Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 2 of 202
Found at i:487532 original size:17 final size:17
Alignment explanation
Indices: 487510--487542 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
487500 TAATTAAATT
*
487510 ATTCGTTAGATATTTGA
1 ATTCGTTAAATATTTGA
487527 ATTCGTTAAATATTTG
1 ATTCGTTAAATATTTG
487543 GATTTAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (17 bp):
ATTCGTTAAATATTTGA
Found at i:488988 original size:2 final size:2
Alignment explanation
Indices: 488981--489006 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
488971 ATGCCAGAAC
488981 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
489007 CAGTTCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:490971 original size:4 final size:4
Alignment explanation
Indices: 490962--490992 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
490952 AAATGAGAAA
490962 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
490993 TGGCTGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:491803 original size:2 final size:2
Alignment explanation
Indices: 491796--491839 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
491786 NNNNNNNNCG
*
491796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
491838 TA
1 TA
491840 AATGGAATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:493607 original size:16 final size:16
Alignment explanation
Indices: 493586--493616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
493576 TTAGGGCATT
*
493586 GAATAGAGGTGTAATG
1 GAATAGAGCTGTAATG
493602 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
493617 AGTAATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
GAATAGAGCTGTAATG
Found at i:493685 original size:44 final size:45
Alignment explanation
Indices: 493602--493689 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
493592 AGGTGTAATG
*
493602 GAATAGAGCTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
1 GAATAGAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
* *
493647 GAATAGAACTGTAATGGT-ATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAAT
493690 GATGTTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 16 0.41
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (45 bp):
GAATAGAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
Found at i:497274 original size:3 final size:3
Alignment explanation
Indices: 497266--497327 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
497256 TTTATAATGC
*
497266 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
497314 TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TA
497328 ATATAGGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:497420 original size:26 final size:26
Alignment explanation
Indices: 497391--497440 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
497381 CATTATTTTA
* * *
497391 TTTTATTATGTATTATTTTGTAATGC
1 TTTTATCATGTATCATTTTATAATGC
497417 TTTTATCATGTATCATTTTATAAT
1 TTTTATCATGTATCATTTTATAAT
497441 TTTTTCTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTATCATGTATCATTTTATAATGC
Found at i:516627 original size:21 final size:22
Alignment explanation
Indices: 516587--516631 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
516577 TGAGTTAGTT
*
516587 TTTGAATTTAGATCAATTTAAA
1 TTTGAATTTAGATAAATTTAAA
*
516609 TTTGAGTTTA-ATAAATTTAAA
1 TTTGAATTTAGATAAATTTAAA
516630 TT
1 TT
516632 ATTTACCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TTTGAATTTAGATAAATTTAAA
Found at i:527119 original size:21 final size:21
Alignment explanation
Indices: 527095--527134 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
527085 TGTTCAATTT
527095 TTATTTTCCCATGACTTTTGA
1 TTATTTTCCCATGACTTTTGA
* *
527116 TTATTTTCTCATGTCTTTT
1 TTATTTTCCCATGACTTTT
527135 CTCCTATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATTTTCCCATGACTTTTGA
Found at i:528741 original size:21 final size:21
Alignment explanation
Indices: 528717--528760 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
528707 TTAAATAGAT
528717 TAAATTAA-TGTTTGCTAATAA
1 TAAATTAAGT-TTTGCTAATAA
*
528738 TAAATTAAGTTTTGTTAATAA
1 TAAATTAAGTTTTGCTAATAA
528759 TA
1 TA
528761 TATATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (21 bp):
TAAATTAAGTTTTGCTAATAA
Found at i:533093 original size:84 final size:81
Alignment explanation
Indices: 532996--533210 Score: 208
Period size: 83 Copynumber: 2.6 Consensus size: 81
532986 AAAATATAAG
* *
532996 TTTATTATGTATTAATTTATAATTTCATCAGTTT-TGAAGA-GACTATAA-AAAATATTTT-ATT
1 TTTACTATATATTAATTTATAATTTC-TCAGTTTAT-AAGAGGACTA-AATAAAAT-TTTTCA-T
* *
533057 TTTACGGGG-GCTAAAGTGTAATT
61 TTTA-GGGGATC-AAAGAGT-ATT
**
533080 TTTACTATATATTAATTTATAATTTCTTTGTTTATAAGAGGACTAAATTGAAAATTTTTCATTTT
1 TTTACTATATATTAATTTATAATTTCTCAGTTTATAAGAGGACTAAA-T-AAAATTTTTCATTTT
533145 AGGGGATCAAAGAGTATT
64 AGGGGATCAAAGAGTATT
* * *
533163 TTTACTATATACTAATTTATAATTTATTTA-TTTATAAGAGGACTAAAT
1 TTTACTATATATTAATTTATAATTT-CTCAGTTTATAAGAGGACTAAAT
533211 TGAAAAAAAT
Statistics
Matches: 114, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
82 1 0.01
83 55 0.48
84 42 0.37
85 10 0.09
86 6 0.05
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (81 bp):
TTTACTATATATTAATTTATAATTTCTCAGTTTATAAGAGGACTAAATAAAATTTTTCATTTTAG
GGGATCAAAGAGTATT
Found at i:537704 original size:31 final size:31
Alignment explanation
Indices: 537669--537747 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
537659 AATTAAACTG
537669 TTAATATATT-ATTTAGTACTT-GAGTTTAGTT
1 TTAATAT-TTAATTTAGTA-TTCGAGTTTAGTT
* * *
537700 TTAATGTTTAATTTTGTATTCGAGTTTATTT
1 TTAATATTTAATTTAGTATTCGAGTTTAGTT
* *
537731 TTAATATTCATTTTAGT
1 TTAATATTTAATTTAGT
537748 GCCTAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 4 0.10
31 35 0.90
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (31 bp):
TTAATATTTAATTTAGTATTCGAGTTTAGTT
Found at i:545333 original size:21 final size:21
Alignment explanation
Indices: 545309--545351 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
545299 ATTGTATTTT
545309 ATATACAATT-TATAAAAATAA
1 ATATA-AATTATATAAAAATAA
*
545330 ATATAATTTAGTATAAAAATAA
1 ATATAAATTA-TATAAAAATAA
545352 TTTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 5 0.26
22 11 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATAAATTATATAAAAATAA
Found at i:545351 original size:16 final size:16
Alignment explanation
Indices: 545326--545360 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
545316 ATTTATAAAA
* *
545326 ATAAATATAATTTAGT
1 ATAAAAATAATTTAAT
545342 ATAAAAATAATTTAAT
1 ATAAAAATAATTTAAT
545358 ATA
1 ATA
545361 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAAAAATAATTTAAT
Found at i:552768 original size:75 final size:75
Alignment explanation
Indices: 552645--552793 Score: 298
Period size: 75 Copynumber: 2.0 Consensus size: 75
552635 TTGGCTGAGA
552645 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
1 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
552710 TATATATATT
66 TATATATATT
552720 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
1 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
552785 TATATATAT
66 TATATATAT
552794 ATATATATAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (75 bp):
ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
TATATATATT
Found at i:552788 original size:2 final size:2
Alignment explanation
Indices: 552775--552812 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
552765 TTTCAACAAG
*
552775 TA TA TG TA 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 TA TA TA TA
552813 AGATAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:554923 original size:2 final size:2
Alignment explanation
Indices: 554911--554951 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
554901 ACTTCACCCC
*
554911 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
554952 ATAAATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:568350 original size:30 final size:30
Alignment explanation
