Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold262
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: 1141274
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 8
Found at i:650101 original size:7 final size:6
Alignment explanation
Indices: 650088--650155 Score: 68
Period size: 6 Copynumber: 11.0 Consensus size: 6
650078 GTTTATTTAA
*
650088 AAATTT ATAATTT AAAATTT -AATTT AAATTT -AATTAA AAATTT AAGATTT
1 AAATTT A-AATTT -AAATTT AAATTT AAATTT AAATT-T AAATTT AA-ATTT
*
650138 AAATTT TAATTT AAATTT
1 AAATTT AAATTT AAATTT
650156 GATCAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 9 0.17
6 22 0.42
7 20 0.38
8 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:650114 original size:37 final size:36
Alignment explanation
Indices: 650062--650191 Score: 131
Period size: 37 Copynumber: 3.5 Consensus size: 36
650052 TCTGGTTATA
*
650062 AAAAGTTTAAGTTTAAGTTTATTTAAAAATTTATAATTT
1 AAAA-TTTAA-TTTAAATTTA-TTAAAAATTTATAATTT
650101 AAAATTTAATTTAAATTTAATTAAAAATTTA-AGATTT
1 AAAATTTAATTTAAATTT-ATTAAAAATTTATA-ATTT
* * * *
650138 AAATTTTAATTTAAATTTGA-TCAAATTTTAT-TTTT
1 AAAATTTAATTTAAATTT-ATTAAAAATTTATAATTT
*
650173 AAAATTTAATTTTAATTTA
1 AAAATTTAATTTAAATTTA
650192 AAATAAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
34 1 0.01
35 19 0.24
36 9 0.11
37 41 0.51
38 6 0.08
39 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
AAAATTTAATTTAAATTTATTAAAAATTTATAATTT
Found at i:650132 original size:12 final size:12
Alignment explanation
Indices: 650079--650132 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
650069 TAAGTTTAAG
*
650079 TTTATTTAAAAA
1 TTTAATTAAAAA
*
650091 TTTATAATTTAAAA
1 -TT-TAATTAAAAA
*
650105 TTTAATT-TAAA
1 TTTAATTAAAAA
650116 TTTAATTAAAAA
1 TTTAATTAAAAA
650128 TTTAA
1 TTTAA
650133 GATTTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.29
12 13 0.37
13 4 0.11
14 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAATTAAAAA
Found at i:650227 original size:14 final size:14
Alignment explanation
Indices: 650210--650236 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
650200 ATTAAATTAT
650210 TTAAATTTATTTAA
1 TTAAATTTATTTAA
650224 TTAAATTTATTTA
1 TTAAATTTATTTA
650237 CTTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAATTTATTTAA
Found at i:657089 original size:58 final size:58
Alignment explanation
Indices: 656989--657246 Score: 311
Period size: 58 Copynumber: 4.4 Consensus size: 58
656979 ATCACACTGC
* * * *
656989 AAACTTGGATCGCCACCAGGGCGACCAAATTCACACATTAAGTGATGACAAGTCACCT
1 AAACTTGGATCGCCACCAAGGCGACCAAATTCGCACACTAAGTGACGACAAGTCACCT
* * * * *
657047 AAACTTGGATCACCACTAAGGCAACCAAATTCGCACACTAAGTGACGCCAAGTCACCC
1 AAACTTGGATCGCCACCAAGGCGACCAAATTCGCACACTAAGTGACGACAAGTCACCT
* * * *
657105 AAACTTGGATCGCCACGAAGACGACCAAATTCGCACACTAAGTAACGCCAAGTCACCT
1 AAACTTGGATCGCCACCAAGGCGACCAAATTCGCACACTAAGTGACGACAAGTCACCT
* * * * * *
657163 AAATTTAGATCGCCGCCAAGGCTACCAAATTCGCACATTAAGTGAC-ACCAAGTCACCG
1 AAACTTGGATCGCCACCAAGGCGACCAAATTCGCACACTAAGTGACGA-CAAGTCACCT
* *
657221 AAACTTAGATCGCCACCAAGGTGACC
1 AAACTTGGATCGCCACCAAGGCGACC
657247 CAGATTTACA
Statistics
Matches: 170, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
58 170 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (58 bp):
AAACTTGGATCGCCACCAAGGCGACCAAATTCGCACACTAAGTGACGACAAGTCACCT
Found at i:657192 original size:116 final size:116
Alignment explanation
Indices: 656988--657240 Score: 344
Period size: 116 Copynumber: 2.2 Consensus size: 116
656978 TATCACACTG
* * * * *
656988 CAAACTTGGATCGCCACCAGGGCGACCAAATTCACACATTAAGTGATGACAAGTCACCTAAACTT
1 CAAACTTGGATCGCCACCAAGACGACCAAATTCACACACTAAGTAACGACAAGTCACCTAAACTT
* * *
657053 GGATCACCACTAAGGCAACCAAATTCGCACACTAAGTGACGCCAAGTCACC
66 AGATCACCACCAAGGCAACCAAATTCGCACACTAAGTGACACCAAGTCACC
* * * *
657104 CAAACTTGGATCGCCACGAAGACGACCAAATTCGCACACTAAGTAACGCCAAGTCACCTAAATTT
1 CAAACTTGGATCGCCACCAAGACGACCAAATTCACACACTAAGTAACGACAAGTCACCTAAACTT
* * * *
657169 AGATCGCCGCCAAGGCTACCAAATTCGCACATTAAGTGACACCAAGTCACC
66 AGATCACCACCAAGGCAACCAAATTCGCACACTAAGTGACACCAAGTCACC
* *
657220 GAAACTTAGATCGCCACCAAG
1 CAAACTTGGATCGCCACCAAG
657241 GTGACCCAGA
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (116 bp):
CAAACTTGGATCGCCACCAAGACGACCAAATTCACACACTAAGTAACGACAAGTCACCTAAACTT
AGATCACCACCAAGGCAACCAAATTCGCACACTAAGTGACACCAAGTCACC
Found at i:657273 original size:58 final size:58
Alignment explanation
Indices: 656989--657276 Score: 251
Period size: 58 Copynumber: 5.0 Consensus size: 58
656979 ATCACACTGC
* * * ** *
656989 AAACTTGGATCGCCACCAGGGCGACCAAATTCACACATTAAGTGATGA-CAAGTCACCT
1 AAACTTAGATCGCCACCAAGGCTACCAAATTCACACATTAAGT-AACACCAAGTCACCG
* * * * * * * * *
657047 AAACTTGGATCACCACTAAGGCAACCAAATTCGCACACTAAGTGACGCCAAGTCACCC
1 AAACTTAGATCGCCACCAAGGCTACCAAATTCACACATTAAGTAACACCAAGTCACCG
* * * * * * * *
657105 AAACTTGGATCGCCACGAAGACGACCAAATTCGCACACTAAGTAACGCCAAGTCACCT
1 AAACTTAGATCGCCACCAAGGCTACCAAATTCACACATTAAGTAACACCAAGTCACCG
* * * *
657163 AAATTTAGATCGCCGCCAAGGCTACCAAATTCGCACATTAAGTGACACCAAGTCACCG
1 AAACTTAGATCGCCACCAAGGCTACCAAATTCACACATTAAGTAACACCAAGTCACCG
* *
657221 AAACTTAGATCGCCACCAAGG-TGACCCAGATTTACACATTACA-TAACA-CAAGTCAC
1 AAACTTAGATCGCCACCAAGGCT-A-CCAAATTCACACATTA-AGTAACACCAAGTCAC
657277 TCAGACTCGG
Statistics
Matches: 193, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
57 1 0.01
58 174 0.90
59 17 0.09
60 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (58 bp):
AAACTTAGATCGCCACCAAGGCTACCAAATTCACACATTAAGTAACACCAAGTCACCG
Found at i:664487 original size:5 final size:5
Alignment explanation
Indices: 664467--664517 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
664457 TGAGGTTATA
*
664467 TTAAT TTGATAT TTAAT TTAAT TT-AT TTAAT TTAAT TT-TT TTAAT ATTAAT
1 TTAAT TT-A-AT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT -TTAAT
664518 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 7 0.18
5 21 0.54
6 7 0.18
7 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:664495 original size:14 final size:14
Alignment explanation
Indices: 664476--664517 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
664466 ATTAATTTGA
664476 TATTTAATTTAATT
1 TATTTAATTTAATT
664490 TATTTAATTTAATT
1 TATTTAATTTAATT
*
664504 TTTTTAATATTAAT
1 TATTTAAT-TTAAT
664518 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTAATTTAATT
Found at i:664535 original size:7 final size:8
Alignment explanation
Indices: 664518--664542 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
664508 TAATATTAAT
664518 AAAAATAA
1 AAAAATAA
664526 AAAAATAA
1 AAAAATAA
664534 AAAAATAA
1 AAAAATAA
