Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 136 of 310
Found at i:44126358 original size:82 final size:81
Alignment explanation
Indices: 44126240--44126395 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
44126230 TGCTATATAA
* *
44126240 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACGCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-GCGCA
44126305 CACGTAGTGCCGCATGG
65 CACGTAGTGCCGCATGG
* * ** * *
44126322 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAGCGCA
*
44126386 CACTTAGTGC
65 CACGTAGTGC
44126396 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.78
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAGCGCAC
ACGTAGTGCCGCATGG
Found at i:44132385 original size:40 final size:40
Alignment explanation
Indices: 44132341--44132532 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
44132331 ATAGCAACTC
*
44132341 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
44132381 GCACAAATGCCTTCGGGAT-TTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGG-TCTTAGCCCGGATATAATCACTA
44132421 GCACAAATGCCTTCGGGAT-TTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGG-TCTTAGCCCGGATATAATCACTA
* * * * * *
44132461 GCACAAATGTCTTCGGGACTTAGCCCGGGTATAGTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
*
44132501 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
44132533 TATCCATTTA
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
40 140 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
Found at i:44132573 original size:60 final size:60
Alignment explanation
Indices: 44132480--44132592 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
44132470 TCTTCGGGAC
* * *
44132480 TTAGCCCGGGTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATTATCCAT
1 TTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATTATCCAT
* *
44132540 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGATTTAGCCCGGATAT
1 TTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
44132593 AATCACTAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (60 bp):
TTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATTATCCAT
Found at i:44132593 original size:40 final size:40
Alignment explanation
Indices: 44132538--44132632 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
44132528 GATATTATCC
44132538 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGG
1 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGG
*
44132578 ATTTAGCCCGGATATAATCACTAGCACAAATGTCTTCGGG
1 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGG
*
44132618 ACTTAGCCCGGATAT
1 ATTTAGCCCGGATAT
44132633 TATCCGAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (40 bp):
ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGG
Found at i:44132615 original size:100 final size:100
Alignment explanation
Indices: 44132438--44132637 Score: 337
Period size: 100 Copynumber: 2.0 Consensus size: 100
44132428 TGCCTTCGGG
* * * *
44132438 ATTTAGCCCGGATATAATCACTAGCACAAATGTCTTCGGGACTTAGCCCGGGTATAGTAACTTGC
1 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGC
44132503 ACAAATGCCTTCGGGACTTAGCCCGGATATTATCC
66 ACAAATGCCTTCGGGACTTAGCCCGGATATTATCC
* *
44132538 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGATTTAGCCCGGATATAATCACTAGC
1 ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGC
*
44132603 ACAAATGTCTTCGGGACTTAGCCCGGATATTATCC
66 ACAAATGCCTTCGGGACTTAGCCCGGATATTATCC
44132638 GAATAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (100 bp):
ATTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGC
ACAAATGCCTTCGGGACTTAGCCCGGATATTATCC
Found at i:44134929 original size:16 final size:16
Alignment explanation
Indices: 44134908--44134942 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
44134898 ATTTAGTTTA
*
44134908 AATTTTAAAAATTCAT
1 AATTTTAAAAATTAAT
44134924 AATTTTAAAAATTAAT
1 AATTTTAAAAATTAAT
44134940 AAT
1 AAT
44134943 ATATTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTTAAAAATTAAT
Found at i:44135526 original size:31 final size:31
Alignment explanation
Indices: 44135462--44135529 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
44135452 GTAGAGCGAT
*
44135462 TAAAATTGACAACTTATCTAACGGGAGTAAC
1 TAAAATTGACAACTTATCTAACGAGAGTAAC
* *
44135493 TAAAATTGACAACTTAT-TAAATGAGAGTGAC
1 TAAAATTGACAACTTATCT-AACGAGAGTAAC
44135524 TAAAAT
1 TAAAAT
44135530 AACAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.28
Consensus pattern (31 bp):
TAAAATTGACAACTTATCTAACGAGAGTAAC
Found at i:44149953 original size:20 final size:21
Alignment explanation
Indices: 44149899--44149956 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
44149889 TGTTACATGC
* **
44149899 ATGAATAAATTTTATTACATTT
1 ATGAATAAATTTTA-AATTTTT
44149921 ATGAATAAATTTTAAATTTTT
1 ATGAATAAATTTTAAATTTTT
44149942 ATGAAT-AATTTTAAA
1 ATGAATAAATTTTAAA
44149957 AATTGTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.27
21 10 0.30
22 14 0.42
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
ATGAATAAATTTTAAATTTTT
Found at i:44154332 original size:19 final size:20
Alignment explanation
Indices: 44154292--44154339 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44154282 TATAAAAATG
* *
44154292 TTCAAAACAATTTTTAAAAA
1 TTCAAAATAACTTTTAAAAA
44154312 TTCAAAATAACTTTT-AAAA
1 TTCAAAATAACTTTTAAAAA
*
44154331 TTTAAAATA
1 TTCAAAATA
44154340 TTTATAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
TTCAAAATAACTTTTAAAAA
Found at i:44155504 original size:10 final size:9
Alignment explanation
Indices: 44155479--44155503 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44155469 GCTTCTTGGC
44155479 AAAAAAAGA
1 AAAAAAAGA
44155488 AAAAAAAGA
1 AAAAAAAGA
44155497 AAAAAAA
1 AAAAAAA
44155504 AAGGAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:44156792 original size:43 final size:45
Alignment explanation
Indices: 44156739--44156871 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 45
44156729 GAGATATGTG
44156739 GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATGGATGCG-A-
1 GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATGGATGCGTAT
* *
44156782 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGCGATTCAT
1 GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATGGATGCG--T-AT
* *
44156830 GTAACATCCGAGCTTGTTGAGAGATCCGAGTTCATTATGGAT
1 G---CATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATGGAT
44156872 ATGCTACATG
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 40 0.53
47 1 0.01
48 1 0.01
51 34 0.45
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (45 bp):
GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATGGATGCGTAT
Found at i:44156882 original size:51 final size:51
Alignment explanation
Indices: 44156783--44156882 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
44156773 TGGATGCGAG
* * * *
44156783 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGCGATTCATGTAA
1 CATCCGAGCTCGTTGAGAGATCCGAGTTCATAATGGATACGATACATGTAA
* * * *
44156834 CATCCGAGCTTGTTGAGAGATCCGAGTTCATTATGGATATGCTACATGT
1 CATCCGAGCTCGTTGAGAGATCCGAGTTCATAATGGATACGATACATGT
44156883 TATGTGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGATCCGAGTTCATAATGGATACGATACATGTAA
Found at i:44165399 original size:29 final size:29
Alignment explanation
Indices: 44165366--44165465 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
44165356 TGAATATGAC
*
44165366 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
44165395 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
44165424 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
44165452 TGGGCTTAATGGGC
1 TGGGCCTAATGGGC
44165466 TAGATACAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 14 0.22
29 49 0.78
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:44165438 original size:58 final size:57
Alignment explanation
Indices: 44165366--44165476 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
44165356 TGAATATGAC
* *
44165366 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
44165424 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
44165477 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:44174539 original size:22 final size:22
Alignment explanation
Indices: 44174488--44174539 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
44174478 ATGGGAATAA
* *
44174488 GTATGGGACTGTTGTAGTGGAG
1 GTATGGGGCTATTGTAGTGGAG
*
44174510 GTATGGGGCTATTGTAGTGGGG
1 GTATGGGGCTATTGTAGTGGAG
44174532 GTATGGGG
1 GTATGGGG
44174540 TTTGGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.50, T:0.31
Consensus pattern (22 bp):
GTATGGGGCTATTGTAGTGGAG
Found at i:44183744 original size:30 final size:30
Alignment explanation
Indices: 44183659--44183746 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
44183649 TAAACTAAAA
* *
44183659 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
44183689 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
44183719 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
44183747 TATGAGTTAG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:44192125 original size:49 final size:50
Alignment explanation
Indices: 44192053--44192298 Score: 309
Period size: 51 Copynumber: 4.9 Consensus size: 50
44192043 NNNNNNNNNN
*
44192053 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA-T
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAGT
*
44192102 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAGT
* ** * *
44192153 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAGT
* ** * * *
44192204 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAGT
* *
44192253 TAT-TCGGTACACGTAGTAGCCTACGCTTAGTACTACACACGTGACC
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
44192299 TCACAATAGA
Statistics
Matches: 177, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 81 0.46
50 6 0.03
51 90 0.51
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAGT
Found at i:44192575 original size:27 final size:27
Alignment explanation
Indices: 44192545--44192598 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44192535 TCATACAACC
* *
44192545 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
44192572 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
44192599 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:44197352 original size:93 final size:93
Alignment explanation
Indices: 44197239--44197410 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44197229 GCCCATAAGT
* * *
44197239 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
44197304 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
44197332 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
44197397 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44197411 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44197406 original size:46 final size:46
Alignment explanation
Indices: 44197231--44197406 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44197221 TGTAACCCGC
* * * * *
44197231 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
* *
44197277 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-C---TCACAT
* *
44197327 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
