Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold363
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: 774241
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 50831 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:476935 original size:39 final size:39
Alignment explanation
Indices: 476892--476969 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
476882 ATAATTTAAC
476892 TCAATTACATAATTCAAATAGCTTAACTTCATAGATTCT
1 TCAATTACATAATTCAAATAGCTTAACTTCATAGATTCT
476931 TCAATTACATAATTCAAATAGCTTAACTTCATAGATTCT
1 TCAATTACATAATTCAAATAGCTTAACTTCATAGATTCT
476970 AACTTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (39 bp):
TCAATTACATAATTCAAATAGCTTAACTTCATAGATTCT
Found at i:480735 original size:20 final size:20
Alignment explanation
Indices: 480710--480750 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
480700 TATGGATGAG
480710 TATGCATGAATTATGAAGTT
1 TATGCATGAATTATGAAGTT
480730 TATGCATGAATTATGAAGTT
1 TATGCATGAATTATGAAGTT
480750 T
1 T
480751 TATGGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (20 bp):
TATGCATGAATTATGAAGTT
Found at i:481043 original size:21 final size:21
Alignment explanation
Indices: 481017--481059 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
481007 TTTTGACAAA
*
481017 AATGTGTATTGGACTAAATTG
1 AATGTGAATTGGACTAAATTG
* *
481038 AATGTGAATTGTATTAAATTG
1 AATGTGAATTGGACTAAATTG
481059 A
1 A
481060 GCTAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (21 bp):
AATGTGAATTGGACTAAATTG
Found at i:481634 original size:25 final size:25
Alignment explanation
Indices: 481573--481635 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
481563 CCGATAATTA
* *
481573 GCTCACAACAGCTTCCGGTTACATG
1 GCTCACAAGAGCTTCCGGTTAAATG
* *
481598 GCTCACATGAGCTTCCTGTTAAATG
1 GCTCACAAGAGCTTCCGGTTAAATG
481623 GCTCGA-AAGAGCT
1 GCTC-ACAAGAGCT
481636 ACCAGTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCGGTTAAATG
Found at i:483245 original size:46 final size:46
Alignment explanation
Indices: 483174--483362 Score: 369
Period size: 46 Copynumber: 4.1 Consensus size: 46
483164 CAACAAAGAA
*
483174 ATCTCAAGTAATGAAGAGTCAAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
483220 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
483266 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
483312 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
1 ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
483358 ATCTC
1 ATCTC
483363 TAAGACGATT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 142 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (46 bp):
ATCTCAAGTAATGAAGAGTCGAGGTGATAGTGATAATTATTGAACT
Found at i:487819 original size:26 final size:26
Alignment explanation
Indices: 487790--487849 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
487780 TACACCAAGC
487790 AAAATTTTGACAATTTTACCACTAGT
1 AAAATTTTGACAATTTTACCACTAGT
** * *
487816 AAAATTTTTGATGATTTTGCCTCTAGT
1 AAAA-TTTTGACAATTTTACCACTAGT
487843 AAAATTT
1 AAAATTT
487850 CAAAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
AAAATTTTGACAATTTTACCACTAGT
Found at i:496296 original size:2 final size:2
Alignment explanation
Indices: 496289--496321 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
496279 AATCATATTC
*
496289 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
496322 AAGCATATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:498226 original size:42 final size:43
Alignment explanation
Indices: 498132--498230 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
498122 TCCTAGACGT
* * * * *
498132 GGTCTTACATGTAATCAAATAATGATGACACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATAACGATGACAATGTCCCAAACAC
* * *
498175 GGTCTTACACGTAATCATAT-ACGATGCCAATGTCTCAAACAC
1 GGTCTTACACGTAATCAAATAACGATGACAATGTCCCAAACAC
498217 GGTCTTACACGTAA
1 GGTCTTACACGTAA
498231 ATCTCAAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATAACGATGACAATGTCCCAAACAC
Found at i:499812 original size:20 final size:20
Alignment explanation
Indices: 499773--499814 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
499763 TTTATCACAC
* *
499773 TAATATTTTTTTATAGTAAT
1 TAATATTTTTTTAAAATAAT
499793 TAATATTTTTTTAAAATAAT
1 TAATATTTTTTTAAAATAAT
499813 TA
1 TA
499815 TATAACTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATATTTTTTTAAAATAAT
Found at i:502176 original size:4 final size:4
Alignment explanation
Indices: 502169--502206 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
502159 CATATGTACG
*
502169 TACA TACA TACA TACA TACA TACA TACA TACA AACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
502207 AATTAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:502420 original size:30 final size:30
Alignment explanation
Indices: 502384--502442 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
502374 TTATCATGTA
502384 AGACTTTTCATTATTTCCAATTTAGTCCCT
1 AGACTTTTCATTATTTCCAATTTAGTCCCT
502414 AGACTTTTCATTATTTCCAATTTAGTCCC
1 AGACTTTTCATTATTTCCAATTTAGTCCC
502443 CTTTTGCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.46
Consensus pattern (30 bp):
AGACTTTTCATTATTTCCAATTTAGTCCCT
Found at i:507618 original size:6 final size:6
Alignment explanation
Indices: 507609--507638 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
507599 TCTATTTCTC
507609 CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
507639 GGAGAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:526928 original size:44 final size:44
Alignment explanation
Indices: 526877--527066 Score: 134
Period size: 44 Copynumber: 4.3 Consensus size: 44
526867 CAGTAAGTAT
526877 AGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAC
* ** * * ** *
526921 GGCAAATCTTATCTTTCAAAG-A-TAGTGGGAAGCAGATTTAAGCC
1 AGCAAATCTTATCTCCCTAAGCAGTAG-CGG-AGCAGATCAAAGAC
* * * * * * * * ** *
526965 ACCGAACCTTGTCTCCCTAAGCAGCAGCAGAGTAGGTTGAAGAT
1 AGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAC
* * *
527009 AGCAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCAAAGAC
1 AGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAC
527053 -GACAAATCTTATCT
1 AG-CAAATCTTATCT
527067 TTCCAGGATA
Statistics
Matches: 102, Mismatches: 39, Indels: 10
0.68 0.26 0.07
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 91 0.89
45 2 0.02
46 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (44 bp):
AGCAAATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGAC
Found at i:527112 original size:13 final size:13
Alignment explanation
Indices: 527094--527122 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
527084 GCAGATTTAA
527094 GTCACCGAGCCTT
1 GTCACCGAGCCTT
527107 GTCACCGAGCCTT
1 GTCACCGAGCCTT
527120 GTC
1 GTC
527123 TCCCTGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (13 bp):
GTCACCGAGCCTT
Found at i:531942 original size:25 final size:25
Alignment explanation
Indices: 531866--531942 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
531856 TGTAAATCGA
* *
531866 TAAGCTCATACGAGATGAGAATCAA
1 TAAGCTCATACGAGCTGAGAATCAG
* *
531891 TAAGATCTTACGAGCTGA-AATCAG
1 TAAGCTCATACGAGCTGAGAATCAG
* *
531915 TAAGCTCAAACAAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAATCAG
531940 TAA
1 TAA
531943 TCCCTAATGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.44
25 24 0.56
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCAG
Found at i:532305 original size:27 final size:26
Alignment explanation
Indices: 532247--532305 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
532237 TTTAATTATC
* * *
532247 AATCAACATTCCAAATTCATCATTTA
1 AATCAACATTACAAATTCATCAATGA
*
532273 ACATCAACATTACAAGATTCATCAATGG
1 A-ATCAACATTACAA-ATTCATCAATGA
532301 AATCA
1 AATCA
532306 TTCAAAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 16 0.59
28 10 0.37
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (26 bp):
AATCAACATTACAAATTCATCAATGA
Found at i:532861 original size:14 final size:14
Alignment explanation
Indices: 532842--532873 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
532832 TTATAAAACA
532842 AAAATTACTATATC
1 AAAATTACTATATC
532856 AAAATTACTATATC
1 AAAATTACTATATC
532870 AAAA
1 AAAA
532874 ACCTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTACTATATC
Found at i:541241 original size:18 final size:17
Alignment explanation
Indices: 541218--541260 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