664542 A
1 A
664543 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:664967 original size:16 final size:15
Alignment explanation
Indices: 664946--664987 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
664936 ATATATATTA
*
664946 AAAATAATTATCAAAT
1 AAAATAATTA-AAAAT
664962 AAAAT-ATTAAAAAT
1 AAAATAATTAAAAAT
664976 AAAA-AATTAAAA
1 AAAATAATTAAAA
664988 TAATACAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 15 0.62
15 4 0.17
16 5 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAATTAAAAAT
Found at i:665778 original size:14 final size:14
Alignment explanation
Indices: 665759--665789 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
665749 CTCAAGCTTT
*
665759 AATACAAATAATTA
1 AATACAAAAAATTA
665773 AATACAAAAAATTA
1 AATACAAAAAATTA
665787 AAT
1 AAT
665790 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
AATACAAAAAATTA
Found at i:667207 original size:27 final size:27
Alignment explanation
Indices: 667168--667221 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
667158 ATTCAAAGAA
* *
667168 CAAGACTGTATTTTTTTTTTTTGGTTT
1 CAAGACTGTATTTTTCTTTTTGGGTTT
667195 CAAGTACTG-ATTTTTCTTTTTGGGTTT
1 CAAG-ACTGTATTTTTCTTTTTGGGTTT
667222 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.59
Consensus pattern (27 bp):
CAAGACTGTATTTTTCTTTTTGGGTTT
Found at i:675269 original size:3 final size:3
Alignment explanation
Indices: 675261--675299 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
675251 ATCGAAAGTA
675261 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
675300 TTAAAGATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:675679 original size:17 final size:17
Alignment explanation
Indices: 675654--675693 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
675644 TAAAAAAATC
* *
675654 AAATCTACTTGTATTAG
1 AAATATACTTATATTAG
675671 AAATATACTTATATTAG
1 AAATATACTTATATTAG
675688 ACAATA
1 A-AATA
675694 ACATCTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (17 bp):
AAATATACTTATATTAG
Found at i:678408 original size:22 final size:23
Alignment explanation
Indices: 678366--678410 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
678356 ATAAATTTTA
*
678366 ATATGTTAATAATTTTTATATAT
1 ATATGTTAATAATATTTATATAT
*
678389 ATATTTTAA-AATATTTATATAT
1 ATATGTTAATAATATTTATATAT
678411 TAATGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATGTTAATAATATTTATATAT
Found at i:680131 original size:20 final size:20
Alignment explanation
Indices: 680108--680155 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
680098 CCTAATCAAT
* *
680108 AATAATTTATTTTATTTTTA
1 AATAATTTATTTGATGTTTA
*
680128 AATATTTTTATTTGATGTTTA
1 AATA-ATTTATTTGATGTTTA
680149 AA-AATTT
1 AATAATTT
680156 TAAAATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 5 0.22
21 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
AATAATTTATTTGATGTTTA
Found at i:680139 original size:21 final size:21
Alignment explanation
Indices: 680113--680156 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
680103 TCAATAATAA
* * *
680113 TTTATTTTATTTTTAAATATT
1 TTTATTTGATGTTTAAAAATT
680134 TTTATTTGATGTTTAAAAATT
1 TTTATTTGATGTTTAAAAATT
680155 TT
1 TT
680157 AAAATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTATTTGATGTTTAAAAATT
Found at i:680594 original size:15 final size:16
Alignment explanation
Indices: 680576--680609 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
680566 TAAAGGGCTA
680576 ATTCAAAA-TAAAATT
1 ATTCAAAAGTAAAATT
*
680591 ATTCAAAAGTTAAATT
1 ATTCAAAAGTAAAATT
680607 ATT
1 ATT
680610 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTCAAAAGTAAAATT
Found at i:684389 original size:20 final size:20
Alignment explanation
Indices: 684364--684404 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
684354 ATCCATATCC
684364 ACCACTCGCATTCAAGTCCA
1 ACCACTCGCATTCAAGTCCA
684384 ACCACTCGCATTCAAGTCCA
1 ACCACTCGCATTCAAGTCCA
684404 A
1 A
684405 GTAACATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.39, G:0.10, T:0.20
Consensus pattern (20 bp):
ACCACTCGCATTCAAGTCCA
Found at i:685549 original size:18 final size:18
Alignment explanation
Indices: 685528--685571 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
685518 AAAAAATTAT
685528 AAAAAATTTAAATA-TAAA
1 AAAAAATTTAAA-AGTAAA
685546 AAAAAATTTAAAAGTAAA
1 AAAAAATTTAAAAGTAAA
*
685564 AATAAATT
1 AAAAAATT
685572 ATTCTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAAATTTAAAAGTAAA
Found at i:690514 original size:21 final size:20
Alignment explanation
Indices: 690482--690524 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 20
690472 TAATAATAAA
690482 TTTAATTATAAAATATATATTT
1 TTTAA-TATAAAATA-ATATTT
690504 TTTAATATAAAATAATATTT
1 TTTAATATAAAATAATATTT
690524 T
1 T
690525 AATAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATATAAAATAATATTT
Found at i:690530 original size:21 final size:21
Alignment explanation
Indices: 690488--690533 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
690478 TAAATTTAAT
*
690488 TATAAAATATATATTTTTTAA
1 TATAAAATATATATTTTATAA
690509 TATAAAATA-ATATTTTAATAA
1 TATAAAATATATATTTT-ATAA
690530 TATA
1 TATA
690534 TTGAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAAATATATATTTTATAA
Found at i:692731 original size:24 final size:24
Alignment explanation
Indices: 692704--692751 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
692694 GTAATCCAAA
692704 TGAAAAATATAGATTGATGGCTGC
1 TGAAAAATATAGATTGATGGCTGC
*
692728 TGAAAAGTATAGATTGATGGCTGC
1 TGAAAAATATAGATTGATGGCTGC
692752 GAAGCATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (24 bp):
TGAAAAATATAGATTGATGGCTGC
Found at i:692760 original size:21 final size:23
Alignment explanation
Indices: 692712--692761 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
692702 AATGAAAAAT
*
692712 ATAGATTGATGGCTGCTGAAAAGT
1 ATAGATTGATGGCTGCTG-AAAGC
692736 ATAGATTGATGGCTGC-G-AAGC
1 ATAGATTGATGGCTGCTGAAAGC
692757 ATAGA
1 ATAGA
692762 ACTCACCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
23 1 0.04
24 16 0.64
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (23 bp):
ATAGATTGATGGCTGCTGAAAGC
Found at i:694161 original size:179 final size:170
Alignment explanation
Indices: 693854--694265 Score: 428
Period size: 179 Copynumber: 2.4 Consensus size: 170
693844 CCTCCATTAC
* * * * * * * * * *
693854 CCAAATGAATCTTCTAATTTACTGTTTTAGCATCAAGACTAAGTGAAACTAAACATCATTACCTA
1 CCAAAGGAATCTTATAATTCAATGTTTTACCATAAAAAATAAGTGAAACTAAACACCATTACCAA
** * * * * * * * * *
693919 TGCTGTATTGCTTTCTACTGTTGCCAAAGAAAATAACTTTCATGTATCTGAATTCCGGCTAATGC
