Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015090.1 Kokia drynarioides strain JFW-HI SEQ_130134, whole genome shotgun sequence
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: 762378
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 242 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:347915 original size:17 final size:18
Alignment explanation
Indices: 347885--347927 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
347875 TAGTTGTAGT
*
347885 TTAATTGTCCTTGCATTA
1 TTAATTGTCATTGCATTA
347903 TTAA-TGTCATTGCATT-
1 TTAATTGTCATTGCATTA
*
347919 TTTATTGTC
1 TTAATTGTC
347928 GCTGCATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (18 bp):
TTAATTGTCATTGCATTA
Found at i:348553 original size:14 final size:15
Alignment explanation
Indices: 348526--348555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
348516 GAAAATGAGA
348526 AAAAGAAGGAAAAAT
1 AAAAGAAGGAAAAAT
*
348541 AAAAGAAGAAAAAAT
1 AAAAGAAGGAAAAAT
348556 GTTTGCTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
AAAAGAAGGAAAAAT
Found at i:356578 original size:19 final size:20
Alignment explanation
Indices: 356545--356584 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
356535 TTGGTTTTTA
356545 TTTTAATATAAATTTAAATT
1 TTTTAATATAAATTTAAATT
* *
356565 TTTTAA-ATAGATTTATATT
1 TTTTAATATAAATTTAAATT
356584 T
1 T
356585 GTAAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTAATATAAATTTAAATT
Found at i:356673 original size:22 final size:20
Alignment explanation
Indices: 356658--356702 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
356648 TTTATATTAT
356658 TTTTATTTGATATTTAATAA
1 TTTTATTTGATATTTAATAA
*
356678 TTTTATTT-ATTTATTAA-AA
1 TTTTATTTGATAT-TTAATAA
356697 TTTTAT
1 TTTTAT
356703 ATATTGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATTTGATATTTAATAA
Found at i:356700 original size:19 final size:19
Alignment explanation
Indices: 356658--356707 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
356648 TTTATATTAT
*
356658 TTTTATTTGATATTTAATAA
1 TTTTATTT-ATTTTTAATAA
356678 TTTTATTTATTTATTAA-AA
1 TTTTATTTATTT-TTAATAA
*
356697 TTTTATATATT
1 TTTTATTTATT
356708 GTACTCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATTTATTTTTAATAA
Found at i:359707 original size:21 final size:21
Alignment explanation
Indices: 359681--359727 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
359671 AAGCCGGTCT
359681 GAACTAGAATTACCATCATCC
1 GAACTAGAATTACCATCATCC
359702 GAACTAGAATTACCATCATCC
1 GAACTAGAATTACCATCATCC
359723 GAACT
1 GAACT
359728 TGCCACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (21 bp):
GAACTAGAATTACCATCATCC
Found at i:360220 original size:24 final size:24
Alignment explanation
Indices: 360182--360242 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
360172 AACTAATAAG
* *
360182 AGTTTGACTCAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
* * *
360206 ATTTTAATTGAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAA
360230 AGTTTAACTGAAA
1 AGTTTAACTGAAA
360243 GATTATTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.26
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:361649 original size:2 final size:2
Alignment explanation
Indices: 361642--361678 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
361632 GAGAATCCTT
361642 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
361679 GCCTTGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:385236 original size:21 final size:21
Alignment explanation
Indices: 385212--385257 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
385202 TTAATTTATT
385212 TAATTTTATTTTGTTAGTAAG
1 TAATTTTATTTTGTTAGTAAG
*
385233 TAATTTTATTTTGTTAGTGAG
1 TAATTTTATTTTGTTAGTAAG
385254 TAAT
1 TAAT
385258 ATAAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TAATTTTATTTTGTTAGTAAG
Found at i:385266 original size:21 final size:21
Alignment explanation
Indices: 385221--385267 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
385211 TTAATTTTAT
* * *
385221 TTTGTTAGTAAGTAATTTTAT
1 TTTGTTAGTAAGTAATATAAA
*
385242 TTTGTTAGTGAGTAATATAAA
1 TTTGTTAGTAAGTAATATAAA
385263 TTTGT
1 TTTGT
385268 ATTATTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (21 bp):
TTTGTTAGTAAGTAATATAAA
Found at i:385701 original size:19 final size:19
Alignment explanation
Indices: 385677--385716 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
385667 ACTTATGTTA
*
385677 TTTACGAAATTAAATTTGG
1 TTTACGAAATTAAATTAGG
385696 TTTACGAAATTAAATTAGG
1 TTTACGAAATTAAATTAGG
385715 TT
1 TT
385717 ATATTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (19 bp):
TTTACGAAATTAAATTAGG
Found at i:386689 original size:43 final size:43
Alignment explanation
Indices: 386639--386742 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
386629 TGTTATTCCT
*
386639 TGACATGTTATTAAATTATATTACTTGTCCCGTGTTAATATCG
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
* * *
386682 TGACATGTTATTAAATTATATTACTTGACTCTTGTTAATATTG
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
386725 TGACATGTTATT-AATTAT
1 TGACATGTTATTAAATTAT
386743 GCAGTTCATC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 6 0.11
43 51 0.89
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
Found at i:387594 original size:28 final size:28
Alignment explanation
Indices: 387562--387616 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
387552 TTCACATATG
* *
387562 GTTTAGGGTTTATGGTTTAAGTTTTAAT
1 GTTTAGGGTCTATGGTTTAAGGTTTAAT
*
387590 GTTTAGGGTCTATGGTTTTAGGTTTAA
1 GTTTAGGGTCTATGGTTTAAGGTTTAA
387617 GGTTCTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (28 bp):
GTTTAGGGTCTATGGTTTAAGGTTTAAT
Found at i:387692 original size:14 final size:14
Alignment explanation
Indices: 387561--387716 Score: 75
Period size: 14 Copynumber: 11.0 Consensus size: 14
387551 ATTCACATAT
*
387561 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAA
* *
387575 GGTTTAAGTTTTAA
1 GGTTTAGGGTTTAA
* * *
387589 TGTTTAGGGTCTAT
1 GGTTTAGGGTTTAA
387603 GGTTTTA-GGTTTAA
1 GG-TTTAGGGTTTAA
* *
387617 GGTTCTA-TGTTTAG
1 GGTT-TAGGGTTTAA
**
387631 GGTTTA-AATATTAA
1 GGTTTAGGGT-TTAA
* * *
387645 GATTTAAGGTTCAA
1 GGTTTAGGGTTTAA
** *
387659 GGATATTATAGTTTAG
1 GG-T-TTAGGGTTTAA
387675 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
387689 GGTTTAGAGTTTAA
1 GGTTTAGGGTTTAA
* *
387703 GATTAAGGGTTTAA
1 GGTTTAGGGTTTAA
387717 TACCGAACCC
Statistics
Matches: 104, Mismatches: 32, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
13 5 0.05
14 83 0.80
15 7 0.07
16 9 0.09
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:387695 original size:21 final size:21
Alignment explanation
Indices: 387561--387701 Score: 65
Period size: 21 Copynumber: 6.6 Consensus size: 21
387551 ATTCACATAT
*
387561 GGTTTAGGGTTTATGGTTTAA
1 GGTTTAGGGTTTAGGGTTTAA
* ** * *
387582 GTTTTAATGTTTAGGGTCTAT
1 GGTTTAGGGTTTAGGGTTTAA
*
387603 GGTTTTA-GGTTTAAGGTTCT-A
1 GG-TTTAGGGTTTAGGGTT-TAA
* **
387624 TGTTTAGGGTTTA-AATATTAA
1 GGTTTAGGGTTTAGGGT-TTAA
* * * *
387645 GATTTAAGGTTCAAGGATATTATA
1 GGTTTAGGGTT-TAGGGT-TTA-A
387669 -GTTTAGGGTTTAGGGTTTAA
1 GGTTTAGGGTTTAGGGTTTAA
*
387689 GGTTTAGAGTTTA
1 GGTTTAGGGTTTA
387702 AGATTAAGGG
Statistics
Matches: 87, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
20 7 0.08
21 55 0.63
22 10 0.11
23 14 0.16
24 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTAA
Found at i:389582 original size:31 final size:31
Alignment explanation
Indices: 389540--389612 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
389530 AAACCCTTAG
389540 TAAAT-AAGGATCAGTAAAATGCATATTTAC
1 TAAATAAAGGATCAGTAAAATGCATATTTAC
389570 TAAATAAAGGATCAGTAAAATGCATATTTAC
1 TAAATAAAGGATCAGTAAAATGCATATTTAC
389601 TAAATAAAGGAT
1 TAAATAAAGGAT
389613 TCCAAAAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 5 0.12
31 37 0.88
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (31 bp):
TAAATAAAGGATCAGTAAAATGCATATTTAC
Found at i:403354 original size:20 final size:20
Alignment explanation
Indices: 403329--403369 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
403319 ATTCATCTTC
403329 AATAAATTTGTTAA-AAAATA
1 AATAAATTT-TTAATAAAATA
403349 AATAAATTTTTAATAAAATA
1 AATAAATTTTTAATAAAATA
403369 A
1 A
403370 CAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AATAAATTTTTAATAAAATA
Found at i:403374 original size:19 final size:20
Alignment explanation
Indices: 403332--403375 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
403322 CATCTTCAAT
*
403332 AAATTTGTTAAAAAATAAAT
1 AAATTTGTTAAAAAATAAAC
403352 AAATTT-TTAATAAAAT-AAC
1 AAATTTGTTAA-AAAATAAAC
403371 AAATT
1 AAATT
403376 AAAAATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATTTGTTAAAAAATAAAC
Found at i:403683 original size:27 final size:27
Alignment explanation
Indices: 403609--403684 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
403599 TGGCACAGTG
*
403609 GTGCCGCCCATT-AGAAGGGCACTTTCA
1 GTGCCGCCC-TTCAAAAGGGCACTTTCA
* *** *
403636 GTACCGCCAC-TCAAGTTGGCACTTTTA
1 GTGCCGCC-CTTCAAAAGGGCACTTTCA
403663 GTGCCGCCCTTCAAAAGGGCAC
1 GTGCCGCCCTTCAAAAGGGCAC
403685 ATCCCATGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (27 bp):
GTGCCGCCCTTCAAAAGGGCACTTTCA
Found at i:403831 original size:3 final size:3
Alignment explanation
Indices: 403823--403866 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
403813 ATATATAAAT
403823 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
403867 TCGTGTCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:404057 original size:12 final size:12
Alignment explanation
Indices: 404040--404073 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
404030 TTTATGCGGA
*
404040 TTTTTTAATTGG
1 TTTTTTAATTCG
*
404052 TTTTTTAGTTCG
1 TTTTTTAATTCG
404064 TTTTTTAATT
1 TTTTTTAATT
404074 TAAGGAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTTTAATTCG
Found at i:411288 original size:194 final size:196
Alignment explanation
Indices: 410928--411338 Score: 478
Period size: 195 Copynumber: 2.1 Consensus size: 196
410918 GCTGCTCATG
* * * * *
410928 CGAGCTGTCGAGGACTTGCAACATATGCGGTACCCCAACCATCGGTACGATATCTGTCTGTAAAT
1 CGAGCTGTTGAGGACTTGCAACAAATGCGATACCCCAACCATCGATACGATATCTGTCTATAAAT
* * *
410993 TGTCACCTAACGATGTTGCTTACACGAGCTGTCGAGAATATGCATTCAAGCGAAAATCCCAACCA
66 GGTCACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCATTCAAGCGAAAATCCCAACCA
* *
411058 TCGTAGGGCTTGTAATCCATTTTAGGATTTCATTTCTC-TTTTCCGAA-ACACGATGCTACTCAC
131 TCATAGGGCTTGTAATCCATTTTAGGATTTCATTTCTCATTTTCCCAATACACGATGCTACTCAC
411121 A
196 A
* * *
411122 CGAGCTGTTGAGGACTTGCAACAAATGCGATACCTCAGCTATCGATAC-AGTATCTGTGC-ATAT
1 CGAGCTGTTGAGGACTTGCAACAAATGCGATACCCCAACCATCGATACGA-TATCTGT-CTATA-
* ** * * **
411185 AATGGTCCCCTAACGATGCTGCTCATTCGAGTTGTCGAGAATATGCACTT-ATGCTTAAATCCCA
63 AATGGTCACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCA-TTCAAGCGAAAATCCCA
* * * *
411249 ACCATTATAGGG-TCTGTAGTCCATTCTT-GGA-TTCATTTCTCATTTTCCCAATTCACGATGTT
127 ACCATCATAGGGCT-TGTAATCCATT-TTAGGATTTCATTTCTCATTTTCCCAATACACGATGCT
*
411311 GCTCACA
190 ACTCACA
*
411318 CGAGCTGTTGAGGACTCGCAA
1 CGAGCTGTTGAGGACTTGCAA
411339 TATATGTGGT
Statistics
Matches: 183, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
193 1 0.01
194 61 0.33
195 83 0.45
196 38 0.21
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (196 bp):
CGAGCTGTTGAGGACTTGCAACAAATGCGATACCCCAACCATCGATACGATATCTGTCTATAAAT
GGTCACCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCATTCAAGCGAAAATCCCAACCA
TCATAGGGCTTGTAATCCATTTTAGGATTTCATTTCTCATTTTCCCAATACACGATGCTACTCAC
A
Found at i:415385 original size:14 final size:14
Alignment explanation
Indices: 415366--415414 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
415356 GACACCACTA
415366 AAAATTCAATAATT
1 AAAATTCAATAATT
*
415380 AAAATT-ATTAACTT
1 AAAATTCAATAA-TT
**
415394 TTAATTCAATAATT