541208 AAACATAAAC
*
541218 AAATAAAATTAACATTAA
1 AAATAAAATTAA-AATAA
**
541236 AAATAAGCTTAAAATAA
1 AAATAAAATTAAAATAA
541253 AAATAAAA
1 AAATAAAA
541261 ATTTCAAAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATAAAATTAAAATAA
Found at i:542592 original size:35 final size:35
Alignment explanation
Indices: 542543--542612 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
542533 AAAAGATCTC
*
542543 AGTAATTTCACTTTCAGCTACACACTTTCTAATTA
1 AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
*
542578 AGTAAGTTCCCTTTCAGCTACACACTTTCTAATTA
1 AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
542613 TGTTATCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (35 bp):
AGTAAGTTCACTTTCAGCTACACACTTTCTAATTA
Found at i:547230 original size:50 final size:50
Alignment explanation
Indices: 547176--547277 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
547166 TGATTAAACT
547176 AGATTAATTTAACTAGATGTAAAATTGATCCCTAATGCAATTTTAATCTA
1 AGATTAATTTAACTAGATGTAAAATTGATCCCTAATGCAATTTTAATCTA
547226 AGATTAATTTAACTAGATGTAAAATTGATCCCTAATGCAATTTTAATCTA
1 AGATTAATTTAACTAGATGTAAAATTGATCCCTAATGCAATTTTAATCTA
547276 AG
1 AG
547278 TATGCAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (50 bp):
AGATTAATTTAACTAGATGTAAAATTGATCCCTAATGCAATTTTAATCTA
Found at i:550802 original size:20 final size:21
Alignment explanation
Indices: 550763--550835 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 21
550753 TAAATCAAGA
*
550763 GCACTAAA-GTGCAA-ACAGGG
1 GCAC-AAATGTGCAATATAGGG
550783 GCACAAATGTGCAAT-TAGGG
1 GCACAAATGTGCAATATAGGG
* *
550803 ACACCAAA-GTG-TATATAGGG
1 GCA-CAAATGTGCAATATAGGG
*
550823 GCACAGATGTGCA
1 GCACAAATGTGCA
550836 GTCAGGGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
19 8 0.20
20 29 0.71
21 4 0.10
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (21 bp):
GCACAAATGTGCAATATAGGG
Found at i:550812 original size:40 final size:40
Alignment explanation
Indices: 550768--550850 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
550758 CAAGAGCACT
*
550768 AAAGTGCAAACAGGGGCACAAATGTGCAATTAGGGACACC
1 AAAGTGCAAACAGGGGCACAAATGTGCAATCAGGGACACC
* * * * *
550808 AAAGTGTATATAGGGGCACAGATGTGCAGTCAGGGACACC
1 AAAGTGCAAACAGGGGCACAAATGTGCAATCAGGGACACC
550848 AAA
1 AAA
550851 TTTTATCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (40 bp):
AAAGTGCAAACAGGGGCACAAATGTGCAATCAGGGACACC
Found at i:550865 original size:40 final size:39
Alignment explanation
Indices: 550781--550879 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 39
550771 GTGCAAACAG
* * * *
550781 GGGCACAAATGTGCAATTAGGGACACCAAAGTGTATATAG
1 GGGCAC-AATGTGCAGTCAGGGACACCAAAGTGTATACAA
* * *
550821 GGGCACAGATGTGCAGTCAGGGACACCAAATTTTATCCAA
1 GGGCACA-ATGTGCAGTCAGGGACACCAAAGTGTATACAA
550861 GGGCACAATTGTGCAGTCA
1 GGGCACAA-TGTGCAGTCA
550880 ATTGTACATT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (39 bp):
GGGCACAATGTGCAGTCAGGGACACCAAAGTGTATACAA
Found at i:554521 original size:4 final size:4
Alignment explanation
Indices: 554512--554547 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
554502 TCGATTATGG
*
554512 AATT AATT AATT AATT AATT AAGT AGATT AATT AAT
1 AATT AATT AATT AATT AATT AATT A-ATT AATT AAT
554548 GGAAGAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (4 bp):
AATT
Found at i:557906 original size:41 final size:41
Alignment explanation
Indices: 557855--557960 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
557845 TCGAGTGTAC
* *
557855 ACAGGGGCACGAATATGCTATTTAAGGGTACCA-AAGTACAA
1 ACAGGGGCACGTATATGCAATTTAAGGGTA-CAGAAGTACAA
* * * *
557896 ACAGGGGCACGTATGTGCAATTCAGGGGTATAGAAGTACAA
1 ACAGGGGCACGTATATGCAATTTAAGGGTACAGAAGTACAA
*
557937 ACAAGGGCACGTATATGCAATTTA
1 ACAGGGGCACGTATATGCAATTTA
557961 GAGAATAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (41 bp):
ACAGGGGCACGTATATGCAATTTAAGGGTACAGAAGTACAA
Found at i:564779 original size:28 final size:28
Alignment explanation
Indices: 564748--564809 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
564738 TTTTTTTAAT
* * *
564748 TTAAAAATATATAATTTTTTAATTTTTC
1 TTAAAAATAAATAATATTATAATTTTTC
* *
564776 TTAAAAATAAATTATATTATAATTTTTT
1 TTAAAAATAAATAATATTATAATTTTTC
564804 TTAAAA
1 TTAAAA
564810 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTAAAAATAAATAATATTATAATTTTTC
Found at i:564821 original size:29 final size:28
Alignment explanation
Indices: 564748--564821 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
564738 TTTTTTTAAT
* * * *
564748 TTAAAAATATATAATTTTTTAATTTTTC
1 TTAAAAATAAAAAATATTATAATTTTTC
** *
564776 TTAAAAATAAATTATATTATAATTTTTT
1 TTAAAAATAAAAAATATTATAATTTTTC
*
564804 TTAAAATTTAAAAAATAT
1 TTAAAA-ATAAAAAATAT
564822 CAAAAAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 29 0.78
29 8 0.22
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TTAAAAATAAAAAATATTATAATTTTTC
Found at i:569108 original size:28 final size:29
Alignment explanation
Indices: 569060--569117 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
569050 GTTCATGTTC
569060 TTTTTAGATGTGAAATAATTTTTATATTT
1 TTTTTAGATGTGAAATAATTTTTATATTT
* *
569089 TTTTATAGAT-TGATAT-ATTTTTATGTTT
1 TTTT-TAGATGTGAAATAATTTTTATATTT
569117 T
1 T
569118 AAAATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTTTAGATGTGAAATAATTTTTATATTT
Found at i:569967 original size:9 final size:9
Alignment explanation
Indices: 569953--569992 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
569943 TTTGGTTAAA
569953 AATTAACCG
1 AATTAACCG
569962 AATTAACCG
1 AATTAACCG
*
569971 AATTACCCG
1 AATTAACCG
569980 AATTAACCG
1 AATTAACCG
569989 AATT
1 AATT
569993 GAATCCCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:570118 original size:18 final size:18
Alignment explanation
Indices: 570095--570138 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
570085 AATTTTTATG
*
570095 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGAATA
570113 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
570131 CTTGGGTT
1 ATTGGGTT
570139 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:570591 original size:20 final size:19
Alignment explanation
Indices: 570558--570619 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
570548 TTAGGGTTTA
570558 AAGTTTTT-TATATTTTTT
1 AAGTTTTTATATATTTTTT
*
570576 AAGTTTTCTATATATTCTTT
1 AAGTTTT-TATATATTTTTT
*
570596 AGATTTTTTATA-ATTTTTT
1 A-AGTTTTTATATATTTTTT
*
570615 GAGTT
1 AAGTT
570620 GTAAAGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 10 0.28
19 7 0.19
20 14 0.39
21 5 0.14
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (19 bp):
AAGTTTTTATATATTTTTT
Found at i:573760 original size:11 final size:11
Alignment explanation
Indices: 573744--573777 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
573734 CTACTCCTTT
*
573744 ATGTTGATGGC
1 ATGTTGATAGC
573755 ATGTTGATAGC
1 ATGTTGATAGC
573766 ATGTTGATAGC
1 ATGTTGATAGC
573777 A
1 A
573778 GTCAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.35
Consensus pattern (11 bp):
ATGTTGATAGC
Found at i:583558 original size:25 final size:24
Alignment explanation
Indices: 583529--583578 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
583519 ATTTTATTTT
* *
583529 AATATTTATATTGATATTAAATAAA
1 AATATCTATATTAATATTAAA-AAA
583554 AATATCTATATTAATATTAAAAAA
1 AATATCTATATTAATATTAAAAAA
583578 A
1 A
583579 TCAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AATATCTATATTAATATTAAAAAA
Found at i:583587 original size:20 final size:21
Alignment explanation
Indices: 583542--583588 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
583532 ATTTATATTG
* *
583542 ATATTAA-A-TAAAAATATCT
1 ATATTAATATTAAAAAAATCA
583561 ATATTAATATTAAAAAAATCA
1 ATATTAATATTAAAAAAATCA
583582 AT-TTAAT
1 ATATTAAT
583589 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 11 0.46
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTAATATTAAAAAAATCA
Found at i:594692 original size:20 final size:19
Alignment explanation
Indices: 594664--594721 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
594654 AAAATAAACA
* *
594664 AAAACAATTACTTTATAAAT
1 AAAATAATTAATTTA-AAAT
*
594684 AAAATAATTAATTTAATAT
1 AAAATAATTAATTTAAAAT
*
594703 AAAATAATTAATTCAAAAT
1 AAAATAATTAATTTAAAAT
594722 TTAGTAGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATTAATTTAAAAT
Found at i:599098 original size:19 final size:21
Alignment explanation
Indices: 599055--599107 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
599045 AAGTTATTAA
599055 TTTTTAAAATTA-TAAATATAG
1 TTTTT-AAATTATTAAATATAG
599076 -TTTTAAATTATTAAAT-T-G
1 TTTTTAAATTATTAAATATAG
*
599094 TTTTTCAATTATTA
1 TTTTTAAATTATTA
599108 TCATTATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 9 0.31
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTTAAATTATTAAATATAG
Found at i:605064 original size:17 final size:17
Alignment explanation
Indices: 605042--605089 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
605032 TCCAACAAAA
605042 ACTACAGTAAGAAAATT
1 ACTACAGTAAGAAAATT
605059 ACTACAGTAAGAAAATT
1 ACTACAGTAAGAAAATT
605076 ACTACAGTAAGAAA
1 ACTACAGTAAGAAA
605090 GTAAGATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (17 bp):
ACTACAGTAAGAAAATT
Found at i:609144 original size:28 final size:28
Alignment explanation
Indices: 609104--609161 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
609094 TTCAGATAGG
609104 AGGCGAATGTCCTTAAACTACTACTCCA
1 AGGCGAATGTCCTTAAACTACTACTCCA
609132 AGGCGAATGTCCTTAAACTACTACTCCA
1 AGGCGAATGTCCTTAAACTACTACTCCA
609160 AG
1 AG
609162 AGTATGAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCGAATGTCCTTAAACTACTACTCCA
Found at i:619315 original size:46 final size:46
Alignment explanation
Indices: 619241--619392 Score: 277
Period size: 46 Copynumber: 3.3 Consensus size: 46
619231 CTATCCAATC
*
619241 GTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT
1 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
* *
619287 GTTACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTT
1 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
619333 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
619379 GTCACTTGATCAGA
1 GTCACTTGATCAGA
619393 AGTACTCAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (46 bp):
GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
Found at i:630838 original size:44 final size:44
Alignment explanation
Indices: 630775--631114 Score: 441
Period size: 44 Copynumber: 7.7 Consensus size: 44
630765 AAATCACAAT
* *
630775 GTCCTATCTCCCTGACCAGCTGTGGAATAGGTTGAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
*
630819 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
* *
630863 GCCCTATCTCCCTGACCAGTAGTGGAATAGGTGGAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
* * *
630907 ATCCTAGCTCCCTGACCAGCAGTGAAATAGGTGGAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
* * * *
630951 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGCGAAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
** * * * *
630995 AACCTAGCTCCCTGAACAGCAGTGGAATAGGCGAAAGATTGTAA
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
* * * *
631039 GTCCTAACTCCCTGACTAGCAGTGGAATAGATGGAAGACTGT-A
1 GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
*
631082 GATCCTATCTCCCTGGA-CAGCAGTAGAATAGGT
1 G-TCCTATCTCCCT-GACCAGCAGTGGAATAGGT
631115 CAAAAATTAC
Statistics
Matches: 267, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 2 0.01
44 263 0.99
45 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
GTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA
Found at i:631138 original size:132 final size:130
Alignment explanation
Indices: 630775--631152 Score: 415
Period size: 132 Copynumber: 2.9 Consensus size: 130
630765 AAATCACAAT
* * *
630775 GTCCTATCTCCCTGACCAGCTGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGACCAGCA
1 GTCCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAA-TCCTATCTCCCTGACCAGCA
* * * * * * *
630840 GTGGAATAGGTTGAAGATTGTAAG-CCCTATCTCCCTGACCAGTAGTGGAATAGGTGGAAGATTG
65 GTGGAATAGG-TCAAAAAT-TAAGAACCTATCTCCCTGAACAGTAGTGGAATAGGCGAAAGATTG
630904 TAA
128 TAA
* * * *
630907 ATCCTAGCTCCCTGACCAGCAGTGAAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCA
1 GTCCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGT-AATCCTATCTCCCTGACCAGCA
* * *
630972 GTGGAATAGG-CGAAAGATTGTAA-AACCTAGCTCCCTGAACAGCAGTGGAATAGGCGAAAGATT
65 GTGGAATAGGTC-AAA-AAT-TAAGAACCTATCTCCCTGAACAGTAGTGGAATAGGCGAAAGATT
631035 GTAA
127 GTAA
* * *
631039 GTCCTAACTCCCTGACTAGCAGTGGAATAGATGGAAGACTGTAGATCCTATCTCCCTGGA-CAGC
1 GTCCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTA-ATCCTATCTCCCT-GACCAGC
* * *
631103 AGTAGAATAGGTCAAAAATTACAGATCTTATCTCCCT-AAGCAGTAGTGGA
64 AGTGGAATAGGTCAAAAATTA-AGAACCTATCTCCCTGAA-CAGTAGTGGA
631153 GAAGAGCGAA
Statistics
Matches: 209, Mismatches: 27, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
130 2 0.01
131 8 0.04
132 194 0.93
133 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (130 bp):
GTCCTAACTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAATCCTATCTCCCTGACCAGCAG
TGGAATAGGTCAAAAATTAAGAACCTATCTCCCTGAACAGTAGTGGAATAGGCGAAAGATTGTAA
Found at i:633744 original size:21 final size:21
Alignment explanation
Indices: 633718--633761 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
633708 CGACACTAAG
*
633718 ACATTAAACAATCAATTCGGT
1 ACATTAAACAATCAATTCAGT
633739 ACATTAAACAATCAATTCAGT
1 ACATTAAACAATCAATTCAGT
633760 AC
1 AC
633762 CAAGTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (21 bp):
ACATTAAACAATCAATTCAGT
Found at i:634405 original size:20 final size:20
Alignment explanation
Indices: 634377--634422 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
634367 AATATTATGA
* *
634377 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
634397 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
634417 TCCATT
1 ACCATT
634423 TAATTTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:634428 original size:20 final size:20
Alignment explanation
Indices: 634385--634430 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
634375 GAACCACTCC
* *
634385 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCA
* *
634405 ATTTACTTACTTTCCATTTA
1 ATTTACTTACTTACCATTCA
634425 ATTTAC
1 ATTTAC
634431 CTAGCATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCA
Found at i:635179 original size:40 final size:40
Alignment explanation
Indices: 635112--635225 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
635102 CACACCAGAT
* * *
635112 GCTCATAAGAGCTAGTCCGACCAAAACACACCAGAAAAAA
1 GCTCATAAGAGCTAATCCAACCGAAACACACCAGAAAAAA
* * *
635152 GCTCATAGGAGCTAATCCAACCGAAACACACCAGACAGAA
1 GCTCATAAGAGCTAATCCAACCGAAACACACCAGAAAAAA
*
635192 GCTCATAAGAGCTAATCCAATCGAAACACACCAG
1 GCTCATAAGAGCTAATCCAACCGAAACACACCAG
635226 GCAGAGAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.44, C:0.29, G:0.16, T:0.11
Consensus pattern (40 bp):
GCTCATAAGAGCTAATCCAACCGAAACACACCAGAAAAAA
Found at i:635879 original size:18 final size:18
Alignment explanation
Indices: 635856--635893 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
635846 CAAAATCACT
635856 TAACAA-AATATTTTTAAA
1 TAACAACAATA-TTTTAAA
635874 TAACAACTAATATTTTAAA
1 TAACAAC-AATATTTTAAA
635893 T
1 T
635894 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TAACAACAATATTTTAAA
Found at i:641746 original size:24 final size:24
Alignment explanation
Indices: 641676--641747 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
641666 GCGTTCTGTG
* *
641676 GCAAATGATGAATTGACGGTAAAT
1 GCAAAGGATGAATTGACGGAAAAT
**
641700 GCAAAGGATGAATTGACAAAAAAT
1 GCAAAGGATGAATTGACGGAAAAT
* * *
641724 GCAATGGATTATTTGACGGAAAAT
1 GCAAAGGATGAATTGACGGAAAAT
641748 TACCCAAGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGAAAAT
Found at i:641926 original size:21 final size:21
Alignment explanation
Indices: 641893--641975 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
641883 CAGTTTAAAC
* *
641893 CTTATGGGTTTCCGTTCAGCT
1 CTTATGAGCTTCCGTTCAGCT
* *
641914 CTTACGAGCTTCCGTTCAAC-
1 CTTATGAGCTTCCGTTCAGCT
* * *
641934 CATTATGGGCTTCTGTTTAGCT
1 C-TTATGAGCTTCCGTTCAGCT
* *
641956 CTCATGAGCTTCTGTTCAGC
1 CTTATGAGCTTCCGTTCAGC
641976 GTTCGAGCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (21 bp):
CTTATGAGCTTCCGTTCAGCT
Found at i:641973 original size:42 final size:41
Alignment explanation
Indices: 641833--641973 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 41
641823 GTTAACTCAA
* * *
641833 ATGAGTTTCTGTTCAACCCTAATGGGTTTCCGTTTAGCTTTT
1 ATGAGCTTCTGTTCAA-CCTTATGGGTTTCCGTTTAGCTCTT
* * * *