44197370 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44197407 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 65 0.59
47 30 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
Found at i:44197425 original size:46 final size:45
Alignment explanation
Indices: 44197282--44197425 Score: 157
Period size: 46 Copynumber: 3.1 Consensus size: 45
44197272 CGCATCCATA
* *
44197282 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
44197330 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-ACATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
44197375 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
44197421 AGTGA
1 AGTGA
44197426 CATGTCACTT
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
43 5 0.06
45 1 0.01
46 37 0.46
47 31 0.39
48 6 0.08
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:44200170 original size:403 final size:402
Alignment explanation
Indices: 44199424--44200226 Score: 1383
Period size: 403 Copynumber: 2.0 Consensus size: 402
44199414 GATGAACACA
44199424 TTTTTGTGTTATTTTTCCCATTTTATTTCATTTATTATGCAAATGACCAAAATGCCCTTACTACT
1 TTTTTGTGTTATTTTTCCCATTTTATTTCATTTATTATGCAAATGACCAAAATGCCCTTACTACT
* *
44199489 AAACTTTCTAAAAATTCTATCCAAGTCCAAATTTTTGTCCATATAAAGTATAATGGTCTAATTTC
66 AAACTTTCTAAAAATTCCATCCAAGTCCAAATATTTGTCCATATAAAGTATAATGGTCTAATTTC
*
44199554 CATTTAAGGACCTATACTTAAAACCCCCATTTCAATCAAGTACTTTATGAACTAGAACACACATT
131 CATTTAAGGACATATACTTAAAACCCCCATTTCAATCAAGTACTTTATGAACTAGAACACACATT
* *
44199619 TTTCACATATTTCAATTTAGTCCTAAACATCAAATTAAACACCTAATCGATAAAATTTTGCAACG
196 TTTCACATATTTCAATTTAGTCCTAAACATCAAATTAAACACCCAATCGATAAAATTTCGCAACG
* * *
44199684 AAATTTTCACACGATTATGCAATCATAATATAAACACTAAAACTTAATCAAAATAGTTTTAATTT
261 AAATTTTCACACGATTATGAAATCATAATATAAACACCAAAACTTAATCAAAATAATTTTAATTT
* * * *
44199749 TTTAATTTTTTTTCAACCTCAGATTCGTGGTTTCGAAACCATTGTTTCGTTTTGGCCCTAAATCG
326 TATAATTTTTTTTCAACCTCAGATTCGTGGTTTCGAAACCACTATTTCATTTTGGCCCTAAATCG
44199814 GGCTGTTACAAT
391 GGCTGTTACAAT
* *
44199826 TTTTTGTGTTATTTTTCTCATTTTATTTCATTTATTATGCAAATGGCCAAAATGCCCTTACTACT
1 TTTTTGTGTTATTTTTCCCATTTTATTTCATTTATTATGCAAATGACCAAAATGCCCTTACTACT
*
44199891 AAACTTTCTAAAAATTCCATCCATGTCCAAATATTTGTCCATATAAAGTATAATGGTCTAA-TTC
66 AAACTTTCTAAAAATTCCATCCAAGTCCAAATATTTGTCCATATAAAGTATAATGGTCTAATTTC
* *
44199955 CATTTAAGGACATCTACTTAAAACCCCCATTTCAATCATGTACTTTATGAACTAGAACACACACA
131 CATTTAAGGACATATACTTAAAACCCCCATTTCAATCAAGTACTTTATGAACTAG-A-ACACACA
* * *
44200020 TTTTTCACCTATTTCAATTTAGTCCTTAACATCAAATTAAACACCCAATCGATCAAATTTCGCAA
194 TTTTTCACATATTTCAATTTAGTCCTAAACATCAAATTAAACACCCAATCGATAAAATTTCGCAA
44200085 CGAAATTTTCACACGATTATGAAATCATAATATAAACACCAAAACTTAATCAAAATAATTTTAAT
259 CGAAATTTTCACACGATTATGAAATCATAATATAAACACCAAAACTTAATCAAAATAATTTTAAT
* *
44200150 TTTATAATTTTTTTTCAACCTCGGATTCGTGGTTTCGAAACCACTATTTTATTTTGGCCCTAAAT
324 TTTATAATTTTTTTTCAACCTCAGATTCGTGGTTTCGAAACCACTATTTCATTTTGGCCCTAAAT
44200215 CGGGCTGTTACA
389 CGGGCTGTTACA
44200227 TAAAAGTACC
Statistics
Matches: 377, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
401 55 0.15
402 122 0.32
403 200 0.53
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (402 bp):
TTTTTGTGTTATTTTTCCCATTTTATTTCATTTATTATGCAAATGACCAAAATGCCCTTACTACT
AAACTTTCTAAAAATTCCATCCAAGTCCAAATATTTGTCCATATAAAGTATAATGGTCTAATTTC
CATTTAAGGACATATACTTAAAACCCCCATTTCAATCAAGTACTTTATGAACTAGAACACACATT
TTTCACATATTTCAATTTAGTCCTAAACATCAAATTAAACACCCAATCGATAAAATTTCGCAACG
AAATTTTCACACGATTATGAAATCATAATATAAACACCAAAACTTAATCAAAATAATTTTAATTT
TATAATTTTTTTTCAACCTCAGATTCGTGGTTTCGAAACCACTATTTCATTTTGGCCCTAAATCG
GGCTGTTACAAT
Found at i:44200727 original size:43 final size:43
Alignment explanation
Indices: 44200658--44200781 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 43
44200648 CATAAACAGG
* * * * * *
44200658 TACAATGCCGAAGTCCCGGACGTGGTCTTACATGTAACTCT-G-
1 TACAATGCCTATGTCCCAGACATGGTCTTACACGTAAAT-TAGA
*
44200700 TATCAATGCCTCTGTCCCAGACATGGTCTTACACG-AAATTAGA
1 TA-CAATGCCTATGTCCCAGACATGGTCTTACACGTAAATTAGA
* *
44200743 TACGATGCCTATGTCCCAAACATGGTCTTACACGTAAAT
1 TACAATGCCTATGTCCCAGACATGGTCTTACACGTAAAT
44200782 CTCAAATCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 35 0.51
43 32 0.47
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TACAATGCCTATGTCCCAGACATGGTCTTACACGTAAATTAGA
Found at i:44206208 original size:94 final size:92
Alignment explanation
Indices: 44206011--44206230 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 92
44206001 TTAAGATACC
* * * *
44206011 GACGCCATGTCCCAGACATGGTCTTACATTGGCTTACGTATAGAGAGGCTGATGCCATGTCCCAG
1 GACGCCATGTCCAAGACA-GGTCTTACACTAGCTTA-GTATAGAGAGGCCGATGCCATGTCCCAG
**
44206076 ACATGTCTTACATTAACACACAACAAGCT
64 ACATGTCTTACACCAACACACAACAAGCT
* *
44206105 GACGCCATGTCCTAGACAGGTCTTACACTAGCTT-GTATATCGCGAGGCCGATG-CATGTCCCAG
1 GACGCCATGTCCAAGACAGGTCTTACACTAGCTTAGTATA--GAGAGGCCGATGCCATGTCCCAG
* * *
44206168 ACATGTCTTACACCAACTCTCACACTATGGCT
64 ACATGTCTTACACCAACACACA-AC-A-AGCT
* *
44206200 GATG-CATGTCCAAGACATGTCTTACACTAGC
1 GACGCCATGTCCAAGACAGGTCTTACACTAGC
44206231 ACAGATATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 5 0.05
92 28 0.26
93 26 0.24
94 43 0.40
95 6 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (92 bp):
GACGCCATGTCCAAGACAGGTCTTACACTAGCTTAGTATAGAGAGGCCGATGCCATGTCCCAGAC
ATGTCTTACACCAACACACAACAAGCT
Found at i:44226680 original size:49 final size:49
Alignment explanation
Indices: 44226575--44226697 Score: 156
Period size: 49 Copynumber: 2.5 Consensus size: 49
44226565 GGGTTAAGAT
* * *
44226575 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTTACGTATAGCAAG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCACATATAGCAAG
* * * * *
44226625 GCCGATGCCATGTCCCATACAGGTCTTACACTGGCTCGCATCTATCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACATATAGCAAG
*
44226674 GTCGATGCCATGTCCCAGACAGGT
1 GCCGATGCCATGTCCCAGACAGGT
44226698 AAGCTGACGC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 43 0.68
50 20 0.32
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCACATATAGCAAG
Found at i:44226877 original size:48 final size:47
Alignment explanation
Indices: 44226708--44226873 Score: 192
Period size: 48 Copynumber: 3.5 Consensus size: 47
44226698 AAGCTGACGC
* * * *
44226708 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATATCTCGAGGCTGATG
* * * *
44226756 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-T-TCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TAATATCTCGAGGCTGATG
* * *
44226802 CATGCCCCAGACATGTATTACACTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATATCTCGAGGCTGATG
44226850 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
44226874 GGCTCTCATG
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 35 0.36
47 2 0.02
48 59 0.60
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAATATCTCGAGGCTGATG
Found at i:44233295 original size:16 final size:17
Alignment explanation
Indices: 44233255--44233310 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
44233245 ATGGAATCAA
44233255 AATTAAGTTGAGAAAATT
1 AATTAA-TTGAGAAAATT
44233273 -ATGTAATTG-GAAAATT
1 AAT-TAATTGAGAAAATT
* *
44233289 AATTAATTAATTAAAATT
1 AATTAATTGA-GAAAATT
44233307 AATT
1 AATT
44233311 TATGATGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 12 0.38
17 7 0.22
18 13 0.41
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
AATTAATTGAGAAAATT
Found at i:44234596 original size:35 final size:35
Alignment explanation
Indices: 44234557--44234624 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
44234547 TGGTCATTTG
* *
44234557 GGGCGACACCGTGTAAATGGTATACATGTCCTTTA
1 GGGCGACACCATGTAAATGGTATACATATCCTTTA
*
44234592 GGGCGACATCATGTAAATGGTATACATATCCTT
1 GGGCGACACCATGTAAATGGTATACATATCCTT
44234625 CGGGGCAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (35 bp):
GGGCGACACCATGTAAATGGTATACATATCCTTTA
Found at i:44236140 original size:26 final size:26
Alignment explanation
Indices: 44236081--44236140 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
44236071 CAAGAAGTTT
*
44236081 TACACAACTTTGAGATATTGTTATTC
1 TACACAAATTTGAGATATTGTTATTC
* *
44236107 TATACAAATTTGAGATATTGTTATTG
1 TACACAAATTTGAGATATTGTTATTC
*
44236133 TACCCAAA
1 TACACAAA
44236141 AATAGTGAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (26 bp):
TACACAAATTTGAGATATTGTTATTC
Found at i:44239582 original size:48 final size:51
Alignment explanation
Indices: 44239467--44239612 Score: 145
Period size: 48 Copynumber: 2.8 Consensus size: 51
44239457 ATTAGGGTTT
* * * * *
44239467 AAGGATACCATATAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGG
1 AAGGATACCATGTAAGACCATGACAAGACATGGACA-TGGTAA-GTTTCTAA-G
* * *
44239521 CAAGGAAATCATGTAAGACCATGTCAAGACATGG-CATGGTAAGTTTC-AA-
1 -AAGGATACCATGTAAGACCATGACAAGACATGGACATGGTAAGTTTCTAAG
* *
44239570 AAGGATACCATGTAAGACCATGACAAGTCATGGCCATGGTAAG
1 AAGGATACCATGTAAGACCATGACAAGACATGGACATGGTAAG
44239613 GTACCCATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
48 29 0.37
49 9 0.11
51 2 0.03
52 5 0.06
53 6 0.08
54 1 0.01
55 27 0.34
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (51 bp):
AAGGATACCATGTAAGACCATGACAAGACATGGACATGGTAAGTTTCTAAG
Found at i:44239965 original size:16 final size:16
Alignment explanation
Indices: 44239944--44239974 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44239934 ATAAATTTGA
44239944 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
44239960 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
44239975 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:44240289 original size:55 final size:53
Alignment explanation
Indices: 44240202--44240455 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
44240192 ATTAGGGTTT
* * * *
44240202 AAGGATACCATATAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCTAAGGC
* * * * *
44240257 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
44240312 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
44240365 AAGGACACCATGTAAGACCATGTCAAGACATGGCA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* *
44240413 AAGGATACCATGTAAGACCATGACAAGTCATGGCCA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAAG
44240456 GTACCCATGT
Statistics
Matches: 165, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
48 30 0.18
49 9 0.05
51 2 0.01
52 11 0.07
53 37 0.22
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:44240668 original size:16 final size:16
Alignment explanation
Indices: 44240647--44240677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44240637 ATAAATTTGA
44240647 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
44240663 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
44240678 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:44241422 original size:21 final size:21
Alignment explanation
Indices: 44241396--44241438 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44241386 CCTTATTGAG
44241396 TCTAATTTTAAAGAAAATAAA
1 TCTAATTTTAAAGAAAATAAA
44241417 TCTAATTTTAAAGAAAATAAA
1 TCTAATTTTAAAGAAAATAAA
44241438 T
1 T
44241439 GGCATGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TCTAATTTTAAAGAAAATAAA
Found at i:44241773 original size:42 final size:42
Alignment explanation
Indices: 44241709--44241798 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