1 AAAATTCAATAATT
415408 AAAATTC
1 AAAATTC
415415 CTCAATTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTCAATAATT
Found at i:416677 original size:15 final size:16
Alignment explanation
Indices: 416640--416678 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
416630 CACCAAAATT
416640 GTTAATTAAGCACAAA
1 GTTAATTAAGCACAAA
* *
416656 TTTAATTAAGCTC-AA
1 GTTAATTAAGCACAAA
416671 GTTAATTA
1 GTTAATTA
416679 TAATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (16 bp):
GTTAATTAAGCACAAA
Found at i:418806 original size:37 final size:37
Alignment explanation
Indices: 418755--418919 Score: 181
Period size: 37 Copynumber: 4.5 Consensus size: 37
418745 ATTCTTAGAT
** * *
418755 CACCGGCATAAAGCCTGCTAGGCACATAGCAC-GAATA
1 CACCGGCACGAAGCCTACTAGGCACATAGC-CTGAAAA
418792 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAA
*
418829 CACCGGCACGAAGCCTACTAGGCACACAGCCTGGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCT-GAAAA
** * * * *
418867 -ACCAACACAAAGCCTATTAGGCACAAAGCTTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAA
* *
418903 CACTGGCACAAAGCCTA
1 CACCGGCACGAAGCCTA
418920 AAAACACCGA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
36 6 0.05
37 100 0.90
38 5 0.05
ACGTcount: A:0.38, C:0.31, G:0.20, T:0.12
Consensus pattern (37 bp):
CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAA
Found at i:418911 original size:58 final size:58
Alignment explanation
Indices: 418849--419034 Score: 234
Period size: 58 Copynumber: 3.2 Consensus size: 58
418839 AAGCCTACTA
* * *
418849 GGCACACAGCCTGGAAAA-ACCAACACAAAGCCTATTAGGCACAAAGCTTGAAAACACT
1 GGCACAAAGCCT-GAAAACACCGACACAAAGCCTATTAGGCACAAAGCTTGAAAACACC
* * *
418907 GGCACAAAGCCTAAAAACACCGACACAAAGCCTACTAGGCACAAAGCCTGAAAACACC
1 GGCACAAAGCCTGAAAACACCGACACAAAGCCTATTAGGCACAAAGCTTGAAAACACC
* * * *
418965 AGCACAAAGCCTGAAAACACCGGCATAAAACCTACTT-GGCACACAA-CTTGAAAACACC
1 GGCACAAAGCCTGAAAACACCGACACAAAGCCTA-TTAGGCACA-AAGCTTGAAAACACC
419023 GGCACAAAGCCT
1 GGCACAAAGCCT
419035 ACTAGGCACA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
57 4 0.04
58 104 0.94
59 3 0.03
ACGTcount: A:0.43, C:0.31, G:0.16, T:0.10
Consensus pattern (58 bp):
GGCACAAAGCCTGAAAACACCGACACAAAGCCTATTAGGCACAAAGCTTGAAAACACC
Found at i:418912 original size:21 final size:21
Alignment explanation
Indices: 418886--418998 Score: 94
Period size: 21 Copynumber: 5.6 Consensus size: 21
418876 AAGCCTATTA
* * *
418886 GGCACAAAGCTTGAAAACACT
1 GGCACAAAGCCTAAAAACACC
418907 GGCACAAAGCCTAAAAACACC
1 GGCACAAAGCCTAAAAACACC
*
418928 GACACAAAGCCT----ACTA--
1 GGCACAAAGCCTAAAAAC-ACC
*
418944 GGCACAAAGCCTGAAAACACC
1 GGCACAAAGCCTAAAAACACC
* *
418965 AGCACAAAGCCTGAAAACACC
1 GGCACAAAGCCTAAAAACACC
* *
418986 GGCATAAAACCTA
1 GGCACAAAGCCTA
418999 CTTGGCACAC
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
16 11 0.15
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 58 0.77
ACGTcount: A:0.45, C:0.30, G:0.16, T:0.09
Consensus pattern (21 bp):
GGCACAAAGCCTAAAAACACC
Found at i:419005 original size:95 final size:94
Alignment explanation
Indices: 418791--419053 Score: 284
Period size: 95 Copynumber: 2.8 Consensus size: 94
418781 TAGCACGAAT
** * * * * *
418791 ACACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAACACCGGCACGAAGCCTACTAGGCACAC
1 ACACCGGCATAAAACCTACTTGGCACAAAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACAA
*
418856 AGCCTGGAAAAACCAACACAAAGCCTATTAG
66 AGCCT-GAAAAACCAACACAAAGCCTA-TAA
* ** * * *
418887 GCACAAAGCTTGAAAA-C-AC-TGGCACAAAGCCTAAAAACACCGACACAAAGCCTACTAGGCAC
1 ACAC-CGGCAT-AAAACCTACTTGGCACAAAGCCTGAAAACACCGGCACAAAGCCTACTAGGCAC
*
418949 AAAGCCTGAAAACACCAGCACAAAGCCTGA-AA
64 AAAGCCTGAAAA-ACCAACACAAAGCCT-ATAA
*
418981 ACACCGGCATAAAACCTACTTGGCACACAA-CTTGAAAACACCGGCACAAAGCCTACTAGGCACA
1 ACACCGGCATAAAACCTACTTGGCACA-AAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACA
419045 AAGCCTGAA
65 AAGCCTGAA
419054 TTTTAAAATG
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
92 4 0.03
93 4 0.03
94 11 0.08
95 105 0.77
96 8 0.06
97 3 0.02
98 2 0.01
ACGTcount: A:0.41, C:0.31, G:0.17, T:0.10
Consensus pattern (94 bp):
ACACCGGCATAAAACCTACTTGGCACAAAGCCTGAAAACACCGGCACAAAGCCTACTAGGCACAA
AGCCTGAAAAACCAACACAAAGCCTATAA
Found at i:419007 original size:37 final size:37
Alignment explanation
Indices: 418966--419053 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
418956 GAAAACACCA
* *
418966 GCACAAAGCCTGAAAACACCGGCATAAAACCTACTTG
1 GCACAAAGCCTGAAAACACCGGCACAAAACCTACTAG
* *
419003 GCACACAA-CTTGAAAACACCGGCACAAAGCCTACTAG
1 GCACA-AAGCCTGAAAACACCGGCACAAAACCTACTAG
419040 GCACAAAGCCTGAA
1 GCACAAAGCCTGAA
419054 TTTTAAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
36 2 0.05
37 40 0.91
38 2 0.05
ACGTcount: A:0.41, C:0.31, G:0.17, T:0.11
Consensus pattern (37 bp):
GCACAAAGCCTGAAAACACCGGCACAAAACCTACTAG
Found at i:424482 original size:21 final size:21
Alignment explanation
Indices: 424458--424520 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
424448 CTAGGCACAT
424458 AGCCTGAAAACACCGGCACGA
1 AGCCTGAAAACACCGGCACGA
424479 AGCCT----ACTA--GGCAC-A
1 AGCCTGAAAAC-ACCGGCACGA
424494 CAGCCTGAAAACACCGGCACGA
1 -AGCCTGAAAACACCGGCACGA
424516 AGCCT
1 AGCCT
424521 ACTAGGCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 18
0.65 0.00 0.35
Matches are distributed among these distances:
15 1 0.03
16 10 0.30
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 15 0.45
22 1 0.03
ACGTcount: A:0.35, C:0.35, G:0.22, T:0.08
Consensus pattern (21 bp):
AGCCTGAAAACACCGGCACGA
Found at i:424643 original size:16 final size:16
Alignment explanation
Indices: 424583--424682 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 16
424573 TGAAAACACC
424583 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
* *
424599 GGCGCAAAGCCTAAAAACATC
1 GGCACAAAGCCT----AC-TA
*
424620 GACACAAAGCCTACTA
1 GGCACAAAGCCTACTA
*
424636 GGCACAAAGCTTGAAAAC-A
1 GGCACAAAGCCT----ACTA
424655 CTGGCACAAAGCCTACTA
1 --GGCACAAAGCCTACTA
424673 GGCACAAAGC
1 GGCACAAAGC
424683 TTGAAAACAC
Statistics
Matches: 64, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
16 32 0.50
17 4 0.06
18 1 0.02
19 1 0.02
20 4 0.06
21 22 0.34
ACGTcount: A:0.41, C:0.29, G:0.19, T:0.11
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:424717 original size:37 final size:37
Alignment explanation
Indices: 424394--424724 Score: 371
Period size: 37 Copynumber: 8.9 Consensus size: 37
424384 GGTCTTGGAT
* * * *
424394 CACCGGCATAAAGCCTACTAGACATATAA--CTGGAATA
1 CACCGGCACAAAGCCTACTAGGCACA-AAGCCT-GAAAA
* * *
424431 CACCGGCACGAAGCTTACTAGGCACATAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* *
424468 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* * * *
424505 CACCGGCACGAAGCCTACTAGGCACACATCTTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* * *
424542 CACCAGTATAAAGCCTACTAGGCACACAA-CCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACA-AAGCCTGAAAA
* *
424579 CACCGGCACAAAGCCTACTAGGCGCAAAGCCTAAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* * *
424616 CATCGACACAAAGCCTACTAGGCACAAAGCTTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* *
424653 CACTGGCACAAAGCCTACTAGGCACAAAGCTTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* * * *
424690 CACCGACACAAAGCCTACTAAGAACAAAGCTTGAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAA
424725 TTTTAAAATG
Statistics
Matches: 256, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
36 3 0.01
37 250 0.98
38 3 0.01
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.13
Consensus pattern (37 bp):
CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
Found at i:425450 original size:21 final size:21
Alignment explanation
Indices: 425426--425466 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
425416 GATTACATAA
425426 CAACTTCCAACACGGTTTGAC
1 CAACTTCCAACACGGTTTGAC
425447 CAACTTCCAACACGGTTTGA
1 CAACTTCCAACACGGTTTGA
425467 TCACTAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (21 bp):
CAACTTCCAACACGGTTTGAC
Found at i:426425 original size:43 final size:43
Alignment explanation
Indices: 426378--426476 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
426368 TTGTTATATC
* * *
426378 CGATGATTCACTGCATGTG-TTAGTTTAATTACTTCAGTTTATT
1 CGATGATGCACTGCATGTGCCT-GTATAATTACTTCAGTTTATT
** * *
426421 CGATGATGCACTGTGTGTGCCTGTATATTTTCTTCAGTTTATT
1 CGATGATGCACTGCATGTGCCTGTATAATTACTTCAGTTTATT
426464 CGATGATGCACTG
1 CGATGATGCACTG
426477 AGGTGCTTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (43 bp):
CGATGATGCACTGCATGTGCCTGTATAATTACTTCAGTTTATT
Found at i:427865 original size:17 final size:18
Alignment explanation
Indices: 427843--427883 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
427833 AGTTTGTTTC
*
427843 TTTTTTGA-AAATTTTTA
1 TTTTTTGATAAATTTTGA
*
427860 TTTTTTTATAAATTTTGA
1 TTTTTTGATAAATTTTGA
427878 TTTTTT
1 TTTTTT
427884 TTTTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTTTGATAAATTTTGA
Found at i:431938 original size:3 final size:3
Alignment explanation
Indices: 431930--431957 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
431920 ATTGTAAAAT
431930 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
431958 GAGGCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:433759 original size:42 final size:41
Alignment explanation
Indices: 433712--435279 Score: 493
Period size: 38 Copynumber: 39.9 Consensus size: 41
433702 ATAATCGTAA
* *
433712 TAAAAGATTGGATGAGGTCTTCAGTCTGCCCCATTATCGAGG
1 TAAAAGATTGGATG-GGTCTTCAATCTGCCCCATGATCGAGG
* *
433754 TAAAAGATTGGATGGTATCTTTAATCTGCCCCATGATCGAGG
1 TAAAAGATTGGATGG-GTCTTCAATCTGCCCCATGATCGAGG
* * * *
433796 TAAGATATTGGAT-GG-CTTCAACCTGCCCCATGATCGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * **
433835 TAAAAGATT-AATGTGTCTTCAATCTGCCCTC-TGATTAAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGAGG
433875 TAAAAGATTGGAT--G-CTTCAATCTGCCCCATGATCGAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * ** *
433913 TAAGAGATTAG-TGTGTCTTCAATCTGCCCTTTGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGA-GG
* * ** * * *
433953 TAAAAGATTAGCT--G-CTTCAATCTGTTCCATAATAGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * * *
433991 TAAGAGATT-TATGTGTCTTCAATCTGCCCTATGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGA-GG
* * * * *
434031 TAAAAGATTAGCT--G-CTTCAATCTACCCCATGATAGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * *
434069 TAAGAGATTGG-TGTGTCTTCAATCTGCCCTC-TGAT-TAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGAGG
* *
434108 ATAAAAGATTGGAT--G-CTTCAATCTGCCTCATGATCAAGG
1 -TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * *
434147 TAAGAGATTGGTAT--GTCTTCAATCTACCCTC-TGAT-TAGGG
1 TAAAAGATTGG-ATGGGTCTTCAATCTGCCC-CATGATCGA-GG
*
434187 TAAAAGATT--A--GTTACTTCAATCTGCCCCATGATC-AGGG
1 TAAAAGATTGGATGGGT-CTTCAATCTGCCCCATGATCGA-GG
* * * *
434225 TAAGAA-ATTAG-TGTGTCTTCATTCTGCCCTC-TGAT-TAGGG
1 TAA-AAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* *
434265 TAAAAGATTGGAT--G-CTTCAATCTACCCTC-TGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* * * * * **
434303 TAAAAGATTAG-T-CG-ATTCAATCTGCTCTC-TAATTAAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGC-CCCATGATCGAGG
* * *
434341 TAAAAGATTGGAT--G-CTTCAATCTGCCCTATAATCGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * ** *
434379 TAAGAGATTGG-TGTGTCTTTAATCTGCCCTTTGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGA-GG
* *
434419 TAAAAGATT--A--GCTACTTCAATTTGCCCCATGATCGAGG
1 TAAAAGATTGGATGGGT-CTTCAATCTGCCCCATGATCGAGG
* * * * *
434457 TAAGAGATTGG-TGTGTCTTCAATTTGCCCTC-TAAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* * *
434497 TAAAAGATTGGAT--G-CTTCAATTTGTCCCATGATCGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * *
434535 TAAGAGATTAG-TGTGTCTTCAATCTGCCCTC-TGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* * *