641875 TTGAGCTTCAGTTTAAACCTTATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTTCTG-TTCAACCTTATGGGTTTCCGTTTAGCTCTT
* * * * *
641917 ACGAGCTTCCGTTCAACCATTATGGGCTTCTGTTTAGCTCTC
1 ATGAGCTTCTGTTCAACC-TTATGGGTTTCCGTTTAGCTCTT
641959 ATGAGCTTCTGTTCA
1 ATGAGCTTCTGTTCA
641974 GCGTTCGAGC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 6 0.08
42 70 0.88
43 4 0.05
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (41 bp):
ATGAGCTTCTGTTCAACCTTATGGGTTTCCGTTTAGCTCTT
Found at i:650040 original size:13 final size:13
Alignment explanation
Indices: 650022--650048 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
650012 TGCAGTAGGG
650022 CCTTAGCCCATCA
1 CCTTAGCCCATCA
650035 CCTTAGCCCATCA
1 CCTTAGCCCATCA
650048 C
1 C
650049 AGTATCAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (13 bp):
CCTTAGCCCATCA
Found at i:661603 original size:32 final size:32
Alignment explanation
Indices: 661566--661631 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
661556 AAATACCTAA
661566 TATGTTTTTGACTCATATGAATCTTTTAATTT
1 TATGTTTTTGACTCATATGAATCTTTTAATTT
661598 TATGTTTTTGACTCATATGAATCTTTTAATTT
1 TATGTTTTTGACTCATATGAATCTTTTAATTT
661630 TA
1 TA
661632 CAAAAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (32 bp):
TATGTTTTTGACTCATATGAATCTTTTAATTT
Found at i:662236 original size:21 final size:21
Alignment explanation
Indices: 662210--662262 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
662200 TTACTATTAG
*
662210 TCTCGAGACATGTTGAGCATA
1 TCTCGAGACATGTCGAGCATA
*
662231 TCTCGAGAGATGTCGAGCATA
1 TCTCGAGACATGTCGAGCATA
662252 TCTCGAGACAT
1 TCTCGAGACAT
662263 AGACATCTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (21 bp):
TCTCGAGACATGTCGAGCATA
Found at i:662629 original size:41 final size:41
Alignment explanation
Indices: 662572--662810 Score: 343
Period size: 41 Copynumber: 5.8 Consensus size: 41
662562 GACCTTTCAG
* *
662572 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
662613 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
* * * * *
662654 GACTTTAGCGGCGTTTTTTAAGTAGCGCTGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
* * * * *
662695 GGATTTAGCGGCATTTTTTAAGAAGCACCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
*
662736 GGCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTCGA
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
* *
662777 GGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA
662811 AACAATTTAT
Statistics
Matches: 176, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 176 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGA
Found at i:663194 original size:15 final size:14
Alignment explanation
Indices: 663156--663190 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
663146 ACTATTTTAA
663156 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
663170 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
663185 GGTTTA
1 GGTTTA
663191 AGGGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:663404 original size:21 final size:21
Alignment explanation
Indices: 663377--663549 Score: 175
Period size: 21 Copynumber: 8.2 Consensus size: 21
663367 GTTTAGGGTT
663377 TTTATGGTTTATGGTTTATGG
1 TTTATGGTTTATGGTTTATGG
* * *
663398 TATATGGTTTAAGGTTTAAGG
1 TTTATGGTTTATGGTTTATGG
* *
663419 TTTATGGTATATGGTTTAAGG
1 TTTATGGTTTATGGTTTATGG
* *
663440 TTTATGGATTATGGGTTTAGGG
1 TTTATGGTTTAT-GGTTTATGG
*
663462 ATTATGGTTTATGGTTTATGG
1 TTTATGGTTTATGGTTTATGG
* * **
663483 TTTATGGTTTAAGGGTTGGGG
1 TTTATGGTTTATGGTTTATGG
* *
663504 TTTAAGGTTTAAGGTTTATGG
1 TTTATGGTTTATGGTTTATGG
** * *
663525 TTTATGGGCTAGGGTTTAAGG
1 TTTATGGTTTATGGTTTATGG
663546 TTTA
1 TTTA
663550 GGGGTTAATG
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
21 107 0.86
22 18 0.14
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (21 bp):
TTTATGGTTTATGGTTTATGG
Found at i:663549 original size:7 final size:7
Alignment explanation
Indices: 663377--663531 Score: 175
Period size: 7 Copynumber: 22.0 Consensus size: 7
663367 GTTTAGGGTT
663377 TTTATGG
1 TTTATGG
663384 TTTATGG
1 TTTATGG
663391 TTTATGG
1 TTTATGG
*
663398 TATATGG
1 TTTATGG
*
663405 TTTAAGG
1 TTTATGG
*
663412 TTTAAGG
1 TTTATGG
663419 TTTATGG
1 TTTATGG
*
663426 TATATGG
1 TTTATGG
*
663433 TTTAAGG
1 TTTATGG
663440 TTTATGG
1 TTTATGG
*
663447 ATTATGGG
1 TTTAT-GG
*
663455 TTTAGGG
1 TTTATGG
*
663462 ATTATGG
1 TTTATGG
663469 TTTATGG
1 TTTATGG
663476 TTTATGG
1 TTTATGG
663483 TTTATGG
1 TTTATGG
*
663490 TTTAAGG
1 TTTATGG
* **
663497 GTTGGGG
1 TTTATGG
*
663504 TTTAAGG
1 TTTATGG
*
663511 TTTAAGG
1 TTTATGG
663518 TTTATGG
1 TTTATGG
663525 TTTATGG
1 TTTATGG
663532 GCTAGGGTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
7 120 0.96
8 5 0.04
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:663551 original size:14 final size:14
Alignment explanation
Indices: 663377--663580 Score: 151
Period size: 14 Copynumber: 14.4 Consensus size: 14
663367 GTTTAGGGTT
*
663377 TTTATGGTTTATGG
1 TTTAGGGTTTATGG
* *
663391 TTTATGGTATATGG
1 TTTAGGGTTTATGG
* *
663405 TTTAAGGTTTAAGG
1 TTTAGGGTTTATGG
* *
663419 TTTATGGTATATGG
1 TTTAGGGTTTATGG
*
663433 TTTAAGGTTTATGG
1 TTTAGGGTTTATGG
* *
663447 ATTATGGGTTTAGGG
1 TTTA-GGGTTTATGG
* *
663462 ATTATGGTTTATGG
1 TTTAGGGTTTATGG
*
663476 TTTATGGTTTATGG
1 TTTAGGGTTTATGG
**
663490 TTTAAGGG-TTGGGG
1 TTT-AGGGTTTATGG
* *
663504 TTTAAGGTTTAAGG
1 TTTAGGGTTTATGG
*
663518 TTTATGGTTTATGG
1 TTTAGGGTTTATGG
** *
663532 GCTAGGGTTTAAGG
1 TTTAGGGTTTATGG
*
663546 TTTAGGGGTTAATGG
1 TTTA-GGGTTTATGG
*
663561 -TTAGGGGTTTAGGG
1 TTTA-GGGTTTATGG
663575 TTTAGG
1 TTTAGG
663581 AGTTAGGGGT
Statistics
Matches: 152, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
13 3 0.02
14 123 0.81
15 26 0.17
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:663568 original size:29 final size:28
Alignment explanation
Indices: 663509--663600 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
663499 TGGGGTTTAA
* * *
663509 GGTTTAAGGTTTA-TGGTTTATGGGCTAG
1 GGTTTAAGGTTTAGGGGTTAAT-GGTTAG
663537 GGTTTAAGGTTTAGGGGTTAATGGTTAGG
1 GGTTTAAGGTTTAGGGGTTAATGGTTA-G
* * **
663566 GGTTTAGGGTTTAGGAGTTAGGGGTTAAG
1 GGTTTAAGGTTTAGGGGTTAATGGTT-AG
663595 GGTTTA
1 GGTTTA
663601 TAAAATCTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 17 0.31
29 36 0.67
30 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.40, T:0.39
Consensus pattern (28 bp):
GGTTTAAGGTTTAGGGGTTAATGGTTAG
Found at i:663569 original size:7 final size:7
Alignment explanation
Indices: 663547--663598 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
663537 GGTTTAAGGT
663547 TTAGGGG
1 TTAGGGG
**
663554 TTAATGG
1 TTAGGGG
663561 TTAGGGG
1 TTAGGGG
*
663568 TTTAGGGT
1 -TTAGGGG
*
663576 TTAGGAG
1 TTAGGGG
663583 TTAGGGG
1 TTAGGGG
*
663590 TTAAGGG
1 TTAGGGG
663597 TT
1 TT
663599 TATAAAATCT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:663569 original size:22 final size:23
Alignment explanation
Indices: 663544--663596 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
663534 TAGGGTTTAA
*
663544 GGTTTAGGGGTTAATG-GTTAGG
1 GGTTTAGGGGTTAAGGAGTTAGG
*
663566 GGTTTA-GGGTTTAGGAGTTAGG
1 GGTTTAGGGGTTAAGGAGTTAGG
*
663588 GGTTAAGGG
1 GGTTTAGGG
663597 TTTATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 17 0.65
23 2 0.08
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (23 bp):
GGTTTAGGGGTTAAGGAGTTAGG
Found at i:663643 original size:6 final size:6
Alignment explanation
Indices: 663632--663673 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
663622 CCAAATTATA
*
663632 AAAAAT AAAAAT AAAAAT AAAAAT AAAATAC AAAAACT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAA-T AAAA
663674 TCATTCCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 23 0.72
7 9 0.28
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:664433 original size:36 final size:36
Alignment explanation
Indices: 664323--664462 Score: 192
Period size: 35 Copynumber: 3.8 Consensus size: 36
664313 GCTTCAGCCA
* *
664323 ATTTGCTCCCTTGTTTCTTTTCTTTTCTTTTCTGTCG
1 ATTTGCTCCC-AGTTTATTTTCTTTTCTTTTCTGTCG
664360 ATTTGCTCCCAGTTTATTTTCTTTT-TTTTCTGTCG
1 ATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTGTCG
**
664395 ATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTACCG
1 ATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTGTCG
* *
