Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 9 of 196
Found at i:2660148 original size:19 final size:19
Alignment explanation
Indices: 2660126--2660195 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
2660116 TTCAACTCAT
*
2660126 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
2660145 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
2660163 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
2660182 TTTTAATTTAATAA
1 TTTTAATTTAATAA
2660196 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:2660175 original size:37 final size:37
Alignment explanation
Indices: 2660131--2660201 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
2660121 CTCATTTTTT
2660131 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
2660168 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
2660202 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:2660229 original size:290 final size:288
Alignment explanation
Indices: 2659473--2660746 Score: 2349
Period size: 288 Copynumber: 4.4 Consensus size: 288
2659463 CAAAGGACTA
2659473 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
2659538 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
2659603 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAGAGAA
131 TTTAATAAACTATTAAGTAATACTTAATTTTTTT-AAATTAAAATAGAGTTATTAAATGAGAGAA
* *
2659668 TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTTAATTTTG
195 TTCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTG
*
2659733 AAAGTGAATTGCTACTTCTGTGTGCACTAAAATTG
260 AAAGTGAATTG---CTGC--TGTG-ACTAAAATTG
* *
2659768 AAATGTGGCTAATTGCCTTCAAAGCCCTCTTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
2659833 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
2659898 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
131 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
*
2659963 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGAAATGCAAATTTACCATTTTGAATTTTGA
196 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
*
2660028 AAGTGAATTGCTGCTGTGCGCTCTAAAATTG
261 AAGTGAATTGCTGCTGT--G-ACTAAAATTG
2660059 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
2660124 A-TTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
2660188 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
131 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
2660253 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
196 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
2660318 AAGTGAATTGCTGCTGTGACTAAAATTG
261 AAGTGAATTGCTGCTGTGACTAAAATTG
2660346 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
*
2660411 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAGTAACTCTATTTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
*
2660476 TTTAATAAACTATTAAGTAATACTTAATTTTTTAAAATTAAAATAGAGTTATTAAATGAGAGAAT
131 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
2660541 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
196 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
2660606 AAGTGAATTGCTGCTGTGACTAAAATTG
261 AAGTGAATTGCTGCTGTGACTAAAATTG
2660634 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTA--TT-TTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
2660696 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAA
2660747 ATTAAAATAG
Statistics
Matches: 962, Mismatches: 14, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
285 70 0.07
286 2 0.00
287 75 0.08
288 260 0.27
289 3 0.00
290 209 0.22
291 78 0.08
294 103 0.11
295 162 0.17
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (288 bp):
AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
AAGTGAATTGCTGCTGTGACTAAAATTG
Found at i:2660441 original size:19 final size:19
Alignment explanation
Indices: 2660414--2660483 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
2660404 TCAACTCATT
*
2660414 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
2660433 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* * *
2660451 TTCTCATTTAGTAACTCTA
1 TTTTAATTTAATAACTCTA
2660470 TTTTAATTTAATAA
1 TTTTAATTTAATAA
2660484 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:2660466 original size:37 final size:37
Alignment explanation
Indices: 2660419--2660489 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
2660409 TCATTTTTTT
2660419 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
2660456 ATTTAGTAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
2660490 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:2660736 original size:18 final size:19
Alignment explanation
Indices: 2660699--2660737 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2660689 TCAACTCATT
* *
2660699 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
2660718 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
2660736 TT
1 TT
2660738 CTCATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:2660744 original size:18 final size:19
Alignment explanation
Indices: 2660704--2660746 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2660694 TCATTTTTTT
* *
2660704 ATTTAATAACTCTATTTTA
1 ATTTAATAACACTATTCTA
*
2660723 ATTTAATAA-ACTATTCTC
1 ATTTAATAACACTATTCTA
2660741 ATTTAA
1 ATTTAA
2660747 ATTAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATAACACTATTCTA
Found at i:2660782 original size:18 final size:18
Alignment explanation
Indices: 2660759--2660822 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
2660749 TAAAATAGAG
2660759 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* * *
2660777 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
2660796 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
2660814 TTATTAAAT
1 TTATTAAAT
2660823 TAAAATAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:2660793 original size:37 final size:37
Alignment explanation
Indices: 2660743--2660838 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
2660733 CTATTCTCAT
2660743 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
2660780 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
2660817 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
2660839 CTTAATTAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:2660822 original size:578 final size:580
Alignment explanation
Indices: 2659473--2660746 Score: 2348
Period size: 578 Copynumber: 2.2 Consensus size: 580
2659463 CAAAGGACTA
2659473 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTA-TTTCTTTTTATTCCCCTTCAACTC
2659538 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
65 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
2659603 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAGAGAA
130 TTTAATAAACTATTAAGTAATACTTAATTTTTTT-AAATTAAAATAGAGTTATTAAATGAGAGAA
*
2659668 TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTTAATTTTG
194 TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTG
* *
2659733 AAAGTGAATTGCTACTTCTGTGTGCACTAAAATTGAAATGTGGCTAATTGCCTTCAAAGCCCTCT
259 AAAGTGAATTG--ACTGC-GTGTGCACTAAAATTGAAATGTGGCTAATTGCCTTCAAAGCCCTCC
2659798 TTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTATTTAATAACTCTATTTTAATT
321 TTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTATTTAATAACTCTATTTTAATT
2659863 TAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAATTT
386 TAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAATTT
*
2659928 TTTTAAATTAAAATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCCGTTTTAAG
451 TTTAAAATTAAAATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCCGTTTTAAG
*
2659993 GACCTGAAATGCAAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGCTGTGCGCTCTAAAATT
516 GACCTGAAATGCAAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGCTGT-CGCACTAAAATT
2660058 G
580 G
2660059 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTA-TTTCTTTTTATTCCCCTTCAACTC
2660124 A-TTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
65 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
2660188 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
130 TTTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAAT
*
2660253 TCTAATTAAGTGACCATTTGCCGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
195 TCTAATTAAGTGACCATTTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGA
*
2660318 AAGTGAATTG-CTGC-TGTG-ACTAAAATTGAAATGTGGCTAATTGCCTTCTAAGCCCTCCTTAT
260 AAGTGAATTGACTGCGTGTGCACTAAAATTGAAATGTGGCTAATTGCCTTCAAAGCCCTCCTTAT
2660380 TTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTATTTAATAACTCTATTTTAATTTAAT
325 TTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTATTTAATAACTCTATTTTAATTTAAT
*
2660445 AAACTATTCTCATTTAGTAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAATTTTTTA
390 AAACTATTCTCATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAATTTTTTA
2660510 AAATTAAAATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCCGTTTTAAGGACC
455 AAATTAAAATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCCGTTTTAAGGACC
*
2660575 TGACATGCAAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGCTGT-G-ACTAAAATTG
520 TGAAATGCAAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGCTGTCGCACTAAAATTG
2660634 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTA-TT-TTTTTATTCCCCTTCAACTCA
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTCTTTTTATTCCCCTTCAACTCA
2660697 TTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAA
66 TTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAA
2660747 ATTAAAATAG
Statistics
Matches: 678, Mismatches: 9, Indels: 15
0.97 0.01 0.02
Matches are distributed among these distances:
572 21 0.03
573 51 0.08
575 49 0.07
576 1 0.00
578 282 0.42
579 4 0.01
581 3 0.00
584 104 0.15
585 97 0.14
586 66 0.10
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (580 bp):
AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTCTTTTTATTCCCCTTCAACTCA
TTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAAT
TTAATAAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAGAATT
CTAATTAAGTGACCATTTGCAGTTTTAAGGACCTGACATGCAAATTTACCATTTTGAATTTTGAA
AGTGAATTGACTGCGTGTGCACTAAAATTGAAATGTGGCTAATTGCCTTCAAAGCCCTCCTTATT
TATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTATTTAATAACTCTATTTTAATTTAATA
AACTATTCTCATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAATTTTTTAA
AATTAAAATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCCGTTTTAAGGACCT
GAAATGCAAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGCTGTCGCACTAAAATTG
Found at i:2660843 original size:18 final size:19
Alignment explanation
Indices: 2660743--2660838 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
2660733 CTATTCTCAT
2660743 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
2660762 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
2660780 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
2660799 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
2660817 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
2660836 TTA
1 TTA
2660839 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:2661080 original size:37 final size:37
Alignment explanation
Indices: 2661033--2661103 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