434575 TAAAAAATTGGAT--G-CTTCAATATGCCCCATGATCGAGC
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* ** * *
434613 TAAGAGATTGG-TGTATCTTCAATCTGTCCTC-TGAT-TAGG
1 TAAAAGATTGGATGGGTCTTCAATCTG-CCCCATGATCGAGG
* * *
434652 ATAAAAGATTGAAT--G-CTTCAATCTGCCTTC-TGAT-TAGGG
1 -TAAAAGATTGGATGGGTCTTCAATCTGCC-CCATGATCGA-GG
* * * * * * * *
434691 TGAAAGATTAGCT--G-CTTCTATCTTCTCCTTGCTCGAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * * *
434729 TAAGAGATTGG-TGTGTCTTCAATCTGTCCTC-TAAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTG-CCCCATGATCGA-GG
434769 TAAAAGATTGGAT--G-CTTCAATCTGCCCCATGATCG-GAG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAG-G
* * * * *
434807 TAAGAGATT-GTTGTGTCTTCAATCTACCCTC-TGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* * *
434847 TAAAAGATT-AAT-TG-CTTCAATCTGACCCATGATCGAGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * * *
434885 TAAGAGATTGG-TGTGTCTTCAATCAGTCCTC-TGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTG-CCCCATGATCGA-GG
* * * *
434925 TAAAAGATTGG--GTGT-TTCAATTTGCCCCATGATTGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * ** *
434963 TAAGAGATT-GATGTGTCTTCAATCTGCTCTTTGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGA-GG
* * * * *
435003 TAAAAGATTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGG
1 TAAAAGATT---GGA-TGGGT-CTTCAATCTGCCCCATGATCGAGG
* * * *
435049 TAAGAGATTGG-TGTGTCTTTAATCTGCCCTC-TGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCC-CATGATCGA-GG
* * * *
435089 TAAAAGATTGGAT--G-CTTTAATCTGTCTCATGATCGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* ** ** *
435127 TAAGAGATTGG-TGTATCTTCAATCTGCCCTTTGAT-TAGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGA-GG
* * * *
435167 TAAAAGATTAGAT--G-CTTCAATCTGACTCATGATCGGGG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
* * * * * ** *
435205 TAAGAGATTAGAT-TGTTTTCAATCTGCCTTC-TGATTAATG
1 TAAAAGATTGGATGGGTCTTCAATCTGCC-CCATGATCGAGG
* *
435245 TAAGAGATTGGAT--G-CTTCAATCTTCCCCATGATCG
1 TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCG
435280 GGGTGAGAGA
Statistics
Matches: 1156, Mismatches: 238, Indels: 268
0.70 0.14 0.16
Matches are distributed among these distances:
37 34 0.03
38 486 0.42
39 87 0.08
40 436 0.38
41 36 0.03
42 47 0.04
43 1 0.00
44 2 0.00
45 2 0.00
46 25 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
TAAAAGATTGGATGGGTCTTCAATCTGCCCCATGATCGAGG
Found at i:433915 original size:78 final size:78
Alignment explanation
Indices: 433712--434678 Score: 1120
Period size: 78 Copynumber: 12.3 Consensus size: 78
433702 ATAATCGTAA
* * * * *
433712 TAAAAGATTGGATGAGGTCTTCAGTCTGCCCCATTATCGAGGTAAAAGATTGGATGGTATCTTTA
1 TAAAAGATTGGAT---G-CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGG-T-GTGTCTTCA
*
433777 ATCTGCCC-CATGA-TCGAGG
60 ATCTGCCCTC-TGATTAG-GG
* * * * * **
433796 TAAGATATTGGATGGCTTCAACCTGCCCCATGATCGGGGTAAAAGATTAATGTGTCTTCAATCTG
1 TAAAAGATTGGAT-GCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTG
*
433861 CCCTCTGATTAAGG
65 CCCTCTGATTAGGG
*
433875 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGTGTGTCTTCAATCTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
433940 CCTTTGATTAGGG
66 CCTCTGATTAGGG
* * ** * * * **
433953 TAAAAGATTAGCTGCTTCAATCTGTTCCATAATAGGGGTAAGAGATTTATGTGTCTTCAATCTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
434018 CCTATGATTAGGG
66 CCTCTGATTAGGG
* * * * *
434031 TAAAAGATTAGCTGCTTCAATCTACCCCATGATAGGGGTAAGAGATTGGTGTGTCTTCAATCTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
434096 CCTCTGATTAGGA
66 CCTCTGATTAGGG
* * * *
434109 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAAGGTAAGAGATTGGTATGTCTTCAATCTAC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
434174 CCTCTGATTAGGG
66 CCTCTGATTAGGG
* * * * * *
434187 TAAAAGATTAGTTACTTCAATCTGCCCCATGATC-AGGGTAAGAAATTAGTGTGTCTTCATTCTG
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGA-GGTAAGAGATTGGTGTGTCTTCAATCTG
434251 CCCTCTGATTAGGG
65 CCCTCTGATTAGGG
* * * * * *
434265 TAAAAGATTGGATGCTTCAATCTACCCTC-TGAT-TAGGGTAAAAGATTAGT-CG-ATTCAATCT
1 TAAAAGATTGGATGCTTCAATCTGCCC-CATGATCGA-GGTAAGAGATTGGTGTGTCTTCAATCT
* * *
434326 GCTCTCTAATTAAGG
64 GCCCTCTGATTAGGG
* * * *
434341 TAAAAGATTGGATGCTTCAATCTGCCCTATAATCGGGGTAAGAGATTGGTGTGTCTTTAATCTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
434406 CCTTTGATTAGGG
66 CCTCTGATTAGGG
* * * * *
434419 TAAAAGATTAGCTACTTCAATTTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATTTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
434484 CCTCTAATTAGGG
66 CCTCTGATTAGGG
* * * *
434497 TAAAAGATTGGATGCTTCAATTTGTCCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATCTGC
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
434562 CCTCTGATTAGGG
66 CCTCTGATTAGGG
* * * * *
434575 TAAAAAATTGGATGCTTCAATATGCCCCATGATCGAGCTAAGAGATTGGTGTATCTTCAATCTGT
1 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
*
434640 CCTCTGATTAGGA
66 CCTCTGATTAGGG
*
434653 TAAAAGATTGAATGCTTCAATCTGCC
1 TAAAAGATTGGATGCTTCAATCTGCC
434679 TTCTGATTAG
Statistics
Matches: 760, Mismatches: 114, Indels: 24
0.85 0.13 0.03
Matches are distributed among these distances:
76 60 0.08
77 3 0.00
78 620 0.82
79 32 0.04
80 3 0.00
81 29 0.04
82 2 0.00
84 11 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (78 bp):
TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC
CCTCTGATTAGGG
Found at i:434699 original size:78 final size:78
Alignment explanation
Indices: 433802--435012 Score: 1046
Period size: 78 Copynumber: 15.5 Consensus size: 78
433792 GAGGTAAGAT
* ** * *
433802 ATTGGATGGCTTCAACCTGCCCCATGATCGGGGTAAAAGATTAATGTGTCTTCAATCTGCCCTCT
1 ATTGGAT-GCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
*
433867 GATTAAGGTAAAAG
65 GATTAGGGTAAAAG
* *
433881 ATTGGATGCTTCAATCTGCCCCATGA-TCGAGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTTT
1 ATTGGATGCTTCAATCTGCCCCATGATTAG-GGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
433945 GATTAGGGTAAAAG
65 GATTAGGGTAAAAG
* * ** * *
433959 ATTAGCTGCTTCAATCTGTTCCAT-AATAGGGGTAAGAGATTTA-TGTGTCTTCAATCTGCCCTA
1 ATTGGATGCTTCAATCTGCCCCATGATTA-GGGTAAGAGA-TTAGTGTGTCTTCAATCTGCCCTC
434022 TGATTAGGGTAAAAG
64 TGATTAGGGTAAAAG
* * * *
434037 ATTAGCTGCTTCAATCTACCCCATGA-TAGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCT
1 ATTGGATGCTTCAATCTGCCCCATGATTA-GGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
*
434101 GATTAGGATAAAAG
65 GATTAGGGTAAAAG
* * * * * *
434115 ATTGGATGCTTCAATCTGCCTCATGATCAAGGTAAGAGATTGGTATGTCTTCAATCTACCCTCTG
1 ATTGGATGCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
434180 ATTAGGGTAAAAG
66 ATTAGGGTAAAAG
* * * * * *
434193 ATTAGTTACTTCAATCTGCCCCATGATCAGGGTAAGAAATTAGTGTGTCTTCATTCTGCCCTCTG
1 ATTGGATGCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
434258 ATTAGGGTAAAAG
66 ATTAGGGTAAAAG
* * * * *
434271 ATTGGATGCTTCAATCTACCCTC-TGATTAGGGTAAAAGATTAGT-CG-ATTCAATCTGCTCTCT
1 ATTGGATGCTTCAATCTGCCC-CATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
* *
434333 AATTAAGGTAAAAG
65 GATTAGGGTAAAAG
* * ** * * *
434347 ATTGGATGCTTCAATCTGCCCTATAATCGGGGTAAGAGATTGGTGTGTCTTTAATCTGCCCTTTG
1 ATTGGATGCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
434412 ATTAGGGTAAAAG
66 ATTAGGGTAAAAG
* * * * * * *
434425 ATTAGCTACTTCAATTTGCCCCATGA-TCGAGGTAAGAGATTGGTGTGTCTTCAATTTGCCCTCT
1 ATTGGATGCTTCAATCTGCCCCATGATTAG-GGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
*
434489 AATTAGGGTAAAAG
65 GATTAGGGTAAAAG
* * **
434503 ATTGGATGCTTCAATTTGTCCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
1 ATTGGATGCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
*
434568 ATTAGGGTAAAAA
66 ATTAGGGTAAAAG
* * * * * *
434581 ATTGGATGCTTCAATATGCCCCATGA-TCGAGCTAAGAGATTGGTGTATCTTCAATCTGTCCTCT
1 ATTGGATGCTTCAATCTGCCCCATGATTAG-GGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCT
*
434645 GATTAGGATAAAAG
65 GATTAGGGTAAAAG
* * * * *
434659 ATTGAATGCTTCAATCTGCCTTC-TGATTAGGGTGAA-AGATTAG-CTG-CTTCTATCTTCTCCT
1 ATTGGATGCTTCAATCTGCC-CCATGATTAGGGT-AAGAGATTAGTGTGTCTTCAATCTGC-CCT
* * *
434720 -TG-CTCGAGGTAAGAG
63 CTGATTAG-GGTAAAAG
* * * *
434735 ATTGGTGTGTCTTCAATCTGTCCTC-TAATTAGGGTAAAAGATT-G-GATG-CTTCAATCTGCCC
1 ATTGG-ATG-CTTCAATCTG-CCCCATGATTAGGGTAAGAGATTAGTG-TGTCTTCAATCTGCCC
* *
434796 -CATGA-TCGGAGTAAGAG
62 TC-TGATTAGG-GTAAAAG
* * *
434813 ATTGTTG-TGTCTTCAATCTACCCTC-TGATTAGGGTAAAAGATTAAT-TG-CTTCAATCTGACC
1 ATTG--GATG-CTTCAATCTGCCC-CATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTG-CC
* * *
434874 C-ATGA-TCGAGGTAAGAG
61 CTCTGATTAG-GGTAAAAG
* * * * * *
434891 ATTGGTGTGTCTTCAATCAGTCCTC-TGATTAGGGTAAAAGATT-GGGTGT-TTCAATTTGCCC-
1 ATTGG-ATG-CTTCAATCTG-CCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCT
* *
434952 CATGATTGGGGTAAGAG
63 C-TGATTAGGGTAAAAG
* ** *
434969 ATT-GATGTGTCTTCAATCTGCTCTTTGATTAGGGTAAAAGATTA
1 ATTGGA--TG-CTTCAATCTGCCCCATGATTAGGGTAAGAGATTA
435013 AAAGATTAGA
Statistics
Matches: 950, Mismatches: 136, Indels: 92
0.81 0.12 0.08
Matches are distributed among these distances:
75 2 0.00
76 82 0.09
77 27 0.03
78 808 0.85
79 30 0.03
80 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (78 bp):
ATTGGATGCTTCAATCTGCCCCATGATTAGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTG
ATTAGGGTAAAAG
Found at i:434749 original size:156 final size:152
Alignment explanation
Indices: 433787--435213 Score: 498
Period size: 156 Copynumber: 9.1 Consensus size: 152
433777 ATCTGCCCCA
* ** * * ** *
433787 TGATCGAGGTAAGATATTGGATG-G-CTTCAACCTGCCCCATGATCGGGGTAAAAGATTAATGTG
1 TGATCGAGGTAAGAGATTGG-TGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGTA
* * *
433850 TCTTCAATCTGCCCTCTGATTAAGG-TAAAAGATTGGATGCTTCAATCTGCCCCATGA-TCGAGG
65 TCTTCAATCTG-CCTCTGATT-AGGATAAAAGATTGAATGCTTCAATCTGCCTC-TGATTAG-GG
* *
433913 TAAGAGATTAGTGTGTCTTCAATCTGCCCTT
126 TAA-AGATTAG-CTG-CTTCAATCTACCC-T
* * * * * ** * * * ** *
433944 TGAT-TAGGGTAAAAGATTAG-CTG-CTTCAATCTGTTCCATAATAGGGGTAAGAGATTTATGTG
1 TGATCGA-GGTAAGAGATTGGTGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGTA
* * * * *
434006 TCTTCAATCTGCCCTATGATTAGGGTAAAAGATT-AGCTGCTTCAATCTACCCCATGA-TAGGGG
65 TCTTCAATCTG-CCTCTGATTAGGATAAAAGATTGA-ATGCTTCAATCTGCCTC-TGATTA-GGG
* * *
434069 TAAGAGATTGGTGTGTCTTCAATCTGCCCT
126 TAA-AGATTAG-CTG-CTTCAATCTACCCT
* * * * * * *
434099 CTGAT-TAGGATAAAAGATTGG-ATG-CTTCAATCTGCCTCATGATCAAGGTAAGAGATTGGTAT
1 -TGATCGAGG-TAAGAGATTGGTGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGT
* * * * * * *
434161 GTCTTCAATCTACCCTCTGATTAGGGTAAAAGATT-AGTTACTTCAATCTGCCCCATGATCAGGG
64 ATCTTCAATCT-GCCTCTGATTAGGATAAAAGATTGA-ATGCTTCAATCTGCCTC-TGATTAGGG
* * * *
434225 TAAGAAATTAGTGTGTCTTCATTCTGCCCT
126 TAA-AGATTAG-CTG-CTTCAATCTACCCT
* * * * * * * *
434255 CTGAT-TAGGGTAAAAGATTGG-ATG-CTTCAATCTACCCTC-TGAT-TAGGGTAAAAGATTAGT
1 -TGATCGA-GGTAAGAGATTGGTGTGTCTTCAATATGCCC-CATGATCGA-GGTAAGAGATTGGT
* * * * **
434315 CG-A--TTCAATCTGCTCTCTAATTAAGG-TAAAAGATTGGATGCTTCAATCTGCCCTATAATCG
62 -GTATCTTCAATCTGC-CTCTGATT-AGGATAAAAGATTGAATGCTTCAATCTG-CCTCTGATTA
* * * *
434376 GGGTAAGAGATTGGTGTGTCTTTAATCTGCCCTT
123 GGGTAA-AGATTAG-CTG-CTTCAATCTACCC-T
* * * * * * *
434410 TGAT-TAGGGTAAAAGATTAG-CT-ACTTCAATTTGCCCCATGATCGAGGTAAGAGATTGGTGTG
1 TGATCGA-GGTAAGAGATTGGTGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGTA
* * * * * **
434472 TCTTCAATTTGCCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATTTGTCC-CATGATCGGGGT
65 TCTTCAATCTG-CCTCTGATTAGGATAAAAGATTGAATGCTTCAATCTG-CCTC-TGATTAGGGT
* *
434536 AAGAGATTAGTGTGTCTTCAATCTGCCCT
127 AA-AGATTAG-CTG-CTTCAATCTACCCT
* * * * *
434565 CTGAT-TAGGGTAAAAAATTGG-ATG-CTTCAATATGCCCCATGATCGAGCTAAGAGATTGGTGT
1 -TGATCGA-GGTAAGAGATTGGTGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGT
434627 ATCTTCAATCTGTCCTCTGATTAGGATAAAAGATTGAATGCTTCAATCTGCCTTCTGATTAGGGT
