Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 133 of 320
Found at i:43599762 original size:18 final size:18
Alignment explanation
Indices: 43599713--43599762 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
43599703 TACAAAACAG
43599713 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
43599730 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
43599749 ACCCACTAACCCAA
1 ACCCACTAACCCAA
43599763 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:43601977 original size:41 final size:40
Alignment explanation
Indices: 43601928--43602095 Score: 146
Period size: 41 Copynumber: 4.2 Consensus size: 40
43601918 AGCCCGATCC
*
43601928 TTAG-CACTGGCTCAAAAGCCCTTTGAGACCAAACTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
* * * *
43601967 TTAGACCACTGGCTCAAAGGCCCTTCG-GAACTAAGTCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAGACCAAACT-CGGA
* * * ** *
43602007 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAACTC-G-GA
*
43602050 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
43602089 TTTAGAC
1 -TTAGAC
43602096 CCCGATTAGA
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
39 5 0.05
40 34 0.34
41 57 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
Found at i:43602030 original size:40 final size:40
Alignment explanation
Indices: 43601973--43602075 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 40
43601963 CGGATTAGAC
* *
43601973 CACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 CACTGGCTCAAA-GCCCTTCGAAACTAAGTCCAGTTATGAG
* *
43602013 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 CACTGGCTC-AAAGCCCTTCGAAACTAAGTCCAGTTATGAG
43602054 CACTGGCTCAAAAGCCCTTCGA
1 CACTGGCTC-AAAGCCCTTCGA
43602076 GACCAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
40 32 0.57
41 24 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACTGGCTCAAAGCCCTTCGAAACTAAGTCCAGTTATGAG
Found at i:43604693 original size:29 final size:30
Alignment explanation
Indices: 43604630--43604694 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
43604620 ATATTATTTG
* *
43604630 TATATTATATATATATATTCTTAAATATCA
1 TATATTATATATATATATACTTAAATATAA
* * *
43604660 T-TATTATTTATATATATACTT-TATGTAA
1 TATATTATATATATATATACTTAAATATAA
43604688 TATATTA
1 TATATTA
43604695 ATAGTTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 5 0.17
29 23 0.79
30 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATTATATATATATATACTTAAATATAA
Found at i:43605215 original size:24 final size:25
Alignment explanation
Indices: 43605187--43605251 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
43605177 TTTTTATATA
43605187 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
43605212 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
43605236 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
43605252 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:43609500 original size:32 final size:32
Alignment explanation
Indices: 43609454--43609523 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
43609444 GTTGGCTTTG
* * *
43609454 AAGTTAGAGATGTACACAAAATAACATTCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
43609486 AAGTCAGAGATGTACACAAAAGAACATCCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
43609518 AAGTCA
1 AAGTCA
43609524 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGTCAGAGATGTACACAAAAGAACATCCGGT
Found at i:43612350 original size:25 final size:25
Alignment explanation
Indices: 43612321--43612368 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43612311 TTATAATATG
* *
43612321 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
43612346 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43612369 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43612435 original size:20 final size:20
Alignment explanation
Indices: 43612412--43612449 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
43612402 TAAACATGGT
43612412 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
43612432 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
43612450 GTGTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43612529 original size:22 final size:22
Alignment explanation
Indices: 43612501--43612591 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 22
43612491 GGAAGTGCAA
*
43612501 AAGGGCTTATGCCCCAATTATT
1 AAGGGCTTATGCCCCAGTTATT
43612523 AAGGGCTTATGCCCCAGTTATT
1 AAGGGCTTATGCCCCAGTTATT
43612545 AAAGGGCTTATGCCCCAGTTATT
1 -AAGGGCTTATGCCCCAGTTATT
* *
43612568 AAAAGGGCTTTTGTCCCAGTTATT
1 --AAGGGCTTATGCCCCAGTTATT
43612592 GAAAGAGGCT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.33
23 22 0.34
24 21 0.33
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
AAGGGCTTATGCCCCAGTTATT
Found at i:43612577 original size:24 final size:23
Alignment explanation
Indices: 43612500--43612615 Score: 146
Period size: 24 Copynumber: 5.0 Consensus size: 23
43612490 AGGAAGTGCA
*
43612500 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
43612523 -AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
43612545 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
43612568 AAAAGGGCTTTTGTCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
43612592 GAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAG-GGCTTATGCC-CCAGTTAT
43612616 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
22 21 0.26
23 22 0.27
24 28 0.34
25 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:43612844 original size:31 final size:31
Alignment explanation
Indices: 43612809--43612872 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43612799 CGTTTACAGT
*
43612809 AAAGGCTTTGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
43612840 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
43612871 AA
1 AA
43612873 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:43619371 original size:25 final size:25
Alignment explanation
Indices: 43619343--43619390 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43619333 TCGAGCCTTA
*
43619343 TAACAGGAAGCTCATGTGAGCCATG
1 TAACAGGAAGCTCATGAGAGCCATG
*
43619368 TAACGGGAAGCTCATGAGAGCCA
1 TAACAGGAAGCTCATGAGAGCCA
43619391 CAATCAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
TAACAGGAAGCTCATGAGAGCCATG
Found at i:43621454 original size:17 final size:16
Alignment explanation
Indices: 43621429--43621476 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
43621419 AAAAAATATT
43621429 TTAATTTTTTAAAAAA
1 TTAATTTTTTAAAAAA
43621445 TT-ATATTTTTAAAATAA
1 TTAAT-TTTTTAAAA-AA
*
43621462 TTAATATTTTAAAAA
1 TTAATTTTTTAAAAA
43621477 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 12 0.43
18 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTTTTTAAAAAA
Found at i:43621476 original size:18 final size:18
Alignment explanation
Indices: 43621429--43621479 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
43621419 AAAAAATATT
43621429 TTAAT-TTTTTAAAA-AA
1 TTAATATTTTTAAAATAA
43621445 TT-ATATTTTTAAAATAA
1 TTAATATTTTTAAAATAA
*
43621462 TTAATATTTTAAAAATAA
1 TTAATATTTTTAAAATAA
43621480 AAATATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 4 0.13
18 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTTTTAAAATAA
Found at i:43621484 original size:17 final size:18
Alignment explanation
Indices: 43621447--43621485 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43621437 TTAAAAAATT
* *
43621447 ATATTTTTAAAATAATTA
1 ATATTTTAAAAATAATAA
43621465 ATATTTTAAAAATAA-AA
1 ATATTTTAAAAATAATAA
43621482 ATAT
1 ATAT
43621486 AAGATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTTTAAAAATAATAA
Found at i:43622683 original size:57 final size:59
Alignment explanation
Indices: 43622600--43622720 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
43622590 TTTTTCAAAT
* * *
43622600 CATTTTCATTTTTCATTTTGGAGAAAATCACATTCATTTCCAAAT-TATTT-CATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGT-TTTACATTTCTC
** *
43622658 CATTTTCA-TTTTCATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTTATATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
43622716 CATTT
1 CATTT
43622721 CACCATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 34 0.62
58 21 0.38
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (59 bp):
CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
Found at i:43631115 original size:28 final size:28
Alignment explanation
Indices: 43631049--43631140 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
43631039 ATGTACTAGA
43631049 ATACCCCTATGTATGCAAAATTACCA-T
1 ATACCCCTATGTATGCAAAATTACCATT
43631076 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
43631104 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
43631132 ATACCCCTA
1 ATACCCCTA
43631141 GGGTAAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 27 0.44
28 35 0.56
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:43631287 original size:28 final size:29
Alignment explanation
Indices: 43631246--43631308 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
43631236 AGGAAGCGTC
*
43631246 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
43631274 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
43631303 CTGGTG
1 CTGGTG
43631309 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:43631319 original size:29 final size:28
Alignment explanation
Indices: 43631256--43631319 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
43631246 CTGGTGGCTA
* *
43631256 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
43631284 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
43631313 TGTCACA
1 TGCCACA
43631320 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:43638976 original size:27 final size:28
Alignment explanation
Indices: 43638933--43639024 Score: 134
