Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 2 of 30
Found at i:385478 original size:32 final size:29
Alignment explanation
Indices: 385442--385515 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 29
385432 AAANATTTTT
385442 TATTTTAATAGTATTGAATAATTAAATATTAA
1 TATTTTAATA-TATT-AATAATT-AATATTAA
385474 TA-TTT--TAT-TT-ATAATTAATATTAA
1 TATTTTAATATATTAATAATTAATATTAA
385498 TATTTTAATATATTAATA
1 TATTTTAATATATTAATA
385516 TTTTATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
24 10 0.27
25 9 0.24
27 5 0.14
28 3 0.08
29 5 0.14
31 3 0.08
32 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TATTTTAATATATTAATAATTAATATTAA
Found at i:386167 original size:21 final size:21
Alignment explanation
Indices: 386139--386200 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
386129 TTTGAAATGT
386139 GAACCTAGGTGGTTTCC-GGG
1 GAACCTAGGTGGTTTCCAGGG
* *
386159 GTTACCTAGGTGGTTTCCATGG
1 G-AACCTAGGTGGTTTCCAGGG
*
386181 GAACCTAGGTGGTATCCAGG
1 GAACCTAGGTGGTTTCCAGG
386201 CGTGAACGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 31 0.89
22 3 0.09
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.27
Consensus pattern (21 bp):
GAACCTAGGTGGTTTCCAGGG
Found at i:389937 original size:42 final size:41
Alignment explanation
Indices: 389884--390025 Score: 212
Period size: 42 Copynumber: 3.4 Consensus size: 41
389874 TGTTGATTTG
389884 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
389926 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
* * *
389968 GACCCGACTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
*
390010 GACCCGGCTATATGCG
1 GACCC-GCTATGTGCG
390026 CATAAGCCGT
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
41 1 0.01
42 89 0.97
43 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (41 bp):
GACCCGCTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCT
Found at i:390869 original size:212 final size:211
Alignment explanation
Indices: 390496--390919 Score: 803
Period size: 212 Copynumber: 2.0 Consensus size: 211
390486 ACAATGTGAA
*
390496 TATGTGTATGCAATGTAAATTACTAAATACATGACTGGTATAGTGCATGTATATTATTATCGATA
1 TATGTATATGCAATGTAAATTACTAAATACATGACTGGTATAGTGCATGTATATTATTATCGATA
390561 ATGCCATTGTGTTTTGGCTATGTTCACACCCGGGAAAAGGTGTGTGTGTATGCATGATATGATAA
66 ATGCCATTGTGTTTTGGCTATGTTCACACCCGGGAAAAGGTGTGTGTGTATGCATGATATGATAA
*
390626 ATTTGTTAAGCAAAGGTAAATGGATAGGCTTGCTTGGGCTTAGTGAGCTATGCTCATTGAGCTCA
131 ATTTGTTAAGCAAAGGTAAATGGATAGGCTTGCTTGGGCTTAGTGAGATATGCTCATTGAGCTCA
*
390691 TGCGCCGGTCATGGCC
196 TGCGCCGATCATGGCC
*
390707 NTATGTATATGCAATGTAAATTGCTAAATACATGACTGGTATAGTGCATGTATATTATTATCGAT
1 -TATGTATATGCAATGTAAATTACTAAATACATGACTGGTATAGTGCATGTATATTATTATCGAT
390772 AATGCCATTGTGTTTTGGCTATGTTCACACCCGGGAAAAGGTGTGTGTGTATGCATGATATGATA
65 AATGCCATTGTGTTTTGGCTATGTTCACACCCGGGAAAAGGTGTGTGTGTATGCATGATATGATA
390837 AATTTGTTAAGCAAAGGTAAATGGATAGGCTTGCTTGGGCTTAGTGAGATATGCTCATTGAGCTC
130 AATTTGTTAAGCAAAGGTAAATGGATAGGCTTGCTTGGGCTTAGTGAGATATGCTCATTGAGCTC
390902 ATGCGCCGATCATGGCC
195 ATGCGCCGATCATGGCC
390919 T
1 T
390920 GGGAAATTGG
Statistics
Matches: 208, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
211 1 0.00
212 207 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (211 bp):
TATGTATATGCAATGTAAATTACTAAATACATGACTGGTATAGTGCATGTATATTATTATCGATA
ATGCCATTGTGTTTTGGCTATGTTCACACCCGGGAAAAGGTGTGTGTGTATGCATGATATGATAA
ATTTGTTAAGCAAAGGTAAATGGATAGGCTTGCTTGGGCTTAGTGAGATATGCTCATTGAGCTCA
TGCGCCGATCATGGCC
Found at i:391526 original size:73 final size:73
Alignment explanation
Indices: 391388--391560 Score: 188
Period size: 73 Copynumber: 2.4 Consensus size: 73
391378 GATAAAGAAG
* * * * * * **
391388 ACTTAGTCGACCAAGATGTAAGTTAGTCAACTAAGAGCTTACTGCTAGAAATCTGGATTTCAAGA
1 ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAGAAAACTGGATCACAAGA
*
391453 CAAAAACC
66 CAAAAACA
* *
391461 ACTTAATCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCA-AAAACTGGGATCAGAAG
1 ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAGAAAACT-GGATCACAAG
* *
391525 ACAGAGACA
65 ACAAAAACA
* *
391534 ACTTAGTCGACTAA-AGGGCAGTTAGTC
1 ACTTAGTCGACTAAGAAGGAAGTTAGTC
391561 GACAAAGATT
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
72 16 0.19
73 67 0.81
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (73 bp):
ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCTCACTGCCAGAAAACTGGATCACAAGA
CAAAAACA
Found at i:506078 original size:32 final size:32
Alignment explanation
Indices: 506037--506109 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
506027 AAAATTTACT
*
506037 AATTTCTATGTATTACTTCAAGAACTAAGCTA
1 AATTACTATGTATTACTTCAAGAACTAAGCTA
506069 AATTACTATGTATTACTTCAAGAACTAAGCTA
1 AATTACTATGTATTACTTCAAGAACTAAGCTA
506101 AATTACTAT
1 AATTACTAT
506110 CAAAATTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (32 bp):
AATTACTATGTATTACTTCAAGAACTAAGCTA
Found at i:506192 original size:28 final size:30
Alignment explanation
Indices: 506161--506220 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
506151 AAACATGGTG
* *
506161 TGTAACAACTTTTTTTTTCA-ACATG-ACT
1 TGTAACAACATTTTTTTTAACACATGCACT
**
506189 TGTAGTAACATTTTTTTTAACACATGCACT
1 TGTAACAACATTTTTTTTAACACATGCACT
506219 TG
1 TG
506221 AATATGATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 16 0.62
29 5 0.19
30 5 0.19
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (30 bp):
TGTAACAACATTTTTTTTAACACATGCACT
Found at i:507069 original size:41 final size:39
Alignment explanation
Indices: 506981--507070 Score: 92
Period size: 41 Copynumber: 2.3 Consensus size: 39
506971 AGACAAGAAA
* *
506981 AAAGG-AGAAGAAAAAGGAGGGCTGGTCAAGAGAAATAG
1 AAAGGAAGAAAAAAAAGGAGGGCTGGTCAAGACAAATAG
* * * *
507019 AAGGAGAAGAAAAAAAAGGGGGGGTCGGTCAATACAAATAG
1 AAAG-GAAGAAAAAAAAGGAGGGCT-GGTCAAGACAAATAG
507060 TAAAGGAAGAA
1 -AAAGGAAGAA
507071 TGAAAGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
38 3 0.07
39 1 0.02
40 15 0.37
41 19 0.46
42 3 0.07
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (39 bp):
AAAGGAAGAAAAAAAAGGAGGGCTGGTCAAGACAAATAG
Found at i:508278 original size:60 final size:60
Alignment explanation
Indices: 508113--508293 Score: 211
Period size: 60 Copynumber: 3.0 Consensus size: 60
508103 TTTGATTGTA
* * * * *
508113 AAAGGGGAACTTGAAGCCCCGATTCATATTGGGTGGCGTGGGCAATTCCCACGAGTAGGGA
1 AAAGGGGGACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCACAAGTA-GGT
*** * * *
508174 AAAAATGGACCTAAAGCCCCGATTTATATTGGGTGACGTGGGCAGTTCCCACAAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCACAAGTAGGT
* * *
508234 AAAGGGGGACTTGAAGCCTCGATTTGTATAT-GGTGGCGTGGGCAGTTCCCACTAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATAT-TGGGTGGCGTGGGCAGTTCCCACAAGTAGGT
508294 GATGATGTCT
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
60 51 0.52
61 48 0.48
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (60 bp):
AAAGGGGGACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGCAGTTCCCACAAGTAGGT
Found at i:515658 original size:20 final size:20
Alignment explanation
Indices: 515633--515678 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
515623 CTTCTGAACC
515633 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
515653 TCAAATTATACTCCAATGAG
1 TCAAATCATACTCCAATAAG
515673 TCAAAT
1 TCAAAT
515679 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:519873 original size:15 final size:15
Alignment explanation
Indices: 519853--519894 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
519843 TAAAACAACC
519853 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
519868 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
519883 TTAAAATCAAAA
1 TTAAAATCAAAA
519895 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:523804 original size:2 final size:2
Alignment explanation
Indices: 523797--523874 Score: 129
Period size: 2 Copynumber: 39.0 Consensus size: 2
523787 NNNNNNNNNN
* *
523797 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT AT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
523839 GT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
523875 ATATATATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.01, C:0.46, G:0.01, T:0.51
Consensus pattern (2 bp):
CT
Found at i:523879 original size:2 final size:2
Alignment explanation
Indices: 523874--523925 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
523864 TCTCTCTCTC
* *
523874 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
523916 TA TA TA TA TA
1 TA TA TA TA TA
523926 CATAATGGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:525250 original size:31 final size:31
Alignment explanation
Indices: 524853--525236 Score: 543
Period size: 31 Copynumber: 12.4 Consensus size: 31
524843 CACGACATTG
* * *
524853 GTTATACGCATGGTGTGTTATAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * *
524884 ATTATATGCATGGCGTGTTACCACATTTTCC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
524915 GTTATATGCATGGCGTGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
524946 GCTATATGCATGGCGTCTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
524977 GCTATATGCATGGCATGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * *
525008 ATTATATGCATGGCATGTTACAACATTTTAT
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
525039 GTTATATGCATGGCGTGTTACAACATTTAAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * *
525070 GTTATATGCATGGCATGTTACCACATTTTAT
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * * *
525101 TTTATATGCATGGTGTGTTACCACATTTTCC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
525132 ATTATATGCATGGCGTGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
525163 GCTATATGCATGGCATGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
525194 ATTATATGCATGGCGTGTTACAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
525225 GTTATATGCATG
1 GTTATATGCATG
525237 ACATGTAATA
Statistics
Matches: 313, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 313 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (31 bp):
GTTATATGCATGGCGTGTTACAACATTTTAC
Found at i:525579 original size:31 final size:31
Alignment explanation
Indices: 525544--525606 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
525534 GTCGATTAAA
*
525544 ACCTTGAACTAGTCCAAATAGAGACTTTAGG
1 ACCTTGAACAAGTCCAAATAGAGACTTTAGG
525575 ACCTTGAACAAGTCCAAATAGAGACTTTAGG
1 ACCTTGAACAAGTCCAAATAGAGACTTTAGG
525606 A
1 A
525607 TGTATTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (31 bp):
ACCTTGAACAAGTCCAAATAGAGACTTTAGG
Found at i:535160 original size:15 final size:14
Alignment explanation
Indices: 535140--535187 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
535130 AAGCACTTTT
535140 ATTTATATTTATATA
1 ATTTATATTTAT-TA
* *
535155 ATTTATATGTCATGA
1 ATTTATAT-TTATTA
535170 ATTTATATTT-TTA
1 ATTTATATTTATTA
535183 ATTTA
1 ATTTA
535188 AAATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 7 0.25
14 1 0.04
15 17 0.61
16 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (14 bp):
ATTTATATTTATTA
Found at i:535731 original size:33 final size:33
Alignment explanation
Indices: 535689--535753 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
535679 CTAAATGAAG
535689 ATAGATTTTGTGAAATTAGATGGAATCTAGGAT
1 ATAGATTTTGTGAAATTAGATGGAATCTAGGAT
535722 ATAGATTTTGTGAAATTAGATGGAATCTAGGA
1 ATAGATTTTGTGAAATTAGATGGAATCTAGGA
535754 ATGATTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (33 bp):
ATAGATTTTGTGAAATTAGATGGAATCTAGGAT
Found at i:539382 original size:31 final size:31
Alignment explanation
Indices: 539347--539422 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
539337 GATTCTTGTG
539347 GTGACACGCTGACTGCAA-GTAGACTTATGGC
1 GTGACACGCTGACTG-AATGTAGACTTATGGC
* *
539378 GTGACACGTTG-CGTGAATGTAGACTTATGGT
1 GTGACACGCTGAC-TGAATGTAGACTTATGGC
539409 GTGACACGCTGACT
1 GTGACACGCTGACT
539423 TGTTGCAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.08
31 35 0.90
32 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (31 bp):
GTGACACGCTGACTGAATGTAGACTTATGGC
Found at i:539501 original size:86 final size:86
Alignment explanation
Indices: 539390--539678 Score: 389
Period size: 86 Copynumber: 3.4 Consensus size: 86
539380 GACACGTTGC
* ** *
539390 GTGAATGTAGACTTATGGTGTGACACGCTGACTTGTTGCAGTCTTGTGGGGGGACACAGCACGGC
1 GTGAATGCAGACTTATGGCATGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACAGCACGGC
*
539455 CCAATTGTGTTGACATGCTGA
66 CCAATTGTGGTGACATGCTGA
* * * *
539476 GTGAATGCAGACTTCTGGCATGACACGCTGACTTGTTACAATCTTGTGGGGTGACACGGCACGGC
1 GTGAATGCAGACTTATGGCATGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACAGCACGGC
*
539541 CCAATTGTGGTGACATGCTAA
66 CCAATTGTGGTGACATGCTGA
* * * * * **
539562 GTGAATGTAGACTTCTAGCATGACACGCTGACTTATTGCAGTCTTGTGGGGTGACACAACATAGC
1 GTGAATGCAGACTTATGGCATGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACAGCACGGC
* *
539627 CCAATTATGGTGACACGCTGA
66 CCAATTGTGGTGACATGCTGA
* *
539648 GTGCATGCAAACTTATGGCATGACACGCTGA
1 GTGAATGCAGACTTATGGCATGACACGCTGA
539679 GTGCATGCAA
Statistics
Matches: 176, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 176 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (86 bp):
GTGAATGCAGACTTATGGCATGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACAGCACGGC
CCAATTGTGGTGACATGCTGA
Found at i:539673 original size:31 final size:31
Alignment explanation
Indices: 539637--539709 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
539627 CCAATTATGG
539637 TGACACGCTGAGTGCATGCAAACTTATGGCA
1 TGACACGCTGAGTGCATGCAAACTTATGGCA
539668 TGACACGCTGAGTGCATGCAAACTTATGGCA
1 TGACACGCTGAGTGCATGCAAACTTATGGCA
539699 TGACACGCTGA
1 TGACACGCTGA
539710 CTTGTTATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (31 bp):
TGACACGCTGAGTGCATGCAAACTTATGGCA
Found at i:539700 original size:203 final size:201
Alignment explanation
Indices: 539465--539876 Score: 529
Period size: 203 Copynumber: 2.0 Consensus size: 201
539455 CCAATTGTGT
* * *
539465 TGACATGCTGAGTGAATGCAGACTTCTGGCATGACACGCTGACTTGTTACAATCTTGTGGGGTGA
1 TGACACGCTGAGTGAATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCTTGTGGGGTGA
* * * * *
539530 CACGGCACGGCCCAATTGTGGTGACATGCTAAGTGAATGTAGACTTCTAGCATGACACGCTGACT
66 CACGACACGGCCCAATTGTGGTGACACGATAAGTGAATGCAGACTTATAGCATGACACGCTGACT
* *
539595 TATTGCAGTCTTGTGGGGTGACACAACATAG-CCCAATTATGGTGACACGCTGAGTGCATGCAAA
131 TATTGCAATCATGTGGGGTGACACAACA-AGACCCAATTATGGTGACACGCTGAGTGCATGCAAA
539659 CTTATGGCA
195 C-T-TGGCA
* * *
539668 TGACACGCTGAGTGCATGCAAACTTATGGCATGACACGCTGACTTGTTATAGTCTTGTGGGGTGA
1 TGACACGCTGAGTGAATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCTTGTGGGGTGA
* * * * * * *
539733 CACGACAGGGGCCAATTGTGGTGACACGATGAGTGCATGCAGACTTATGGCTTGACATGCTGACT
66 CACGACACGGCCCAATTGTGGTGACACGATAAGTGAATGCAGACTTATAGCATGACACGCTGACT
* * ** * * * *
539798 TGTTGCAATCATGTTGGGTGACACGGCACGACCCAATTGTGGTGACACGTTTAGTGCATGCAAAC
131 TATTGCAATCATGTGGGGTGACACAACAAGACCCAATTATGGTGACACGCTGAGTGCATGCAAAC
*
539863 TTGGCG
196 TTGGCA
539869 TGACACGC
1 TGACACGC
539877 CAAATTGTTG
Statistics
Matches: 179, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
201 12 0.07
202 2 0.01
203 165 0.92
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (201 bp):
TGACACGCTGAGTGAATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCTTGTGGGGTGA
CACGACACGGCCCAATTGTGGTGACACGATAAGTGAATGCAGACTTATAGCATGACACGCTGACT
TATTGCAATCATGTGGGGTGACACAACAAGACCCAATTATGGTGACACGCTGAGTGCATGCAAAC
TTGGCA
Found at i:539781 original size:86 final size:86
Alignment explanation
Indices: 539668--539876 Score: 260
Period size: 86 Copynumber: 2.5 Consensus size: 86
539658 ACTTATGGCA
* * * *
539668 TGACACGCTGAGTGCATGCAAACTTATGGCATGACACGCTGACTTGTTATAGTCTTGTGGGGTGA
1 TGACACGATGAGTGCATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCATGTGGGGTGA
* **
539733 CACGACAGGGGCCAATTGTGG
66 CACGACACGACCCAATTGTGG
* * * * *
539754 TGACACGATGAGTGCATGCAGACTTATGGCTTGACATGCTGACTTGTTGCAATCATGTTGGGTGA
1 TGACACGATGAGTGCATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCATGTGGGGTGA
*
539819 CACGGCACGACCCAATTGTGG
66 CACGACACGACCCAATTGTGG
* * *
539840 TGACACGTTTAGTGCATGCAAAC-T-TGGCGTGACACGC
1 TGACACGATGAGTGCATGCAAACTTATGGCATGACACGC
539877 CAAATTGTTG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 11 0.10
85 1 0.01
86 93 0.89
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (86 bp):
TGACACGATGAGTGCATGCAAACTTATGGCATGACACGCTGACTTGTTACAATCATGTGGGGTGA
CACGACACGACCCAATTGTGG
Found at i:539822 original size:117 final size:117
Alignment explanation
Indices: 539579--539795 Score: 326
Period size: 117 Copynumber: 1.9 Consensus size: 117
539569 TAGACTTCTA
* *
539579 GCATGACACGCTGACTTATTGCAGTCTTGTGGGGTGACACAACATAGCCCAATTATGGTGACACG
1 GCATGACACGCTGACTTATTACAGTCTTGTGGGGTGACACAACAGAGCCCAATTATGGTGACACG
*
539644 CTGAGTGCATGCAAACTTATGGCATGACACGCTGAGTGCATGCAAACTTATG
66 ATGAGTGCATGCAAACTTATGGCATGACACGCTGAGTGCATGCAAACTTATG
* * * * * *
539696 GCATGACACGCTGACTTGTTATAGTCTTGTGGGGTGACACGACAGGGGCCAATTGTGGTGACACG
1 GCATGACACGCTGACTTATTACAGTCTTGTGGGGTGACACAACAGAGCCCAATTATGGTGACACG
* * *
539761 ATGAGTGCATGCAGACTTATGGCTTGACATGCTGA
66 ATGAGTGCATGCAAACTTATGGCATGACACGCTGA
539796 CTTGTTGCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 88 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (117 bp):
GCATGACACGCTGACTTATTACAGTCTTGTGGGGTGACACAACAGAGCCCAATTATGGTGACACG
ATGAGTGCATGCAAACTTATGGCATGACACGCTGAGTGCATGCAAACTTATG
Found at i:543814 original size:55 final size:54
Alignment explanation
Indices: 543726--543992 Score: 327
Period size: 55 Copynumber: 4.9 Consensus size: 54
543716 TTACACCAAC
** * * *
543726 GCCGTGACACATTAAAAAACCCAAAAACTAGTTAACCCACAACATGTCAGGAACA
1 GCCGTGACACA-CCAAAAACCCAAAAACCAGTTAACCCACAACACGCCAGGAACA
* * * *
543781 ACTGTGACACACCAAAAACCTAAAAAACCAGTTAACCCACAACACGCCAGAAACA
1 GCCGTGACACACCAAAAACC-CAAAAACCAGTTAACCCACAACACGCCAGGAACA
* *
543836 GCCGTGACACACCAAAAACCCATAAATCCAATTAACCCACAACACGCCAGGAACA
1 GCCGTGACACACCAAAAACCCA-AAAACCAGTTAACCCACAACACGCCAGGAACA
* * * * * *