44241699 AGTAAATTGT
*
44241709 TTTGATTTGTTTAAGTGATCGGAAAGTTTTTATTGATTCCGG
1 TTTGTTTTGTTTAAGTGATCGGAAAGTTTTTATTGATTCCGG
44241751 TTTGTTTTGTTTAAGTGATCGGAAAGTTTTTATTGATTCCGG
1 TTTGTTTTGTTTAAGTGATCGGAAAGTTTTTATTGATTCCGG
44241793 TTTGTT
1 TTTGTT
44241799 CTCGAACCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.07, G:0.23, T:0.51
Consensus pattern (42 bp):
TTTGTTTTGTTTAAGTGATCGGAAAGTTTTTATTGATTCCGG
Found at i:44243606 original size:15 final size:15
Alignment explanation
Indices: 44243583--44243631 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
44243573 TACCAAAAAG
*
44243583 CCAAGATGGAGAAAT
1 CCAAAATGGAGAAAT
**
44243598 CCAAAATGGAGAAGC
1 CCAAAATGGAGAAAT
**
44243613 CCAAAATAAAGAAAT
1 CCAAAATGGAGAAAT
44243628 CCAA
1 CCAA
44243632 GATAAATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.10
Consensus pattern (15 bp):
CCAAAATGGAGAAAT
Found at i:44243636 original size:15 final size:15
Alignment explanation
Indices: 44243613--44243661 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
44243603 ATGGAGAAGC
*
44243613 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
*
44243628 CCAAGATAAATAAAT
1 CCAAGATAAAGAAAT
* *
44243643 CCATGATAAGGAAAT
1 CCAAGATAAAGAAAT
44243658 CCAA
1 CCAA
44243662 ATTACAGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.16, G:0.10, T:0.16
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:44251481 original size:25 final size:26
Alignment explanation
Indices: 44251453--44251518 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
44251443 TACAGCTCTT
* *
44251453 ATGAGCTTCCCGTTACATGGCTC-AC
1 ATGAGCTTCCCGTTACATGGATCGAA
*
44251478 ATGAGCTTCCCGTTATATGGATCGAA
1 ATGAGCTTCCCGTTACATGGATCGAA
44251504 ATAGAGCTTCCCGTT
1 AT-GAGCTTCCCGTT
44251519 TAAGTGCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 21 0.58
26 3 0.08
27 12 0.33
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (26 bp):
ATGAGCTTCCCGTTACATGGATCGAA
Found at i:44254959 original size:29 final size:29
Alignment explanation
Indices: 44254917--44254987 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
44254907 ATTATTGACC
44254917 AATGAAAAGGGATAGCTTCAGCTACCGAA
1 AATGAAAAGGGATAGCTTCAGCTACCGAA
** *
44254946 AATGAAAAGGGATAGCTTTGGCTATCGAA
1 AATGAAAAGGGATAGCTTCAGCTACCGAA
*
44254975 TATGAAAAGGGAT
1 AATGAAAAGGGAT
44254988 GGTGACGACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (29 bp):
AATGAAAAGGGATAGCTTCAGCTACCGAA
Found at i:44255007 original size:29 final size:29
Alignment explanation
Indices: 44254975--44255144 Score: 218
Period size: 29 Copynumber: 5.9 Consensus size: 29
44254965 GGCTATCGAA
44254975 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
44255004 TATGAAAAGGGAAGGTGACGACCATCGAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * * * *
44255033 TTTGAAAAGGGATAGCT-TCGGCTATCAAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
44255062 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
44255091 TATGAAAAGGGATGGTGACGACCATCGAA-
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* *
44255120 TATGAAAAGGGATGGTTACAACCAT
1 TATGAAAAGGGATGGTGACGACCAT
44255145 TGTTTAGCAC
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 114 0.95
30 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:44255066 original size:87 final size:87
Alignment explanation
Indices: 44254942--44255132 Score: 321
Period size: 87 Copynumber: 2.2 Consensus size: 87
44254932 CTTCAGCTAC
* *
44254942 CGAAAATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGATGGTGACGACCATCAACTAT
1 CGAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATGGTGACGACCATCAACTAT
44255007 GAAAAGGGAAGGTGACGACCAT
66 GAAAAGGGAAGGTGACGACCAT
* *
44255029 CGACTTTGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGGTGACGACCATCAACTA
1 CGAATATGAAAAGGGATAGCTTCGGCTATCGAA-TATGAAAAGGGATGGTGACGACCATCAACTA
*
44255093 TGAAAAGGGATGGTGACGACCAT
65 TGAAAAGGGAAGGTGACGACCAT
44255116 CGAATATGAAAAGGGAT
1 CGAATATGAAAAGGGAT
44255133 GGTTACAACC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.02
87 94 0.98
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (87 bp):
CGAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATGGTGACGACCATCAACTAT
GAAAAGGGAAGGTGACGACCAT
Found at i:44264652 original size:25 final size:25
Alignment explanation
Indices: 44264624--44264671 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
44264614 CCTATTTGTC
44264624 TATGG-TATGTGATAATGTCTTGTGA
1 TATGGTTATGTGATAATG-CTTGTGA
*
44264649 TATGGTTATGTGATTATGCTTGT
1 TATGGTTATGTGATAATGCTTGT
44264672 TCACTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (25 bp):
TATGGTTATGTGATAATGCTTGTGA
Found at i:44267424 original size:16 final size:15
Alignment explanation
Indices: 44267381--44267426 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
44267371 TATCATCATC
*
44267381 TCATATTTTCATATA
1 TCATATTTTCATGTA
*
44267396 TCA-ATTATCATGTA
1 TCATATTTTCATGTA
44267410 TCATCATTTTCATGTA
1 TCAT-ATTTTCATGTA
44267426 T
1 T
44267427 TTCATGTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.50
Consensus pattern (15 bp):
TCATATTTTCATGTA
Found at i:44268472 original size:21 final size:21
Alignment explanation
Indices: 44268446--44268497 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44268436 TATACGAGTA
44268446 AATTTAACATCAATTTAATAC
1 AATTTAACATCAATTTAATAC
* *
44268467 AATTTAA-ACTCAATTTAGTCC
1 AATTTAACA-TCAATTTAATAC
44268488 AATTT-ACATC
1 AATTTAACATC
44268498 TTAGACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTTAACATCAATTTAATAC
Found at i:44269087 original size:5 final size:5
Alignment explanation
Indices: 44269077--44269122 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
44269067 ATATTTAAAA
44269077 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
44269123 GGCACAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:44270604 original size:21 final size:20
Alignment explanation
Indices: 44270570--44270627 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
44270560 GTTTTGTTTA
44270570 TTTATTTATTTATTTCATGT
1 TTTATTTATTTATTTCATGT
* *
44270590 TTTATTTCTTTTATTTTATGT
1 TTTATTT-ATTTATTTCATGT
44270611 TATTATATTATTATATT
1 T-TTAT-TTATT-TATT
44270628 ATATTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 6 0.19
23 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTATTTCATGT
Found at i:44274579 original size:38 final size:38
Alignment explanation
Indices: 44274528--44274612 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
44274518 TGTCCAACCT
44274528 TACACTCCATGTGGGGATAAAATCAACCCACCCATACC
1 TACACTCCATGTGGGGATAAAATCAACCCACCCATACC
*
44274566 TACACTCCATGTGGGGATAAAATCAACCTACCCATACC
1 TACACTCCATGTGGGGATAAAATCAACCCACCCATACC
44274604 TACACTCCA
1 TACACTCCA
44274613 ACTAGTACCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (38 bp):
TACACTCCATGTGGGGATAAAATCAACCCACCCATACC
Found at i:44277917 original size:47 final size:45
Alignment explanation
Indices: 44277842--44278043 Score: 135
Period size: 47 Copynumber: 4.4 Consensus size: 45
44277832 CGTTATCTCA
* * *
44277842 AGACATGGTCCTACATTGGCTCAT-ATCTCAAGTCAATGCTATGTCCC
1 AGACATGGTCTTACACTGACT-ATCATCTC-AGTCAATGC-ATGTCCC
* * *
44277889 AGACATGGTCTTACACTGACTATCATCTC-GTAGCTGATGCATTTGCC
1 AGACATGGTCTTACACTGACTATCATCTCAGT--C-AATGCATGTCCC
* * *
44277936 AGACAT-GTCTTACACT-AGCTCTCGTCTCTGTCAATGCCATGTCCC
1 AGACATGGTCTTACACTGA-CTATCATCTCAGTCAATG-CATGTCCC
* * * ** * *
44277981 AGACATGGTCTTACATTGGCTATCATAATGTGGCCGATGCATGTCCC
1 AGACATGGTCTTACACTGACTATCAT-CT-CAGTCAATGCATGTCCC
44278028 AGACAT-GTCTTACACT
1 AGACATGGTCTTACACT
44278044 AACCAATAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 23
0.74 0.13 0.14
Matches are distributed among these distances:
44 3 0.02
45 16 0.13
46 43 0.35
47 52 0.42
48 9 0.07
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (45 bp):
AGACATGGTCTTACACTGACTATCATCTCAGTCAATGCATGTCCC
Found at i:44278030 original size:92 final size:92
Alignment explanation
Indices: 44277873--44278044 Score: 256
Period size: 92 Copynumber: 1.9 Consensus size: 92
44277863 CATATCTCAA
* * * * *
44277873 GTCAATGCTATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCTGATGCATTTGCCAG
1 GTCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAG
44277938 ACATGTCTTACACTAGCTCTCGTCTCT
66 ACATGTCTTACACTAGCTCTCGTCTCT
* * *
44277965 GTCAATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATAAT-GTGGCCGATGCATGTCCCA
1 GTCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCA
44278029 GACATGTCTTACACTA
65 GACATGTCTTACACTA
44278045 ACCAATAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 70 0.99
93 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (92 bp):
GTCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCTCTCGTCTCT
Found at i:44278038 original size:46 final size:45
Alignment explanation
Indices: 44277877--44278043 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
44277867 TCTCAAGTCA
* *
44277877 ATGCTATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCTG
1 ATGC-ATGTCCCAGACATGGTCTTACACTGGCTATCATCT-GT-GCCG
* * * * * * * *
44277925 ATGCATTTGCCAGACAT-GTCTTACACTAGCTCTCGTCTCTGTCA
1 ATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTGCCG
* *
44277969 ATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATAATGTGGCCG
1 ATG-CATGTCCCAGACATGGTCTTACACTGGCTATCAT-CTGT-GCCG
44278017 ATGCATGTCCCAGACAT-GTCTTACACT
1 ATGCATGTCCCAGACATGGTCTTACACT
44278044 AACCAATAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
44 4 0.04
45 13 0.14
46 41 0.44
47 27 0.29
48 9 0.10
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTGCCG
Found at i:44285476 original size:47 final size:48
Alignment explanation
Indices: 44285403--44285665 Score: 164
Period size: 46 Copynumber: 5.6 Consensus size: 48
44285393 AGTAAGGTGC
*
44285403 CGATGCCATGTCCC-AACATGGTCTTACACT-AGT-TCATATCTCA-AGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATC--ATCTCATAGT
*
44285449 CGTTGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCATAGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCATAGT
* * *
44285497 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGA-CTCGA-GGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTAT-C-ATCTC-ATAGT
* * *
44285543 TGATG-CATGTCCCAAACAT-GTCTTACACT-AGCTCTCGTCTCA-A-T
1 CGATGCCATGTCCCAAACATGGTCTTACACTGA-CTATCATCTCATAGT
* * * * * * * * * *
44285587 GCTGACGCAATGTCCCAGACATAGTCTTACACTGGCTCTCATAAT-GTGGC
1 -C-GATGCCATGTCCCAAACATGGTCTTACACTGACTATCAT-CTCATAGT
44285637 CGATG-CATGTCCCAAACAT-GTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
44285666 AGCCAACAAC
Statistics
Matches: 175, Mismatches: 24, Indels: 36
0.74 0.10 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 78 0.45
47 62 0.35
48 28 0.16
49 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCATAGT
Found at i:44285548 original size:46 final size:46
Alignment explanation
Indices: 44285455--44285665 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 46
44285445 AAGTCGTTGC
* * * *
44285455 CATGTCCCAAACATGGTCTTACACTGACTATC-ATCTCATAGTC-GATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCGA-CTCA-AGGCTGATG
* *