Period size: 28 Copynumber: 3.3 Consensus size: 28
43638923 ATGTACTAGA
43638933 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
43638961 ATA-TCCTATGTATGCAAAATTGCCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
43638988 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
43639016 ATACCCCTA
1 ATACCCCTA
43639025 GGGTAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 26 0.46
28 31 0.54
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:43639190 original size:29 final size:28
Alignment explanation
Indices: 43639130--43639192 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
43639120 AGGAAGCATC
* * *
43639130 CTGGTGGCTATGCCACAAATTATTTGTT
1 CTGGTGGCTATGCCACAAAATATCTATT
43639158 CTGGTGGC-ACTGCCACAAAATATCTATAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-T
43639187 CTGGTG
1 CTGGTG
43639193 ACTCTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 7 0.23
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAAAATATCTATT
Found at i:43648952 original size:64 final size:64
Alignment explanation
Indices: 43648872--43649055 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
43648862 AGACATTATG
* ** *
43648872 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * *
43648936 ATGTAGCTAGGTCGCATGTGTGGCT-CTAGGTGAAGGACACCATGTAGACAAGAGAGCTACAAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGA
43649000 TAA
62 TAA
* * * *
43649003 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
43649056 CGAACTCTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
65 4 0.04
66 19 0.19
67 31 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:43664293 original size:40 final size:40
Alignment explanation
Indices: 43664249--43664510 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
43664239 GCTCCTCGTT
* *
43664249 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
43664289 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43664329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43664368 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
43664407 CAAATGCCTTCGGG-TTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
43664446 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
43664487 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43664511 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 127 0.63
40 63 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:43678738 original size:28 final size:28
Alignment explanation
Indices: 43678706--43678770 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
43678696 ATTTACTAGA
*
43678706 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
43678734 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
43678762 ATACCCCTA
1 ATACCCCTA
43678771 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:43678917 original size:28 final size:27
Alignment explanation
Indices: 43678876--43678965 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
43678866 AGGAAGCGTC
43678876 CTGGTGG-CTATGCAACAAATTATCTGTT
1 CTGGTGGCCT-TGCAACAAA-TATCTGTT
* *
43678904 CTGGTGGCCTTGCAACATATATCAGTT
1 CTGGTGGCCTTGCAACAAATATCTGTT
*
43678931 CTGGTGGCAC-TGCCACAAAATATCTGTAT
1 CTGGTGGC-CTTGCAAC-AAATATCTGT-T
43678960 CTGGTG
1 CTGGTG
43678966 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
27 20 0.38
28 24 0.45
29 9 0.17
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCCTTGCAACAAATATCTGTT
Found at i:43678934 original size:27 final size:29
Alignment explanation
Indices: 43678876--43678938 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
43678866 AGGAAGCGTC
*
43678876 CTGGTGG-CTATGCAACAAATTATCTGTT
1 CTGGTGGCCTATGCAACAAATTATCAGTT
*
43678904 CTGGTGGCCT-TGCAACATA-TATCAGTT
1 CTGGTGGCCTATGCAACAAATTATCAGTT
43678931 CTGGTGGC
1 CTGGTGGC
43678939 ACTGCCACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 15 0.47
28 15 0.47
29 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (29 bp):
CTGGTGGCCTATGCAACAAATTATCAGTT
Found at i:43678976 original size:29 final size:28
Alignment explanation
Indices: 43678922--43678976 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
43678912 CTTGCAACAT
*
43678922 ATATCAGTTCTGGTGGCACTGCCACAAA
1 ATATCAGTTCTGGTGACACTGCCACAAA
* * *
43678950 ATATCTGTATCTGGTGACTCTGTCACA
1 ATATCAGT-TCTGGTGACACTGCCACA
43678977 TTTCTGTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (28 bp):
ATATCAGTTCTGGTGACACTGCCACAAA
Found at i:43679457 original size:18 final size:18
Alignment explanation
Indices: 43679418--43679458 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43679408 TAATAAGGCC
* *
43679418 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
43679436 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
43679454 TTTTA
1 TTTTA
43679459 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:43681750 original size:23 final size:23
Alignment explanation
Indices: 43681719--43681764 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
43681709 AAATTGAAAA
43681719 TTTTTTAAAAGTT-TAAAA-ATAT
1 TTTTTTAAAA-TTCTAAAATATAT
43681741 TTTTTATAAAATTCTAAAATATAT
1 TTTTT-TAAAATTCTAAAATATAT
43681765 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 10 0.48
24 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTTTTAAAATTCTAAAATATAT
Found at i:43681759 original size:22 final size:21
Alignment explanation
Indices: 43681718--43681764 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
43681708 GAAATTGAAA
*
43681718 ATTTTTTAAAAGTTTAAAAAT
1 ATTTTTTAAAAATTTAAAAAT
43681739 ATTTTTTATAAAATTCTAAAATAT
1 ATTTTTTA-AAAATT-TAAAA-AT
43681763 AT
1 AT
43681765 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 5 0.23
24 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTTTTAAAAATTTAAAAAT
Found at i:43683926 original size:40 final size:39
Alignment explanation
Indices: 43683838--43684045 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 39
43683828 CTCGTTCAAT
* * * * *
43683838 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGA-TTAACCCGGATTTAGTATCTCGCACAAA
** * *
43683877 TGCCTTCGGGATATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGAT-TAACCCGGATTTAGTATCTCGCACAAA
43683917 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGA-TTAACCCGGATTTAGTATCTCGCACAAA
* *
43683957 GGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAA
1 TGCCTTC-GGGATTAACCCGG-ATTTAGTATCTCGCACAAA
*
43683997 TGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAA
1 TGCCTTC-GGGATTAACCCGG-ATTTAGTATCTCGCACAAA
43684037 TGCCTTCGG
1 TGCCTTCGG
43684046 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 32 0.21
40 111 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGATTAACCCGGATTTAGTATCTCGCACAAA
Found at i:43683999 original size:80 final size:81
Alignment explanation
Indices: 43683838--43684045 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 81
43683828 CTCGTTCAAT
* * * * *
43683838 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTC-GGGATATAACCCGGATT
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGGATATAACCCGGATT
*
43683901 TAACAACTCGCACGAA
66 TAACAACTCGCACAAA
* *
43683917 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCT-TAACCCGGAAT
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGGATATAACCCGG-AT
** *
43683981 TT-GTATCTCGCACAAA
65 TTAACAACTCGCACAAA
*
43683997 TGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 TGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAATGCCTTCGG
43684046 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 32 0.29
80 68 0.61
81 12 0.11
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (81 bp):
TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGGATATAACCCGGATT
TAACAACTCGCACAAA
Found at i:43684058 original size:80 final size:80
Alignment explanation
Indices: 43683838--43684098 Score: 239
Period size: 80 Copynumber: 3.3 Consensus size: 80
43683828 CTCGTTCAAT
* * * * * * *
43683838 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGG-GATATAACCCGG-AT
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCT-TAACCCGGAAT
** * *
43683900 TTAACAACTCGCACGAA
65 TT-GTATCTCGCACAAA
*
43683917 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATT
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATT
43683982 TGTATCTCGCACAAA
66 TGTATCTCGCACAAA
* * * **
43683997 TGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGA-A
* *
43684061 TATT-CA-CTTAGCACAAA
64 T-TTGTATC-TCGCACAAA
*
43684078 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
43684099 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
79 33 0.21
80 98 0.64
81 21 0.14
82 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATT
TGTATCTCGCACAAA
Found at i:43684107 original size:41 final size:41
Alignment explanation
Indices: 43684030--43684107 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43684020 TTTGTATCTC
* * *
43684030 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43684071 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43684108 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43689053 original size:92 final size:92
Alignment explanation
Indices: 43688896--43689080 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 92
43688886 ATATTCACAG
*
43688896 ACCATAAGAGTTTGAAGTATTTGATAACTCAAAAAGAATTGAATCTGAGACAGTGGAGATGGTTA
1 ACCATAAGAGTTTGAAGTATTTGATAACTCAAAAAGAATTGAATCTAAGACAGTGGAGATGGTTA
43688961 GAACTAATTAAAGATTACAAGTAAATC
66 GAACTAATTAAAGATTACAAGTAAATC
43688988 ACCATAAGAGTTTGAAGTATTTGATAACTCAAAAAGAATTGAATCTAAGACAGTGGAGATGGTTA
1 ACCATAAGAGTTTGAAGTATTTGATAACTCAAAAAGAATTGAATCTAAGACAGTGGAGATGGTTA
*
43689053 GAACTAATTAAAGATTACGAGTAAATC
66 GAACTAATTAAAGATTACAAGTAAATC
43689080 A
1 A
43689081 TCGATTATCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (92 bp):