64 ATCTTCAATCTG-CCTCTGATTAGGATAAAAGATTGAATGCTTCAATCTGCC-TCTGATTAGGGT
* *
434692 GAAAGATTAGCTGCTTCTATCTTCTCCT
127 -AAAGATTAGCTGCTTCAATCTAC-CCT
* * * * * *
434720 TGCTCGAGGTAAGAGATTGGTGTGTCTTCAATCTGTCCTC-TAAT-TAGGGTAAAAGATT-G-G-
1 TGATCGAGGTAAGAGATTGGTGTGTCTTCAATATG-CCCCATGATCGA-GGTAAGAGATTGGTGT
* * * ** *
434780 ATGCTTCAATCTGCCCCATGA-TCGGAGTAAGAGATTGTTGTGTCTTCAATCTACCCTCTGATTA
64 AT-CTTCAATCTGCCTC-TGATTAGGA-TAAAAGATTG-AATG-CTTCAATCT-GCCTCTGATTA
** *
434844 GGGTAAAAGATTAATTGCTTCAATCTGACCCA
123 GGGT-AAAGATTAGCTGCTTCAATCT-ACCCT
* * *
434876 TGATCGAGGTAAGAGATTGGTGTGTCTTCAATCA-GTCCTC-TGAT-TAGGGTAAAAGATTGG-G
1 TGATCGAGGTAAGAGATTGGTGTGTCTTCAAT-ATG-CCCCATGATCGA-GGTAAGAGATTGGTG
* * * * * * * *
434937 TGT-TTCAATTTGCCCCATGATTGGGGTAAGAGATTGATGTGTCTTCAATCTGCTCTTTGATTAG
63 TATCTTCAATCTGCCTC-TGATTAGGATAAAAGATTGA-ATG-CTTCAATCTGC-CTCTGATTA-
* * *
435001 GGTAAAAGATTAAAAGATTAGATGCTTCAATCTGTCCCA
123 GG-----G--T-AAAGATTAGCTGCTTCAATCT-ACCCT
* * * * *
435040 TGATCGGGGTAAGAGATTGGTGTGTCTTTAATCTGCCCTC-TGAT-TAGGGTAAAAGATT-G-G-
1 TGATCGAGGTAAGAGATTGGTGTGTCTTCAATATGCCC-CATGATCGA-GGTAAGAGATTGGTGT
* * ** * * * *
435100 ATGCTTTAATCTGTCTCATGATCGGGGTAAGAGATTG-GTGTATCTTCAATCTGCCCTTTGATTA
64 AT-CTTCAATCTGCCTC-TGATTAGGATAAAAGATTGAATG---CTTCAATCTG-CCTCTGATTA
* * *
435164 GGGTAAAAGATTAGATGCTTCAATCTGACTCA
123 GGGT-AAAGATTAGCTGCTTCAATCT-ACCCT
*
435196 TGATCGGGGTAAGAGATT
1 TGATCGAGGTAAGAGATT
435214 AGATTGTTTT
Statistics
Matches: 1065, Mismatches: 139, Indels: 133
0.80 0.10 0.10
Matches are distributed among these distances:
153 12 0.01
154 160 0.15
155 33 0.03
156 686 0.64
157 36 0.03
158 2 0.00
162 5 0.00
163 6 0.01
164 124 0.12
165 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (152 bp):
TGATCGAGGTAAGAGATTGGTGTGTCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGTAT
CTTCAATCTGCCTCTGATTAGGATAAAAGATTGAATGCTTCAATCTGCCTCTGATTAGGGTAAAG
ATTAGCTGCTTCAATCTACCCT
Found at i:434751 original size:466 final size:465
Alignment explanation
Indices: 433852--434795 Score: 1267
Period size: 466 Copynumber: 2.0 Consensus size: 465
433842 TTAATGTGTC
* *
433852 TTCAATCTGCCCTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAG
1 TTCAATCTGCCCTCTAATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATAATCGAGGTAAG
* **
433917 AGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGCTGCTTCAATCTGTTCCA
66 AGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGCTACTTCAATCTGCCCCA
* * * *
433982 TAATAGGGGTAAGAGATTTATGTGTCTTCAATCTGCCCTATGATTAGGGTAAAAGATTAGCTGCT
131 TAATAGAGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATAATTAGGGTAAAAGATTAGATGCT
*
434047 TCAATCTACCCCATGATAGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGATAA
196 TCAATCTACCCCATGATAGGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTGATTAGGATAA
* * * * *
434112 AAGATTGGATGCTTCAATCTGCCTCATGATCAAGGTAAGAGATTGGTATGTCTTCAATCTACCCT
261 AAAATTGGATGCTTCAATATGCCCCATGATCAAGCTAAGAGATTGGTATATCTTCAATCTACCCT
* *
434177 CTGATTAGGGTAAAAGATTAGTTACTTCAATCTGCCCCATGATCAGGGTAAGAAATTAGTGTGTC
326 CTGATTAGGATAAAAGATTAGATACTTCAATCTGCCCCATGATCAGGGTAAGAAATTAGTGTGTC
* *
434242 TTCATTCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTACCCTCTGATTAGGGTAAA
391 TTCATTCT-CCCTCTGATGAGGGTAAAAGATTGGATGCTTCAATCTACCCTCTAATTAGGGTAAA
434307 AGATTAGTCGA
455 AGATTAGTCGA
* * *
434318 TTCAATCTGCTCTCTAATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCTATAATCGGGGTAAG
1 TTCAATCTGCCCTCTAATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATAATCGAGGTAAG
* * *
434383 AGATTGGTGTGTCTTTAATCTGCCCTTTGATTAGGGTAAAAGATTAGCTACTTCAATTTGCCCCA
66 AGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGCTACTTCAATCTGCCCCA
* * * * * *
434448 TGATCGAGGTAAGAGATTGGTGTGTCTTCAATTTGCCCTCTAATTAGGGTAAAAGATTGGATGCT
131 TAATAGAGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATAATTAGGGTAAAAGATTAGATGCT
* ** * *
434513 TCAATTTGTCCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAA
196 TCAATCTACCCCATGATAGGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTGATTAGGATAA
* * **
434578 AAAATTGGATGCTTCAATATGCCCCATGATCGAGCTAAGAGATTGGTGTATCTTCAATCTGTCCT
261 AAAATTGGATGCTTCAATATGCCCCATGATCAAGCTAAGAGATTGGTATATCTTCAATCTACCCT
* * * *
434643 CTGATTAGGATAAAAGATT-GAATGCTTCAATCTGCCTTC-TGATTAGGGTGAA-AGATTAGCTG
326 CTGATTAGGATAAAAGATTAG-ATACTTCAATCTGCC-CCATGATCAGGGT-AAGAAATTAG-TG
* * * **
434705 CT-TCTATC-TTCT-CCT-TGCTCGA-GGTAAGAGATTGGTGTGTCTTCAATCTGTCCTCTAATT
387 -TGTCT-TCATTCTCCCTCTGAT-GAGGGTAAAAGATTGG-ATG-CTTCAATCTACCCTCTAATT
* *
434765 AGGGTAAAAGATTGGAT-GC
447 AGGGTAAAAGATTAG-TCGA
434784 TTCAATCTGCCC
1 TTCAATCTGCCC
434796 CATGATCGGA
Statistics
Matches: 416, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
464 15 0.04
465 7 0.02
466 378 0.91
467 13 0.03
468 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (465 bp):
TTCAATCTGCCCTCTAATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATAATCGAGGTAAG
AGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGCTACTTCAATCTGCCCCA
TAATAGAGGTAAGAGATTGATGTGTCTTCAATCTGCCCTATAATTAGGGTAAAAGATTAGATGCT
TCAATCTACCCCATGATAGGGGTAAGAGATTAGTGTGTCTTCAATCTGCCCTCTGATTAGGATAA
AAAATTGGATGCTTCAATATGCCCCATGATCAAGCTAAGAGATTGGTATATCTTCAATCTACCCT
CTGATTAGGATAAAAGATTAGATACTTCAATCTGCCCCATGATCAGGGTAAGAAATTAGTGTGTC
TTCATTCTCCCTCTGATGAGGGTAAAAGATTGGATGCTTCAATCTACCCTCTAATTAGGGTAAAA
GATTAGTCGA
Found at i:435091 original size:242 final size:242
Alignment explanation
Indices: 434667--435241 Score: 701
Period size: 242 Copynumber: 2.4 Consensus size: 242
434657 AGATTGAATG
* * * * * * * * *
434667 CTTCAATCTGCCTTCTGATTAGGGTGAAAGATTAGCTGCTTCTATCT-TCTCCTTGCTCGAGGTA
1 CTTCAATCAGCCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGAC-CCATGATCGGGGTA
* *
434731 AGAGATT-GGTGTGTCTTCAATCTGTCC-TCTAATTAGGGTAAAAGATT----G----GATGCTT
65 AGAGATTAGAT-TGTCTTCAATCTG-CCTTCTGATTAGGGTAAAAGATTAAAAGATTAGATGCTT
*
434786 CAATCTGCCCCATGATCGGAGTAAGAGATTGTTGTGTCTTCAATCTACCCTCTGATTAGGGTAAA
128 CAATCTGCCCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAA
*
434851 AGATT-AATTGCTTCAATCTGACCCATGATCGAGGTAAGAGATTGGTGTGT
193 AGATTGAA-TGCTTCAATCTGACCCATGATCGAGGTAAGAGATTGGTGTAT
* * * * * * *
434901 CTTCAATCAGTCCTCTGATTAGGGTAAAAGATTGGGTGTTTCAATTTGCCCCATGATTGGGGTAA
1 CTTCAATCAGCCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGGGGTAA
434966 GAGATT-GATGTGTCTTCAATCTGCTCTT-TGATTAGGGTAAAAGATTAAAAGATTAGATGCTTC
66 GAGATTAGAT-TGTCTTCAATCTGC-CTTCTGATTAGGGTAAAAGATTAAAAGATTAGATGCTTC
* * * *
435029 AATCTGTCCCATGATCGGGGTAAGAGATTGGTGTGTCTTTAATCTGCCCTCTGATTAGGGTAAAA
129 AATCTGCCCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAA
* * * * *
435094 GATTGGATGCTTTAATCTGTCTCATGATCGGGGTAAGAGATTGGTGTAT
194 GATTGAATGCTTCAATCTGACCCATGATCGAGGTAAGAGATTGGTGTAT
* * *
435143 CTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACTCATGATCGGGGTAA
1 CTTCAATCAGCCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGGGGTAA
*
435208 GAGATTAGATTGTTTTCAATCTGCCTTCTGATTA
66 GAGATTAGATTGTCTTCAATCTGCCTTCTGATTA
435242 ATGTAAGAGA
Statistics
Matches: 289, Mismatches: 38, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
233 1 0.00
234 89 0.31
235 2 0.01
238 1 0.00
241 3 0.01
242 189 0.65
243 4 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (242 bp):
CTTCAATCAGCCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGGGGTAA
GAGATTAGATTGTCTTCAATCTGCCTTCTGATTAGGGTAAAAGATTAAAAGATTAGATGCTTCAA
TCTGCCCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGA
TTGAATGCTTCAATCTGACCCATGATCGAGGTAAGAGATTGGTGTAT
Found at i:435164 original size:320 final size:320
Alignment explanation
Indices: 434693--435291 Score: 866
Period size: 320 Copynumber: 1.9 Consensus size: 320
434683 GATTAGGGTG
* * * * *
434693 AAAGATTAGCTGCTTCTATCTTCTCCTTGCTCGAGGTAAGAGATTGGTGTGTCTTCAATCTGTCC
1 AAAGATTAGATGCTTCAATCTTCTCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCCC
* *
434758 TCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGTTGTGT
66 TCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGGTGTAT
434823 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTA-ATTGCTTCAATCTGACCCATGATCGAGGTA
131 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTAGA-TGCTTCAATCTGACCCATGATCGAGGTA
* * * *
434887 AGAGATT-GGTGTGTCTTCAATCAGTCC-TCTGATTAGGGTAAAAGATTGGGTGTTTCAAT-TTG
195 AGAGATTAGAT-TGTCTTCAATCAG-CCTTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTT-
*
434949 CCCCATGATTGGGGTAAGAGATTGATGTGTCTTCAATCTGCTCTTTGATTAGGGTAAAAGATTA
257 CCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCTCTTTGATTAGGGTAAAAGATTA
* *
435013 AAAGATTAGATGCTTCAATCTGTC-CCATGATCGGGGTAAGAGATTGGTGTGTCTTTAATCTGCC
1 AAAGATTAGATGCTTCAATCT-TCTCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCC
* * * * *
435077 CTCTGATTAGGGTAAAAGATTGGATGCTTTAATCTGTCTCATGATCGGGGTAAGAGATTGGTGTA
65 CTCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGGTGTA
* * * *
435142 TCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACTCATGATCGGGGTA
130 TCTTCAATCTACCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGAGGTA
* * * *
435207 AGAGATTAGATTGTTTTCAATCTGCCTTCTGATTAATGTAAGAGATTGGATGCTTCAATCTTCCC
195 AGAGATTAGATTGTCTTCAATCAGCCTTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTTCCC
*
435272 CATGATCGGGGTGAGAGATT
260 CATGATCGGGGTAAGAGATT
435292 AGGTTATAGC
Statistics
Matches: 246, Mismatches: 28, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
319 2 0.01
320 237 0.96
321 7 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (320 bp):
AAAGATTAGATGCTTCAATCTTCTCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCCC
TCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGGTGTAT
CTTCAATCTACCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGAGGTAA
GAGATTAGATTGTCTTCAATCAGCCTTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTTCCCC
ATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCTCTTTGATTAGGGTAAAAGATTA
Found at i:435260 original size:156 final size:156
Alignment explanation
Indices: 434667--435291 Score: 783
Period size: 156 Copynumber: 4.0 Consensus size: 156
434657 AGATTGAATG
* * * * * *
434667 CTTCAATCTG-CCTTCTGATTAGGGTGAAAGATTAGCTGCTTCTATCT-TCTCCTTGCTCGAGGT
1 CTTCAATCTGCCCTT-TGATTAGGGTAAAAGATTAGATGCTTCAATCTGAC-CCATGATCGAGGT
*
434730 AAGAGATTGGTGTGTCTTCAATCTGTCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCC
64 AAGAGATTGGTGTGTCTTCAATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCC
* *
434795 CCATGATCGGAGTAAGAGATTGTTGTGT
129 CCATGATCGGGGTAAGAGATTGATGTGT
* *
434823 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTA-ATTGCTTCAATCTGACCCATGATCGAGGTA
1 CTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGA-TGCTTCAATCTGACCCATGATCGAGGTA
* * * *
434887 AGAGATTGGTGTGTCTTCAATCAGTCCTCTGATTAGGGTAAAAGATTGGGTGTTTCAATTTGCCC
65 AGAGATTGGTGTGTCTTCAATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCC
*
434952 CATGATTGGGGTAAGAGATTGATGTGT
130 CATGATCGGGGTAAGAGATTGATGTGT
* *
434979 CTTCAATCTGCTCTTTGATTAGGGTAAAAGATTAAAAGATTAGATGCTTCAATCTGTCCCATGAT
1 CTTCAATCTGCCCTTTGATTA-GG-----G--TAAAAGATTAGATGCTTCAATCTGACCCATGAT
* * * *
435044 CGGGGTAAGAGATTGGTGTGTCTTTAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTTAA
58 CGAGGTAAGAGATTGGTGTGTCTTCAATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTCAA
* * * *
435109 TCTGTCTCATGATCGGGGTAAGAGATTGGTGTAT
123 TCTGCCCCATGATCGGGGTAAGAGATTGATGTGT
* *
435143 CTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACTCATGATCGGGGTAA
1 CTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGAGGTAA
* * ** * *
435208 GAGATTAGAT-TGTTTTCAATCTG-CCTTCTGATTAATGTAAGAGATTGGATGCTTCAATCTTCC
66 GAGATT-GGTGTGTCTTCAATCTGTCC-TCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCC
*
435271 CCATGATCGGGGTGAGAGATT
129 CCATGATCGGGGTAAGAGATT
435292 AGGTTATAGC
Statistics