543891 GCCGTGACACGCTAAAAACTCAAAAACTAGTTAACCCACAACACACCAAGAACA
1 GCCGTGACACACCAAAAACCCAAAAACCAGTTAACCCACAACACGCCAGGAACA
* * *
543945 GCCGTGACACGCTAAAAACCCAAAAACCAGTTAACTCACAACACGCCA
1 GCCGTGACACACCAAAAACCCAAAAACCAGTTAACCCACAACACGCCA
543993 TATGCAGACA
Statistics
Matches: 183, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
54 79 0.43
55 104 0.57
ACGTcount: A:0.45, C:0.33, G:0.11, T:0.11
Consensus pattern (54 bp):
GCCGTGACACACCAAAAACCCAAAAACCAGTTAACCCACAACACGCCAGGAACA
Found at i:544617 original size:104 final size:103
Alignment explanation
Indices: 544492--545107 Score: 486
Period size: 104 Copynumber: 5.9 Consensus size: 103
544482 ACACGTCTGA
* ** * *
544492 CCATGGCGTGTCCCACACTCTAAACGTTGTTGTGTCACACCTGTCCCACATATTCTCACAGTGTT
1 CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACCTGT-CCACATATTCTCACCGTGTC
* * *
544557 GTCTCACACATTTTCACCCTGGCGTGTTACAAATTCCCT
65 GTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
* * * * * *
544596 CCATGGCAG-GTCACACACTCTAAACCTTACTGTGTCACACCCATGT-CACACATTATCACTGTG
1 CCATGGC-GTGTCACACACTCTAAACGTTGCCGTGTCACA-CC-TGTCCACATATTCTCACCGTG
* * * ** ****
544659 TCGTTTCACACATTATGACCCTGCCATGTCACACGTTTTGA
63 TCGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
* * * * *
544700 CCATGGCGTGTCACATACTCTAAACGTTGCCATGTCACACCCGTCTCACATGTTCTCACCGTGCC
1 CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACCTGTC-CACATATTCTCACCGTGTC
* * * *
544765 GTCTCACACATTATCATCTTGTCATGTCACAAATTCCCT
65 GTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
* ** ** * * *
544804 CCATGGCGTGTCATACACTCTAAACCCTATCGTGTCACACCCATGT-CACACATTATCACTGTGT
1 CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACA-CC-TGTCCACATATTCTCACCGTGT
* * * * ***
544868 CGTTTCACACATTATGACCCTGTCGTGTCACACATTCTGA
64 CGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
* * * * * *
544908 CCATGGCGTGCCACACACTCTAAATGCTGCCATGTCACACCCGTCTCACATATTCGCACCGTG-C
1 CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACCTGTC-CACATATTCTCACCGTGTC
* *
544972 TGTCTCACACGTTATCACCCTGCCGTGTCACAGATTCCCT
65 -GTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
* ** * * * * ** *
545012 CTATGGCGTGTCACACACTCTAAACCCTGTCGTGACACACCCATGT-CACACATTATCATTGTGC
1 CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACA-CC-TGTCCACATATTCTCACCGTGT
* * *
545076 CGTTTCACACATTATAACCCTCCCGTGTCACA
64 CGTCTCACACATTATCACCCTGCCGTGTCACA
545108 CGTCTGAGCA
Statistics
Matches: 397, Mismatches: 101, Indels: 28
0.75 0.19 0.05
Matches are distributed among these distances:
102 4 0.01
103 6 0.02
104 372 0.94
105 8 0.02
106 7 0.02
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.29
Consensus pattern (103 bp):
CCATGGCGTGTCACACACTCTAAACGTTGCCGTGTCACACCTGTCCACATATTCTCACCGTGTCG
TCTCACACATTATCACCCTGCCGTGTCACAAATTCCCT
Found at i:544690 original size:23 final size:23
Alignment explanation
Indices: 544636--544701 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
544626 TGTGTCACAC
* **
544636 CCATGTCACACATTATCACTGTG
1 CCATGTCACACATTATGACCCTG
* * *
544659 TCGTTTCACACATTATGACCCTG
1 CCATGTCACACATTATGACCCTG
* *
544682 CCATGTCACACGTTTTGACC
1 CCATGTCACACATTATGACC
544702 ATGGCGTGTC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.32
Consensus pattern (23 bp):
CCATGTCACACATTATGACCCTG
Found at i:544847 original size:208 final size:207
Alignment explanation
Indices: 544477--545130 Score: 916
Period size: 208 Copynumber: 3.1 Consensus size: 207
544467 AAGCCATGCA
* *** * *
544477 GTGTCACACGTCTGACCATGGCGTGTCCCACACTCTAAACGTTGTTGTGTCACACCTGTCCCACA
1 GTGTCACACGTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCATGTCACACCCGTCTCACA
* * * * *
544542 TATTCTCACAGTGTTGTCTCACACATTTTCACCCTGGCGTGTTACAAATTCCCTCCATGGCAG-G
66 TATTCTCACCGTGCTGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCTCCATGGC-GTG
*
544606 TCACACACTCTAAACCTTA-CTGTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACAC
130 TCACACACTCTAAACCCTATC-GTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACAC
544670 ATTATGACCCTGCC
194 ATTATGACCCTGCC
* * *
544684 ATGTCACACGTTTTGACCATGGCGTGTCACATACTCTAAACGTTGCCATGTCACACCCGTCTCAC
1 GTGTCACACG-TCTGACCATGGCGTGTCACACACTCTAAACGTTGCCATGTCACACCCGTCTCAC
* * * * * *
544749 ATGTTCTCACCGTGCCGTCTCACACATTATCATCTTGTCATGTCACAAATTCCCTCCATGGCGTG
65 ATATTCTCACCGTGCTGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCTCCATGGCGTG
*
544814 TCATACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACACA
130 TCACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACACA
*
544879 TTATGACCCTGTC
195 TTATGACCCTGCC
* * * *
544892 GTGTCACACATTCTGACCATGGCGTGCCACACACTCTAAATGCTGCCATGTCACACCCGTCTCAC
1 GTGTCACAC-GTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCATGTCACACCCGTCTCAC
* * * *
544957 ATATTCGCACCGTGCTGTCTCACACGTTATCACCCTGCCGTGTCACAGATTCCCTCTATGGCGTG
65 ATATTCTCACCGTGCTGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCTCCATGGCGTG
* * * *
545022 TCACACACTCTAAACCCTGTCGTGACACACCCATGTCACACATTATCATTGTGCCGTTTCACACA
130 TCACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACACA
* *
545087 TTATAACCCTCCC
195 TTATGACCCTGCC
*
545100 GTGTCACACGTCTGAGCATGGCGTGTCACAC
1 GTGTCACACGTCTGACCATGGCGTGTCACAC
545131 CCCTGTCACA
Statistics
Matches: 393, Mismatches: 50, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
207 29 0.07
208 363 0.92
209 1 0.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.28
Consensus pattern (207 bp):
GTGTCACACGTCTGACCATGGCGTGTCACACACTCTAAACGTTGCCATGTCACACCCGTCTCACA
TATTCTCACCGTGCTGTCTCACACATTATCACCCTGCCGTGTCACAAATTCCCTCCATGGCGTGT
CACACACTCTAAACCCTATCGTGTCACACCCATGTCACACATTATCACTGTGTCGTTTCACACAT
TATGACCCTGCC
Found at i:544908 original size:23 final size:23
Alignment explanation
Indices: 544847--544924 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
544837 GTCACACCCA
* **
544847 TGTCACACATTATCACTGTGTCG
1 TGTCACACATTATGACCATGTCG
* *
544870 TTTCACACATTATGACCCTGTCG
1 TGTCACACATTATGACCATGTCG
* *
544893 TGTCACACATTCTGACCATGGCG
1 TGTCACACATTATGACCATGTCG
*
544916 TGCCACACA
1 TGTCACACA
544925 CTCTAAATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (23 bp):
TGTCACACATTATGACCATGTCG
Found at i:545164 original size:23 final size:23
Alignment explanation
Indices: 545137--545235 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
545127 ACACCCCTGT
* * *
545137 CACATTCTCACCGTGTCGTATCA
1 CACATTCTCACCCTGACGTGTCA
*
545160 CACATTATCACCCTGACGTGTCA
1 CACATTCTCACCCTGACGTGTCA
* * *
545183 CACACTCTAAACCCT-ATCGTCTCA
1 CACATTCT-CACCCTGA-CGTGTCA
* *
545207 CATATTCTCACCATGACGTGTCA
1 CACATTCTCACCCTGACGTGTCA
545230 CACATT
1 CACATT
545236 GCCACCATGC
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
23 41 0.69
24 18 0.31
ACGTcount: A:0.26, C:0.35, G:0.10, T:0.28
Consensus pattern (23 bp):
CACATTCTCACCCTGACGTGTCA
Found at i:545278 original size:70 final size:70
Alignment explanation
Indices: 545140--545278 Score: 152
Period size: 70 Copynumber: 2.0 Consensus size: 70
545130 CCCCTGTCAC
* * * * * * * *
545140 ATTCTCACCGTGTCGTATCACACATTATCACCCTGACGTGTCACACACTCTAAACCCTATCGTCT
1 ATTCTCACCATGACGTATCACACATTACCACCATGACATGTCACAAACTCTAAACCCTACCATCT
545205 CACAT
66 CACAT
* * * * * *
545210 ATTCTCACCATGACGTGTCACACATTGCCACCATGCCATGTCACAAACTCTATACCCTGCCATGT
1 ATTCTCACCATGACGTATCACACATTACCACCATGACATGTCACAAACTCTAAACCCTACCATCT
545275 CACA
66 CACA
545279 CCCGTCTCAA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.36, G:0.11, T:0.27
Consensus pattern (70 bp):
ATTCTCACCATGACGTATCACACATTACCACCATGACATGTCACAAACTCTAAACCCTACCATCT
CACAT
Found at i:545317 original size:23 final size:23
Alignment explanation
Indices: 545291--545347 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
545281 CGTCTCAAAT
545291 ATTCTCACCATGACATGTCACAC
1 ATTCTCACCATGACATGTCACAC
* * *
545314 ATTCCCACCATGTCGTGTCACAC
1 ATTCTCACCATGACATGTCACAC
545337 ATTCTCACCAT
1 ATTCTCACCAT
545348 TCTGTTTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.37, G:0.09, T:0.28
Consensus pattern (23 bp):
ATTCTCACCATGACATGTCACAC
Found at i:560411 original size:21 final size:22
Alignment explanation
Indices: 560363--560403 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
560353 ACTAAAAGGG
560363 AAAGA-AG-AATGAAATATATA
1 AAAGAGAGAAATGAAATATATA
560383 AAAGAGAGAAATGAAA-ATATA
1 AAAGAGAGAAATGAAATATATA
560404 CAGAAGAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AAAGAGAGAAATGAAATATATA
Found at i:581357 original size:29 final size:29
Alignment explanation
Indices: 581299--581357 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
581289 TACATATTAA
* **
581299 TATATAATATATAATATTATTTTTAAATT
1 TATATAAAATATAATATTACATTTAAATT
581328 TATATAAAATATAATA-TACATTTAATATT
1 TATATAAAATATAATATTACATTTAA-ATT
581357 T
1 T
581358 TCAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TATATAAAATATAATATTACATTTAAATT
Found at i:582874 original size:42 final size:42
Alignment explanation
Indices: 582828--582911 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
582818 CAGTTCATAT
**** *
582828 GCACTCCCACTAGCACATGGTTGGGTCATCATCGGCTTATGC
1 GCACTCCCACTAGCACATAACCGGGTCAGCATCGGCTTATGC
** *
582870 GCACTCTTACTCGCACATAACCGGGTCAGCATCGGCTTATGC
1 GCACTCCCACTAGCACATAACCGGGTCAGCATCGGCTTATGC
582912 ACTCTTCTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (42 bp):
GCACTCCCACTAGCACATAACCGGGTCAGCATCGGCTTATGC
Found at i:582923 original size:42 final size:41
Alignment explanation
Indices: 582850--582939 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 41
582840 GCACATGGTT
*
582850 GGGTCATCATCGGCTTATGCGCACTCTTACTCGCACATAACC
1 GGGTCAGCATCGGCTTAT-CGCACTCTTACTCGCACATAACC
* *
582892 GGGTCAGCATCGGCTTAT-GCACTCTTCTACTCGCACATAGCT
1 GGGTCAGCATCGGCTTATCGCACTC-T-TACTCGCACATAACC
582934 GGGTCA
1 GGGTCA
582940 ATAACATTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 6 0.14
41 1 0.02
42 36 0.84
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (41 bp):
GGGTCAGCATCGGCTTATCGCACTCTTACTCGCACATAACC
Found at i:584693 original size:35 final size:35
Alignment explanation
Indices: 584642--584721 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
584632 CAGCTTTAGC
*
584642 TACTGATTTTGAAGGCTGGAAA-GTGA-AGTTTTGGT
1 TACTAATTTTGAAGGCT-GAAATGTGAGA-TTTTGGT
* *
584677 TGCTAATTTTGAAGGCTGAAATGTGCGATTTTGGT
1 TACTAATTTTGAAGGCTGAAATGTGAGATTTTGGT
584712 TACTAATTTT
1 TACTAATTTT
584722 TGTAGCTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.10
35 34 0.87
36 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.41
Consensus pattern (35 bp):
TACTAATTTTGAAGGCTGAAATGTGAGATTTTGGT
Found at i:584798 original size:33 final size:32
Alignment explanation
Indices: 584749--584813 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
584739 ATTTTTTTAG
* * *
584749 GGAGAATAGAGTAGCTTAGTTGCTGATTTTGA
1 GGAGAATAGAGCAGCTTAGCTACTGATTTTGA
*
584781 GGAGAAATAGAGCAGCTTGGCTACTGATTTTGA
1 GGAG-AATAGAGCAGCTTAGCTACTGATTTTGA
584814 TGTGTATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (32 bp):
GGAGAATAGAGCAGCTTAGCTACTGATTTTGA
Found at i:585003 original size:5 final size:5
Alignment explanation
Indices: 584983--585035 Score: 63
Period size: 5 Copynumber: 10.2 Consensus size: 5
584973 GAAGAGGAAG
*
584983 AGAAA GAGAGAA AGAAA AGAAA AGCAA AGAAA A-AAA GAGAAA AGAAA
1 AGAAA -AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA -AGAAA AGAAA
585030 AGAAA A
1 AGAAA A
585036 ATATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
4 3 0.07
5 28 0.67
6 9 0.21
7 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:586745 original size:19 final size:19
Alignment explanation
Indices: 586723--586760 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
586713 CCATTTAACT
*
586723 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
586742 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
586761 GGTTTCGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:588279 original size:13 final size:13
Alignment explanation
Indices: 588261--588285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588251 AGAGAAATTG
588261 TGATTTTATAAAA
1 TGATTTTATAAAA
588274 TGATTTTATAAA
1 TGATTTTATAAA
588286 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:589484 original size:15 final size:15
Alignment explanation
Indices: 589464--589510 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
589454 GTGGTATCAG
589464 AGCTTTTGATTTTAA
1 AGCTTTTGATTTTAA
*
589479 AGCTTTGGATTTTAA
1 AGCTTTTGATTTTAA
* *
589494 AGGTTTTGGTTTTAA
1 AGCTTTTGATTTTAA
589509 AG
1 AG
589511 TTGTTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (15 bp):
AGCTTTTGATTTTAA
Found at i:594683 original size:13 final size:13
Alignment explanation
Indices: 594665--594689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
594655 AGAGAAATTG
594665 TGATTTTATAAAA
1 TGATTTTATAAAA
594678 TGATTTTATAAA
1 TGATTTTATAAA
594690 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:596951 original size:19 final size:19
Alignment explanation
Indices: 596924--596965 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
596914 AGGAGACAAG
596924 ATAAAATTTT-TAGAATAAA
1 ATAAAATTTTAT-GAATAAA
* *
596943 ATAATATTTTATTAATAAA
1 ATAAAATTTTATGAATAAA
596962 ATAA
1 ATAA
596966 CATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAAAATTTTATGAATAAA
Found at i:598129 original size:4 final size:4
Alignment explanation
Indices: 598120--598173 Score: 63
Period size: 4 Copynumber: 12.2 Consensus size: 4
598110 GCTGGACGGT
598120 GAAA GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA G-AAA G-AAA G-AAA
598169 GAAA G
1 GAAA G
598174 TAATAAGGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 25 0.51
5 24 0.49
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:598151 original size:5 final size:5
Alignment explanation
Indices: 598121--598172 Score: 69
Period size: 5 Copynumber: 11.4 Consensus size: 5
598111 CTGGACGGTG
598121 AAAG- AAAG- AAAG- AAAG- AAAG- AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
598166 AAAGA AA
1 AAAGA AA
598173 GTAATAAGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 20 0.43
5 27 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:598213 original size:27 final size:27
Alignment explanation
Indices: 598182--598257 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
598172 AGTAATAAGG
598182 AAGGAAAATGGGCATGACCCAACAAGA
1 AAGGAAAATGGGCATGACCCAACAAGA
*
598209 AAGGAAAATGGGCATGGCCCAACAAGA
1 AAGGAAAATGGGCATGACCCAACAAGA
*
598236 AAGAAAAATGGGCATGACCCAA
1 AAGGAAAATGGGCATGACCCAA
598258 TGGAAATAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.47, C:0.18, G:0.26, T:0.08
Consensus pattern (27 bp):
AAGGAAAATGGGCATGACCCAACAAGA
Found at i:600417 original size:5 final size:5
Alignment explanation
Indices: 600378--600413 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
600368 AGTGTGGCCC
* *
600378 AAGTT AAGTC AAGTT AAGTT AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
600414 GGTTGAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (5 bp):
AAGTT
Found at i:603784 original size:19 final size:20
Alignment explanation
Indices: 603757--603802 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
603747 AGGAGACAAG
*
603757 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
603776 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
603795 ATAATATT
1 ATAATATT
603803 AAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:610485 original size:15 final size:14
Alignment explanation
Indices: 610462--610491 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
610452 TTCATTGTTA
610462 AATTAAATTTTCTT
1 AATTAAATTTTCTT
610476 AATTATAATTTTCTT
1 AATTA-AATTTTCTT
610491 A
1 A
610492 TTGAATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTAAATTTTCTT
Found at i:614374 original size:2 final size:2
Alignment explanation
Indices: 614367--614503 Score: 189
Period size: 2 Copynumber: 71.5 Consensus size: 2
614357 AGCATTAGCA
614367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
614409 AT -T AT -T AT AT AT AT AT AT A- AT A- AT A- AT A- AGT AG NT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
614446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
614488 TT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
614504 AACAATTAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
1 7 0.06
2 113 0.93
3 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:615863 original size:63 final size:63
Alignment explanation
Indices: 615762--615884 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
615752 GCTCATCTTT
* *
615762 CTCTCTCAGCTCTCTGAACTGTATCAACTCTGTGAACTCTCAATTAAGCACCATCGTCATTAG
1 CTCTCTCAGCTCTCTGAACTGTATCAACTCTGTCAACTCTCAATTAAGCACCATCATCATTAG
* * * ** *
615825 CTCTCTCAGCTCTCTGAATTGTATGAGCTCTGTCAACTCTCTGTTGAGCACCATCATCAT
1 CTCTCTCAGCTCTCTGAACTGTATCAACTCTGTCAACTCTCAATTAAGCACCATCATCAT
615885 CATGCTGTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (63 bp):
CTCTCTCAGCTCTCTGAACTGTATCAACTCTGTCAACTCTCAATTAAGCACCATCATCATTAG
Found at i:616207 original size:23 final size:23
Alignment explanation
Indices: 616116--616250 Score: 114
Period size: 22 Copynumber: 5.9 Consensus size: 23
616106 ATGTGTTAGC
* * *
616116 ACATGGCGTGTAGCATTTTTATTTA
1 ACATGGCGTGTAACA-ATTT-TTGA
616141 ACATGGCGTGTAACAATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* *
616164 AC-TTGCGTGTAGC-ATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* *
616185 ACAAGGCATGTAACAATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* * * * *
616208 GC-TAGCGTGTAACACTTTCTAA
1 ACATGGCGTGTAACAATTTTTGA
*
616230 ACATGGCGTGTAACATTTTTT
1 ACATGGCGTGTAACAATTTTT
616251 TAAAAATAGC
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
21 10 0.11
22 31 0.36
23 29 0.33
24 3 0.03
25 14 0.16
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (23 bp):
ACATGGCGTGTAACAATTTTTGA
Found at i:616207 original size:44 final size:45
Alignment explanation
Indices: 616121--616250 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
616111 TTAGCACATG
* *