Indices: 568319--568416 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 30
568309 AGGGCTGAAG
*
568319 TGTAATTTTGAGAAAGTTTAGGGGTCAAAG
1 TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
* * *
568349 TGTAA-TATGAGGAAAGTTAAAGGGTCAAAA
1 TGTAATTTTGA-GAAAGTTTAGGGGTCAAAA
* *
568379 TATAATTTTG-GGAAGTTTAGGGGTCAAAA
1 TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
*
568408 TGCAATTTT
1 TGTAATTTT
568417 TTTAAAAACA
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
29 27 0.49
30 25 0.45
31 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
Found at i:568359 original size:29 final size:30
Alignment explanation
Indices: 568316--568416 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
568306 TCTAGGGCTG
568316 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
1 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
* * *
568346 AAGTGTAA-TATGAGGAAAGTTAAAGGGTCA
1 AAGTGTAATTTTGA-GAAAGTTTAGGGGTCA
* * *
568376 AAATATAATTTTG-GGAAGTTTAGGGGTCA
1 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
* *
568405 AAATGCAATTTT
1 AAGTGTAATTTT
568417 TTTAAAAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 27 0.47
30 28 0.48
31 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.32
Consensus pattern (30 bp):
AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
Found at i:576748 original size:2 final size:2
Alignment explanation
Indices: 576730--576767 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
576720 GAATAGAAGC
* *
576730 TA TA TA CA TA TA CA 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 TA TA TA TA
576768 AACACACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:580778 original size:17 final size:17
Alignment explanation
Indices: 580756--580793 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
580746 CTCAACCAAC
580756 AAATCTACCTTAATTTT
1 AAATCTACCTTAATTTT
*
580773 AAATCTACTTTAATTTT
1 AAATCTACCTTAATTTT
580790 AAAT
1 AAAT
580794 GGAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATCTACCTTAATTTT
Found at i:584212 original size:19 final size:16
Alignment explanation
Indices: 584176--584208 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
584166 AAAAAAACAC
584176 TAAGCTTAATTTATCA
1 TAAGCTTAATTTATCA
584192 TAAGCTTAATTTATCA
1 TAAGCTTAATTTATCA
584208 T
1 T
584209 CATATGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (16 bp):
TAAGCTTAATTTATCA
Found at i:585078 original size:5 final size:6
Alignment explanation
Indices: 585062--585089 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
585052 ATAACGTAAA
585062 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
585090 AATTTGGGTC
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:585316 original size:39 final size:39
Alignment explanation
Indices: 585270--585344 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
585260 TTATTATGAG
* *
585270 AGTATTTTTGTCATTTTATATTTTATGTAAAATCTAGAT
1 AGTATTTTTATCATTTTATATTTTATATAAAATCTAGAT
* *
585309 AGTATTTTTATCGTTTTATATTTTTTATAAAATCTA
1 AGTATTTTTATCATTTTATATTTTATATAAAATCTA
585345 AAAAAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (39 bp):
AGTATTTTTATCATTTTATATTTTATATAAAATCTAGAT
Found at i:602307 original size:11 final size:11
Alignment explanation
Indices: 602270--602339 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
602260 CAATAACAAT
602270 AAAATAGTAGC
1 AAAATAGTAGC
* *
602281 AAGATAGTAGT
1 AAAATAGTAGC
* *
602292 GAAATGGTAGC
1 AAAATAGTAGC
602303 AAAATAGTGAG-
1 AAAATAGT-AGC
* *
602314 AAAATAATAGG
1 AAAATAGTAGC
*
602325 AAAATAGCAGC
1 AAAATAGTAGC
602336 AAAA
1 AAAA
602340 CAATAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
10 2 0.04
11 41 0.91
12 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:604373 original size:77 final size:77
Alignment explanation
Indices: 604283--604439 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 77
604273 TTTAAAAGTA
* * *
604283 CTGCACATTAAATTGCTTTGGAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGGGGACC
1 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
604348 AGTCCCTTCTGC
66 AGTCCCTTCTGC
604360 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
1 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
**
604425 TTTCCCTTCTGC
66 AGTCCCTTCTGC
604437 CTG
1 CTG
604440 TAATTCTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (77 bp):
CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
AGTCCCTTCTGC
Found at i:605078 original size:21 final size:21
Alignment explanation
Indices: 605049--605090 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
605039 ACGGAAATTG
*
605049 AAAAGGTAAGACATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
* *
605070 AAAATGTAACCCATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
605091 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:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAGGTAACACATTTTCCCT
Found at i:606849 original size:26 final size:26
Alignment explanation
Indices: 606797--606851 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
606787 TAATAATTGT
* *
606797 ATCTAAAAAAACTCGAAACTCCTAAA
1 ATCTAAAAAAACTCCAAACTCCAAAA
*
606823 ATCTAAACTAAACTCCAAACT-CAAAA
1 ATCTAAA-AAAACTCCAAACTCCAAAA
606849 ATC
1 ATC
606852 AAGAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (26 bp):
ATCTAAAAAAACTCCAAACTCCAAAA
Found at i:609717 original size:17 final size:18
Alignment explanation
Indices: 609695--609731 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
609685 TCCTTTATAC
609695 ATATATT-GA-ATTTCTAT
1 ATATATTAGATATTT-TAT
609712 ATATATTAGATATTTTAT
1 ATATATTAGATATTTTAT
609730 AT
1 AT
609732 TTTCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATATTAGATATTTTAT
Found at i:609747 original size:7 final size:7
Alignment explanation
Indices: 609737--609762 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
609727 TATATTTTCT
609737 TTTTGAA
1 TTTTGAA
609744 TTTTGAA
1 TTTTGAA
609751 TTTTGAA
1 TTTTGAA
609758 TTTTG
1 TTTTG
609763 TTATAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (7 bp):
TTTTGAA
Found at i:609961 original size:39 final size:40
Alignment explanation
Indices: 609918--609995 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
609908 TAATATATAT
609918 ATATATATATATAACTAAT-TAAT-TTATTGAACTTTTTCC
1 ATATATATATATAACTAATAT-ATCTTATTGAACTTTTTCC
* *
609957 ATATATCTATATGACTAATATATCTTATTGAACTTTTTC
1 ATATATATATATAACTAATATATCTTATTGAACTTTTTC
609996 TAGGGTCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATATATATATAACTAATATATCTTATTGAACTTTTTCC
Found at i:610935 original size:2 final size:2
Alignment explanation
Indices: 610928--610961 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
610918 AAATTTCTTT
610928 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
610962 AAAACTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:615359 original size:30 final size:30
Alignment explanation
Indices: 615325--615393 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
615315 TGAGTTTGTC
615325 GTTCAATTT-TATTCTTGAGTTT-GCTTCAAT
1 GTTCAATTTGTA-TC-TGAGTTTGGCTTCAAT
*
615355 GTTCAATTTGGTATCTGAGTTTGGCTTTAAT
1 GTTCAATTT-GTATCTGAGTTTGGCTTCAAT
615386 GTTCAATT
1 GTTCAATT
615394 CGATACCTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 16 0.46
31 17 0.49
32 2 0.06
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (30 bp):
GTTCAATTTGTATCTGAGTTTGGCTTCAAT
Found at i:615404 original size:31 final size:30
Alignment explanation
Indices: 615340--615405 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
615330 ATTTTATTCT
* * *
615340 TGAGTTTGCTTCAATGTTCAATTTGGTATC
1 TGAGTTTGCTTCAATGTTCAATTCGATACC
*
615370 TGAGTTTGGCTTTAATGTTCAATTCGATACC
1 TGAGTTT-GCTTCAATGTTCAATTCGATACC
615401 TGAGT
1 TGAGT
615406 GTTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (30 bp):
TGAGTTTGCTTCAATGTTCAATTCGATACC
Found at i:619606 original size:8 final size:9
Alignment explanation