Matches: 408, Mismatches: 47, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
155 2 0.00
156 257 0.63
157 8 0.02
158 1 0.00
162 1 0.00
163 2 0.00
164 136 0.33
165 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (156 bp):
CTTCAATCTGCCCTTTGATTAGGGTAAAAGATTAGATGCTTCAATCTGACCCATGATCGAGGTAA
GAGATTGGTGTGTCTTCAATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCC
ATGATCGGGGTAAGAGATTGATGTGT
Found at i:435293 original size:78 final size:77
Alignment explanation
Indices: 434668--435291 Score: 600
Period size: 78 Copynumber: 7.9 Consensus size: 77
434658 GATTGAATGC
* * * * * *
434668 TTCAATCTGCCTTCTGATTAGGGTGAAAGATTAGCTGCTTCTATCT-TCTCCTTGCTCGAGGTAA
1 TTCAATCTGCCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTC-CCATGATCGGGGTAA
* *
434732 GAGATTGGTGTGT
65 GAGATTGTTGTAT
* * * *
434745 CTTCAATCTGTCC-TCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGAGTA
1 -TTCAATCTG-CCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGGTA
*
434809 AGAGATTGTTGTGT
64 AGAGATTGTTGTAT
* * * *
434823 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTA-ATTGCTTCAATCTGACCCATGATCGAGGTA
1 -TTCAATCTGCCTTCTGATTAGGGTAAAAGATTAGA-TGCTTCAATCTGTCCCATGATCGGGGTA
* *
434887 AGAGATTGGTGTGT
64 AGAGATTGTTGTAT
* * * * * * *
434901 CTTCAATCAGTCC-TCTGATTAGGGTAAAAGATTGGGTGTTTCAATTTGCCCCATGATTGGGGTA
1 -TTCAATCTG-CCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGGTA
* *
434965 AGAGATTGATGTGT
64 AGAGATTGTTGTAT
434979 CTTCAATCTGCTCTT-TGATTAGGGTAAAAGATTAAAAGATTAGATGCTTCAATCTGTCCCATGA
1 -TTCAATCTGC-CTTCTGATTA-GG-----G--TAAAAGATTAGATGCTTCAATCTGTCCCATGA
*
435043 TCGGGGTAAGAGATTGGTGTGTCT
56 TCGGGGTAAGAGATT-GT-TGTAT
* * * *
435067 TT-AATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTTAATCTGTCTCATGATCGGGGTAAG
1 TTCAATCTGCCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGGTAAG
*
435131 AGATTGGTGTAT
66 AGATTGTTGTAT
* *
435143 CTTCAATCTGCCCTT-TGATTAGGGTAAAAGATTAGATGCTTCAATCTGACTCATGATCGGGGTA
1 -TTCAATCTG-CCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGGTA
435207 AGAGATTAGATTGT-T
64 AGAGATT-G-TTGTAT
** * * *
435222 TTCAATCTGCCTTCTGATTAATGTAAGAGATTGGATGCTTCAATCT-TCCCCATGATCGGGGTGA
1 TTCAATCTGCCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGT-CCCATGATCGGGGTAA
435286 GAGATT
65 GAGATT
435292 AGGTTATAGC
Statistics
Matches: 465, Mismatches: 55, Indels: 52
0.81 0.10 0.09
Matches are distributed among these distances:
76 4 0.01
77 11 0.02
78 367 0.79
79 13 0.03
80 4 0.01
84 1 0.00
85 4 0.01
86 54 0.12
87 3 0.01
88 4 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (77 bp):
TTCAATCTGCCTTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTGTCCCATGATCGGGGTAAG
AGATTGTTGTAT
Found at i:436455 original size:16 final size:16
Alignment explanation
Indices: 436431--436470 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
436421 TCGACCTCTC
436431 CTTTT-TTTTTCTTCT
1 CTTTTCTTTTTCTTCT
*
436446 CTTTTCTTTTTCTTTT
1 CTTTTCTTTTTCTTCT
*
436462 TTTTTCTTT
1 CTTTTCTTT
436471 CTTTCCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTCTTTTTCTTCT
Found at i:436467 original size:26 final size:26
Alignment explanation
Indices: 436431--436490 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
436421 TCGACCTCTC
*
436431 CTTTTTTTTTCTTCTCTTT-TCTTTTT
1 CTTTTTTTTTCTT-TCTTTCCCTTTTT
436457 CTTTTTTTTTCTTTCTTTCCCTTTTT
1 CTTTTTTTTTCTTTCTTTCCCTTTTT
*
436483 ATTTTTTT
1 CTTTTTTT
436491 AGGTGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (26 bp):
CTTTTTTTTTCTTTCTTTCCCTTTTT
Found at i:437365 original size:14 final size:15
Alignment explanation
Indices: 437335--437367 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
437325 TGACTTTCAT
*
437335 TTTTCTTCCTTTTTC
1 TTTTCTTCCTTTCTC
437350 TTTTCTT-CTTTCTC
1 TTTTCTTCCTTTCTC
437364 TTTT
1 TTTT
437368 TTTTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCCTTTCTC
Found at i:439638 original size:37 final size:37
Alignment explanation
Indices: 439590--439744 Score: 222
Period size: 37 Copynumber: 4.2 Consensus size: 37
439580 CATCGGCATA
* * *
439590 AAGCCTGCTAGGCACATAGCCTG-ATTACACCGGCACG
1 AAGCCTACTAGGCACATAGCCTGAAAT-CACCGACACG
439627 AAGCCTACTAGGCACATAGCCTGAAATCACCGACACG
1 AAGCCTACTAGGCACATAGCCTGAAATCACCGACACG
*
439664 AAGCCTACTAGGCACATAGCCTGAAATCACCGGCACG
1 AAGCCTACTAGGCACATAGCCTGAAATCACCGACACG
* * * *
439701 AAACCTACTAGGCACAAAGCCTAAAAACACCGACACG
1 AAGCCTACTAGGCACATAGCCTGAAATCACCGACACG
439738 AAGCCTA
1 AAGCCTA
439745 AAAACACCGA
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 105 0.98
38 2 0.02
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.13
Consensus pattern (37 bp):
AAGCCTACTAGGCACATAGCCTGAAATCACCGACACG
Found at i:439741 original size:21 final size:21
Alignment explanation
Indices: 439717--439765 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
439707 ACTAGGCACA
439717 AAGCCTAAAAACACCGACACG
1 AAGCCTAAAAACACCGACACG
439738 AAGCCTAAAAACACCGACACG
1 AAGCCTAAAAACACCGACACG
439759 AAGCCTA
1 AAGCCTA
439766 CTAGGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.33, G:0.14, T:0.06
Consensus pattern (21 bp):
AAGCCTAAAAACACCGACACG
Found at i:439753 original size:58 final size:58
Alignment explanation
Indices: 439676--439802 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 58
439666 GCCTACTAGG
* * * *
439676 CACATAGCCTGAAATCACCGGCACGAAACCTACTAGGCACAAAGCCTAAAAACACCGA
1 CACAAAGCCTAAAAACACCGACACGAAACCTACTAGGCACAAAGCCTAAAAACACCGA
* * * * * *
439734 CACGAAGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCTTGAAAACATCGG
1 CACAAAGCCTAAAAACACCGACACGAAACCTACTAGGCACAAAGCCTAAAAACACCGA
439792 CACAAAGCCTA
1 CACAAAGCCTA
439803 CTAGGCACAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.31, G:0.17, T:0.10
Consensus pattern (58 bp):
CACAAAGCCTAAAAACACCGACACGAAACCTACTAGGCACAAAGCCTAAAAACACCGA
Found at i:439756 original size:95 final size:95
Alignment explanation
Indices: 439644--439839 Score: 295
Period size: 95 Copynumber: 2.1 Consensus size: 95
439634 CTAGGCACAT
* * * *
439644 AGCCTGAAATCACCGACACGAAGCCTACTAGGCACATAGCCTGAAATCACCGGCACGAAA-CCTA
1 AGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGGCAC-AAAGCCTA
*
439708 CTAGGCACAAAGCCTAAAAACACCGACACGA
65 CTAGGCACAAAGCATAAAAACACCGACACGA
* *
439739 AGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCTTGAAAACATCGGCACAAAGCCTAC
1 AGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGGCACAAAGCCTAC
* *
439804 TAGGCACAAAGCATAAAAACACCGGCATGA
66 TAGGCACAAAGCATAAAAACACCGACACGA
439834 AGCCTA
1 AGCCTA
439840 CTAGGCGCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 3 0.03
95 88 0.97
ACGTcount: A:0.41, C:0.31, G:0.18, T:0.11
Consensus pattern (95 bp):
AGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGGCACAAAGCCTAC
TAGGCACAAAGCATAAAAACACCGACACGA
Found at i:439800 original size:37 final size:37
Alignment explanation
Indices: 439738--439894 Score: 188
Period size: 37 Copynumber: 4.2 Consensus size: 37
439728 CACCGACACG
* *
439738 AAGCCTAAAAACACCGACACGAAGCCTACTAGGCACA
1 AAGCCTGAAAACACCGACACAAAGCCTACTAGGCACA
* * *
439775 AAGCTTGAAAACATCGGCACAAAGCCTACTAGGCACA
1 AAGCCTGAAAACACCGACACAAAGCCTACTAGGCACA
* * * ** *
439812 AAGCATAAAAACACCGGCATGAAGCCTACTAGGCGCA
1 AAGCCTGAAAACACCGACACAAAGCCTACTAGGCACA
* * *
439849 AAACCTGAAAACACTGACACAAGGCCTACTAGGCACA
1 AAGCCTGAAAACACCGACACAAAGCCTACTAGGCACA
439886 AAGCCTGAA
1 AAGCCTGAA
439895 TTTTTAGATG
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (37 bp):
AAGCCTGAAAACACCGACACAAAGCCTACTAGGCACA
Found at i:439836 original size:74 final size:74
Alignment explanation
Indices: 439738--439889 Score: 216
Period size: 74 Copynumber: 2.1 Consensus size: 74
439728 CACCGACACG
* * * *
439738 AAGCCTAAAAACACCGACACGAAGCCTACTAGGCACAAAGCTTGAAAACA-TCGGCACAAAGCCT
1 AAGCATAAAAACACCGACACGAAGCCTACTAGGCACAAAACCTGAAAACACT-GACACAAAGCCT
439802 ACTAGGCACA
65 ACTAGGCACA
* * * *
439812 AAGCATAAAAACACCGGCATGAAGCCTACTAGGCGCAAAACCTGAAAACACTGACACAAGGCCTA
1 AAGCATAAAAACACCGACACGAAGCCTACTAGGCACAAAACCTGAAAACACTGACACAAAGCCTA
439877 CTAGGCACA
66 CTAGGCACA
439886 AAGC
1 AAGC
439890 CTGAATTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 68 0.99
75 1 0.01
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (74 bp):
AAGCATAAAAACACCGACACGAAGCCTACTAGGCACAAAACCTGAAAACACTGACACAAAGCCTA
CTAGGCACA
Found at i:439844 original size:132 final size:132
Alignment explanation
Indices: 439616--439876 Score: 353
Period size: 132 Copynumber: 2.0 Consensus size: 132
439606 TAGCCTGATT
* * * * *
439616 ACACCGGCACGAAGCCTACTAGGCACATAGCCTGAAATCACCGACACGAAGCCTACTAGGCACAT
1 ACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGACACAAAGCCTACTAGGCACAA
* * * *
439681 AGCCTGAAATCACCGGCACGAAACCTACTAGGCACAAAGCCTAAAAACACCGACACGAA-GCCTA
66 AGCATAAAAACACCGGCACGAAACCTACTAGGCACAAAACCTAAAAACACCGACAC-AAGGCCTA
439745 AAA
130 AAA
* * *
439748 ACACCGACACGAAGCCTACTAGGCACAAAGCTTGAAAACATCGGCACAAAGCCTACTAGGCACAA
1 ACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGACACAAAGCCTACTAGGCACAA
* * * * *
439813 AGCATAAAAACACCGGCATGAAGCCTACTAGGCGCAAAACCTGAAAACACTGACACAAGGCCTA
66 AGCATAAAAACACCGGCACGAAACCTACTAGGCACAAAACCTAAAAACACCGACACAAGGCCTA
439877 CTAGGCACAA
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
131 2 0.02
132 109 0.98
ACGTcount: A:0.40, C:0.31, G:0.18, T:0.11
Consensus pattern (132 bp):
ACACCGACACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGACACAAAGCCTACTAGGCACAA
AGCATAAAAACACCGGCACGAAACCTACTAGGCACAAAACCTAAAAACACCGACACAAGGCCTAA
AA
Found at i:441474 original size:3 final size:3
Alignment explanation
Indices: 441466--441493 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
441456 ATTGTAAAAG
441466 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
441494 AAGAGGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:443350 original size:81 final size:81
Alignment explanation
Indices: 443250--443427 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
443240 CAGTTCTTGA
* *
443250 CAGCTTGTGTGAGTAGCATCGTG-AGTGGGT-AGCATAGACTGTAGT-GATGGCTGAGGTCCT-G
1 CAGCTTGTGTGAGCAGCATCGTGAAG-GGGTAAGC-TAGACTGTA-TCGATGGCGGAGGT-CTGG
*
443311 AATACGTTGCGGATTCTCAT
62 AATACATTGCGGATTCTCAT
* * * *
443331 CAGCTTGTGTGAGCGGCATCGTGAAGGGGTAATCTGGACTGTATCGATGGCGGAGGTCTGGCATA
1 CAGCTTGTGTGAGCAGCATCGTGAAGGGGTAAGCTAGACTGTATCGATGGCGGAGGTCTGGAATA
443396 CATTGCGGATTCTCAT
66 CATTGCGGATTCTCAT
443412 CAGCTTGTGTGAGCAG
1 CAGCTTGTGTGAGCAG
443428 TATTGTGTAC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 3 0.04
81 78 0.92
82 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (81 bp):
CAGCTTGTGTGAGCAGCATCGTGAAGGGGTAAGCTAGACTGTATCGATGGCGGAGGTCTGGAATA
CATTGCGGATTCTCAT
Found at i:445051 original size:31 final size:31
Alignment explanation
Indices: 445013--445079 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
445003 TTAAGTCCTA
* *
445013 AACTTGGC-AGTTATTCTCACATTAGGACTTG
1 AACTTGGCAACTT-TTCCCACATTAGGACTTG
* *
445044 AACTTGGCAACTTTTCCCACATTGGGGCTTG
1 AACTTGGCAACTTTTCCCACATTAGGACTTG
445075 AACTT
1 AACTT
445080 TTTTTTTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (31 bp):
AACTTGGCAACTTTTCCCACATTAGGACTTG
Found at i:445298 original size:56 final size:56
Alignment explanation
Indices: 445195--445303 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
445185 AAGGACTAAC
* * * * * *
445195 TTGGATAAAAAAAAGTTGAAATCTCAATGTGGGAACATTTGCCAAGTTTAGGGTAT
1 TTGGATAAAAAAAAGTTGAAAGCCCAATGTGAGAACAGTTGCAAAGTTCAGGGTAT
* *
445251 TTGGATTAAAAAAAAGTT-CAAGCCCAATGTGAGAATAGTTGCAAAGTTCAGGG
1 TTGGA-TAAAAAAAAGTTGAAAGCCCAATGTGAGAACAGTTGCAAAGTTCAGGG
445304 CCTATCTTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 32 0.73
57 12 0.27
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (56 bp):
TTGGATAAAAAAAAGTTGAAAGCCCAATGTGAGAACAGTTGCAAAGTTCAGGGTAT
Found at i:451355 original size:3 final size:3