616121 GCGTGTAGCATTTTTATTTAACATGGCGTGTAACAATTTTTGAACTT
1 GCGTGTAGCA-TTTT-TTAAACATGGCGTGTAACAATTTTTGAACTA
* * * *
616168 GCGTGTAGCA-TTTTTGAACAAGGCATGTAACAATTTTTGAGCTA
1 GCGTGTAGCATTTTTTAAACATGGCGTGTAACAATTTTTGAACTA
* * * *
616212 GCGTGTAACACTTTCTAAACATGGCGTGTAACATTTTTT
1 GCGTGTAGCATTTTTTAAACATGGCGTGTAACAATTTTT
616251 TAAAAATAGC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
44 35 0.49
45 26 0.37
47 10 0.14
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (45 bp):
GCGTGTAGCATTTTTTAAACATGGCGTGTAACAATTTTTGAACTA
Found at i:616291 original size:24 final size:24
Alignment explanation
Indices: 616212--616292 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
616202 TTTTGAGCTA
* * *
616212 GCGTGTAACA-CTTTCTAAACATG
1 GCGTGTAACATTTTTTTAAAAATG
*
616235 GCGTGTAACATTTTTTTAAAAATA
1 GCGTGTAACATTTTTTTAAAAATG
**
616259 GCGCATAACATTTTTTTAAAAATG
1 GCGTGTAACATTTTTTTAAAAATG
*
616283 GTGTGTAACA
1 GCGTGTAACA
616293 ACATGACTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 10 0.21
24 37 0.79
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (24 bp):
GCGTGTAACATTTTTTTAAAAATG
Found at i:619785 original size:2 final size:2
Alignment explanation
Indices: 619778--619802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
619768 TATAATGTTG
619778 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
619803 CTATGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:619956 original size:38 final size:39
Alignment explanation
Indices: 619914--620015 Score: 134
Period size: 38 Copynumber: 2.6 Consensus size: 39
619904 ATATTGCTCG
* * *
619914 TGTGCACGATGTGGGGGGATGTACGCGATGGCACTAAC-
1 TGTGCACGATGTGGGGGGATGCACGCGATGACACCAACA
* * *
619952 TGTGCACGATGTGGGGGGATGCATGCGATGACTCCGACTA
1 TGTGCACGATGTGGGGGGATGCACGCGATGACACCAAC-A
619992 TGTGCACGATGTGGGGGGATGCAC
1 TGTGCACGATGTGGGGGGATGCAC
620016 ATGAGCTAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 32 0.58
40 23 0.42
ACGTcount: A:0.20, C:0.19, G:0.40, T:0.22
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACGCGATGACACCAACA
Found at i:622314 original size:22 final size:23
Alignment explanation
Indices: 622267--622315 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
622257 TAGAATATGT
622267 AAATTAATTTATAACTTTTAGAA
1 AAATTAATTTATAACTTTTAGAA
* * *
622290 AAATTAATTTATCATTTTTACAA
1 AAATTAATTTATAACTTTTAGAA
622313 AAA
1 AAA
622316 AATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTAATTTATAACTTTTAGAA
Found at i:622650 original size:117 final size:117
Alignment explanation
Indices: 622443--622660 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
622433 GAATATGTTT
* * *
622443 ATTTATGGCGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTG
1 ATTTATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTG
622508 TGACACGCTGAGTGGTAACAGATTGATGGCGTGACATGGTGAGTGCAAGTAG
66 TGACACGCTGAGTGGTAACAGATTGATGGCGTGACATGGTGAGTGCAAGTAG
* * * * *
622560 ATTTATGGCATGACGCACTGACTTCTTGCAGTATTGTGGGGTGACATGCCATGCGCTAATTGTTG
1 ATTTATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTG
* * *
622625 TGACACGTTGAGTGGTAGCATATTGATGGCGTGACA
66 TGACACGCTGAGTGGTAACAGATTGATGGCGTGACA
622661 CGGTATGTCA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 90 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (117 bp):
ATTTATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTG
TGACACGCTGAGTGGTAACAGATTGATGGCGTGACATGGTGAGTGCAAGTAG
Found at i:623935 original size:37 final size:37
Alignment explanation
Indices: 623881--623999 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
623871 CATATACATA
* *
623881 CATCGTCATCATGTGTGCACTCCCTACTCACACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
* *
623918 TATTATCATCATGTGTGCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
623955 CATCATCATCATGTGTGCACTCCCTACTCGCACACTT
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
623992 CAACATCA
1 CATCATCA
624000 CCACCCAACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.24, C:0.38, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:625363 original size:31 final size:31
Alignment explanation
Indices: 625328--625400 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 31
625318 CCAATTGTTG
** *
625328 TGACACATTGAGTGGTAGTAGATTGATGGCA
1 TGACACATTGAGTGCAAGCAGATTGATGGCA
** * **
625359 TGACACGGTGAGTGCAAGCAGATTTATGGTG
1 TGACACATTGAGTGCAAGCAGATTGATGGCA
625390 TGACACATTGA
1 TGACACATTGA
625401 CTTGTTGCAG
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (31 bp):
TGACACATTGAGTGCAAGCAGATTGATGGCA
Found at i:625468 original size:117 final size:117
Alignment explanation
Indices: 625252--626066 Score: 1078
Period size: 117 Copynumber: 7.0 Consensus size: 117
625242 CTCACACGTA
* * * * * *
625252 AGTGTAAGCAGATTTATGGCGTGACATGCTAACTTGTT-CTAGTATTGTGGGGTGACACACCATG
1 AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGC-AGTATTGTGGGGTGACACGCCACG
* * *
625316 CCCCAATTGTTGTGACACATTGAGTGGTAGTAGATTGATGGCATGACACGGTG
65 CCCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
** * * *
625369 AGTGCAAGCAGATTTATGGTGTGACACATTGACTTGTTGCAGTATTGTAGAGTGACACGCCATGC
1 AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
*
625434 CCCAATTGTTGTGATACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
66 CCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
* * *
625486 AATGCAAGCAGATTTATGGTGTGACACGTTGACTTGTTGCAGTATTGTGGGGTGACACGCCAAGC
1 AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
* * ** **
625551 CCCAATTGTTGTGACACGCTGAGTGGTAGTAGATTGATGGCACGACACTATG
66 CCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
** * * *
625603 AGTGCAAGCAGATTTATGGCT-TGACACATTGACTTGTTGTAGTATTGTAGGGTGACACGCCATG
1 AGTGCAAGCAGATTTATGG-TGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACG
* * * *
625667 CCTCAATTGTTGTGATACACTGGGTGGTAGCAGATTGATGGCGTGACATGGTG
65 CCCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
* * ** * *
625720 AGTGCATGTAGATTTATGGCATGACACGCTGACTTGTTGCAGTATTATGGGGTGACACGCCACAC
1 AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
* ** *
625785 CCTAATTGTTGTGACACGTTGAGTGGTAGCAGATTGATGGTGTGACACGGTG
66 CCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
* *
625837 AGTGCAAACAGATTTATGGCGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
1 AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
* * *
625902 CTCAATTGTTGTGACAGACTGAGTGGTAGCAAATTGATGGCGTGACACGGTG
66 CCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
* * * *
625954 AGTGCATGTAGATTTAT-GTCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACG
1 AGTGCAAGCAGATTTATGGT-GTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACG
* ** *
626018 CCCTAATTGTTGTGACACGTTGAGTGGTAGTAGATTGATGGCGTGACAC
65 CCCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACAC
626067 ATTGACTTCT
Statistics
Matches: 610, Mismatches: 84, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
116 1 0.00
117 607 1.00
118 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (117 bp):
AGTGCAAGCAGATTTATGGTGTGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGC
CCCAATTGTTGTGACACACTGAGTGGTAGCAGATTGATGGCGTGACACGGTG
Found at i:625829 original size:31 final size:31
Alignment explanation
Indices: 625794--625896 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
625784 CCCTAATTGT
*
625794 TGTGACACGTTGAGTGGTAGCAGATTGATGG
1 TGTGACACGCTGAGTGGTAGCAGATTGATGG
* ** * *
625825 TGTGACACGGTGAGTGCAAACAGATTTATGG
1 TGTGACACGCTGAGTGGTAGCAGATTGATGG
* * * *
625856 CGTGACACGCTGACTTGTTGCAGTATTG-TGG
1 TGTGACACGCTGAGTGGTAGCAG-ATTGATGG
*
625887 GGTGACACGC
1 TGTGACACGC
625897 CACGCCTCAA
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
31 53 0.95
32 3 0.05
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (31 bp):
TGTGACACGCTGAGTGGTAGCAGATTGATGG
Found at i:625894 original size:62 final size:62
Alignment explanation
Indices: 625795--626011 Score: 143
Period size: 62 Copynumber: 3.6 Consensus size: 62
625785 CCTAATTGTT
* * *
625795 GTGACACGTTGAGTGGTAGCAG-ATTGATGGTGTGACACGGTGAGTGCAAACAGATTTATGGC
1 GTGACACGCTGACTGGTAGCAGTATTGATGGGGTGACACGGTGAGTGCAAACAGATTTAT-GC
* * ** * **
625857 GTGACACGCTGACTTGTTGCAGTATTG-TGGGGTGACAC-GCCA-CGC-CTCA-ATTGT-T--
1 GTGACACGCTGACTGGTAGCAGTATTGATGGGGTGACACGGTGAGTGCAAACAGATT-TATGC
* * * ***
625912 GTGACA-GACTGAGTGGTAGCA-AATTGATGGCGTGACACGGTGAGTGCATGTAGATTTATGTC
1 GTGACACG-CTGACTGGTAGCAGTATTGATGGGGTGACACGGTGAGTGCAAACAGATTTATG-C
* * *
625974 ATGACACGCTGACTTGTTGCAGTATTG-TGGGGTGACAC
1 GTGACACGCTGACTGGTAGCAGTATTGATGGGGTGACAC
626012 ACCACGCCCT
Statistics
Matches: 114, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
54 5 0.04
55 26 0.23
56 2 0.02
57 2 0.02
58 6 0.05
59 7 0.06
60 2 0.02
61 2 0.02
62 53 0.46
63 9 0.08
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (62 bp):
GTGACACGCTGACTGGTAGCAGTATTGATGGGGTGACACGGTGAGTGCAAACAGATTTATGC
Found at i:626033 original size:86 final size:86
Alignment explanation
Indices: 625943--626129 Score: 241
Period size: 86 Copynumber: 2.2 Consensus size: 86
625933 AATTGATGGC
* * * * *
625943 GTGACACGGTGAGTGCAT-GTAGATTTATGTCATGACACGCTGACTTGTTGCAGTATTGTGGGGT
1 GTGACACGCTGAGTG-ATAGTAGATTGATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGT
*
626007 GACACACCACGCCCTAATTGTT
65 GACACACCACGCCCCAATTGTT
* * * *
626029 GTGACACGTTGAGTGGTAGTAGATTGATGGCGTGACACATTGACTTCTTGCAGTATTGTGGGGTG
1 GTGACACGCTGAGTGATAGTAGATTGATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGTG
* *
626094 ACACGCCATGCCCCAATTGTT
66 ACACACCACGCCCCAATTGTT
*
626115 GTGACATGCTGAGTG
1 GTGACACGCTGAGTG
626130 GTACAAGATT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 1 0.01
86 86 0.99
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (86 bp):
GTGACACGCTGAGTGATAGTAGATTGATGGCATGACACACTGACTTCTTGCAGTATTGTGGGGTG
ACACACCACGCCCCAATTGTT
Found at i:626099 original size:234 final size:234
Alignment explanation
Indices: 625261--626066 Score: 1209
Period size: 234 Copynumber: 3.4 Consensus size: 234
625251 AAGTGTAAGC
* * * *
625261 AGATTTATGGCGTGACATGCTAACTTGTT-CTAGTATTGTGGGGTGACACACCATGCCCCAATTG
1 AGATTTATGGCATGACACGCTGACTTGTTGC-AGTATTGTGGGGTGACACACCACGCCCCAATTG
* *
625325 TTGTGACACATTGAGTGGTAGTAGATTGATGGCATGACACGGTGAGTGCAAGCAGATTTATGGTG
65 TTGTGACACGTTGAGTGGTAGTAGATTGATGGCATGACACGGTGAGTGCAAGCAGATTTATGGCG
* * *
625390 TGACACATTGACTTGTTGCAGTATTGTAGAGTGACACGCCATGCCCCAATTGTTGTGATACACTG
130 TGACACACTGACTTGTTGCAGTATTGTAGGGTGACACGCCATGCCTCAATTGTTGTGATACACTG
* * *
625455 AGTGGTAGCAGATTGATGGCGTGACACGGTGAATGCAAGC
195 AGTGGTAGCAGATTGATGGCGTGACACGGTGAGTGCATGT
** * * *
625495 AGATTTATGGTGTGACACGTTGACTTGTTGCAGTATTGTGGGGTGACACGCCAAGCCCCAATTGT
1 AGATTTATGGCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACGCCCCAATTGT
* * ** *
625560 TGTGACACGCTGAGTGGTAGTAGATTGATGGCACGACACTATGAGTGCAAGCAGATTTATGGCTT
66 TGTGACACGTTGAGTGGTAGTAGATTGATGGCATGACACGGTGAGTGCAAGCAGATTTATGGCGT
* * *
625625 GACACATTGACTTGTTGTAGTATTGTAGGGTGACACGCCATGCCTCAATTGTTGTGATACACTGG
131 GACACACTGACTTGTTGCAGTATTGTAGGGTGACACGCCATGCCTCAATTGTTGTGATACACTGA
*
625690 GTGGTAGCAGATTGATGGCGTGACATGGTGAGTGCATGT
196 GTGGTAGCAGATTGATGGCGTGACACGGTGAGTGCATGT
* * * *
625729 AGATTTATGGCATGACACGCTGACTTGTTGCAGTATTATGGGGTGACACGCCACACCCTAATTGT
1 AGATTTATGGCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACGCCCCAATTGT
* ** *
625794 TGTGACACGTTGAGTGGTAGCAGATTGATGGTGTGACACGGTGAGTGCAAACAGATTTATGGCGT
66 TGTGACACGTTGAGTGGTAGTAGATTGATGGCATGACACGGTGAGTGCAAGCAGATTTATGGCGT
* * * * *
625859 GACACGCTGACTTGTTGCAGTATTGTGGGGTGACACGCCACGCCTCAATTGTTGTGACAGACTGA
131 GACACACTGACTTGTTGCAGTATTGTAGGGTGACACGCCATGCCTCAATTGTTGTGATACACTGA
*
625924 GTGGTAGCAAATTGATGGCGTGACACGGTGAGTGCATGT
196 GTGGTAGCAGATTGATGGCGTGACACGGTGAGTGCATGT
* *
625963 AGATTTATGTCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACGCCCTAATTGT
1 AGATTTATGGCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACGCCCCAATTGT
*
626028 TGTGACACGTTGAGTGGTAGTAGATTGATGGCGTGACAC
66 TGTGACACGTTGAGTGGTAGTAGATTGATGGCATGACAC
626067 ATTGACTTCT
Statistics
Matches: 518, Mismatches: 53, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
234 517 1.00
235 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (234 bp):
AGATTTATGGCATGACACGCTGACTTGTTGCAGTATTGTGGGGTGACACACCACGCCCCAATTGT
TGTGACACGTTGAGTGGTAGTAGATTGATGGCATGACACGGTGAGTGCAAGCAGATTTATGGCGT
GACACACTGACTTGTTGCAGTATTGTAGGGTGACACGCCATGCCTCAATTGTTGTGATACACTGA
GTGGTAGCAGATTGATGGCGTGACACGGTGAGTGCATGT
Found at i:629231 original size:118 final size:118
Alignment explanation
Indices: 629023--629258 Score: 456
Period size: 118 Copynumber: 2.0 Consensus size: 118
629013 GGGCTTTCCA
629023 AGTATGCAAGCATATTGTCAATCACATAAAAGACATGGCAAGTACTTTATAAGGTCGAGTTTGAC
1 AGTATGCAAGCATATTGTCAATCACATAAAAGACATGGCAAGTACTTTATAAGGTCGAGTTTGAC
629088 AGCACTACCCCTTTAAAATAAAA-TTTGACCTCAAAATTTCATTTACTGAACT
66 AGCACTACCCCTTTAAAATAAAATTTTGACCTCAAAATTTCATTTACTGAACT
629140 NAGTATGCAAGCATATTGTCAATCACATAAAAGACATGGCAAGTACTTTATAAGGTCGAGTTTGA
1 -AGTATGCAAGCATATTGTCAATCACATAAAAGACATGGCAAGTACTTTATAAGGTCGAGTTTGA
629205 CAGCACTACCCCTTTAAAATAAAATTTTGACCTCAAAATTTCATTTACTGAACT
65 CAGCACTACCCCTTTAAAATAAAATTTTGACCTCAAAATTTCATTTACTGAACT
629259 CAGAGAAAAG
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 88 0.75
119 29 0.25
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (118 bp):
AGTATGCAAGCATATTGTCAATCACATAAAAGACATGGCAAGTACTTTATAAGGTCGAGTTTGAC
AGCACTACCCCTTTAAAATAAAATTTTGACCTCAAAATTTCATTTACTGAACT
Found at i:640060 original size:31 final size:31
Alignment explanation
Indices: 640025--640092 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
640015 CCCAATTGTT
**
640025 GTGACATGCTAAGTGGTAGCAGATTGATGGC
1 GTGACATGCTAAGTGCAAGCAGATTGATGGC
* * * *
640056 GTGACATGGTGAGTGCAAGCAGATTTATGGT
1 GTGACATGCTAAGTGCAAGCAGATTGATGGC
640087 GTGACA
1 GTGACA
640093 CACTGACTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.26
Consensus pattern (31 bp):
GTGACATGCTAAGTGCAAGCAGATTGATGGC
Found at i:640135 original size:117 final size:117
Alignment explanation
Indices: 639928--640358 Score: 546
Period size: 117 Copynumber: 3.7 Consensus size: 117
639918 GGGCTTGACA
* * * ** * * *
639928 AGATTGATGGCTTGACATGATGAGTGCAAGCAAATTTATGGCGTGACAGGCAGACTTGTTGTAGT
1 AGATTGATGGCGTGACATGGTGAGTGCAAGCAGATTTATGGCGTGACACACTGACTTCTTGCAGT
** * * ** * * *
639993 GCTGTGGGGTGATACGCCACACCCCAATTGTTGTGACATGCTAAGTGGTAGC
66 ATTATGGGGTGACACGCCATGCCCCAATTGTTGTGACAAGTTGAGTGGTAGC
*
640045 AGATTGATGGCGTGACATGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAGT
1 AGATTGATGGCGTGACATGGTGAGTGCAAGCAGATTTATGGCGTGACACACTGACTTCTTGCAGT
* *
640110 ATTATGGGGTGACGCGCCATGCCCCAATTG-T-TGACACGTTGAGTGGTAGC
66 ATTATGGGGTGACACGCCATGCCCCAATTGTTGTGACAAGTTGAGTGGTAGC
* *
640160 AGATTGATGGCGTGACATGG-GAAGTGCAAGCTGATTTATGGCATGACACACTGACTTCTTGCAG
1 AGATTGATGGCGTGACATGGTG-AGTGCAAGCAGATTTATGGCGTGACACACTGACTTCTTGCAG
* * *
640224 CATTGTGGGGTGACACGCCATGCCCTAATTGTTGTGACAAGTTGAGTGGTAGC
65 TATTATGGGGTGACACGCCATGCCCCAATTGTTGTGACAAGTTGAGTGGTAGC
* * *
640277 AGGTTGATGGCGTGACACGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAG-
1 AGATTGATGGCGTGACATGGTGAGTGCAAGCAGATTTATGGCGTGACACACTGACTTCTTGCAGT
* *
640341 ATTTATGGCGTGGCACGC
66 A-TTATGGGGTGACACGC
640359 TGACTTCTTG
Statistics
Matches: 274, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
114 1 0.00
115 102 0.37
116 3 0.01
117 167 0.61
118 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (117 bp):
AGATTGATGGCGTGACATGGTGAGTGCAAGCAGATTTATGGCGTGACACACTGACTTCTTGCAGT
ATTATGGGGTGACACGCCATGCCCCAATTGTTGTGACAAGTTGAGTGGTAGC
Found at i:640334 original size:232 final size:232
Alignment explanation
Indices: 639928--640348 Score: 612
Period size: 232 Copynumber: 1.8 Consensus size: 232
639918 GGGCTTGACA
* * * ** * * *
639928 AGATTGATGGCTTGACATGATGAGTGCAAGCAAATTTATGGCGTGACAGGCAGACTTGTTGTAGT
1 AGATTGATGGCGTGACATGAGGAGTGCAAGCAAATTTATGGCATGACACACAGACTTCTTGCAGC
* * *
639993 GCTGTGGGGTGATACGCCACACCCCAATTGTTGTGACATGCTAAGTGGTAGCAGATTGATGGCGT
66 ACTGTGGGGTGACACGCCACACCCCAATTGTTGTGACAAGCTAAGTGGTAGCAGATTGATGGCGT
*
640058 GACATGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAG-TATTATGGGGTGA
131 GACACGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAGAT-TTATGGGGTGA
640122 CGCGCCATGCCCCAATTGTTGACACGTTGAGTGGTAGC
195 CGCGCCATGCCCCAATTGTTGACACGTTGAGTGGTAGC
** *
640160 AGATTGATGGCGTGACATG-GGAAGTGCAAGCTGATTTATGGCATGACACACTGACTTCTTGCAG
1 AGATTGATGGCGTGACATGAGG-AGTGCAAGCAAATTTATGGCATGACACACAGACTTCTTGCAG
* ** * * * *
640224 CATTGTGGGGTGACACGCCATGCCCTAATTGTTGTGACAAGTTGAGTGGTAGCAGGTTGATGGCG
65 CACTGTGGGGTGACACGCCACACCCCAATTGTTGTGACAAGCTAAGTGGTAGCAGATTGATGGCG
640289 TGACACGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAGATTTATGG
130 TGACACGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAGATTTATGG
640349 CGTGGCACGC
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
231 1 0.01
232 163 0.99
233 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (232 bp):
AGATTGATGGCGTGACATGAGGAGTGCAAGCAAATTTATGGCATGACACACAGACTTCTTGCAGC
ACTGTGGGGTGACACGCCACACCCCAATTGTTGTGACAAGCTAAGTGGTAGCAGATTGATGGCGT
GACACGGTGAGTGCAAGCAGATTTATGGTGTGACACACTGACTTCTTGCAGATTTATGGGGTGAC
GCGCCATGCCCCAATTGTTGACACGTTGAGTGGTAGC
Found at i:640341 original size:31 final size:31
Alignment explanation
Indices: 640306--640433 Score: 130
Period size: 31 Copynumber: 4.1 Consensus size: 31
640296 GTGAGTGCAA
*
640306 GCAGATTTATGGTGTGACACACTGACTTCTT
1 GCAGATTTATGGCGTGACACACTGACTTCTT
* *
640337 GCAGATTTATGGCGTGGCACGCTGACTTCTT
1 GCAGATTTATGGCGTGACACACTGACTTCTT
* * * ***
640368 GTAGATTTATGGCGTGACACATTGAGTTGAA
1 GCAGATTTATGGCGTGACACACTGACTTCTT
*** * *
640399 GCAGATACGTGGTGTGACACACTGACTTGTT
1 GCAGATTTATGGCGTGACACACTGACTTCTT
640430 GCAG
1 GCAG
640434 TATTCAGGGG
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (31 bp):
GCAGATTTATGGCGTGACACACTGACTTCTT
Found at i:654817 original size:42 final size:42
Alignment explanation
Indices: 654739--654862 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 42
654729 TCATTCATCA
* *