2661023 AGTATTACTT
*
2661033 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
2661070 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
2661104 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:2661108 original size:19 final size:19
Alignment explanation
Indices: 2661039--2661107 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
2661029 ACTTAATATT
2661039 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
2661058 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
2661076 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
2661095 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
2661108 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:2661269 original size:27 final size:27
Alignment explanation
Indices: 2661182--2661260 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
2661172 CATTTTAGTC
*
2661182 CTTTGGCACCATTGGTGCCACCAATCA
1 CTTTGGCACCATTGGTGCCACCAATCT
2661209 CTTTGGCACCATTGGTGCCACCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
* *
2661236 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
2661261 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCT
Found at i:2661373 original size:27 final size:25
Alignment explanation
Indices: 2661320--2661381 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
2661310 GTTTTTTGGT
* *
2661320 ATATTTTCGTAAATAAAAAAAAGTA
1 ATATTTTGGTAAATAAAAAAAAATA
2661345 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAA--ATA
2661372 ATATTTTGGT
1 ATATTTTGGT
2661382 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 21 0.64
27 12 0.36
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (25 bp):
ATATTTTGGTAAATAAAAAAAAATA
Found at i:2661771 original size:19 final size:20
Alignment explanation
Indices: 2661749--2661814 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
2661739 AATAAATTCT
*
2661749 AAAATTTATAT-TTTTAAAA
1 AAAATTTATATAATTTAAAA
2661768 AAAA-TTATATAATTTAAAA
1 AAAATTTATATAATTTAAAA
* * * *
2661787 AAAATCTAAAGAATATATAAA
1 AAAATTTATATAATTTA-AAA
2661808 AAAATTT
1 AAAATTT
2661815 GAAAATTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
20 8 0.21
21 9 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTTATATAATTTAAAA
Found at i:2673829 original size:31 final size:31
Alignment explanation
Indices: 2673755--2673830 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
2673745 TTTAAAGGTG
*
2673755 TATAATTAAATCAAAATTAAAATTTTAAGTA
1 TATAATTAAACCAAAATTAAAATTTTAAGTA
* * * * *
2673786 TACATTTAAACCACAATTAAAGTTTTATGTA
1 TATAATTAAACCAAAATTAAAATTTTAAGTA
*
2673817 TATAATTGAACCAA
1 TATAATTAAACCAA
2673831 TTGAGTTTCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (31 bp):
TATAATTAAACCAAAATTAAAATTTTAAGTA
Found at i:2682270 original size:90 final size:90
Alignment explanation
Indices: 2682117--2682292 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 90
2682107 GAGTTGAGGT
* * * *
2682117 TACAAAATTAATGCGACGAATAACATGTAACTCATAAATGATAAGTTTTGAATGGTCGTTTCCAT
1 TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
2682182 CCAACATACGTTGCTTTTGTAGTCC
66 CCAACATACGTTGCTTTTGTAGTCC
* *
2682207 TACAAAATTAATGCAACAAATAACATATAACTCGTAAATGATAAGTTCTGAATGGTCTTTTCCAT
1 TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
*
2682272 CCAACATATGTTGCTTTTGTA
66 CCAACATACGTTGCTTTTGTA
2682293 ATCCAGGTAC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (90 bp):
TACAAAATTAATGCAACAAATAACATATAACTCATAAATGATAAGTTCTGAATGGTCGTTTCCAT
CCAACATACGTTGCTTTTGTAGTCC
Found at i:2683372 original size:33 final size:34
Alignment explanation
Indices: 2683277--2683373 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 34
2683267 TTAACATTTT
* *
2683277 AATATATGAAATATAAATTTTAAATATTT-TTTAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAGC
* *
2683312 AATAAATATTAATTAT-TTATAAA-ATTTAATTAG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAGC
2683345 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
2683374 ATATAACCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 10 0.20
35 5 0.10
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (34 bp):
AATATATAAATTATATTTTAAATATTTAATTAGC
Found at i:2684696 original size:24 final size:24
Alignment explanation
Indices: 2684650--2684702 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2684640 CTGTATCTTT
*
2684650 TTAATAATAATTATTAAATAATTA
1 TTAATAATAATAATTAAATAATTA
*
2684674 TTAATAA-AATAATTAATTCAATTA
1 TTAATAATAATAATTAAAT-AATTA
2684698 TTAAT
1 TTAAT
2684703 CTAAATCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAATAATAATAATTAAATAATTA
Found at i:2686616 original size:49 final size:49
Alignment explanation
Indices: 2686514--2687074 Score: 525
Period size: 50 Copynumber: 11.5 Consensus size: 49
2686504 ACAAAAATTG
* * * *
2686514 AAAAAAAAA-TTGGGTGCTGGCCTATCAATGACCAGTACCAGTATACG-
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACGA
* * *
2686561 AAAAAAAAATTTAGGTG-TTGCCTTGTCAATGGCCGGAACCAGTATACG-
1 AAAAAAAAATTTGGGTGCTGGCC-TGTCAATGGCCGGCACCAGTATACGA
* * * * **
2686609 AAAAAAAATTTTGGGTGCTAGCTTGTCAATGGCTGGCACCACCAGTACGA
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTA-TACGA
* * * *
2686659 AACAAAAAAA-TTGGGTGCTGGACTATCAATGGCCTGCACCAGCAGTAC-A
1 AA-AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTA-TACGA
* * * ** *
2686708 AAAAAAAAATTTGTGTGTTGGCCTATCAATGGCCGGCACCACCAGTATGA
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTA-TACGA
* *
2686758 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGCAGTAC-A
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTA-TACGA
** * * * ** *
2686807 AAAAAAATGTTGGGGTGCTGGCTTGTCAATGGTCGGCACCAACAATACGG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACC-AGTATACGA
* *
2686857 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATAC--
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACGA
* * * *
2686904 AAAAAAAATTTTGGGTGCTGGCCTGTTAATGGTCTGCACCAGTATACG-
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACGA
* * * *
2686952 AAAAAAAAATTTGAGTGCCGGCCTGTCAATGGACGACACCAGTAGTACGA
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTA-TACGA
* * * * *
2687002 AAAAAGAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACTAGTAGATG-
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACGA
*
2687050 AAAAAAAAA-CTGGGTGCTGGCCTGT
1 AAAAAAAAATTTGGGTGCTGGCCTGT
2687075 TAATCGTCAG
Statistics
Matches: 433, Mismatches: 68, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
47 72 0.17
48 111 0.26
49 93 0.21
50 151 0.35
51 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACGA
Found at i:2686737 original size:99 final size:98
Alignment explanation
Indices: 2686514--2687117 Score: 523
Period size: 99 Copynumber: 6.2 Consensus size: 98
2686504 ACAAAAATTG
* * ** * ** * *
2686514 AAAAAAAAA-TTGGGTGCTGGCCTATCAATGACCAGTACCAGTA-TACGAAAAAAAAATTTAGGT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCACCAGTACGAAAAAAAAAATTGGGT
* * * * *
2686577 G-TTGCCTTGTCAATGGCCGGAACCAGTA-TACG
66 GCTGGCC-TGTCAATGGTCGGCACCAGCAGTACA
* * *
2686609 AAAAAAAATTTTGGGTGCTAGCTTGTCAATGGCTGGCACCACCAGTACGAAACAAAAAAATTGGG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCACCAGTACGAAA-AAAAAAATTGGG
* * * *
2686674 TGCTGGACTATCAATGGCCTGCACCAGCAGTACA
65 TGCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
* * * * *
2686708 AAAAAAAAATTTGTGTGTTGGCCTATCAATGGCCGGCACCACCAGTATGAAAAAAAAAATTTGGG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCACCAGTACGAAAAAAAAAA-TTGGG
2686773 TGCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
65 TGCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
** * * * * **
2686807 AAAAAAATGTTGGGGTGCTGGCTTGTCAATGG-TCGGCACCAACAATACGGAAAAAAAATTTTGG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCT-GGCACCACCAGTAC-GAAAAAAAAAATTGG
*
2686871 GTGCTGGCCTGTCAATGGTCGGCACCAGTA-TAC-
64 GTGCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
* * ** * *
2686904 AAAAAAAATTTTGGGTGCTGGCCTGTTAATGGTCT-GCACCAGTA-TACGAAAAAAAAATTTGAG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGG-CTGGCACCACCAGTACGAAAAAAAAAATTGGG
* * * *
2686967 TGCCGGCCTGTCAATGGACGACACCAGTAGTACGA
65 TGCTGGCCTGTCAATGGTCGGCACCAGCAGTAC-A
* * * * ** * *
2687002 AAAAAGAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACTAGTAG-ATG-AAAAAAAAACTGGGT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCACCAGTACGAAAAAAAAAATTGGGT
* * * * *
2687065 GCTGGCCTGTTAATCGTCAGCACTAGC-GTA-T
66 GCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
*
2687096 AAAAAAAAATTTTGGTGCTGGC
1 AAAAAAAAATTTGGGTGCTGGC
2687118 AATTTATCAA
Statistics
Matches: 416, Mismatches: 78, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
94 20 0.05
95 48 0.12
96 34 0.08
97 73 0.18
98 77 0.19
99 155 0.37
100 9 0.02
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (98 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCACCAGTACGAAAAAAAAAATTGGGT
GCTGGCCTGTCAATGGTCGGCACCAGCAGTACA
Found at i:2687039 original size:145 final size:145
Alignment explanation
Indices: 2686513--2687117 Score: 590
Period size: 145 Copynumber: 4.2 Consensus size: 145
2686503 TACAAAAATT
* * *
2686513 GAAAAAAAAA-TTGGGTGCTGGCCTATCAAT-GACCAGTACCAGTA-TACGAAAAAAAAATTTAG
1 GAAAAAAAAATTTGGGTGCTGGCCTATCAATGGACGA-CACCAGCAGTACGAAAAAAAAATTTAG
* * * *
2686575 GTG-TTGCCTTGTCAATGGCCGGAACCAGTATACGAAAAAAAATTTTGGGTGCTAGCTTGTCAAT
65 GTGCTGGCC-TGTCAATGGCCGGCACCAGTATAC-AAAAAAAATTTTGGGTGCTGGCCTGTCAAT
*
2686639 GG-CTGGCACCACCAGTAC
128 GGTCT-GCACCAGCAGTAC
* * * *
2686657 GAAACAAAAAAATTGGGTGCTGGACTATCAATGGCCTG-CACCAGCAGTACAAAAAAAAAATTT-
1 GAAA-AAAAAATTTGGGTGCTGGCCTATCAATGGAC-GACACCAGCAGTACGAAAAAAAAATTTA
* * *
2686720 GTGTGTTGGCCTATCAATGGCCGGCACCACCAGTATGA-AAAAAAAAATTTGGGTGCTGGCCTGT
64 G-GTGCTGGCCTGTCAATGGCCGG---CACCAGTAT-ACAAAAAAAATTTTGGGTGCTGGCCTGT
*
2686784 CAATGGTCGGCACCAGCAGTAC
124 CAATGGTCTGCACCAGCAGTAC
* * * * * * *
2686806 --AAAAAAAATGTTGGGGTGCTGGCTTGTCAATGGTCGGCACCAACAATACGGAAAAAAAATTTT
1 GAAAAAAAAAT-TT-GGGTGCTGGCCTATCAATGGACGACACCAGCAGTAC-GAAAAAAAAATTT
* * *
2686869 GGGTGCTGGCCTGTCAATGGTCGGCACCAGTATACAAAAAAAATTTTGGGTGCTGGCCTGTTAAT
63 AGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACAAAAAAAATTTTGGGTGCTGGCCTGTCAAT
*
2686934 GGTCTGCACCAGTA-TAC
128 GGTCTGCACCAGCAGTAC
* * * *
2686951 GAAAAAAAAATTTGAGTGCCGGCCTGTCAATGGACGACACCAGTAGTACGAAAAAAGAAATTTAG
1 GAAAAAAAAATTTGGGTGCTGGCCTATCAATGGACGACACCAGCAGTACGAAAAAA-AAATTTAG
* * * ** * *
2687016 GTGCTGGCCTGTCAATGGCCGGCACTAGTAGATGAAAAAAAA-ACTGGGTGCTGGCCTGTTAATC
65 GTGCTGGCCTGTCAATGGCCGGCACCAGTATA-CAAAAAAAATTTTGGGTGCTGGCCTGTCAATG
* *
2687080 GTCAGCACTAGC-GTA-
129 GTCTGCACCAGCAGTAC
* *
2687095 TAAAAAAAAATTTTGGTGCTGGC
1 GAAAAAAAAATTTGGGTGCTGGC
2687118 AATTTATCAA
Statistics
Matches: 384, Mismatches: 54, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
144 30 0.08
145 103 0.27
146 91 0.24
147 46 0.12
148 32 0.08
149 71 0.18
150 10 0.03
151 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (145 bp):
GAAAAAAAAATTTGGGTGCTGGCCTATCAATGGACGACACCAGCAGTACGAAAAAAAAATTTAGG
TGCTGGCCTGTCAATGGCCGGCACCAGTATACAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGT
CTGCACCAGCAGTAC
Found at i:2690090 original size:21 final size:23
Alignment explanation
