTATCGATACATTATTCA
Found at i:1284816 original size:13 final size:13
Alignment explanation
Indices: 1284798--1284823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1284788 TACACCAAGT
1284798 ATGTATCGATACA
1 ATGTATCGATACA
1284811 ATGTATCGATACA
1 ATGTATCGATACA
1284824 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1284821 original size:32 final size:33
Alignment explanation
Indices: 1284780--1284843 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1284770 TAGCCAAACT
**
1284780 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1284812 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1284844 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1287071 original size:21 final size:21
Alignment explanation
Indices: 1287038--1287087 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1287028 TTGCAAGTTG
*
1287038 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1287060 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1287081 AAATAAA
1 AAATAAA
1287088 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1291132 original size:13 final size:13
Alignment explanation
Indices: 1291114--1291139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1291104 TACACCAAGT
1291114 ATGTATCGATACA
1 ATGTATCGATACA
1291127 ATGTATCGATACA
1 ATGTATCGATACA
1291140 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1295095 original size:6 final size:6
Alignment explanation
Indices: 1295030--1295086 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
1295020 AGATGATGAA
*
1295030 GATAAT GATAAT GATAAT AATAAT GATAAT GATAAT GATAAT GATAAT
1 GATAAT GATAAT GATAAT GATAAT GATAAT GATAAT GATAAT GATAAT
1295078 GATAAT GAT
1 GATAAT GAT
1295087 GATAATGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (6 bp):
GATAAT
Done.