Indices: 619573--619604 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
619563 ACATGAATAA
619573 AAAAATATAT
1 AAAAAT-TAT
619583 AAAAATTAT
1 AAAAATTAT
619592 AAAAATTAT
1 AAAAATTAT
619601 AAAA
1 AAAA
619605 TTTTCTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:619675 original size:20 final size:22
Alignment explanation
Indices: 619638--619677 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
619628 AATTATTTTT
*
619638 TTATAAAATTTTATAATTTTAA
1 TTATAAAATTATATAATTTTAA
619660 TTAT-AAATTATA-AATTTT
1 TTATAAAATTATATAATTTT
619678 TAATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATAAAATTATATAATTTTAA
Found at i:619692 original size:29 final size:28
Alignment explanation
Indices: 619638--619694 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
619628 AATTATTTTT
619638 TTATAAAATTTTATAATTTTAATTATAAA
1 TTATAAAATTTTATAATTTT-ATTATAAA
*
619667 TTATAAATTTTTAATAAATTTT-TTATAA
1 TTATAAAATTTT-AT-AATTTTATTATAA
619695 TTCCAGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 17 0.68
30 2 0.08
31 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATAAAATTTTATAATTTTATTATAAA
Found at i:620811 original size:9 final size:9
Alignment explanation
Indices: 620797--620821 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
620787 GCAAAGAGCA
620797 AAGATGATG
1 AAGATGATG
620806 AAGATGATG
1 AAGATGATG
620815 AAGATGA
1 AAGATGA
620822 AAATAGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (9 bp):
AAGATGATG
Found at i:623369 original size:20 final size:18
Alignment explanation
Indices: 623311--623384 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
623301 TATTAAATTT
623311 TTTTATAAATTTTATAACA
1 TTTTATAAATTTTATAA-A
* * * *
623330 TGTTATGAATTTAATTAA
1 TTTTATAAATTTTATAAA
623348 TTTCTAATAAATTTTATAAA
1 TTT-T-ATAAATTTTATAAA
*
623368 TTTTA-AAATTTTTTAAA
1 TTTTATAAATTTTATAAA
623385 ATTCCAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.25
18 4 0.09
19 15 0.34
20 14 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTATAAATTTTATAAA
Found at i:623378 original size:8 final size:9
Alignment explanation
Indices: 623311--623384 Score: 69
Period size: 9 Copynumber: 8.0 Consensus size: 9
623301 TATTAAATTT
623311 TTTTATAAA
1 TTTTATAAA
623320 TTTTATAACA
1 TTTTATAA-A
* *
623330 TGTTATGAA
1 TTTTATAAA
* *
623339 TTTAATTAA
1 TTTTATAAA
623348 TTTCTAATAAA
1 TTT-T-ATAAA
623359 TTTTATAAA
1 TTTTATAAA
623368 TTTTA-AAA
1 TTTTATAAA
*
623376 TTTTTTAAA
1 TTTTATAAA
623385 ATTCCAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
8 7 0.13
9 31 0.58
10 8 0.15
11 7 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTTATAAA
Found at i:625527 original size:16 final size:17
Alignment explanation
Indices: 625497--625529 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
625487 ATTTATGTCC
*
625497 TTTTAAAATTTATAAAA
1 TTTTAAAATTAATAAAA
625514 TTTT-AAATTAATAAAA
1 TTTTAAAATTAATAAAA
625530 GTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATTAATAAAA
Found at i:626524 original size:18 final size:18
Alignment explanation
Indices: 626501--626554 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 18
626491 AGAATCTAAG
626501 TTGGATTCTCCATAAGCA
1 TTGGATTCTCCATAAGCA
*
626519 TTGGATTCTCACCCTTAAGCA
1 TTGGATTCT---CCATAAGCA
626540 TTGGATTCTCCATAA
1 TTGGATTCTCCATAA
626555 TCTCTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 14 0.45
21 17 0.55
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (18 bp):
TTGGATTCTCCATAAGCA
Found at i:630089 original size:14 final size:14
Alignment explanation
Indices: 630067--630096 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
630057 AGAAAAATAG
630067 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
*
630081 TTTTTTTTTTCTTT
1 TTTTCTTTTTCTTT
630095 TT
1 TT
630097 AGTATCTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:633735 original size:31 final size:31
Alignment explanation
Indices: 633699--633771 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
633689 CAAAATAGTT
*
633699 ACTGAACTATTC-GAAAGTTTTCATTTAAGTC
1 ACTGAACTATTCAG-AAGTTTTCATTCAAGTC
*
633730 ACTGAACTATTCAGAAGTTTTTATTCAAGTC
1 ACTGAACTATTCAGAAGTTTTCATTCAAGTC
*
633761 ACTAAACTATT
1 ACTGAACTATT
633772 ATAGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
ACTGAACTATTCAGAAGTTTTCATTCAAGTC
Found at i:641997 original size:12 final size:12
Alignment explanation
Indices: 641980--642019 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
641970 TTTTGAACCT
*
641980 CTGCTTCTATCA
1 CTGCTTCTCTCA
*
641992 CTGCTTCTCTCG
1 CTGCTTCTCTCA
642004 CTGCTTCTCTCA
1 CTGCTTCTCTCA
642016 CTGC
1 CTGC
642020 GGCCTCTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.07, C:0.40, G:0.12, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCA
Found at i:642069 original size:21 final size:21
Alignment explanation
Indices: 642004--642072 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
641994 GCTTCTCTCG
* *
642004 CTGCTTCTCTCACTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
642025 CTACTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
642046 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
642067 CTGCTT
1 CTGCTT
642073 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.04, C:0.43, G:0.17, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:646592 original size:21 final size:22
Alignment explanation
Indices: 646551--646602 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
646541 TCATATGTAT
646551 GTTATGTATAACTTGTAATTAA
1 GTTATGTATAACTTGTAATTAA
646573 GTTATGTATAA-TAT-TAATTAA
1 GTTATGTATAACT-TGTAATTAA
*
646594 GTTGTGTAT
1 GTTATGTAT
646603 TATGTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (22 bp):
GTTATGTATAACTTGTAATTAA
Found at i:646610 original size:16 final size:16
Alignment explanation
Indices: 646591--646847 Score: 215
Period size: 16 Copynumber: 16.8 Consensus size: 16
646581 TAATATTAAT
*
646591 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
646607 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
646623 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
646639 TAATTTATGTATTATG
1 TAAGTTATGTATTATG
646655 T--GTTATGTATGTTATG
1 TAAGTTATGTA--TTATG
*
646671 T-A--TA-ATATTAAT-
1 TAAGTTATGTATT-ATG
*
646683 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
646699 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
* *
646715 TATGTTATGTATAACTTG
1 TAAGTTATGTATTA--TG
*
646733 TAA-TTAAG--TTATG
1 TAAGTTATGTATTATG
*
646746 T-A--TA-ATATTAAT-
1 TAAGTTATGTATT-ATG
*
646758 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
646774 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
646790 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
* *
646806 TAATTTATGTATCATG
1 TAAGTTATGTATTATG
646822 T-A-TTATGTATTATG
1 TAAGTTATGTATTATG
*
646836 TATGTTATGTAT
1 TAAGTTATGTAT
646848 AATATTAATT
Statistics
Matches: 200, Mismatches: 20, Indels: 42
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.01
12 7 0.04
13 9 0.05
14 21 0.10
15 11 0.05
16 142 0.71
17 4 0.02
18 4 0.02
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:646630 original size:9 final size:9
Alignment explanation
Indices: 646602--646725 Score: 67
Period size: 9 Copynumber: 14.8 Consensus size: 9
646592 AAGTTGTGTA
646602 TTATGTAAG
1 TTATGTAAG
*
646611 TTGTGT-A-
1 TTATGTAAG
646618 TTATGTAAG
1 TTATGTAAG
646627 TTATGT-A-
1 TTATGTAAG
*
646634 TTATGTAAT
1 TTATGTAAG
646643 TTATGT-A-
1 TTATGTAAG
646650 TTATGT--G
1 TTATGTAAG
*
646657 TTATGTATG
1 TTATGTAAG
*
646666 TTATGTATAATA
1 TTATG--TAA-G
646678 TTAAT-TAAG
1 TT-ATGTAAG
*
646687 TTGTGT-A-
1 TTATGTAAG
646694 TTATGTAAG
1 TTATGTAAG
646703 TTATGT-A-
1 TTATGTAAG
*
646710 TTATGTATG
1 TTATGTAAG
646719 TTATGTA
1 TTATGTA
646726 TAACTTGTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 32
0.69 0.06 0.24
Matches are distributed among these distances:
7 34 0.37
8 9 0.10
9 39 0.43
10 3 0.03
11 2 0.02
12 2 0.02
13 2 0.02
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:646759 original size:21 final size:22