Indices: 2690066--2690127 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
2690056 AAAGTAAATT
2690066 AAATTTTAA-TGAAATGAGG-GA
1 AAATTTTAATTGAAATGAGGAGA
*
2690087 AAATTTTAATTTAAATGAGGAGAAA
1 AAATTTTAATTGAAATGAGGAG--A
2690112 AAATTTTGAATTGAAA
1 AAATTTT-AATTGAAA
2690128 ATAGAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 9 0.26
22 9 0.26
23 1 0.03
25 8 0.24
26 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (23 bp):
AAATTTTAATTGAAATGAGGAGA
Found at i:2690234 original size:19 final size:20
Alignment explanation
Indices: 2690212--2690252 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2690202 CGGAAAAAGT
*
2690212 TAAATTTAAATT-AAAAAAA
1 TAAATTGAAATTGAAAAAAA
2690231 TAAATTGAAATTGAAAAAAA
1 TAAATTGAAATTGAAAAAAA
2690251 TA
1 TA
2690253 TATATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAATTGAAATTGAAAAAAA
Found at i:2690267 original size:22 final size:19
Alignment explanation
Indices: 2690212--2690268 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2690202 CGGAAAAAGT
*
2690212 TAAATTTAAATTAAAAAAA
1 TAAATTTAAATGAAAAAAA
*
2690231 TAAATTGAAATTGAAAAAAA
1 TAAATTTAAA-TGAAAAAAA
2690251 TATATATTTTAAATGAAA
1 TA-A-A-TTTAAATGAAA
2690269 TGAAAGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.29
20 10 0.32
21 1 0.03
22 6 0.19
23 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATTTAAATGAAAAAAA
Found at i:2693380 original size:50 final size:50
Alignment explanation
Indices: 2693267--2693506 Score: 293
Period size: 50 Copynumber: 4.7 Consensus size: 50
2693257 ATTTGGGTAA
* * *
2693267 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2693323 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2693373 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2693423 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2693473 AGAACATCCCATGTAAGACCATGTCTGGGACATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATG
2693507 ACTTTGGCAT
Statistics
Matches: 164, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 27 0.16
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2693456 original size:100 final size:103
Alignment explanation
Indices: 2693267--2693516 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
2693257 ATTTGGGTAA
2693267 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2693332 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2693373 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2693435 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* * *
2693473 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2693517 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 38 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2696429 original size:50 final size:49
Alignment explanation
Indices: 2696360--2696560 Score: 264
Period size: 50 Copynumber: 4.1 Consensus size: 49
2696350 CAGCACCTAC
* *
2696360 TTTTTTTTCGTACTGCTGGTGCCGGCCATTGACAGGCTTGCACCCAAATT
1 TTTTTTTTCGTACTACTGGTGCCGGCCATTGACAGGCTAGCACCCAAA-T
*
2696410 TTTTTTTTCGTACTACTGGTGCCGCCCATTGACAGGCTAGCACCC--AT
1 TTTTTTTTCGTACTACTGGTGCCGGCCATTGACAGGCTAGCACCCAAAT
* ** * * *
2696457 TTTTTTTTCGTATTGGTGGTGCCGGCTATTGACAGGCCAGCACCTAAAT
1 TTTTTTTTCGTACTACTGGTGCCGGCCATTGACAGGCTAGCACCCAAAT
* * *
2696506 TTTTTTTTCGTA-TACTGCTGCCGGCCATTGACAAGCTAGCACTCAAAT
1 TTTTTTTTCGTACTACTGGTGCCGGCCATTGACAGGCTAGCACCCAAAT
2696554 TTTTTTT
1 TTTTTTT
2696561 GTTTTTTTTT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
47 39 0.30
48 36 0.27
49 14 0.11
50 42 0.32
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (49 bp):
TTTTTTTTCGTACTACTGGTGCCGGCCATTGACAGGCTAGCACCCAAAT
Found at i:2696478 original size:47 final size:47
Alignment explanation
Indices: 2696346--2696547 Score: 226
Period size: 47 Copynumber: 4.2 Consensus size: 47
2696336 GACTATTAGA
* * * *
2696346 AGGCCAGCACCTACTTTTTTTTCGTACTGCTGGTGCCGGCCATTGAC
1 AGGCTAGCACCCATTTTTTTTTCGTACTACTGGTGCCGGCCATTGAC
* *
2696393 AGGCTTGCACCCAAATTTTTTTTTTCGTACTACTGGTGCCGCCCATTGAC
1 AGGCTAGCACCC--A-TTTTTTTTTCGTACTACTGGTGCCGGCCATTGAC
* ** *
2696443 AGGCTAGCACCCATTTTTTTTTCGTATTGGTGGTGCCGGCTATTGAC
1 AGGCTAGCACCCATTTTTTTTTCGTACTACTGGTGCCGGCCATTGAC
* * *
2696490 AGGCCAGCACCTAAATTTTTTTTTCGTA-TACTGCTGCCGGCCATTGAC
1 AGGCTAGCACC--CATTTTTTTTTCGTACTACTGGTGCCGGCCATTGAC
*
2696538 AAGCTAGCAC
1 AGGCTAGCAC
2696548 TCAAATTTTT
Statistics
Matches: 130, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
47 48 0.37
48 25 0.19
49 15 0.12
50 42 0.32
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (47 bp):
AGGCTAGCACCCATTTTTTTTTCGTACTACTGGTGCCGGCCATTGAC
Found at i:2696556 original size:97 final size:97
Alignment explanation
Indices: 2696351--2696560 Score: 280
Period size: 97 Copynumber: 2.2 Consensus size: 97
2696341 TTAGAAGGCC
* * **
2696351 AGCACCTACTTTTTTTTCGTACTGCTGGTGCCGGCCATTGACAGGCTTGCACCCAAATTTTTTTT
1 AGCACCAATTTTTTTTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
* *
2696416 TTCGTACTACTGGTGCCGCCCATTGACAGGCT
66 TTCGTACTACTGCTGCCGCCCATTGACAAGCT
* * * * *
2696448 AGCACCCATTTTTTTTTCGTATTGGTGGTGCCGGCTATTGACAGGCCAGCACCTAAA-TTTTTTT
1 AGCACCAATTTTTTTTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
*
2696512 TTCGTA-TACTGCTGCCGGCCATTGACAAGCT
66 TTCGTACTACTGCTGCCGCCCATTGACAAGCT
*
2696543 AGCACTCAAATTTTTTTT
1 AGCAC-CAATTTTTTTTT
2696561 GTTTTTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 27 0.27
96 23 0.23
97 49 0.49
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (97 bp):
AGCACCAATTTTTTTTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
TTCGTACTACTGCTGCCGCCCATTGACAAGCT
Found at i:2703220 original size:31 final size:33
Alignment explanation
Indices: 2703185--2703255 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 33
2703175 ATTTGATTTT
2703185 TTTTAGATAATATTTAATTATTT-A-A-TTATTA
1 TTTTAGATAATA-TTAATTATTTAATATTTATTA
* * *
2703216 TTTTATGTTGATATTAATTCTTTAATATTTATTA
1 TTTTA-GATAATATTAATTATTTAATATTTATTA
2703250 TTTTAG
1 TTTTAG
2703256 TTTTGTGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 14 0.42
32 6 0.18
33 2 0.06
34 11 0.33
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (33 bp):
TTTTAGATAATATTAATTATTTAATATTTATTA
Found at i:2704343 original size:60 final size:59
Alignment explanation
Indices: 2704247--2704393 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 59
2704237 ATAAAGACAA
* * * * * * *
2704247 CATTGGAGAGTTCATTGTATATGTACCCTTATGGAGTTCACTCATTGATACG-AACCCCTT
1 CATTGGAGAGTTCATTATATATCTATCCTTACGGAGTTAACTCACTCA-A-GAAACCCCTT
* **
2704307 CATTGGAGAGTTCATTATGTATCTATTGTTACGGAGTTAACTCACTCAAGTAAACCCCTT
1 CATTGGAGAGTTCATTATATATCTATCCTTACGGAGTTAACTCACTCAAG-AAACCCCTT
*
2704367 CATTGAAGAGTTCATTATATATCTATC
1 CATTGGAGAGTTCATTATATATCTATC
2704394 TCTTTTATTC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 70 0.97
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (59 bp):
CATTGGAGAGTTCATTATATATCTATCCTTACGGAGTTAACTCACTCAAGAAACCCCTT
Found at i:2706583 original size:12 final size:11
Alignment explanation
Indices: 2706555--2706606 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
2706545 ATATACTAAA
*
2706555 TAAAATAATAA
1 TAAAATAATAT
2706566 TAAAATAATATT
1 TAAAATAATA-T
2706578 TAAAAT-A-A-
1 TAAAATAATAT
2706586 TAAAATAATATT
1 TAAAATAATA-T
2706598 TAAAATAAT
1 TAAAATAAT
2706607 TAATCTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
8 6 0.17
9 1 0.03
10 2 0.06
11 11 0.31
12 15 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:2706586 original size:20 final size:20
Alignment explanation
Indices: 2706561--2706606 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2706551 TAAATAAAAT
2706561 AATAATAAAATAATATTTAA
1 AATAATAAAATAATATTTAA
2706581 AATAATAAAATAATATTTAA
1 AATAATAAAATAATATTTAA
2706601 AATAAT
1 AATAAT
2706607 TAATCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATAATAAAATAATATTTAA
Found at i:2707071 original size:23 final size:23
Alignment explanation
Indices: 2707042--2707090 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
2707032 CTTTCTTAAT
*
2707042 GTAGTAATTTTC-GAGGTATTACA
1 GTAGTAATTTTCAGA-ATATTACA
2707065 GTAGTAATTTTCAGAATATTACA
1 GTAGTAATTTTCAGAATATTACA
2707088 GTA
1 GTA
2707091 TATATAGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (23 bp):
GTAGTAATTTTCAGAATATTACA
Found at i:2712233 original size:86 final size:86
Alignment explanation
Indices: 2712143--2712323 Score: 346
Period size: 86 Copynumber: 2.1 Consensus size: 86
2712133 AATATAATTG
2712143 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
2712208 TGTTAAGTATTAACGTTGATA
66 TGTTAAGTATTAACGTTGATA
2712229 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
*
2712294 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAACGTTGATA
2712315 TAATT-TTAT
1 TAATTATTAT
2712324 GTGGAGAGAA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 4 0.04
86 90 0.96
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAACGTTGATA
Found at i:2712465 original size:51 final size:51
Alignment explanation
Indices: 2712390--2712606 Score: 303
Period size: 51 Copynumber: 4.0 Consensus size: 51
2712380 TATACGTAAA
2712390 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
2712440 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
2712503 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
2712554 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
2712605 AA
1 AA
2712607 GTAATTTTAG
Statistics
Matches: 153, Mismatches: 0, Indels: 27
0.85 0.00 0.15
Matches are distributed among these distances:
50 7 0.05
51 87 0.57
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.28
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:2712497 original size:12 final size:12
Alignment explanation
Indices: 2712480--2712507 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2712470 GGTAAATAAC
2712480 ATTAAACCAACA
1 ATTAAACCAACA
2712492 ATTAAACCAACA
1 ATTAAACCAACA
2712504 ATTA
1 ATTA
2712508 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:2712507 original size:63 final size:63
Alignment explanation
Indices: 2712429--2712558 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
2712419 GGTAAATAAC
2712429 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
2712492 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
2712555 ATTA
1 ATTA
2712559 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:2712531 original size:114 final size:113
Alignment explanation
Indices: 2712390--2712606 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 113
2712380 TATACGTAAA
2712390 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
1 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
2712455 AACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAATTAAACCAAC
66 AACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAATTAAACCAAC
2712503 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
2712568 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
65 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
2712607 GTAATTTTAG
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 7 0.07
114 95 0.93
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (113 bp):
AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
AACAATGTTTTTTAGGGACAATAACATTAAACCAACAATTAAACCAAC
Found at i:2712615 original size:33 final size:34
Alignment explanation
Indices: 2712552--2712662 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
2712542 CATTAAACCA
* *
2712552 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
2712586 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
2712618 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
2712651 TCAATTATACAT
1 ACAATTATACAT
2712663 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:2716041 original size:18 final size:17
Alignment explanation
Indices: 2716013--2716047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2716003 ATTATTAAGA
*
2716013 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2716030 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2716048 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2716130 original size:120 final size:120
Alignment explanation
Indices: 2715684--2716304 Score: 1142
Period size: 119 Copynumber: 5.2 Consensus size: 120
2715674 TTTTCAAGTT
2715684 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2715749 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2715803 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2715868 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2715922 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2715987 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
2716042 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA-TTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
2716106 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
2716162 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2716227 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
2716282 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
2716305 TAAATATGAT
Statistics
Matches: 491, Mismatches: 6, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
118 2 0.00
119 239 0.49
120 223 0.45
121 25 0.05
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:2716255 original size:240 final size:239
Alignment explanation
Indices: 2715684--2716304 Score: 1140
Period size: 240 Copynumber: 2.6 Consensus size: 239
2715674 TTTTCAAGTT
2715684 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
2715749 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
2715813 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
* *
2715878 ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATAATTAAGAATTTATTAAATTATATAGTTTAATTAAA
2715922 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2715987 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
2716052 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA-TTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
2716116 ATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 ATATTAAT--AATTAAGAATTT-ATTAAATTATATAGTTTAATTAAA
*
2716162 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
2716227 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
2716292 TAATAATTATGTT
131 TAATAATTATGTT
2716305 TAAATATGAT
Statistics
Matches: 373, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
237 2 0.01
238 120 0.32
239 87 0.23
240 164 0.44
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (239 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATAATTAAGAATTTATTAAATTATATAGTTTAATTAAA
Found at i:2716281 original size:18 final size:17
Alignment explanation
Indices: 2716253--2716287 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2716243 ATTATTAAGA
*
2716253 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2716270 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2716288 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2716500 original size:44 final size:45
Alignment explanation
Indices: 2716451--2716541 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
2716441 ACCTCTATTC
* * *
2716451 CATTCAACCAAACACA-AGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATTAGCTATTACACCTCTAATCCAATA
*
2716495 CATTCAACCAAACAATGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACAATAGATTAGCTATTACACCTCTAATCCAATA
2716540 CA
1 CA
2716542 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 19 0.46
45 21 0.51
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATTAGCTATTACACCTCTAATCCAATA
Found at i:2716543 original size:16 final size:16
Alignment explanation
Indices: 2716522--2716590 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
2716512 GATTAGCTAT
2716522 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2716538 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
2716555 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2716571 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
2716587 TACA
1 TACA
2716591 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2716564 original size:33 final size:32
Alignment explanation
Indices: 2716522--2716590 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
2716512 GATTAGCTAT
2716522 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
2716555 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
2716587 TACA
1 TACA
2716591 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:2718202 original size:11 final size:11
Alignment explanation
Indices: 2718186--2718230 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 11
2718176 ATATTTTTAA
2718186 AAAAATTATAT
1 AAAAATTATAT
2718197 AAAAATAATAATAAT
1 AAAAAT--T-AT-AT
2718212 AAAAATTATAT
1 AAAAATTATAT
2718223 AAAAATTA
1 AAAAATTA
2718231 ATACGGTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 16 0.53
12 2 0.07
13 2 0.07
14 2 0.07
15 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:2718753 original size:28 final size:27
Alignment explanation
Indices: 2718675--2718753 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 27
2718665 CCATTTTTTA
*
2718675 ATAAACATTAAAAAAATATTTTAAAAAT
1 ATAAAAATTAAAAAAATATTTT-AAAAT
* ** *
2718703 AAAAAAATTTTAAAAGTATTTTAAAAT
1 ATAAAAATTAAAAAAATATTTTAAAAT
2718730 -TAAAAATTAAAAAATATATATTTA
1 ATAAAAATTAAAAAA-ATAT-TTTA
2718754 TTATATTCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 11 0.28
27 8 0.20
28 21 0.52
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (27 bp):
ATAAAAATTAAAAAAATATTTTAAAAT
Found at i:2718905 original size:133 final size:133
Alignment explanation
Indices: 2718760--2719033 Score: 539
Period size: 133 Copynumber: 2.1 Consensus size: 133
2718750 TTTATTATAT
*
2718760 TCGGGCCGAGCCTGGACTAAAAAAGTGGTGCCCGAGGCCTGGCCCGTTTTTTAAACTGGCCTCGT
1 TCGGGCCGAGCCTGGACTAAAAAAGTGGTGCCCGAGGCCTGGCCCGTTTTTTAAACTGGCCTCAT
2718825 TTTTTTGCCCAAGCCCATATTTCGGGCCTATATTTTTACCCGAACTTTCTCATATTTCGGACGGA
66 TTTTTTGCCCAAGCCCATATTTCGGGCCTATATTTTTACCCGAACTTTCTCATATTTCGGACGGA
2718890 CCG
131 CCG
2718893 TCGGGCCGAGCCTGGACTAAAAAAGTGGTGCCCGAGGCCTGGCCCGTTTTTTAAACTGGCCTCAT
1 TCGGGCCGAGCCTGGACTAAAAAAGTGGTGCCCGAGGCCTGGCCCGTTTTTTAAACTGGCCTCAT
2718958 TTTTTTGCCCAAGCCCATATTTCGGGCCTATATTTTTACCCGAACTTTCTCATATTTCGGACGGA
66 TTTTTTGCCCAAGCCCATATTTCGGGCCTATATTTTTACCCGAACTTTCTCATATTTCGGACGGA
2719023 CCG
131 CCG
2719026 TCGGGCCG
1 TCGGGCCG
2719034 GGCCGCCCGG
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.30
Consensus pattern (133 bp):
TCGGGCCGAGCCTGGACTAAAAAAGTGGTGCCCGAGGCCTGGCCCGTTTTTTAAACTGGCCTCAT
TTTTTTGCCCAAGCCCATATTTCGGGCCTATATTTTTACCCGAACTTTCTCATATTTCGGACGGA
CCG
Found at i:2726231 original size:5 final size:6
Alignment explanation
Indices: 2726215--2726240 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2726205 ACTAAATTCT
2726215 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
2726241 GAGGGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:2728366 original size:43 final size:42
Alignment explanation
Indices: 2728317--2728434 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 42
2728307 ATAATTTCGT
*
2728317 TGAACTTGAGTGATTCAGATTGTGATTAATATATATTTTCGGA
1 TGAACTTAAGTGATTCAGATTGTGATTAATATATATTTT-GGA
* * *
2728360 TGAACTTAAGTGATTCAGATTGTGATCAAATATGTATTTTTGA
1 TGAACTTAAGTGATTCAGATTGTGAT-TAATATATATTTTGGA
* *
2728403 TGAACTTTTAAGTGACTCAAATTGTGATTAAT
1 TGAAC--TTAAGTGATTCAGATTGTGATTAAT
2728435 TTTGGGGTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
43 32 0.49
44 14 0.22
45 19 0.29
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (42 bp):
TGAACTTAAGTGATTCAGATTGTGATTAATATATATTTTGGA
Found at i:2748044 original size:46 final size:44
Alignment explanation
Indices: 2747943--2748304 Score: 371
Period size: 46 Copynumber: 8.6 Consensus size: 44
2747933 TACGTATGAT
*
2747943 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTAC
2747986 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
* *
2748032 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
*
2748078 TACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
2748114 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
2748150 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
*
2748196 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
2748232 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
2748278 CACTTATCACTTTATCCCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
2748305 AGTACTCAAA
Statistics
Matches: 283, Mismatches: 13, Indels: 43
0.83 0.04 0.13
Matches are distributed among these distances:
36 92 0.33
38 5 0.02
39 1 0.00
40 5 0.02
41 1 0.00
42 6 0.02
43 11 0.04
44 10 0.04
45 20 0.07
46 132 0.47
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:2748120 original size:36 final size:36
Alignment explanation
Indices: 2748079--2748268 Score: 245
Period size: 36 Copynumber: 5.0 Consensus size: 36
2748069 TAAGGCTAAT
*
2748079 ACTTATCACTTTGTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
2748115 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
2748151 ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG----C
* * *
2748197 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
*
2748233 ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
2748269 TAAAGCTACC
Statistics
Matches: 138, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 99 0.72
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.01
46 28 0.20
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
Found at i:2748200 original size:82 final size:82
Alignment explanation
Indices: 2747986--2748304 Score: 397
Period size: 82 Copynumber: 3.9 Consensus size: 82
2747976 GCTAGGCTAC
* *
2747986 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
2748051 TGATCAGATAAGTGTAGCTAAGG
66 TGATCAGATAA--GTA--T-A-G
*
2748074 CTAATACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG----CACTTATCACTTTTT
1 C----ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTAT
2748129 CACTTGATCAGATAAGTATAG
62 CACTTGATCAGATAAGTATAG
* * *
2748150 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
*
2748215 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
2748232 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCCCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
2748297 TGATCAGA
66 TGATCAGA
2748305 AGTACTCAAA
Statistics
Matches: 209, Mismatches: 8, Indels: 34