66 TGCTACACTGCTTTCTAATATTGACAAAGAAAACAACTTTCATGCATCCGAACTCCAGCTAATGC
* *
693984 CCAAGTTTTGAGTTCTCCCTCCATCCCAGGCCTTCCTCACACTAATGTA
131 CCAAGTTTCGAGTTCTCCCTCCA-CCCAGGAC-T--T---A--AATGTA
* * *
694033 TCAAAGGAATCTTATAATTCGATGTTTTACCATAAAAAATAAGTGAACCTAAACACCATTACCAA
1 CCAAAGGAATCTTATAATTCAATGTTTTACCATAAAAAATAAGTGAAACTAAACACCATTACCAA
* * *
694098 TGGTACACTGCTTTCTAATATTTACAAAGAAAACAACTTTTATGCATCCGAACTCCAGCTAATGC
66 TGCTACACTGCTTTCTAATATTGACAAAGAAAACAACTTTCATGCATCCGAACTCCAGCTAATGC
**
694163 CCAAGTTTCGAGTTCTCCCTCCACGTAGGACTTAAATGTA
131 CCAAGTTTCGAGTTCTCCCTCCACCCAGGACTTAAATGTA
* * * *
694203 CCAAATGAATCTTATAATTCAATGTTTTAGCATCAAAATTAAGTGAAACTAAACACCATTACC
1 CCAAAGGAATCTTATAATTCAATGTTTTACCATAAAAAATAAGTGAAACTAAACACCATTACC
694266 TGTACTATAT
Statistics
Matches: 195, Mismatches: 38, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
170 62 0.32
172 1 0.01
175 1 0.01
177 1 0.01
178 5 0.03
179 125 0.64
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (170 bp):
CCAAAGGAATCTTATAATTCAATGTTTTACCATAAAAAATAAGTGAAACTAAACACCATTACCAA
TGCTACACTGCTTTCTAATATTGACAAAGAAAACAACTTTCATGCATCCGAACTCCAGCTAATGC
CCAAGTTTCGAGTTCTCCCTCCACCCAGGACTTAAATGTA
Found at i:696224 original size:18 final size:18
Alignment explanation
Indices: 696203--696237 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
696193 TAATTTATTC
696203 ATATAATTATTTT-TAAAA
1 ATATAATT-TTTTATAAAA
696221 ATATAATTTTTTATAAA
1 ATATAATTTTTTATAAA
696238 TTTCAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTTTTTATAAAA
Found at i:699242 original size:11 final size:11
Alignment explanation
Indices: 699226--699255 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
699216 AAACCATGTG
699226 AAAGAAAAAAA
1 AAAGAAAAAAA
699237 AAAGAAAAAAA
1 AAAGAAAAAAA
699248 AAA-AAAAA
1 AAAGAAAAA
699256 GAAAGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:699529 original size:29 final size:29
Alignment explanation
Indices: 699497--699594 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 29
699487 TTAATATTTT
*
699497 TTTAATATTTA-ATTATCATATTAATTATA
1 TTTAATATTTATATTAT-ATATTAAATATA
699526 TTTAAATATATTATATTATATTTATTAAATATA
1 TTT-AATAT-TTATATTATA--TATTAAATATA
*
699559 -TT-ATATTTATATTATATATAAAAT-TA
1 TTTAATATTTATATTATATATTAAATATA
*
699585 -TTAAAATTTA
1 TTTAATATTTA
699595 AGTTTAAACC
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
26 4 0.07
27 13 0.22
29 13 0.22
30 9 0.15
31 4 0.07
32 7 0.12
33 10 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTAATATTTATATTATATATTAAATATA
Found at i:699575 original size:18 final size:19
Alignment explanation
Indices: 699520--699577 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
699510 TATCATATTA
*
699520 ATTATATTTAAATATATTAT
1 ATTATATTTATATATA-TAT
*
699540 ATTATATTTAT-TAAATAT
1 ATTATATTTATATATATAT
699558 ATTATATTTATAT-TATAT
1 ATTATATTTATATATATAT
699576 AT
1 AT
699578 AAAATTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 20 0.59
19 4 0.12
20 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATATTTATATATATAT
Found at i:699577 original size:20 final size:19
Alignment explanation
Indices: 699501--699578 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 19
699491 TATTTTTTTA
699501 ATATTTAATTATCATATTAATT
1 ATATTTAATTAT-ATA-T-ATT
*
699523 ATATTTAAATATATTATATT
1 ATATTTAATTATA-TATATT
*
699543 ATATTT-ATTAAATATATT
1 ATATTTAATTATATATATT
699561 ATATTTATATTATATATA
1 ATATTTA-ATTATATATA
699579 AAATTATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 12 0.24
19 4 0.08
20 18 0.37
21 2 0.04
22 13 0.27
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTAATTATATATATT
Found at i:699997 original size:14 final size:14
Alignment explanation
Indices: 699951--700002 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
699941 TAATTAAAAA
699951 ATATTTTAAT-TTAT
1 ATATTTTAATATT-T
*
699965 ATATAATTAA-ATTT
1 ATAT-TTTAATATTT
699979 AATATTTTAATATTT
1 -ATATTTTAATATTT
699994 ATATTTTAA
1 ATATTTTAA
700003 AATTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTAATATTT
Found at i:700005 original size:29 final size:30
Alignment explanation
Indices: 699939--700012 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
699929 AATTCCGTAT
699939 TATAATTAAA--A-AATATTTTAATTTATA
1 TATAATTAAATTATAATATTTTAATTTATA
699966 TATAATTAAATT-TAATATTTTAATATT-TA
1 TATAATTAAATTATAATATTTTAAT-TTATA
*
699995 TAT-TTTAAAATTATAATA
1 TATAATT-AAATTATAATA
700013 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
27 10 0.25
28 2 0.05
29 21 0.52
30 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATAATTAAATTATAATATTTTAATTTATA
Found at i:700222 original size:17 final size:18
Alignment explanation
Indices: 700187--700224 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
700177 TTTACATAAA
*
700187 TTTTTAATTATTTATTAT
1 TTTTTAATTATTTAATAT
*
700205 TTTTTATTTA-TTAATAT
1 TTTTTAATTATTTAATAT
700222 TTT
1 TTT
700225 AAAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTATTTAATAT
Found at i:700374 original size:2 final size:2
Alignment explanation
Indices: 700361--700395 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
700351 TTTACCAATG
*
700361 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
700396 ATTCTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:700731 original size:20 final size:20
Alignment explanation
Indices: 700694--700731 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
700684 TATTTTTATG
*
700694 ATTATAATTGTATTTAAAAT
1 ATTATAATTGTATATAAAAT
700714 ATTATATATT-TATATAAA
1 ATTATA-ATTGTATATAAA
700732 TTTTAATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTATAATTGTATATAAAAT
Found at i:700843 original size:33 final size:36
Alignment explanation
Indices: 700782--700848 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 36
700772 TATTTTTCTA
*
700782 TTTATATTATGTTCGTATAATTTTTTTATTTTATTT
1 TTTATATTATGTTCGTATAATTTATTTATTTTATTT
*
700818 TTTATATTATG-TC-T-TTATTTATTTATTTTAT
1 TTTATATTATGTTCGTATAATTTATTTATTTTAT
700849 ATTCATATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.52
34 1 0.03
35 2 0.07
36 11 0.38
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.70
Consensus pattern (36 bp):
TTTATATTATGTTCGTATAATTTATTTATTTTATTT
Found at i:701129 original size:14 final size:14
Alignment explanation
Indices: 701115--701152 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
701105 AGACTTAAAT
701115 TTAT-TAAATATAA
1 TTATATAAATATAA
*
701128 TTATATAAAAATAA
1 TTATATAAATATAA
701142 TTATATAAATA
1 TTATATAAATA
701153 ATTAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTATATAAATATAA
Found at i:701352 original size:2 final size:2