ACCATAAGAGTTTGAAGTATTTGATAACTCAAAAAGAATTGAATCTAAGACAGTGGAGATGGTTA
GAACTAATTAAAGATTACAAGTAAATC
Found at i:43698606 original size:168 final size:167
Alignment explanation
Indices: 43698299--43698627 Score: 496
Period size: 168 Copynumber: 2.0 Consensus size: 167
43698289 GATTGTCTGG
* * *
43698299 AAAGATACTGATCAGACTTCGAAGCTGAGTAATCCCTCCTCGACAGGTAGATCACCCCGTCAGCC
1 AAAGATACTGATCAGACTTCGAAGCCGAGTAATCCCGCCTCGACAGGTAGATCACCCCGTCACCC
* * *
43698364 AGCAATATCAGTTGTAGCCAAGGTGCTATAAAAGTCTCAATGGTTAAATCTAAGGCAAGAGCACC
66 AGCAATATCAGTGGTAGCCAAGGTGCTATAAAAGTCTCAATAGTTAAATCTAAGGCAAGAGCAAC
*
43698429 AATAAGGACATATGCTATACGTACAACAGAGTTTAAA
131 AACAAGGACATATGCTATACGTACAACAGAGTTTAAA
* *
43698466 AAAGATACTGATCAGACTTCGAAGCCGAGTAATCCCGCCTCGAGAGGTAGATCACCCCGTTACCC
1 AAAGATACTGATCAGACTTCGAAGCCGAGTAATCCCGCCTCGACAGGTAGATCACCCCGTCA-CC
* ** * *
43698531 CGGCAATATTGGTGGTAGCCGAGGTGCTATAAAAGTCTCAATAGTTAAATCTGAGGCAAGAGCAA
65 CAGCAATATCAGTGGTAGCCAAGGTGCTATAAAAGTCTCAATAGTTAAATCTAAGGCAAGAGCAA
** *
43698596 TGACAAGGACATATGCTATACGTACAAGAGAG
130 CAACAAGGACATATGCTATACGTACAACAGAG
43698628 GATGCCTCTG
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
167 58 0.40
168 86 0.60
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (167 bp):
AAAGATACTGATCAGACTTCGAAGCCGAGTAATCCCGCCTCGACAGGTAGATCACCCCGTCACCC
AGCAATATCAGTGGTAGCCAAGGTGCTATAAAAGTCTCAATAGTTAAATCTAAGGCAAGAGCAAC
AACAAGGACATATGCTATACGTACAACAGAGTTTAAA
Found at i:43699881 original size:28 final size:27
Alignment explanation
Indices: 43699831--43699943 Score: 149
Period size: 27 Copynumber: 4.1 Consensus size: 27
43699821 AACATGGCTG
* *
43699831 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
43699857 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
43699885 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
43699912 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
43699940 CCAG
1 CCAG
43699944 GACACTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.47
28 33 0.42
29 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:43699914 original size:55 final size:54
Alignment explanation
Indices: 43699831--43699943 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 54
43699821 AACATGGCTG
*
43699831 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTTGTGGCAGAGCCA
* *
43699885 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
43699940 CCAG
1 CCAG
43699944 GACACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 19 0.35
55 35 0.65
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:43703608 original size:7 final size:7
Alignment explanation
Indices: 43703596--43703661 Score: 96
Period size: 7 Copynumber: 9.4 Consensus size: 7
43703586 CCATTATCAT
43703596 GGGTTTA
1 GGGTTTA
43703603 GGGTTTA
1 GGGTTTA
43703610 GGGTTTA
1 GGGTTTA
*
43703617 GGATTTA
1 GGGTTTA
43703624 GGGTTTA
1 GGGTTTA
* *
43703631 CGTTTTA
1 GGGTTTA
43703638 GGGTTTA
1 GGGTTTA
43703645 GGGTTTA
1 GGGTTTA
*
43703652 GCGTTTA
1 GGGTTTA
43703659 GGG
1 GGG
43703662 GCATATCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.15, C:0.03, G:0.39, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:43706442 original size:47 final size:47
Alignment explanation
Indices: 43706379--43706743 Score: 525
Period size: 47 Copynumber: 7.8 Consensus size: 47
43706369 TAATTGAATA
* * *
43706379 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
*
43706426 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
*
43706473 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
*
43706520 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
*
43706567 AATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
* * *
43706614 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
* * * * * *
43706661 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
* * * **
43706708 GATGTAATGAATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGATGAAAGTGAACA-TGTATATGTGTGATAAG
43706744 TCTCGAAGGG
Statistics
Matches: 292, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 291 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
Found at i:43706918 original size:37 final size:37
Alignment explanation
Indices: 43706862--43706941 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
43706852 CCGGGCTCTA
* * *
43706862 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
43706899 AAGACTCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
43706936 AAGACT
1 AAGACT
43706942 TCGTAATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43708794 original size:40 final size:40
Alignment explanation
Indices: 43708744--43709326 Score: 872
Period size: 40 Copynumber: 14.6 Consensus size: 40
43708734 TCGAGTGATG
* *
43708744 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
43708784 TCCGGACTAAGAT-CCGAAG-GCATTGGTG-TGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCT-AGTGA-TATA
*
43708824 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43708864 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
43708904 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
43708944 TCAGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43708984 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709024 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA-A
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT-ATA
*
43709064 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709104 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709144 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709184 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709224 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
43709264 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
43709304 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
43709327 ATCATGCTGG
Statistics
Matches: 500, Mismatches: 36, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 480 0.96
41 18 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:43713196 original size:47 final size:47
Alignment explanation
Indices: 43713133--43713720 Score: 946
Period size: 47 Copynumber: 12.6 Consensus size: 47
43713123 TAATTGAATA
* *
43713133 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
43713180 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
43713227 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
43713274 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
43713321 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
43713368 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
43713415 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
43713462 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
43713509 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
43713556 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
43713603 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * * * *
43713650 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * *
43713697 GATGTAATGAATGTGAA-A-GTGTAT
1 AATGTGATGAAAGTGAACATGTGTAT
43713721 AAATGTGATA
Statistics
Matches: 511, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 504 0.99
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:43713907 original size:37 final size:37
Alignment explanation
Indices: 43713851--43713930 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
43713841 CCGGGCTCTA
* * *
43713851 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43713888 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
43713925 AAGACT
1 AAGACT
43713931 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43719475 original size:93 final size:93
Alignment explanation
Indices: 43719363--43719533 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
43719353 GCCCCTAAGT
*
43719363 GAACTCGGACTCAACTCAACAAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43719427 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
43719456 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43719521 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43719534 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43719529 original size:46 final size:46
Alignment explanation
Indices: 43719360--43719530 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
43719350 CCCGCCCCTA
* * *
43719360 AGTGAACTCGGACTCAACTCAACAAGCTC-GAGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
*
43719405 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCAT
*
43719453 CA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
43719498 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
43719531 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 56 0.52
47 31 0.29
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
Found at i:43719991 original size:30 final size:30
Alignment explanation
Indices: 43719957--43720016 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43719947 ATTTAATACG
43719957 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43719987 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43720017 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43723186 original size:48 final size:48
Alignment explanation
Indices: 43723122--43723229 Score: 182
Period size: 48 Copynumber: 2.2 Consensus size: 48
43723112 ATACTCAGGA
*
43723122 ATCTCGCACACTAAGTGCGAATATCATAGCCCGAAGCCAACTCAATGT
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCAATGT
*
43723170 ATCTCGCAC-CTGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGT
1 ATCTCGCACACT-AAGTGCCAATATCATAGCCCGAAGCCAACTCAATGT
43723218 ATCTCGCACACT
1 ATCTCGCACACT
43723230 CAATGTATCT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
47 2 0.04
48 52 0.93
49 2 0.04
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (48 bp):
ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCAATGT
Found at i:43723232 original size:18 final size:18
Alignment explanation
Indices: 43723209--43723244 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43723199 CCCGAAGCCA
43723209 ACTCAATGTATCTCGCAC
1 ACTCAATGTATCTCGCAC
*
43723227 ACTCAATGTATCTTGCAC
1 ACTCAATGTATCTCGCAC
43723245 CCAAAGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTCAATGTATCTCGCAC
Found at i:43723267 original size:66 final size:66
Alignment explanation
Indices: 43723161--43723292 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
43723151 CCCGAAGCCA
** * *
43723161 ACTCAATGTATCTCGCACCTGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTATCTCGCA
1 ACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAAGGTATCTCGCA
43723226 C
66 C
* *
43723227 ACTCAATGTATCTTGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAAGGTATCTTGCA
1 ACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAAGGTATCTCGCA
43723292 C
66 C
43723293 CCGAACTGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (66 bp):
ACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAAGGTATCTCGCA
C
Found at i:43723286 original size:48 final size:48
Alignment explanation
Indices: 43723227--43723334 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
43723217 TATCTCGCAC
*
43723227 ACTCAATGTATCTTGCACCCAAAGTGCCAATATCATGGCCCAAAGCCA
1 ACTCAATGTATCTTGCACCCAAACTGCCAATATCATGGCCCAAAGCCA
* * * * * *
43723275 ACTCAAGGTATCTTGCACCCGAACTGTCAATATTATGGCTCGAAGCCA
1 ACTCAATGTATCTTGCACCCAAACTGCCAATATCATGGCCCAAAGCCA
43723323 ACTCAATGTATC
1 ACTCAATGTATC
43723335 CCCTAATGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (48 bp):
ACTCAATGTATCTTGCACCCAAACTGCCAATATCATGGCCCAAAGCCA
Found at i:43726989 original size:19 final size:19
Alignment explanation
Indices: 43726962--43727013 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
43726952 AATAAATTAC
43726962 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
* *
43726981 TCATTTTAGTTAATTGATT
1 TCATCTTAGTTAATTGAGT
43727000 TCATCTTAGTTAAT
1 TCATCTTAGTTAAT
43727014 AACTCATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:43727022 original size:17 final size:18
Alignment explanation
Indices: 43727000--43727033 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43726990 TTAATTGATT
43727000 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
43727017 TCATCTTAGATTAATAA
1 TCATCTTAGATTAATAA
43727034 ATGAGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:43731621 original size:19 final size:19
Alignment explanation
Indices: 43731592--43731643 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
43731582 AATAAATTAG
43731592 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
43731611 TCAAT-TTAGTTAATTGAGT
1 TC-ATCTTAGTTAATTGAGT
43731630 TCATCTTAGTTAAT
1 TCATCTTAGTTAAT
43731644 AACTCATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
19 27 0.87
20 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:43731652 original size:17 final size:18
Alignment explanation
Indices: 43731630--43731663 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43731620 TTAATTGAGT
43731630 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
43731647 TCATCTTAGATTAATAA
1 TCATCTTAGATTAATAA
43731664 ATGAGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:43731913 original size:10 final size:10
Alignment explanation
Indices: 43731889--43731926 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
43731879 ATGTGTTTGA
43731889 GTTTAATTAGT
1 GTTTAATT-GT
43731900 GTTTAATTGT
1 GTTTAATTGT
43731910 GTTTAATTGT
1 GTTTAATTGT
43731920 GTTTAAT
1 GTTTAAT
43731927 AAGTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (10 bp):
GTTTAATTGT
Found at i:43735600 original size:152 final size:152
Alignment explanation
Indices: 43735324--43735635 Score: 597
Period size: 152 Copynumber: 2.1 Consensus size: 152
43735314 ATTGGGTCGT
43735324 GTGGGCCCTATGGGCATGTGGGCCCTACGCGGGTGAACTACAGGGGTGTGTGAAATTTATTCCGC
1 GTGGGCCCTATGGGCATGTGGGCCCTACGCGGGTGAACTACAGGGGTGTGTGAAATTTATTCCGC
43735389 CAGGCTGTATAATCCACATGGCCAAGGTTATTTTAGACCGTATGGGCAACGGGGCGTGTGGGCCC
66 CAGGCTGTATAATCCACATGGCCAAGGTTATTTTAGACCGTATGGGCAACGGGGCGTGTGGGCCC
43735454 ACGTAGGCCAACAATATAGGTC
131 ACGTAGGCCAACAATATAGGTC
*
43735476 GTGGGCCCTATGGGCATGTGGGCCCTACGCGGGTGAACTACAGGGGTGTGTGAAATTTATTGCGC
1 GTGGGCCCTATGGGCATGTGGGCCCTACGCGGGTGAACTACAGGGGTGTGTGAAATTTATTCCGC
*
43735541 CAGGCTGTATAATCCACATGGCCAAGGTTATTTTAGACCGTGTGGGCAACGGGGCGTGTGGGCCC
66 CAGGCTGTATAATCCACATGGCCAAGGTTATTTTAGACCGTATGGGCAACGGGGCGTGTGGGCCC
43735606 ACGTAGGCCAACAATATAGGTC
131 ACGTAGGCCAACAATATAGGTC
*
43735628 GTGCGCCC
1 GTGGGCCC
43735636 ATTTTTACTA
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
152 157 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (152 bp):
GTGGGCCCTATGGGCATGTGGGCCCTACGCGGGTGAACTACAGGGGTGTGTGAAATTTATTCCGC
CAGGCTGTATAATCCACATGGCCAAGGTTATTTTAGACCGTATGGGCAACGGGGCGTGTGGGCCC
ACGTAGGCCAACAATATAGGTC
Found at i:43747268 original size:48 final size:48
Alignment explanation
Indices: 43747195--43747462 Score: 237
Period size: 48 Copynumber: 5.6 Consensus size: 48
43747185 AATAGTAGGG
* * *
43747195 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGGCCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* *
43747243 TGCCAATGCCATGTTCCAGACATGGTCTTACATAGGATCACACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-C-CACATATCGA
* * * * *
43747293 AGCCGAT---A-G-CCCAG-CTAAGGTCTTACATGATGTA-CTCATATCGA
1 TGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG--GGACCACATATCGA
* * *
43747337 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* * *
43747385 TTG-CAATGCCATGTCCTAGACATAGTCTTACATGGGACCATATATCGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
* * * **
43747433 TGCCGATGCAATATCCCAGTTATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
43747463 TACGGGATCT
Statistics
Matches: 174, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
44 15 0.09
45 15 0.09
46 1 0.01
47 8 0.05
48 100 0.57
49 19 0.11
50 16 0.09
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCACATATCGA
Found at i:43747829 original size:13 final size:14
Alignment explanation
Indices: 43747811--43747839 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43747801 TTTATGGTCT
43747811 ATGATTTCAT-AAA
1 ATGATTTCATGAAA
43747824 ATGATTTCATGAAA
1 ATGATTTCATGAAA
43747838 AT
1 AT
43747840 TTCGTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (14 bp):
ATGATTTCATGAAA
Found at i:43751491 original size:27 final size:27
Alignment explanation
Indices: 43751423--43751520 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
43751413 CCTCGAATTA
* *
43751423 TAAAATTACTAAAATAACCC-CGGTTTG
1 TAAAATTACCAAAAT-ACCCTCAGTTTG
* * *
43751450 TAAAATTATCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCAGTTTG
* *
43751477 TAAAATTACCAAAATACCCT-TGTAGTG
1 TAAAATTACCAAAATACCCTCAGT-TTG
43751504 TAAAATTACCAAAATAC
1 TAAAATTACCAAAATAC
43751521 TCTTGTATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCAGTTTG
Found at i:43751525 original size:27 final size:27
Alignment explanation
Indices: 43751475--43751527 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
43751465 ACCCTCAATT
43751475 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
*
43751502 TGTAAAATTACCAAAATACTCTTGTA
1 TGTAAAATTACCAAAATACCCTTGTA
43751528 TGACTATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:43751943 original size:28 final size:27
Alignment explanation
Indices: 43751907--43751971 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
43751897 ATTACACTGT
* * *
43751907 ACTGATACTGTATTGGGCTTAGGCTCAC
1 ACTG-TACTGTATAGGGCTAAGGCCCAC
*
43751935 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTG-TACTGTATAGGGCTAAGGCCCAC
43751963 ACTGTACTG
1 ACTGTACTG
43751972 ATACTTATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (27 bp):
ACTGTACTGTATAGGGCTAAGGCCCAC
Found at i:43751985 original size:32 final size:33
Alignment explanation
Indices: 43751935--43751999 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
43751925 TTAGGCTCAC
* * *
43751935 ACTGTTACTGTATAGGGCTAAGGCCCAGACTGT
1 ACTGATACTGTATAGGGCTAAAGCCCAAACTGT
43751968 ACTGATACT-TATAGGGCTAAAGCCCAAACTGT
1 ACTGATACTGTATAGGGCTAAAGCCCAAACTGT
43752000 TTTGCATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (33 bp):
ACTGATACTGTATAGGGCTAAAGCCCAAACTGT
Found at i:43753730 original size:6 final size:6
Alignment explanation
Indices: 43753700--43753886 Score: 143
Period size: 6 Copynumber: 30.3 Consensus size: 6
43753690 AAGAAACATT
* *
43753700 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
43753747 GTGACAGA ATCAAA ATTAGA ATCAGA ATCAAA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
43753798 ATCAGT ATCAGGTA AT-AGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
43753848 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43753887 GTGAATGCAA
Statistics
Matches: 144, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 113 0.78
7 12 0.08
8 8 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:43753768 original size:31 final size:31
Alignment explanation
Indices: 43753721--43753886 Score: 170
Period size: 31 Copynumber: 5.5 Consensus size: 31
43753711 AATCAAAATA
*
43753721 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
43753752 AGAATCAAAATTAGAATCAGAATCA--AAATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
* *
43753782 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAT
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAC
*
43753814 AGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
43753845 AGAATCAGAATCAG--T----ATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