0.83 0.03 0.14
Matches are distributed among these distances:
72 28 0.13
74 3 0.01
76 3 0.01
77 1 0.00
78 3 0.01
80 3 0.01
82 133 0.64
86 1 0.00
88 2 0.01
90 3 0.01
92 29 0.14
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:2748240 original size:118 final size:118
Alignment explanation
Indices: 2748032--2748268 Score: 411
Period size: 118 Copynumber: 2.0 Consensus size: 118
2748022 CTAAGGCTAC
* *
2748032 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAATACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
2748097 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
2748150 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
* *
2748215 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
2748268 C
1 C
2748269 TAAAGCTACC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 112 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:2758448 original size:24 final size:24
Alignment explanation
Indices: 2758421--2758467 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2758411 GGTTTAAGCT
*
2758421 ATGTTTTGGTATGTAGT-TTAGTTA
1 ATGTTGTGGTATGT-GTATTAGTTA
2758445 ATGTTGTGGTATGTGTATTAGTT
1 ATGTTGTGGTATGTGTATTAGTT
2758468 TTAAAGCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (24 bp):
ATGTTGTGGTATGTGTATTAGTTA
Found at i:2761463 original size:44 final size:44
Alignment explanation
Indices: 2761400--2761490 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
2761390 AACTTTGTTT
* *
2761400 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAATGTAGGTTATTTTAATA
*
2761444 TTAGTTTCCCATTTAAACTCTAATTAATGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAATGTAGGTTATTTTAATA
2761488 TTA
1 TTA
2761491 TTTGACCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAATGTAGGTTATTTTAATA
Found at i:2762551 original size:49 final size:49
Alignment explanation
Indices: 2762497--2762651 Score: 156
Period size: 49 Copynumber: 3.2 Consensus size: 49
2762487 TACCACAAAG
*
2762497 GCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAATACAA
1 GCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAACACAA
* * * * ** * * *
2762546 GCATCTAAGCATAATACCATAATCAATGCAAAT--GA-GTT-ACCACAAA
1 GCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAACAC-AA
*
2762592 GGCATCTAAGTAAAGAAAACATAATTGATGCAGTTCAAATGTTCAACACAA
1 -GCATCTAAGTAAA-AAAACATAATTGATGCAATTCAAATGTTCAACACAA
2762643 GCATCTAAG
1 GCATCTAAG
2762652 CATAATACCA
Statistics
Matches: 79, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
45 3 0.04
46 5 0.06
47 12 0.15
48 14 0.18
49 26 0.33
50 10 0.13
51 5 0.06
52 4 0.05
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (49 bp):
GCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAACACAA
Found at i:2762643 original size:97 final size:96
Alignment explanation
Indices: 2762477--2762705 Score: 406
Period size: 97 Copynumber: 2.4 Consensus size: 96
2762467 TTAAAAAGAG
* *
2762477 GCAAATGAATTACCACAAAGGCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAAT
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAAC
2762542 ACAAGCATCTAAGCATAATACCATAATCAAT
66 ACAAGCATCTAAGCATAATACCATAATCAAT
*
2762573 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAGAAAACATAATTGATGCAGTTCAAATGTTCAA
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAA-AAAACATAATTGATGCAATTCAAATGTTCAA
2762638 CACAAGCATCTAAGCATAATACCATAATCAAT
65 CACAAGCATCTAAGCATAATACCATAATCAAT
*
2762670 GCAAATGAGTTACCACAAAGG-ATTTAAGTAAAAAAA
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAA
2762706 AAAACATAAA
Statistics
Matches: 128, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
95 4 0.03
96 42 0.33
97 82 0.64
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.23
Consensus pattern (96 bp):
GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAACATAATTGATGCAATTCAAATGTTCAAC
ACAAGCATCTAAGCATAATACCATAATCAAT
Found at i:2762736 original size:26 final size:27
Alignment explanation
Indices: 2762686--2762740 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
2762676 GAGTTACCAC
2762686 AAAGGATTTAAGTAAAAAAAAAAACAT
1 AAAGGATTTAAGTAAAAAAAAAAACAT
2762713 AAAGGATTTAAGT-AAAAAAAAAACAT
1 AAAGGATTTAAGTAAAAAAAAAAACAT
2762739 AA
1 AA
2762741 TTGATGCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (27 bp):
AAAGGATTTAAGTAAAAAAAAAAACAT
Found at i:2763251 original size:22 final size:22
Alignment explanation
Indices: 2763207--2763250 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2763197 TAGAAGGAGG
2763207 AGAAGCAAGAAACAAGCAAAAA
1 AGAAGCAAGAAACAAGCAAAAA
*
2763229 AGAAGCAAGAAGCAA-CAAAAA
1 AGAAGCAAGAAACAAGCAAAAA
2763250 A
1 A
2763251 AATTTAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.68, C:0.14, G:0.18, T:0.00
Consensus pattern (22 bp):
AGAAGCAAGAAACAAGCAAAAA
Found at i:2763908 original size:28 final size:27
Alignment explanation
Indices: 2763876--2763938 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
2763866 TTTAATATTA
*
2763876 AAATAATACA-AAAATTCATTTATAATTT
1 AAATAATA-ATAAAATTCA-GTATAATTT
* *
2763904 GAATAATAATATAATTCAGTATAATTT
1 AAATAATAATAAAATTCAGTATAATTT
2763931 AAATAATA
1 AAATAATA
2763939 TTACTAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (27 bp):
AAATAATAATAAAATTCAGTATAATTT
Found at i:2765830 original size:44 final size:44
Alignment explanation
Indices: 2765780--2766094 Score: 160
Period size: 44 Copynumber: 7.2 Consensus size: 44
2765770 CCAGTAATTC
*
2765780 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
1 TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
* * * * * ** ** * *
2765824 TGTCTCCCTAAGCAGTAGTGGGACAGATCAAAGATGGCGGATTT
1 TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
* ** * * *
2765868 TACCTCCCTGAAGTTGCAGTGGAGTATATTGAAG---CCAG-TAATT
1 TATCTCCCTG-AGCAGCAGTGGAATAGATTGAAGATTTCAGAT-A-T
*
2765911 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
1 -TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
* * * * * ** ** * *
2765956 TGTCTCCCTAAGCAGTAGTGGGACAGATCAAAGATGGCGGATTT
1 TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
* ** * * *
2766000 TACCTCCCTGAAGTTGCAGTGGAGTATATTGAAG---CCAG-TAATT
1 TATCTCCCTG-AGCAGCAGTGGAATAGATTGAAGATTTCAGAT-A-T
*
2766043 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
1 -TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
*
2766088 TGTCTCC
1 TATCTCC
2766095 AGTAGTGGGA
Statistics
Matches: 186, Mismatches: 69, Indels: 32
0.65 0.24 0.11
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 38 0.20
44 102 0.55
45 30 0.16
46 8 0.04
47 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTTCAGATAT
Found at i:2765889 original size:132 final size:132
Alignment explanation
Indices: 2765715--2766570 Score: 1151
Period size: 132 Copynumber: 6.5 Consensus size: 132
2765705 AACAATGAAG
* ** *
2765715 CAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGTAGTGGAGTATATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
2765780 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
66 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
2765845 GA
131 GA
* * *
2765847 CAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTATATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
2765912 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
66 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
2765977 GA
131 GA
* * *
2765979 CAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTATATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
2766044 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCT--C----CAGTAGTGG
66 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
2766103 GA
131 GA
* * *
2766105 CAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
2766170 TA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTG
66 TATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTG
*
2766234 GGG
130 GGA
* * * * *
2766237 CAGATCAAAGAGGGTGAATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * *
2766302 TA-CTTCCCTGGGCAGTAGTGGAATAGATGGAAGATTTCAGATCTTTTCTCCCTAAGCAGTAGT-
66 TATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTG
2766365 GGA
130 GGA
* * ** * * *
2766368 GCATATTAAAGATGATGGATTTTACCTCCCTGTGGTTACAATGGAGTAAATTGAAGCCAGTAATT
1 -CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * * * * ** *
2766433 CTATCTTCCTAGGCAACAGTGGAATAGATTGAAGACTACAGATCTCATCTCCCTAGGCAGTAGT-
65 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTG
2766497 GGA
130 GGA
* * * * * *
2766500 GTAGATCGAAGATTGCAGATTTTACCTCCCTGAGGTTACA-TAGAGTACATTGAAGCAAGT-ATT
1 -CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT
2766563 CCTATCTC
65 -CTATCTC
2766571 TTTGAAGTTG
Statistics
Matches: 664, Mismatches: 50, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
125 1 0.00
126 114 0.17
128 1 0.00
130 4 0.01
131 25 0.04
132 518 0.78
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (132 bp):
CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
GA
Found at i:2766434 original size:390 final size:390
Alignment explanation
Indices: 2765715--2766570 Score: 1148
Period size: 390 Copynumber: 2.2 Consensus size: 390
2765705 AACAATGAAG
* ** *
2765715 CAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGTAGTGGAGTATATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
2765780 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGG
66 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATATTGTCTCCCTAAGCAGTAGTGG
* * * *
2765845 GACAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTATATTGAAGCCAGTAAT
131 GACAGATCAAAGAGGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
2765910 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGT
196 TCTATCTCCCTGGGCAGCAGTGGAATAGATGGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGT
* * * *
2765975 GGGACAGATCAAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTATATTGAAGCCAGTA
261 GGGACAGATCAAAGATGACGGATTTTACCTCCCTGAAGTTACAATGGAGTAAATTGAAGCCAGTA
* *
2766040 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCAGTAGTGGGA
326 ATTCTATCTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCAGTAGTGGGA
* **
2766105 CAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
2766170 TA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGTG
66 TATC-TCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATATTGTCTCCCTAAGCAGTAGTG
* * * **
2766234 GGGCAGATCAAAGAGGGTGAATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
130 GGACAGATCAAAGAGGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAA
* * *
2766299 TTCTA-CTTCCCTGGGCAGTAGTGGAATAGATGGAAGATTTCAGATCTTTTCTCCCTAAGCAGTA
195 TTCTATC-TCCCTGGGCAGCAGTGGAATAGATGGAAGATTTCAGATATTGTCTCCCTAAGCAGTA
* * * **
2766363 GT-GGAGCATATTAAAGATGATGGATTTTACCTCCCTGTGGTTACAATGGAGTAAATTGAAGCCA
259 GTGGGA-CAGATCAAAGATGACGGATTTTACCTCCCTGAAGTTACAATGGAGTAAATTGAAGCCA
* * * * ** *
2766427 GTAATTCTATCTTCCTAGGCAACAGTGGAATAGATTGAAGACTACAGATCTCATCTCCCTAGGCA
323 GTAATTCTATCTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATATTGTCT-CC-A-GTA
2766492 GTAGTGGA
385 GT-G-GGA
* * * * * *
2766500 GTAGATCGAAGATTGC-AGATTTTACCTCCCTGAGGTTACA-TAGAGTACATTGAAGCAAGT-AT
1 -CAGATCAAAGATGGCGA-ATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAAT
2766562 TCCTATCTC
64 T-CTATCTC
2766571 TTTGAAGTTG
Statistics
Matches: 406, Mismatches: 48, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
389 5 0.01
390 330 0.81
391 2 0.00
392 1 0.00
393 4 0.01
394 4 0.01
395 27 0.07
396 33 0.08
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (390 bp):
CAGATCAAAGATGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATATTGTCTCCCTAAGCAGTAGTGG
GACAGATCAAAGAGGGCGAATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTGGGCAGCAGTGGAATAGATGGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGT
GGGACAGATCAAAGATGACGGATTTTACCTCCCTGAAGTTACAATGGAGTAAATTGAAGCCAGTA
ATTCTATCTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCAGTAGTGGGA
Found at i:2766529 original size:44 final size:44
Alignment explanation
Indices: 2766440--2766530 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 44
2766430 ATTCTATCTT
* *
2766440 CCTAGGCAACAGTGGAATAGATTGAAGACTACAGATCTCATCTC
1 CCTAGGCAACAGTGGAATAGATCGAAGACTACAGATCTCACCTC
** * * * * *
2766484 CCTAGGCAGTAGTGGAGTAGATCGAAGATTGCAGATTTTACCTC
1 CCTAGGCAACAGTGGAATAGATCGAAGACTACAGATCTCACCTC
2766528 CCT
1 CCT
2766531 GAGGTTACAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
CCTAGGCAACAGTGGAATAGATCGAAGACTACAGATCTCACCTC
Found at i:2770778 original size:116 final size:116
Alignment explanation
Indices: 2770592--2770872 Score: 490
Period size: 116 Copynumber: 2.4 Consensus size: 116
2770582 CTGCTATTTT
** *
2770592 TTTTTTCTGGCAACTTTTTTGCTGCCTCTTCACGATCTCTTTGCCACCCCTGCTACTATTATTTT
1 TTTTTT-TGGCAACTGCTTTGCTGCCTCTTCACG-TCTCTTTGCAACCCCTGCTACTATTATTTT
*
2770657 TTTCTGCAACTGCTTTGCTGCCTCTTCACGTATCTCTGCAACCCTTGCTGCTA
64 TTTCTGCAACTGCTTTCCTGCCTCTTCACGTATCTCTGCAACCCTTGCTGCTA
*
2770710 TTTTTTTGGCAACTGCTTTGCTGTCTCTTCACGTCTCTTTGCAACCCCTGCTACTATTATTTTTT
1 TTTTTTTGGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTACTATTATTTTTT
2770775 TCTGCAACTGCTTTCCTGCCTCTTCACGTATCTCTGCAACCCTTGCTGCTA
66 TCTGCAACTGCTTTCCTGCCTCTTCACGTATCTCTGCAACCCTTGCTGCTA
2770826 TGTTTTTTGGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACC
1 T-TTTTTTGGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACC
2770873 TCTACTGATT
Statistics
Matches: 156, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
116 82 0.53
117 68 0.44
118 6 0.04
ACGTcount: A:0.12, C:0.31, G:0.14, T:0.43
Consensus pattern (116 bp):
TTTTTTTGGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTACTATTATTTTTT
TCTGCAACTGCTTTCCTGCCTCTTCACGTATCTCTGCAACCCTTGCTGCTA
Found at i:2770799 original size:60 final size:60
Alignment explanation
Indices: 2770585--2770872 Score: 356
Period size: 60 Copynumber: 4.9 Consensus size: 60
2770575 TACCGTACTG
* ** *
2770585 CTATTTTTTTTTTCTGGCAACTTTTTTGCTGCCTCTTCACGATCTCTTTGCCACCCCTGCTA
1 CTATTATTTTTTTCT-GCAACTGCTTTGCTGCCTCTTCACG-TCTCTTTGCAACCCCTGCTA
* * * *
2770647 CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTATCTCTGCAACCCTTGCTG
1 CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTA
* *
2770707 C---TATTTTTTT-GGCAACTGCTTTGCTGTCTCTTCACGTCTCTTTGCAACCCCTGCTA
1 CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTA
* * * * *
2770763 CTATTATTTTTTTCTGCAACTGCTTTCCTGCCTCTTCACGTATCTCTGCAACCCTTGCTG
1 CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTA
* *
2770823 CTA-T-GTTTTTT-GGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACC
1 CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACC
2770873 TCTACTGATT
Statistics
Matches: 196, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
56 41 0.21
57 44 0.22
58 6 0.03
59 10 0.05
60 58 0.30
61 23 0.12
62 14 0.07
ACGTcount: A:0.12, C:0.31, G:0.13, T:0.44
Consensus pattern (60 bp):
CTATTATTTTTTTCTGCAACTGCTTTGCTGCCTCTTCACGTCTCTTTGCAACCCCTGCTA
Found at i:2774609 original size:9 final size:9
Alignment explanation
Indices: 2774595--2774619 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2774585 ACTTAAATTT
2774595 TAAATTAAA
1 TAAATTAAA
2774604 TAAATTAAA
1 TAAATTAAA
2774613 TAAATTA
1 TAAATTA
2774620 TTGAAAAAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAATTAAA
Found at i:2778397 original size:21 final size:22
Alignment explanation
Indices: 2778371--2778417 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2778361 CTCTGCTCAA
*
2778371 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
2778392 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
2778414 ACTC
1 ACTC
2778418 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:2782520 original size:44 final size:44
Alignment explanation
Indices: 2782450--2782540 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
2782440 AACTCTATTT
* * * *
2782450 TTAGTTTCTCACTTAAACTCTGATTAATGTAGGTTATTTTAATA
1 TTAGTTTCCCACATAAACTCTAATTAATGTAGGTCATTTTAATA
*
2782494 TTAGTTTCCCACATAAATTCTAATTAATGTAGGTCATTTTAATA
1 TTAGTTTCCCACATAAACTCTAATTAATGTAGGTCATTTTAATA
2782538 TTA
1 TTA
2782541 TTTGACCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACATAAACTCTAATTAATGTAGGTCATTTTAATA
Found at i:2783072 original size:6 final size:6
Alignment explanation
Indices: 2783063--2783096 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
2783053 ACTATAAGAA
*
2783063 GGTTAG GGTTAA GGTTAG GGTTAG GGTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTTAG GGTT
2783097 GAGGTAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (6 bp):
GGTTAG
Found at i:2783078 original size:12 final size:12
Alignment explanation
Indices: 2783061--2783101 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
2783051 AAACTATAAG
2783061 AAGGTTAGGGTT
1 AAGGTTAGGGTT
2783073 AAGGTTAGGGTT
1 AAGGTTAGGGTT
*
2783085 AGGGTTAGGGTT
1 AAGGTTAGGGTT
*
2783097 GAGGT
1 AAGGT
2783102 AGATGAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (12 bp):
AAGGTTAGGGTT
Found at i:2783814 original size:102 final size:102
Alignment explanation
Indices: 2783539--2783832 Score: 420
Period size: 98 Copynumber: 2.9 Consensus size: 102
2783529 TTAAAAAGAG
*
2783539 GCAAATGAATTACCACAAAGGCATCTAAGTAAAAAAAAAAAAAACATAATTGATGCAGTTCAAAT
1 GCAAATGAGTTACCACAAAGGCATCTAAGT--AAAAAAAAAAAACATAATTGATGCAGTTCAAAT
* * *
2783604 GTTCAATACAAGCATTTAAGCATAATA-CGATAATCGAT
64 GTTCAATACAAGCATCTAAGCATAATACCCATAATCAAT
*
2783642 GCAAATGAGTTACCACAAAAGGCATCTAAGT----AAAGAAAACATAATTGATGCAGTTCAAATG
1 GCAAATGAGTTACCAC-AAAGGCATCTAAGTAAAAAAAAAAAACATAATTGATGCAGTTCAAATG
2783703 TTCAATACAAGCATCTAAGCATAATACCCATAATCAAT
65 TTCAATACAAGCATCTAAGCATAATACCCATAATCAAT
* * * *
2783741 GTAAATGAGTTACCACAAAGG-ATTTAAGTAAAAAAAAAAAACCATAATTGTTGCAATTCAAATG
1 GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAAAAA-CATAATTGATGCAGTTCAAATG
*
2783805 TTTAATACAAGCATCTAAGCATAATACC
65 TTCAATACAAGCATCTAAGCATAATACC
2783833 ATGATTGACG
Statistics
Matches: 173, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
97 7 0.04
98 59 0.34
99 24 0.14
101 7 0.04
102 47 0.27
103 15 0.09
104 14 0.08
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.24
Consensus pattern (102 bp):
GCAAATGAGTTACCACAAAGGCATCTAAGTAAAAAAAAAAAACATAATTGATGCAGTTCAAATGT
TCAATACAAGCATCTAAGCATAATACCCATAATCAAT
Found at i:2784980 original size:27 final size:29
Alignment explanation
Indices: 2784949--2785010 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
2784939 TTTAATATTA
*
2784949 AAATAATACAA-A-AATTCATTATAATTT
1 AAATAATACAATATAATTCAGTATAATTT
*
2784976 GAAT-A-ACAATATAATTCAGTATAATTT
1 AAATAATACAATATAATTCAGTATAATTT
2785003 AAATAATA
1 AAATAATA
2785011 TTACTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 4 0.14
26 2 0.07
27 20 0.71
28 1 0.04
29 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATAATACAATATAATTCAGTATAATTT
Found at i:2787009 original size:60 final size:59
Alignment explanation
Indices: 2786924--2787102 Score: 220
Period size: 60 Copynumber: 3.0 Consensus size: 59
2786914 CTCTGCCCTG
* * * *
2786924 CTGCTATTATTTTTTTTTTTGGCAACTTCTTTTCTGCCTCTTCACATCTCTTTGCAACCC
1 CTGCTACTA-TTTTTTTTCTGGCAACTGCTTTTCTGCCTCTTCACGTCTCTTTGCAACCC
* *
2786984 CTGCTACTATTATTTTTTCTGGCAACTGCTTTGT-TGCCTCTTCACGTATCTCTGCAACCC
1 CTGCTACTATT-TTTTTTCTGGCAACTGCTTT-TCTGCCTCTTCACGTCTCTTTGCAACCC
* * * *
2787044 CTGCTGCTA-TTTTTTTC-GACAACTGCTTTGCTCCCTCTTCACGTCTCTTTGCAACCC
1 CTGCTACTATTTTTTTTCTGGCAACTGCTTTTCTGCCTCTTCACGTCTCTTTGCAACCC
2787101 CT
1 CT
2787103 ACTGATTTGC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
57 36 0.35
58 7 0.07
59 3 0.03
60 57 0.55
61 1 0.01
ACGTcount: A:0.13, C:0.31, G:0.11, T:0.44
Consensus pattern (59 bp):
CTGCTACTATTTTTTTTCTGGCAACTGCTTTTCTGCCTCTTCACGTCTCTTTGCAACCC
Found at i:2791432 original size:31 final size:30
Alignment explanation
Indices: 2791362--2791436 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
2791352 AAATGAAGGC
* *
2791362 TAAA-CTTTTAAAAAT-TATCAAATAAGGGC
1 TAAACCTTTTTAAAATGT-TCAAATAAGGGA
* *
2791391 TTAACTTTTTTGAAAATGTTCAAATAAGGGA
1 TAAACCTTTTT-AAAATGTTCAAATAAGGGA
2791422 TAAACCTTTTTAAAA
1 TAAACCTTTTTAAAA
2791437 GAACTCAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 3 0.08
30 8 0.22
31 25 0.68
32 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (30 bp):
TAAACCTTTTTAAAATGTTCAAATAAGGGA
Found at i:2792405 original size:13 final size:13
Alignment explanation
Indices: 2792345--2792407 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
2792335 ACAAATAATA
*
2792345 TTAAATAATATAT
1 TTAAATATTATAT
*
2792358 TCTAAATACTATA-
1 T-TAAATATTATAT
*
2792371 TAAAATATGTACTAT
1 TTAAATAT-TA-TAT
2792386 TTAAATATTATAT
1 TTAAATATTATAT
*
2792399 TTTAATATT
1 TTAAATATT
2792408 GTAAAATACT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.12
13 15 0.37
14 14 0.34
15 7 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (13 bp):
TTAAATATTATAT
Found at i:2799118 original size:21 final size:21
Alignment explanation
Indices: 2799093--2799166 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
2799083 CAACACATAA
*
2799093 GTGCCTGAAATGACACGCGAG
1 GTGCCTGAAATGACACACGAG
* *
2799114 ATGCCTGATATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
2799135 GTGCCTGATACGACACACGAG
1 GTGCCTGAAATGACACACGAG
*
2799156 GTGCCTAAAAT
1 GTGCCTGAAAT
2799167 ATGACACATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:2802638 original size:18 final size:18
Alignment explanation
Indices: 2802601--2802639 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2802591 AAAATTATTA
* **
2802601 AAAAATAATAAAATGTAT
1 AAAAATAAAAAAATACAT
2802619 AAAAATAAAAAAATACAT
1 AAAAATAAAAAAATACAT
2802637 AAA
1 AAA
2802640 TTAAAACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAAATACAT
Found at i:2802820 original size:27 final size:26
Alignment explanation
Indices: 2802789--2802852 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
2802779 TTTATCAAGG
*
2802789 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
* *
2802816 TTATTAATTAATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
2802842 TTATTAATTTA
1 TTATTAATTTA
2802853 GAGAATATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:2807753 original size:24 final size:24
Alignment explanation
Indices: 2807709--2807755 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2807699 ATTAAAATGG
2807709 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