Alignment explanation
Indices: 646718--646769 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
646708 TATTATGTAT
646718 GTTATGTATAACTTGTAATTAA
1 GTTATGTATAACTTGTAATTAA
646740 GTTATGTATAA-TAT-TAATTAA
1 GTTATGTATAACT-TGTAATTAA
*
646761 GTTGTGTAT
1 GTTATGTAT
646770 TATGTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (22 bp):
GTTATGTATAACTTGTAATTAA
Found at i:646785 original size:75 final size:76
Alignment explanation
Indices: 646607--646806 Score: 307
Period size: 75 Copynumber: 2.6 Consensus size: 76
646597 GTGTATTATG
* * *
646607 TAAGTTGTGTATTATGTAAGTTATGTATTATGTAAT-TTATGTATTATGTGTTATGTATGTTATG
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGT-ATGTTATGTATAATGTGTAATGTAAGTTATG
646671 TATAATATTAAT
65 TATAATATTAAT
646683 TAAGTTGTGTATTATGTAAGTTATGTATTATGTATGTTATGTATAACT-TGTAAT-TAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGTATGTTATGTATAA-TGTGTAATGTAAGTTATG
646746 TATAATATTAAT
65 TATAATATTAAT
* * *
646758 TAAGTTGTGTATTATGTAAGTTGTGTATTATGTAAGTTATGTATTATGT
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGTATGTTATGTATAATGT
646807 AATTTATGTA
Statistics
Matches: 115, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
74 1 0.01
75 66 0.57
76 47 0.41
77 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (76 bp):
TAAGTTGTGTATTATGTAAGTTATGTATTATGTATGTTATGTATAATGTGTAATGTAAGTTATGT
ATAATATTAAT
Found at i:646796 original size:91 final size:96
Alignment explanation
Indices: 646683--646871 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 96
646673 TAATATTAAT
646683 TAAGTTGTGTATTATGTAAGTTATGTATTATGT-ATGTTATGTAT-A-ACT-TGTA-AT-TAAGT
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGTAAT-TTATGTATCATACTATGTATATGTAAGT
*
646742 TATGTATAATATTAATTAAGTTGTGTATTATG
65 TATGTATAATATTAATTAAGTTATGTATTATG
* *
646774 TAAGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCATGTATTATGTATTATGTAT
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCA--TACTATGTA-TATGTAA
646839 GTTATGTATAATATTAATTAAGTTATGTATTAT
63 GTTATGTATAATATTAATTAAGTTATGTATTAT
646872 TATGTATGTT
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
91 41 0.48
92 3 0.03
95 2 0.02
96 4 0.05
98 2 0.02
99 34 0.40
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (96 bp):
TAAGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCATACTATGTATATGTAAGTT
ATGTATAATATTAATTAAGTTATGTATTATG
Found at i:646797 original size:9 final size:8
Alignment explanation
Indices: 646768--646837 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 8
646758 TAAGTTGTGT
646768 ATTATGTA
1 ATTATGTA
*
646776 AGTTGTGT-
1 A-TTATGTA
646784 ATTATGTA
1 ATTATGTA
646792 AGTTATGT-
1 A-TTATGTA
646800 ATTATGTA
1 ATTATGTA
646808 ATTTATGT-
1 A-TTATGTA
*
646816 ATCATGT-
1 ATTATGTA
646823 ATTATGT-
1 ATTATGTA
646830 ATTATGTA
1 ATTATGTA
646838 TGTTATGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 29 0.56
8 6 0.12
9 17 0.33
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.51
Consensus pattern (8 bp):
ATTATGTA
Found at i:646830 original size:167 final size:168
Alignment explanation
Indices: 646544--646871 Score: 577
Period size: 167 Copynumber: 1.9 Consensus size: 168
646534 TGCCACGTCA
646544 TATGTATGTTATGTATAACTTGTAATTAAGTTATGTATAATATTAATTAAGTTGTGTATTATGTA
1 TATGTATGTTATGTATAACTTGTAATTAAGTTATGTATAATATTAATTAAGTTGTGTATTATGTA
*
646609 AGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTAT-TATGTGTTATGTATGTTATGTA
66 AGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCTATGTATTATGTATGTTATGTA
*
646673 TAATATTAATTAAGTTGTGTATTATGTAAGTTATGTAT
131 TAATATTAATTAAGTTATGTATTATGTAAGTTATGTAT
646711 TATGTATGTTATGTATAACTTGTAATTAAGTTATGTATAATATTAATTAAGTTGTGTATTATGTA
1 TATGTATGTTATGTATAACTTGTAATTAAGTTATGTATAATATTAATTAAGTTGTGTATTATGTA
646776 AGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCATGTATTATGTATTATGTATGT
66 AGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATC------TATGTATTATGTATGT
646841 TATGTATAATATTAATTAAGTTATGTATTAT
125 TATGTATAATATTAATTAAGTTATGTATTAT
646872 TATGTATGTT
Statistics
Matches: 152, Mismatches: 2, Indels: 7
0.94 0.01 0.04
Matches are distributed among these distances:
167 107 0.70
174 45 0.30
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (168 bp):
TATGTATGTTATGTATAACTTGTAATTAAGTTATGTATAATATTAATTAAGTTGTGTATTATGTA
AGTTGTGTATTATGTAAGTTATGTATTATGTAATTTATGTATCTATGTATTATGTATGTTATGTA
TAATATTAATTAAGTTATGTATTATGTAAGTTATGTAT
Found at i:646863 original size:21 final size:21
Alignment explanation
Indices: 646839--646908 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
646829 TATTATGTAT
646839 GTTATGTATAATATTAATTAA
1 GTTATGTATAATATTAATTAA
*
646860 GTTATGTAT--TATT-ATGTAT
1 GTTATGTATAATATTAAT-TAA
646879 GTTATGTATAATATTAATTAA
1 GTTATGTATAATATTAATTAA
*
646900 GTTGTGTAT
1 GTTATGTAT
646909 TATGTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.05
19 15 0.36
21 23 0.55
22 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (21 bp):
GTTATGTATAATATTAATTAA
Found at i:646875 original size:40 final size:40
Alignment explanation
Indices: 646829--646919 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
646819 ATGTATTATG
646829 TATTATGTATGTTATGTATAATATTAATTAAGTTATGTAT
1 TATTATGTATGTTATGTATAATATTAATTAAGTTATGTAT
*
646869 TATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAT
1 TATTATGTATGTTATGTATAATATTAATTAAGTTATGTAT
646909 TATGTAT-TATG
1 TAT-TATGTATG
646920 CAAGTTTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (40 bp):
TATTATGTATGTTATGTATAATATTAATTAAGTTATGTAT
Found at i:647520 original size:18 final size:18
Alignment explanation
Indices: 647497--647587 Score: 114
Period size: 18 Copynumber: 4.9 Consensus size: 18
647487 AGCTAATTTT
647497 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
647515 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
*
647535 TAAATTTTAGTAA-GTAATA
1 T--ATTTAAGTAATGTAATA
647554 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
647572 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
647588 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.22
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:647558 original size:39 final size:35
Alignment explanation
Indices: 647497--647587 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 35
647487 AGCTAATTTT
*
647497 TATTTAAGTAATGTAATATATTTAAGTAATGTAAGTTA
1 TATTTTAGTAA-GTAATATATTTAAGTAATGTAA--TA
647535 TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATA
1 T--ATTTTAGTAAGTAATATATTTAAGTAATGTAATA
647572 TATTTTAGTAAGTAAT
1 TATTTTAGTAAGTAAT
647588 GTAAGTAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
35 15 0.30
37 3 0.06
38 1 0.02
39 22 0.44
40 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (35 bp):
TATTTTAGTAAGTAATATATTTAAGTAATGTAATA
Found at i:650700 original size:114 final size:114
Alignment explanation
Indices: 650554--651108 Score: 877
Period size: 114 Copynumber: 4.9 Consensus size: 114
650544 TAAATTATTT
* * * *
650554 TAAATCCTTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAAC
650619 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
650668 TAAATCCCTGAGCATTAGCGGCGCTTTTCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAAC
650733 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
650782 TAAAGCCCTAAGCATTAGCGGCGC-TTACATAGAAACGCCACTAAATCCCCGACAGCTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTAC-TAGAAACGCCACTAAATCCCCGACAGCTCAGAAAA
650846 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
65 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* **
650896 TAAATCCCTAAGCATTAGCGGCGC-TTACCTAGAAACGCCACTAAATCCCCGATGGCTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTA-CTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAA
* * *
650960 CGGCGTCGTTGGCCTTAGGTATTTTTGTGGCACTTTCCCAAAAACGCCGC
65 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