Alignment explanation
Indices: 701345--701373 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
701335 AAATTTTGAG
701345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
701374 GTATGAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:703727 original size:20 final size:18
Alignment explanation
Indices: 703691--703732 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
703681 ATATAAAAAT
*
703691 ATAAATATAATATATTTA
1 ATAAATATAAAATATTTA
703709 ATAAATATTAAAATAATTTA
1 ATAAATA-TAAAAT-ATTTA
703729 ATAA
1 ATAA
703733 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATATAAAATATTTA
Found at i:704053 original size:24 final size:23
Alignment explanation
Indices: 703993--704063 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 23
703983 TAATATTATG
703993 TTAATT-TTAATATAATATAATTAAA
1 TTAATTATTAA-A-AAT-TAATTAAA
*
704018 TTATTTATTTAAAAATTAATTAAA
1 TTAATTA-TTAAAAATTAATTAAA
**
704042 TTTAATTATTAAATTTTAATTA
1 -TTAATTATTAAAAATTAATTA
704064 TATGTTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 20 0.51
25 14 0.36
26 1 0.03
27 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATTATTAAAAATTAATTAAA
Found at i:704054 original size:13 final size:14
Alignment explanation
Indices: 704031--704064 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
704021 TTTATTTAAA
704031 AATTAATTAAA-TTT
1 AATT-ATTAAATTTT
704045 AATTATTAAATTTT
1 AATTATTAAATTTT
704059 AATTAT
1 AATTAT
704065 ATGTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTATTAAATTTT
Found at i:705575 original size:15 final size:15
Alignment explanation
Indices: 705555--705584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
705545 CACTAATATT
*
705555 CACATCTGATGTTTA
1 CACATCTAATGTTTA
705570 CACATCTAATGTTTA
1 CACATCTAATGTTTA
705585 TTGCACTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
CACATCTAATGTTTA
Found at i:707162 original size:2 final size:2
Alignment explanation
Indices: 707155--707192 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
707145 GAAGGCAGGA
707155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707193 CGGTAACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:707575 original size:22 final size:22
Alignment explanation
Indices: 707550--707615 Score: 132
Period size: 22 Copynumber: 3.0 Consensus size: 22
707540 TTTTAATAAT
707550 TCGTTTTATATAGATTTAGCAC
1 TCGTTTTATATAGATTTAGCAC
707572 TCGTTTTATATAGATTTAGCAC
1 TCGTTTTATATAGATTTAGCAC
707594 TCGTTTTATATAGATTTAGCAC
1 TCGTTTTATATAGATTTAGCAC
707616 GTTTGTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
TCGTTTTATATAGATTTAGCAC
Found at i:707634 original size:22 final size:21
Alignment explanation
Indices: 707551--707626 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 21
707541 TTTAATAATT
707551 CGTTTTATATAGATTTAGCAC
1 CGTTTTATATAGATTTAGCAC
707572 TCGTTTTATATAGATTTAGCAC
1 -CGTTTTATATAGATTTAGCAC
707594 TCGTTTTATATAGATTTAGCA-
1 -CGTTTTATATAGATTTAGCAC
707615 CGTTTGTATATA
1 CGTTT-TATATA
707627 CATGTTAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.09
21 6 0.11
22 42 0.79
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (21 bp):
CGTTTTATATAGATTTAGCAC
Found at i:708842 original size:3 final size:3
Alignment explanation
Indices: 708836--708885 Score: 57
Period size: 3 Copynumber: 15.7 Consensus size: 3
708826 AAAACCTTAT
708836 ATA ATA ATA ATA A-A ATA ATA ATA ATA ATAA ATAA ATAA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A AT-A ATA ATA
708884 AT
1 AT
708886 GATGAAGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 28 0.62
4 15 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:708855 original size:14 final size:14
Alignment explanation
Indices: 708836--708885 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
708826 AAAACCTTAT
708836 ATAATAATAATAAA
1 ATAATAATAATAAA
*
708850 ATAATAATAATAAT
1 ATAATAATAATAAA
708864 A-AATAAATAA-ATAA
1 ATAAT-AATAATA-AA
708878 ATAATAAT
1 ATAATAAT
708886 GATGAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 24 0.77
15 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:708858 original size:17 final size:18
Alignment explanation
Indices: 708836--708884 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
708826 AAAACCTTAT
708836 ATAATAATAATAAAAT-A
1 ATAATAATAATAAAATAA
708853 ATAATAATAAT-AAATAA
1 ATAATAATAATAAAATAA
708870 ATAAATAAATAATAA
1 AT-AAT-AATAATAA
708885 TGATGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 14 0.50
18 3 0.11
19 6 0.21
20 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAATAATAATAAAATAA
Found at i:709671 original size:19 final size:19
Alignment explanation
Indices: 709630--709687 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
709620 TTTTAAATTT
* **
709630 TAAATATAAATACTTAAAA
1 TAAAAATAAATAAATAAAA
*
709649 -AAAATTAAAGT-AATAAAA
1 TAAAAATAAA-TAAATAAAA
709667 TAAAAATAAATAAATAAAA
1 TAAAAATAAATAAATAAAA
709686 TA
1 TA
709688 TCGTAAATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATAAATAAATAAAA
Found at i:710026 original size:6 final size:6
Alignment explanation
Indices: 710015--710039 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
710005 CATTTCAAGT
710015 TTTGCC TTTGCC TTTGCC TTTGCC T
1 TTTGCC TTTGCC TTTGCC TTTGCC T
710040 ACCATAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52
Consensus pattern (6 bp):
TTTGCC
Found at i:711489 original size:12 final size:13
Alignment explanation
Indices: 711472--711517 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
711462 TATAAATGTG
711472 TATATTTAAT-TT
1 TATATTTAATATT
* *
711484 TTTATTTTATATT
1 TATATTTAATATT
711497 TATATTTAA-ATT
1 TATATTTAATATT
*
711509 TATTTTTAA
1 TATATTTAA
711518 ATATAAATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATTTAATATT
Found at i:712143 original size:13 final size:13
Alignment explanation
Indices: 712125--712178 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
712115 TGTTAACGGA
*
712125 ATTTATTTTTAAT
1 ATTTATTTTAAAT
712138 ATTTA-TTTAAAT
1 ATTTATTTTAAAT
*
712150 ATTTATATTAAAT
1 ATTTATTTTAAAT
**
712163 ATAAATATTTAAAT
1 ATTTAT-TTTAAAT
712177 AT
1 AT
712179 ATAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 11 0.32
13 15 0.44
14 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTATTTTAAAT
Found at i:712182 original size:16 final size:16
Alignment explanation
Indices: 712161--712205 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
712151 TTTATATTAA
712161 ATATAAATATTTAAAT
1 ATATAAATATTTAAAT
* * *
712177 ATATAAAAAATAAAAT
1 ATATAAATATTTAAAT
*
712193 ATATATATATTTA
1 ATATAAATATTTA