664431 ATTTGCTCCCTCTGTTTCTTTTCTTTTCTTTT
1 ATTTGCT-CC-CAGTTTATTTTCTTTTCTTTT
664463 TCGGCCGGTT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
35 35 0.37
36 28 0.30
37 12 0.13
38 19 0.20
ACGTcount: A:0.06, C:0.24, G:0.09, T:0.61
Consensus pattern (36 bp):
ATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTGTCG
Found at i:665191 original size:7 final size:7
Alignment explanation
Indices: 665179--665212 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
665169 ATTGTTGATA
665179 CTGTTGT
1 CTGTTGT
665186 CTGTTGT
1 CTGTTGT
665193 CTGTTGT
1 CTGTTGT
665200 CTGTTGT
1 CTGTTGT
*
665207 TTGTTG
1 CTGTTG
665213 ATGTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.29, T:0.59
Consensus pattern (7 bp):
CTGTTGT
Found at i:671626 original size:16 final size:16
Alignment explanation
Indices: 671607--671648 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
671597 TTATTAAATT
*
671607 ATATATTTTAATTATA
1 ATATATTTTAATAATA
671623 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
671638 AT-TATGTTTAA
1 ATATAT-TTTAA
671649 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:671633 original size:15 final size:15
Alignment explanation
Indices: 671598--671639 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
671588 NNNAAGAATT
*
671598 TATTAAATTAT-ATA
1 TATTTAATTATAATA
671612 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
671626 TATTTAATAATAAT
1 TATTTAATTATAAT
671640 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:671907 original size:16 final size:16
Alignment explanation
Indices: 671862--671898 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
671852 TTAATTTACT
*
671862 ATTACACATCTATTTC
1 ATTACACCTCTATTTC
671878 ATTACACCTCTATTTC
1 ATTACACCTCTATTTC
671894 ATTAC
1 ATTAC
671899 GCCTTTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTACACCTCTATTTC
Found at i:675309 original size:42 final size:42
Alignment explanation
Indices: 675253--675332 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
675243 AAATGTTATG
* * *
675253 TTTATAGTGGCGTTTTTGCGAGAAGCGCCGCTAAAGGTTTGT
1 TTTATAGAGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTTTGT
* *
675295 TTTATAGAGGCGTTTGTGGGAAAAGCGTCGCTAAAGGT
1 TTTATAGAGGCGTTTGTGCGAAAAGCGCCGCTAAAGGT
675333 CTTGAGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.33
Consensus pattern (42 bp):
TTTATAGAGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTTTGT
Found at i:675369 original size:20 final size:22
Alignment explanation
Indices: 675329--675369 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
675319 GCGTCGCTAA
675329 AGGTCTTGAGCTATAATAGCGTC
1 AGGTCTTGAGC-ATAATAGCGTC
675352 AGGTCTTGAG-AT-ATAGCG
1 AGGTCTTGAGCATAATAGCG
675370 GCATTTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
23 10 0.56
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (22 bp):
AGGTCTTGAGCATAATAGCGTC
Found at i:677650 original size:22 final size:23
Alignment explanation
Indices: 677613--677659 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
677603 ATTTTTTTTG
*
677613 TTAATTTGAAATTTTAAGTATTTA
1 TTAATTT-AAATTTTAAGAATTTA
677637 TTAATTT-AATTTTAAGAATTTA
1 TTAATTTAAATTTTAAGAATTTA
677659 T
1 T
677660 CAAATAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TTAATTTAAATTTTAAGAATTTA
Found at i:685223 original size:18 final size:18
Alignment explanation
Indices: 685200--685242 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
685190 TGCCAGGTGC
*
685200 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
685218 GTATCCTAACCATTATAT
1 GTATCCTAACCATTATAT
*
685236 GTTTCCT
1 GTATCCT
685243 TTATTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:689075 original size:125 final size:125
Alignment explanation
Indices: 688780--689303 Score: 737
Period size: 125 Copynumber: 4.2 Consensus size: 125
688770 TAAGGCCAAG
* * * * * * * *
688780 TAGGAACTATTATAGAAAAAGAGTGTCCATGTGGGAGCTTTTTTCAGTAATTTTGTTGATAATGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAATAATTTTGCTGATAGTGC
** * * *
688845 ATCCTGCTTGAAGTGTTTTTGACACTATTTTTTTCAAAATTTTCTTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTA-TTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
*
688906 TCAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAATAATTTTGCTGATATTG
1 T-AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAATAATTTTGCTGATAGTG
688971 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
65 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
* *
689032 TAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTCTTCAGTAATTTTGCTGATAGTGC
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAATAATTTTGCTGATAGTGC
* * * *
689097 ATCTTGCTTGAAGCATTTTTTACACTACTTTTTCAGAACTGTCCTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
** * *
689157 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTTCAATAATTTTGCTGACAGTG
1 TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTCTTCAATAATTTTGCTGATAGTG
* *
689222 CATCCTGCTTGAAGCATTTTTGACATTATCTTTTCAGAA-TCGTCTTCTCAAAATTAATTTTT
65 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACT-GTCTTCTCAAAATT-ATTTTT
*
689284 CT-GAAACTACTGTAGAAAAA
1 -TAGGAACTACTGTAGAAAAA
689304 AAACAAAATC
Statistics
Matches: 360, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
125 153 0.43
126 102 0.28
127 104 0.29
128 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
TAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAATAATTTTGCTGATAGTGC
ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTT
Found at i:689423 original size:34 final size:32
Alignment explanation
Indices: 689369--689498 Score: 145
Period size: 34 Copynumber: 3.9 Consensus size: 32
689359 TAAACACAAA
*
689369 AATTATTTAAAAAACTAAACCCTAATTTAATT
1 AATTTTTTAAAAAACTAAACCCTAATTTAATT
*
689401 AATTTTCTTAAAAAATCGAAACCCTAATTTAATT
1 AATTTT-TTAAAAAA-CTAAACCCTAATTTAATT
** *
689435 AATTTGTTTAAAACCCCTAAAACCTAATTTAATT
1 AATTT-TTTAAAA-AACTAAACCCTAATTTAATT
*
689469 -ATTTTTTAAAAAACTTTAAAACCTAATTTA
1 AATTTTTTAAAAAAC--TAAACCCTAATTTA
689499 TTTTTTAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
31 1 0.01
32 12 0.14
33 26 0.31
34 44 0.52
35 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (32 bp):
AATTTTTTAAAAAACTAAACCCTAATTTAATT
Found at i:690079 original size:28 final size:28
Alignment explanation
Indices: 690043--690112 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
690033 AAATAATAAA
690043 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
690071 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
690099 ATTTACCAAAATAT
1 ATTTACCAAAATAT
690113 ATCAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:690390 original size:10 final size:10
Alignment explanation
Indices: 690354--690391 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
690344 ATAATTGATT
690354 ATATTATTGTTA
1 ATATT-TTG-TA
690366 ATATTTTGT-
1 ATATTTTGTA
690375 ATATTTTGTA
1 ATATTTTGTA
690385 ATATTTT
1 ATATTTT
690392 TTGTTGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 8 0.32
11 3 0.12
12 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (10 bp):
ATATTTTGTA
Found at i:690395 original size:21 final size:21
Alignment explanation
Indices: 690353--690391 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
690343 AATAATTGAT
690353 TATATTATTGTTAATATTTTG
1 TATATTATTGTTAATATTTTG
690374 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
690392 TTGTTGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:690455 original size:3 final size:3
Alignment explanation
Indices: 690437--690477 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
690427 AAAATAAAAG
*
690437 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
690478 GTTGTTGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:690482 original size:3 final size:3
Alignment explanation
Indices: 690476--690519 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
690466 ATTATTATTA
690476 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
690520 AGTATGAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:691409 original size:18 final size:18
Alignment explanation
Indices: 691366--691410 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
691356 TTGACATGGT
* *
691366 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
**
691384 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