654739 TCATGTGCACTCCCTACAGGCACATAG-TCGGGTCATCATCGGC
1 TCATGTGCACTCCCTAC-TGCACATAGCT-GGGTCATCATCAGC
*
654782 TCATGCGCACTCCCTACTGCACATAGCTGGGTCATCATCAGC
1 TCATGTGCACTCCCTACTGCACATAGCTGGGTCATCATCAGC
654824 TCATGTGCACTCCCATA-TCGCACATAGCTGGGTCATCAT
1 TCATGTGCACTCCC-TACT-GCACATAGCTGGGTCATCAT
654863 TATCACACAA
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
42 35 0.47
43 39 0.53
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (42 bp):
TCATGTGCACTCCCTACTGCACATAGCTGGGTCATCATCAGC
Found at i:655457 original size:2 final size:2
Alignment explanation
Indices: 655450--655490 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
655440 TCATGGAAAG
*
655450 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
655491 AAAATGTCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:657056 original size:31 final size:31
Alignment explanation
Indices: 657016--657475 Score: 580
Period size: 31 Copynumber: 14.5 Consensus size: 31
657006 AGAAAGAAAT
*
657016 AAATGTTGTTACACGCCATGCATATTAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* * *
657047 AAATATTGTTACATGTCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
657078 AAATGTTGTTACACAG-AATGCATATCAAGTA
1 AAATGTTGTTACAC-GCCATGCATATCAAGTA
* *
657109 AAATTTTGTAACACGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* * *
657140 AAATGTTGTAACACACCATGCGTATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
657171 AAATGTTGTAACACACCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* * *
657202 CAATGTCGTTACATGCCATGCGTATCGAGTCAAATGTTGGA
1 AAATGTTGTTACACGCCATGC--AT--A-TC-AA-G-T--A
*
657243 AAATGTTGTTACACGCCATGCGTATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
657274 AAATGTTGTAACACGCCATACATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
657305 AAATGTTGTTACATGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
657336 AAATGTTGTTACACGCCATGCGTATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
657367 AAATGTTGTTACACGCCATGCGTATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
657398 AAATGTTGTTACACGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* * *
657429 AAATATTGTTACATGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTA
657460 AAATGTTGTTACACGC
1 AAATGTTGTTACACGC
657476 TGAAGCTGAC
Statistics
Matches: 380, Mismatches: 37, Indels: 24
0.86 0.08 0.05
Matches are distributed among these distances:
30 1 0.00
31 342 0.90
32 1 0.00
33 3 0.01
34 1 0.00
35 3 0.01
36 4 0.01
37 3 0.01
38 1 0.00
39 2 0.01
41 19 0.05
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTA
Found at i:657261 original size:41 final size:41
Alignment explanation
Indices: 657203--657281 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
657193 TATCAAGTAC
* * *
657203 AATGTCGTTACATGCCATGCGTATCGAGTCAAATGTTGGAA
1 AATGTCGTTACACGCCATGCGTATCAAGTAAAATGTTGGAA
*
657244 AATGTTGTTACACGCCATGCGTATCAAGTAAAATGTTG
1 AATGTCGTTACACGCCATGCGTATCAAGTAAAATGTTG
657282 TAACACGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (41 bp):
AATGTCGTTACACGCCATGCGTATCAAGTAAAATGTTGGAA
Found at i:658143 original size:47 final size:47
Alignment explanation
Indices: 658092--658194 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 47
658082 AGCAATGTCA
* ** *
658092 TGTCACACACTCTAAACCATGGCGTGTCACAGATTCCCTCCATGGCC
1 TGTCACAAACTCTAAACCATACCATGTCACAGATTCCCTCCATGGCC
* * * * **
658139 TGTCATAAACTCTGAACCCTACCATGTCACTGATTCCCTCCATGGTG
1 TGTCACAAACTCTAAACCATACCATGTCACAGATTCCCTCCATGGCC
658186 TGTCACAAA
1 TGTCACAAA
658195 TTTTGAACCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (47 bp):
TGTCACAAACTCTAAACCATACCATGTCACAGATTCCCTCCATGGCC
Found at i:658202 original size:47 final size:47
Alignment explanation
Indices: 658116--658217 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 47
658106 AACCATGGCG
*
658116 TGTCACAGATTCCCTCCATGGCCTGTCATAAACTCTGAACCCTACCA
1 TGTCACAGATTCCCTCCATGGCCTGTCACAAACTCTGAACCCTACCA
* ** * * * *
658163 TGTCACTGATTCCCTCCATGGTGTGTCACAAATTTTGAACCCTATCG
1 TGTCACAGATTCCCTCCATGGCCTGTCACAAACTCTGAACCCTACCA
658210 TGTCACAG
1 TGTCACAG
658218 CCATGTCACA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (47 bp):
TGTCACAGATTCCCTCCATGGCCTGTCACAAACTCTGAACCCTACCA
Found at i:658247 original size:23 final size:23
Alignment explanation
Indices: 658219--658296 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
658209 GTGTCACAGC
658219 CATGTCACATATGCTCACCATGG
1 CATGTCACATATGCTCACCATGG
** * * *
658242 TGTGTCACAGATTCTCACCGTGG
1 CATGTCACATATGCTCACCATGG
* *
658265 CATGTCACATAT-TTCGTCCATGG
1 CATGTCACATATGCTC-ACCATGG
658288 CATGTCACA
1 CATGTCACA
658297 ATCTCTAAAC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (23 bp):
CATGTCACATATGCTCACCATGG
Found at i:658390 original size:151 final size:151
Alignment explanation
Indices: 658111--658447 Score: 440
Period size: 151 Copynumber: 2.2 Consensus size: 151
658101 CTCTAAACCA
* * * *
658111 TGGCGTGTCACAGATTCCCTCCATGGCCTGTCATAAACTCTGAACCCTACCATGTCACTGATTCC
1 TGGCGTGTCACATATTCCCTCCATGGCATGTCACAAACTCTAAACCCTACCATGTCACTGATTCC
* * * *
658176 CTCCATGGTGTGTCACAAATTTTGAACCCTATCGTGTCACAGCCATGTCACATATGCTCACCATG
66 CTCCATGGCGTGTCACAAACTTTAAACCCTATCGTGTCACAACCATGTCACATATGCTCACCATG
** * *
658241 GTGTGTCACAGATTCTCACCG
131 CCGTGCCACAGATTATCACCG
* * * * * *
658262 TGGCATGTCACATATTTCGTCCATGGCATGTCACAATCTCTAAACCCTACCGTGTCATTGATTCC
1 TGGCGTGTCACATATTCCCTCCATGGCATGTCACAAACTCTAAACCCTACCATGTCACTGATTCC
* * *
658327 TTCCATGGCGTGTCACAAACTTTAAACCCTGTCGTGTCACAACCGTGTCACATATGCTCACCATG
66 CTCCATGGCGTGTCACAAACTTTAAACCCTATCGTGTCACAACCATGTCACATATGCTCACCATG
*
658392 CCGTGCCACATATTATCACCG
131 CCGTGCCACAGATTATCACCG
* * * *
658413 TGGTGTGTCACATATGCACACCATGGCATGTCACA
1 TGGCGTGTCACATATTCCCTCCATGGCATGTCACA
658448 GATTCCCTCC
Statistics
Matches: 157, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
151 157 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (151 bp):
TGGCGTGTCACATATTCCCTCCATGGCATGTCACAAACTCTAAACCCTACCATGTCACTGATTCC
CTCCATGGCGTGTCACAAACTTTAAACCCTATCGTGTCACAACCATGTCACATATGCTCACCATG
CCGTGCCACAGATTATCACCG
Found at i:658395 original size:23 final size:23
Alignment explanation
Indices: 658369--658447 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
658359 CGTGTCACAA
658369 CCGTGTCACATATGCTCACCATG
1 CCGTGTCACATATGCTCACCATG
* ** *
658392 CCGTGCCACATATTATCACCGTG
1 CCGTGTCACATATGCTCACCATG
** *
658415 GTGTGTCACATATGCACACCATG
1 CCGTGTCACATATGCTCACCATG
* *
658438 GCATGTCACA
1 CCGTGTCACA
658448 GATTCCCTCC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (23 bp):
CCGTGTCACATATGCTCACCATG
Found at i:661455 original size:22 final size:22
Alignment explanation
Indices: 661430--661473 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
661420 TTTAGGTGGT
*
661430 ATCAAAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTGGGTTTAAAG
*
661452 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAAAGCTTTTGGGTTTAAAG
661474 TTGTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (22 bp):
ATCAAAGCTTTTGGGTTTAAAG
Found at i:679032 original size:171 final size:171
Alignment explanation
Indices: 678671--682091 Score: 3356
Period size: 173 Copynumber: 20.1 Consensus size: 171
678661 AATTTTTACT
* * * *
678671 CCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAGTTTAAGCTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * *
678736 TTTTTTGCATTTTTAGGTTAAAATAGATTATAATTGAATGTTTGCCTT-GGAAAACATGAAACAA
66 TTTTTTACATTTTT-GGTTAAAACAGATTATAATTGAATGTTTGCCTTAGG-AAACATGAAGCAA
* * *
678800 AAGCCATCCATTGACACGAAAAGTCCATTTATAGTCATTCATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* *
678843 CTTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * *
678908 TTTTTTACATTTTTTGTTAAAACAAATTATAATTGAATGTTTGCCTTAGGAAACGTGAAGCAAAA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAAAA
678973 GCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
131 GCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * *** **
679014 CCGTCGAAATTTTTATTACTCATTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* *
679079 TTTTTTGCATTTTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTT-GAGAAACATGAAGCA
66 TTTTTTACA--TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAG-GAAACATGAAGCA
679143 AAAGCCAT-CAGTTGACACA-AAAAGTCCATTTGTAGTCACTCATG
128 AAAGCCATCCA-TTGACA-AGAAAAGTCCATTTGTAGTCACTCATG
* * * *
679187 CCTTCAAAAGCCTTATTACTCGCTATAAATGGTTTTATAACCTCATAATTGATTTTTAGCTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * * * *
679252 TTTTTTTTTACATTTTTTAGTT-AAACTAGATTATAATTAAATGTTTACCTAAAGAAACATGAAG
65 --TTTTTTTACA-TTTTTGGTTAAAAC-AGATTATAATTGAATGTTTGCCTTAGGAAACATGAAG
* * * * * * *
679316 CGAAAGCCATCCATTAAGAAAAAAAGTTCATATATAGTCACTCATG
126 CAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * *
679362 CCTTCGAAAGCCTTATTAGTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTCAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * *
679427 TTTTTTATATTTTTGGTTAAAACAGA-T-T-A-T-AA------CC-TCGTGAAACGTGAGGCAAA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAG-GAAACATGAAGCAAA
* * ** * * ** **
679480 AGTCATCTATTGGTAGGAAAATTTTATTTAAAGTCACTCATG
130 AGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * *
679522 CCTTCAAAAGCCTTATTAGTTGCTTTAAATGGTTTTATAATCTCATAATTGCTTTTAAGTTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * * **
679587 TTTTTTTTACATTTTTGGTTAAAACAGATTATGATCGAATGTTTGCCTCAGGAAATGTGAAGCAA
65 -TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAA
* *
679652 AAGCCATCCATTAACATGAAAAGTCCATTTGTAGTCACTCATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * * * ** *
679695 CCTTCAAAAGCCATATTAATTGCTTCAAATGGTTTTATAATCTCAAAATTAATTCCAAATTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * * * * *
679760 TTTTTTTACATTTTTTAGTTAAAACAGATTTTAATTAAATGTTTTCC-TCGAAAACATGAAGCAA
65 TTTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAA
* * * * *
679824 AAGTCATCCATTGAGAAGAAAAGTTCATTTATAGTCACTCATC
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
*
679867 CCTTCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAA
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG-AA
* * *
679932 TTGTTTTTACATTTTTGGTTAAAACATATTATAATTGAATGTTTGCCTTAGGGAACATGAAGCGA
65 TT-TTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAA
* * * * *
679997 CAGCAATTCATTGACACGAAAAGTCCATTTGTAGTCACTGATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * * *
680040 TCTTCGAAAGCCTTGTTACTCAG-TTTAAATGGTTTTATAACCTCATAATTTATTTTAAGATGAA
1 CCTTCAAAAGCCTTATTACTC-GCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
** *** * **
680104 TTTTTTTAGGTTTTTCCCTAAAACAGATTATAATTGAATGTTTACCTT-GGTAAACATGAAGGGA
65 TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGG-AAACATGAAGCAA
* * * * *
680168 AAGTCATCCATTTACAAGAAAAGTCTATTTATAGGCACTCATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * * * *
680211 GCATCGAAA-CCATTATTACTCACTATAAATGGTTTAATAATCTCATAATTGATTTTAAGCTGAA
1 CCTTCAAAAGCC-TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * *
680275 TATTTTTTGCATTTTTTGGGTACAATAGATCATAATTGAATGTTTGCCTT-GAGAAACATGAAGC
65 T-TTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAG-GAAACATGAAGC
* * * *
680339 AAAAAGCCATCAATTTACATGAAAAGTTCATTTGTAGTCACTCATG
127 -AAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * *
680385 ACTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATCTGAAGATGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * * * * **
680450 TTTTTT-TATGTTTTGGGTTAAAACATAGTATAATTGAATCTTTACCTTCGGAAACATGAAGTGA
66 TTTTTTACAT-TTTT-GGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAA
* * * * *
680514 AAGTCACCCATTCACAAGAAAAGTCCATTTAG-AGGCACCCATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTT-GTAGTCACTCATG
* * * *
680557 -GTGTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AA
1 CCT-TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * * * * *
680620 ----ATT---TTTTTGATTAAAATATATTATAATTGACTGTTAG-CTTCAGGAAACGTGAAGCGA
65 TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTT-AGGAAACATGAAGCAA
* *
680677 AAGCCATCTATTGACACA-AAAATTCCATTTGTAGTCACTCATG
129 AAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATG
* * * *
680720 CCTTCATAAGCCTTATTATTTGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTCGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * ** *
680785 TTTTTGT--ATTTTTGGGTTAAAACATATTATAATTGAATGTTTACCTCAGGAAATGTGAAGCGA
66 TTTTT-TACATTTTT-GGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAA
*
680848 AAGCCATCTATTGACACA-AAAAGTCCATTTGTAGTCACTCATG
129 AAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATG
* * * *
680891 CCTTCAAAACCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTCAAGATGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * * *
680956 TTTTTTACGTTTTTGGTTAAAATAGATTAAAATTGAATG-TT-CACATAGGTAAACATGAAGCGA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGC-CTTAGG-AAACATGAAGCAA
* * * * * *
681019 AAGTCATCCATTCACATGAAAAGTCCA-ATATAGGCACTCATG
129 AAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * * * * * **
681061 -GTGTCGACACCCTTATTACTAGCTATAAATGGTTTTATAATCTCATAATTGAGTTCAAGCCGAA
1 CCT-TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * **
681125 TTGTTTTTTGCATTTTTTGGTTAAAACAGATTATGATTGAATGTTTGCCTTGGGAAATGTGAAGC
65 -T-TTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGC
* *
681190 AAAAGCCATCAATTGACATGAAAAGTCCATTTGTAGTCACTCATG
127 AAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * * * ** *
681235 ACTTCAAAAGCCTTACTAATTGCTTTAAATAGTTTTATAATCTCATAATTAATTCCAAATTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
*** * ** * * * * *
681300 TTTTTTACATTTTACATTAAAACAGATTGTAATTGAATCATTGGCTCAGGAAACGTGAAACGAAA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAAAA
681365 GCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
131 GCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * *
681406 CCTTCGAAATCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * *
681470 ----TT---TTTTTGGTTAAAATAGATTATAAGTGAATGTTTGCCTTGGGAAACATGAAGCAAAA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAAAA
* *
681528 GCCATCCGTTGACACA-AAAAGTCCATTTGTAATCACTCATG
131 GCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATG
* * *
681569 CCTTCAAAAGCCTTATTACTCG-TTATAAATGGTTTTATAACCCCATAATTGATTTTAAGCTGAA
1 CCTTCAAAAGCCTTATTACTCGCTT-TAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * * * *
681633 TTTTTTTTACATTTTTTAGTTAAAATAGATTATAATTCAATGTTTACCTTAAGAAACGTGAAGCG
65 -TTTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCA
* * * * *
681698 AAAGCCATCCATTAAGAAGAAAAGTTCATATATAGTCACTCATG
128 AAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * * *
681742 CCTTCGAAAGCCTTATTAGTCGCTTTAAATAGTTTTATAATCTCATAATCGATTTTAAGTTCAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * * *
681807 TTTTTTATATTTTTCGTTAAAACAGA-T-T-A-T-AA------CC-TCGTGAAACGTGAGGCAAA
66 TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAG-GAAACATGAAGCAAA
* * ** * * ** **
681860 AGTCATCTATTGGTAGGAAAATTTTATTTAAAGTCACTCATG
130 AGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
* * * *
681902 CTTTCAAAAGCCTTATTAGTTGCTTTAAATGGTTTTATAATCTCATAATTGCTTTTAAGTTGAAT
1 CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * *
681967 TTTTTTTTACATTTTTGGTTAAAACATATTATAATTGAATGTTTGCCTCAAGG-AACATGAAGCG
65 -TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCT-TAGGAAACATGAAGCA
* * * ** * *
682031 ACAGCAATTCATTGACACA-AAAAGTTTATTTGTAGTCACTGACG
128 AAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATG
* *
682075 CCTTCGAAAGCCCTATT
1 CCTTCAAAAGCCTTATT
682092 TGTAGTCATT
Statistics
Matches: 2681, Mismatches: 464, Indels: 207
0.80 0.14 0.06
Matches are distributed among these distances:
159 1 0.00
160 208 0.08
162 56 0.02
163 254 0.09
164 11 0.00
165 3 0.00
166 7 0.00
167 8 0.00
168 3 0.00
169 7 0.00
170 83 0.03
171 645 0.24
172 368 0.14
173 714 0.27
174 165 0.06
175 137 0.05
176 11 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (171 bp):
CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
TTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCAAAA
GCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATG
Found at i:680266 original size:344 final size:341
Alignment explanation
Indices: 678671--682091 Score: 3465
Period size: 344 Copynumber: 10.0 Consensus size: 341
678661 AATTTTTACT
* * *
678671 CCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAGTTTAAGCTGAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * *
678736 TTTTTT-GCATTTTTAGGTTAAAATAGATTATAATTGAATGTTTGCCTTGGAAAACATGAAACAA
66 TTTTTTAG-ATTTTT-GGTTAAAACAGATTATAATTGAATGTTTACCTTGG-AAACATGAAGCAA
* * * *
678800 AAGCCATCCATTGACACGAAAAGTCCATTTATAGTCATTCATGCTTTCGAAAGCCTTATTACTCG
128 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCG
*
678865 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAA
193 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAA
* * *
678930 CAAATTATAATTGAATGTTTGCCTTAGGAAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGT
258 CAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGT
678995 CCATTTGTAGTCACTCATG
323 CCATTTGTAGTCACTCATG
* *** **
679014 CCGTCGAAATTTTTATTACTCATTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* *
679079 TTTTTT-GCATTTTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTTGAGAAACATGAAGCA
66 TTTTTTAG-A--TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTG-GAAACATGAAGCA
*
679143 AAAGCCAT-CAGTTGACACA-AAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTAC
127 AAAGCCATCCA-TTGACA-AGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTAC
* * * * *
679206 TCGCTATAAATGGTTTTATAACCTCATAATTGATTTTTAGCTGAATTTTTTTTTTACATTTTTTA
190 TCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA---TTTTTTTACA-TTTTTG
* * * * * *
679271 GTT-AAACTAGATTATAATTAAATGTTTACCTAAAGAAACATGAAGCGAAAGCCATCCATTAAGA
251 GTTAAAAC-AGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACA
* * * *
679335 AAAAAAGTTCATATATAGTCACTCATG
315 AGAAAAGTCCATTTGTAGTCACTCATG
* * *