712206 TGTGATATAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAATATTTAAAT
Found at i:712196 original size:2 final size:2
Alignment explanation
Indices: 712191--712233 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
712181 AAAAAATAAA
* *
712191 AT AT AT AT AT AT TT AT GT GAT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
712234 GCATGATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:712662 original size:13 final size:14
Alignment explanation
Indices: 712634--712677 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
712624 TTTTTTAAAA
712634 AAATTATAAATATT
1 AAATTATAAATATT
*
712648 AAATT-TAAATTTT
1 AAATTATAAATATT
712661 AAAATTATTAAATATT
1 -AAATTA-TAAATATT
712677 A
1 A
712678 TTTTTTAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.28
14 10 0.40
15 1 0.04
16 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATAAATATT
Found at i:715269 original size:2 final size:2
Alignment explanation
Indices: 715262--715297 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
715252 CGAGCATAGC
*
715262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
715298 GTACGCGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:715395 original size:2 final size:2
Alignment explanation
Indices: 715383--715415 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
715373 ACTTTTATCA
715383 AT AT CAT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
715416 AGTATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:715849 original size:13 final size:14
Alignment explanation
Indices: 715820--715852 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
715810 AATTTAATTT
*
715820 TAAATAACTATAAA
1 TAAATAAATATAAA
715834 TAAATAAATA-AAA
1 TAAATAAATATAAA
715847 TAAATA
1 TAAATA
715853 TTTATGAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATAAATATAAA
Found at i:716097 original size:14 final size:14
Alignment explanation
Indices: 716080--716109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
716070 TACTTAATTT
*
716080 TTAAATATATTTTA
1 TTAAATATATATTA
716094 TTAAATATATATTA
1 TTAAATATATATTA
716108 TT
1 TT
716110 TTACGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATATATATTA
Found at i:718472 original size:13 final size:13
Alignment explanation
Indices: 718449--718480 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
718439 CTATATTATT
718449 TAAAT-TTAAATA
1 TAAATATTAAATA
718461 TAAATATTAAATA
1 TAAATATTAAATA
718474 TAAATAT
1 TAAATAT
718481 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:718494 original size:24 final size:23
Alignment explanation
Indices: 718462--718508 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
718452 ATTTAAATAT
* *
718462 AAATATTAAATATAAATATATTTA
1 AAATATTAAAAAAAAAT-TATTTA
*
718486 AAATTTTAAAAAAAAATTATTTA
1 AAATATTAAAAAAAAATTATTTA
718509 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTAAAAAAAAATTATTTA
Found at i:718718 original size:2 final size:2
Alignment explanation
Indices: 718711--718748 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
718701 TGCAGAATAC
718711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
718749 TGGCTCATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:719423 original size:1 final size:1
Alignment explanation
Indices: 719417--719448 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
719407 AGCATGCGAA
*
719417 CCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
719449 TCCACAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:726741 original size:3 final size:3
Alignment explanation
Indices: 726733--726767 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
726723 TTGGATGTTT
726733 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
726768 CATGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:726962 original size:32 final size:32
Alignment explanation
Indices: 726911--726987 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
726901 TTATATTTAA
* * *
726911 AATATTTTATATTTATATAAATTTGAATATATT
1 AATAATTTATA-TTATATAAATTTAAAAATATT
726944 AATAATTTATATTATATAAATTTAAAAATATT
1 AATAATTTATATTATATAAATTTAAAAATATT
*
726976 AAT-ATTTTTATT
1 AATAATTTATATT
726988 TTTATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 8 0.20
32 22 0.55
33 10 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
AATAATTTATATTATATAAATTTAAAAATATT
Found at i:727004 original size:21 final size:21
Alignment explanation
Indices: 726978--727020 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
726968 AAAATATTAA
*
726978 TATTTTTAT-TTTTATTTATAT
1 TATTTTTATATTATA-TTATAT
726999 TATTTTTATATTATATTATAT
1 TATTTTTATATTATATTATAT
727020 T
1 T
727021 TTAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTTTATATTATATTATAT
Found at i:727012 original size:16 final size:16
Alignment explanation
Indices: 726983--727027 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
726973 ATTAATATTT
726983 TTATTTTTAT-TTATA
1 TTATTTTTATATTATA
726998 TTATTTTTATATTATA
1 TTATTTTTATATTATA
727014 TTATATTTTA-ATTA
1 TTAT-TTTTATATTA
727028 ATTTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTTATATTATA
Found at i:727279 original size:3 final size:3
Alignment explanation
Indices: 727271--727309 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
727261 AGATTTGCAC
*
727271 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
727310 CTTATTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:728626 original size:57 final size:55
Alignment explanation
Indices: 728515--728676 Score: 150
Period size: 56 Copynumber: 2.9 Consensus size: 55
728505 GAATTTTAAA
* * *
728515 TTTTATA-TTTAAAAATAAATAA-ATAAAATTTATTTAAGTTTATTTATATTATATTAT
1 TTTTATATTTTAAAAATAAATAATATAAAATTTAATT---TTTAATAATATTATATT-T
*
728572 TTTTATATTTTTAAAAATATATAATATAAAATTTAATTTTTAATAAT-TTAATATTT
1 TTTTATA-TTTTAAAAATAAATAATATAAAATTTAATTTTTAATAATATT-ATATTT
* ** * *
728628 TTATTAAATTTTAAATGTAAATAATATAATATTTAATGTTTACATAATA
1 TT-TTATATTTTAAAAATAAATAATATAAAATTTAATTTTTA-ATAATA
728677 AAATTATGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
56 34 0.39
57 28 0.32
59 14 0.16
60 12 0.14
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (55 bp):
TTTTATATTTTAAAAATAAATAATATAAAATTTAATTTTTAATAATATTATATTT
Found at i:728768 original size:17 final size:19
Alignment explanation
Indices: 728725--728771 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
728715 ATAATTTATA
728725 TAAATATAAAAATAATATTTT
1 TAAAT-TAAAAATAATA-TTT
*
728746 TTAATTAAAAATAA-A-TT
1 TAAATTAAAAATAATATTT
728763 TAAATTAAA
1 TAAATTAAA
728772 TCAAACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
19 1 0.04