691402 TGGTGGCGA
1 TGGTGGCGA
691411 TCATTAGGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.47, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:697064 original size:28 final size:30
Alignment explanation
Indices: 697019--697081 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 30
697009 TATTTTTTCC
697019 CTTTTTTTTTCCTTTCTTC-CCTCTTCT-TCTT
1 CTTTTTTTTTCC-TTCTTCTCCT-TTCTCT-TT
697050 CTTTTTTTTT-C-TCTTCTCCTTTCTCTTT
1 CTTTTTTTTTCCTTCTTCTCCTTTCTCTTT
697078 CTTT
1 CTTT
697082 CCTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
28 15 0.50
29 4 0.13
30 1 0.03
31 10 0.33
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (30 bp):
CTTTTTTTTTCCTTCTTCTCCTTTCTCTTT
Found at i:697066 original size:18 final size:18
Alignment explanation
Indices: 697043--697145 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 18
697033 TCTTCCCTCT
697043 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
*
697061 TCTTCTCCTTTCTCTTTCTT-
1 TCTTCTTCTTT-T-TTT-TTC
*
697081 TCCTTCTTTCTTTCTTTTT-
1 T-CTTC-TTCTTTTTTTTTC
**
697100 TCTTC-TCTTCTCCTTTTC
1 TCTTCTTCTT-TTTTTTTC
697118 TTCTTCTTTCTTTCCTTTTTTC
1 -TCTTC-TTCTTT--TTTTTTC
697140 TCTTCT
1 TCTTCT
697146 CCTCTCCTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
16 4 0.06
17 6 0.09
18 14 0.21
19 9 0.13
20 9 0.13
21 15 0.22
22 10 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TCTTCTTCTTTTTTTTTC
Found at i:697078 original size:44 final size:42
Alignment explanation
Indices: 697026--697157 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 42
697016 TCCCTTTTTT
697026 TTTC-CTTTCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCC
1 TTTCTCTTTCTT--CTCTTCTTCTTCTTTTTTTTTCTCTTCTCC
*
697069 TTTCTCTTTCTT-TCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCC
1 TTTCTCTTTCTTCT-CTTC-TTC-TTCTTTTTTTTTCTCTTCTCC
* *
697113 TTT-TC-TTCTTCT-TTCTT-TCCTTTTTTCTCTTCTCCTCTCC
1 TTTCTCTTTCTTCTCTTCTTCTTCTTTTTT-T-TTCTCTTCTCC
697153 TTTCT
1 TTTCT
697158 TTCTTTCCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
38 8 0.10
40 15 0.19
41 5 0.06
42 9 0.12
43 10 0.13
44 30 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (42 bp):
TTTCTCTTTCTTCTCTTCTTCTTCTTTTTTTTTCTCTTCTCC
Found at i:697082 original size:4 final size:4
Alignment explanation
Indices: 697073--697182 Score: 68
Period size: 4 Copynumber: 26.5 Consensus size: 4
697063 TTCTCCTTTC
*
697073 TCTT TCTT TCCT TCTT TCTT TCTT T-TT TCTT CTCTT CTCCTT T-TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT -TCTT -T-CTT TCT-T
* *
697119 TC-T TCTT TCTT TCCTT T-TT TCTCT TC-T CCTCT CCTT TCTT TCTT TCCTCT
1 TCTT TCTT TCTT T-CTT TCTT TCT-T TCTT TCT-T TCTT TCTT TCTT T-CT-T
*
697169 CCTT TCTT TCTT TC
1 TCTT TCTT TCTT TC
697183 CCTCCTTCTT
Statistics
Matches: 87, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
3 12 0.14
4 49 0.56
5 22 0.25
6 4 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (4 bp):
TCTT
Found at i:697158 original size:33 final size:34
Alignment explanation
Indices: 697018--697166 Score: 86
Period size: 33 Copynumber: 4.5 Consensus size: 34
697008 ATATTTTTTC
* *
697018 CCTTT-TTT-TTTCCTTTCTTC-CCTCTTCTTCT
1 CCTTTCTTTCTTTCCTTTCTTCTCTTCTCCTTCT
*
697049 TCTTT-TTT-TTTCTCTTCTCCTTTCTCTT-T-CTT-T
1 CCTTTCTTTCTTTC-CTT-T-C-TTCTCTTCTCCTTCT
* *
697082 CC-TTCTTTCTTT-CTTTTTTCTTCTCTTCTCCTTTT
1 CCTTTCTTTCTTTCCTTTCTTC-TCT--TCTCCTTCT
* *
697117 CTTCTTCTTTCTTTCCTTTTTTCTCTTCTCC-TCT
1 CCT-TTCTTTCTTTCCTTTCTTCTCTTCTCCTTCT
697151 CCTTTCTTTCTTTCCT
1 CCTTTCTTTCTTTCCT
697167 CTCCTTTCTT
Statistics
Matches: 95, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
29 3 0.03
30 3 0.03
31 12 0.13
32 9 0.09
33 20 0.21
34 14 0.15
35 11 0.12
36 2 0.02
37 13 0.14
38 8 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (34 bp):
CCTTTCTTTCTTTCCTTTCTTCTCTTCTCCTTCT
Found at i:697162 original size:37 final size:37
Alignment explanation
Indices: 697078--697186 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
697068 CTTTCTCTTT
* *
697078 CTTTCCTTCTTTCTTT-C-TTTTT-TCTTCTCTTCTC
1 CTTTCTTTCTTTCTTTCCTTTTTTCTCTTCTCCTCTC
697112 CTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTCTC
1 C-TTTC-T-TTCTTTCTTTCCTTTTTTCTCTTCTCCTCTC
*
697152 CTTTCTTTCTTTCCTCTCCTTTCTTTCT-TTC-CCTC
1 CTTTCTTTCTTT-CTTTCCTTT-TTTCTCTTCTCCTC
697187 CTTCTTCTGC
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
34 1 0.02
35 4 0.06
37 20 0.31
38 13 0.20
39 14 0.22
40 12 0.19
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (37 bp):
CTTTCTTTCTTTCTTTCCTTTTTTCTCTTCTCCTCTC
Found at i:697162 original size:40 final size:39
Alignment explanation
Indices: 697042--697162 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 39
697032 TTCTTCCCTC
*
697042 TTCTTC-TTCTTT-TTTTTTCTCTTCTCCTTTCTCTTTCT
1 TTCTTCTTTCTTTCTTTTTTCTCTTCTCCTCTC-CTTTCT
*
697080 TTCCTTCTTTCTTTC-TTTTT-TCTTCTCTTCTCCTTT-T
1 TT-CTTCTTTCTTTCTTTTTTCTCTTCTCCTCTCCTTTCT
697117 CTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTCTCCTTTCT
1 -TTCTTCTTTCTTT-CTTTTTTCTCTTCTCCTCTCCTTTCT
697158 TTCTT
1 TTCTT
697163 TCCTCTCCTT
Statistics
Matches: 72, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
37 12 0.17
38 9 0.12
39 19 0.26
40 31 0.43
41 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (39 bp):
TTCTTCTTTCTTTCTTTTTTCTCTTCTCCTCTCCTTTCT
Found at i:697188 original size:22 final size:19
Alignment explanation
Indices: 697061--697189 Score: 99
Period size: 18 Copynumber: 6.8 Consensus size: 19
697051 TTTTTTTTTC
*
697061 TCTTCTCCTTTCTCTTTCTT
1 TCTTCTCCTCTC-CTTTCTT
* *
697081 TCCTTCT-TTCTTTCTTT-TT
1 T-CTTCTCCTC-TCCTTTCTT
*
697100 TCTTCTCTTCTCCTTT-TCT
1 TCTTCTCCTCTCCTTTCT-T
* * *
697119 TCTTCTTTCTTTCCTTTTTT
1 TCTTC-TCCTCTCCTTTCTT
697139 CTCTTCTCCTCTCCTTTCTT
1 -TCTTCTCCTCTCCTTTCTT
697159 TCTT-TCCTCTCCTTTCTT
1 TCTTCTCCTCTCCTTTCTT
697177 TCTT-TCC-CTCCTT
1 TCTTCTCCTCTCCTT
697190 CTTCTGCCCC
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
17 6 0.07
18 32 0.35
19 16 0.17
20 26 0.28
21 12 0.13
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (19 bp):
TCTTCTCCTCTCCTTTCTT
Found at i:697299 original size:27 final size:27
Alignment explanation
Indices: 697217--697290 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
697207 CCCCCCATAA
697217 CACCAATTGGTGCCGCCAATGGTATTGG
1 CACC-ATTGGTGCCGCCAATGGTATTGG
*
697245 CACCATTGGTGCCGCCAATGGTTTTGG
1 CACCATTGGTGCCGCCAATGGTATTGG
*
697272 CACCTTTGGTGCCGCCAAT
1 CACCATTGGTGCCGCCAAT
697291 ACCATTGGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (27 bp):
CACCATTGGTGCCGCCAATGGTATTGG
Found at i:697426 original size:28 final size:29
Alignment explanation
Indices: 697362--697432 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
697352 GTTTTTTTAT
*
697362 ATATTTTGGTAAATAAAAAGAAGGTTGTA
1 ATATTTTGGTAAATAAAAAGAAGATTGTA
697391 ATATTTTGGTAAATAGAAAA-AA-ATTGTA
1 ATATTTTGGTAAATA-AAAAGAAGATTGTA
697419 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
697433 TTTTATTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 19 0.47
29 17 0.43
30 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAGAAGATTGTA
Found at i:697563 original size:9 final size:9
Alignment explanation
Indices: 697538--697576 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
697528 TAAAATTAAG
*
697538 TTTTTAATA
1 TTTTTAATT
*
697547 TTTATAATT
1 TTTTTAATT
697556 TTTTTAATT
1 TTTTTAATT
697565 TTTTTAAATT
1 TTTTT-AATT
697575 TT
1 TT
697577 ATTATTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTAATT
Found at i:698641 original size:18 final size:19
Alignment explanation
Indices: 698621--698655 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
698611 TCAAACAAAT
698621 TTTTTG-TTC-ATTTTCAA
1 TTTTTGTTTCAATTTTCAA
698638 TTTTTGTTTCAATTTTCA
1 TTTTTGTTTCAATTTTCA
698656 TTCATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTGTTTCAATTTTCAA
Found at i:699683 original size:6 final size:6
Alignment explanation
Indices: 699672--699699 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
699662 CAACTGCAGC
699672 CTTTTA CTTTTA CTTTTA CTTTTA CTTT
1 CTTTTA CTTTTA CTTTTA CTTTTA CTTT
699700 CAACTGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
CTTTTA
Found at i:701606 original size:111 final size:114
Alignment explanation
Indices: 701394--701724 Score: 392