Alignment explanation
Indices: 451340--451370 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
451330 NNNACCGCCC
*
451340 CCA CCA CCT CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
451371 TGCCCCCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.68, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:453793 original size:17 final size:18
Alignment explanation
Indices: 453762--453795 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
453752 AATTTAACTT
453762 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
453780 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
453796 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:455391 original size:11 final size:11
Alignment explanation
Indices: 455375--455422 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 11
455365 GATGATGATT
455375 ATTTTAAAATA
1 ATTTTAAAATA
455386 ATTTTATAAAATA
1 A-TTT-TAAAATA
455399 ATTTT-AAA-A
1 ATTTTAAAATA
*
455408 ATTTTAAAATT
1 ATTTTAAAATA
455419 ATTT
1 ATTT
455423 ATTGACATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 6 0.19
10 6 0.19
11 6 0.19
12 6 0.19
13 8 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:456124 original size:26 final size:26
Alignment explanation
Indices: 456085--456135 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
456075 TTCTATATTT
*
456085 TAAGAAAATAAAAACAAAATTAACTC
1 TAAGAAAACAAAAACAAAATTAACTC
*
456111 TAAGAAAACGAAAACAAAATTAACT
1 TAAGAAAACAAAAACAAAATTAACT
456136 TAGGTTACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (26 bp):
TAAGAAAACAAAAACAAAATTAACTC
Found at i:457248 original size:118 final size:118
Alignment explanation
Indices: 457011--457241 Score: 444
Period size: 118 Copynumber: 2.0 Consensus size: 118
457001 ATGATTTCAT
*
457011 TTACATTTTTCAACCCATTTTAATGACAGCACCATGAGATCAAAGAAGATGACCAAGTGACTGAT
1 TTACATTTTTCAACCCATTTTAATGACAGCACCATGAGAACAAAGAAGATGACCAAGTGACTGAT
457076 CCCATCCAGGTTATGTTTGCTTTTACATATGACACATAATTTCCATGCAAATA
66 CCCATCCAGGTTATGTTTGCTTTTACATATGACACATAATTTCCATGCAAATA
*
457129 TTACATTTTTCAACCCATTTTAATGACAGCACCATGAGAACAAAGAAGATGACCAAGTGACTGGT
1 TTACATTTTTCAACCCATTTTAATGACAGCACCATGAGAACAAAGAAGATGACCAAGTGACTGAT
457194 CCCATCCAGGTTATGTTTGCTTTTACATATGACACATAATTTCCATGC
66 CCCATCCAGGTTATGTTTGCTTTTACATATGACACATAATTTCCATGC
457242 TTATATTTGC
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (118 bp):
TTACATTTTTCAACCCATTTTAATGACAGCACCATGAGAACAAAGAAGATGACCAAGTGACTGAT
CCCATCCAGGTTATGTTTGCTTTTACATATGACACATAATTTCCATGCAAATA
Found at i:460673 original size:153 final size:153
Alignment explanation
Indices: 460395--460674 Score: 355
Period size: 153 Copynumber: 1.8 Consensus size: 153
460385 ATAGACCCAC
*** * * *
460395 CAGGTTTCATATTAAGGTAAAACCCTTCTTGTGTAACAACATGTGTTGGGGCACCAGATGCTGTT
1 CAGGTTTCATATTAAGGTAAAACCCTTCTTGCACAACAACATGTGTTGGAGCACCAGATACCGTT
* * * * *
460460 CCATGCCCAGCTGTCGTTTCAACGAATGGCAATCGTTCGTGAGGAGCCCAAGAGGACATCGACAC
66 CCATGCCCAGCTATCGATTCAACAAATGGCAATCGTCCGTGAGGAGCCCAAGAAGACATCGACAC
460525 CGAAGGACCATCATAGTACCTAT
131 CGAAGGACCATCATAGTACCTAT
* * ** *
460548 CAGGTTTGATATTAGGGTAAAACCCTTCTTGCACAGTAACATGTGTTGGAGCACCCGATACCGTT
1 CAGGTTTCATATTAAGGTAAAACCCTTCTTGCACAACAACATGTGTTGGAGCACCAGATACCGTT
** * * *
460613 CCATGTTCAGTTATTGATTCAACAAATGG-AATCCGTCCGTGAGGAGCCCGAGAAGACATCGA
66 CCATGCCCAGCTATCGATTCAACAAATGGCAAT-CGTCCGTGAGGAGCCCAAGAAGACATCGA
460675 TGTCGGAGGG
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
152 3 0.03
153 102 0.97
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (153 bp):
CAGGTTTCATATTAAGGTAAAACCCTTCTTGCACAACAACATGTGTTGGAGCACCAGATACCGTT
CCATGCCCAGCTATCGATTCAACAAATGGCAATCGTCCGTGAGGAGCCCAAGAAGACATCGACAC
CGAAGGACCATCATAGTACCTAT
Found at i:461742 original size:61 final size:61
Alignment explanation
Indices: 461647--461769 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
461637 AAAATAAGTT
461647 ATTTTTAGAATGAAATATTTTAGGTTGTATCCCTGAATTGAATTATTATCTTGAAATTTTG
1 ATTTTTAGAATGAAATATTTTAGGTTGTATCCCTGAATTGAATTATTATCTTGAAATTTTG
*
461708 ATTTTTAGAATGGAATATTTTAGGTTGTATCCCTGAATTGAATTATTATCTTGAAATTTTG
1 ATTTTTAGAATGAAATATTTTAGGTTGTATCCCTGAATTGAATTATTATCTTGAAATTTTG
461769 A
1 A
461770 ATTTGTAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (61 bp):
ATTTTTAGAATGAAATATTTTAGGTTGTATCCCTGAATTGAATTATTATCTTGAAATTTTG
Found at i:462231 original size:13 final size:12
Alignment explanation
Indices: 462194--462233 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
462184 CGACAAAAAG
*
462194 AAAAAAATCGAA
1 AAAAAAATTGAA
462206 AAAAAAATTGAA
1 AAAAAAATTGAA
462218 AAAAAAATTGGAA
1 AAAAAAATT-GAA
462231 AAA
1 AAA
462234 TTGAACTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:465009 original size:16 final size:19
Alignment explanation
Indices: 464976--465013 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
464966 GTACACCCAT
464976 TTTTTATTTTAGTACCTAA
1 TTTTTATTTTAGTACCTAA
464995 TTTTT-TTTT-GT-CCTAA
1 TTTTTATTTTAGTACCTAA
465011 TTT
1 TTT
465014 GATACCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 4 0.21
19 5 0.26
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTATTTTAGTACCTAA
Found at i:465670 original size:15 final size:15
Alignment explanation
Indices: 465650--465680 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
465640 GCTGTTTAGA
*
465650 ATTTTAGAATTCTAT
1 ATTTTAGAATTATAT
465665 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
465680 A
1 A
465681 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:466228 original size:24 final size:24
Alignment explanation
Indices: 466183--466228 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
466173 CATGAGACAA
*
466183 AAAAATAACTAAAATATCAATTTG
1 AAAAATAACTAAAATATAAATTTG
*
466207 AAAAA-AACTCAAATATTAAATT
1 AAAAATAACTAAAATA-TAAATT
466229 AAACATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATAACTAAAATATAAATTTG
Found at i:471208 original size:20 final size:20
Alignment explanation
Indices: 471187--471256 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
471177 TCTTTAGATT
*
471187 TTTTAAAATTTTTATAATTT
1 TTTTAAAATTTTTATAATTA
* * *
471207 TTTTAAAATATATAT-ATAA
1 TTTTAAAATTTTTATAATTA
** *
471226 TTTTGGAATTTTTATAAATA
1 TTTTAAAATTTTTATAATTA
471246 TTTTAAAATTT
1 TTTTAAAATTT
471257 AAATATTATT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
19 13 0.35
20 24 0.65
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTTTTATAATTA
Found at i:471261 original size:16 final size:17
Alignment explanation
Indices: 471240--471273 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
471230 GGAATTTTTA
471240 TAAATATT-TTAAAATT
1 TAAATATTATTAAAATT
*
471256 TAAATATTATTTAAATT
1 TAAATATTATTAAAATT
471273 T
1 T
471274 TTTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATATTATTAAAATT
Found at i:472551 original size:22 final size:23
Alignment explanation
Indices: 472499--472551 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
472489 AATATATTTA
472499 TTTTATTTTAATATTTAATAATT
1 TTTTATTTTAATATTTAATAATT
*
472522 TATATTATTTT-ATTTATTAA-AATT
1 T-T-TTATTTTAATAT-TTAATAATT
472546 TTTTAT
1 TTTTAT
472552 AAATCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 4 0.15
23 2 0.08
24 9 0.35
25 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATTTTAATATTTAATAATT
Found at i:474121 original size:21 final size:21
Alignment explanation
Indices: 474058--474126 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 21
474048 TTCTTTTGGT
*
474058 TTTTTTTACTATTTTGGTTGT
1 TTTTTTTACTATTTTGGTTGC
**
474079 TATTTTTTACTATTTCAG-TGC
1 T-TTTTTTACTATTTTGGTTGC
*
474100 TTTTTTTACTGTTTTGGTTGC
1 TTTTTTTACTATTTTGGTTGC
*
474121 TGTTTT
1 TTTTTT
474127 CGTGTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.33
21 12 0.31
22 14 0.36
ACGTcount: A:0.10, C:0.09, G:0.14, T:0.67
Consensus pattern (21 bp):
TTTTTTTACTATTTTGGTTGC
Found at i:474138 original size:12 final size:12
Alignment explanation
Indices: 474129--474224 Score: 67
Period size: 12 Copynumber: 8.3 Consensus size: 12
474119 GCTGTTTTCG
474129 TGTTATTTTTGC
1 TGTTATTTTTGC
474141 TGTTATTTTTG-
1 TGTTATTTTTGC
*
474152 T-TGATGTTTT--
1 TGTTAT-TTTTGC
* **
474162 TGTTGTTTTTAA
1 TGTTATTTTTGC
*
474174 TGTT-GTTTTGC
1 TGTTATTTTTGC
474185 TGTTATTTTTGC
1 TGTTATTTTTGC
* * *
474197 TGCTATTTTGGT
1 TGTTATTTTTGC
*
474209 TGTTATTTTTGT
1 TGTTATTTTTGC
474221 TGTT
1 TGTT
474225 TGGATGCTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
10 8 0.12
11 15 0.22
12 44 0.66
ACGTcount: A:0.08, C:0.04, G:0.20, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGC
Found at i:474169 original size:56 final size:56
Alignment explanation
Indices: 474109--474225 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 56
474099 CTTTTTTTAC
** * * *
474109 TGTTTTGGTTGCTGTTTT-CGTGTTATTTTTGCTGTTATTTTTGTTGATGTTTTTGT
1 TGTTTTGAATGCTGTTTTGC-TGTTATTTTTGCTGCTATTTTGGTTGATATTTTTGT
* * *
474165 TGTTTTTAATGTTGTTTTGCTGTTATTTTTGCTGCTATTTTGGTTGTTATTTTTGT
1 TGTTTTGAATGCTGTTTTGCTGTTATTTTTGCTGCTATTTTGGTTGATATTTTTGT
474221 TGTTT
1 TGTTT
474226 GGATGCTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.67
Consensus pattern (56 bp):
TGTTTTGAATGCTGTTTTGCTGTTATTTTTGCTGCTATTTTGGTTGATATTTTTGT
Found at i:474211 original size:44 final size:44
Alignment explanation
Indices: 474135--474225 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
474125 TTCGTGTTAT
* * *
474135 TTTTGCTGTTATTTTTGTTGATGTTTTTGTTGTT-TTTAATGTTG
1 TTTTGCTGTTATTTTTGCTGATATTTTGGTTGTTATTT-ATGTTG
* *
474179 TTTTGCTGTTATTTTTGCTGCTATTTTGGTTGTTATTTTTGTTG
1 TTTTGCTGTTATTTTTGCTGATATTTTGGTTGTTATTTATGTTG
474223 TTT
1 TTT
474226 GGATGCTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 38 0.93
45 3 0.07
ACGTcount: A:0.08, C:0.04, G:0.20, T:0.68
Consensus pattern (44 bp):
TTTTGCTGTTATTTTTGCTGATATTTTGGTTGTTATTTATGTTG
Found at i:474392 original size:26 final size:27
Alignment explanation
Indices: 474354--474427 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
474344 ATAAAAAAAA
* *
474354 TTTAATGTATTTTAAATTTATTT-ATTT
1 TTTAATAT-TTTTAAATTTATTTGATAT
*
474381 TTTAATATTTTTAAATGTATTTGATAT
1 TTTAATATTTTTAAATTTATTTGATAT
*
474408 ATTATATATTTTTTAAATTT
1 TTTA-ATA-TTTTTAAATTT
474428 GTTGTATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 13 0.33
27 13 0.33
28 3 0.08
29 10 0.26
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTAATATTTTTAAATTTATTTGATAT
Found at i:474437 original size:38 final size:37
Alignment explanation
Indices: 474357--474427 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
474347 AAAAAAATTT
* *
474357 AATGTATTTTAAATTTATTTATTTTTTAATATTTTTA
1 AATGTATTTGAAATTTATATATTTTTTAATATTTTTA
*
474394 AATGTATTTGATATATTATATATTTTTTAA-ATTT
1 AATGTATTTGAAAT-TTATATATTTTTTAATATTT
474428 GTTGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (37 bp):
AATGTATTTGAAATTTATATATTTTTTAATATTTTTA
Found at i:475712 original size:11 final size:11
Alignment explanation
Indices: 475696--475721 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
475686 GACTTGTATC
475696 TTATTTTAAAT
1 TTATTTTAAAT
475707 TTATTTTAAAT
1 TTATTTTAAAT
475718 TTAT
1 TTAT
475722 GTCATCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:477520 original size:23 final size:23
Alignment explanation
Indices: 477493--477538 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
477483 AAATTCGAAT
**
477493 TTCAAATTATTCGAATCGAGTTA
1 TTCAAATTAAACGAATCGAGTTA
477516 TTCAAATTAAACGAATCGAGTTA
1 TTCAAATTAAACGAATCGAGTTA
477539 AATTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
TTCAAATTAAACGAATCGAGTTA
Found at i:477872 original size:58 final size:58
Alignment explanation
Indices: 477742--477874 Score: 178
Period size: 58 Copynumber: 2.3 Consensus size: 58
477732 ACTCATCAAC
*
477742 AAACTAAACCC-AATAGGTTTTAAACCCAAATATAATTTTACTCTTAAAAAACACTCAT
1 AAACTAAACCCAAATA-TTTTTAAACCCAAATATAATTTTACTCTTAAAAAACACTCAT