43753870 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
43753887 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 13, Indels: 20
0.78 0.09 0.14
Matches are distributed among these distances:
25 23 0.20
27 1 0.01
29 2 0.02
30 3 0.03
31 79 0.69
32 4 0.04
33 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:43753792 original size:25 final size:25
Alignment explanation
Indices: 43753764--43753886 Score: 147
Period size: 25 Copynumber: 4.7 Consensus size: 25
43753754 AATCAAAATT
* *
43753764 AGAATCAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
43753789 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGG---T--AA-C
*
43753820 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
43753845 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
43753870 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
43753887 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
25 58 0.69
26 2 0.02
28 2 0.02
30 2 0.02
31 20 0.24
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:43753801 original size:43 final size:42
Alignment explanation
Indices: 43753700--43753780 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
43753690 AAGAAACATT
*
43753700 ATCAGA-ACTAGAATCAAAATAAGAATCAGAATCAGAATCAGA
1 ATCAGATAC-AGAATCAAAATAAGAATCAGAATCAAAATCAGA
* *
43753742 ATCAGGTGACAGAATCAAAATTAGAATCAGAATCAAAAT
1 ATCAGAT-ACAGAATCAAAATAAGAATCAGAATCAAAAT
43753781 TAGGTAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 5 0.15
43 27 0.79
44 2 0.06
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.19
Consensus pattern (42 bp):
ATCAGATACAGAATCAAAATAAGAATCAGAATCAAAATCAGA
Found at i:43754332 original size:27 final size:27
Alignment explanation
Indices: 43754302--43754516 Score: 222
Period size: 27 Copynumber: 8.0 Consensus size: 27
43754292 GGGGTAAAAT
* *
43754302 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
43754329 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
43754356 AGTAATTTTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
43754383 GGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
43754410 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
43754437 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
43754464 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
43754491 GGT-ATTTCTACCCTACAAGGGTATTT
1 GGTAATTT-TACCCTACAAGGGTATTT
43754517 TGACATTTCT
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 10 0.06
27 146 0.91
28 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:43754365 original size:54 final size:53
Alignment explanation
Indices: 43754303--43754516 Score: 268
Period size: 54 Copynumber: 4.0 Consensus size: 53
43754293 GGGTAAAATG
* * * *
43754303 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTCA
* * * *
43754357 GTAATTTTATCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-CAGGGTATTTCA
* **
43754411 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCA
*
43754465 GT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 GTAATTT-TACCCTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTT
43754517 TGACATTTCT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
53 4 0.03
54 129 0.94
55 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (53 bp):
GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCA
Found at i:43754517 original size:81 final size:81
Alignment explanation
Indices: 43754306--43754517 Score: 302
Period size: 81 Copynumber: 2.6 Consensus size: 81
43754296 TAAAATGGTA
* * * * * *
43754306 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAGTAATTTTATCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTTAGTAATTCTACCC
*
43754369 TACAGGGGTATTTCGGT
65 TACAGGGGTATTTCAGT
* *
43754386 ATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
43754451 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* *
43754467 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTT
43754518 GACATTTCTA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 4 0.03
81 111 0.95
82 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:43754524 original size:27 final size:27
Alignment explanation
Indices: 43754306--43754544 Score: 209
Period size: 27 Copynumber: 8.9 Consensus size: 27
43754296 TAAAATGGTA
* * * *
43754306 ATTT-TACCCCACAAGGGTATCTCGGT
1 ATTTCTACCCTACAGGGGTATTTCGAT
* * *
43754332 AATTCTACCTTACAGGAGTATTTC-AGT
1 ATTTCTACCCTACAGGGGTATTTCGA-T
* *
43754359 AATTT-TATCCTACAGGGGTATTTCGGT
1 -ATTTCTACCCTACAGGGGTATTTCGAT
* * *
43754386 ATTTCTACCCTATAAGGGTATTTCGGT
1 ATTTCTACCCTACAGGGGTATTTCGAT
* *
43754413 AATTCTACCCTACAGGGGTATTT-TAGT
1 ATTTCTACCCTACAGGGGTATTTCGA-T
*
43754440 AATTCTACCCTACAGGGGTATTTC-AGT
1 ATTTCTACCCTACAGGGGTATTTCGA-T
*
43754467 ATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAGGGGTATTTCGAT
* * *
43754494 ATTTCTACCCTACAAGGGTATTTTGAC
1 ATTTCTACCCTACAGGGGTATTTCGAT
** *
43754521 ATTTCTACTGTACAAGGGTATTTC
1 ATTTCTACCCTACAGGGGTATTTC
43754545 AATAATTTTG
Statistics
Matches: 176, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.04
27 166 0.94
28 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTTCTACCCTACAGGGGTATTTCGAT
Found at i:43754527 original size:81 final size:81
Alignment explanation
Indices: 43754306--43754545 Score: 292
Period size: 81 Copynumber: 3.0 Consensus size: 81
43754296 TAAAATGGTA
* * * * *
43754306 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAGTAATTT-TATC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTT-TGTAATTTCTACC
*
43754368 CTACAGGGGTATTTCGGT
64 CTACAGGGGTATTTCAGT
* *
43754386 ATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAA-TTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTT-GTAATTTCTACCC
43754450 TACAGGGGTATTTCAGT
65 TACAGGGGTATTTCAGT
* * **
43754467 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG-ACATTTCTACTG
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGTA-ATTTCTACCC
*
43754531 TACAAGGGTATTTCA
65 TACAGGGGTATTTCA
43754546 ATAATTTTGT
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 8 0.06
81 128 0.92
82 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGTAATTTCTACCCT
ACAGGGGTATTTCAGT
Found at i:43754620 original size:27 final size:26
Alignment explanation
Indices: 43754571--43755038 Score: 432
Period size: 27 Copynumber: 17.3 Consensus size: 26
43754561 GAGGGTAAAA
* * * *
43754571 TGGTAATTCTATAAATCAGGGGTACTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
* *
43754598 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAA-ACAAGGGTATTT
*** ** * *
43754625 CAATAATTTTACAGTTCGAGGGCATTT
1 TGGTAATTTTACA-AACAAGGGTATTT
** * *
43754652 CAGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
*
43754679 TGGTAATTTTACAAACTAGGAGTATTT
1 TGGTAATTTTACAAACAAGG-GTATTT
* *
43754706 TGATAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
*
43754733 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAAC-AAGGGTATTT
*
43754760 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
*
43754787 TAGTAATTTTACAAACCAAGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
**
43754814 TGGTAATTTTGTAAACTAAGGGTATTT
1 TGGTAATTTTACAAAC-AAGGGTATTT
*
43754841 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAAC-AAGGGTATTT
* *
43754868 TGGTGATTTTATAAACTAAGGGTATTT
1 TGGTAATTTTACAAAC-AAGGGTATTT
* * *
43754895 TAGTAATTTTACAAATTATGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
**
43754922 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
*
43754949 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
* *
43754976 TGGTGATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAA-CAAGGGTATTT
* * *
43755003 TAGTAATTTTACAAACCAGAGTTATTT
1 TGGTAATTTTACAAACAAG-GGTATTT
43755030 TGGTAATTT
1 TGGTAATTT
43755039 GGTAAACTAA
Statistics
Matches: 368, Mismatches: 63, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
26 8 0.02
27 356 0.97
28 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
TGGTAATTTTACAAACAAGGGTATTT
Found at i:43754643 original size:81 final size:80
Alignment explanation
Indices: 43754535--43754800 Score: 207
Period size: 81 Copynumber: 3.3 Consensus size: 80
43754525 CTACTGTACA
** * *
43754535 AGGGTATTTCAATAATTTTGTAATTCGAGGGTAAAAT-GGTAA-TTCTATAAATCAGGGGTACTT
1 AGGGTATTTCAATAATTTTACAATTCGAGGG-AAAATCAGTAATTTC-ACAAATCAGGGGTACTT
*
43754598 TGGTAATTTTACAAGTCG
64 TGGTAATTTTACAA-ACG
* * ** *
43754616 AGGGTATTTCAATAATTTTACAGTTCGAGGGCATTTCAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTCAATAATTTTACAATTCGAGGGAAAATCAGTAATTTCACAAATCAGGGGTACTTTG
*
43754681 GTAATTTTACAAACT
66 GTAATTTTACAAACG
** * * * ** ** * *
43754696 AGGAGTATTTTGATAATTTTACAA-ACCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATT
1 AGG-GTATTTCAATAATTTTACAATTCGA-GGGAAAATCAGTAATTTCACAAATC-AGGGGTACT
* *
43754759 TTGGTAATTTTATAAACCA
63 TTGGTAATTTTACAAA-CG
* *
43754778 AGGGTATTTTAGTAATTTTACAA
1 AGGGTATTTCAATAATTTTACAA
43754801 ACCAAGGGTA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
80 9 0.06
81 139 0.90
82 7 0.05
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAATAATTTTACAATTCGAGGGAAAATCAGTAATTTCACAAATCAGGGGTACTTTG
GTAATTTTACAAACG
Found at i:43755019 original size:54 final size:54
Alignment explanation
Indices: 43754671--43755038 Score: 547
Period size: 54 Copynumber: 6.8 Consensus size: 54
43754661 CACAAATCAG
* * * *
43754671 GGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
43754725 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * * *
43754779 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
43754833 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
43754887 GGGTATTTTAGTAATTTTACAAATTATGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
43754941 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