679362 CCTTCGAAAGCCTTATTAGTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTCAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * *
679427 TTTTTTATATTTTTGGTTAAAACAGA-T-T-A-T--A-----ACCTCGTGAAACGTGAGGCAAAA
66 TTTTTTAGATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTG-GAAACATGAAGCAAAA
* * ** * * ** * * *
679481 GTCATCTATTGGTAGGAAAATTTTATTTAAAGTCACTCATGCCTTCAAAAGCCTTATTAGTTGCT
130 GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCT
*
679546 TTAAATGGTTTTATAATCTCATAATTGCTTTTAAGTTGAATTTTTTTTTACATTTTTGGTTAAAA
195 TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA--TTTTTTTACATTTTTGGTTAAAA
* * * ** * * *
679611 CAGATTATGATCGAATGTTTGCCTCAGGAAATGTGAAGCAAAAGCCATCCATTAACATGAAAAGT
258 CAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGT
679676 CCATTTGTAGTCACTCATG
323 CCATTTGTAGTCACTCATG
* * * * * * * ** *
679695 CCTTCAAAAGCCATATTAATTGCTTCAAATGGTTTTATAATCTCAAAATTAATTCCAAATTGAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * * * * * *
679760 TTTTTTTACATTTTTTAGTTAAAACAGATTTTAATTAAATGTTTTCCTCGAAAACATGAAGCAAA
65 TTTTTTTAGA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTGGAAACATGAAGCAAA
* * * * *
679825 AGTCATCCATTGAGAAGAAAAGTTCATTTATAGTCACTCATCCCTTCAAAAGCCTTATTACTCTC
129 AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCGC
679890 TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAATTGTTTTTACATTTTTGGTTAAA
194 TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG-AATT-TTTTTACATTTTTGGTTAAA
* * * * * *
679955 ACATATTATAATTGAATGTTTGCCTTAGGGAACATGAAGCGACAGCAATTCATTGACACGAAAAG
257 ACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAG
*
680020 TCCATTTGTAGTCACTGATG
322 TCCATTTGTAGTCACTCATG
* * * * *
680040 TCTTCGAAAGCCTTGTTACTCAG-TTTAAATGGTTTTATAACCTCATAATTTATTTTAAGATGAA
1 CCTTCGAAAGCCTTATTACTC-GCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* *** **
680104 TTTTTTTAGGTTTTTCCCTAAAACAGATTATAATTGAATGTTTACCTTGGTAAACATGAAGGGAA
65 TTTTTTTAGATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTGG-AAACATGAAGCAAA
* * * * * * * *
680169 AGTCATCCATTTACAAGAAAAGTCTATTTATAGGCACTCATGGCATCGAAA-CCATTATTACTCA
129 AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCC-TTATTACTCG
* * * * * *
680233 CTATAAATGGTTTAATAATCTCATAATTGATTTTAAGCTGAATATTTTTTGCATTTTTTGGGTAC
193 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTTTACA-TTTTTGGTTAA
* * * * * *
680298 AATAGATCATAATTGAATGTTTGCCTT-GAGAAACATGAAGCAAAAAGCCATCAATTTACATGAA
256 AACAGATTATAATTGAATGTTTGCCTTAG-GAAACATGAAGC-GAAAGCCATCCATTGACAAGAA
*
680362 AAGTTCATTTGTAGTCACTCATG
319 AAGTCCATTTGTAGTCACTCATG
* ** * * *
680385 ACTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATCTGAAGATGAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * * * **
680450 TTTTTTTATG-TTTTGGGTTAAAACATAGTATAATTGAATCTTTACCTTCGGAAACATGAAGTGA
65 TTTTTTTA-GATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTT-GGAAACATGAAGCAA
* * * * * * * * *
680514 AAGTCACCCATTCACAAGAAAAGTCCATTTAGAGGCACCCATG-GTGTCGAAACCCTTATTACTC
128 AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCT-TCAAAAGCCTTATTACTC
* * *
680578 GCTATAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AA----ATT---TTTTTGATTAAA
192 GCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAA
* * * * * *
680635 ATATATTATAATTGACTGTTAG-CTTCAGGAAACGTGAAGCGAAAGCCATCTATTGACACA-AAA
257 ACAGATTATAATTGAATGTTTGCCTT-AGGAAACATGAAGCGAAAGCCATCCATTGACA-AGAAA
*
680698 ATTCCATTTGTAGTCACTCATG
320 AGTCCATTTGTAGTCACTCATG
* * *
680720 CCTTC-ATAAGCCTTATTATTTGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTCGAA
1 CCTTCGA-AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * ** *
680784 -TTTTTT-GTATTTTTGGGTTAAAACATATTATAATTGAATGTTTACCTCAGGAAATGTGAAGCG
65 TTTTTTTAG-ATTTTT-GGTTAAAACAGATTATAATTGAATGTTTACCT-TGGAAACATGAAGCA
* * *
680847 AAAGCCATCTATTGACACA-AAAAGTCCATTTGTAGTCACTCATGCCTTCAAAACCCTTATTACT
127 AAAGCCATCCATTGACA-AGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
* * * *
680911 CGCTTTAAATAGTTTTATAATCTCATAATTGATTTCAAGATGAATTTTTTTACGTTTTTGGTTAA
191 CGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAA
* * * * * *
680976 AATAGATTAAAATTGAATG-TT-CACATAGGTAAACATGAAGCGAAAGTCATCCATTCACATGAA
256 AACAGATTATAATTGAATGTTTGC-CTTAGG-AAACATGAAGCGAAAGCCATCCATTGACAAGAA
* * *
681039 AAGTCCA-ATATAGGCACTCATG
319 AAGTCCATTTGTAGTCACTCATG
* * * * * * * **
681061 -GTGTCGACACCCTTATTACTAGCTATAAATGGTTTTATAATCTCATAATTGAGTTCAAGCCGAA
1 CCT-TCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * **
681125 TTGTTTTTTGCATTTTTTGGTTAAAACAGATTATGATTGAATGTTTGCCTTGGGAAATGTGAAGC
65 TT-TTTTTAG-A-TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTT-GGAAACATGAAGC
* * * * * *
681190 AAAAGCCATCAATTGACATGAAAAGTCCATTTGTAGTCACTCATGACTTCAAAAGCCTTACTAAT
126 AAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACT
* * * ** * ***
681255 TGCTTTAAATAGTTTTATAATCTCATAATTAATTCCAAATTGAATTTTTTTACATTTTACATTAA
191 CGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAA
* ** * * * *
681320 AACAGATTGTAATTGAATCATTGGCTCAGGAAACGTGAAACGAAAGCCATCCATTGACAAGAAAA
256 AACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAA
681385 GTCCATTTGTAGTCACTCATG
321 GTCCATTTGTAGTCACTCATG
* *
681406 CCTTCGAAATCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * *
681470 ----TT---TTTTTGGTTAAAATAGATTATAAGTGAATGTTTGCCTTGGGAAACATGAAGCAAAA
66 TTTTTTAGATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTT-GGAAACATGAAGCAAAA
* * *
681528 GCCATCCGTTGACACA-AAAAGTCCATTTGTAATCACTCATGCCTTCAAAAGCCTTATTACTCG-
130 GCCATCCATTGACA-AGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCGC
* * * *
681591 TTATAAATGGTTTTATAACCCCATAATTGATTTTAAGCTGAATTTTTTTTACATTTTTTAGTTAA
194 TT-TAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACA-TTTTTGGTTAA
* * * * * * *
681656 AATAGATTATAATTCAATGTTTACCTTAAGAAACGTGAAGCGAAAGCCATCCATTAAGAAGAAAA
256 AACAGATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAA
* * *
681721 GTTCATATATAGTCACTCATG
321 GTCCATTTGTAGTCACTCATG
* * * *
681742 CCTTCGAAAGCCTTATTAGTCGCTTTAAATAGTTTTATAATCTCATAATCGATTTTAAGTTCAAT
1 CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
* * * * *
681807 TTTTTTATATTTTTCGTTAAAACAGA-T-T-A-T--A-----ACCTCGTGAAACGTGAGGCAAAA
66 TTTTTTAGATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTG-GAAACATGAAGCAAAA
* * ** * * ** * * * *
681861 GTCATCTATTGGTAGGAAAATTTTATTTAAAGTCACTCATGCTTTCAAAAGCCTTATTAGTTGCT
130 GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCT
*
681926 TTAAATGGTTTTATAATCTCATAATTGCTTTTAAGTTGAATTTTTTTTTACATTTTTGGTTAAAA
195 TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA--TTTTTTTACATTTTTGGTTAAAA
* * * * *
681991 CATATTATAATTGAATGTTTGCCTCAAGG-AACATGAAGCGACAGCAATTCATTGACACA-AAAA
258 CAGATTATAATTGAATGTTTGCCT-TAGGAAACATGAAGCGAAAGCCATCCATTGACA-AGAAAA
** * *
682054 GTTTATTTGTAGTCACTGACG
321 GTCCATTTGTAGTCACTCATG
*
682075 CCTTCGAAAGCCCTATT
1 CCTTCGAAAGCCTTATT
682092 TGTAGTCATT
Statistics
Matches: 2573, Mismatches: 411, Indels: 198
0.81 0.13 0.06
Matches are distributed among these distances:
331 1 0.00
332 1 0.00
333 329 0.13
334 306 0.12
335 228 0.09
336 177 0.07
337 2 0.00
338 2 0.00
339 5 0.00
340 5 0.00
341 71 0.03
342 65 0.03
343 119 0.05
344 519 0.20
345 417 0.16
346 166 0.06
347 19 0.01
348 141 0.05
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (341 bp):
CCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT
TTTTTTAGATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTGGAAACATGAAGCAAAAG
CCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTT
TAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAG
ATTATAATTGAATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCA
TTTGTAGTCACTCATG
Found at i:682727 original size:172 final size:170
Alignment explanation
Indices: 682126--684047 Score: 1756
Period size: 172 Copynumber: 11.2 Consensus size: 170
682116 TTTTTTTAGG
* * * *
682126 TTTTTAGTTAAAACATATTATAATTGAATGTTTACCT-AGAGAAACATGAAGCGAAAGTCATCCA
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAG-GAAACATGAAGCAAAAGCCATCC-
* * * * * * *
682190 ATT-ACAAGAAAAGTCTATTTATAGGCACTCATGGTGTCGAAA-CCGTTATTACTC-TTTATAAA
64 ATTGACACGAAAAGTCCATTT-GAGTCACTCATGCT-TTGAAAGCC-TTATTACTCGCTT-TAAA
* * * * * *
682252 TTGTTTAATAGTCTCATAATTGATTTTACGCTGAATTTTTTTTTCAT
125 TGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTGCAT
* * * * *
682299 TTTTTGGGTAAAATAGATTATAATTGAATGTTTGCCTCAAGAAACATGAAGCAAAAGCCATCAAT
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
* * * * *
682364 TTACATGAAAAGTTCATTTGTAGTCACTCATGCCTTTAAAAGCCTTATTACTCACTTTAAATGGT
66 TGACACGAAAAGTCCATTTG-AGTCACTCATG-CTTTGAAAGCCTTATTACTCGCTTTAAATGGT
* * * **
682429 TTTATAATCTCATAATTGATTTCAAGATGAGTTTTTTTTTAT
129 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * * ** *
682471 CTTTTGGGTTAAAACATATTATAATTGAATCTTTACCTTAGGAAACATGAAGTGAAAGTCATCCA
1 -TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCA
* * * * * * * **
682536 TTCAGAAGAAAAGTCCATTTAGAGGCACTCATGGTGTTGAAACCCTTATTACTAGCTAAAAATGG
65 TTGACACGAAAAGTCCATTT-GAGTCACTCATGCT-TTGAAAGCCTTATTACTCGCTTTAAATGG
* * * ***
682601 TTTTATAACCTCATAATTGAGTTCAAGCCAAATTTTTTTGCAT
128 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * * * * *
682644 TTTTTGCTTAAAACAAATTATGATTGAATGTTTTCCTCGGGAAATATGAAGTAAAAGCCATCCAT
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
* ** * *
682709 TGACACGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTAATTGCTTTAAATGGT
66 TGACACGAAAAGTCCATTT-GAGTCACTCATG-CTTTGAAAGCCTTATTACTCGCTTTAAATGGT
* * ** *
682774 TTTATAATCTCACAATTTATTCCAAATTGAATTTTTTT--AT
129 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
*** * * ** * * * *
682814 ATTTTACATTAAAAAAGATTGTAATTGAATGTTTGGCTCAGAAAACGTTAAGCGAAAGCCATCCA
1 -TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCA
* * ** * * * *
682879 TTGACAAC-AAAAGTCTATTTGTGGTCGTTTATACCTATGAAAGCTTTATTACTCGCTTTAAATG
65 TTGAC-ACGAAAAGTCCATTTG-AGTCACTCAT-GCTTTGAAAGCCTTATTACTCGCTTTAAATG
* *
682943 GTTTTATAATCTCATAATTGAGTTTAAGTTGAAGTTTTTTGCAT
127 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * **
682987 TTTTAGGTTAAAATAGATTATAATTGAATGTTTGCCTTGGGAAACATGAAGCAAAAGCCATCCAT
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
**
683052 TGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
66 TGACACGAAAAGTCCATTTG-AGTCACTCATG-CTTTGAAAGCCTTATTACTCGCTTTAAATGGT
683117 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT--AT
129 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * * *
683157 ATTTTCGGATAAAACAAATTATAATGGAATGTTTACCTCAGGAAACGTGAAGCAAAAGCCATCCA
1 -TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCA
** * * * *
683222 TTGACAATAAGAGTCCATTTGTAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGG
65 TTGACACGAAAAGTCCATTTG-AGTCACTCATG-CTTTGAAAGCCTTATTACTCGCTTTAAATGG
* * * **
683287 TTTAATAATCTCACAATTCATTTTAAGATAAAATTTTTTT--AT
128 TTTTATAATCTCATAATTGATTTTAAG-TTGAATTTTTTTGCAT
* * ** ** **
683329 GTTTTGGGTTAAAACATATTATAATTGAATGTTTACCTTGGGAAACATGAAGTGAAAGTTATCCA
1 -TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCA
* * * * * * * * *
683394 TTCACAAGAAAAGTCAATTTAGAGGCACCCATGGCGTTGAAA-CCTTTATTGCTCCCTATAAATG
65 TTGACACGAAAAGTCCATTT-GAGTCACTCAT-GCTTTGAAAGCC-TTATTACTCGCTTTAAATG
683458 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
127 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * *** *
683502 TTTGTT-ATTAAAATATATTATAATTGAATG-TTAGCCTCAGGAATTGTGAAGCAAAAGGCATCC
1 TTT-TTGGTTAAAACAGATTATAATTGAATGTTTA-CCTCAGGAAACATGAAGCAAAAGCCATCC
** * * *
683565 ATTGATGCGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAGGCCTTATTACTCACTTTAAATG
64 ATTGACACGAAAAGTCCATTTG-AGTCACTCATGCTTTGAAA-GCCTTATTACTCGCTTTAAATG
683630 GTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTGCA-
127 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
* * * **
683672 TTGTTGATTAAAATAGATTATAATTGAATG-TTAGCCTCAGGAAATGTGAAGCAAAAGCCATCCA
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTA-CCTCAGGAAACATGAAGCAAAAGCCATCCA
** * * * * * * * *
683736 TTGATGCAAAAAATCCTTTTGTAGTTAGTCATGCCTTCAAAGGCCTTATTACTCACTTTAAATGG
65 TTGACACGAAAAGTCCATTTG-AGTCACTCATGCTTTGAAA-GCCTTATTACTCGCTTTAAATGG
* *
683801 TTTTATAATCTTATAATTGATTTTAAGTTGAATTTTTTTTACAT
128 TTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTGCAT
* * * ** * *
683845 TTTTTGGTTAAAGCAGATTATAATTGAATATTTACCTCAGAAAATGTGAAGCGAAAGCCATCTAT
1 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
* * * * * *
683910 TAACACAAAAAGTCTATTTACAGTCACTCATGCCTTTGAAACCCTTATTACTTGCTTTAAATGGT
66 TGACACGAAAAGTCCATTT-GAGTCACTCATG-CTTTGAAAGCCTTATTACTCGCTTTAAATGGT
* * * * *
683975 TTGATAATCTCATAATTGATTTTAAGATAAATTTTTTTAC-G
129 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
*
684016 TTTTTGGTTAAAATAGATTATAATTGAATGTT
1 TTTTTGGTTAAAACAGATTATAATTGAATGTT
684048 CATGTGAGAC
Statistics
Matches: 1448, Mismatches: 264, Indels: 76
0.81 0.15 0.04
Matches are distributed among these distances:
169 2 0.00
170 152 0.10
171 328 0.23
172 560 0.39
173 390 0.27
174 16 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (170 bp):
TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
TGACACGAAAAGTCCATTTGAGTCACTCATGCTTTGAAAGCCTTATTACTCGCTTTAAATGGTTT
TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCAT
Found at i:683015 original size:343 final size:341
Alignment explanation
Indices: 682099--684047 Score: 1920
Period size: 343 Copynumber: 5.7 Consensus size: 341
682089 ATTTGTAGTC
* * * ** * *
682099 ATTGATTTCAAGATGACTTTTTTTAGGTTTTT-AGTTAAAACATATTATAATTGAATGTTTACCT
1 ATTGATTTTAAGTTGAATTTTTTTATATTTTTCA-TTAAAAAAGATTATAATTGAATGTTTACCT
* * * * * * **
682163 -AGAGAAACATGAAGCGAAAGTCATCCAATT-ACAAGAAAAGTCTATTTATAGGCACTCAT-GGT
65 CAG-GAAACGTGAAGCGAAAGCCATCC-ATTGACAACAAAAGTCCATTTGTAGTCACTCATACCT
* * * * * * * *
682225 GTCGAAACCGTTATTACTC-TTTATAAATTGTTTAATAGTCTCATAATTGATTTTACGCTGAATT
128 -T-GAAACCCTTATTACTCGCTT-TAAATGGTTTTATAATCTCATAATTGATTTTAAGAT-AAAT
* * **
682289 TTTTTTTCATTTTTTGGGTAAAATAGATTATAATTGAATGTTTGCCTCAAGAAACATGAAGCAAA
189 TTTTTTGCA-TTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAA
* * * * *
682354 AGCCATCAATTTACATGAAAAGTTCATTTGTAGTCACTCATGCCTTTAAAAGCCTTATTACTCAC
253 AGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCAC
682419 TTTAAATGGTTTTATAATCTCATA
318 TTTAAATGGTTTTATAATCTCATA
* * * * ** * * *
682443 ATTGATTTCAAGATGAGTTTTTTTTTATCTTTTGGGTTAAAACATATTATAATTGAATCTTTACC
1 ATTGATTTTAAGTTGAATTTTTTTATAT-TTTT-CATTAAAAAAGATTATAATTGAATGTTTACC
* * * * * * * * ***
682508 TTAGGAAACATGAAGTGAAAGTCATCCATTCAGAAGAAAAGTCCATTTAG-AGGCACTCATGGTG
64 TCAGGAAACGTGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTT-GTAGTCACTCAT-ACC
* ** * * * **
682572 TTGAAACCCTTATTACTAGCTAAAAATGGTTTTATAACCTCATAATTGAGTTCAAGCCAAATTTT
127 TTGAAACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATAAATTTT
* * * * * * *
682637 TTTGCATTTTTTGCTTAAAACAAATTATGATTGAATGTTTTCCTCGGGAAATATGAAGTAAAAGC
192 TTTGCA-TTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAAAGC
* * **
682702 CATCCATTGACACGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTAATTGCTTT
256 CATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCACTTT
*
682767 AAATGGTTTTATAATCTCACA
321 AAATGGTTTTATAATCTCATA
* ** * * * **
682788 ATTTATTCCAAATTGAATTTTTTTATATTTTACATTAAAAAAGATTGTAATTGAATGTTTGGCTC
1 ATTGATTTTAAGTTGAATTTTTTTATATTTTTCATTAAAAAAGATTATAATTGAATGTTTACCTC
* * * * ** *
682853 AGAAAACGTTAAGCGAAAGCCATCCATTGACAACAAAAGTCTATTTGTGGTCGTTTATACCTATG
66 AGGAAACGTGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTTGTAGTCACTCATACCT-TG
* * * * * *
682918 AAAGCTTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGAGTTTAAGTTGAAGTTTTTT
130 AAACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATAAATTTTTTT
*
682983 GCATTTTTAGGTTAAAATAGATTATAATTGAATGTTTGCCTTGGGAAACATGAAGCAAAAGCCAT
195 GCATTTTT-GGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAAAGCCAT
*
683048 CCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAA
259 CCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCACTTTAAA
683113 TGGTTTTATAATCTCATA
324 TGGTTTTATAATCTCATA
*
683131 ATTGATTTTAAGTTGAATTTTTTTATA-TTTTCGGA-TAAAACAA-ATTATAATGGAATGTTTAC
1 ATTGATTTTAAGTTGAATTTTTTTATATTTTTC--ATTAAAA-AAGATTATAATTGAATGTTTAC
* * *
683193 CTCAGGAAACGTGAAGCAAAAGCCATCCATTGACAATAAGAGTCCATTTGTAGTCACTCA-AGCC
63 CTCAGGAAACGTGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTTGTAGTCACTCATA-CC
* * * *
683257 TTCGAAAACCTTATTACTCGCTTTAAATGGTTTAATAATCTCACAATTCATTTTAAGATAAAATT
127 TT-GAAACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGAT-AAATT
* * * * **
683322 TTTTT--ATGTTTTGGGTTAAAACATATTATAATTGAATGTTTACCTTGGGAAACATGAAGTGAA
190 TTTTTGCAT-TTTT-GGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAA
** * * * * * * * *
683385 AGTTATCCATTCACAAGAAAAGTCAATTTAG-AGGCACCCATGGCGTT-GAAA-CCTTTATTGCT
253 AGCCATCCATTGACACGAAAAGTCCATTT-GTAGTCACTCAT-GCCTTCAAAAGCC-TTATTACT
* *
683447 CCCTATAAATGGTTTTATAATCTCATA
315 CACTTTAAATGGTTTTATAATCTCATA
** * * *
683474 ATTGATTTTAAGTTGAATTTTTTTGCATTTTGTTATTAAAATATATTATAATTGAATG-TTAGCC
1 ATTGATTTTAAGTTGAATTTTTTTATATTTT-TCATTAAAAAAGATTATAATTGAATGTTTA-CC
** * * ** *
683538 TCAGGAATTGTGAAGCAAAAGGCATCCATTGA-TGCGAAAAGTCCATTTGTAGTCACTCATGCCT
64 TCAGGAAACGTGAAGCGAAAGCCATCCATTGACAAC-AAAAGTCCATTTGTAGTCACTCATACCT
* * * * *
683602 TCAAAGGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTT
128 TGAAA-CCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATAAATTTT
* * * * **
683666 TTTGCATTGTTGATTAAAATAGATTATAATTGAATGTTAGCCTCAGGAAATGTGAAGCAAAAGCC
192 TTTGCATTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAAAGCC
** * * * * * *
683731 ATCCATTGATGCAAAAAATCCTTTTGTAGTTAGTCATGCCTTCAAAGGCCTTATTACTCACTTTA
257 ATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCACTTTA
*
683796 AATGGTTTTATAATCTTATA
322 AATGGTTTTATAATCTCATA
* ** ** *
683816 ATTGATTTTAAGTTGAATTTTTTTTACATTTTTTGGTTAAAGCAGATTATAATTGAATATTTACC
1 ATTGATTTTAAGTTGAA-TTTTTTTATA-TTTTTCATTAAAAAAGATTATAATTGAATGTTTACC
* * * * * ** *