44285502 CATGTCCCAGACATGTCTTACACTGGCT-TACGACTCGAGGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CGACTCAAGGCTGATG
* * * * *
44285548 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGACG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCGACTCAAGGCTGATG
*
44285594 CAATGTCCCAGACATAGTCTTACACTGGCTCTC-A-T-AATGTGGCCGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGGCTCTCGACTCAA---GGCTGATG
*
44285642 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
44285666 AGCCAACAAC
Statistics
Matches: 136, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.04
46 70 0.51
47 39 0.29
48 22 0.16
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCGACTCAAGGCTGATG
Found at i:44285651 original size:94 final size:92
Alignment explanation
Indices: 44285455--44285668 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 92
44285445 AAGTCGTTGC
*
44285455 CATGTCCCAAACATGGTCTTACACT-GACTATCATCTCATAGTCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACAT-GTCTTACACTAG-CTATCATCTCATAGTCGACGCATGTCCCAGACATGTC
* **
44285519 TTACACTGGCTTACGACTCGAGGTTGATG
64 TTACACTGGCTTACGAATCGAGGCCGATG
* *
44285548 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCA-A-TGCTGACGCAATGTCCCAGACATAG
1 CATGTCCCAAACATGTCTTACACTAGCTATCATCTCATAGT-C-GACGC-ATGTCCCAGACAT-G
* *
44285611 TCTTACACTGGCTCT-CATAAT-GTGGCCGATG
62 TCTTACACTGGCT-TAC-GAATCGAGGCCGATG
44285642 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
44285669 CAACAACAAC
Statistics
Matches: 106, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
90 1 0.01
91 2 0.02
92 23 0.22
93 28 0.26
94 49 0.46
95 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
CATGTCCCAAACATGTCTTACACTAGCTATCATCTCATAGTCGACGCATGTCCCAGACATGTCTT
ACACTGGCTTACGAATCGAGGCCGATG
Found at i:44297553 original size:349 final size:349
Alignment explanation
Indices: 44296914--44297615 Score: 1404
Period size: 349 Copynumber: 2.0 Consensus size: 349
44296904 ACAGTCATGC
44296914 ATATGAATCAACCTATTTGGTACCATTTCAAGTCATTTATAAGCAACCAAAACCCACCAAAACAT
1 ATATGAATCAACCTATTTGGTACCATTTCAAGTCATTTATAAGCAACCAAAACCCACCAAAACAT
44296979 ACACATAACATACCATATATAATCAACCATTTCAACTAATCATTTCCATATTCAAATTATACCAA
66 ACACATAACATACCATATATAATCAACCATTTCAACTAATCATTTCCATATTCAAATTATACCAA
44297044 ATCATTATGCCAAAATCATCATAACTTGCATATATTCCCTATTCACTAATTTATCATAATATTAT
131 ATCATTATGCCAAAATCATCATAACTTGCATATATTCCCTATTCACTAATTTATCATAATATTAT
44297109 CTATTTCATAACACAAAACTCATCATATCATCATCTCAAACCAGACCAATTCATAATGCATTATA
196 CTATTTCATAACACAAAACTCATCATATCATCATCTCAAACCAGACCAATTCATAATGCATTATA
44297174 TACATCACATATAACACTTACCAAACACTTAATTCAAGCCAACTTAAATGGTTATACATACTACA
261 TACATCACATATAACACTTACCAAACACTTAATTCAAGCCAACTTAAATGGTTATACATACTACA
44297239 TTTACAAGCCAAATCTCATGGCTA
326 TTTACAAGCCAAATCTCATGGCTA
44297263 ATATGAATCAACCTATTTGGTACCATTTCAAGTCATTTATAAGCAACCAAAACCCACCAAAACAT
1 ATATGAATCAACCTATTTGGTACCATTTCAAGTCATTTATAAGCAACCAAAACCCACCAAAACAT
44297328 ACACATAACATACCATATATAATCAACCATTTCAACTAATCATTTCCATATTCAAATTATACCAA
66 ACACATAACATACCATATATAATCAACCATTTCAACTAATCATTTCCATATTCAAATTATACCAA
44297393 ATCATTATGCCAAAATCATCATAACTTGCATATATTCCCTATTCACTAATTTATCATAATATTAT
131 ATCATTATGCCAAAATCATCATAACTTGCATATATTCCCTATTCACTAATTTATCATAATATTAT
44297458 CTATTTCATAACACAAAACTCATCATATCATCATCTCAAACCAGACCAATTCATAATGCATTATA
196 CTATTTCATAACACAAAACTCATCATATCATCATCTCAAACCAGACCAATTCATAATGCATTATA
44297523 TACATCACATATAACACTTACCAAACACTTAATTCAAGCCAACTTAAATGGTTATACATACTACA
261 TACATCACATATAACACTTACCAAACACTTAATTCAAGCCAACTTAAATGGTTATACATACTACA
44297588 TTTACAAGCCAAATCTCATGGCTA
326 TTTACAAGCCAAATCTCATGGCTA
44297612 ATAT
1 ATAT
44297616 CAAGACTCAA
Statistics
Matches: 353, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
349 353 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (349 bp):
ATATGAATCAACCTATTTGGTACCATTTCAAGTCATTTATAAGCAACCAAAACCCACCAAAACAT
ACACATAACATACCATATATAATCAACCATTTCAACTAATCATTTCCATATTCAAATTATACCAA
ATCATTATGCCAAAATCATCATAACTTGCATATATTCCCTATTCACTAATTTATCATAATATTAT
CTATTTCATAACACAAAACTCATCATATCATCATCTCAAACCAGACCAATTCATAATGCATTATA
TACATCACATATAACACTTACCAAACACTTAATTCAAGCCAACTTAAATGGTTATACATACTACA
TTTACAAGCCAAATCTCATGGCTA
Found at i:44297808 original size:16 final size:16
Alignment explanation
Indices: 44297780--44297821 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
44297770 AAATACACAC
44297780 AGTAAGCTTCATAGCTT-
1 AGTAAG-TTCATAG-TTA
44297797 AGTAAGTTCATAGTTA
1 AGTAAGTTCATAGTTA
44297813 AGTAA-TTCA
1 AGTAAGTTCA
44297822 ATTCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (16 bp):
AGTAAGTTCATAGTTA
Found at i:44300043 original size:39 final size:40
Alignment explanation
Indices: 44299948--44300209 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
44299938 TTGAATGATG
*
44299948 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44299986 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44300027 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
44300066 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44300105 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
44300144 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
44300183 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44300210 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44315071 original size:21 final size:20
Alignment explanation
Indices: 44315037--44315094 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
44315027 GTTTTGTTTC
44315037 TTTATTTATTTATTTCATGT
1 TTTATTTATTTATTTCATGT
* *
44315057 TTTATTTCTTTTATTTTATGT
1 TTTATTT-ATTTATTTCATGT
44315078 TATTATATTATTATATT
1 T-TTAT-TTATT-TATT
44315095 CTATTATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 6 0.19
23 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTATTTCATGT
Found at i:44320882 original size:27 final size:27
Alignment explanation
Indices: 44320852--44320908 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44320842 ACTTGTAAAC
*
44320852 TTACCAAAATACTCTCGATTTACAGAA
1 TTACCAAAATACCCTCGATTTACAGAA
****
44320879 TTACCGTTTTACCCTCGATTTACAGAA
1 TTACCAAAATACCCTCGATTTACAGAA
44320906 TTA
1 TTA
44320909 TCATTTTACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (27 bp):
TTACCAAAATACCCTCGATTTACAGAA
Found at i:44320915 original size:27 final size:26
Alignment explanation
Indices: 44320865--44321114 Score: 258
Period size: 27 Copynumber: 9.3 Consensus size: 26
44320855 CCAAAATACT
44320865 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTA-CGTTTTACC
*
44320892 CTCGATTTACAGAATTATCATTTTACC
1 CTCGATTTACAGAATTA-CGTTTTACC
44320919 CTCGATTGTTA-A-AATTACTGTTTTACC
1 CTCGA-T-TTACAGAATTAC-GTTTTACC
44320946 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTACAGAATTAC-GTTTTACC
*
44320973 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTA-CGTTTTACC
** *
44321000 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTA-CGTTTTACC
*
44321027 CTTGATTTACAGAATTAC-TAGTTTACC
1 CTCGATTTACAGAATTACGT--TTTACC
*
44321054 CTC-AGTTTACAAAATTATCGTTTTACC
1 CTCGA-TTTACAGAATTA-CGTTTTACC
*
44321081 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTA-CGTTTTACC
*
44321108 CTTGATT
1 CTCGATT
44321115 GTGAAATTAC
Statistics
Matches: 194, Mismatches: 16, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.02
26 6 0.03
27 174 0.90
28 6 0.03
29 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (26 bp):
CTCGATTTACAGAATTACGTTTTACC
Found at i:44320923 original size:54 final size:54
Alignment explanation
Indices: 44320865--44321114 Score: 287
Period size: 54 Copynumber: 4.6 Consensus size: 54
44320855 CCAAAATACT
* *
44320865 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTATCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACC
* *
44320919 CTCGATTGTTA-A-AATTACTGTTTTACCCTC-AGTTTACAGAATTA-CTGTTTTACC
1 CTCGA-T-TTACAGAATTACCGTTTTACCCTCGA-TTTACAAAATTATC-GTTTTACC
* ** *
44320973 CTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACC
* *
44321027 CTTGATTTACAGAATTACTAG-TTTACCCTC-AGTTTACAAAATTATCGTTTTACC
1 CTCGATTTACAGAATTAC-CGTTTTACCCTCGA-TTTACAAAATTATCGTTTTACC
* * *
44321081 CTCGATTTATAGAATTATCGTTTTACCCTTGATT
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATT
44321115 GTGAAATTAC
Statistics
Matches: 167, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
52 3 0.02
53 6 0.04
54 149 0.89
55 6 0.04
56 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (54 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACC
Found at i:44320962 original size:81 final size:81
Alignment explanation
Indices: 44320868--44321114 Score: 315
Period size: 81 Copynumber: 3.0 Consensus size: 81
44320858 AAATACTCTC
* *
44320868 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTGT-TAAA
1 GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT-TATAAA
44320932 ATTACTGTTTTACCCTCA
65 ATTACTGTTTTACCCT-A
* * * *
44320950 G-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAA
1 GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAA
* *
44321014 TTACCGTTTTACCCTT
66 TTACTGTTTTACCCTA
* *
44321030 GATTTACAGAATTACTAG-TTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTATAG
1 GATTTACAGAATTAC-AGTTTTACCCTCGA-TTTACAGAATTATCGTTTTACCCTCGATTTATAA
*
44321093 AATTA-TCGTTTTACCCTT
64 AATTACT-GTTTTACCCTA
44321111 GATT
1 GATT
44321115 GTGAAATTAC
Statistics
Matches: 147, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
80 3 0.02
81 142 0.97
82 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (81 bp):
GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAA
TTACTGTTTTACCCTA
Found at i:44321149 original size:27 final size:27
Alignment explanation
Indices: 44321119--44321312 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
44321109 TTGATTGTGA
*
44321119 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
44321146 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
44321173 AATTACTAAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
44321200 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
44321227 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
44321254 AAATACCGAAA-ACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * *
44321280 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
44321307 AATTAC
1 AATTAC
44321313 CATTTTGCCC
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
26 24 0.17
27 120 0.83
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:44321550 original size:27 final size:26
Alignment explanation
Indices: 44321512--44321566 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
44321502 CGGAGGAAGC
44321512 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
44321539 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
44321565 GT
1 GT
44321567 ATNCTGACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:44321887 original size:6 final size:6
Alignment explanation
Indices: 44321878--44322066 Score: 120
Period size: 6 Copynumber: 30.7 Consensus size: 6
44321868 ATTCACATTT
* * *
44321878 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC T-ATTACC TAATTT
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATT--C TGATTC
* * *
44321928 TGATTT TGGTTC TGATTC TGATTC TG-TTAC GTGATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT-C -TGATTC TGATTC TGATTC
* * * * *