2807733 ATTGAATTTA-TAT-TGATTGAATT
1 ATTG-ATTTAGTATGTGA-TGAATT
2807756 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:2808033 original size:40 final size:40
Alignment explanation
Indices: 2807912--2808051 Score: 108
Period size: 40 Copynumber: 3.5 Consensus size: 40
2807902 GACTTCGAGT
* * *
2807912 CGATGAGACACTGGGTGTCAATTTACTACTTT-AGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGA-ATT-ATC
* * * * ** *
2807953 TGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC
*
2807990 CGATGAGACACTGTGTGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC
* * *
2808030 CGATGAGGCACTAGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
2808052 CTGGTGTGTT
Statistics
Matches: 73, Mismatches: 22, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
37 15 0.21
38 10 0.14
39 2 0.03
40 31 0.42
41 15 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC
Found at i:2811469 original size:30 final size:30
Alignment explanation
Indices: 2811435--2811510 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
2811425 AAAATGGAGT
*
2811435 TTTAGGTTCCTTAAAAGTTAGAAAAAAAAA
1 TTTAGGTCCCTTAAAAGTTAGAAAAAAAAA
* *
2811465 TTTAGGTCCCTTAAAAGTTGGTAAAAAAAA
1 TTTAGGTCCCTTAAAAGTTAGAAAAAAAAA
*
2811495 TTT-GGGCCCTTAAAAG
1 TTTAGGTCCCTTAAAAG
2811511 CTAAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 12 0.29
30 30 0.71
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (30 bp):
TTTAGGTCCCTTAAAAGTTAGAAAAAAAAA
Found at i:2814757 original size:9 final size:9
Alignment explanation
Indices: 2814745--2814802 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
2814735 AAATAATTCA
2814745 AAAAATTAT
1 AAAAATTAT
2814754 AAAAA-TAT
1 AAAAATTAT
2814762 AAAAA-T-T
1 AAAAATTAT
*
2814769 -AAAATTTT
1 AAAAATTAT
2814777 AAAAA-TAT
1 AAAAATTAT
2814785 AAAAAATTCAT
1 -AAAAATT-AT
2814796 AAAAATT
1 AAAAATT
2814803 CAAAAAGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 12 0.29
9 14 0.33
10 8 0.19
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:2814762 original size:8 final size:8
Alignment explanation
Indices: 2814745--2814789 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
2814735 AAATAATTCA
2814745 AAAAATTAT
1 AAAAA-TAT
2814754 AAAAATAT
1 AAAAATAT
2814762 AAAAAT-T
1 AAAAATAT
* *
2814769 AAAATTTT
1 AAAAATAT
2814777 AAAAATAT
1 AAAAATAT
2814785 AAAAA
1 AAAAA
2814790 ATTCATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 6 0.19
8 21 0.66
9 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATAT
Found at i:2814772 original size:23 final size:23
Alignment explanation
Indices: 2814746--2814789 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2814736 AATAATTCAA
2814746 AAAATTATAAAAATATAAAAATT
1 AAAATTATAAAAATATAAAAATT
*
2814769 AAAATTTTAAAAATATAAAAA
1 AAAATTATAAAAATATAAAAA
2814790 ATTCATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATTATAAAAATATAAAAATT
Found at i:2814807 original size:17 final size:16
Alignment explanation
Indices: 2814745--2814808 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 16
2814735 AAATAATTCA
*
2814745 AAAAATTATAAAAATAT
1 AAAAATTA-AAAATTAT
*
2814762 AAAAATT-AAAATTTT
1 AAAAATTAAAAATTAT
2814777 AAAAATATAAAAAATTCAT
1 AAAAAT-T-AAAAATT-AT
2814796 AAAAATTCAAAAA
1 AAAAATT-AAAAA
2814809 GTTAACATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 12 0.31
16 1 0.03
17 7 0.18
18 12 0.31
19 7 0.18
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATTAAAAATTAT
Found at i:2815032 original size:22 final size:22
Alignment explanation
Indices: 2814973--2815026 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
2814963 TGTTAATTTA
* * *
2814973 TTTTATTTTAATTTGGGTTTTG
1 TTTTAATTTAAGTTGTGTTTTG
*
2814995 TTTTTATTTAAGTTGTGTTTTG
1 TTTTAATTTAAGTTGTGTTTTG
2815017 TTTTAATTTA
1 TTTTAATTTA
2815027 TATTGTAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.69
Consensus pattern (22 bp):
TTTTAATTTAAGTTGTGTTTTG
Found at i:2818279 original size:21 final size:22
Alignment explanation
Indices: 2818230--2818280 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
2818220 ATTAGAAAAA
*
2818230 TGATTTAAGATGAAATATGAAC
1 TGATTTAAGATGAAATATCAAC
* * *
2818252 CGATTTAAGATG-AATTTCAAT
1 TGATTTAAGATGAAATATCAAC
2818273 TGATTTAA
1 TGATTTAA
2818281 ATGTGTTGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (22 bp):
TGATTTAAGATGAAATATCAAC
Found at i:2818500 original size:18 final size:19
Alignment explanation
Indices: 2818465--2818500 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2818455 TTAAAAGTTA
2818465 TATAAATATAAAAAAATCT
1 TATAAATATAAAAAAATCT
*
2818484 TATAAATA-AACAAAATC
1 TATAAATATAAAAAAATC
2818501 AGAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (19 bp):
TATAAATATAAAAAAATCT
Found at i:2824453 original size:12 final size:12
Alignment explanation
Indices: 2824436--2824461 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2824426 TAGATCAAGA
2824436 AACGAACAAACC
1 AACGAACAAACC
2824448 AACGAACAAACC
1 AACGAACAAACC
2824460 AA
1 AA
2824462 ACTTGAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.31, G:0.08, T:0.00
Consensus pattern (12 bp):
AACGAACAAACC
Found at i:2827480 original size:27 final size:27
Alignment explanation
Indices: 2827442--2827535 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
2827432 GGAGGGTTTG
* *
2827442 TGATTGGCGGCACCAAAGGTGCC-TAAC
1 TGATTGGCGGCACCGATGGTGCCAT-AC
2827469 TGATTGGCGGCACCGATGGTGCCATAC
1 TGATTGGCGGCACCGATGGTGCCATAC
*
2827496 TGGTTGGCGGCACCGATGGTGCCATAC
1 TGATTGGCGGCACCGATGGTGCCATAC
2827523 TGATTGGCGGCAC
1 TGATTGGCGGCAC
2827536 TACTCGTGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 61 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (27 bp):
TGATTGGCGGCACCGATGGTGCCATAC
Found at i:2827647 original size:21 final size:20
Alignment explanation
Indices: 2827617--2827655 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2827607 AGGTGCTGCG
2827617 GAAAAAAAGAGAAAAAGAGA
1 GAAAAAAAGAGAAAAAGAGA
2827637 GAAAAAGAAGAGAAAAAGA
1 GAAAAA-AAGAGAAAAAGA
2827656 AGATATTTTT
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAGAAAAAGAGA
Found at i:2827654 original size:11 final size:11
Alignment explanation
Indices: 2827617--2827658 Score: 70
Period size: 10 Copynumber: 4.0 Consensus size: 11
2827607 AGGTGCTGCG
2827617 GAAAAA-AAGA
1 GAAAAAGAAGA
2827627 GAAAAAG-AGA
1 GAAAAAGAAGA
2827637 GAAAAAGAAGA
1 GAAAAAGAAGA
2827648 GAAAAAGAAGA
1 GAAAAAGAAGA
2827659 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:2828677 original size:18 final size:18
Alignment explanation
Indices: 2828654--2828696 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
2828644 GATATGGTTA
2828654 GTGGCGAAGAAGAAGGTG
1 GTGGCGAAGAAGAAGGTG
2828672 GTGGCGAAGAAGAAGGTG
1 GTGGCGAAGAAGAAGGTG
2828690 GTGGCGA
1 GTGGCGA
2828697 TCATTGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.51, T:0.12
Consensus pattern (18 bp):
GTGGCGAAGAAGAAGGTG
Found at i:2833483 original size:162 final size:161
Alignment explanation
Indices: 2833281--2833803 Score: 554
Period size: 162 Copynumber: 3.3 Consensus size: 161
2833271 ATAATTTCTA
* * *
2833281 ATTTTATAATTTTACATTATTTCAGTGCATAATATTTGAAATTTATTAATTTAGTATGTTTTTTA
1 ATTTTATTATTTTACATTATTTCAGTGCATATTGTTTGAAATTTATTAATTTAGTATGTTTTTTA
*
2833346 AATTAATTTGTTGTAAGAAAAAAACTCTTATCCCTGCCCTTTGCTCGTATTATTTTCCCGATTTT
66 AATTAATTTGATGTAAGAAAAAAACTCTTATCCCTGCCCTTTGCTCGTATTATTTTCCCGATTTT
2833411 TATTACTTTCAATAAAAATATTTTATTTTCGT
131 TATTACTTT-AATAAAAATATTTTATTTTCGT
* * * * * *
2833443 ATTTTATTATTTTATATTATTTTAGTGCATTTTGTTTGAAATATTTGTATTAA-TTATTTTTGAA
1 ATTTTATTATTTTACATTATTTCAGTGCATATTGTTTG-AA-A-TT-TATTAATTTA-GTATG-T
* * * * * ** * * *
2833507 TTTTTAAA--AA----ATGT-AGTAATACACTCTTA-CTTCGGCTATTTGTTCGTATTTTTTTAT
60 TTTTTAAATTAATTTGATGTAAGAAAAAAACTCTTATC-CCTGCCCTTTGCTCGTATTATTTT-C
* ** *
2833564 CCG-TATTATATTA-TTT--TAAAAATATCGTAATTTC-T
123 CCGAT-TTTTATTACTTTAATAAAAATATTTTATTTTCGT
* *
2833599 AATTTTATCATTTTACATTATTTCAGTGCATAATT-TTTGAAATTTATTAATTTAGTGTGTTTTT
1 -ATTTTATTATTTTACATTATTTCAGTGCAT-ATTGTTTGAAATTTATTAATTTAGTATGTTTTT
*
2833663 TAAATTAATTTGGTGTAAGAAAAAAACTCTTATCCCTGCCCTTTGCTCGTATTATTTTCCCGATT
64 TAAATTAATTTGATGTAAGAAAAAAACTCTTATCCCTGCCCTTTGCTCGTATTATTTTCCCGATT
2833728 TTTATTACTTTTAATAAAAATATTTTATTTTCGT
129 TTTATTAC-TTTAATAAAAATATTTTATTTTCGT
* * *
2833762 ATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAAT
1 ATTTTATTATTTTACATTATTTCAGTGCATATTGTTTGAAAT
2833804 ATTTGTATTA
Statistics
Matches: 284, Mismatches: 50, Indels: 54
0.73 0.13 0.14
Matches are distributed among these distances:
152 8 0.03
153 9 0.03
154 7 0.02
155 1 0.00
156 3 0.01
157 46 0.16
158 15 0.05
159 32 0.11
160 38 0.13
161 15 0.05
162 82 0.29
163 3 0.01
164 1 0.00
165 7 0.02
166 9 0.03
167 8 0.03
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (161 bp):
ATTTTATTATTTTACATTATTTCAGTGCATATTGTTTGAAATTTATTAATTTAGTATGTTTTTTA
AATTAATTTGATGTAAGAAAAAAACTCTTATCCCTGCCCTTTGCTCGTATTATTTTCCCGATTTT
TATTACTTTAATAAAAATATTTTATTTTCGT
Found at i:2833780 original size:319 final size:320
Alignment explanation
Indices: 2833192--2833968 Score: 1387
Period size: 319 Copynumber: 2.4 Consensus size: 320
2833182 CAAGTTGAAA
2833192 AAAAAAGTTAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGCATTATATTA
1 AAAAAAGTTAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGCATTATATTA
* *
2833257 TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATATTTGAAA
66 TTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATATTTGAAA
*
2833322 TTTATTAATTTAGTATGTTTTTTAAATTAATTTGTTGTAAGAAAAAAACTCTTATCCCTGCCCTT
131 TTTATTAATTTAGTATGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACTCTTATCCCTGCCCTT
2833387 TGCTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTA
196 TGCTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTA
* * *
2833452 TTTTATATTATTTTAGTGCATTTTGTTTGAAATATTTGTATTAATTATTTTTGAATTTTT
261 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
*
2833512 AAAAAA-TGTAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGTATTATATT
1 AAAAAAGT-TAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGCATTATATT
*
2833576 ATTTT-AAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATTTTTGAA
65 ATTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATATTTGAA
*
2833640 ATTTATTAATTTAGTGTGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACTCTTATCCCTGCCCT
130 ATTTATTAATTTAGTATGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACTCTTATCCCTGCCCT
*
2833705 TTGCTCGTATTATTTTCCCGATTTTTATTACTTTTAATAAAAATATTTTATTTTCGTATTTTATT
195 TTGCTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATT
2833770 ATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
260 ATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
* * * *
2833831 AAAAAAGTTAGTAATCCACTTTTACTTCGACCATTTGTTCGTATTTTTTTATCCGCATTATATTA
1 AAAAAAGTTAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGCATTATATTA
* *
2833896 TTTTAAAAAATATCGTAATTTTTAATTTTATCATTTTACATTATTTCAGTGCATAATGTTTGAAA
66 TTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATATTTGAAA
2833961 TTTATTAA
131 TTTATTAA
2833969 ATATACAAAT
Statistics
Matches: 437, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