* ** * * *
477800 ACACTAAATTCAAATATTTTTAAACCCAAATATAATTTTATTCTTAAAAAACATTTAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTACTCTTAAAAAACACTCAT
*
477858 AAATTAAACCCAAATAT
1 AAACTAAACCCAAATAT
477875 AATTTTATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 59 0.94
59 4 0.06
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTACTCTTAAAAAACACTCAT
Found at i:477902 original size:42 final size:42
Alignment explanation
Indices: 477819--477902 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
477809 TCAAATATTT
* * *
477819 TTAAACCCAAATATAATTTTATTCTTAAAAAACATTTATAAA
1 TTAAACCCAAATATAATTTTATTCCTAAAAAACACTCATAAA
*
477861 TTAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAA
1 TTAAACCCAAATATAATTTTATTCCTAAAAAACACTCATAAA
477903 CAACTCCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (42 bp):
TTAAACCCAAATATAATTTTATTCCTAAAAAACACTCATAAA
Found at i:485518 original size:21 final size:21
Alignment explanation
Indices: 485484--485530 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
485474 ATTTTATCAA
* *
485484 AAGAAGAAGACACTTCTTTTG
1 AAGAAAAAGACACTTCTTCTG
*
485505 AAGAAAAAGGCACTTCTTCTG
1 AAGAAAAAGACACTTCTTCTG
485526 AAGAA
1 AAGAA
485531 TCATCTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (21 bp):
AAGAAAAAGACACTTCTTCTG
Found at i:486897 original size:12 final size:13
Alignment explanation
Indices: 486878--486914 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
486868 CCTAATAATT
486878 ATAGAAAATATAA
1 ATAGAAAATATAA
*
486891 A-AGAAAA-AAAA
1 ATAGAAAATATAA
486902 ATAGAAAATATAA
1 ATAGAAAATATAA
486915 GTTTATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.20
12 12 0.60
13 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAGAAAATATAA
Found at i:491081 original size:22 final size:23
Alignment explanation
Indices: 491038--491081 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
491028 CCTGTTCGTT
491038 TAAAGCCTGTTTAATAAATCATG
1 TAAAGCCTGTTTAATAAATCATG
491061 TAAA-CCTCGTTTAA-AAATCAT
1 TAAAGCCT-GTTTAATAAATCAT
491082 TTATTGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (23 bp):
TAAAGCCTGTTTAATAAATCATG
Found at i:496646 original size:25 final size:25
Alignment explanation
Indices: 496618--496670 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
496608 ATTAGCAAAT
* *
496618 ATATATTTTCTTAA-AAATTATAAAA
1 ATATATTAT-TTAATAAATTAAAAAA
496643 ATATATTATTTAATAAATTAAAAAA
1 ATATATTATTTAATAAATTAAAAAA
496668 ATA
1 ATA
496671 CACACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATATTATTTAATAAATTAAAAAA
Found at i:504616 original size:20 final size:21
Alignment explanation
Indices: 504587--504626 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
504577 GCACAGCATA
504587 AAAAAATAA-CAAAACTGAAT
1 AAAAAATAACCAAAACTGAAT
* *
504607 AAAAAGTAACCAAATCTGAA
1 AAAAAATAACCAAAACTGAA
504627 ATAGAATCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAAATAACCAAAACTGAAT
Found at i:506706 original size:12 final size:12
Alignment explanation
Indices: 506689--506720 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
506679 TTGCTGGTGT
506689 TGCACCTCAGCC
1 TGCACCTCAGCC
506701 TGCACCTCAGCC
1 TGCACCTCAGCC
506713 TGCACCTC
1 TGCACCTC
506721 CCGCTAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.50, G:0.16, T:0.19
Consensus pattern (12 bp):
TGCACCTCAGCC
Found at i:507240 original size:18 final size:18
Alignment explanation
Indices: 507219--507263 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
507209 GATTGTTGAT
507219 ATGGTAGA-AAGAGCCAAA
1 ATGGTAGAGAA-AGCCAAA
*
507237 ATGGTAGAGCAAGCCAAA
1 ATGGTAGAGAAAGCCAAA
507255 ATGGTAGAG
1 ATGGTAGAG
507264 TAAACAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.44, C:0.11, G:0.31, T:0.13
Consensus pattern (18 bp):
ATGGTAGAGAAAGCCAAA
Found at i:514075 original size:23 final size:24
Alignment explanation
Indices: 514045--514096 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
514035 AAGAAGGAAC
* *
514045 AAAAAGGAA-AAAATTAATAAAAG
1 AAAAAGGAAGAAAATTAAAAAAAA
*
514068 AAAAAGGAAGGAAATTAAAAAAAA
1 AAAAAGGAAGAAAATTAAAAAAAA
514092 AAAAA
1 AAAAA
514097 AGGCTACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (24 bp):
AAAAAGGAAGAAAATTAAAAAAAA
Found at i:520683 original size:19 final size:20
Alignment explanation
Indices: 520659--520701 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
520649 ACATGTCAAC
520659 ATTT-AAGTAATTTTTTAAA
1 ATTTAAAGTAATTTTTTAAA
* *
520678 ATTTAAAGTATTTTTTTATA
1 ATTTAAAGTAATTTTTTAAA
520698 ATTT
1 ATTT
520702 TATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTAAAGTAATTTTTTAAA
Found at i:527813 original size:17 final size:17
Alignment explanation
Indices: 527782--527829 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
527772 CTGGGCCCAA
* * *
527782 TAAATTTAAACTTATTT
1 TAAAATTAAATTTATCT
*
527799 TAAAATTAAGTTTATCT
1 TAAAATTAAATTTATCT
*
527816 TAAATTTAAATTTA
1 TAAAATTAAATTTA
527830 AAATTCATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAAATTAAATTTATCT
Found at i:533557 original size:17 final size:17
Alignment explanation
Indices: 533526--533573 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
533516 CTGGGCCCAA
* * *
533526 TAAATTTAAACTTATTT
1 TAAAATTAAATTTATCT
*
533543 TAAAATTAAGTTTATCT
1 TAAAATTAAATTTATCT
*
533560 TAAATTTAAATTTA
1 TAAAATTAAATTTA
533574 AAATTCATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAAATTAAATTTATCT
Found at i:535450 original size:30 final size:28
Alignment explanation
Indices: 535078--535440 Score: 230
Period size: 29 Copynumber: 12.3 Consensus size: 28
535068 CCCTAGAGGT
* * *
535078 CCCCGAAACTTCCAAAAATTCTATTTTTAC
1 CCCCG-AA-TTCCAAAAATCCCATTTTTAA
**
535108 CCCCGAACTTCCAAAAATTTCATTTTTAA
1 CCCCGAA-TTCCAAAAATCCCATTTTTAA
** * *
535137 CCTCAAAACTTCCAAAAATTCTATTTTT-A
1 CC-CCGAA-TTCCAAAAATCCCATTTTTAA
*
535166 CCCTCGAACTCCCAAAAATCCCATTTTTAA
1 CCC-CGAA-TTCCAAAAATCCCATTTTTAA
*
535196 CCCCGAAACTTCCAAAAATTCCATTTTT-A
1 CCCCG-AA-TTCCAAAAATCCCATTTTTAA
* *
535225 CCCTCGAACTCCCAAAAATCCCATTTTTGA
1 CCC-CGAA-TTCCAAAAATCCCATTTTTAA
* * *
535255 CCCCAAAACTTTCAAAAATTCCATTTTT-A
1 CCCC-GAA-TTCCAAAAATCCCATTTTTAA
* * *
535284 CTCTCGAACTCCCAAAAATCACATTTTTAA
1 C-CCCGAA-TTCCAAAAATCCCATTTTTAA
** *
535314 CCTCAAAACTTCCAAAAATTCCATTTTT-A
1 CC-CCGAA-TTCCAAAAATCCCATTTTTAA
* *
535343 CCCTCGAACTCCTAAAAATCCCATTTTTGA
1 CCC-CGAATTCC-AAAAATCCCATTTTTAA
** * * *
535373 CCCAAAAACTTCAAAAAATTCCATTTTTAC
1 CCC-CGAA-TTCCAAAAATCCCATTTTTAA
*
535403 CCCCGAACTCCAAAAAATCCCATTTTTAA
1 CCCCGAATTCC-AAAAATCCCATTTTTAA
535432 CCCCGAATT
1 CCCCGAATT
535441 TTCCCAAAAT
Statistics
Matches: 267, Mismatches: 51, Indels: 31
0.77 0.15 0.09
Matches are distributed among these distances:
28 7 0.03
29 137 0.51
30 121 0.45
31 2 0.01
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (28 bp):
CCCCGAATTCCAAAAATCCCATTTTTAA
Found at i:535451 original size:59 final size:59
Alignment explanation
Indices: 535078--535435 Score: 536
Period size: 59 Copynumber: 6.1 Consensus size: 59
535068 CCCTAGAGGT
* * * * **
535078 CCCCGAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATTTCATTTTTAA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
* *
535137 CCTCAAAACTTCCAAAAATTCTATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
* *
535196 CCCCGAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTGA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
* * *
535255 CCCCAAAACTTTCAAAAATTCCATTTTTACTCTCGAACTCCCAAAAATCACATTTTTAA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
* * *
535314 CCTCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCTAAAAATCCCATTTTTGA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
* * * *
535373 CCCAAAAACTTCAAAAAATTCCATTTTTACCCCCGAACTCCAAAAAATCCCATTTTTAA
1 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
535432 CCCC
1 CCCC
535436 GAATTTTCCC
Statistics
Matches: 271, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 271 1.00
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (59 bp):
CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTAA
Found at i:547389 original size:37 final size:37
Alignment explanation
Indices: 547330--547477 Score: 118
Period size: 37 Copynumber: 3.7 Consensus size: 37
547320 AAACGGTTGG
*
547330 CTTCCTGATGAGATACTTAGAAGTGGACCAAATTCGT
1 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
* * **
547367 CTTCCTGATGAGATA-TAGAGAAGCGAATTGAAACAAACGACGCGGTT
1 CTTCCTGATGAGATACT-GAGAA--G---TG-GACCAA--ATTC-G-T
547414 GGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
1 --CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
*
547453 CTTCCTGATGAGATACAGAGAAGTG
1 CTTCCTGATGAGATACTGAGAAGTG
547478 AATTGAAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
36 1 0.01
37 43 0.49
39 2 0.02
40 1 0.01
41 2 0.02
42 2 0.02
43 8 0.09
44 2 0.02
45 2 0.02
46 1 0.01
47 2 0.02
49 20 0.23
50 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (37 bp):
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
Found at i:547427 original size:86 final size:86
Alignment explanation
Indices: 547323--547535 Score: 336
Period size: 86 Copynumber: 2.5 Consensus size: 86
547313 AGCAATAAAA
* *
547323 CGGTTGGCTTCCTGATGAGATACTTAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
*
547388 AGCGAATTGAAACAAACGACG
66 AGCGAATTGAAAAAAACGACG
547409 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
*
547474 AGTGAATTGAAAAAAACGACG
66 AGCGAATTGAAAAAAACGACG
*** * **
547495 CGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATT
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATT
547536 AAATCCACGC
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 117 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (86 bp):
CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGAATTGAAAAAAACGACG
Found at i:547763 original size:206 final size:206
Alignment explanation
Indices: 547409--548467 Score: 1636
Period size: 206 Copynumber: 5.1 Consensus size: 206
547399 ACAAACGACG
547409 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* * *
547474 AGTGAATTGAAAAAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATTAAA
66 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
* *
547539 TCCACGCTCGACGTAAGCAAATATTCGAACCCCAGCTTCCTAATGAGACACTGAGAAGCAGGTCG
131 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
547604 AAGCAATAAAA
196 AAGCAATAAAA
* * *
547615 CGGTTGGTTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATATAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* * *
547680 AGCGAATTGAAACAAACGACACGGTCATCTTCCTGATGAGATTCTAAAAAGAAGACCAAATCAAA
66 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
547745 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
131 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
547810 AAGCAATAAAA
196 AAGCAATAAAA
* * *
547821 CTGTTGGCTTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* * * * * *
547886 AGCAAATGGAAATAAACGACACTGTCATCTTCCTGATGAGATTTTGAGAAGAAGACCAAATCAAA
66 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
547951 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
131 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
548016 AAGCAATAAAA
196 AAGCAATAAAA
* * * *
548027 CGGTTGGCTTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAAAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* * *
548092 AGCGAATTAAAATAAACGACGCGGTCATCTTTCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
66 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
* * * * *
548157 TCCACGCTCGATGTAAGCAAATCTTTGAACCCCAGCTTCCTGATGAGACACTGAAAAGCAAGTTG
131 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
*
548222 AAGCAATAAAT
196 AAGCAATAAAA
* * * *
548233 TGGTTAGCTTCCTGATGAGATACTGAAAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGA
1 CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
*
548298 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAAAAGACCAAATCAAA
66 AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
* * ** * ** * * *
548363 CCCACACTCGATATAAGCAAATCTTTGAATACCAGCTTCCTGATGAGACACGGAGAAGCGGGTTG
131 TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
*
548428 AAGCAAT-GAA
196 AAGCAATAAAA
* *
548438 CGGTTAG-TGTCCTAATGAGATACTGAGAAG
1 CGGTTGGCT-TCCTGATGAGATACTGAGAAG
548468 AAGGCCAAGA
Statistics
Matches: 786, Mismatches: 66, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
204 1 0.00
205 26 0.03
206 759 0.97
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (206 bp):
CGGTTGGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAA
TCCACGCTCGACGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCG
AAGCAATAAAA
Found at i:548745 original size:6 final size:6
Alignment explanation
Indices: 548736--548779 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
548726 TAAGTTTATC
548736 TTAAAT TTAAAT TT--AT TTAAAT TT--AT TATAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT TTAAA
548780 ATTCATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
4 7 0.21
5 1 0.03
6 22 0.67
7 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:548769 original size:11 final size:10
Alignment explanation
Indices: 548740--548790 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
548730 TTTATCTTAA
548740 ATTTAAATTT
1 ATTTAAATTT
548750 ATTTAAATTT
1 ATTTAAATTT
548760 ATTATAAATTT
1 ATT-TAAATTT
*
548771 AAATTTAAAATTC
1 --ATTT-AAATTT
548784 ATTTAAA
1 ATTTAAA
548791 AAAATGTCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 16 0.44
11 11 0.31
12 1 0.03
13 8 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:548787 original size:17 final size:17
Alignment explanation
Indices: 548704--548790 Score: 61
Period size: 17 Copynumber: 5.2 Consensus size: 17
548694 TGGGCCCAAC
* *
548704 AAATTTAAACTTATTTT
1 AAATTTAAAATTAATTT
* * *
548721 AAAATT-AAGTTTATCTT
1 AAATTTAAAATTAAT-TT
*
548738 AAATTT-AAATTTATTT
1 AAATTTAAAATTAATTT
** *
548754 AAATTTATTATAAATTT
1 AAATTTAAAATTAATTT
*
548771 AAATTTAAAATTCATTT
1 AAATTTAAAATTAATTT
548788 AAA
1 AAA
548791 AAAATGTCCA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
16 13 0.24
17 41 0.76
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (17 bp):
AAATTTAAAATTAATTT
Found at i:548822 original size:14 final size:15
Alignment explanation
Indices: 548791--548824 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
548781 TTCATTTAAA
*
548791 AAAATGTCCAGGTAC
1 AAAATGTCCAGATAC
548806 AAAATGTCCA-ATAC
1 AAAATGTCCAGATAC
548820 AAAAT
1 AAAAT
548825 TACAAAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (15 bp):
AAAATGTCCAGATAC
Found at i:550320 original size:29 final size:29
Alignment explanation
Indices: 550284--550461 Score: 216
Period size: 29 Copynumber: 6.1 Consensus size: 29
550274 AGGTCCCCAA
**
550284 AACTTCCAAAAATTTCATTTTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTACCCCCG
*
550313 AACTTCCAAAAATCCCATTTTTGA-CCTCG
1 AACTTCCAAAAATCCCATTTTT-ACCCCCG
* *
550342 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATCCCATTTTTACCCCCG
* *
550372 AACTCCCAAAAATCCCATTTTTGA-CTCCG
1 AACTTCCAAAAATCCCATTTTT-ACCCCCG
*
550401 AAACTTCCAAAAATTCCATTTTTACCCCCG
1 -AACTTCCAAAAATCCCATTTTTACCCCCG
* *
550431 AACTCCCAAAAATCCCATTTTTAACCCCG
1 AACTTCCAAAAATCCCATTTTTACCCCCG
550460 AA
1 AA
550462 TTTTCCCAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
29 77 0.60
30 52 0.40
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (29 bp):
AACTTCCAAAAATCCCATTTTTACCCCCG
Found at i:550474 original size:59 final size:59
Alignment explanation
Indices: 550278--550461 Score: 305
Period size: 59 Copynumber: 3.1 Consensus size: 59
550268 CCCTGGAGGT
* * *
550278 CCCCAAAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTGA
* *
550337 CCTCGAAACTTCCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTGA
* *
550396 CTCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTGA
550455 CCCCGAA
1 CCCCGAA
550462 TTTTCCCAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 115 1.00
ACGTcount: A:0.33, C:0.34, G:0.04, T:0.29
Consensus pattern (59 bp):
CCCCGAAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTGA
Found at i:550499 original size:118 final size:118
Alignment explanation
Indices: 550283--550500 Score: 305
Period size: 118 Copynumber: 1.8 Consensus size: 118
550273 GAGGTCCCCA
* * * *
550283 AAACTTCCAAAAATTTCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTT
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTAACCCCGAAACTT
* * *
550348 CCAAAAATTCCATTTTTACCCTCGAACTCCCAAAAATCCCATTTTTGACTCCG
66 CCAAAAATTCCATCTTCACCCTCGAAATCCCAAAAATCCCATTTTTGACTCCG
**
550401 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTAACCCCGAATTTT
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTAACCCCGAAACTT
* *
550466 CCCAAAATTAC-TACTTCACCCTCGAGAAT-CCAAAA
66 CCAAAAATTCCAT-CTTCACCCTCGA-AATCCCAAAA
550501 TTACCGTTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 84 0.97
119 2 0.02
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (118 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATCCCATTTTTAACCCCGAAACTT
CCAAAAATTCCATCTTCACCCTCGAAATCCCAAAAATCCCATTTTTGACTCCG
Found at i:552184 original size:24 final size:24
Alignment explanation
Indices: 552155--552218 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
552145 AGAAATAATT
552155 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAATTAAACTCTTTTTATTTG
* *
552179 TTTCAATTAAATTCTATTTATTTG
1 TTTCAATTAAACTCTTTTTATTTG
*
552203 TTT-GATTCAAACTCTT
1 TTTCAATT-AAACTCTT
552219 ATTAGTCTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 3 0.09
24 31 0.91
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTTTTTATTTG
Found at i:552920 original size:19 final size:18
Alignment explanation
Indices: 552869--552922 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
552859 ATTGCTAATG
* *
552869 TATTAAATAATAAAAGTAT
1 TATTAAATAATAATA-TAA
552888 TATTAAAT-ATAATATAA
1 TATTAAATAATAATATAA
552905 TATTAAAATAATAATATA
1 TATT-AAATAATAATATA
552923 GTAAACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATTAAATAATAATATAA
Found at i:556660 original size:11 final size:11
Alignment explanation
Indices: 556644--556674 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
556634 CATTTCTGAT
556644 GTGGCGATGAC
1 GTGGCGATGAC
556655 GTGGCGATGAC
1 GTGGCGATGAC
556666 GTGGCGATG
1 GTGGCGATG
556675 CTGATATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.48, T:0.19
Consensus pattern (11 bp):
GTGGCGATGAC
Found at i:557847 original size:16 final size:16
Alignment explanation
Indices: 557828--557871 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
557818 AAACACCAGA
557828 CAAAACACAAACCACC
1 CAAAACACAAACCACC
557844 CAAAACACAAACCACC
1 CAAAACACAAACCACC
557860 CAAAACA-AAACC
1 CAAAACACAAACC
557872 GACAAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAACACAAACCACC
Found at i:562398 original size:21 final size:21
Alignment explanation
Indices: 562354--562404 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
562344 TTTGACAGTT
*
562354 CTACCGATACAAGTGAGACAA
1 CTACCGATACAAGTCAGACAA
* * *
562375 CTATCGATACAAGTCATACTA
1 CTACCGATACAAGTCAGACAA
562396 CTACCGATA
1 CTACCGATA
562405 TTAAAAACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (21 bp):
CTACCGATACAAGTCAGACAA
Found at i:563144 original size:35 final size:36
Alignment explanation
Indices: 563073--563166 Score: 113
Period size: 35 Copynumber: 2.6 Consensus size: 36
563063 TATTCGTTTA
*
563073 CTCCCTGTTGACCTTAAA-GTCATTATGCTCATTTTT
1 CTCCCTATTGA-CTTAAAGGTCATTATGCTCATTTTT
563109 C-CCCTTATTGACTTAAAGGTCATTATGCTCA-TTTT
1 CTCCC-TATTGACTTAAAGGTCATTATGCTCATTTTT
* **
563144 CTCCCTGTTGACCCAAAGGTCAT
1 CTCCCTATTGACTTAAAGGTCAT
563167 GTTTGTTACC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 29 0.57
36 22 0.43
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (36 bp):
CTCCCTATTGACTTAAAGGTCATTATGCTCATTTTT
Found at i:583252 original size:21 final size:21
Alignment explanation
Indices: 583226--583265 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
583216 CTGTAGTGCA
583226 GATGAAGAT-GAAGATGAAGAT
1 GATGAA-ATCGAAGATGAAGAT
*
583247 GATGAAATCGAAGCTGAAG
1 GATGAAATCGAAGATGAAG
583266 TCGAGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.45, C:0.05, G:0.33, T:0.17
Consensus pattern (21 bp):
GATGAAATCGAAGATGAAGAT
Found at i:588280 original size:96 final size:96
Alignment explanation
Indices: 588116--588311 Score: 392
Period size: 96 Copynumber: 2.0 Consensus size: 96
588106 AACATTAAAG
588116 TTCAATCGCATTGAAACATCTAATATCCGGAAGATACCATACAAAACAGGTTAGATACTAGGAAA
1 TTCAATCGCATTGAAACATCTAATATCCGGAAGATACCATACAAAACAGGTTAGATACTAGGAAA
588181 TCTGAACAATGTTTTGGGTAATTCGTTGATT
66 TCTGAACAATGTTTTGGGTAATTCGTTGATT
588212 TTCAATCGCATTGAAACATCTAATATCCGGAAGATACCATACAAAACAGGTTAGATACTAGGAAA
1 TTCAATCGCATTGAAACATCTAATATCCGGAAGATACCATACAAAACAGGTTAGATACTAGGAAA
588277 TCTGAACAATGTTTTGGGTAATTCGTTGATT
66 TCTGAACAATGTTTTGGGTAATTCGTTGATT
588308 TTCA
1 TTCA
588312 GCAGCAGAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 100 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (96 bp):
TTCAATCGCATTGAAACATCTAATATCCGGAAGATACCATACAAAACAGGTTAGATACTAGGAAA
TCTGAACAATGTTTTGGGTAATTCGTTGATT
Found at i:591745 original size:27 final size:28
Alignment explanation
Indices: 591712--591777 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
591702 GCGATCACTC
591712 AATTAAATATCA-ATTTAGTTTAAAATT
1 AATTAAATATCATATTTAGTTTAAAATT
* * *
591739 AATTAAAAAT-ATTTTTATTTTAAAATT
1 AATTAAATATCATATTTAGTTTAAAATT
*
591766 AA-CAAATATCAT
1 AATTAAATATCAT
591778 TAAAAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTAAATATCATATTTAGTTTAAAATT
Found at i:595548 original size:19 final size:19
Alignment explanation
Indices: 595526--595564 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
595516 AAAATAATAG
595526 AATTTAATTTAAGAGAAGA
1 AATTTAATTTAAGAGAAGA
* *
595545 AATTTGATTTATGAGAAGA
1 AATTTAATTTAAGAGAAGA
595564 A
1 A
595565 CATATTCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (19 bp):
AATTTAATTTAAGAGAAGA
Found at i:596840 original size:31 final size:32
Alignment explanation
Indices: 596800--596859 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
596790 AAGTTTTGAG
**
596800 GGATCCAATT-AAAAATTTCAAATTTTTAGAA
1 GGATCCAATTCAAAAATTAAAAATTTTTAGAA
*
596831 GGATTCAATTCAAAAATTAAAAATTTTTA
1 GGATCCAATTCAAAAATTAAAAATTTTTA
596860 AAGAGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (32 bp):
GGATCCAATTCAAAAATTAAAAATTTTTAGAA
Found at i:606169 original size:14 final size:14
Alignment explanation
Indices: 606150--606182 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
606140 AAAACGACGT
*
606150 AGTTTTGTCTTTTA
1 AGTTTTGACTTTTA
606164 AGTTTTGACTTTTA
1 AGTTTTGACTTTTA
606178 A-TTTT
1 AGTTTT
606183 AAAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (14 bp):
AGTTTTGACTTTTA
Found at i:613188 original size:13 final size:14
Alignment explanation
Indices: 613170--613205 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
613160 TTTTTTTATT
613170 AAAAATTATTTT-A
1 AAAAATTATTTTCA
613183 AAAAATTATTTTCGA
1 AAAAATTATTTTC-A
613198 AAAAATTA
1 AAAAATTA
613206 ATTGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
AAAAATTATTTTCA
Found at i:615258 original size:16 final size:16
Alignment explanation
Indices: 615237--615272 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
615227 CTGAATGGAA
*
615237 ATGGGAGTGCATTACG
1 ATGGGAGCGCATTACG
615253 ATGGGAGCGCATTACG
1 ATGGGAGCGCATTACG
615269 ATGG
1 ATGG
615273 ATTTTGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.22
Consensus pattern (16 bp):
ATGGGAGCGCATTACG
Done.