44321977 TG-TTACC TAATTC TGATTC TGGTTC TGATTT TGATTC TG-TCACC TAATTC
1 TGATT--C TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* *
44322027 TGATTC TGATTC TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
44322067 AATGTTTCTT
Statistics
Matches: 143, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.78
7 13 0.09
8 8 0.06
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:44321940 original size:25 final size:25
Alignment explanation
Indices: 44321874--44321932 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
44321864 TTGCATTCAC
* *
44321874 ATTTTGATTCTGATTCTGTTACCTG
1 ATTTTGATTCTGATTCTATTACCTA
**
44321899 ATACTGATTCTGATTCTATTACCTA
1 ATTTTGATTCTGATTCTATTACCTA
44321924 ATTTTGATT
1 ATTTTGATT
44321933 TTGGTTCTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (25 bp):
ATTTTGATTCTGATTCTATTACCTA
Found at i:44321941 original size:31 final size:31
Alignment explanation
Indices: 44321896--44322045 Score: 108
Period size: 31 Copynumber: 4.6 Consensus size: 31
44321886 ATTCTGTTAC
* *
44321896 CTGATACTGATTCTGATTCTATTACCTAATT
1 CTGATTCTGGTTCTGATTCTATTACCTAATT
* * *
44321927 TTGATTTTGGTTCTGATTCTGATT--CT-GTT
1 CTGATTCTGGTTCTGATTCT-ATTACCTAATT
* * *
44321956 ACGTGATACTGATTCTGATTCTGTTACCTAATT
1 -C-TGATTCTGGTTCTGATTCTATTACCTAATT
*
44321989 CTGATTCTGGTTCTGATTTTGATTCTGTCACCTAATT
1 CTGATTCTGGTTCTGATTCT-A---T-T-ACCTAATT
*
44322026 CTGATTCTGATTCTGATTCT
1 CTGATTCTGGTTCTGATTCT
44322046 CATTTTGATT
Statistics
Matches: 90, Mismatches: 17, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
29 2 0.02
30 4 0.04
31 48 0.53
32 6 0.07
33 2 0.02
35 1 0.01
36 1 0.01
37 26 0.29
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
CTGATTCTGGTTCTGATTCTATTACCTAATT
Found at i:44321969 original size:37 final size:37
Alignment explanation
Indices: 44321896--44321978 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
44321886 ATTCTGTTAC
* **
44321896 CTGATACTGATTCTGATTCTATTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
* * * * *
44321933 TTGGTTCTGATTCTGATTCTGTTACGTGATACTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
44321970 CTGATTCTG
1 CTGATTCTG
44321979 TTACCTAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATTACCTAATACTGATT
Found at i:44321973 original size:25 final size:25
Alignment explanation
Indices: 44321939--44322003 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
44321929 GATTTTGGTT
* *
44321939 CTGATTCTGATTCTGTTACGTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
44321964 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
44321989 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
44322004 ATTTTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:44321975 original size:62 final size:62
Alignment explanation
Indices: 44321878--44322066 Score: 265
Period size: 62 Copynumber: 3.1 Consensus size: 62
44321868 ATTCACATTT
*
44321878 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTTTGATTTTGGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTTTGATTCTGGTTC
* * *
44321940 TGATTCTGATTCTGTTACGTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTTTGATTCTGGTTC
* * * * * *
44322002 TGATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT--CTCATTTTGATTCTAGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT-ATTACCTAATTTTGATTCTGGTTC
44322063 TGAT
1 TGAT
44322067 AATGTTTCTT
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
61 20 0.18
62 91 0.81
63 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (62 bp):
TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTTTGATTCTGGTTC
Found at i:44322005 original size:37 final size:37
Alignment explanation
Indices: 44321959--44322045 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
44321949 TTCTGTTACG
* *
44321959 TGATACTGATTCTGATTCTGTTACCTAATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
* *
44321996 TGGTTCTGATTTTGATTCTGTCACCTAATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
44322033 TGATTCTGATTCT
1 TGATTCTGATTCT
44322046 CATTTTGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
Found at i:44322054 original size:18 final size:18
Alignment explanation
Indices: 44321937--44322066 Score: 61
Period size: 19 Copynumber: 7.1 Consensus size: 18
44321927 TTGATTTTGG
*
44321937 TTCTGATTCTGATTCTG-
1 TTCTGATTCTCATTCTGA
* *
44321954 TTACGTGATACTGATTCTGA
1 TT-C-TGATTCTCATTCTGA
*
44321974 TTCTG-TTACCTAATTCTGA
1 TTCTGATT--CTCATTCTGA
* * *
44321993 TTCTGGTTCTGATTTTGA
1 TTCTGATTCTCATTCTGA
* *
44322011 TTCTG-TCACCTAATTCTGA
1 TTCTGAT--TCTCATTCTGA
* *
44322030 TTCTGATTCTGATTCTCA
1 TTCTGATTCTCATTCTGA
*
44322048 TTTTGATTCT-AGTTCTGA
1 TTCTGATTCTCA-TTCTGA
44322066 T
1 T
44322067 AATGTTTCTT
Statistics
Matches: 90, Mismatches: 13, Indels: 19
0.74 0.11 0.16
Matches are distributed among these distances:
17 5 0.06
18 39 0.43
19 41 0.46
20 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (18 bp):
TTCTGATTCTCATTCTGA
Found at i:44323817 original size:27 final size:27
Alignment explanation
Indices: 44323785--44323860 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
44323775 AATTACTAAA
44323785 AATTACCAAAATACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCGATTTACAG
****
44323812 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAATACCCTCGATTTACAG
***
44323839 AATTACCATTTTACCCTCGATT
1 AATTACCAAAATACCCTCGATT
44323861 GTTAAAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAG
Found at i:44323869 original size:27 final size:27
Alignment explanation
Indices: 44323802--44324049 Score: 252
Period size: 27 Copynumber: 9.2 Consensus size: 27
44323792 AAAATACTCC
* *
44323802 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
* * *
44323829 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
44323856 CGATTGT-TAAAATTACCGTTTTACCCT
1 CGATT-TATAAAATTACCGTTTTACCCT
* **
44323883 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTATAAAATTACCGTTTTACCCT
*** *
44323910 CGATTTACCGAATTACCATTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
*
44323937 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
* * *
44323964 TGATTTATAGAATTACTAG-TTTACCCT
1 CGATTTATAAAATTAC-CGTTTTACCCT
* *
44323991 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTATAAAATTACCGTTTTACCCT
*
44324018 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
*
44324045 TGATT
1 CGATT
44324050 GTGAAATTAT
Statistics
Matches: 183, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.02
27 175 0.96
28 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTATAAAATTACCGTTTTACCCT
Found at i:44323891 original size:81 final size:81
Alignment explanation
Indices: 44323803--44324049 Score: 313
Period size: 81 Copynumber: 3.0 Consensus size: 81
44323793 AAATACTCCC
*
44323803 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTGT-TAAA
1 GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT-TATAAA
44323867 ATTACCGTTTTACCCTCA
65 ATTACCGTTTTACCCT-A
* ** * *
44323885 G-TTTACAAAATTATTGTTTTACCCTCGATTTACCGAATTACCATTTTACCCTCGATTTGTAAAA
1 GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAA
*
44323949 TTACCGTTTTACCCTT
66 TTACCGTTTTACCCTA
* * * * *
44323965 GATTTATAGAATTACTAG-TTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTATAG
1 GATTTACAGAATTAC-AGTTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTTATAA
*
44324028 AATTACCGTTTTACCCTT
64 AATTACCGTTTTACCCTA
44324046 GATT
1 GATT
44324050 GTGAAATTAT
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.02
81 141 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (81 bp):
GATTTACAGAATTACAGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAA
TTACCGTTTTACCCTA
Found at i:44324083 original size:27 final size:27
Alignment explanation
Indices: 44324061--44324249 Score: 200
Period size: 27 Copynumber: 7.0 Consensus size: 27
44324051 TGAAATTATT
* *
44324061 GAAATACCCCTGTAGGGTAAAATTTCT
1 GAAATACCCCTGTAGGGTAAAATTACC
* * *
44324088 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAAAATTACC
* * * * *
44324115 AAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAAAATTACC
* * *
44324142 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAAAATTACC
*
44324169 GAAATACCCTTGTAGGGTAGAAA-TACC
1 GAAATACCCCTGTAGGGTA-AAATTACC
*
44324196 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAAAATTACC
* * *
44324223 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAAAATTACC
44324250 ATTTTGCCCC
Statistics
Matches: 139, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 135 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAAAATTACC
Found at i:44324120 original size:54 final size:54
Alignment explanation
Indices: 44324054--44324249 Score: 243
Period size: 54 Copynumber: 3.6 Consensus size: 54
44324044 TTGATTGTGA
* * * * *
44324054 AATTATTGAAATACCCCTGTAGGGTAAAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
44324108 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
44324162 AATTA-TCGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTA-AAATTACCGAAATACCCCTGTAGGGTAG
* * *
44324216 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACC
44324250 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
53 4 0.03
54 114 0.95
55 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
Found at i:44324173 original size:81 final size:82
Alignment explanation
Indices: 44324062--44324247 Score: 241
Period size: 81 Copynumber: 2.3 Consensus size: 82
44324052 GAAATTATTG
* * *
44324062 AAATACCCCTGTAGGGTAAAATT-TCTGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTT
1 AAATACCCCTGTAGGGTAAAATTATCTGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
44324126 ATAGGATAGAATTACCA
66 ATAGGATAGAATTACCA
* * * *
44324143 AAATACCCCTGTAGGGTAGAATTATC-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 AAATACCCCTGTAGGGTAAAATTATCTGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
* * *
44324207 GTAGGGTAGAATTACCG
66 ATAGGATAGAATTACCA
* * *
44324224 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAAAATTA
44324248 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 88 0.98
82 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (82 bp):
AAATACCCCTGTAGGGTAAAATTATCTGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
ATAGGATAGAATTACCA
Found at i:44324486 original size:27 final size:26
Alignment explanation
Indices: 44324448--44324527 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
44324438 CGGAGGAAGC
44324448 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
44324475 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
44324501 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
44324528 ATTGACCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:44324572 original size:6 final size:6
Alignment explanation
Indices: 44324557--44324700 Score: 107
Period size: 6 Copynumber: 23.3 Consensus size: 6
44324547 AGTGTCGATC
* * *
44324557 CTGATA CTGATT CTGATT CT-ATT ACCTAATT CTGATT CTGGTT CTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* * *
44324606 CTGATT TTG-TT ACCTGATA CTGATT CTGATT CT-ATT ACCTAATT CTGATT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT
* * *
44324656 CTGGTT CTGATT TTGATT CTG-TCAC CTGATT CTGATT CTGATT CT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CT