319 304 0.70
320 133 0.30
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (320 bp):
AAAAAAGTTAGTAATACACTCTTACTTCGGCTATTTGTTCGTATTTTTTTATCCGCATTATATTA
TTTTAAAAAATATCGTAATTTCTAATTTTATCATTTTACATTATTTCAGTGCATAATATTTGAAA
TTTATTAATTTAGTATGTTTTTTAAATTAATTTGGTGTAAGAAAAAAACTCTTATCCCTGCCCTT
TGCTCGTATTATTTTCCCGATTTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTA
TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:2834289 original size:43 final size:44
Alignment explanation
Indices: 2834221--2834333 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
2834211 TAAAAATTAC
* *
2834221 CTTT-TTTTTTCTTTTTTTTCC-TTCCTCCCCTCTT-CTTCTTCTT
1 CTTTCTTTTTTC-TTCTTCTCCTTTCCTCCCCT-TTCCTTCTTCTT
* *** *
2834264 CTTTTTTTTTTC-TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTCCCCTTTCCTTCTTCTT
2834307 CTTTCTTTTTTCTTCTTCTCCTTTCCT
1 CTTTCTTTTTTCTTCTTCTCCTTTCCT
2834334 TTTTTTTCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 8 0.14
43 30 0.51
44 21 0.36
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
CTTTCTTTTTTCTTCTTCTCCTTTCCTCCCCTTTCCTTCTTCTT
Found at i:2834308 original size:14 final size:14
Alignment explanation
Indices: 2834289--2834368 Score: 60
Period size: 14 Copynumber: 5.7 Consensus size: 14
2834279 TCTCCTTTCC
2834289 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
2834303 TTTTCTTT-CTTTT
1 TTTTCTTTCCTTCT
2834316 TTCTTCTTCTCCTTTCCT
1 TT-TTCTT-TCC-TT-CT
2834334 TTTT-TTT-CTT-T
1 TTTTCTTTCCTTCT
* *
2834345 CTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
*
2834359 TCTTCTTTCC
1 TTTTCTTTCC
2834369 CTCTCCTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
11 4 0.08
12 3 0.06
13 10 0.20
14 22 0.43
15 2 0.04
16 3 0.06
17 4 0.08
18 3 0.06
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:2834311 original size:4 final size:4
Alignment explanation
Indices: 2834290--2834367 Score: 64
Period size: 4 Copynumber: 21.0 Consensus size: 4
2834280 CTCCTTTCCT
* *
2834290 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC -TTC TTCTCC TTTC CTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTTC TTTC
2834335 TTT- TTTC TTTC TTTC TTTC TTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
2834368 CCTCTCCTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
3 21 0.33
4 37 0.59
5 2 0.03
6 3 0.05
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:2834376 original size:42 final size:44
Alignment explanation
Indices: 2834262--2834376 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 44
2834252 CTTCTTCTTC
*
2834262 TTCTTT-TTTTT-TTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTT
1 TTCTTTCTTTTTCTTCT-TTCTCCTTTCCTTTTCTTTCCTTCTCT
*
2834305 TTCTTTCTTTTTTCTTC-TTCTCCTTTCCTTTT-TTTTCTT-TCT
1 TTCTTTC-TTTTTCTTCTTTCTCCTTTCCTTTTCTTTCCTTCTCT
*
2834347 TTCTTTCTTTCTTCTTCTTTC-CCTCTCCTT
1 TTCTTTCTTT-TTCTTCTTTCTCCTTTCCTT
2834377 CTCTCCTCCC
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
41 3 0.05
42 23 0.36
43 15 0.23
44 15 0.23
45 5 0.08
46 3 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (44 bp):
TTCTTTCTTTTTCTTCTTTCTCCTTTCCTTTTCTTTCCTTCTCT
Found at i:2843748 original size:28 final size:29
Alignment explanation
Indices: 2843717--2843789 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
2843707 AAATACGTAC
* * * *
2843717 GTATCTATGTCTATATAGATTA-TAAAAT
1 GTATGTATGTATATATAAATTACAAAAAT
2843745 GTATGTATGTATATATAAATTACAAAAAT
1 GTATGTATGTATATATAAATTACAAAAAT
2843774 GTATGTATGTATATAT
1 GTATGTATGTATATAT
2843790 GTAATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.42
Consensus pattern (29 bp):
GTATGTATGTATATATAAATTACAAAAAT
Found at i:2843782 original size:29 final size:28
Alignment explanation
Indices: 2843717--2843798 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
2843707 AAATACGTAC
* * * *
2843717 GTATCTATGTCTATATAGATTATAAAAT
1 GTATGTATGTATATATAAATTAAAAAAT
2843745 GTATGTATGTATATATAAATTACAAAAAT
1 GTATGTATGTATATATAAATTA-AAAAAT
*
2843774 GTATGTATGTATATATGTAATTAAA
1 GTATGTATGTATATAT-AAATTAAA
2843799 TTTAAAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
28 19 0.40
29 23 0.49
30 5 0.11
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (28 bp):
GTATGTATGTATATATAAATTAAAAAAT
Found at i:2848810 original size:43 final size:43
Alignment explanation
Indices: 2848731--2848813 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
2848721 TCATATTTCA
* * * *
2848731 TTTCTCATCTCATAATCATTTTTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCAATTCTCACATTTGCCATTTCAATAT
* *
2848774 TTTCTCATCTCATATTCAATTCTCACCTTTGCCATTTCAA
1 TTTCTCATCTCATAATCAATTCTCACATTTGCCATTTCAA
2848814 AATCAATCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.49
Consensus pattern (43 bp):
TTTCTCATCTCATAATCAATTCTCACATTTGCCATTTCAATAT
Found at i:2858065 original size:3 final size:3
Alignment explanation
Indices: 2858057--2858090 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2858047 TTGATGACAG
2858057 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2858091 TGATAGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2859156 original size:16 final size:16
Alignment explanation
Indices: 2859135--2859190 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
2859125 TTTATTATAA
2859135 TTAAAAAATGTTAAAT
1 TTAAAAAATGTTAAAT
*** *
2859151 TTAAAAAA-AAAACAAC
1 TTAAAAAATGTTA-AAT
2859167 TT-AAAAATGTTAAAT
1 TTAAAAAATGTTAAAT
2859182 TTAAAAAAT
1 TTAAAAAAT
2859191 AACATAAACT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (16 bp):
TTAAAAAATGTTAAAT
Found at i:2861421 original size:12 final size:12
Alignment explanation
Indices: 2861404--2861431 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2861394 ATAGAAGGAA
2861404 TAAACAGATCTT
1 TAAACAGATCTT
2861416 TAAACAGATCTT
1 TAAACAGATCTT
2861428 TAAA
1 TAAA
2861432 TATGTCCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (12 bp):
TAAACAGATCTT
Found at i:2862033 original size:4 final size:4
Alignment explanation
Indices: 2862024--2862048 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2862014 ATATATAATA
2862024 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
2862049 GGTTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2876046 original size:17 final size:18
Alignment explanation
Indices: 2876007--2876049 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2875997 AATAATTCTA
*
2876007 AAAAAATAAAAAAATGTTT
1 AAAAAATAAAAAAA-GTTC
*
2876026 AAAATATAAAAAAA-TTC
1 AAAAAATAAAAAAAGTTC
2876043 AAAAAAT
1 AAAAAAT
2876050 TATTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAAATAAAAAAAGTTC
Found at i:2876048 original size:19 final size:19
Alignment explanation
Indices: 2876000--2876049 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
2875990 TTTTAACAAT
2876000 AATTCTAAAAAA-ATAAAAA
1 AATTC-AAAAAATATAAAAA
**
2876019 AATGT-TTAAAATATAAAAA
1 AAT-TCAAAAAATATAAAAA
2876038 AATTCAAAAAAT
1 AATTCAAAAAAT
2876050 TATTTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
18 5 0.21
19 18 0.75
20 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATTCAAAAAATATAAAAA
Found at i:2883589 original size:18 final size:18
Alignment explanation
Indices: 2883562--2883654 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
2883552 CCCAACTATT
*
2883562 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
2883580 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
2883598 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* * * *
2883616 GTATACATAAATAGTGCT
1 GTATACGTGAATAGTACC
2883634 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
2883652 GTA
1 GTA
2883655 AACGGTCGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:2883614 original size:36 final size:36
Alignment explanation
Indices: 2883562--2883654 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
2883552 CCCAACTATT
* ** *
2883562 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATAAATAGTGCC
* *
2883598 GTATACGTGAATAGTACTGTATACATAAATAGTGCT
1 GTATACGTGAATAGTACCGTATACATAAATAGTGCC
2883634 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
2883655 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATAAATAGTGCC
Found at i:2886880 original size:114 final size:114
Alignment explanation
Indices: 2886748--2886976 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
2886738 GCTGAGCTCA
2886748 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
1 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
2886813 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
66 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
2886862 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
1 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
2886927 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
66 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
2886976 C
1 C
2886977 TCACACCTTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (114 bp):
CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
Found at i:2887983 original size:114 final size:114
Alignment explanation
Indices: 2887851--2888079 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
2887841 GCTGAGCTCA
2887851 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
1 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
2887916 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
66 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
*
2887965 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGTTCGCACTT
1 CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
2888030 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
66 TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
2888079 C
1 C
2888080 TCACACCTTT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (114 bp):
CACCTTTGACAGACTCACATCTTTGCATATTGTCTTCAACAGGTGTCTTCATCAGGCTCGCACTT
TGCTAAGCTTGCAGCTTTGACATCTTGCTAAGCTTGCACATTTGGAAAG
Found at i:2891843 original size:25 final size:26
Alignment explanation
Indices: 2891798--2891855 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
2891788 TATTTAAGTT
*
2891798 TATATATTGCAATAAAAAT-AATT-A
1 TATATATTGAAATAAAAATAAATTGA
2891822 TATATATTGAATATAAAAATAAATTGA
1 TATATATTGAA-ATAAAAATAAATTGA
2891849 TATATAT
1 TATATAT
2891856 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 4 0.13
27 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (26 bp):
TATATATTGAAATAAAAATAAATTGA
Found at i:2899720 original size:61 final size:63
Alignment explanation
Indices: 2899620--2899749 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 63
2899610 CTAAATATAA
* * * * *
2899620 AAAAATAATTCAACAAATTTAACCCTCAATGTTTACAAAATCCATTATTTTAATTCTAATTCT
1 AAAAATAATTCAACAAATTTAACCCTCAATATTTACAAAATCCATCAATTTAATACTAACTCT
* * * * *
2899683 AAAAATAA-T-AATAAATTTCACCCTCAATATTTGCAAAATCTATCAATTTAGTACTAACTCT
1 AAAAATAATTCAACAAATTTAACCCTCAATATTTACAAAATCCATCAATTTAATACTAACTCT
2899744 AAAAAT
1 AAAAAT
2899750 TTTAAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 48 0.84
62 1 0.02
63 8 0.14
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.35
Consensus pattern (63 bp):
AAAAATAATTCAACAAATTTAACCCTCAATATTTACAAAATCCATCAATTTAATACTAACTCT
Done.