43754995 GGGTATTTTAGTAATTTTACAAACCAGAGTTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
43755039 GGTAAACTAA
Statistics
Matches: 284, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 284 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:43755045 original size:27 final size:27
Alignment explanation
Indices: 43754671--43755038 Score: 443
Period size: 27 Copynumber: 13.6 Consensus size: 27
43754661 CACAAATCAG
* *
43754671 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
43754697 GGAGTATTTTGATAATTTTACAAACCAG
1 GG-GTATTTTGGTAATTTTATAAACCAA
* * *
43754725 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
43754752 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
43754779 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
43754806 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
43754833 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
43754860 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * ** *
43754887 GGGTATTTTAGTAATTTTACAAATTAT
1 GGGTATTTTGGTAATTTTATAAACCAA
*
43754914 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
43754941 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
43754968 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
43754995 GGGTATTTTAGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTATAAACCAA
*
43755021 GAGTTATTTTGGTAATTT
1 G-GGTATTTTGGTAATTT
43755039 GGTAAACTAA
Statistics
Matches: 297, Mismatches: 42, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
26 4 0.01
27 290 0.98
28 3 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:43763914 original size:27 final size:26
Alignment explanation
Indices: 43763879--43763990 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
43763869 AGCATGGCTG
* *
43763879 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
43763905 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
43763933 CCGGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
43763960 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
43763987 CCAG
1 CCAG
43763991 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:43763973 original size:54 final size:54
Alignment explanation
Indices: 43763882--43763988 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
43763872 ATGGCTGCCA
*
43763882 GAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCG
1 GAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCG
* * * *
43763936 GAACAGATATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCACC
1 GAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
43763989 AGGACGCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
GAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCG
Found at i:43764158 original size:28 final size:26
Alignment explanation
Indices: 43764096--43764158 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
43764086 AAAGTAACCC
* *
43764096 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAATGGTAATTTTCCACA
43764122 TAGGGGTATAACT-GTAATTTTCCATACA
1 TAGGGGTATAA-TGGTAATTTTCC--ACA
43764150 TAGGGGTAT
1 TAGGGGTAT
43764159 TCAAGTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 20 0.62
27 1 0.03
28 11 0.34
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAATGGTAATTTTCCACA
Found at i:43771146 original size:31 final size:31
Alignment explanation
Indices: 43771106--43771171 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
43771096 AACCCTTCCT
*
43771106 GCATTAAATCCAACCAAAAACA-ACAAATATA
1 GCATGAAATCCAACCAAAAACAGA-AAATATA
*
43771137 GCATGAAATCCAACCAAAAACAGAAAATGTA
1 GCATGAAATCCAACCAAAAACAGAAAATATA
43771168 GCAT
1 GCAT
43771172 AAAAAATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGAAAATATA
Found at i:43771451 original size:21 final size:21
Alignment explanation
Indices: 43771427--43771502 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
43771417 ACTACCATCG
*
43771427 CTGCTGCCTCTGCCTCTCTCA
1 CTGCTGCCTCTGCCTCCCTCA
43771448 CTGCTGCCGT-TGCCTCCCTCA
1 CTGCTGCC-TCTGCCTCCCTCA
* *
43771469 CTGCTG-TTGCTGCCTCCCTCT
1 CTGCTGCCT-CTGCCTCCCTCA
*
43771490 CTACTGCCTCTGC
1 CTGCTGCCTCTGC
43771503 TCTAAGTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.04, C:0.46, G:0.17, T:0.33
Consensus pattern (21 bp):
CTGCTGCCTCTGCCTCCCTCA
Found at i:43771934 original size:13 final size:14
Alignment explanation
Indices: 43771908--43771936 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43771898 ACTAACGATG
43771908 AATTAAACCATTAT
1 AATTAAACCATTAT
43771922 AATTAAA-CATTAT
1 AATTAAACCATTAT
43771935 AA
1 AA
43771937 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:43777065 original size:9 final size:9
Alignment explanation
Indices: 43777044--43777210 Score: 55
Period size: 9 Copynumber: 19.0 Consensus size: 9
43777034 TATGTATTAC
*
43777044 GTAAGTTAA
1 GTAAGTTAT
43777053 GTAAGCTT-T
1 GTAAG-TTAT
43777062 GTAAGTTAT
1 GTAAGTTAT
43777071 GTAAGTTAT
1 GTAAGTTAT
* *
43777080 GTTA-TGAT
1 GTAAGTTAT
* *
43777088 ATACATTTAT
1 GTA-AGTTAT
*
43777098 ATAAAG-TAT
1 GT-AAGTTAT
43777107 GTAAGTTAT
1 GTAAGTTAT
* *
43777116 GATATGATAT
1 G-TAAGTTAT
* *
43777126 AT-ATTTAT
1 GTAAGTTAT
*
43777134 AT-A-TTAT
1 GTAAGTTAT
*
43777141 GTAAGTTGT
1 GTAAGTTAT
43777150 GTAAGTTAT
1 GTAAGTTAT
* *
43777159 GATATGATAT
1 G-TAAGTTAT
* *
43777169 AT-ATTTAT
1 GTAAGTTAT
*
43777177 GT-A-TTTT
1 GTAAGTTAT
*
43777184 GTAAGGTAT
1 GTAAGTTAT
*
43777193 ATAAGTTAT
1 GTAAGTTAT
43777202 GTAAGTTAT
1 GTAAGTTAT
43777211 TATATGATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
7 10 0.09
8 22 0.19
9 63 0.54
10 20 0.17
11 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43777115 original size:36 final size:36
Alignment explanation
Indices: 43777068--43777136 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
43777058 CTTTGTAAGT
*
43777068 TATGTAAGTTATGTTATGATATACATTTATATAAAG
1 TATGTAAGTTATGATATGATATACATTTATATAAAG
*
43777104 TATGTAAGTTATGATATGATATATATTTATATA
1 TATGTAAGTTATGATATGATATACATTTATATA
43777137 TTATGTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (36 bp):
TATGTAAGTTATGATATGATATACATTTATATAAAG
Found at i:43777147 original size:34 final size:35
Alignment explanation
Indices: 43777067--43777147 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 35
43777057 GCTTTGTAAG
*
43777067 TTATGTAAGTTATGTTATGATATACATTTATATAAA
1 TTATGTAAGTTATGATATGATATACATTTATAT-AA
* *
43777103 GTATGTAAGTTATGATATGATATATATTTATAT-A
1 TTATGTAAGTTATGATATGATATACATTTATATAA
43777137 TTATGTAAGTT
1 TTATGTAAGTT
43777148 GTGTAAGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 11 0.27
36 30 0.73
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (35 bp):
TTATGTAAGTTATGATATGATATACATTTATATAA
Found at i:43777159 original size:43 final size:43
Alignment explanation
Indices: 43777094--43777202 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
43777084 TGATATACAT
* *
43777094 TTATATAAAGTATGTAAGTTATGATATGATATATATTTATATA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATA
* * *
43777137 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATA
* *
43777180 TTTTGTAAGGTATATAAGTTATG
1 TTATGTAAGGTATGTAAGTTATG
43777203 TAAGTTATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATA
Found at i:43777215 original size:43 final size:43
Alignment explanation
Indices: 43777103--43777225 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
43777093 TTTATATAAA
* *
43777103 GTATGTAAGTTATGATATGATATATATTTATATATTATGTAAG
1 GTATGTAAGTTATGATAAGATATATATTTATATATTTTGTAAG
* * * *
43777146 TTGTGTAAGTTATGATATGATATATATTTATGTATTTTGTAAG
1 GTATGTAAGTTATGATAAGATATATATTTATATATTTTGTAAG
* * *
43777189 GTATATAAGTTATG-TAAGTTATTATATGATATATATT
1 GTATGTAAGTTATGATAAGATA-TATAT-TTATATATT
43777226 GAACATTAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
42 5 0.07
43 55 0.82
44 7 0.10
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (43 bp):
GTATGTAAGTTATGATAAGATATATATTTATATATTTTGTAAG
Found at i:43780005 original size:19 final size:19
Alignment explanation
Indices: 43779981--43780017 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
43779971 GCAGGTCGTC
43779981 CACTCGGAGTCTTCAATGG
1 CACTCGGAGTCTTCAATGG
43780000 CACTCGGAGTCTTCAATG
1 CACTCGGAGTCTTCAATG
43780018 ACAGAAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (19 bp):
CACTCGGAGTCTTCAATGG
Found at i:43780071 original size:20 final size:20
Alignment explanation
Indices: 43780048--43780091 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
43780038 TTGATTCGGA
*
43780048 GAAATATTTAGGGATTAGGG
1 GAAATAGTTAGGGATTAGGG
*
43780068 GAAA-AGTTAGGGATTTGGG
1 GAAATAGTTAGGGATTAGGG
43780087 GAAAT
1 GAAAT
43780092 TTGGGTGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (20 bp):
GAAATAGTTAGGGATTAGGG
Found at i:43781205 original size:14 final size:15
Alignment explanation
Indices: 43781170--43781207 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
43781160 TGAAATTTAT
43781170 TTTTAGGGTTTACAA
1 TTTTAGGGTTTACAA
*
43781185 TTTTAGGGTTTATAA
1 TTTTAGGGTTTACAA
43781200 -TTTAGGGT
1 TTTTAGGGT
43781208 ATAAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTTAGGGTTTACAA
Found at i:43781399 original size:108 final size:108
Alignment explanation
Indices: 43781269--43781466 Score: 369
Period size: 108 Copynumber: 1.8 Consensus size: 108
43781259 GTTTTATAGC
*
43781269 TCATGGGTTATGATTTAGGGGTTAGGCTTCATATTTTAGGGTTTAAGGTAGTTTAGGGTTTTAGG
1 TCATGGGTTATGATTTAGGGGTTAGGCTTCATATTTTAGGGTTTAAGGTAGTTTAAGGTTTTAGG
*
43781334 ATTAGGCTTTAGAGTTTATGGTTTAAAAAGTTTAGAGTTTAGG
66 ATTAGGCTTTAGAGTTTAGGGTTTAAAAAGTTTAGAGTTTAGG
*
43781377 TCATGGGTTATGATTTAGGGGTTAGGCTTCATATTTTAGGGTTTAAGGTAGTTTAAGGTTTTGGG
1 TCATGGGTTATGATTTAGGGGTTAGGCTTCATATTTTAGGGTTTAAGGTAGTTTAAGGTTTTAGG
43781442 ATTAGGCTTTAGAGTTTAGGGTTTA