44324701 AGTTATGATA
Statistics
Matches: 111, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
5 9 0.08
6 85 0.77
7 9 0.08
8 8 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:44324619 original size:37 final size:37
Alignment explanation
Indices: 44324557--44324638 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
44324547 AGTGTCGATC
* *
44324557 CTGATACTGATTCTGATTCTATTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
* * * *
44324594 CTGGTTCTGATTCTGATTTTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
44324631 CTGATTCT
1 CTGATTCT
44324639 ATTACCTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
Found at i:44324634 original size:25 final size:25
Alignment explanation
Indices: 44324600--44324663 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
44324590 GATTCTGGTT
* * *
44324600 CTGATTCTGATTTTGTTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
*
44324625 CTGATTCTGATTCTATTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
*
44324650 CTGATTCTGGTTCT
1 CTGATTCTGATTCT
44324664 GATTTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:44324653 original size:62 final size:62
Alignment explanation
Indices: 44324556--44324701 Score: 256
Period size: 62 Copynumber: 2.4 Consensus size: 62
44324546 AAGTGTCGAT
* *
44324556 CCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTGATTCTGATTTTGTTA
1 CCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTGATTCTGATTCTGTCA
*
44324618 CCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTGATTTTGATTCTGTCA
1 CCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTGATTCTGATTCTGTCA
*
44324680 CCTGATTCTGATTCTGATTCTA
1 CCTGATACTGATTCTGATTCTA
44324702 GTTATGATAA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (62 bp):
CCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTGATTCTGATTCTGTCA
Found at i:44324666 original size:37 final size:37
Alignment explanation
Indices: 44324619--44324700 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
44324609 ATTTTGTTAC
* *
44324619 CTGATACTGATTCTGATTCTATTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTGATT
* * * *
44324656 CTGGTTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTGATT
44324693 CTGATTCT
1 CTGATTCT
44324701 AGTTATGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATCACCTAATTCTGATT
Found at i:44324685 original size:31 final size:31
Alignment explanation
Indices: 44324556--44324700 Score: 118
Period size: 31 Copynumber: 4.7 Consensus size: 31
44324546 AAGTGTCGAT
* *
44324556 CCTGATACTGATTCTGATTCT-ATTAC-CTAA
1 CCTGATTCTGATTCTGATTCTGATT-CTGTAA
* * * *
44324586 TTCTGATTCTGGTTCTGATTCTGATTTTGTTA
1 -CCTGATTCTGATTCTGATTCTGATTCTGTAA
* *
44324618 CCTGATACTGATTCTGATTCT-ATTAC-CTAA
1 CCTGATTCTGATTCTGATTCTGATT-CTGTAA
* * * *
44324648 TTCTGATTCTGGTTCTGATTTTGATTCTGTCA
1 -CCTGATTCTGATTCTGATTCTGATTCTGTAA
44324680 CCTGATTCTGATTCTGATTCT
1 CCTGATTCTGATTCTGATTCT
44324701 AGTTATGATA
Statistics
Matches: 87, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
30 5 0.06
31 72 0.83
32 10 0.11
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
CCTGATTCTGATTCTGATTCTGATTCTGTAA
Found at i:44327681 original size:6 final size:6
Alignment explanation
Indices: 44327670--44327722 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
44327660 NNNNNNNNNN
*
44327670 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTATTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
44327718 ATTCT
1 ATTCT
44327723 CATTTTGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 2 0.05
6 39 0.91
7 2 0.05
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (6 bp):
ATTCTG
Found at i:44336605 original size:27 final size:27
Alignment explanation
Indices: 44336565--44336677 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
44336555 AGGAAGCGTC
*
44336565 CTGGTGGCTATGCCACA-ATTATCTAATT
1 CTGGTGGCTCTGCCACATA-TATCT-ATT
44336593 -TGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACATATATCTATT
* * *
44336619 CTGGTGGCTCTACCATGAT-TATCTGTAT
1 CTGGTGGCTCTGCCA-CATATATCTAT-T
* *
44336647 CTGGTGACTCTGTCACATA-ATCTATT
1 CTGGTGGCTCTGCCACATATATCTATT
44336673 CTGGT
1 CTGGT
44336678 AGCCATGCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
26 9 0.13
27 46 0.65
28 16 0.23
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTATT
Found at i:44337527 original size:27 final size:27
Alignment explanation
Indices: 44337487--44337599 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
44337477 AGGAAGCGTC
*
44337487 CTGGTGGCTATGCCACA-ATTATCTAATT
1 CTGGTGGCTCTGCCACATA-TATCT-ATT
44337515 -TGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACATATATCTATT
* * *
44337541 CTGGTGGCTCTACCATGAT-TATCTGTAT
1 CTGGTGGCTCTGCCA-CATATATCTAT-T
* *
44337569 CTGGTGACTCTGTCACATA-ATCTATT
1 CTGGTGGCTCTGCCACATATATCTATT
44337595 CTGGT
1 CTGGT
44337600 AGCCATGCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
26 9 0.13
27 46 0.65
28 16 0.23
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTATT
Found at i:44337869 original size:922 final size:922
Alignment explanation
Indices: 44336086--44337927 Score: 3684
Period size: 922 Copynumber: 2.0 Consensus size: 922
44336076 ATCGTCGCAA
44336086 GCAGGTGTGTAACTGACACCCTCTTATAGACTAGATCGGCACAAGTCGAAAAGCCAAAATGAAGC
1 GCAGGTGTGTAACTGACACCCTCTTATAGACTAGATCGGCACAAGTCGAAAAGCCAAAATGAAGC
44336151 CGGTATTTTGAGAACTTGCGAGTGTACGAATGCTCGTGAGATTAATAGTTGATGTATATGGTAAA
66 CGGTATTTTGAGAACTTGCGAGTGTACGAATGCTCGTGAGATTAATAGTTGATGTATATGGTAAA
44336216 GTAAAGTGATAAGATTGCAAAGTGCACGATTCCGTGTATTTCGGTGTTTTTGGGCTTAATGGGCC
131 GTAAAGTGATAAGATTGCAAAGTGCACGATTCCGTGTATTTCGGTGTTTTTGGGCTTAATGGGCC
44336281 AAAATCAGGATAATGGGCCAACGGGCCCAATTCGGTAAGAAAACACGGTAAGTATTTTTGGTCGA
196 AAAATCAGGATAATGGGCCAACGGGCCCAATTCGGTAAGAAAACACGGTAAGTATTTTTGGTCGA
44336346 CGTAGATGGCTATGTTATGCATGAAAACCTTAAGAATAGTTAAATTACTGTTATAACCATATGTA
261 CGTAGATGGCTATGTTATGCATGAAAACCTTAAGAATAGTTAAATTACTGTTATAACCATATGTA
44336411 TGGAAAATTACTGTTATACCCCTAGGTCCAAAATTACCATTATACCCCTAGGGGTACTTTTGACT
326 TGGAAAATTACTGTTATACCCCTAGGTCCAAAATTACCATTATACCCCTAGGGGTACTTTTGACT
44336476 GAAAAGCATGATGATTTGATTCTATTTGATGTATGCCATGATTGTATATCTGTTGCATGGGGACA
391 GAAAAGCATGATGATTTGATTCTATTTGATGTATGCCATGATTGTATATCTGTTGCATGGGGACA
44336541 TGGGTTAATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCC
456 TGGGTTAATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCC
44336606 ACATATATCTATTCTGGTGGCTCTACCATGATTATCTGTATCTGGTGACTCTGTCACATAATCTA
521 ACATATATCTATTCTGGTGGCTCTACCATGATTATCTGTATCTGGTGACTCTGTCACATAATCTA
44336671 TTCTGGTAGCCATGCTACATATTTCTGTGGCATGTAGCAATTGGGTGGGTCGAGAAGTCTCCCCA
586 TTCTGGTAGCCATGCTACATATTTCTGTGGCATGTAGCAATTGGGTGGGTCGAGAAGTCTCCCCA
44336736 CATGGTGAAAAGTTGGTATGGGGTGCATATGGTTGGATATGGGTTGGGTTTTGCATAAACATGTA
651 CATGGTGAAAAGTTGGTATGGGGTGCATATGGTTGGATATGGGTTGGGTTTTGCATAAACATGTA
44336801 ATATCTGTTCTGATCTGTTATGGGCCTATGGGCTATATTCTGACTTCTGTTCTCGGCTAAGGCCA
716 ATATCTGTTCTGATCTGTTATGGGCCTATGGGCTATATTCTGACTTCTGTTCTCGGCTAAGGCCA
44336866 ACTTATTCTGTTTCTGTGATTTGAGCCGATATAGGCTATGGTTGGGTTGATTTACACACTGAGTT
781 ACTTATTCTGTTTCTGTGATTTGAGCCGATATAGGCTATGGTTGGGTTGATTTACACACTGAGTT
44336931 TCCCCAAACTCACCCTTTTATCTTCATCCACGCAGGTAATCCCCAACCATAGTAGGCTTGGAGCT
846 TCCCCAAACTCACCCTTTTATCTTCATCCACGCAGGTAATCCCCAACCATAGTAGGCTTGGAGCT
44336996 GTGAGGGATTTG
911 GTGAGGGATTTG
44337008 GCAGGTGTGTAACTGACACCCTCTTATAGACTAGATCGGCACAAGTCGAAAAGCCAAAATGAAGC
1 GCAGGTGTGTAACTGACACCCTCTTATAGACTAGATCGGCACAAGTCGAAAAGCCAAAATGAAGC
44337073 CGGTATTTTGAGAACTTGCGAGTGTACGAATGCTCGTGAGATTAATAGTTGATGTATATGGTAAA
66 CGGTATTTTGAGAACTTGCGAGTGTACGAATGCTCGTGAGATTAATAGTTGATGTATATGGTAAA
44337138 GTAAAGTGATAAGATTGCAAAGTGCACGATTCCGTGTATTTCGGTGTTTTTGGGCTTAATGGGCC
131 GTAAAGTGATAAGATTGCAAAGTGCACGATTCCGTGTATTTCGGTGTTTTTGGGCTTAATGGGCC
44337203 AAAATCAGGATAATGGGCCAACGGGCCCAATTCGGTAAGAAAACACGGTAAGTATTTTTGGTCGA
196 AAAATCAGGATAATGGGCCAACGGGCCCAATTCGGTAAGAAAACACGGTAAGTATTTTTGGTCGA
44337268 CGTAGATGGCTATGTTATGCATGAAAACCTTAAGAATAGTTAAATTACTGTTATAACCATATGTA
261 CGTAGATGGCTATGTTATGCATGAAAACCTTAAGAATAGTTAAATTACTGTTATAACCATATGTA
44337333 TGGAAAATTACTGTTATACCCCTAGGTCCAAAATTACCATTATACCCCTAGGGGTACTTTTGACT
326 TGGAAAATTACTGTTATACCCCTAGGTCCAAAATTACCATTATACCCCTAGGGGTACTTTTGACT
44337398 GAAAAGCATGATGATTTGATTCTATTTGATGTATGCCATGATTGTATATCTGTTGCATGGGGACA
391 GAAAAGCATGATGATTTGATTCTATTTGATGTATGCCATGATTGTATATCTGTTGCATGGGGACA
44337463 TGGGTTAATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCC
456 TGGGTTAATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCC
44337528 ACATATATCTATTCTGGTGGCTCTACCATGATTATCTGTATCTGGTGACTCTGTCACATAATCTA
521 ACATATATCTATTCTGGTGGCTCTACCATGATTATCTGTATCTGGTGACTCTGTCACATAATCTA
44337593 TTCTGGTAGCCATGCTACATATTTCTGTGGCATGTAGCAATTGGGTGGGTCGAGAAGTCTCCCCA
586 TTCTGGTAGCCATGCTACATATTTCTGTGGCATGTAGCAATTGGGTGGGTCGAGAAGTCTCCCCA
44337658 CATGGTGAAAAGTTGGTATGGGGTGCATATGGTTGGATATGGGTTGGGTTTTGCATAAACATGTA
651 CATGGTGAAAAGTTGGTATGGGGTGCATATGGTTGGATATGGGTTGGGTTTTGCATAAACATGTA
44337723 ATATCTGTTCTGATCTGTTATGGGCCTATGGGCTATATTCTGACTTCTGTTCTCGGCTAAGGCCA
716 ATATCTGTTCTGATCTGTTATGGGCCTATGGGCTATATTCTGACTTCTGTTCTCGGCTAAGGCCA
44337788 ACTTATTCTGTTTCTGTGATTTGAGCCGATATAGGCTATGGTTGGGTTGATTTACACACTGAGTT
781 ACTTATTCTGTTTCTGTGATTTGAGCCGATATAGGCTATGGTTGGGTTGATTTACACACTGAGTT
44337853 TCCCCAAACTCACCCTTTTATCTTCATCCACGCAGGTAATCCCCAACCATAGTAGGCTTGGAGCT
846 TCCCCAAACTCACCCTTTTATCTTCATCCACGCAGGTAATCCCCAACCATAGTAGGCTTGGAGCT
44337918 GTGAGGGATT
911 GTGAGGGATT
44337928 CGGAGTGGCT
Statistics
Matches: 920, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
922 920 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (922 bp):
GCAGGTGTGTAACTGACACCCTCTTATAGACTAGATCGGCACAAGTCGAAAAGCCAAAATGAAGC
CGGTATTTTGAGAACTTGCGAGTGTACGAATGCTCGTGAGATTAATAGTTGATGTATATGGTAAA
GTAAAGTGATAAGATTGCAAAGTGCACGATTCCGTGTATTTCGGTGTTTTTGGGCTTAATGGGCC
AAAATCAGGATAATGGGCCAACGGGCCCAATTCGGTAAGAAAACACGGTAAGTATTTTTGGTCGA
CGTAGATGGCTATGTTATGCATGAAAACCTTAAGAATAGTTAAATTACTGTTATAACCATATGTA
TGGAAAATTACTGTTATACCCCTAGGTCCAAAATTACCATTATACCCCTAGGGGTACTTTTGACT
GAAAAGCATGATGATTTGATTCTATTTGATGTATGCCATGATTGTATATCTGTTGCATGGGGACA
TGGGTTAATTATGGAGGAAGCGTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCC
ACATATATCTATTCTGGTGGCTCTACCATGATTATCTGTATCTGGTGACTCTGTCACATAATCTA
TTCTGGTAGCCATGCTACATATTTCTGTGGCATGTAGCAATTGGGTGGGTCGAGAAGTCTCCCCA
CATGGTGAAAAGTTGGTATGGGGTGCATATGGTTGGATATGGGTTGGGTTTTGCATAAACATGTA
ATATCTGTTCTGATCTGTTATGGGCCTATGGGCTATATTCTGACTTCTGTTCTCGGCTAAGGCCA
ACTTATTCTGTTTCTGTGATTTGAGCCGATATAGGCTATGGTTGGGTTGATTTACACACTGAGTT
TCCCCAAACTCACCCTTTTATCTTCATCCACGCAGGTAATCCCCAACCATAGTAGGCTTGGAGCT
GTGAGGGATTTG
Found at i:44338597 original size:15 final size:16
Alignment explanation
Indices: 44338568--44338598 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44338558 AATGGGTTTA
44338568 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
44338584 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
44338599 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:44345261 original size:26 final size:27
Alignment explanation
Indices: 44345195--44345270 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