20 9 0.38
21 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTAAAAATAATATTT
Found at i:728850 original size:18 final size:19
Alignment explanation
Indices: 728814--728851 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
728804 CTTAACTTAA
*
728814 TTTTTAAATAAATTTAATT
1 TTTTTAAATAAATTAAATT
*
728833 TTTTTAAA-ATATTAAATT
1 TTTTTAAATAAATTAAATT
728851 T
1 T
728852 AAAAAACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAATAAATTAAATT
Found at i:730214 original size:30 final size:30
Alignment explanation
Indices: 730162--730227 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
730152 TATACTTTTA
730162 TTAT-TTTCAAATAAATTTTAAATTTTAAT
1 TTATATTTCAAATAAATTTTAAATTTTAAT
730191 TTATATTT-AAATAAATCTTTAAATTTTAAT
1 TTATATTTCAAATAAAT-TTTAAATTTTAAT
730221 TATATAT
1 T-TATAT
730228 AATTTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 12 0.35
30 17 0.50
31 5 0.15
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
TTATATTTCAAATAAATTTTAAATTTTAAT
Found at i:730489 original size:21 final size:21
Alignment explanation
Indices: 730465--730508 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
730455 ATTTAAAATG
730465 AATAAGAA-ATATTTTTATATT
1 AATAAGAATATATTTTTA-ATT
**
730486 AATATTAATATATTTTTAATT
1 AATAAGAATATATTTTTAATT
730507 AA
1 AA
730509 ATTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATAAGAATATATTTTTAATT
Found at i:730769 original size:7 final size:7
Alignment explanation
Indices: 730759--730813 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
730749 TTTTTAAAAA
730759 TTAATAT
1 TTAATAT
730766 TTAATAAAT
1 TTAAT--AT
730775 TTAATAT
1 TTAATAT
730782 TTAA-ATT
1 TTAATA-T
730789 TTAATAT
1 TTAATAT
730796 TT-ATAAT
1 TTAAT-AT
730803 TTAATTAT
1 TTAA-TAT
730811 TTA
1 TTA
730814 TTATCCAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
6 3 0.07
7 23 0.56
8 7 0.17
9 8 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAATAT
Found at i:730793 original size:14 final size:14
Alignment explanation
Indices: 730759--730814 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
730749 TTTTTAAAAA
730759 TTAATATTTAATAAAT
1 TTAATATTT-AT-AAT
730775 TTAATATTTA-AATT
1 TTAATATTTATAA-T
730789 TTAATATTTATAAT
1 TTAATATTTATAAT
730803 TTAATTATTTAT
1 TTAA-TATTTAT
730815 TATCCAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.05
14 16 0.43
15 10 0.27
16 9 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATATTTATAAT
Found at i:731381 original size:23 final size:21
Alignment explanation
Indices: 731353--731396 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
731343 GTTACATAGT
*
731353 TTATATTAATTTTATATTATATA
1 TTATA-TAATTTT-TATAATATA
731376 TTATATAATTTTTATAATATA
1 TTATATAATTTTTATAATATA
731397 AAAATGTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATATAATTTTTATAATATA
Found at i:731505 original size:23 final size:21
Alignment explanation
Indices: 731454--731507 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
731444 TATTTATATT
*
731454 TTTAAATTTAACCTTAATAAAA
1 TTTAAATTTAA-ATTAATAAAA
**
731476 TAAAAATATTAAATTAATAAAGA
1 TTTAAAT-TTAAATTAATAAA-A
731499 TTTAAATTT
1 TTTAAATTT
731508 TAAAAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTAAATTTAAATTAATAAAA
Found at i:731510 original size:23 final size:22
Alignment explanation
Indices: 731454--731511 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
731444 TATTTATATT
*
731454 TTTAAA-TTTAACCTTAATAAAA
1 TTTAAATTTTAA-ATTAATAAAA
** *
731476 TAAAAATATTAAATTAATAAAGA
1 TTTAAATTTTAAATTAATAAA-A
731499 TTTAAATTTTAAA
1 TTTAAATTTTAAA
731512 AATATATATT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAATTTTAAATTAATAAAA
Found at i:731522 original size:15 final size:15
Alignment explanation
Indices: 731504--731551 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
731494 AAAGATTTAA
731504 ATTTTAAAAATATAT
1 ATTTTAAAAATATAT
*
731519 ATTTTTAAAAAT-TAA
1 A-TTTTAAAAATATAT
*
731534 ATTATAAAAATATAT
1 ATTTTAAAAATATAT
731549 ATT
1 ATT
731552 ATGAATGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.32
15 9 0.32
16 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTAAAAATATAT
Found at i:731552 original size:15 final size:15
Alignment explanation
Indices: 731475--731553 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
731465 CCTTAATAAA
731475 ATAAAAATATTAAATT
1 ATAAAAATA-TAAATT
* *
731491 AATAAAGATTTAAATT
1 -ATAAAAATATAAATT
* *
731507 TTAAAAATATATATTT
1 ATAAAAATATA-AATT
*
731523 TTAAAAAT-TAAATT
1 ATAAAAATATAAATT
*
731537 ATAAAAATATATATT
1 ATAAAAATATAAATT
731552 AT
1 AT
731554 GAATGAGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.20
15 17 0.33
16 17 0.33
17 7 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAAATATAAATT
Found at i:732120 original size:44 final size:45
Alignment explanation
Indices: 732069--732178 Score: 114
Period size: 48 Copynumber: 2.4 Consensus size: 45
732059 CAACGTTAAG
* *
732069 TGATTATTTATTTATTTTAAAATTTTAAATT-AATAAAAATTTAT
1 TGATTATTTATTTATTTTAAAATATTAAATTAAATAAAAATTGAT
* * *
732113 TGATTATTATATTTAAATTTTAATATATTATATTAAATATAAATTGAT
1 TGATTATT-TATTT--ATTTTAAAATATTAAATTAAATAAAAATTGAT
* *
732161 TGAATTATTAATTAATTT
1 TG-ATTATTTATTTATTT
732179 ATACATGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
44 8 0.15
45 5 0.09
46 4 0.07
47 15 0.28
48 16 0.30
49 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (45 bp):
TGATTATTTATTTATTTTAAAATATTAAATTAAATAAAAATTGAT
Found at i:732472 original size:15 final size:14
Alignment explanation
Indices: 732452--732506 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 14
732442 TTTTACTCAA
732452 ATTTAAGTATAAAAT
1 ATTTAA-TATAAAAT
732467 ATTTAATATAAGTAAT
1 ATTTAATATAA--AAT
732483 AAATTTAATATAAATAT
1 --ATTTAATATAAA-AT
732500 ATTTAAT
1 ATTTAAT
732507 TTTTAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 13 0.37
16 4 0.11
17 2 0.06
18 11 0.31
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATTTAATATAAAAT
Found at i:732480 original size:20 final size:19
Alignment explanation
Indices: 732455--732500 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
732445 TACTCAAATT
732455 TAAGTATAAAATATTTAATA
1 TAAGTATAAAA-ATTTAATA
*
732475 TAAGTA-ATAAATTTAATA
1 TAAGTATAAAAATTTAATA
*
732493 TAAATATA
1 TAAGTATA
732501 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.57
19 4 0.17
20 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TAAGTATAAAAATTTAATA
Found at i:739738 original size:2 final size:2
Alignment explanation
Indices: 739731--739757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
739721 TACAACACCA