651010 TAAATCCCTGAGCATTAGCGGCAC-TTACATAGAAACGCCACTAAATCCCCGAAAGCTCCA-AAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTAC-TAGAAACGCCACTAAATCCCCGACAGCT-CAGAAA
*
651073 ACGGCGTCGTTGGGCTTAGGTA-TTTTGCGGCGCTTT
64 ACGGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTT
651109 TCTGGAAACG
Statistics
Matches: 417, Mismatches: 20, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
113 16 0.04
114 398 0.95
115 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAAC
GGCGTCGTTGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:662161 original size:27 final size:27
Alignment explanation
Indices: 662125--662178 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
662115 TTTAACTTGT
*
662125 CCCTCATTAAATTAGTATAGCCTTTTC
1 CCCTCATTAAATTAGTAAAGCCTTTTC
* *
662152 CCCTGATTAAATTAGTAAAGCTTTTTC
1 CCCTCATTAAATTAGTAAAGCCTTTTC
662179 TTTTTGGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCATTAAATTAGTAAAGCCTTTTC
Found at i:665478 original size:19 final size:19
Alignment explanation
Indices: 665439--665478 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
665429 TAAATTTTAT
*
665439 ATTTTTAAAAAAATTATAA
1 ATTTTTAAAAAAATTAAAA
665458 ATTTTT-AAAAAATCTAAAA
1 ATTTTTAAAAAAAT-TAAAA
665477 AT
1 AT
665479 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTTAAAAAAATTAAAA
Found at i:665491 original size:27 final size:27
Alignment explanation
Indices: 665447--665498 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
665437 ATATTTTTAA
**
665447 AAAAATTATAAATTTTTAA-AAAATCT
1 AAAAATTATAAAAATTTAATAAAATCT
665473 AAAAATATATAAAAATTTAATAAAAT
1 AAAAAT-TATAAAAATTTAATAAAAT
665499 AATAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 11 0.50
28 5 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAAATTATAAAAATTTAATAAAATCT
Found at i:667283 original size:22 final size:20
Alignment explanation
Indices: 667246--667285 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
667236 TTATGTAAAA
*
667246 ATATATAGTATTTTAGATCT
1 ATATATAGTATATTAGATCT
667266 ATATGATAGATATATTAGAT
1 ATAT-ATAG-TATATTAGAT
667286 TAGTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (20 bp):
ATATATAGTATATTAGATCT
Found at i:668702 original size:35 final size:34
Alignment explanation
Indices: 668653--668718 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
668643 AAACATTAAG
*
668653 TTTTGAGGGGTTTAATTAATAATTTTTAAAAAGGT
1 TTTTGAGGGATTTAA-TAATAATTTTTAAAAAGGT
* **
668688 TTTTTAGGGATTTAATAATTTTTTTTAAAAA
1 TTTTGAGGGATTTAATAATAATTTTTAAAAA
668719 AACTTAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 14 0.52
35 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (34 bp):
TTTTGAGGGATTTAATAATAATTTTTAAAAAGGT
Found at i:672062 original size:33 final size:30
Alignment explanation
Indices: 671993--672054 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
671983 ACTTATTTTA
671993 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
672023 TTGTTAATTTTGTTATTATTTTAGA-ACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
672052 TTG
1 TTG
672055 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:672200 original size:11 final size:11
Alignment explanation
Indices: 672184--672214 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
672174 TATATATATT
672184 TAAAAATTATA
1 TAAAAATTATA
*
672195 TAAAAATAATA
1 TAAAAATTATA
672206 TAAAAATTA
1 TAAAAATTA
672215 ATTCTGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:672728 original size:18 final size:19
Alignment explanation
Indices: 672701--672741 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
672691 AAAAATAATT
*
672701 TTTTATAAAT-ATTTTGAA
1 TTTTAAAAATCATTTTGAA
672719 TTTTAAAAATCATTTTGAA
1 TTTTAAAAATCATTTTGAA
672738 TTTT
1 TTTT
672742 TGAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATCATTTTGAA
Found at i:672747 original size:20 final size:19
Alignment explanation
Indices: 672700--672753 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
672690 AAAAAATAAT
*
672700 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
672719 -TTTTAAAAATCATTTTGAA
1 TTTTTAAAAAT-ATTTTGAA
*
672738 TTTTTGAAAATTATTT
1 TTTTT-AAAAATATTT
672754 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 8 0.27
21 5 0.17
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:679528 original size:26 final size:26
Alignment explanation
Indices: 679494--679544 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
679484 GTTCAAATAA
*
679494 TTTTGAATTTTTGTAA-GTTATAATTT
1 TTTTGAATTTTT-TAATGTAATAATTT
*
679520 TTTTTAATTTTTTAATGTAATAATT
1 TTTTGAATTTTTTAATGTAATAATT
679545 CATTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TTTTGAATTTTTTAATGTAATAATTT
Found at i:679550 original size:26 final size:26
Alignment explanation
Indices: 679493--679556 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
679483 GGTTCAAATA
* *
679493 ATTTTGAATTTTTGTAAGTTATAATTT
1 ATTTT-AATTTTTGTAAGTAATAATTC
*
679520 TTTTTAATTTTT-TAATGTAATAATTC
1 ATTTTAATTTTTGTAA-GTAATAATTC
*
679546 ATTTTACTTTT
1 ATTTTAATTTT
679557 ATAAGATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (26 bp):
ATTTTAATTTTTGTAAGTAATAATTC
Found at i:679989 original size:15 final size:14
Alignment explanation
Indices: 679961--680013 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
679951 TTTGGAAACC
*
679961 TTAAAACTAATATTT
1 TTAAAA-TATTATTT
679976 TTAAAATATCTATTT
1 TTAAAATAT-TATTT
*
679991 TTATAATATTCATTTT
1 TTAAAATATT-A-TTT
680007 TTAAAAT
1 TTAAAAT
680014 TTCATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.09
15 20 0.62
16 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:680017 original size:15 final size:15
Alignment explanation
Indices: 679973--680021 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
679963 AAAACTAATA
*
679973 TTTTTAAAATATC-T
1 TTTTTAAAATTTCAT
*
679987 ATTTTTATAATATTCAT
1 -TTTTTAAAAT-TTCAT
680004 TTTTTAAAATTTCAT
1 TTTTTAAAATTTCAT
680019 TTT
1 TTT
680022 AAACTATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 17 0.59
16 11 0.38
17 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAAATTTCAT
Found at i:688718 original size:14 final size:15
Alignment explanation
Indices: 688699--688732 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
688689 CGATTAACAG
688699 TATTAAAATTAT-TT
1 TATTAAAATTATGTT
*
688713 TATTAAATTTATGTT
1 TATTAAAATTATGTT
688728 TATTA
1 TATTA
688733 CAATATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTAAAATTATGTT
Found at i:704641 original size:27 final size:28
Alignment explanation
Indices: 704593--704647 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
704583 ATATAAGTAT
* *
704593 TAATATAAATTATATTTTAAACATTTAA
1 TAATATAAATTATATTTCAAACAGTTAA
*
704621 TAATATATA-TATATTTCAAACAGTTAA
1 TAATATAAATTATATTTCAAACAGTTAA
704648 CCAACACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATATAAATTATATTTCAAACAGTTAA
Found at i:719573 original size:21 final size:22
Alignment explanation
Indices: 719535--719575 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
719525 AATTTTAGAT
719535 TTTTTTCAATGTTTATATTTGA
1 TTTTTTCAATGTTTATATTTGA
719557 TTTTTT-AAT-TTTAATATTT
1 TTTTTTCAATGTTT-ATATTT
719576 TTTGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 9 0.50
22 6 0.33
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTTCAATGTTTATATTTGA
Found at i:720007 original size:27 final size:25
Alignment explanation
Indices: 719973--720026 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
719963 AAAAATTGAG
* *
719973 TTAAAATGACTTAAATTATCATTTTT
1 TTAAAATGA-TGAAATTATAATTTTT
719999 TTAATAATGATGAAATTATAATTTTT
1 TTAA-AATGATGAAATTATAATTTTT
720025 TT
1 TT
720027 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (25 bp):
TTAAAATGATGAAATTATAATTTTT
Found at i:720498 original size:4 final size:4
Alignment explanation
Indices: 720491--720668 Score: 277
Period size: 4 Copynumber: 44.5 Consensus size: 4
720481 TTTGAAAGAA
720491 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
720539 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