44345185 AAGAATAGTT
*
44345195 AAATTACTGTTATACCCCTATGTACGAA
1 AAATTACTGTTATACCCCTAGGTA-GAA
*
44345223 AAATTACTGTTATACCCCTAGGT-GTA
1 AAATTACTGTTATACCCCTAGGTAGAA
**
44345249 AAATTACCATTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
44345271 GGTACTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.50
28 22 0.50
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATTACTGTTATACCCCTAGGTAGAA
Found at i:44345414 original size:27 final size:26
Alignment explanation
Indices: 44345374--44345485 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
44345364 AGGAAGCGTC
*
44345374 CTGGTGGCTATGCCACAATAATCTGAT
1 CTGGTGGCTCTGCCAC-ATAATCTGAT
44345401 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATA-ATCTGA-T
* *
44345428 CTGATGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATAATCTG-AT
* * * *
44345456 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATAATCTGAT
44345482 CTGG
1 CTGG
44345486 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 9 0.12
27 47 0.64
28 16 0.22
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATAATCTGAT
Found at i:44345478 original size:54 final size:54
Alignment explanation
Indices: 44345378--44345484 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
44345368 AGCGTCCTGG
*
44345378 TGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGA
1 TGGCTATGCCACAATAATCTGATCTGGTGACTCTGCCACATATATCTATTCTGA
* * * * *
44345432 TGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 TGGCTATGCCACAATAATCTG-ATCTGGTGACTCTGCCACATATATCTATTCTG
44345485 GCAGCCATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
TGGCTATGCCACAATAATCTGATCTGGTGACTCTGCCACATATATCTATTCTGA
Found at i:44347282 original size:84 final size:84
Alignment explanation
Indices: 44347159--44347341 Score: 271
Period size: 84 Copynumber: 2.2 Consensus size: 84
44347149 TATTTGGGCT
* * * *
44347159 TTATTGCCTAGCAGGC--TCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTG
1 TTATTGCCTAGCAGGCTTTATATGCTGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTG
44347222 CCGGTGTATTAAATCAGGC
66 CCGGTGTATTAAATCAGGC
* * **
44347241 TTTTTGCCTAGTAGGCTTTATATGCTGGTGTATTATCTCAGGCTTATTGCCTAGCAGGCTCTGTG
1 TTATTGCCTAGCAGGCTTTATATGCTGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTG
*
44347306 CCGGTGTATTATATCAGGC
66 CCGGTGTATTAAATCAGGC
44347325 TTATTGCCTAGCAGGCT
1 TTATTGCCTAGCAGGCT
44347342 CTGTGCCGGT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 14 0.16
84 74 0.84
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (84 bp):
TTATTGCCTAGCAGGCTTTATATGCTGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTG
CCGGTGTATTAAATCAGGC
Found at i:44347358 original size:41 final size:41
Alignment explanation
Indices: 44347159--44347375 Score: 303
Period size: 41 Copynumber: 5.2 Consensus size: 41
44347149 TATTTGGGCT
*
44347159 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGC
* *
44347200 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGC
* * * * * *
44347241 TTTTTGCCTAGTAGGCTTTATATGCTGGTGTATTATCTCAGGC
1 TTATTGCCTAGCAGGC--TCTGTGCCGGTGTATTATATCAGGC
44347284 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGC
44347325 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATC-AGGC
44347366 TT-TATGCCTA
1 TTAT-TGCCTA
44347376 ACAAATTTTA
Statistics
Matches: 158, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.01
41 122 0.77
43 34 0.22
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGC
Found at i:44347386 original size:125 final size:125
Alignment explanation
Indices: 44347159--44347386 Score: 359
Period size: 125 Copynumber: 1.8 Consensus size: 125
44347149 TATTTGGGCT
*
44347159 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
* ** **
44347224 GGTGTATTAAATCAGGCTTTTTGCCTAGTAGGCTTTATATGCTGGTGTATTATCTCAGGC
66 GGTGTATTAAATCAGGCTTTATGCCTAACAAACTTTATATGCTGGTGTATTATCTCAGGC
*
44347284 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
1 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
* *
44347349 GGTGTATTATA-CTAGGCTTTATGCCTAACAAATTTTAT
66 GGTGTATTAAATC-AGGCTTTATGCCTAACAAACTTTAT
44347387 GTGAACAACG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 1 0.01
125 92 0.99
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (125 bp):
TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTCTGTGCC
GGTGTATTAAATCAGGCTTTATGCCTAACAAACTTTATATGCTGGTGTATTATCTCAGGC
Found at i:44353408 original size:19 final size:20
Alignment explanation
Indices: 44353375--44353412 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44353365 TTATAATATC
*
44353375 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
44353395 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
44353413 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:44360802 original size:19 final size:20
Alignment explanation
Indices: 44360769--44360808 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
44360759 TTATAATATC
*
44360769 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
44360789 ATAAA-AATAGGAATAAAAA
1 ATAAATAATAGGAATAAAAA
44360808 A
1 A
44360809 AGAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:44363354 original size:43 final size:41
Alignment explanation
Indices: 44363225--44363382 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
44363215 TATTCGGGCT
* *
44363225 TTATTGCCTAGCAGGCTTTGTCCCGGTGAATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
44363266 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTAAATCAGGT
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* * *
44363307 TTATTGCCTAGCAGGCTTTATATGTCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTAAATCAGGC
* *
44363350 TTATTGCCTAGCAGGCTCTGTGCGGGTGTATTA
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTA
44363383 TACTAGGATT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 64 0.63
42 3 0.03
43 35 0.34
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:44363372 original size:84 final size:83
Alignment explanation
Indices: 44363224--44363403 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 83
44363214 ATATTCGGGC
* *
44363224 TTTATTGCCTAGCAGGCTTTGTCCCGGTGAATTAAATCAGGCTTATTGCCTAGCAAGCTTTGTGC
1 TTTATTGCCTAGCAGGCTTTATCCCGGTGAATTAAATCAGGCTTATTGCCTAGCAAGCTCTGTGC
44363289 CGGTGTATTAAA-TCAGG-
66 CGGTGTATTAAACT-AGGA
** * * *
44363306 TTTATTGCCTAGCAGGCTTTATATGTCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGT
1 TTTATTGCCTAGCAGGC-TT-TATCCCGGTGAATTAAATCAGGCTTATTGCCTAGCAAGCTCTGT
* *
44363371 GCGGGTGTATTATACTAGGA
64 GCCGGTGTATTAAACTAGGA
44363391 TTTA-TGCCTAGCA
1 TTTATTGCCTAGCA
44363404 AATTTTATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 17 0.20
83 2 0.02
84 61 0.72
85 5 0.06
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (83 bp):
TTTATTGCCTAGCAGGCTTTATCCCGGTGAATTAAATCAGGCTTATTGCCTAGCAAGCTCTGTGC
CGGTGTATTAAACTAGGA
Found at i:44363399 original size:41 final size:40
Alignment explanation
Indices: 44363224--44363403 Score: 175
Period size: 41 Copynumber: 4.3 Consensus size: 40
44363214 ATATTCGGGC
* * * *
44363224 TTTATTGCCTAGCAGGCTTTGTCCCGGTGAATTAAATCAGG
1 TTTATTGCCTAGCAGGCTATGT-GCGGTGTATTATATCAGG
* * * *
44363265 CTTATTGCCTAGCAAGCTTTGTGCCGGTGTATTAAATCAGG
1 TTTATTGCCTAGCAGGCTATGTG-CGGTGTATTATATCAGG
*
44363306 TTTATTGCCTAGCAGGCTTTATATGTCGGTGTATTATATCAGG
1 TTTATTGCCTAGCAGGC--TATGTG-CGGTGTATTATATCAGG
* *
44363349 CTTATTGCCTAGCAGGCTCTGTGCGGGTGTATTATA-CTAGG
1 TTTATTGCCTAGCAGGCTATGTGC-GGTGTATTATATC-AGG
44363390 ATTTA-TGCCTAGCA
1 -TTTATTGCCTAGCA
44363404 AATTTTATGT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 78 0.66
42 3 0.03
43 36 0.30
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTATTGCCTAGCAGGCTATGTGCGGTGTATTATATCAGG
Found at i:44363466 original size:87 final size:87
Alignment explanation
Indices: 44363359--44363532 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
44363349 CTTATTGCCT
*
44363359 AGCAGGCTCTGTGCGGGTGTATTATACTAGGATTTATGCCTAGCAAATTTTATGTGAACAACGGT
1 AGCAGGCTCTATGCGGGTGTATTATACTAGGATTTATGCCTAGCAAATTTTATGTGAACAACGGT
44363424 AAAAGTAATCAAATGTGTTAAA
66 AAAAGTAATCAAATGTGTTAAA
* *
44363446 AGCAGGCTCTATGCGGGTGTATTATACTAGGCTTTATGCCTAGCAATTTTTATGTGAACAACGGT
1 AGCAGGCTCTATGCGGGTGTATTATACTAGGATTTATGCCTAGCAAATTTTATGTGAACAACGGT
44363511 AAAAGTAATCAAATGTGTTAAA
66 AAAAGTAATCAAATGTGTTAAA
44363533 TGAGCTAAAG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (87 bp):
AGCAGGCTCTATGCGGGTGTATTATACTAGGATTTATGCCTAGCAAATTTTATGTGAACAACGGT
AAAAGTAATCAAATGTGTTAAA
Found at i:44379819 original size:45 final size:45
Alignment explanation
Indices: 44379755--44379845 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
44379745 TGTACTTTGA
44379755 TGTTTGATGATGAAATATGAAATCTTGTTGCTAGATTTACATATT
1 TGTTTGATGATGAAATATGAAATCTTGTTGCTAGATTTACATATT
44379800 TGTTTGATGATGAAATATGAAATCTTGTTGCTAGATTTACATATT
1 TGTTTGATGATGAAATATGAAATCTTGTTGCTAGATTTACATATT
44379845 T
1 T
44379846 TGTAAAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.45
Consensus pattern (45 bp):
TGTTTGATGATGAAATATGAAATCTTGTTGCTAGATTTACATATT
Found at i:44393422 original size:21 final size:21
Alignment explanation
Indices: 44393396--44393438 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
44393386 TTTGGGCTAA
*
44393396 AAATGGTGCAAGA-AATAGAAG
1 AAATGGTG-AAGATAATAAAAG
44393417 AAATGGTGAAGATAATAAAAG
1 AAATGGTGAAGATAATAAAAG
44393438 A
1 A
44393439 CAGATTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.26, T:0.16
Consensus pattern (21 bp):
AAATGGTGAAGATAATAAAAG
Found at i:44397032 original size:21 final size:20
Alignment explanation
Indices: 44397006--44397044 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44396996 GATTATTTTG
44397006 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
44397027 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
44397045 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:44397798 original size:6 final size:6
Alignment explanation
Indices: 44397789--44397855 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
44397779 AACCAAAATG
* * *
44397789 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGTATC AGATAAC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGA-ATC
44397839 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
44397856 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 1 0.02
6 41 0.80
7 8 0.16
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:44397822 original size:25 final size:25
Alignment explanation
Indices: 44397789--44397855 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
44397779 AACCAAAATG
* *
44397789 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGATAAC
*
44397814 AGAATCAGAATCAGTATCAGATAAC
1 AGAATCAGAATCAGAATCAGATAAC
44397839 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
44397856 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGATAAC
Found at i:44398015 original size:27 final size:26
Alignment explanation
Indices: 44397974--44398079 Score: 131
Period size: 27 Copynumber: 4.0 Consensus size: 26
44397964 CATGGCTACT
* *
44397974 AGAACAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
44398000 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