Period size: 114 Copynumber: 2.9 Consensus size: 114
701384 AAAATAAGAA
* * * * * * *
701394 TTAGCGGCGCTTTTGCT-GAAGCGCCGC-AAAAAACT-AAGCCCAACGACGCCATTTTCTAAGAT
1 TTAGCGGCGCTTTT-ATGGAAGCGCCGCAAAAAAAATGAAACCCAACGACACCGTTTTCTTAGCT
* * *
701456 TCCGGGGGGGTTTAGCGGCGTTTTTAATAATGCGCCGCTAATGCA-GGG-CT
65 TTC--AGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCATGGGTCT
*
701506 TTAGCGGCGTTTTTATGGAAGCGCCGC-AAAAAAATGAAACCCAACGACACCGTTTTCATT-GCT
1 TTAGCGGCGCTTTTATGGAAGCGCCGCAAAAAAAATGAAACCCAACGACACCGTTTTC-TTAGCT
* * *
701569 TTC-GTGGGTTTAGCGGCGTTTTTAGTAAAGCGTCGCTAATG-ATGGGTTT
65 TTCAG-GGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCATGGGTCT
* *
701618 TTAGCGGCGCTTTTATGGAAGCGCCGCAAAAAAAAATTAAACCCAACGGCACCGTTTTCTTAGCT
1 TTAGCGGCGCTTTTATGGAAGCGCCGC-AAAAAAAATGAAACCCAACGACACCGTTTTCTTAGCT
*
701683 TTCAGGGTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
65 TTCAGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGC
701725 TCAGGGATTT
Statistics
Matches: 189, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
110 2 0.01
111 37 0.20
112 57 0.30
113 24 0.13
114 68 0.36
115 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGCTTTTATGGAAGCGCCGCAAAAAAAATGAAACCCAACGACACCGTTTTCTTAGCTT
TCAGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCATGGGTCT
Found at i:702081 original size:35 final size:35
Alignment explanation
Indices: 702042--702124 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
702032 TGGTTTTACA
* ***
702042 GTTTAGGGTTTAAGGGTTATGCTCTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATCTAAGGTTTATG
* * *
702077 GTTTAAGATTTAAGAGTTACAATTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATCTAAGGTTTATG
*
702112 GATTATGGGTTTA
1 GTTTA-GGGTTTA
702125 GTGATTATGT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.43
Consensus pattern (35 bp):
GTTTAGGGTTTAAGAGTTACAATCTAAGGTTTATG
Found at i:703450 original size:306 final size:305
Alignment explanation
Indices: 703013--703601 Score: 1142
Period size: 306 Copynumber: 1.9 Consensus size: 305
703003 TGGCTTCACA
*
703013 AGTGGCATTTTTGGTGAAACGCCGTAAATGTGCAGGATTTAGAGGCGCAATGTCAAAAACGCCGC
1 AGTGGCATTTTTGGTCAAACGCCGTAAATGTGCAGGATTTAGAGGCGCAATGTCAAAAACGCCGC
703078 AATTCCTTGTGTTGTATTAATGCAAACGTCATTTTCTATTAACCCAAACGCGGCCGTTTTGGAGG
66 AATTCCTTGTGTTGTATTAATGCAAACGTCATTTTCTATTAACCCAAACGCGGCCGTTTTGGAGG
703143 TTCTCTAGTGGCGTTTTGGATTAAACGCCGCAGTAGGTAGGAATTTAGCGGCGTTTCTAATAAAC
131 TTCTCTAGTGGCGTTTTGGATTAAACGCCGCAGTAGGTAGGAATTTAGCGGCGTTTCTAATAAAC
*
703208 GCTGCAATAGTTTATTTCTATTACTCAAACGTCATCGTTTTTCTGTCCTCTGTTTTGCCCTTACC
196 GCCGCAATAGTTTATTTCTATTACTCAAACGTCATCGTTTTTCTGTCCTCTGTTTTGCCCTTACC
703273 CTGAATCTATTTTCAGCAAAACGGTGCCGTGTTGATAGCTTCTTT
261 CTGAATCTATTTTCAGCAAAACGGTGCCGTGTTGATAGCTTCTTT
*
703318 AGTGGCGTTTTTGGTCAAACGCCGTAAATGCTGCAGGATTTAGAGGCGCAATGTCAAAAACGCCG
1 AGTGGCATTTTTGGTCAAACGCCGTAAATG-TGCAGGATTTAGAGGCGCAATGTCAAAAACGCCG
703383 CAATTCCTTGTGTTGTATTAATGCAAACGTCATTTTCTATTAACCCAAACGCGGCCGTTTTGGAG
65 CAATTCCTTGTGTTGTATTAATGCAAACGTCATTTTCTATTAACCCAAACGCGGCCGTTTTGGAG
703448 GTTCTCTAGTGGCGTTTTGGATTAAACGCCGCAGTAGGTAGGAATTTAGCGGCGTTTCTAATAAA
130 GTTCTCTAGTGGCGTTTTGGATTAAACGCCGCAGTAGGTAGGAATTTAGCGGCGTTTCTAATAAA
703513 CGCCGCAATAGTTTATTTCTATTACTCAAACGTCATCGTTTTTCTGTCCTCTGTTTTGCCCTTAC
195 CGCCGCAATAGTTTATTTCTATTACTCAAACGTCATCGTTTTTCTGTCCTCTGTTTTGCCCTTAC
703578 CCTGAATCTATTTTCAGCAAAACG
260 CCTGAATCTATTTTCAGCAAAACG
703602 NNNNNNNNNN
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
305 28 0.10
306 252 0.90
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (305 bp):
AGTGGCATTTTTGGTCAAACGCCGTAAATGTGCAGGATTTAGAGGCGCAATGTCAAAAACGCCGC
AATTCCTTGTGTTGTATTAATGCAAACGTCATTTTCTATTAACCCAAACGCGGCCGTTTTGGAGG
TTCTCTAGTGGCGTTTTGGATTAAACGCCGCAGTAGGTAGGAATTTAGCGGCGTTTCTAATAAAC
GCCGCAATAGTTTATTTCTATTACTCAAACGTCATCGTTTTTCTGTCCTCTGTTTTGCCCTTACC
CTGAATCTATTTTCAGCAAAACGGTGCCGTGTTGATAGCTTCTTT
Found at i:712883 original size:14 final size:14
Alignment explanation
Indices: 712864--712897 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
712854 ATTGCTATTG
712864 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
712878 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
712892 GTTGCT
1 GTTGCT
712898 ACAGGAGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.09, G:0.24, T:0.56
Consensus pattern (14 bp):
GTTGCTTTTGAATT
Found at i:713467 original size:7 final size:7
Alignment explanation
Indices: 713457--713488 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
713447 ATAAATGCTA
713457 AAACCCT
1 AAACCCT
713464 AAACCCT
1 AAACCCT
713471 AAACCCT
1 AAACCCT
713478 AAACCCT
1 AAACCCT
713485 AAAC
1 AAAC
713489 TTGAGACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:713498 original size:28 final size:28
Alignment explanation
Indices: 713466--713522 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
713456 AAAACCCTAA
713466 ACCCTAAACCCTAAACCC-TAAACTTGAG
1 ACCCTAAACCCTAAACCCTTAAA-TTGAG
** *
713494 ACCCTAGGCCTTAAACCCTTAAATTGAG
1 ACCCTAAACCCTAAACCCTTAAATTGAG
713522 A
1 A
713523 GTTATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.37, C:0.32, G:0.11, T:0.21
Consensus pattern (28 bp):
ACCCTAAACCCTAAACCCTTAAATTGAG
Found at i:713798 original size:21 final size:21
Alignment explanation
Indices: 713760--713816 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
713750 ATATTCCATA
** *
713760 AATTTCAATTAAAAATAATAAG
1 AATTT-AATTAATTATAAAAAG
*
713782 AATTTAATTAATTATAAAAAT
1 AATTTAATTAATTATAAAAAG
*
713803 ATTTTAATT-ATTAT
1 AATTTAATTAATTAT
713817 TAAATTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTAATTAATTATAAAAAG
Found at i:715262 original size:31 final size:30
Alignment explanation
Indices: 715203--715262 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
715193 ATAGCATCGA
*
715203 TTTTAATAGTCTAGTGACTTAAATAAAAAC
1 TTTTAATAGTCTAGTGACTTAAACAAAAAC
*
715233 TTTTAAATAGTTTAGTGA-TCTAAACAAAAA
1 TTTT-AATAGTCTAGTGACT-TAAACAAAAA
715263 TTTACCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (30 bp):
TTTTAATAGTCTAGTGACTTAAACAAAAAC
Found at i:723429 original size:13 final size:14
Alignment explanation
Indices: 723410--723447 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
723400 TACCTCCGAG
723410 GTTAAAAAAATCGA
1 GTTAAAAAAATCGA
*
723424 -TTAAAAAAATTGA
1 GTTAAAAAAATCGA
723437 GTATAAAAAAA
1 GT-TAAAAAAA
723448 AGAGAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 1 0.05
15 8 0.38
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (14 bp):
GTTAAAAAAATCGA
Found at i:731208 original size:20 final size:20
Alignment explanation
Indices: 731171--731212 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
731161 AAATAAAAAC
* *
731171 AAATAGAAATACATGTATTAA
1 AAATAGAAATAAAAGTA-TAA
731192 AAATA-AAATAAAAGTATAA
1 AAATAGAAATAAAAGTATAA
731211 AA
1 AA
731213 GCATGCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (20 bp):
AAATAGAAATAAAAGTATAA
Found at i:731896 original size:3 final size:3
Alignment explanation
Indices: 731888--731932 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
731878 TATAGAAAAT
* *
731888 ATA ATA ATA GTA ATA ATAA ATA AT- ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
731933 GAAAATCGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 32 0.89
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:731917 original size:24 final size:24
Alignment explanation
Indices: 731885--731930 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
731875 ATATATAGAA
* *
731885 AATATAATAATAGTAATAATAAAT
1 AATACAATAATAATAATAATAAAT
731909 AATACAATAATAATAATAATAA
1 AATACAATAATAATAATAATAA
731931 TAGAAAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATACAATAATAATAATAATAAAT
Found at i:737061 original size:75 final size:75
Alignment explanation
Indices: 736938--737092 Score: 301
Period size: 75 Copynumber: 2.1 Consensus size: 75
736928 GGCAAAAGGG
*
736938 GGCATTTGAGGGAGGACAGTTTTTCTCTTGAAAATAAAAACTAAAAGAAGAAAGTTGCATCCCCC
1 GGCATTTGAGGGAGGACAGTTTTTCTCTTGAAAATAAAAACTAAAAGAAGAAAGTTGCATCCACC
737003 GCTTGCAAGT
66 GCTTGCAAGT
737013 GGCATTTGAGGGAGGACAGTTTTTCTCTTGAAAATAAAAACTAAAAGAAGAAAGTTGCATCCACC
1 GGCATTTGAGGGAGGACAGTTTTTCTCTTGAAAATAAAAACTAAAAGAAGAAAGTTGCATCCACC
737078 GCTTGCAAGT
66 GCTTGCAAGT
737088 GGCAT
1 GGCAT