739731 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
739758 AATTCCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:740700 original size:16 final size:17
Alignment explanation
Indices: 740681--740712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
740671 AAAATTAATC
740681 AAAACAA-AAAAATAAG
1 AAAACAAGAAAAATAAG
740697 AAAACAAGAAAAATAA
1 AAAACAAGAAAAATAA
740713 ATAAAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAACAAGAAAAATAAG
Found at i:740718 original size:18 final size:16
Alignment explanation
Indices: 740669--740718 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
740659 AATTAGAGAT
*
740669 AAAAAATTAATCAAAAC
1 AAAAAAATAAT-AAAAC
*
740686 AAAAAAATAAGAAAAC
1 AAAAAAATAATAAAAC
740702 AAGAAAAATAAATAAAA
1 AA-AAAAAT-AATAAAA
740719 TAGAATATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.25
17 15 0.54
18 6 0.21
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (16 bp):
AAAAAAATAATAAAAC
Found at i:742544 original size:14 final size:15
Alignment explanation
Indices: 742511--742546 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
742501 AAACTTAATA
742511 AAAATATTAAATTACT
1 AAAA-ATTAAATTACT
742527 AAAAATTAAATT-CT
1 AAAAATTAAATTACT
742541 AAAAAT
1 AAAAAT
742547 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTAAATTACT
Found at i:746965 original size:2 final size:2
Alignment explanation
Indices: 746958--746997 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
746948 AATACCATCG
746958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746998 GCTTCAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:750484 original size:25 final size:25
Alignment explanation
Indices: 750438--750485 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
750428 AAAATTTATT
*
750438 TAAATTTAATTATAATTATTAAAAA
1 TAAATTTAAATATAATTATTAAAAA
*
750463 TAAATTTATAATATTATT-TTAAA
1 TAAATTTA-AATATAATTATTAAA
750486 TAATGATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATTTAAATATAATTATTAAAAA
Found at i:752368 original size:16 final size:20
Alignment explanation
Indices: 752323--752367 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
752313 TTACTTAAAT
752323 TTAATTATAAAATAAATAATA
1 TTAA-TATAAAATAAATAATA
752344 TTAATATAAAAT-AAT-ATA
1 TTAATATAAAATAAATAATA
752362 TTAATA
1 TTAATA
752368 ATATTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 8 0.33
21 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATATAAAATAAATAATA
Found at i:752491 original size:23 final size:22
Alignment explanation
Indices: 752465--752512 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
752455 ATAAATCTAA
*
752465 TTATAAATATTAAATTTTATATT
1 TTATAAATATTAAATATTAT-TT
**
752488 TTATATTTATTAAATATTATTT
1 TTATAAATATTAAATATTATTT
752510 TTA
1 TTA
752513 AAGATGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAAATATTAAATATTATTT
Found at i:752621 original size:6 final size:6
Alignment explanation
Indices: 752610--752643 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
752600 TGTTGGAGTA
* *
752610 ATATCT ATATCT ATATCT ATATAT ATATAT ATAT
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
752644 TACAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATCT
Found at i:753158 original size:7 final size:7
Alignment explanation
Indices: 753138--753172 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
753128 ATATTTAAAT
753138 ATATTAA
1 ATATTAA
753145 ATA-TAA
1 ATATTAA
753151 ATATTAA
1 ATATTAA
753158 ATA-TAA
1 ATATTAA
753164 ATATTAA
1 ATATTAA
753171 AT
1 AT
753173 TATAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATTAA
Found at i:753179 original size:13 final size:13
Alignment explanation
Indices: 753138--753177 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
753128 ATATTTAAAT
753138 ATATTAAATATAA
1 ATATTAAATATAA
753151 ATATTAAATATAA
1 ATATTAAATATAA
753164 ATATTAAATTATAA
1 ATATTAAA-TATAA
753178 TAAAATCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:755036 original size:22 final size:21
Alignment explanation
Indices: 755011--755054 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
755001 ATAATTTTTT
755011 ATTTTTAAAATTTTTAAAAATA
1 ATTTTT-AAATTTTTAAAAATA
* *
755033 ATTTTTTATTTTTTAAAAATA
1 ATTTTTAAATTTTTAAAAATA
755054 A
1 A
755055 GTATGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAAATTTTTAAAAATA
Found at i:755916 original size:28 final size:28
Alignment explanation
Indices: 755879--755932 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
755869 TAAAAAATTA
755879 AAAATAATTTAAATTAATTTATGAATAT
1 AAAATAATTTAAATTAATTTATGAATAT
*
755907 AAAATAATTTAAGTTAATTTATGAAT
1 AAAATAATTTAAATTAATTTATGAAT
755933 GCTATGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
AAAATAATTTAAATTAATTTATGAATAT
Found at i:755976 original size:15 final size:17
Alignment explanation
Indices: 755944--755978 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
755934 CTATGTATAT
755944 ATTTATTTTATAATTTA
1 ATTTATTTTATAATTTA
755961 ATTT-TTTTATAA-TTA
1 ATTTATTTTATAATTTA
755976 ATT
1 ATT
755979 ATAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATTTTATAATTTA
Found at i:756522 original size:21 final size:21
Alignment explanation
Indices: 756476--756515 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
756466 TTCACTATTA
*
756476 ATATTGAAAAAAAGAAAATAT
1 ATATTGAAAAAAACAAAATAT
756497 ATATTGAAAAAAACAAAAT
1 ATATTGAAAAAAACAAAAT
756516 GATTATTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (21 bp):
ATATTGAAAAAAACAAAATAT
Found at i:759175 original size:2 final size:2
Alignment explanation
Indices: 759168--759208 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
759158 CCATCATTTC
*
759168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
759209 CAGATTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:759266 original size:2 final size:2
Alignment explanation
Indices: 759259--759286 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
759249 AAACCAAATA
759259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
759287 TAGACCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:760001 original size:2 final size:2
Alignment explanation
Indices: 759996--760028 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
759986 TTCGGATGGA
759996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
760029 ATGCAAGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:760243 original size:3 final size:3
Alignment explanation
Indices: 760235--760280 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
760225 CAAGAAAATG
760235 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