44398027 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
* * *
44398054 AGAAATAGATAATGTGGCAAAGCCAC
1 AG-AACAGATATTGTGGCAGAGCCAC
44398080 TTAATAGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 10 0.14
27 54 0.76
28 7 0.10
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:44399026 original size:27 final size:27
Alignment explanation
Indices: 44398669--44399018 Score: 445
Period size: 27 Copynumber: 12.9 Consensus size: 27
44398659 GGGCAAAATG
* * * *
44398669 GTAATTTTACCCCACAAGGGTATCTT-G
1 GTAATTCTACCCTACAGGGGTAT-TTCA
* *
44398696 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
44398723 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
44398750 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
44398777 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
44398804 GTAATTCTACCCTACAGGGGCATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * * *
44398830 GATATTTCTACCCTACAAGGATGTTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
44398858 GTAATTCTACCTTATATGGGGTATTTCA
1 GTAATTCTACCCTACA-GGGGTATTTCA
*
44398886 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
44398913 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
44398939 GATAATTCTACCCTATAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
44398967 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
44398994 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
44399019 TAATAATTTT
Statistics
Matches: 284, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 257 0.90
28 23 0.08
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:44399053 original size:81 final size:81
Alignment explanation
Indices: 44398724--44399056 Score: 242
Period size: 81 Copynumber: 4.1 Consensus size: 81
44398714 GGTATTTCAG
* * * * *
44398724 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCA
* * * ***
44398789 TACAAGGGTATTTC-A
66 AATAGGGGTAAAACGA
* * * * * * **
44398804 GTAATTCTACCCTACAGGGGCATTTC-GATATTTCTACCCTACAAGGATGTTTCGGTAATTCTAC
1 -TAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
** ***
44398868 CTTATATGGGGTATTTC-A
64 CAAATA-GGGGTAAAACGA
* * *
44398886 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 -TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACC
** **** *
44398951 CTATAGGGGTATTTTGG
65 AAATAGGGGTAAAACGA
* ***
44398968 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAATAATT-TTGTA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCA
*
44399032 AATCGAGGGTAAAACGA
66 AATAG-GGGTAAAACGA
44399049 TAATTCTA
1 TAATTCTA
44399057 TAAATCGGGA
Statistics
Matches: 214, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.02
81 137 0.64
82 71 0.33
83 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCA
AATAGGGGTAAAACGA
Found at i:44399105 original size:26 final size:27
Alignment explanation
Indices: 44399075--44399293 Score: 245
Period size: 27 Copynumber: 8.3 Consensus size: 27
44399065 GAGTACTTTG
*
44399075 GTAA-TTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
*
44399101 GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
44399128 GTAATTTTGCAAA-CTGAGCGTA-TTCG
1 GTAATTTTACAAATC-GAGGGTATTTCA
44399154 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
44399181 GTAATTTTA-TAATCGACGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCA
44399207 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
44399234 GTAATTTTATAAA-CCAGGGCTACTTT-G
1 GTAATTTTACAAATCGAGGG-TA-TTTCA
* *
44399261 GTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
44399287 GTAATTT
1 GTAATTT
44399294 CGTAAACTAA
Statistics
Matches: 161, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.02
26 62 0.39
27 93 0.58
28 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:44399158 original size:53 final size:53
Alignment explanation
Indices: 44399101--44399293 Score: 248
Period size: 53 Copynumber: 3.6 Consensus size: 53
44399091 GGGTATTTCA
* **
44399101 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGCGTA-TTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAAC-GAGCGTACTTCG
* *
44399154 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAATCGA-CGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAACGAGC-GTACTTCG
* * *
44399207 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAACCAGGGCTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAACGAGCG-TACTTCG
* *
44399261 GTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTT
44399294 CGTAAACTAA
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
51 1 0.01
52 5 0.04
53 101 0.81
54 18 0.14
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAACGAGCGTACTTCG
Found at i:44399213 original size:106 final size:106
Alignment explanation
Indices: 44399087--44399293 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
44399077 AATTTACAAG
* * * *
44399087 TCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGCG-TA-
1 TCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC-CAGCGCTAC
44399150 TTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAA
65 TTCGGTAATTTTACAAAT-GAGGGTATTTCAGTAATTTTATAA
* * *
44399193 TCGACGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAACCAGGGCTACT
1 TCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCAGCGCTACT
* * *
44399258 TTGGTAATTTTACAACTGGGGGTATTTCAGTAATTT
66 TCGGTAATTTTACAAATGAGGGTATTTCAGTAATTT
44399294 CGTAAACTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 3 0.03
106 70 0.79
107 16 0.18
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (106 bp):
TCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCAGCGCTACT
TCGGTAATTTTACAAATGAGGGTATTTCAGTAATTTTATAA
Found at i:44400755 original size:27 final size:27
Alignment explanation
Indices: 44400721--44400893 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
44400711 TGGATAAGTT
*
44400721 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
44400748 GTAGAATTACTGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
44400774 TGTAGAATTACCAAAATACCCCTAT-AG
1 -GTAGAATTACCGAAATACCCCTGTAAG
* * * *
44400801 GATAGAAATACCAAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* *
44400829 GTAGAAATACCGAAATACCCGTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
44400856 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
44400883 GTAAAATTACC
1 GTAGAATTACC
44400894 ATTTTTCCCC
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 120 0.96
28 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:44400807 original size:54 final size:54
Alignment explanation
Indices: 44400721--44400894 Score: 206
Period size: 54 Copynumber: 3.2 Consensus size: 54
44400711 TGGATAAGTT
* * * * *
44400721 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGT
1 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
* * *
44400775 GTAGAATTACCAAAATACCCCTAT-AGGATAGAAATACCAAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCTTGTAGG
* * * * *
44400829 GTAGAAATACCGAAATACCCGTGTAAGGTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
*
44400883 GTAAAATTACCA
1 GTAGAATTACCA
44400895 TTTTTCCCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 93 0.94
55 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:44401691 original size:27 final size:26
Alignment explanation
Indices: 44401639--44401698 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44401629 ATATATATAT
*
44401639 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44401665 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44401692 ATATCTG
1 ATATCTG
44401699 GCAGCGTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44408131 original size:27 final size:27
Alignment explanation
Indices: 44408097--44408269 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
44408087 TGGATAAGTT
44408097 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
44408124 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
44408151 GTAGACTTACCGAAATACCACTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
44408177 GATAGAATTGCCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
*
44408205 GTAGAAATACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
44408232 GTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
44408259 GTAAAATTACC
1 GTAGAATTACC
44408270 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 120 0.97
28 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:44408175 original size:54 final size:54
Alignment explanation
Indices: 44408097--44408269 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
44408087 TGGATAAGTT
* *
44408097 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
* * *
44408151 GTAGACTTACCGAAATACCACTGT-AGGATAGAATTGCCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCTTGTAGG
* *
44408205 GTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
*
44408259 GTAAAATTACC
1 GTAGAATTACC
44408270 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.03
54 99 0.94
55 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:44415792 original size:90 final size:90
Alignment explanation
Indices: 44415639--44415819 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
44415629 CGTAAAATGA
44415639 AATGCATGCAATGTCTTGGTTAGCCAAGCCTAGTCCATTCATATTCTATCTCATATCAGCCTATA
1 AATGCATGCAATGTCTTGGTTAGCCAAGCCTAGTCCATTCATATTCTATCTCATATCAGCCTATA
44415704 TTTTCCTTTATTTCACATTTCTACT
66 TTTTCCTTTATTTCACATTTCTACT
44415729 AATGCATGCAATGTCTTGGTTAGCCAAGCCTAGTCCATTCATATTCTATCTCATATCAGCCTATA
1 AATGCATGCAATGTCTTGGTTAGCCAAGCCTAGTCCATTCATATTCTATCTCATATCAGCCTATA
44415794 TTTTCCTTTATTTCACATTTCTACT
66 TTTTCCTTTATTTCACATTTCTACT
44415819 A
1 A
44415820 CTCATTTTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (90 bp):
AATGCATGCAATGTCTTGGTTAGCCAAGCCTAGTCCATTCATATTCTATCTCATATCAGCCTATA
TTTTCCTTTATTTCACATTTCTACT
Found at i:44420417 original size:84 final size:84
Alignment explanation
Indices: 44420276--44420442 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
44420266 ACGGTTTCTA
44420276 TACGAATGCCTGACCGAAACATGAGAACGAGAATACAAATCTCTGGATTTCTAAGATTGAGATGG
1 TACGAATGCCTGACCGAAACATGAGAACGAGAATACAAATCTCTGGATTTCTAAGATTGAGATGG
44420341 AAGTGACTTGCTCATCGGG
66 AAGTGACTTGCTCATCGGG
*
44420360 TACGAATGCCTGACCGAAACATGAGAACGAGAATACAAATCTTTGGATTTCTAAGATTGAGATGG
1 TACGAATGCCTGACCGAAACATGAGAACGAGAATACAAATCTCTGGATTTCTAAGATTGAGATGG
44420425 AAGTGACTTGCTCATCGG
66 AAGTGACTTGCTCATCGG
44420443 TCTCTTTTTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (84 bp):
TACGAATGCCTGACCGAAACATGAGAACGAGAATACAAATCTCTGGATTTCTAAGATTGAGATGG
AAGTGACTTGCTCATCGGG
Found at i:44423687 original size:42 final size:43
Alignment explanation
Indices: 44423577--44423688 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
44423567 TCTCGTACAT
* *
44423577 TGCCAATGTCCTAGACGTGGTCTTACATGTAATCATATATCGA
1 TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
* *
44423620 TGCCATTGTCCTAGATAG-GGTCTTACATGAAATCAAATAT-GA
1 TGCCAATGTCCTAGA-CGTGGTCTTACATGAAATCAAATATCGA
* *
44423662 TGCCAATGTCCCAGACGTGGCCTTACA
1 TGCCAATGTCCTAGACGTGGTCTTACA
44423689 CGATAACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.39
43 34 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
TGCCAATGTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
Done.