66 ATTAGGCTTTAGAGTTTAGGGTTTA
43781467 GGGGCTAAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 87 1.00
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (108 bp):
TCATGGGTTATGATTTAGGGGTTAGGCTTCATATTTTAGGGTTTAAGGTAGTTTAAGGTTTTAGG
ATTAGGCTTTAGAGTTTAGGGTTTAAAAAGTTTAGAGTTTAGG
Found at i:43782122 original size:80 final size:82
Alignment explanation
Indices: 43782038--43782195 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 82
43782028 ATTTTTGACA
* *
43782038 AAAACACCACTATTTCTCTAT-TTTTTA-CGACGTTTTGGAT-AAAATG-CACTATTT-CTCAGT
1 AAAACACCACTATTACT-T-TGTTTTTAGCGACGTTTTGGATAAAAAAGCCACT-TTTGCTCAGT
*
43782098 TTTTTGCGGCGTTTTGGTTG
63 TTTTAGCGGCGTTTTGGTTG
* *
43782118 AAAACGCCACTATTACTTTGTTTTTAGCGGCGTTTTGGATAAAAAAGCCACTTTTGCTCAGTTTT
1 AAAACACCACTATTACTTTGTTTTTAGCGACGTTTTGGATAAAAAAGCCACTTTTGCTCAGTTTT
43782183 TAGCGGCGTTTTG
66 TAGCGGCGTTTTG
43782196 TTTTAAACCC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
78 1 0.01
79 7 0.10
80 27 0.40
81 8 0.12
82 25 0.37
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (82 bp):
AAAACACCACTATTACTTTGTTTTTAGCGACGTTTTGGATAAAAAAGCCACTTTTGCTCAGTTTT
TAGCGGCGTTTTGGTTG
Found at i:43782141 original size:41 final size:40
Alignment explanation
Indices: 43781956--43782195 Score: 184
Period size: 41 Copynumber: 5.9 Consensus size: 40
43781946 CGCTTTTATA
** * * *
43781956 AAAACGCCACTATAGCTCAACTTTTT-GTGGCG-TTTGGAAC
1 AAAACGCCACTATTTCTC-AGTTTTTAGCGGCGTTTTGG-AT
* * * * * *
43781996 AAAAGCGCCACTATATCTAAGTTTTTGGCGGCATTTTTGACA
1 AAAA-CGCCACTATTTCTCAGTTTTTAGCGGCGTTTTGGA-T
* * *
43782038 AAAACACCACTATTTCTCTATTTTTTA-CGACGTTTTGGAT
1 AAAACGCCACTATTTCTC-AGTTTTTAGCGGCGTTTTGGAT
* * *
43782078 AAAATG-CACTATTTCTCAGTTTTTTGCGGCGTTTTGGTT
1 AAAACGCCACTATTTCTCAGTTTTTAGCGGCGTTTTGGAT
* **
43782117 GAAAACGCCACTATTACTTTGTTTTTAGCGGCGTTTTGGAT
1 -AAAACGCCACTATTTCTCAGTTTTTAGCGGCGTTTTGGAT
*
43782158 AAAAAAGCCACT-TTTGCTCAGTTTTTAGCGGCGTTTTG
1 -AAAACGCCACTATTT-CTCAGTTTTTAGCGGCGTTTTG
43782196 TTTTAAACCC
Statistics
Matches: 158, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
38 6 0.04
39 22 0.14
40 21 0.13
41 95 0.60
42 14 0.09
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (40 bp):
AAAACGCCACTATTTCTCAGTTTTTAGCGGCGTTTTGGAT
Found at i:43782641 original size:27 final size:26
Alignment explanation
Indices: 43782610--43782934 Score: 328
Period size: 27 Copynumber: 12.0 Consensus size: 26
43782600 TACATCGCAT
*
43782610 AGGGCAAAACAGTCATCTTACCATATA
1 AGGGCAAAACAGTCAT-TTACCACATA
*
43782637 AGGGCAAAACAATCATCTTACCACATA
1 AGGGCAAAACAGTCAT-TTACCACATA
43782664 AGGGCAAAACAGTCATCTTACCACATA
1 AGGGCAAAACAGTCAT-TTACCACATA
*
43782691 AAGGCAAAACAGTCATCTTACCACATA
1 AGGGCAAAACAGTCAT-TTACCACATA
* ** * *
43782718 ACGATAAAATTA-TCATTTCACCATATA
1 AGGGCAAAA-CAGTCATTT-ACCACATA
43782745 AGGGCAAAACAGTCATTTCACCACATA
1 AGGGCAAAACAGTCATTT-ACCACATA
* *
43782772 AGGGCAAAATATTCATTTCACCACATA
1 AGGGCAAAACAGTCATTT-ACCACATA
* * *
43782799 AAGGCAAAATAGTCATTTTACCACTTA
1 AGGGCAAAACAGTCA-TTTACCACATA
* * *
43782826 AGTGTAAAACAGTCATTTTACCATATA
1 AGGGCAAAACAGTCA-TTTACCACATA
*
43782853 AGGGCAAAACAGTTATTTCACCACATA
1 AGGGCAAAACAGTCATTT-ACCACATA
* *
43782880 AGGGTAAAACAGTTATTTTACCACATA
1 AGGGCAAAACAGTCA-TTTACCACATA
* * *
43782907 AGGGTAAAACAATCATTTTACCATATA
1 AGGGCAAAACAGTCA-TTTACCACATA
43782934 A
1 A
43782935 AGGGTCTAGG
Statistics
Matches: 259, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.02
27 246 0.95
28 7 0.03
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (26 bp):
AGGGCAAAACAGTCATTTACCACATA
Found at i:43782747 original size:81 final size:81
Alignment explanation
Indices: 43782612--43782937 Score: 361
Period size: 81 Copynumber: 4.0 Consensus size: 81
43782602 CATCGCATAG
* * * *
43782612 GGCAAAACAGTCATCTT-ACCATATAAGGGCAAAACAATCATCTTACCACATAAGGGCAAAACAG
1 GGCAAAACAGTCAT-TTCACCACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAG
*
43782676 TCATCTTACCACATAAA
65 TCATTTTACCACATAAA
* ** * *
43782693 GGCAAAACAGTCATCTT-ACCACATAACGATAAAATTA-TCATTTCACCATATAAGGGCAAAACA
1 GGCAAAACAGTCAT-TTCACCACATAAGGGCAAAA-TAGTCATTTTACCACATAAGGGCAAAACA
* *
43782756 GTCATTTCACCACATAAG
64 GTCATTTTACCACATAAA
* * * * * *
43782774 GGCAAAATATTCATTTCACCACATAAAGGCAAAATAGTCATTTTACCACTTAAGTGTAAAACAGT
1 GGCAAAACAGTCATTTCACCACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGT
* *
43782839 CATTTTACCATATAAG
66 CATTTTACCACATAAA
* * * * * *
43782855 GGCAAAACAGTTATTTCACCACATAAGGGTAAAACAGTTATTTTACCACATAAGGGTAAAACAAT
1 GGCAAAACAGTCATTTCACCACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGT
*
43782920 CATTTTACCATATAAA
66 CATTTTACCACATAAA
43782936 GG
1 GG
43782938 GTCTAGGTAA
Statistics
Matches: 208, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 4 0.02
81 203 0.98
82 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (81 bp):
GGCAAAACAGTCATTTCACCACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAACAGT
CATTTTACCACATAAA
Found at i:43783198 original size:12 final size:12
Alignment explanation
Indices: 43783181--43783207 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43783171 CTTGTTAAGC
43783181 CATACACCAAAG
1 CATACACCAAAG
43783193 CATACACCAAAG
1 CATACACCAAAG
43783205 CAT
1 CAT
43783208 TATCATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.33, G:0.07, T:0.11
Consensus pattern (12 bp):
CATACACCAAAG
Found at i:43790791 original size:66 final size:66
Alignment explanation
Indices: 43790662--43790793 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 66
43790652 ATTTAGGAAC
* * * * * * ** * * *
43790662 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTGGGAATACTCGATATCTTATTTAGGATCTTAGG
1 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
43790727 A
66 A
*
43790728 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCGTTCAGAAGCTTAGG
1 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
43790793 A
66 A
43790794 AAATCCAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (66 bp):
TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
A
Found at i:43791679 original size:49 final size:49
Alignment explanation
Indices: 43791620--43791720 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
43791610 GTAATATTAT
43791620 GATGTTTCTTTAATAACATAAAATAAATGCAAACACTAAATTTCATTTG
1 GATGTTTCTTTAATAACATAAAATAAATGCAAACACTAAATTTCATTTG
43791669 GATGTTTCTTTAATAACATAAAATAAATGCAAACACTAAATTTCATTTG
1 GATGTTTCTTTAATAACATAAAATAAATGCAAACACTAAATTTCATTTG
43791718 GAT
1 GAT
43791721 CTTTTTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (49 bp):
GATGTTTCTTTAATAACATAAAATAAATGCAAACACTAAATTTCATTTG
Found at i:43794233 original size:40 final size:40
Alignment explanation
Indices: 43794162--43794309 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
43794152 GCTACTTGCT
43794162 CAAATGCCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43794201 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
43794241 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43794281 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43794310 CATCAAATAT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.15
40 88 0.85
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43801004 original size:10 final size:10
Alignment explanation
Indices: 43800980--43801026 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
43800970 CATGAGATTT
43800980 TGATAT-ACA
1 TGATATGACA
*
43800989 TCATATGACA
1 TGATATGACA
43800999 TGATATGACA
1 TGATATGACA
43801009 TGATATGCACA
1 TGATATG-ACA
43801020 TGATATG
1 TGATATG
43801027 TTATGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:43801022 original size:21 final size:21
Alignment explanation
Indices: 43800980--43801046 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
43800970 CATGAGATTT
*
43800980 TGATAT-ACATCATATG-ACA
1 TGATATGACATGATATGCACA
43800999 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
43801020 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
43801041 AGATAT
1 TGATAT
43801047 ATTCATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 26 0.63
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:43801126 original size:25 final size:24
Alignment explanation
Indices: 43801092--43801158 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
43801082 GGAAGAAGTG
*
43801092 CAAAAAGGCTTTGCCCCAATTTAC
1 CAAAAAGGCTTTGCCCCAATTAAC
* *
43801116 CAAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAA-GGCTTTGCCCCAATTAAC
43801141 CAAAAAGGCTTTGCCCCA
1 CAAAAAGGCTTTGCCCCA
43801159 GTTATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.22
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAATTAAC
Found at i:43801145 original size:24 final size:24
Alignment explanation
Indices: 43801092--43801162 Score: 106
Period size: 24 Copynumber: 2.9 Consensus size: 24
43801082 GGAAGAAGTG
* *
43801092 CAAAAAGGCTTTGCCCCAATTTAC
1 CAAAAAGGCTTTGCCCCAGTTAAC
*
43801116 CAAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAA-GGCTTTGCCCCAGTTAAC
43801141 CAAAAAGGCTTTGCCCCAGTTA
1 CAAAAAGGCTTTGCCCCAGTTA
43801163 TTAAAAGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 22 0.51
25 21 0.49
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTAAC
Found at i:43801173 original size:24 final size:25
Alignment explanation
Indices: 43801092--43801173 Score: 91
Period size: 24 Copynumber: 3.4 Consensus size: 25
43801082 GGAAGAAGTG
* * *
43801092 CAAAA-AGGCTTTGCCCCAATTTAC
1 CAAAAGAGGCTTTGCCCCAGTTAAT
43801116 CAAAA-AGGGCTTTGCCCCAGTTAAT
1 CAAAAGA-GGCTTTGCCCCAGTTAAT
43801141 CAAAA-AGGCTTTGCCCCAGTT-AT
1 CAAAAGAGGCTTTGCCCCAGTTAAT
*
43801164 TAAAAGAGGC
1 CAAAAGAGGC
43801174 CAGGCCTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.12
24 25 0.48
25 21 0.40
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTAAT
Found at i:43809082 original size:10 final size:10
Alignment explanation
Indices: 43809061--43809107 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
43809051 CATGAGATTT
43809061 TGATAT-ACA
1 TGATATGACA
43809070 TGATATGACA
1 TGATATGACA
43809080 TGATATGACA
1 TGATATGACA
43809090 TGATATGCACA
1 TGATATG-ACA
43809101 TGATATG
1 TGATATG
43809108 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:43809103 original size:21 final size:21
Alignment explanation
Indices: 43809061--43809127 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
43809051 CATGAGATTT
43809061 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
43809080 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
43809101 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
43809122 AGATAT
1 TGATAT
43809128 ATTCATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 26 0.62
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:43809253 original size:25 final size:25
Alignment explanation
Indices: 43809173--43809257 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
43809163 AGAGGAAGTG
43809173 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
*
43809198 CGAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* * *
43809223 CCAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
43809248 CAAAAAGGGC
1 CAAAAAGGGC
43809258 CCCAGTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:43810950 original size:125 final size:126
Alignment explanation
Indices: 43810697--43811077 Score: 568
Period size: 125 Copynumber: 3.0 Consensus size: 126
43810687 TTTCTGCAAG
* ** * * *
43810697 AATAATTCTGAGCAGACGTTTCTGGAA-AAATAGTGTTAGAAAATGCTCCAAGCAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAAAGCTTCAAGCAGGATGCACTA
* * * *
43810761 TCAGCAAAATTTCTAGAAAAACCTCCCATGTGGACGCTTTTTTGCTTCAGTAGTTCGTAGAAA
64 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
43810824 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAAAGCTTCAAGTAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
* * *
43810889 AGCAAAATTTCT-GGAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCATAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
43810949 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAAGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
*
43811014 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGACA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
43811075 AAT
1 AAT
43811078 GAGGCTATAA
Statistics
Matches: 229, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 114 0.50
126 85 0.37
127 30 0.13
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:43814095 original size:19 final size:20
Alignment explanation
Indices: 43814059--43814104 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
43814049 GAAATAGTTG
43814059 ATAGTTGTCGTAAAAAAACT
1 ATAGTTGTCGTAAAAAAACT
43814079 ATAGTTGTCGT-AAAAAACT
1 ATAGTTGTCGTAAAAAAACT
43814098 AT-GTTGT
1 ATAGTTGT
43814105 ATTATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
ATAGTTGTCGTAAAAAAACT
Found at i:43814607 original size:18 final size:18
Alignment explanation
Indices: 43814581--43814623 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
43814571 GACTAGGAAA
* *
43814581 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
43814599 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
43814617 AGGATAC
1 AGGATAC
43814624 GCACCTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:43816283 original size:48 final size:46
Alignment explanation
Indices: 43816220--43816342 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 46
43816210 ATGAAAAAAG
*
43816220 AAAA-ATCAAACAGTATTGAAATTGTAATTATAA-TTGCATAAATGAA
1 AAAATATCAAATAGTATTGAAATT-TAATTA-AATTTGCATAAATGAA
*
43816266 TAAAATATCAAATAGTATTGCAAATTTAATTAAATTTGCATAAATTAA
1 -AAAATATCAAATAGTATTG-AAATTTAATTAAATTTGCATAAATGAA
*
43816314 AATAATATCGAATAGTATTGAAAATTTAA
1 AA-AATATCAAATAGTATTG-AAATTTAA
43816343 AATTATTACT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
47 8 0.12
48 55 0.81
49 5 0.07
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (46 bp):
AAAATATCAAATAGTATTGAAATTTAATTAAATTTGCATAAATGAA
Found at i:43816492 original size:11 final size:11
Alignment explanation
Indices: 43816476--43816528 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
43816466 TTTTAAACAA
43816476 AGAATTTTGAT
1 AGAATTTTGAT
*
43816487 AGAATTTTGAG
1 AGAATTTTGAT
* *
43816498 AAAATTTTAAT
1 AGAATTTTGAT
*
43816509 -GAAATTTGAT
1 AGAATTTTGAT
*
43816519 AGATTTTTGA
1 AGAATTTTGA
43816529 AGGGAATATT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:43819984 original size:4 final size:4
Alignment explanation
Indices: 43819975--43820005 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
43819965 TGTTTCATGT
43819975 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
43820006 TGTTTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:43820219 original size:21 final size:24
Alignment explanation
Indices: 43820194--43820237 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
43820184 TTTGTTATAA
43820194 ATTTAGAT-TAT-TA-TTATTATT
1 ATTTAGATATATCTATTTATTATT
*
43820215 ATTTATATATATCTATTTATTAT
1 ATTTAGATATATCTATTTATTAT
43820238 CCTTTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 2 0.11
24 7 0.37
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTAGATATATCTATTTATTATT
Found at i:43821605 original size:33 final size:33
Alignment explanation
Indices: 43821556--43821671 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
43821546 ATGGACTTTT
* * *
43821556 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
43821589 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
43821622 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
43821655 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
43821672 ATATAGTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 63 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:43821710 original size:65 final size:62
Alignment explanation
Indices: 43821553--43821800 Score: 199
Period size: 65 Copynumber: 3.8 Consensus size: 62
43821543 CTGATGGACT
* * * * **
43821553 TTTCCTTTTCTAGTTGTACACTCGAGGTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCAAGT-GTACACA--AAGTGTAC
*
43821618 A
62 C
** * *
43821619 TACCCTTTTCAATTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACC
1 TTTCCTTTTCAA-GTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACA-A-AGTGTACC
* ** * ** * *
43821684 TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCACATGGTATACACAAAGTATAC
1 TTTCCTTTTCAAGT-GTACACACAAAGTGCACATAACCTTTTCA-A--GTGTACACAAAGTGTAC
43821749 C
62 C
* *
43821750 TTTCCTTTTCAAGTGTACACACAAAGTGTACATAACATTTTCAAGTTGTAC
1 TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAG-TGTAC
43821801 CATTTGGGTA
Statistics
Matches: 146, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 3 0.02
65 69 0.47
66 60 0.41
67 1 0.01
68 8 0.05
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (62 bp):
TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAAAGTGTACC
Found at i:43821722 original size:33 final size:32
Alignment explanation
Indices: 43821589--43821776 Score: 171
Period size: 33 Copynumber: 5.8 Consensus size: 32
43821579 GTGCACATTC
* * * **
43821589 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
* * ** * **
43821622 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACACAAAGTATACCTTT
* * *
43821655 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
*
43821687 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
*
43821720 CCTTTTCACA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTTT
43821753 CCTTTTCAAGTGTACACACAAAGT
1 CCTTTTCAAGTGTACACACAAAGT
43821777 GTACATAACA
Statistics
Matches: 133, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
32 39 0.29
33 92 0.69
34 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTTT
Found at i:43821724 original size:98 final size:98
Alignment explanation
Indices: 43821589--43821780 Score: 224
Period size: 98 Copynumber: 2.0 Consensus size: 98
43821579 GTGCACATTC
* * * * *
43821589 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCA-ATTTGTACACTCAAAGTGCACAT
1 CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACA-TGGTACACACAAAGTACACAT
* *
43821653 AACCTTTTCAAGTGTACACATATAGTGTACCTTT
65 AACCTTTTCAAGTGTACACACAAAGTGTACCTTT
* * ** * * * *
43821687 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCACATGGTATACACAAAGTATACCTT
1 CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACATGGTACACACAAAGTACACATA
*
43821752 TCCTTTTCAAGTGTACACACAAAGTGTAC
66 ACCTTTTCAAGTGTACACACAAAGTGTAC
43821781 ATAACATTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
98 76 0.99
99 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (98 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACATGGTACACACAAAGTACACATA
ACCTTTTCAAGTGTACACACAAAGTGTACCTTT
Found at i:43822512 original size:21 final size:21
Alignment explanation
Indices: 43822483--43822530 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
43822473 TGTAAAAGTG
*
43822483 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAAAAAT-TTTC
43822505 ATTT-TCTATCAAAAATTTTC
1 ATTTATCTATCAAAAATTTTC
43822525 AATTTA
1 -ATTTA
43822531 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATCTATCAAAAATTTTC
Found at i:43826577 original size:19 final size:20
Alignment explanation
Indices: 43826553--43826591 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
43826543 CAGCTACCAC
*
43826553 TAACATTTCT-GGGTGTCTA
1 TAACATTTCTAGAGTGTCTA
43826572 TAACATTTCTAGAGTGTCTA
1 TAACATTTCTAGAGTGTCTA
43826592 GGTGGTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (20 bp):
TAACATTTCTAGAGTGTCTA
Done.