720587 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTA- AGTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC
* * * * * *
720635 GTAC GTAC GTAT GTAC ATAC ATAC ATAC AAAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
720669 TGTTTGATTT
Statistics
Matches: 164, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
4 164 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:723351 original size:31 final size:32
Alignment explanation
Indices: 723299--723370 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
723289 ATAAATTTCA
* *
723299 AAATTTGTTTTTCAATGAAAATGACTTATATAT
1 AAATTTTTTTTTCAA-GAAAATAACTTATATAT
* * *
723332 ATATTTTTTTTTCAA-AAAATAATTTTTATAT
1 AAATTTTTTTTTCAAGAAAATAACTTATATAT
723363 AAATTTTT
1 AAATTTTT
723371 ACGTTTTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 20 0.61
33 13 0.39
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (32 bp):
AAATTTTTTTTTCAAGAAAATAACTTATATAT
Found at i:732203 original size:33 final size:32
Alignment explanation
Indices: 732138--732203 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
732128 AATTTTATAC
*
732138 AATTTTACCACTAAATTTGATTTGTTTAATTA
1 AATTTTACCACTAAATTTGATTTGATTAATTA
* *
732170 AATTTTACCTCTCAATATTGATTTTGATT-ATTA
1 AATTTTACCACTAAAT-TTGA-TTTGATTAATTA
732203 A
1 A
732204 CAAAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 14 0.48
33 9 0.31
34 6 0.21
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (32 bp):
AATTTTACCACTAAATTTGATTTGATTAATTA
Found at i:736804 original size:20 final size:20
Alignment explanation
Indices: 736779--736818 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
736769 AAATATTTGT
736779 GTATGCAATATATAAACATA
1 GTATGCAATATATAAACATA
736799 GTATGCAATATATAAACATA
1 GTATGCAATATATAAACATA
736819 AAATGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
GTATGCAATATATAAACATA
Found at i:736910 original size:29 final size:30
Alignment explanation
Indices: 736868--736948 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
736858 GCATTGGATC
*
736868 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
* *
736898 AAATCAAAGTTCATGTATGAATTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
736929 AAACCAAAGTCCATGTATAA
1 AAATCAAAGTTCATGTATAA
736949 TTTTGAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:743244 original size:6 final size:6
Alignment explanation
Indices: 743226--743260 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
743216 ATTCGTTTGG
* *
743226 CTTTTT CTGTTT CTTTTT CTTTTT CTATTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
743261 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:743247 original size:18 final size:18
Alignment explanation
Indices: 743226--743260 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
743216 ATTCGTTTGG
*
743226 CTTTTTCTGTTTCTTTTT
1 CTTTTTCTATTTCTTTTT
743244 CTTTTTCTATTTCTTTT
1 CTTTTTCTATTTCTTTT
743261 ATTTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTTTCTATTTCTTTTT
Found at i:744667 original size:24 final size:26
Alignment explanation
Indices: 744613--744670 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
744603 TTTAATTGAA
744613 TTTTATATTATGAAAAGTAAATTTAT
1 TTTTATATTATGAAAAGTAAATTTAT
*
744639 TTTTATATT-TGATAAA-TATA-TTAT
1 TTTTATATTATGA-AAAGTAAATTTAT
744663 TTTTATAT
1 TTTTATAT
744671 ATAAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 12 0.40
25 6 0.20
26 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (26 bp):
TTTTATATTATGAAAAGTAAATTTAT
Found at i:745773 original size:11 final size:11
Alignment explanation
Indices: 745753--745790 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
745743 ATAATAAAAA
*
745753 TAAAAATATTT
1 TAAAAGTATTT
745764 TAAAAGTATTT
1 TAAAAGTATTT
745775 TAAAAGTATTT
1 TAAAAGTATTT
745786 TAAAA
1 TAAAA
745791 TTTAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:746600 original size:28 final size:28
Alignment explanation
Indices: 746535--746590 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
746525 AGGATTAAAT
746535 TATAACAAATTTAAAATAAACAAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
*
746563 TATAACAAATTTAAAATAAACTAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
746591 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (28 bp):
TATAACAAATTTAAAATAAACAAACTAA
Found at i:747474 original size:29 final size:29
Alignment explanation
Indices: 747410--747474 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
747400 TAAGAATTGG
747410 ATCAAATTAATCATTCTATTATTAAATAA
1 ATCAAATTAATCATTCTATTATTAAATAA
* *
747439 ATTAAATTAATC-TCTGTATTATTAAA-ATA
1 ATCAAATTAATCAT-TCTATTATTAAATA-A
747468 ATCAAAT
1 ATCAAAT
747475 AAACTCAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.42
Consensus pattern (29 bp):
ATCAAATTAATCATTCTATTATTAAATAA
Found at i:749040 original size:3 final size:3
Alignment explanation
Indices: 749032--749079 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
749022 ATCCACCATA
749032 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
749080 TTATTATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:750262 original size:22 final size:23
Alignment explanation
Indices: 750222--750270 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
750212 TATTTTGAAT
750222 TTTTAAAATTTATAATATTACAA
1 TTTTAAAATTTATAATATTACAA
* *
750245 TTTTAATATTT-TAATATTATAA
1 TTTTAAAATTTATAATATTACAA
750267 TTTT
1 TTTT
750271 CTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATTTATAATATTACAA
Found at i:750278 original size:22 final size:21
Alignment explanation
Indices: 750228--750280 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
750218 GAATTTTTAA
*
750228 AATTTATAATATTACAATTTT
1 AATTTTTAATATTACAATTTT
*
750249 AATATTTTAATATTATAATTTT
1 AAT-TTTTAATATTACAATTTT
*
750271 CTATTTTTAA
1 -AATTTTTAA
750281 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTAATATTACAATTTT
Found at i:750300 original size:21 final size:19
Alignment explanation
Indices: 750223--750308 Score: 55
Period size: 22 Copynumber: 4.1 Consensus size: 19
750213 ATTTTGAATT
*
750223 TTTAAAATTTATAATATTACAA
1 TTTAATATTT-TAAT-TTA-AA
750245 TTTTAATATTTTAATATTATAA
1 -TTTAATATTTTAAT-TTA-AA
**
750267 TTTTCTATTTTTAAATTTAAA
1 TTTAATA-TTTT-AATTTAAA
*
750288 TTTAATATATTTATTTTAAA
1 TTTAATAT-TTTAATTTAAA
750308 T
1 T
750309 AAATCTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.17
21 15 0.28
22 17 0.32
23 12 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTAATTTAAA
Found at i:758599 original size:24 final size:24
Alignment explanation
Indices: 758567--758614 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
758557 AAATGAGAGT
758567 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
758591 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
758615 TCAAACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (24 bp):
ATCCAGTCAGCTGATGGGTCGTGA
Found at i:759948 original size:20 final size:21
Alignment explanation
Indices: 759923--759961 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
759913 TTGCTCATCT
759923 TAACAG-CAATGAAAATAACA
1 TAACAGTCAATGAAAATAACA
759943 TAACAGTCAATGAAAATAA
1 TAACAGTCAATGAAAATAA
759962 TGATGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (21 bp):
TAACAGTCAATGAAAATAACA
Found at i:764952 original size:27 final size:27
Alignment explanation
Indices: 764903--764954 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
764893 TAAGGTGTCT
*
764903 ATATATAAAGTTTTAATAGATTAAAAG
1 ATATATAAAATTTTAATAGATTAAAAG
*
764930 ATATATAAAATTATTAA-ATATTAAA
1 ATATATAAAATT-TTAATAGATTAAA
764955 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
ATATATAAAATTTTAATAGATTAAAAG
Found at i:767495 original size:4 final size:4
Alignment explanation
Indices: 767486--767516 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
767476 TTGAAAAGTT
767486 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
767517 TTCTGGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:768251 original size:17 final size:18