760281 ATTTCTCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:760480 original size:23 final size:21
Alignment explanation
Indices: 760433--760480 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
760423 AACGACGCAT
**
760433 TTTATTATTTTAAAAATGATT
1 TTTATTATTTTAAAAATGAAA
*
760454 TTTATATATTTTAAAAAATTAAA
1 TTTAT-TATTTT-AAAAATGAAA
760477 TTTA
1 TTTA
760481 AATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTATTATTTTAAAAATGAAA
Found at i:760494 original size:16 final size:17
Alignment explanation
Indices: 760467--760499 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
760457 ATATATTTTA
760467 AAAAATTAAATTTAAAT
1 AAAAATTAAATTTAAAT
760484 AAAAATT-AATTTAAAT
1 AAAAATTAAATTTAAAT
760500 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTAAATTTAAAT
Found at i:760500 original size:22 final size:21
Alignment explanation
Indices: 760472--760519 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
760462 TTTTAAAAAA
760472 TTAAATTTAAATAAAAA-TTAAT
1 TTAAATTT--ATAAAAATTTAAT
*
760494 TTAAATTTATAAAAATTTTAT
1 TTAAATTTATAAAAATTTAAT
760515 TTAAA
1 TTAAA
760520 GCTTGACTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATTTATAAAAATTTAAT
Found at i:760776 original size:2 final size:2
Alignment explanation
Indices: 760769--760811 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
760759 ACAATAGTTT
760769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
760811 T
1 T
760812 TACTCATCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:761136 original size:23 final size:22
Alignment explanation
Indices: 761091--761132 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
761081 TATTTTTATT
*
761091 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTACAAAAATATA
761113 TAAATATTAA-TACAAAAATA
1 TAAAT-TTAATTACAAAAATA
761133 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATTTAATTACAAAAATATA
Found at i:768023 original size:38 final size:35
Alignment explanation
Indices: 767981--768060 Score: 83
Period size: 35 Copynumber: 2.2 Consensus size: 35
767971 ATAAATATAA
* *
767981 AATTTTAATTTTAATATTTATAATTT-ATTTTATTAATT
1 AATTTTAA-TTTAA-A-ATATAATTTAATTATATT-ATT
768019 AA-TTTAATTTAAAATATAATTTAATTATATTATT
1 AATTTTAATTTAAAATATAATTTAATTATATTATT
*
768053 ATTTTTAA
1 AATTTTAA
768061 AAAATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 12 0.32
35 13 0.35
36 5 0.14
37 5 0.14
38 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
AATTTTAATTTAAAATATAATTTAATTATATTATT
Found at i:768038 original size:17 final size:18
Alignment explanation
Indices: 767999--768044 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
767989 TTTTAATATT
* *
767999 TATAATTTATTTTATTAA
1 TATAATTTAATTTATAAA
768017 T-TAATTTAATTTA-AAA
1 TATAATTTAATTTATAAA
768033 TATAATTTAATT
1 TATAATTTAATT
768045 ATATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 21 0.84
18 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAATTTAATTTATAAA
Found at i:768947 original size:2 final size:2
Alignment explanation
Indices: 768931--768969 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
768921 TGCTTTGCTT
* *
768931 TA TA CA TA T- TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
768970 GGTACTATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:769589 original size:23 final size:23
Alignment explanation
Indices: 769563--769608 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
769553 TTTTTGGTTA
769563 AAAAAAAGTCATAATT-TTGAGAT
1 AAAAAAA-TCATAATTATTGAGAT
*
769586 AAAAAAATTATAATTATTGAGAT
1 AAAAAAATCATAATTATTGAGAT
769609 TCAAATAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAAAAATCATAATTATTGAGAT
Found at i:769890 original size:30 final size:30
Alignment explanation
Indices: 769856--769917 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
769846 GATATATAAA
769856 AATAT-TAATATAA-AATAATTTTAATTTGTT
1 AATATATAATA-AACAATAATTTTAATTT-TT
**
769886 AATATATCTTAAACAATAATTTTAATTTTT
1 AATATATAATAAACAATAATTTTAATTTTT
769916 AA
1 AA
769918 AATTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATATAATAAACAATAATTTTAATTTTT
Found at i:773463 original size:15 final size:15
Alignment explanation
Indices: 773443--773472 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
773433 TTTGCAAGCT
773443 TGGGTTCCTTTGAAA
1 TGGGTTCCTTTGAAA
773458 TGGGTTCCTTTGAAA
1 TGGGTTCCTTTGAAA
773473 GTGAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
TGGGTTCCTTTGAAA
Found at i:773848 original size:2 final size:2
Alignment explanation
Indices: 773841--773873 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
773831 TTAAACACTT
773841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
773874 GAGAGGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:775290 original size:2 final size:2
Alignment explanation
Indices: 775283--775307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
775273 AATGCTCCAC
775283 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
775308 GTGTGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:775898 original size:12 final size:12
Alignment explanation
Indices: 775879--775932 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
775869 TTAAAAAAAT
*
775879 TATATATTTATA
1 TATATATTTAAA
*
775891 TTTATATTTAAA
1 TATATATTTAAA
775903 TATATATTT-AA
1 TATATATTTAAA
*
775914 TATAAATATTAAA
1 TATATAT-TTAAA
775927 TA-ATAT
1 TATATAT
775933 AAATTTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 8 0.23
12 23 0.66
13 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:775925 original size:24 final size:24
Alignment explanation
Indices: 775879--775933 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
775869 TTAAAAAAAT
**
775879 TATATATTTATATTTATATTTAAA
1 TATATATTTATATAAATATTTAAA
775903 TATATATTTAATATAAATA-TTAAA
1 TATATATTT-ATATAAATATTTAAA
775927 TAATATA
1 T-ATATA
775934 AATTTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATATTTATATAAATATTTAAA
Found at i:776236 original size:13 final size:13
Alignment explanation
Indices: 776229--776256 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
776219 TTTAATTCTG
776229 CAAATTAAGTTTA
1 CAAATTAAGTTTA
776242 CAAATTAAGTTTA
1 CAAATTAAGTTTA
776255 CA
1 CA
776257 TGGAATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (13 bp):
CAAATTAAGTTTA
Found at i:776304 original size:2 final size:2
Alignment explanation
Indices: 776297--776323 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
776287 CTAATTCTCA
776297 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
776324 ATTTGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.