683881 TCAGAAAATGTGAAGCGAAAGCCATCTATTAAC-ACAAAAAGTCTATTTACAGTCACTCATGCCT
64 TCAGGAAACGTGAAGCGAAAGCCATCCATTGACAAC-AAAAGTCCATTTGTAGTCACTCATACC-
* *
683945 TTGAAACCCTTATTACTTGCTTTAAATGGTTTGATAATCTCATAATTGATTTTAAGATAAATTTT
127 TTGAAACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATAAATTTT
* *
684010 TTTACGTTTTTGGTTAAAATAGATTATAATTGAATGTT
192 TTTGCATTTTTGGTTAAAATAGATTATAATTGAATGTT
684048 CATGTGAGAC
Statistics
Matches: 1333, Mismatches: 231, Indels: 82
0.81 0.14 0.05
Matches are distributed among these distances:
341 5 0.00
342 137 0.10
343 684 0.51
344 218 0.16
345 166 0.12
346 117 0.09
347 4 0.00
348 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (341 bp):
ATTGATTTTAAGTTGAATTTTTTTATATTTTTCATTAAAAAAGATTATAATTGAATGTTTACCTC
AGGAAACGTGAAGCGAAAGCCATCCATTGACAACAAAAGTCCATTTGTAGTCACTCATACCTTGA
AACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGATAAATTTTTTTG
CATTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTCGGGAAACATGAAGCAAAAGCCATCC
ATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCACTTTAAATG
GTTTTATAATCTCATA
Found at i:685291 original size:43 final size:43
Alignment explanation
Indices: 685221--685339 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 43
685211 GTAATTATAT
*
685221 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
* * * *
685264 TGACCCGGTTATGTGCGAGTAGGGAGTGCGTATAACCCGATGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
* * *
685307 TGACTCAGCCATGTGTGAGTAGGGAGTGCGCAT
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCAT
685340 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
Found at i:685382 original size:23 final size:23
Alignment explanation
Indices: 685352--685408 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
685342 GCTGGTGATA
* * *
685352 ATGATGATGTGATGGTGTGTATG
1 ATGATGATGGGATGATGTGCATG
685375 ATGATGATGGGATGATGTGCATG
1 ATGATGATGGGATGATGTGCATG
*
685398 ATAATGATGGG
1 ATGATGATGGG
685409 TATACGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.39, T:0.33
Consensus pattern (23 bp):
ATGATGATGGGATGATGTGCATG
Found at i:685630 original size:21 final size:20
Alignment explanation
Indices: 685602--685641 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
685592 TGGTGCCTTG
*
685602 TATTTCGCTGCAGCGAGAAT
1 TATTTCGCTGCAGAGAGAAT
*
685622 TATTCTCGCTGTAGAGAGAA
1 TATT-TCGCTGCAGAGAGAA
685642 ACTTTCGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (20 bp):
TATTTCGCTGCAGAGAGAAT
Found at i:687245 original size:172 final size:172
Alignment explanation
Indices: 686688--689560 Score: 2903
Period size: 172 Copynumber: 16.8 Consensus size: 172
686678 TCACCTCGGT
* * * * ** *
686688 AAACATGAAGCGAAAGTCATCCATTCG-CAAGAAAAGTCCATTTATAGGAACTCATG-GTGTCGA
1 AAACGTGAAGCAAAAGCCATCCATT-GACAAGAAAAGTCCATTTGTAGTCACTCATGCCT-TCGA
* * * * * ***
686751 AACCCTTATTACTAGCTATAAATGGTTTTATAATCTCATAATTGAGTTCAAGCCAAATTTTTTTA
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* *
686816 CATTTTTTGGTTAAAACAGATTATGATTGAATGTTT--GTT-GG
129 CATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * * * *
686857 AAATGTGAAGCAAAAGCCATCCATTGACACGAAAAGTCCATTTGTACTCATTCATGCCTTCAAAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* ** ** ** * * *
686922 GCCTTATTAATTACTTTAAATGGTTTTATAATCTCATAATTTCTTCCAAATTGAATTTTCTTATA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
*** * * * * * *
686987 -TTTTACATTAAAACATATTGTAATTGAATCTTTAGCTCAAG
131 TTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * *
687028 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTGTAGTCAC-CAATACCTTCGAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTC-ATGCCTTCGAA
* * * * * *
687092 AGCATTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAAGTTTAAGCTCAATTTTTTTGC
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * *
687157 ATTTTTAGGTTAAAATAGATTATAATTGAATGTTTACCTTGGG
130 ATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * * *
687200 AAACATGAAGCAAAAGCCATCCATTGACATGCAAAGTCCATTTGTAGTCACTCATGCCTTCAAAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
*
687265 GCCTTATTATTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
* * *
687330 TTTTTT-GTTAAAACAAATTATAATTGAATGTTTTCCTTAAG
131 TTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
*
687371 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* * * * * *
687436 TCTTTATTACTCGCTTTAAATGGCTTTATAATCTCATAATTGATTTTAGGATGAAATTATTTT--
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG-AATTTTTTTAC
* * * *
687499 ATGTTTTGGGATAAAACATATTATAATTGAATGTTTACCTTGGG
130 AT-TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* ** * * ** * * *
687543 AAACATGAAGTGAAAGTCATCCATTTACAAGAAAAGTCCATTTAAAGGCACCCATG-GTGTCGAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCT-TCGAA
* * * ** *
687607 ACCCTTATTGCTCGCTATATGTGGTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTT
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTA
* * * * *
687671 TATTTTTTGATTAAAATAGATTATAATTGAATG-TTAGCCTCAGA
129 CATTTTTTGGTTAAAACAGATTATAATTGAATGTTTA-CCTTAGG
* *** *
687715 AAATGTGAAGCAAAAGCCATCCATTGATGCGAAAAGTCCA-TTGTAGTCACTCATTCCTTC-AAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* * *
687778 GGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGGTTTTAAGTTGAATTTTTTTGC
66 -GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * * *
687843 ATTTCTTGGTTAAAACAGATTATAATTAAATGTTTGCCTCAGG
130 ATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * *
687886 AAATGTGAAGCAAAAGCCATCTATTGATACA-AAAAGTCCATTTGTAGTCACTCATGCCTTC-AT
1 AAACGTGAAGCAAAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCGA-
* * * * *
687949 AAGCCTTATTACTCTCTTTAAATGGTTTGATAATCTCAAAATTGATTTTATGTTGAA-TTTTTTG
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
*
688013 CATTTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTTAGG
129 CATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * *
688057 AAACGTGAAGCGAAAA-CCATCTATTAACATA-AAAAGTCCATTTGTAGTCACTCATGCCTCCGA
1 AAACGTGAAGC-AAAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCGA
* * *
688120 AA-CCTTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGATGATTTTTTTT
64 AAGCC-TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
* * * * *
688184 AC-GTTCTTGGTTAAAACAAATTAGAATTGAAT-TTTCACC-TCGG
128 ACATTTTTTGGTTAAAACAGATTATAATTGAATGTTT-ACCTTAGG
* * * * *
688227 TAAACATGAAGCTAAAGTCATCCATTCACAAGAAAAGTCCA--TGATACG-CACTCATG-GTGTC
1 -AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTG-TA-GTCACTCATGCCT-TC
* * ** * * * * **
688288 AAAACCCTTATTACTAACTATAAATGGTTTTATAATCTCATAATTGAGTTCAGGCAGAATTTTTT
62 GAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA----TT
* * * * *
688353 TTTTTCCATTTTTTGGTTAAAACAGATTATGATTAAATGTTT-GCTTGGGG
123 TTTTTACATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTT-AGG
** * * ** * *
688403 AAATTTGAAGCAAAAGTCATCCATTGACACGAAAAGTTTATTTATAGTCACTCATGCCTTCAAAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* ** * ** *
688468 GCCTTATTAATTACTTTAAATGGTTTTATAATCTCATAATTAATTCCAAATTGAATTTTTTTACA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
*** * * * * ** ** *
688533 -TTTTACATTAAAATAGATTGTAATTGGATCTTTGGCACAAG
131 TTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * * * *
688574 AAACCTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTGTAGTCACTCATACCTTCGTAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* * * * *
688639 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAAGTTTAAGCTGAATTGTTTTGCA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
* * * *
688704 TTTTTAGGTTAAAATAGATTATAATTGAATGTTTGCCTTGGG
131 TTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * * * *
688746 AAACATGAAGCAAAAGCCATCCATTGACACGAAAAATCTATTTGTAATCACTCATGCCTT-GAAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCG-AA
* *
688810 AGCCTTATTACTCGCTTTAAATGG-TTTATAATCTCGTAATTGATTTTAAGTTAAATTTTTTTAC
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * *
688874 ATTTTTT-GTTAAAACAAATTATAATTGAATGTTTGCCTCAGG
130 ATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
* * * * *
688916 AAAAGTGAAGCGAAAGGCATCCATTGACAAGAAAAGTCCATTTGTTGTCACTAATGCCTTC-AAC
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAA-
* * * *
688980 ATCCTTATTACTCGCTTTAAATGATTTTATCATCTCATAATTGATTTTAAGATGAAATTTTTTT-
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG-AATTTTTTTA
* * * *
689044 -ATGTTATCGGTTAAAACATATTATAATTGAATGTTTACCTTAGA
129 CAT-TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
** ** * * * * *
689088 AAATATGAAGTGAAAGTCATCCATTCACAAGAAAAGTCCATTTAG-AGGCAC-CTATGGCGTCGA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTT-GTAGTCACTC-ATGCCTTCGA
* * ** ** * *
689151 AACCCTTATTATTCTATAGAAATGGTTTTATAATATCATAATTGATTTTAAGTTGAATTATTTTA
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * **
689216 CATTTTTTGATTAAAATAGATTATAATCGAATG-TTAGCCTTAAC
129 CATTTTTTGGTTAAAACAGATTATAATTGAATGTTTA-CCTTAGG
* * * ***
689260 CAATGTGAAGGAAAAGCCATCCATTGATGTGAAAAGTCCATTTGTAGTCACTCATGCCTTC-AAA
1 AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* *
689324 GGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGC
66 -GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * * *
689389 ATTTTTTGGTTAAAACAGAATATAATTGAATGTTTGCCTCAAG
130 ATTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
** * * *
689432 AAACGTGAAGTGAAAGCCATCTATTGACATA-AAAAGTCCATTTGTAGTCATTCATGCCTTTGAA
1 AAACGTGAAGCAAAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAA
* * *
689496 ACCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTAC
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
689561 NNNNNNNNNN
Statistics
Matches: 2236, Mismatches: 400, Indels: 133
0.81 0.14 0.05
Matches are distributed among these distances:
168 27 0.01
169 104 0.05
170 183 0.08
171 815 0.36
172 956 0.43
173 16 0.01
174 9 0.00
175 59 0.03
176 65 0.03
177 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (172 bp):
AAACGTGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
TTTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTTAGG
Found at i:687343 original size:343 final size:342
Alignment explanation
Indices: 686688--689560 Score: 2924
Period size: 343 Copynumber: 8.4 Consensus size: 342
686678 TCACCTCGGT
* * * ** *
686688 AAACATGAAGCGAAAGTCATCCATTCG-CAAGAAAAGTCCATTTATAGGAACTCATG-GTGTCGA
1 AAACGTGAAGCGAAAGCCATCCATT-GACAAGAAAAGTCCATTTGTAGTCACTCATGCCT-TCGA
* * * * ***
686751 AACCCTTATTACTAGCTATAAATGGTTTTATAATCTCATAATTGAGTTCAAGCCAAATTTTTTTA
64 AACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * **
686816 CATTTTTTGGTTAAAACAGATTATGATTGAATGTTT--GT-TGGAAATGTGAAGCAAAAGCCATC
129 CA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATC
* * * * **
686878 CATTGACACGAAAAGTCCATTTGTACTCATTCATGCCTTCAAAAGCCTTATTAATTACTTTAAAT
193 CATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAAT
** ** * * * *** * *
686943 GGTTTTATAATCTCATAATTTCTTCCAAATTGAATTTTCTTATATTTTACATTAAAACATATTGT
258 GGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAGATTAT
*
687008 AATTGAATCTTTAG-CTCAAG
323 AATTGAATGTTT-GCCTCAAG
* *
687028 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCTATTTGTAGTCAC-CAATACCTTCGAA
1 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTC-ATGCCTTCGAA
* * * * * * *
687092 AGCATTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAAGTTTAAGCTCAATTTTTTTGC
65 ACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* **
687157 ATTTTTAGGTTAAAATAGATTATAATTGAATGTTTACCTTGGGAAACATGAAGCAAAAGCCATCC
130 ATTTTT-GGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCC
* * *
687222 ATTGACATGCAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTATTCGCTTTAAATG
194 ATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATG
*
687287 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAAATTATA
259 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAGATTATA
* *
687352 ATTGAATGTTTTCCTTAAG
324 ATTGAATGTTTGCCTCAAG
687371 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
1 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* * * * * * *
687436 TCTTTATTACTCGCTTTAAATGGCTTTATAATCTCATAATTGATTTTAGGATGAAATTATTTTAT
66 CCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG-AATTTTTTTAC
* * * * ** ** *
687501 GTTTTGGGATAAAACATATTATAATTGAATGTTTACCTTGGGAAACATGAAGTGAAAGTCATCCA
130 ATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCA
* ** * * * * * * * **
687566 TTTACAAGAAAAGTCCATTTAAAGGCACCCATG-GTGTCGAAACCCTTATTGCTCGCTATATGTG
195 TTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCT-TCAAAAGCCTTATTACTCGCTTTAAATG
** *
687630 GTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTTTTTATTTTTTGATTAAAATAGATTA
259 GTTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTTTTTG-TTAAAACAGATTA
*
687694 TAATTGAATGTTAGCCTC-AG
322 TAATTGAATGTTTGCCTCAAG
* * *** *
687714 AAAATGTGAAGCAAAAGCCATCCATTGATGCGAAAAGTCCA-TTGTAGTCACTCATTCCTTC-AA
1 -AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAA
* * * *
687777 AGGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGGTTTTAAGTTGAATTTTTTTG
65 A-CCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * **
687842 CATTTCTTGGTTAAAACAGATTATAATTAAATGTTTGCCTCAGGAAATGTGAAGCAAAAGCCATC
129 CATTT-TTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATC
* * * *
687907 TATTGATACA-AAAAGTCCATTTGTAGTCACTCATGCCTTCATAAGCCTTATTACTCTCTTTAAA
193 CATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAA
* * * *
687971 TGGTTTGATAATCTCAAAATTGATTTTATGTTGAA-TTTTTTGCATTTTTTGGTTAAAACAGATT
257 TGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTT-GTTAAAACAGATT
* *
688035 ATAATTGAATGTTTGCCTTAGG
321 ATAATTGAATGTTTGCCTCAAG
* * * *
688057 AAACGTGAAGCGAAAACCATCTATTAACATA-AAAAGTCCATTTGTAGTCACTCATGCCTCCGAA
1 AAACGTGAAGCGAAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAA
* * * *
688121 ACCTTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGATGATTTTTTTTAC
65 ACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * * * * *
688186 GTTCTTGGTTAAAACAAATTAGAATTGAAT-TTTCACCTC-GGTAAACATGAAGCTAAAGTCATC
130 ATTTTTGGTTAAAACAGATTATAATTGAATGTTT-ACCTCAGG-AAACATGAAGCAAAAGCCATC
* * * ** *
688249 CATTCACAAGAAAAGTCCA--TGATACG-CACTCATG-GTGTCAAAACCCTTATTACTAACTATA
193 CATTGACAAGAAAAGTCCATTTG-TA-GTCACTCATGCCT-TCAAAAGCCTTATTACTCGCTTTA
* * * ** *
688310 AATGGTTTTATAATCTCATAATTGAGTTCAGGCAGAATTTTTTTTTTTCCATTTTTTGGTTAAAA
255 AATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA----TTTTTTTACATTTTTT-GTTAAAA
* * * ***
688375 CAGATTATGATTAAATGTTTGCTTGGGG
315 CAGATTATAATTGAATGTTTGCCTCAAG
** * * * ** * *
688403 AAATTTGAAGCAAAAGTCATCCATTGACACGAAAAGTTTATTTATAGTCACTCATGCCTTCAAAA
1 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
* * ** * ** *
688468 GCCTTATTAATTACTTTAAATGGTTTTATAATCTCATAATTAATTCCAAATTGAATTTTTTTACA
66 CCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
*** * * * * ** * * * *
688533 TTTTACATTAAAATAGATTGTAATTGGATCTTTGGCACAAGAAACCTGAAGCGAAAGCCATCCAT
131 TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
* * **
688598 TGACAAGAAAAGTCTATTTGTAGTCACTCATACCTTCGTAAGCCTTATTACTCGCTTTAAATGGT
196 TGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* * * * * * *
688663 TTTATAATCTCATAATTAAGTTTAAGCTGAATTGTTTTGCATTTTTAGGTTAAAATAGATTATAA
261 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-TGTTAAAACAGATTATAA
***
688728 TTGAATGTTTGCCTTGGG
325 TTGAATGTTTGCCTCAAG
* * * * * *
688746 AAACATGAAGCAAAAGCCATCCATTGACACGAAAAATCTATTTGTAATCACTCATGCCTT-GAAA
1 AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCG-AA
* * *
688810 AGCCTTATTACTCGCTTTAAATGG-TTTATAATCTCGTAATTGATTTTAAGTTAAATTTTTTTAC
65 ACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
* * * * *
688874 ATTTTTTGTTAAAACAAATTATAATTGAATGTTTGCCTCAGGAAA-AGTGAAGCGAAAGGCATCC
130 ATTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACA-TGAAGCAAAAGCCATCC
* * * *
688938 ATTGACAAGAAAAGTCCATTTGTTGTCACTAATGCCTTCAACATCCTTATTACTCGCTTTAAATG
194 ATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATG
* * * ** * ** *
689003 ATTTTATCATCTCATAATTGATTTTAAGATGAAATTTTTTTATGTTATCGGTTAAAACATATTAT
259 GTTTTATAATCTCATAATTGATTTTAAGTTG-AATTTTTTTACATTTTTTGTTAAAACAGATTAT
* *
689068 AATTGAATGTTTACCT-TAG
323 AATTGAATGTTTGCCTCAAG
** * * * * * *
689087 AAAATATGAAGTGAAAGTCATCCATTCACAAGAAAAGTCCATTTAG-AGGCAC-CTATGGCGTCG
1 -AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTT-GTAGTCACTC-ATGCCTTCG
* ** ** * *
689150 AAACCCTTATTATTCTATAGAAATGGTTTTATAATATCATAATTGATTTTAAGTTGAATTATTTT
63 AAACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
* * * * *** ** *
689215 ACATTTTTTGATTAAAATAGATTATAATCGAATG-TTAGCCTTAACCAATGTGAAGGAAAAGCCA
128 ACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTA-CCTCAGGAAACATGAAGCAAAAGCCA
*** * *
689279 TCCATTGATGTGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAGGCCTTATTACTCACTTTAA
191 TCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAA
* *
689344 ATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTGCATTTTTTGGTTAAAACAGAA
256 ATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTT-GTTAAAACAGAT
689409 TATAATTGAATGTTTGCCTCAAG
320 TATAATTGAATGTTTGCCTCAAG
* * * *
689432 AAACGTGAAGTGAAAGCCATCTATTGACATA-AAAAGTCCATTTGTAGTCATTCATGCCTTTGAA
1 AAACGTGAAGCGAAAGCCATCCATTGACA-AGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAA
* *
689496 ACCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTAC
65 ACCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC
689561 NNNNNNNNNN
Statistics
Matches: 2087, Mismatches: 387, Indels: 114
0.81 0.15 0.04
Matches are distributed among these distances:
339 7 0.00
340 136 0.07
341 68 0.03
342 409 0.20
343 848 0.41
344 342 0.16
345 4 0.00
346 206 0.10
347 64 0.03
348 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (342 bp):
AAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCGAAA
CCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACA
TTTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCAT
TGACAAGAAAAGTCCATTTGTAGTCACTCATGCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAGATTATAAT
TGAATGTTTGCCTCAAG
Found at i:691968 original size:172 final size:171
Alignment explanation
Indices: 691099--692702 Score: 1598
Period size: 171 Copynumber: 9.3 Consensus size: 171
691089 ATTTAAAATT
* * * *
691099 ACTCATGCCTTCAAAAGCCTTATTAGT-TGCTTTAAATGGTTTTATAAGCTCATAATTGCTTTTA
1 ACTCATGCCTTCGAAAGCCTTATTACTCT-CTTTAAATGGTTTTATAATCTCATAATTGATTTTA
* * * * **
691163 AGTTGAATTTATGTACA-TTTTGGTTAAAACAGATTATAATTGAATGTTTACCTCTGGAAATGTG
65 AGTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATG
* * *
691227 AAGCGAAAGGCATCCATTGATAAGAAAAGTCTATTTATAGTC
130 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
** * * * *
691269 ACTCATGTTTTCGAAAGCCTTATTTCT-TGCTTTAAATCGTTTTATAACCTTATAATTGATTTTA
1 ACTCATGCCTTCGAAAGCCTTATTACTCT-CTTTAAATGGTTTTATAATCTCATAATTGATTTTA
* * * * *
691333 AGTTCAATTTTTTTACATTTTTGGTTAAACCAGATTATAATTAAATGTTTTCCTCAGGAAACGTG
65 AGTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATG
* * * * ** ** *
691398 AGGCGAAAACAATTCATTGATGAGAAAAGTTTATTTAAAGTC
130 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* *** ** * ** * * * **
691440 ACTTATTTGTTAAAAAGCCTTATTAGTCGATTTGAATGGTTTTATAGTATCATAATTCCTTTTAA
1 ACTCATGCCTTCGAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * * * *
691505 GTTGAATTTTTGTACATTTTTTGTTCAAACAGATTATAATTGAATGTTTGCCTTAGGAAACGTGA
66 GTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATGA
* * **
691570 AGCAAAAGACATCCATTGACAAGAAAAGTCCATTTATCCTC
131 AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* * *
691611 ACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACCTCATAATTGATTTTAA
1 ACTCATGCCTTCGAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * ** **
691676 GTTGAGTTTTTTTATATTTTTTATTAAAACAGATTATAATTGAATGTTTAG-CTTGGGAAACATG
66 GTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTT-GCCTCAGGAAACATG
* * *
691740 AAGTGAAAGCCATCCATTGAGAAGAAAAGTTCATTTATAGTC
130 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* * *
691782 ACTTATCCCTTCGAAAGCCTTATTACTCTCTTTAAATAGTTTTATAATCTCATAATTGATTTTAA
1 ACTCATGCCTTCGAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * *
691847 GTTGAATTTTTTTTACATTTTTGGTTTAAACATATTATAATTGAATGTTTGCCTCAGGGAACATG
66 GTTGAA-TTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATG
* * ** * * * *
691912 AAGTGACAGTAATTCATTGACACGAAATGTCCATTTGTAGTC
130 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* * * ** *
691954 ACTGATGCCTTCGAAAGCCTTGTTTATTAACTTTAAATGGTTTTATAATCTCATAATTAATTTTA
1 ACTCATGCCTTCGAAAGCCTT-ATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTA
* * ** * ** *
692019 AGATGATTTTTTTTAGGTTTTTGGTTAAAACAGATTATAATAGAATGTTTATCTCAGGAAATATG
65 AGTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATG
* * * * * *
692084 AAGCGAAAGTCATCCATTTATAAAAAAAGTCTATTTATAGGC
130 AAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
** * * *
692126 ACTCATGGAGTT-GAAA-CCATTATTACTCACTATAAATGGTTTAATAATCTCATAATTGATTTT
1 ACTCAT-GCCTTCGAAAGCC-TTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* *
692189 AAGCTGAATTTTTTTTTACATTTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCTC-GAGAA
64 AAGTTGAA--TTTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAG-GAA
* * * * * * *
692253 ACATAAAGCAAAAGCCATCAATTTACAGGAAAAGTTCATTTGTAGTC
125 ACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
** * *
692300 ACTCATGCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTGAA
1 ACTCATGCCTTCGAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * * *
692365 GATGCAATTTTTTT--ATGTTTTGGATTAAAACAGATTATAACTGAATGTTTACCT-TGAGAAAC
66 GTTG-AATTTTTTTACAT-TTTTGG-TTAAAACAGATTATAATTGAATGTTTGCCTCAG-GAAAC
* * * * * *
692427 ATGAAGTGAAAGTCATCCATTCAAAAGAAAAGTCCATTTAAAGGC
127 ATGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* * * * * * * *
692472 AC-CAAAGGCATCGAAACCCTTATTACTAGT-TATAAATGGTTTTGTATTCTCATAATTGATTTT
1 ACTC-ATGCCTTCGAAAGCCTTATTACT-CTCTTTAAATGGTTTTATAATCTCATAATTGATTTT
* ** * * * **
692535 AAGTTGAATTTTTTTATATTTTTTTATTAAAATAGATTATAATTGAATGTTAGCCTTAGGAAAGG
64 AAGTTGAATTTTTTTACA-TTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACA
* *
692600 TGAAGCGAAAGCCATCTATTGACACA-AAAAGTCCATTTGTAGTC
128 TGAAGCGAAAGCCATCCATTGACA-AGAAAAGTCCATTTATAGTC
692644 ACTCATGCCTTC-ATAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGA
1 ACTCATGCCTTCGA-AAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGA
692703 NNNNNNNNNN
Statistics
Matches: 1169, Mismatches: 237, Indels: 54
0.80 0.16 0.04
Matches are distributed among these distances:
170 70 0.06
171 476 0.41
172 420 0.36
173 72 0.06
174 127 0.11
175 4 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (171 bp):
ACTCATGCCTTCGAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
GTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTCAGGAAACATGA
AGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
Found at i:692068 original size:344 final size:341
Alignment explanation
Indices: 690514--692702 Score: 2007
Period size: 344 Copynumber: 6.4 Consensus size: 341
690504 NNNNNNNNNN
* * *
690514 AAACAGATTATAATTGAATGTTTGCCTTAGGAAACGTGAAGCGAAAACCA-TCTATTAACACA-A
1 AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTC-ATTGACA-AGA
* *
690577 AAAGTCCATTTGTAGTCACTCATGCCTTC-ATAAGCCTTATTACTCTCTTTAAATGGTTTGATAA
64 AAAGTCCATTTGTAGTCACTCATGCCTTCGA-AAGCCTTATTACTCGCTTTAAATGGTTTTATAA
* * * *
690641 TCTCAAAATTGATTTTATGTTGA-ATTTTTTGCATTTTTTGGTTAAAACAGATTATAATTGAATG
128 TCTCATAATTGATTTTAAGTTGATTTTTTTTACA-TTTTTGGTTAAAACAGATTATAA-TGAATG
* * * * * * * **
690705 TTTGCCTTAGGAAACGTGAAGCGAAAACCATCTATTAACATA-AAAAGTCCATTTGTAGTCACTC
191 TTTACCTTAGGAAACATGAAGCGAAAGCCATCCATTGAGA-AGAAAAGTTCATTTAAAGTCACTC
* ** * * ** * * *
690769 ATACCTTCAAAAGCCTTATTACTCGATCTAAATAGTTTTATAGCCTCATAATTGTTTTTAAGCTA
255 ATGCCTTCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTG
* *
690834 AATGTTTTTCACATTTTTTAGTTA
320 AAT-TTTTTTACA-TTTTTGGTTA
* * * * * * * * * *
690858 AAATAAATTATAATTAAATGTTTACCT-TGAGAAACATGAAGCAAAAGCCATCCATTAAGAAGAA
1 AAACAGATTATAATTGAATGTTTGCCTCAG-GAAACGTGAAGCGAAAGCCATTCATTGACAAGAA
* * * * * *
690922 AAGTTCATATATAGTCACTCATGCCTTCGAAAGCCTTATTAGTCGCTTTAAATAGTTTTATAACC
65 AAGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * *
690987 TCATAATTGATTTTAAGTTTAATTTTTTTTACATTTTTAGTGAAAACAGA-T-T-AT--A-----
130 TCATAATTGATTTTAAG-TTGATTTTTTTTACATTTTTGGTTAAAACAGATTATAATGAATGTTT
* * * * * * * * * *
691042 ACCTT-GAGAAACGTGAGGCAAAAGTCATCTATTG-GTAGAAAAATTTTATTTAAAATTACTCAT
194 ACCTTAG-GAAACATGAAGCGAAAGCCATCCATTGAGAAG-AAAAGTTCATTTAAAGTCACTCAT
* * *
691105 GCCTTCAAAAGCCTTATTAGT-TGCTTTAAATGGTTTTATAAGCTCATAATTGCTTTTAAGTTGA
257 GCCTTCAAAAGCCTTATTACTCT-CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGA
* *
691169 ATTTATGTACA-TTTTGGTTA
321 ATTTTTTTACATTTTTGGTTA
* * * * * *
691189 AAACAGATTATAATTGAATGTTTACCTCTGGAAATGTGAAGCGAAAGGCATCCATTGATAAGAAA
1 AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTCATTGACAAGAAA
* * ** * * * *
691254 AGTCTATTTATAGTCACTCATGTTTTCGAAAGCCTTATTTCTTGCTTTAAATCGTTTTATAACCT
66 AGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCT
* * * * * *
691319 TATAATTGATTTTAAGTTCAATTTTTTTACATTTTTGGTTAAACCAGATTATAATTAAATGTTTT
131 CATAATTGATTTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGATTATAA-TGAATGTTTA
* * * * * * * * **
691384 CCTCAGGAAACGTGAGGCGAAAACAATTCATTGATG-AGAAAAGTTTATTTAAAGTCACTTATTT
195 CCTTAGGAAACATGAAGCGAAAGCCATCCATTGA-GAAGAAAAGTTCATTTAAAGTCACTCATGC
* * * ** * * * **
691448 GTTAAAAAGCCTTATTAGTCGATTTGAATGGTTTTATAGTATCATAATTCCTTTTAAGTTGAATT
259 CTTCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATT
* * *
691513 TTTGTACATTTTTTGTTC
324 TTTTTACATTTTTGGTTA
* * * *
691531 AAACAGATTATAATTGAATGTTTGCCTTAGGAAACGTGAAGCAAAAGACATCCATTGACAAGAAA
1 AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTCATTGACAAGAAA
* ** * * *
691596 AGTCCATTTATCCTCACTCATGCCTTTGAAAGCCTTATTACTCACTTTAAATGGTTTTATAACCT
66 AGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCT
* * **
691661 CATAATTGATTTTAAGTTGAGTTTTTTTATATTTTTTATTAAAACAGATTATAATTGAATGTTTA
131 CATAATTGATTTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGATTATAA-TGAATGTTTA
* * * * * *
691726 GCTTGGGAAACATGAAGTGAAAGCCATCCATTGAGAAGAAAAGTTCATTTATAGTCACTTATCCC
195 CCTTAGGAAACATGAAGCGAAAGCCATCCATTGAGAAGAAAAGTTCATTTAAAGTCACTCATGCC
* *
691791 TTCGAAAGCCTTATTACTCTCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATTT
260 TTCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA-TT
*
691856 TTTTTACATTTTTGGTTT
324 TTTTTACATTTTTGGTTA
* * * * * ** *
691874 AAACATATTATAATTGAATGTTTGCCTCAGGGAACATGAAGTGACAGTAATTCATTGACACGAAA
1 AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTCATTGACAAGAAA
* * * * **
691939 TGTCCATTTGTAGTCACTGATGCCTTCGAAAGCCTTGTTTATTAACTTTAAATGGTTTTATAATC
66 AGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTT-ATTACTCGCTTTAAATGGTTTTATAATC
* * **
692004 TCATAATTAATTTTAAGATGATTTTTTTTAGGTTTTTGGTTAAAACAGATTATAATAGAATGTTT
130 TCATAATTGATTTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGATTATAAT-GAATGTTT
* * * * * * * * *
692069 ATCTCAGGAAATATGAAGCGAAAGTCATCCATTTATAAAAAAAG-TCTATTTATAGGCACTCATG
194 ACCTTAGGAAACATGAAGCGAAAGCCATCCATTGAGAAGAAAAGTTC-ATTTAAAGTCACTCAT-
** * * * * *
692133 GAGTT-GAAA-CCATTATTACTCACTATAAATGGTTTAATAATCTCATAATTGATTTTAAGCTGA
257 GCCTTCAAAAGCC-TTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGA
692196 ATTTTTTTTTACATTTTTTGGTTA
321 A--TTTTTTTACA-TTTTTGGTTA
* * * * * *
692220 AAATAGATTATAATTGAATGTTTGCCTC-GAGAAACATAAAGCAAAAGCCA-TCAATTTACAGGA
1 AAACAGATTATAATTGAATGTTTGCCTCAG-GAAACGTGAAGCGAAAGCCATTC-ATTGACAAGA
* **
692283 AAAGTTCATTTGTAGTCACTCATGCCTTTAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAT
64 AAAGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAT
* * *
692348 CTCATAATTGATTTGAAGATGCAATTTTTTT--ATGTTTTGGATTAAAACAGATTATAACTGAAT
129 CTCATAATTGATTTTAAGTTG-ATTTTTTTTACAT-TTTTGG-TTAAAACAGATTATAA-TGAAT
* * * * * *
692411 GTTTACCTT-GAGAAACATGAAGTGAAAGTCATCCATTCAAAAGAAAAGTCCATTTAAAGGCAC-
190 GTTTACCTTAG-GAAACATGAAGCGAAAGCCATCCATTGAGAAGAAAAGTTCATTTAAAGTCACT
* * * * * * * * *
692474 CAAAGGCATCGAAACCCTTATTACTAGT-TATAAATGGTTTTGTATTCTCATAATTGATTTTAAG
254 C-ATGCCTTCAAAAGCCTTATTACT-CTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
* **
692538 TTGAATTTTTTTATATTTTTTTATTA
317 TTGAATTTTTTTACA-TTTTTGGTTA
* * * *
692564 AAATAGATTATAATTGAATGTTAGCCTTAGGAAAGGTGAAGCGAAAGCCA-TCTATTGACACA-A
1 AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTC-ATTGACA-AGA
*
692627 AAAGTCCATTTGTAGTCACTCATGCCTTC-ATAAGCCTTATTACTCTCTTTAAATGGTTTTATAA
64 AAAGTCCATTTGTAGTCACTCATGCCTTCGA-AAGCCTTATTACTCGCTTTAAATGGTTTTATAA
692691 TCTCATAATTGA
128 TCTCATAATTGA
692703 NNNNNNNNNN
Statistics
Matches: 1529, Mismatches: 265, Indels: 102
0.81 0.14 0.05
Matches are distributed among these distances:
330 27 0.02
331 133 0.09
332 4 0.00
333 8 0.01
334 98 0.06
336 1 0.00
339 1 0.00
341 108 0.07
342 280 0.18
343 111 0.07
344 440 0.29
345 89 0.06
346 225 0.15
347 4 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (341 bp):
AAACAGATTATAATTGAATGTTTGCCTCAGGAAACGTGAAGCGAAAGCCATTCATTGACAAGAAA
AGTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCT
CATAATTGATTTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGATTATAATGAATGTTTAC
CTTAGGAAACATGAAGCGAAAGCCATCCATTGAGAAGAAAAGTTCATTTAAAGTCACTCATGCCT
TCAAAAGCCTTATTACTCTCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
TTTACATTTTTGGTTA
Found at i:694067 original size:172 final size:171
Alignment explanation
Indices: 693780--695239 Score: 1586
Period size: 172 Copynumber: 8.5 Consensus size: 171
693770 NNNNNNNNTA
* * *
693780 TAAATGGTTTTATAATCTCATAATTGATTTTAA-TTGAATTTTGTTTGCATTGTTTTGGCTAAAA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTT-TTT--ATTTTTTTGGTTAAAA
* * ** **
693844 TAGATTATAATTGAATGTTTTCCTCAAGAAATGTGAAGCAAAAGCCATCCATTGACACA-AAAAG
63 CAGATTATAATTGAATGTTTGCCTTGAGAAACATGAAGCAAAAGCCATCCATTGACA-AGAAAAG
* ** * *
693908 TCCATTTGTAGTCAATCACACCTTCAAAAGCGTTATTACTCGCTT
127 TCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
*
693953 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTTTTGTTTTTGGTTAAAACA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTATT-TTTTTGGTTAAAACA
* *
694018 GATTATAATTGAATGTTTACCTTGAGAAACATGAAGCAAAAGTCATCCATTGACAAGAAAAGTCC
65 GATTATAATTGAATGTTTGCCTTGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC
* * * * *
694083 ATTTATAGGCACTCATGGCGTCGAAACCCTTATTACTCGCTAT
130 ATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCT-T
* * * * * *
694126 T-AATGGTTTTATAATCTCATAATTGATTTTCA-CTCGAATTCTTTTACATTTGTTGGTTAAAAT
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGAT-GAATTTTTTTA-TTTTTTTGGTTAAAAC
* * * * *
694189 AGATTATAATTGAATATTTGCCTCCGA-AAACATAAAGCAAAAGCCATCAATTGACAAGAAAAGA
64 AGATTATAATTGAATGTTTGCCT-TGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* **
694253 CCATTTGTAGTCACTCATGCCTTCCAAAGCAGTATTACTCGCTT
128 CCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
* *
694297 TAAATGGTTTTATAATGTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAAC
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTT--ATTTTTTTGGTTAAAAC
* * * * ** *
694362 ATATTACAATTGAATGTTTGCC-TCAGGAA-ATGCAAAGTGAAAGCCAT-CATTTGACACGAAAA
64 AGATTATAATTGAATGTTTGCCTTGAGAAACATG--AAGCAAAAGCCATCCA-TTGACAAGAAAA
*
694424 GTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCACTT
126 GTCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
* ** * *
694470 TAAATGGTTTTATAATCTCATTATTGATTTTAAGATGAATTTTTTTACGTTTTTGCTTAAAACAA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTATTTTTTTGGTTAAAACAG
* * * * *
694535 ATTATAATTGAATGTTTACCAT-AGGAAACATGAAGCAGAAGTCATCCATTCACAAGAAAAGTCC
66 ATTATAATTGAATGTTTGCCTTGA-GAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC
* * * * * * * * *
694599 ATTTATGGGCGCTCATGGCATCGAAACCCTTATTACTCACTA
130 ATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
* * * *
694641 TAAATGGTTTTATAATCTCATAACTGATTTTCA-TTGAATTTTTTTACATTTTTTTGGTTAAAAT
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTT--ATTTTTTTGGTTAAAAC
* ** * * * *
694705 AGATTATAATTGAATGTTTGCCTCGAGAAATGTGAAGTAAAAGCGATCCATTGATACGAAAAGTC
64 AGATTATAATTGAATGTTTGCCTTGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
* * ** * *
694770 CATTGGTAGTCACTCACAG-CTTTAAAAGCGTTATTACTCTCTT
129 CATTTGTAGTCACTCA-TGCCTTCGAAAGCCTTATTACTCGCTT
* *
694813 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAAAGTTTTTT-TGTTTTTGGTTAAAACA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATG-AATTTTTTTATTTTTTTGGTTAAAACA
694877 GATTATAATTGAATG-TTGACCTTGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
65 GATTATAATTGAATGTTTG-CCTTGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
** * * *
694941 CATTTACAGGCACTCATGGCTTCGAAACCCTTATTACTCGCTAT
129 CATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCT-T
* * *
694985 T-AATGGTTTTATAATCTCATAATTGATTTTTAG-TCGAATTGTTTTGCA-TTTTTTGGTTAGAA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGAT-GAATT-TTTT-TATTTTTTTGGTTAAAA
* * * ** * *
695047 CAGATGATGATTGAATGTTTGCC-TCAGGAAATGTGAAGCAAATGCCATCCATTGACACGAAAAG
63 CAGATTATAATTGAATGTTTGCCTTGA-GAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAG
* * *
695111 TCCATTTGTAGTCACTCATACCTTCGAAAGCCTTATTAATTGCTT
127 TCCATTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
* * * * * * *
695156 TAAATGGTTTTATAATCTCATAATTTAGTTTAAGCTGCATTTTTTTACATTTTTAGGTTAAAATA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTA-TTTTTTTGGTTAAAACA
695221 GATTATAATTGAATGTTTG
65 GATTATAATTGAATGTTTG
695240 GCTTNNNNNN
Statistics
Matches: 1072, Mismatches: 177, Indels: 77
0.81 0.13 0.06
Matches are distributed among these distances:
170 20 0.02
171 272 0.25
172 572 0.53
173 191 0.18
174 17 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (171 bp):
TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTATTTTTTTGGTTAAAACAG
ATTATAATTGAATGTTTGCCTTGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
TTTGTAGTCACTCATGCCTTCGAAAGCCTTATTACTCGCTT
Found at i:694772 original size:343 final size:344
Alignment explanation
Indices: 693780--695238 Score: 1735
Period size: 343 Copynumber: 4.2 Consensus size: 344
693770 NNNNNNNNTA
* * * *
693780 TAAATGGTTTTATAATCTCATAATTGATTTTAA-TTGAATTTTGTTTGCATTGTTTTGGCTAAAA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTT-TTTAC-GT-TTTTGGTTAAAA
* * **
693844 TAGATTATAATTGAATGTTTTCCTCAAGAAATGTGAAGCAAAAGCCATCCATTGACACA-AAAAG
63 TAGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCATTGACA-AGAAAAG
* * * ** * * * *
693908 TCCATTTGTAGTCAATCACACCTTCAAAAGCGTTATTACTCGCTTTAAATGGTTTTATAATCTCA
127 TCCATTTATAGGCACTCATGCCTTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCA
* *
693973 TAATTGATTTTAAGATGAATTTTTTT--TTTGTTTTTGGTTAAAACAGATTATAATTGAATGTTT
192 TAATTGATTTTAAGTTGAATTTTTTTACATT-TTTTTGGTTAAAACAGATTATAATTGAATGTTT
* * ** * * * *
694036 ACCT-TGAGAAACATGAAGCAAAAGTCATCCATTGACAAGAAAAGTCCATTTATAGGCACTCATG
256 GCCTCAG-GAAATGTGAAGCAAAAGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATG
* * *
694100 GCGTCGAAACCCTTATTACTCGCTAT
320 CCTTCGAAAGCCTTATTACTCGCT-T
* * * *
694126 T-AATGGTTTTATAATCTCATAATTGATTTTCA-CTCGAATTCTTTTACATTTGTTGGTTAAAAT
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGAT-GAATTTTTTTACGTTT-TTGGTTAAAAT
* * * * * * *
694189 AGATTATAATTGAATATTTGCCTCCGAAAACATAAAGCAAAAGCCATCAATTGACAAGAAAAGAC
64 AGATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTC
* * * * ** * *
694254 CATTTGTAGTCACTCATGCCTTCCAAAGCAGTATTACTCGCTTTAAATGGTTTTATAATGTCATA
129 CATTTATAGGCACTCATGCCTTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCATA
* *
694319 ATTGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAACATATTACAATTGAATGTTTGCC
194 ATTGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAACAGATTATAATTGAATGTTTGCC
** **
694384 TCAGGAAATGCAAAGTGAAAGCCAT-CATTTGACACGAAAAGTCCATTTGTAGTCACTCATGCCT
259 TCAGGAAATGTGAAGCAAAAGCCATCCA-TTGACACGAAAAGTCCATTTGTAGTCACTCATGCCT