Alignment explanation
Indices: 768212--768251 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
768202 GGTATTTGAT
*
768212 AATTTATTGAAATTTTAA
1 AATTTATTGAAATATTAA
768230 AATTTATTGAAA-ATTAA
1 AATTTATTGAAATATTAA
*
768247 TATTT
1 AATTT
768252 TCAGTGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AATTTATTGAAATATTAA
Found at i:769550 original size:2 final size:2
Alignment explanation
Indices: 769543--769575 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
769533 TTTAAAATAC
769543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
769576 GNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:769790 original size:23 final size:23
Alignment explanation
Indices: 769760--769806 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
769750 TTTGTCATGC
769760 ATGATTTATATGAATGGAATGTG
1 ATGATTTATATGAATGGAATGTG
769783 ATGATTTATATGAATGGAATGTG
1 ATGATTTATATGAATGGAATGTG
769806 A
1 A
769807 AATATGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (23 bp):
ATGATTTATATGAATGGAATGTG
Found at i:769813 original size:18 final size:20
Alignment explanation
Indices: 769766--769811 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
769756 ATGCATGATT
769766 TATATGAATGGAATGTGATGA
1 TATATGAATGGAATGTGA-GA
*
769787 TTTATATGAATGGAATGTGAAA
1 --TATATGAATGGAATGTGAGA
769809 TAT
1 TAT
769812 GATGGTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
22 1 0.05
23 18 0.82
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
TATATGAATGGAATGTGAGA
Found at i:772002 original size:25 final size:25
Alignment explanation
Indices: 771921--772004 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
771911 GGAGTTACCC
* *
771921 GTTAT-TGGCTTACATGAGCTTCTT
1 GTTATATGGCTCACATGAGCTTCCT
** * *
771945 GATTA-A-GGCTCTTATAAGCTTCCC
1 G-TTATATGGCTCACATGAGCTTCCT
**
771969 GTTGCATGGCTCACATGAGCTTCCT
1 GTTATATGGCTCACATGAGCTTCCT
771994 GTTATATGGCT
1 GTTATATGGCT
772005 TGATAGAGAG
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 2 0.05
24 15 0.35
25 26 0.60
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCT
Found at i:775042 original size:45 final size:45
Alignment explanation
Indices: 774978--775068 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
774968 TATGTGAACT
*
774978 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
775023 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
775068 G
1 G
775069 AGTATCTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (45 bp):
GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:779352 original size:24 final size:25
Alignment explanation
Indices: 779325--779376 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
779315 AATTTGGAAA
779325 TAATATAATATT-ATTTAAT-AAAAT
1 TAATA-AATATTGATTTAATGAAAAT
* *
779349 TAATAATTATTGTTTTAATGAAAAT
1 TAATAAATATTGATTTAATGAAAAT
779374 TAA
1 TAA
779377 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATAAATATTGATTTAATGAAAAT
Found at i:779569 original size:21 final size:23
Alignment explanation
Indices: 779545--779587 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
779535 AGGACCTAAC
779545 ATTAACATTT-TAA-AAAAATAA
1 ATTAACATTTCTAATAAAAATAA
*
779566 ATTAACTTTTCTAATAAAAATA
1 ATTAACATTTCTAATAAAAATA
779588 CTAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAACATTTCTAATAAAAATAA
Found at i:779711 original size:18 final size:18
Alignment explanation
Indices: 779690--779724 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
779680 ATTATTTTAA
779690 TTTTATAAATTTTAATTT
1 TTTTATAAATTTTAATTT
779708 TTTTATAAATTTTAATT
1 TTTTATAAATTTTAATT
779725 AATTTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATAAATTTTAATTT
Found at i:779730 original size:18 final size:18
Alignment explanation
Indices: 779686--779731 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
779676 AATAATTATT
779686 TTAATTTTATAAATTTTAA
1 TTAA-TTTATAAATTTTAA
**
779705 TTTTTTTATAAATTTTAA
1 TTAATTTATAAATTTTAA
779723 TTAATTTAT
1 TTAATTTAT
779732 TGATATAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATTTATAAATTTTAA
Found at i:782418 original size:219 final size:220
Alignment explanation
Indices: 782039--782497 Score: 848
Period size: 219 Copynumber: 2.1 Consensus size: 220
782029 AGATTCAATA
*
782039 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCGGTAATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
*
782104 GTAATTCTAGTATTATCTTCATGCTTGGAGAGGTTGGTTGTTAACATATTGAACTAGCTGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
*
782169 TCGAGGAATTTGCAGTTTTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
782234 ATGAGTTTCTTACGAG-TCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
* *
782258 ATTTTGTAAGAAATTTCGTAATTTAATGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
782323 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
782388 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
782453 ATGAGTTTCTTACGAGCTCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
* *
782478 ATTTTGTAAGAGATTCAGTA
1 ATTTTGTAAGAAATTTAGTA
782498 GTTTTGCAAG
Statistics
Matches: 231, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
219 206 0.89
220 25 0.11
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (220 bp):
ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
ATGAGTTTCTTACGAGCTCAATAGT
Found at i:788986 original size:203 final size:202
Alignment explanation
Indices: 788502--788986 Score: 516
Period size: 207 Copynumber: 2.3 Consensus size: 202
788492 TGCTCAGATT
* * *
788502 CTTCATTCTTTTTGAAGTACCCGTCTGACATTAGTG-CTTGGTACATGGATATGGAGACACGACC
1 CTTCATTCTTTTTGAAGTACCC--CTGACATTAGTGTC-TGATACACGGATATGGAGACATGACC
* * *
788566 TTCAAAGATCCCTTAATATATGGAAAAACTTGACAAAGTCTAATCATACCCACGTCGGGGATATT
63 TCCAAAGATCCCTTAATATATGG----ACTTGACAAAATCTAATCATACCCACGTCGGGGATACT
* * *
788631 CACACCTGAGTCGAGTAACATATGAACAATGCCGGTGCAACGAAGAACTAAAATGAAAACCATCT
124 CAAACCCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAACCATCT
788696 ACCCCAATTGTTGG
189 ACCCCAATTGTTGG
* * *
788710 CTTCATTCTTCTTGAAGTACCCCTGTCCCACATCAGTGTTTGATACACGGATATGGAGACATGAC
1 CTTCATTCTTTTTGAAGTACCCCTG----ACATTAGTGTCTGATACACGGATATGGAGACATGAC
* * * * **
788775 CCCCAAAGATCCCTTAATATATGG-TTTTA-AAACATCTAATCATACTCGTGTCGGGGACT-CTC
62 CTCCAAAGATCCCTTAATATATGGACTTGACAAA-ATCTAATCATACCCACGTCGGGGA-TACTC
* * * * *
788837 AAACCCGAGTCTAGGTAAACCTATG-ACAATGCCGGTGTAACCAAGAACTTACAA-GAAAAACTA
125 AAACCCGAGTCGA-GT-AACATATGAACAATGCCGGTGCAACCAAGAAC-TAAAATG-AAAACCA
788900 TCTACTCCC-ATTGTTGG
186 TCTAC-CCCAATTGTTGG
* * * *
788917 CTTCATTCTTTTTGAAGCACCCCTGACATTAGTGTCCGATACACGGATATCGATACATGACCTCC
1 CTTCATTCTTTTTGAAGTACCCCTGACATTAGTGTCTGATACACGGATATGGAGACATGACCTCC
788982 AAAGA
66 AAAGA
788987 ACCCCAATGT
Statistics
Matches: 234, Mismatches: 31, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
203 39 0.17
204 3 0.01
205 35 0.15
206 28 0.12
207 53 0.23
208 24 0.10
210 52 0.22
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (202 bp):
CTTCATTCTTTTTGAAGTACCCCTGACATTAGTGTCTGATACACGGATATGGAGACATGACCTCC
AAAGATCCCTTAATATATGGACTTGACAAAATCTAATCATACCCACGTCGGGGATACTCAAACCC
GAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAACCATCTACCCCAA
TTGTTGG
Found at i:789914 original size:59 final size:60
Alignment explanation
Indices: 789850--789981 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 60
789840 TACACTGATA
* * ** *
789850 GTCACCCAACTAT-GATTTTTTT-CTTTTTTGGTCACTCAACTATGAGTAGTTACAACATG
1 GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCAC-CAACCATGAAAAGTTACAAAATG
* *
789909 GTCACCCAGCTATGGTTTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
1 GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
*
789969 GTCACTCAACTAT
1 GTCACCCAACTAT
789982 TCAATTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 12 0.19
60 38 0.61
61 12 0.19
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (60 bp):
GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