737093 ATCTGGTTCC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (75 bp):
GGCATTTGAGGGAGGACAGTTTTTCTCTTGAAAATAAAAACTAAAAGAAGAAAGTTGCATCCACC
GCTTGCAAGT
Found at i:738869 original size:27 final size:27
Alignment explanation
Indices: 738810--738887 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
738800 GATGCTTAGT
* * *
738810 AGTTGCTAGGT-GAGACTCTTAGGAGAA
1 AGTTGTTAGGTAG-GACTCTTAGAATAA
*
738837 ATTTGTTAGGTAGGACTCTTAGAATAA
1 AGTTGTTAGGTAGGACTCTTAGAATAA
* *
738864 AGTTGTT--TTAGGACTCTTAAAATA
1 AGTTGTTAGGTAGGACTCTTAGAATA
738888 GATGTTGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 15 0.35
27 27 0.63
28 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (27 bp):
AGTTGTTAGGTAGGACTCTTAGAATAA
Found at i:746771 original size:50 final size:48
Alignment explanation
Indices: 746634--746772 Score: 152
Period size: 48 Copynumber: 2.8 Consensus size: 48
746624 TTTTTATTGC
* * * *
746634 AAGCCTCTCCTTATGCATCTGGGAGTAAGACCATAATTACCACATTTCAT
1 AAGCCTCTCC--ATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAT
* * * *
746684 AAGCCTCTCCACGCGTCTGGGAGCAGGGTCATCATTACCACATTCCAT
1 AAGCCTCTCCATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAT
* *
746732 AAGCCTCTTCCCATGCGTCTGGGAGTAGGGCCTTTATTACC
1 AAGCCTC-T-CCATGCGTCTGGGAGTAGGGCCATAATTACC
746773 TTCCATAAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
48 37 0.50
49 1 0.01
50 36 0.49
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
AAGCCTCTCCATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAT
Found at i:746873 original size:49 final size:51
Alignment explanation
Indices: 746751--746891 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 51
746741 CCCATGCGTC
* * * *
746751 TGGGAGTAGGG-CCTTTATTACCTTCCATAAGTTTGCCTCCTATTATGTGTT
1 TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCT-CCTCCTACTATGAGTT
* * *
746802 TGGGAGCAGGGTCACCTTATTACCTTTCATAAGTCT-C-CCT-CTATGAGTT
1 TGGGAGTAGGGTCA-TTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
746851 TGGGAGTAGGGTCATTTCATTACCTTCCATAAG-CGTCCTCC
1 TGGGAGTAGGGTCATTT-ATTACCTTCCATAAGTC-TCCTCC
746892 CATCGCCTAG
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
48 3 0.04
49 35 0.47
50 4 0.05
51 13 0.18
52 1 0.01
53 18 0.24
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (51 bp):
TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
Found at i:748364 original size:14 final size:14
Alignment explanation
Indices: 748345--748384 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
748335 TTGATTACCA
748345 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
748359 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
748373 GGAAAATGTTTT
1 GTAAAATGTTTT
748385 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:748393 original size:20 final size:20
Alignment explanation
Indices: 748368--748407 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
748358 CGTAAAATGA
*
748368 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
748388 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
748408 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:748397 original size:34 final size:35
Alignment explanation
Indices: 748353--748419 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
748343 CAGTAAAATG
*
748353 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
748387 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
748420 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:748423 original size:14 final size:15
Alignment explanation
Indices: 748347--748423 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
748337 GATTACCAGT
* *
748347 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
748361 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
748375 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
748395 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
748410 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
748424 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:748567 original size:21 final size:21
Alignment explanation
Indices: 748538--748579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
748528 ACGGAAATTG
*
748538 AAAAGGTAAGACATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
* *
748559 AAAATGTAACTCATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
748580 TGTTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAGGTAACACATTTTCCCT
Found at i:752991 original size:35 final size:37
Alignment explanation
Indices: 752952--753028 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 37
752942 TTATTAAATT
752952 ATATTTAATAATA-ATTATGTTAA-AATATGATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
* * * *
752987 ATATTT-ATATTATATTATTTTAATAATCTTATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
753023 AT-TTTA
1 ATATTTA
753029 TAACAAAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.14
35 18 0.51
36 12 0.34
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATATTTAATAATATATTATGTTAATAATATGATTAAA
Found at i:753218 original size:16 final size:16
Alignment explanation
Indices: 753199--753243 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
753189 CTATTACTGC
753199 TCTATTCCATTACACA
1 TCTATTCCATTACACA
*
753215 TCTATTCCATTACACC
1 TCTATTCCATTACACA
753231 TCTATTCCATTAC
1 TCTATTCCATTAC
753244 GGCGAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:756735 original size:32 final size:32
Alignment explanation
Indices: 756689--756749 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
756679 CTTTTGACGT
*
756689 TTGAGGGTTAGAGAATAATGGAGATCATTTTA
1 TTGAGGGTTAGAGAATAATAGAGATCATTTTA
*
756721 TTGAGGGTTTGAGAATAATAGAGATCATT
1 TTGAGGGTTAGAGAATAATAGAGATCATT
756750 CGATGGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (32 bp):
TTGAGGGTTAGAGAATAATAGAGATCATTTTA
Found at i:764785 original size:32 final size:31
Alignment explanation
Indices: 764749--764845 Score: 89
Period size: 32 Copynumber: 3.3 Consensus size: 31
764739 ATTTTTCAAA
764749 TAAAAAATAGCCAATTAATTGATCTCCTCTCT
1 TAAAAAATAGCCAATTAATT-ATCTCCTCTCT
* * ***
764781 TAAAAAATA-TCAA-TCATT-T-T--TCAAA
1 TAAAAAATAGCCAATTAATTATCTCCTCTCT
764806 TAAAAAATAGCCAATTAATTCATCTCCTCTCT
1 TAAAAAATAGCCAATTAATT-ATCTCCTCTCT
764838 TAAAAAAT
1 TAAAAAAT
764846 TGTAATGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
25 11 0.23
26 3 0.06
27 5 0.10
28 1 0.02
29 1 0.02
30 5 0.10
31 3 0.06
32 19 0.40
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (31 bp):
TAAAAAATAGCCAATTAATTATCTCCTCTCT
Found at i:767604 original size:6 final size:6
Alignment explanation
Indices: 767589--767630 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
767579 TTTATAGGAA
767589 AAAAAGG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
767631 AGAGGGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:768652 original size:15 final size:15
Alignment explanation
Indices: 768634--768681 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
768624 CGGGTCGGGT
768634 GGCGCCTCATAGAGA
1 GGCGCCTCATAGAGA
*
768649 GGCGCC-AAT-GA-A
1 GGCGCCTCATAGAGA
*
768661 GGTGCCTCATAGAGA
1 GGCGCCTCATAGAGA
768676 GGCGCC
1 GGCGCC
768682 AATGGTGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 4 0.15
15 12 0.46
ACGTcount: A:0.25, C:0.27, G:0.35, T:0.12
Consensus pattern (15 bp):
GGCGCCTCATAGAGA
Found at i:768825 original size:3 final size:3
Alignment explanation
Indices: 768819--768870 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
768809 GAGAGAAAGG
*
768819 AGA AGA AG- AGA AGG AGA AGA AG- AGA AGA AGA AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
768864 AGA AGA A
1 AGA AGA A
768871 AGAAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 6 0.14
3 38 0.86
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:768829 original size:17 final size:16
Alignment explanation
Indices: 768807--768875 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 16
768797 AGAAAAAAAA
768807 AAGAGAGAAAGGAGAAG
1 AAGA-AGAAAGGAGAAG
768824 AAG-AG-AAGGAGAAG
1 AAGAAGAAAGGAGAAG
*
768838 AAG-AG-AAGAAGAAG
1 AAGAAGAAAGGAGAAG
*
768852 AAG-AG-AAGAAGAAG
1 AAGAAGAAAGGAGAAG
768866 AAGAAAGAAA
1 AAG-AAGAAA
768876 AAAAAAGGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
14 39 0.81
15 2 0.04
16 2 0.04
17 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAGGAGAAG
Done.