*
694448 TCGAAAGCCTTATTACTCACTT
323 TCGAAAGCCTTATTACTCGCTT
* * * *
694470 TAAATGGTTTTATAATCTCATTATTGATTTTAAGATGAATTTTTTTACGTTTTTGCTTAAAACAA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTACGTTTTTGGTTAAAATAG
* * *
694535 ATTATAATTGAATGTTTACCAT-AGGAAACATGAAGCAGAAGTCATCCATTCACAAGAAAAGTCC
66 ATTATAATTGAATGTTTACC-TCAGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCC
* * * * *
694599 ATTTATGGGCGCTCATGGCATCGAAACCCTTATTACTCACTATAAATGGTTTTATAATCTCATAA
130 ATTTATAGGCACTCATGCCTTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCATAA
* * *
694664 CTGATTTTCA-TTGAATTTTTTTACATTTTTTTGGTTAAAATAGATTATAATTGAATGTTTGCCT
195 TTGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCT
* * * * *
694728 C-GAGAAATGTGAAGTAAAAGCGATCCATTGATACGAAAAGTCCATTGGTAGTCACTCACAG-CT
260 CAG-GAAATGTGAAGCAAAAGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCA-TGCCT
** * *
694791 TTAAAAGCGTTATTACTCTCTT
323 TCGAAAGCCTTATTACTCGCTT
*
694813 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAAAGTTTTTTT--GTTTTTGGTTAAAAC
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATG-AA-TTTTTTTACGTTTTTGGTTAAAAT
* *
694876 AGATTATAATTGAATGTTGACCT-TGAGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGT
64 AGATTATAATTGAATGTTTACCTCAG-GAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGT
* * *
694940 CCATTTACAGGCACTCATGGCTTCGAAACCCTTATTACTCGCTATTAATGGTTTTATAATCTCAT
128 CCATTTATAGGCACTCATGCCTTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCAT
* * * * * * *
695005 AATTGATTTTTAGTCGAATTGTTTTGCA-TTTTTTGGTTAGAACAGATGATGATTGAATGTTTGC
193 AATTGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAACAGATTATAATTGAATGTTTGC
* *
695069 CTCAGGAAATGTGAAGCAAATGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATACCT
258 CTCAGGAAATGTGAAGCAAAAGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCT
* *
695134 TCGAAAGCCTTATTAATTGCTT
323 TCGAAAGCCTTATTACTCGCTT
* * * * *
695156 TAAATGGTTTTATAATCTCATAATTTAGTTTAAGCTGCATTTTTTTACATTTTTAGGTTAAAATA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTACGTTTTT-GGTTAAAATA
695221 GATTATAATTGAATGTTT
65 GATTATAATTGAATGTTT
695239 GGCTTNNNNN
Statistics
Matches: 958, Mismatches: 133, Indels: 46
0.84 0.12 0.04
Matches are distributed among these distances:
341 7 0.01
342 4 0.00
343 437 0.46
344 315 0.33
345 184 0.19
346 11 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (344 bp):
TAAATGGTTTTATAATCTCATAATTGATTTTAAGATGAATTTTTTTACGTTTTTGGTTAAAATAG
ATTATAATTGAATGTTTACCTCAGGAAACATGAAGCAAAAGCCATCCATTGACAAGAAAAGTCCA
TTTATAGGCACTCATGCCTTCGAAACCCTTATTACTCGCTATAAATGGTTTTATAATCTCATAAT
TGATTTTAAGTTGAATTTTTTTACATTTTTTTGGTTAAAACAGATTATAATTGAATGTTTGCCTC
AGGAAATGTGAAGCAAAAGCCATCCATTGACACGAAAAGTCCATTTGTAGTCACTCATGCCTTCG
AAAGCCTTATTACTCGCTT
Found at i:695685 original size:13 final size:14
Alignment explanation
Indices: 695662--695692 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
695652 GAAACTTAAT
695662 TTTCTTTTGTTTTC
1 TTTCTTTTGTTTTC
695676 TTTC-TTTGTTTTC
1 TTTCTTTTGTTTTC
695689 TTTC
1 TTTC
695693 CATTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTCTTTTGTTTTC
Found at i:697029 original size:38 final size:40
Alignment explanation
Indices: 696979--697084 Score: 153
Period size: 38 Copynumber: 2.7 Consensus size: 40
696969 ATAGTGCTCG
*
696979 TGTGCACAATGTGGGGGGATGTACATGATGGCACT-GAT-
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
* * * *
697017 TGTGCATGATGTGGGGGGATGCACATGATGGCGCTGGCTA
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
697057 TGTGCACGATGTGGGGGGATGTACATGA
1 TGTGCACGATGTGGGGGGATGTACATGA
697085 GAAGGGTGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.53
39 2 0.03
40 26 0.44
ACGTcount: A:0.21, C:0.13, G:0.41, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
Found at i:702844 original size:3 final size:3
Alignment explanation
Indices: 702836--702868 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
702826 ATAAATAAAG
*
702836 TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
702869 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:712792 original size:57 final size:58
Alignment explanation
Indices: 712683--712794 Score: 190
Period size: 57 Copynumber: 1.9 Consensus size: 58
712673 ATCTTTTGTA
* *
712683 TGCATAGCATTTATTAAATTGCATAAAATAAATCTATCACATGCATACTACTTTGCAT
1 TGCATAACATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTACTTTGCAT
*
712741 TGCATAACATTTATTAAATTGCAT-AAATAAATCTATCATATGCAAACTACTTTG
1 TGCATAACATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTACTTTG
712795 GATGATTATG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 28 0.55
58 23 0.45
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (58 bp):
TGCATAACATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTACTTTGCAT
Found at i:720599 original size:28 final size:30
Alignment explanation
Indices: 720541--720600 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
720531 TTTTTGAAAT
* *
720541 TTACACTTTTGCCCCCATAAAAGTTAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
*
720571 TTACATTTTTG-CCCCA-AAAACTGAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
720599 TT
1 TT
720601 GCCCACAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 5 0.19
30 10 0.37
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAACTGAAAAA
Found at i:720790 original size:19 final size:19
Alignment explanation
Indices: 720766--720803 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
720756 TTGCCAAACC
*
720766 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
*
720785 CTCAAATCATACTCGAATA
1 CTCAAATCATACTCCAATA
720804 AGTTAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:724294 original size:20 final size:20
Alignment explanation
Indices: 724271--724308 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
724261 ATCAAATCTC
*
724271 ATTTCATTTCATATAAATTA
1 ATTTCATTTCATAAAAATTA
724291 ATTTCATTTCATAAAAAT
1 ATTTCATTTCATAAAAAT
724309 CAACAAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATTA
Found at i:751991 original size:38 final size:39
Alignment explanation
Indices: 751902--752007 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 39
751892 CACACCCGGC
*
751902 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAGG-ACCA
* *
751942 TCATGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAG-GACCA
*
751980 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
752008 CGGGCACTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 29 0.48
39 3 0.05
40 28 0.47
ACGTcount: A:0.24, C:0.42, G:0.15, T:0.20
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCAGGACCA
Found at i:760664 original size:39 final size:39
Alignment explanation
Indices: 760609--760710 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
760599 GCTAATATCC
* *
760609 TCATGTGCACTCCCACACCGCACATGGCATCTATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* **
760648 TCATGTGCTCTTCCACACCAAACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * *
760687 GCGTGTGCTCTCCCACACTGCACA
1 TCATGTGCTCTCCCACACCGCACA
760711 CTACCGGCAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
Found at i:772907 original size:84 final size:84
Alignment explanation
Indices: 772771--772967 Score: 261
Period size: 84 Copynumber: 2.3 Consensus size: 84
772761 GTAATGATAT
* *
772771 TGACCCGACTATGTGCAAGTAGGAGTGCGTATAAGCCGATGATGACCCGACTATGTGCAAGTAGG
1 TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGCCGATGATGACCCGACTATGTGCAAGTAGG
772836 AATGCGCATAAGCCAATGA
66 AATGCGCATAAGCCAATGA
* * ** *
772855 TGACCCGACTATGTGCGAGTGGGAGTGCGCATAAGTCGATGATGACCCGACTATGTGTGAGTTGG
1 TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGCCGATGATGACCCGACTATGTGCAAGTAGG
* *
772920 AGTGCGCATAAGCCGATGA
66 AATGCGCATAAGCCAATGA
* * *
772939 TAACCC-AGCCATGTGCTAGTGGGGAGTGC
1 TGACCCGA-CTATGTGCAAGT-GGGAGTGC
772968 ATATGAGCTG
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
83 1 0.01
84 90 0.91
85 8 0.08
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.21
Consensus pattern (84 bp):
TGACCCGACTATGTGCAAGTGGGAGTGCGCATAAGCCGATGATGACCCGACTATGTGCAAGTAGG
AATGCGCATAAGCCAATGA
Found at i:772953 original size:42 final size:42
Alignment explanation
Indices: 772771--772944 Score: 258
Period size: 42 Copynumber: 4.1 Consensus size: 42
772761 GTAATGATAT
* *
772771 TGACCCGACTATGTGCAAGTAGGAGTGCGTATAAGCCGATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
772813 TGACCCGACTATGTGCAAGTAGGAATGCGCATAAGCCAATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* *
772855 TGACCCGACTATGTGCGAGTGGGAGTGCGCATAAGTCGATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* *
772897 TGACCCGACTATGTGTGAGTTGGAGTGCGCATAAGCCGATGA
1 TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
*
772939 TAACCC
1 TGACCC
772945 AGCCATGTGC
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 120 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
Found at i:773015 original size:2 final size:2
Alignment explanation
Indices: 773008--773034 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
772998 ATGATGATGG
773008 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
773035 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:773117 original size:2 final size:2
Alignment explanation
Indices: 773110--773139 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
773100 NNNNNNNTAG
773110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
773140 CATACATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:775087 original size:22 final size:22
Alignment explanation
Indices: 775045--775087 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
775035 GTGAAGAATT
* *
775045 TCAAGAGAAAAAGTGTGAAAAA
1 TCAAGAAAAAAAGTGTAAAAAA
775067 TCAAGAAAAACAAGTG-AAAAA
1 TCAAGAAAAA-AAGTGTAAAAA
775088 GGTAGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (22 bp):
TCAAGAAAAAAAGTGTAAAAAA
Found at i:777328 original size:22 final size:22
Alignment explanation
Indices: 777297--777359 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
777287 GATTGGTATC
*
777297 AGAGTCTTTGGTTTTAAAGATA
1 AGAGTTTTTGGTTTTAAAGATA
*
777319 AGAGTTTTTGGTTATAAAGATA
1 AGAGTTTTTGGTTTTAAAGATA
777341 AGAGTTTTTGGTTTTAAAG
1 AGAGTTTTTGGTTTTAAAG
777360 TGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.43
Consensus pattern (22 bp):
AGAGTTTTTGGTTTTAAAGATA
Found at i:789364 original size:20 final size:20
Alignment explanation
Indices: 789347--789384 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
789337 CCTCAAATCT
789347 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
789367 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
789385 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:805122 original size:17 final size:17
Alignment explanation
Indices: 805100--805138 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
805090 CAAAGTAAAA
*
805100 AATTATACTCTTTAGGC
1 AATTATACTCTTTAGAC
*
805117 AATTATACTTTTTAGAC
1 AATTATACTCTTTAGAC
805134 AATTA
1 AATTA
805139 AGCAATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (17 bp):
AATTATACTCTTTAGAC
Found at i:805303 original size:195 final size:191
Alignment explanation
Indices: 804960--805530 Score: 752
Period size: 195 Copynumber: 3.0 Consensus size: 191
804950 TTTTACTCCA
* * * * *
804960 TAGGACCATAACATATTATATATAATAATGCAAAATATTCTAGTAATGTTACGTTAAAAAAGTAA
1 TAGGA-CATAACATATTGTATACAATAATACAAAATATTCTAGTAATGTTACGCTAAAAAAAT-A
* *
805025 AAGATTTTTAAAAAAGTACAAATTGCATAAATGCTCAAATCGAATCAACTGATTGTAAGAAAAAT
64 AAGATTTTTAGAAAAGTACATATTGCATAAATGCTCAAATCGAATCAACTGATTGTAAGAAAAAT
* *
805090 CAAAGTAAAAAATTATACTCTTTAGGCAATTATACTTTTTAGACAATTAAGCAATGCATCTTT
129 CAAAGTAAAAAATTATACTCTTTAGGCAATTATACTCTTTAGACAATTAAGAAATGCATCTTT
*
805153 TAGGATCATAACATATTGTATACAATAATACAAAATATTCTAGTAATGTTATGCTAAAAAAATGA
1 TAGGA-CATAACATATTGTATACAATAATACAAAATATTCTAGTAATGTTACGCTAAAAAAAT-A
* * *
805218 AAGATTTTTAGGAAAAGCACATATTGCATAAAATACTCAAATCGAATCAAATGATTGTAAGAAAA
64 AAGATTTTTA-GAAAAGTACATATTGCAT-AAATGCTCAAATCGAATCAACTGATTGTAAGAAAA
*
805283 ATCAAAGTAAAAAATTATACTCTTTAGGCAGTTATACTCTTTAGACAATTAAGAAATGCATCTTT
127 ATCAAAGTAAAAAATTATACTCTTTAGGCAATTATACTCTTTAGACAATTAAGAAATGCATCTTT
** * *
805348 T---AC-T--C----TGTA-AGGA-AATACAAAATCTTCTAGTAATGTTACGCTAAAAACATAAT
1 TAGGACATAACATATTGTATACAATAATACAAAATATTCTAGTAATGTTACGCTAAAAAAATAA-
* *
805401 GGATTTTAAAGAAAAGTACATATTGCATAAATGCTCAAATCGAATCAACTGATTGTAAGAAAAAT
65 AGATTTT-TAGAAAAGTACATATTGCATAAATGCTCAAATCGAATCAACTGATTGTAAGAAAAAT
** * * * *
805466 CAAAGTAAAAAATTATACTCTTTACACAATTATTCTCTTTATACAATTAAGTAATGCATTTTT
129 CAAAGTAAAAAATTATACTCTTTAGGCAATTATACTCTTTAGACAATTAAGAAATGCATCTTT
805529 TA
1 TA
805531 CGTATATATT
Statistics
Matches: 340, Mismatches: 33, Indels: 21
0.86 0.08 0.05
Matches are distributed among these distances:
181 94 0.28
182 57 0.17
183 3 0.01
184 4 0.01
188 1 0.00
190 1 0.00
191 1 0.00
192 1 0.00
193 67 0.20
194 15 0.04
195 96 0.28
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (191 bp):
TAGGACATAACATATTGTATACAATAATACAAAATATTCTAGTAATGTTACGCTAAAAAAATAAA
GATTTTTAGAAAAGTACATATTGCATAAATGCTCAAATCGAATCAACTGATTGTAAGAAAAATCA
AAGTAAAAAATTATACTCTTTAGGCAATTATACTCTTTAGACAATTAAGAAATGCATCTTT
Found at i:805484 original size:181 final size:182
Alignment explanation
Indices: 805179--805531 Score: 539
Period size: 181 Copynumber: 1.9 Consensus size: 182
805169 TGTATACAAT
* * *
805179 AATACAAAATATTCTAGTAATGTTATGCTAAAAAAATGAAAGATTTTTAGGAAAAGCACATATTG
1 AATACAAAATATTCTAGTAATGTTACGCTAAAAAAATGAAAGATTTTAAAGAAAAGCACATATTG
805244 CATAAAATACTCAAATCGAATCAAATGATTGTAAGAAAAATCAAAGTAAAAAATTATACTCTTTA
66 CATAAAATACTCAAATCGAATCAAATGATTGTAAGAAAAATCAAAGTAAAAAATTATACTCTTTA
** *
805309 GGCAGTTATACTCTTTAGACAATTAAGAAATGCATCTTTTACTCTGTAAGGA
131 CACAATTATACTCTTTAGACAATTAAGAAATGCATCTTTTACTCTGTAAGGA
* * * *
805361 AATACAAAATCTTCTAGTAATGTTACGCTAAAAACAT-AATGGATTTTAAAGAAAAGTACATATT
1 AATACAAAATATTCTAGTAATGTTACGCTAAAAAAATGAA-AGATTTTAAAGAAAAGCACATATT
* *
805425 GCAT-AAATGCTCAAATCGAATCAACTGATTGTAAGAAAAATCAAAGTAAAAAATTATACTCTTT
65 GCATAAAATACTCAAATCGAATCAAATGATTGTAAGAAAAATCAAAGTAAAAAATTATACTCTTT
* * * *
805489 ACACAATTATTCTCTTTATACAATTAAGTAATGCATTTTTTAC
130 ACACAATTATACTCTTTAGACAATTAAGAAATGCATCTTTTAC
805532 GTATATATTA
Statistics
Matches: 154, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
181 96 0.62
182 58 0.38
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (182 bp):
AATACAAAATATTCTAGTAATGTTACGCTAAAAAAATGAAAGATTTTAAAGAAAAGCACATATTG
CATAAAATACTCAAATCGAATCAAATGATTGTAAGAAAAATCAAAGTAAAAAATTATACTCTTTA
CACAATTATACTCTTTAGACAATTAAGAAATGCATCTTTTACTCTGTAAGGA
Found at i:805498 original size:17 final size:17
Alignment explanation
Indices: 805476--805514 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
805466 CAAAGTAAAA
805476 AATTATACTCTTTACAC
1 AATTATACTCTTTACAC
* *
805493 AATTATTCTCTTTATAC
1 AATTATACTCTTTACAC
805510 AATTA
1 AATTA
805515 AGTAATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTATACTCTTTACAC
Found at i:817870 original size:39 final size:39
Alignment explanation
Indices: 817811--817886 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
817801 AAAATTACAT
* * * *
817811 TAATGTTCCATGTTTGTTTGTTTATTCATATCTTTATAG
1 TAATGTCCCATCTTTATTTGTTTATCCATATCTTTATAG
*
817850 TAATGTCCCATCTTTATTTGTTTATCCTTATCTTTAT
1 TAATGTCCCATCTTTATTTGTTTATCCATATCTTTAT
817887 GCCAACCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (39 bp):
TAATGTCCCATCTTTATTTGTTTATCCATATCTTTATAG
Found at i:822249 original size:12 final size:12
Alignment explanation
Indices: 822232--822262 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
822222 AGCCTTTCAA
822232 ATATATATATGT
1 ATATATATATGT
822244 ATATATATATGT
1 ATATATATATGT
*
822256 GTATATA
1 ATATATA
822263 ATTTAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
ATATATATATGT
Found at i:822251 original size:14 final size:14
Alignment explanation
Indices: 822232--822262 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
822222 AGCCTTTCAA
822232 ATATATATATGTAT
1 ATATATATATGTAT
*
822246 ATATATATGTGTAT
1 ATATATATATGTAT
822260 ATA
1 ATA
822263 ATTTAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:823939 original size:41 final size:42
Alignment explanation
Indices: 823857--823980 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 42
823847 TGTTGATATG
* * *
823857 GACCCGGCTATGTGCGAGTAAGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGTGACTAAGAGTGCACATAAGCCGTTGCT
* * *
823899 GACCCGGCTATGTGTGACT-TGATTGTACATAAGCCGTTGCT
1 GACCCGGCTATGTGTGACTAAGAGTGCACATAAGCCGTTGCT
* * ** * *
823940 GACCCGACTATGTGTGAGTGGGAGTGCGCATAAGCCATTGC
1 GACCCGGCTATGTGTGACTAAGAGTGCACATAAGCCGTTGC
823981 ATATGAGATG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 35 0.51
42 33 0.49
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (42 bp):
GACCCGGCTATGTGTGACTAAGAGTGCACATAAGCCGTTGCT
Found at i:826449 original size:3 final size:3
Alignment explanation
Indices: 826441--826465 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
826431 GATTGACTAA
826441 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
826466 TATTGTGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:828340 original size:20 final size:20
Alignment explanation
Indices: 828315--828354 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
828305 GCAAAAATAT
828315 CTCATTCCTCCAATAGCTTC
1 CTCATTCCTCCAATAGCTTC
** *
828335 CTCATTTTTCCAGTAGCTTC
1 CTCATTCCTCCAATAGCTTC
828355 TTCTTCTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.35, G:0.07, T:0.40
Consensus pattern (20 bp):
CTCATTCCTCCAATAGCTTC
Found at i:829262 original size:19 final size:19
Alignment explanation
Indices: 829238--829278 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
829228 GCTCAAATTA
829238 TCAACTAGTCGA-GGGTTTC
1 TCAACTAGTC-ATGGGTTTC
*
829257 TCAACTGGTCATGGGTTTC
1 TCAACTAGTCATGGGTTTC
829276 TCA
1 TCA
829279 CCAAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (19 bp):
TCAACTAGTCATGGGTTTC
Done.