Found at i:794887 original size:183 final size:173
Alignment explanation
Indices: 794508--794996 Score: 672
Period size: 183 Copynumber: 2.8 Consensus size: 173
794498 TAAAACTAGA
*
794508 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTT
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* *
794573 TAAAAATTCAGT-AAAAGTCATTCAACATGAAAATATGAT---AAAATAAAAAGGGTATTCTAAG
66 TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
*
794634 AATTAAGCTTTATTTTTAACGAAAATACATAGAATTAAGCTGG
131 AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
*
794677 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTATAGAACTTAG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCAT--AAAA-AAAAATCTCTAGAAC-TAG
*
794742 GCTGTAAAAATTCAGTAAAAAGTCATTCGACATGTAAATATGATAAAACAAACTACAAAAAAAGG
62 GCTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAA-AAA-T----AAAAAGG
*
794807 GTATTCAAAGAATTAAGCTTTAATTTTT-ATGAAAATACAGAGAATTAAGCTCGG
121 GTATTCAAAGAATTAAGCTTT-ATTTTTAACGAAAATACAGAGAATTAAGCT-GG
*
794861 GTAAACCATAAAATACCAGG-AAAAGCTTCTGCATTCAT--GAAAAAATCTCTAGAACTAGGCTG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* * * * * *
794923 TAAAAGATTCGGTAAAAA-TCATCCAACATGTAAATATGATCAAAAAACAGACAGGGTATTCAAA
66 TAAAA-ATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAA
794987 GAATTAAGCT
130 GAATTAAGCT
794997 CGGGTAAACC
Statistics
Matches: 287, Mismatches: 16, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
169 39 0.14
171 28 0.10
172 14 0.05
173 18 0.06
174 25 0.09
176 3 0.01
177 36 0.13
178 28 0.10
179 2 0.01
183 66 0.23
184 28 0.10
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (173 bp):
GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
Found at i:795008 original size:139 final size:140
Alignment explanation
Indices: 794847--795120 Score: 439
Period size: 140 Copynumber: 2.0 Consensus size: 140
794837 GAAAATACAG
* *
794847 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATGAAAAA-ATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* * *
794911 AGAACTAGGCTGTAAA-AGATTCGGTAAAAATCA-TCCAACATGTAAATATGATCAAA-AAACAG
66 AGAACTAGGCTGTAAATA-ATTCAGTAAAAACCACT-CAACATGTAAATATGAT-AAAGAAACAA
*
794973 ACAGGGTATTCAA
128 AAAGGGTATTCAA
794986 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
795051 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
66 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
795116 GGGTA
131 GGGTA
795121 GAGTGGAGAT
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
139 59 0.47
140 64 0.51
141 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (140 bp):
AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
GGGTATTCAA
Found at i:798961 original size:29 final size:28
Alignment explanation
Indices: 798912--798966 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
798902 AAAGTCAATT
* *
798912 TTTTTTAAATTTATCGAAATGGGCCCAG
1 TTTTTTAAATTTACCGAAATGAGCCCAG
* *
798940 TTTTTTATTATTTACCGGAATGAGCCC
1 TTTTTTA-AATTTACCGAAATGAGCCC
798967 CTTTCCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (28 bp):
TTTTTTAAATTTACCGAAATGAGCCCAG
Found at i:799631 original size:125 final size:123
Alignment explanation
Indices: 799327--799764 Score: 576
Period size: 125 Copynumber: 3.5 Consensus size: 123
799317 ATAAAATCAA
* * * * * * * * *
799327 AGCAGGATG-ATTATCAGAAGGATTTTTGCAGTCGCGCCCGCATGTACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
799391 GGTCCT-AGAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
66 GGTCCTGA-AAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
799449 ACCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* * * *
799514 GGTCCTGAAAAATTATTTCGAGTTGACGTTTCTGAGCAAGTAGTATAAAAAAACGCTTCA
66 GGTCCTGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCT
* * *
799574 AGCAGGATGCTATT-TGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGT
1 AGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
799638 TGGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCACTTCT
65 AGGTCCTG-AA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
799699 AGCAGAATGCTTTATGAGAAGAATTTGTGAAATTGCGCCAACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
799764 G
66 G
799765 CATGTTTGGG
Statistics
Matches: 273, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
122 8 0.03
123 87 0.32
124 3 0.01
125 137 0.50
126 4 0.01
127 34 0.12
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (123 bp):
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
Found at i:799995 original size:51 final size:51
Alignment explanation
Indices: 799935--800052 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
799925 AAAAATAGGG
* *
799935 ATTTAAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
**
799986 ATTTGAGAGAAATTTGGAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
800037 ATTTGAGAGGAAATTT
1 ATTTGAGA-GAAATTT
800053 GAGAGAGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 55 0.89
52 7 0.11
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (51 bp):
ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
Found at i:801812 original size:31 final size:30
Alignment explanation
Indices: 801770--801829 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
801760 GAGTTAATCT
* * *
801770 TTTTCATTTTTTTTGAATTTTTTATATATTA
1 TTTTCA-TTTTTTAGAAATATTTATATATTA
*
801801 TTTTGATTTTTTAGAAATATTTATATATT
1 TTTTCATTTTTTAGAAATATTTATATATT
801830 TTTGGGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTCATTTTTTAGAAATATTTATATATTA
Found at i:808226 original size:31 final size:31
Alignment explanation
Indices: 808178--808263 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
808168 GGGGCCTTGG
* * *
808178 TCCCCAAAGTTTTTGAAAATTTTAGTTA-TA
1 TCCCTAAAATTTTTGAAAATTTTAATTAGTA
* * * *
808208 TCCTTAAATTTTTCTGAAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTAATTA-GTA
808241 TCCCTAAAATTTTTGAAAATTTT
1 TCCCTAAAATTTTTGAAAATTTT
808264 TAAATATTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 10 0.23
31 13 0.30
32 9 0.20
33 12 0.27
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTAATTAGTA
Found at i:808264 original size:33 final size:31
Alignment explanation
Indices: 808178--808266 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 31
808168 GGGGCCTTGG
* * *
808178 TCCCCAAAGTTTTTGAAAA-TTTTAGTTATA
1 TCCCTAAAATTTTTGAAAATTTTTAATTATA
* * *
808208 TCCTTAAATTTTTCTG-AAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTTAATTA--TA
808241 TCCCTAAAATTTTTGAAAATTTTTAA
1 TCCCTAAAATTTTTGAAAATTTTTAA
808267 ATATTTCAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
30 13 0.28
31 10 0.21
32 2 0.04
33 22 0.47
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTTAATTATA
Found at i:809745 original size:18 final size:20
Alignment explanation
Indices: 809709--809746 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
809699 ATTTTACTAT
*
809709 TTTTTCTATTTTAATAAATA
1 TTTTTCTATTTGAATAAATA
809729 TTTTTCT-TTTGAA-AAATA
1 TTTTTCTATTTGAATAAATA
809747 ACTTGATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCTATTTGAATAAATA
Found at i:809884 original size:3 final size:3
Alignment explanation
Indices: 809876--809954 Score: 149
Period size: 3 Copynumber: 26.0 Consensus size: 3
809866 AATTAATTAC
809876 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
809924 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
809955 TTACATTATT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:811643 original size:30 final size:28
Alignment explanation
Indices: 811609--811679 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
811599 ACGATTGAAC
*
811609 TTAAATTTTAAAATATTAAAAATA-AAGAGA
1 TTAAATTCTAAAA-A-TAAAAATATAAGA-A
*
811639 TTAAATTCTAAGAAATAAAAGTATAAGAA
1 TTAAATTCTAA-AAATAAAAATATAAGAA
811668 TTAAATTCTAAA
1 TTAAATTCTAAA
811680 TTTGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 1 0.03
29 19 0.51
30 15 0.41
31 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
TTAAATTCTAAAAATAAAAATATAAGAA
Done.