Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 213 of 259
Found at i:67500174 original size:25 final size:25
Alignment explanation
Indices: 67500111--67500177 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
67500101 CTTTGTTATT
*
67500111 TTATGTATATAGTTTCTTTTAAATCTA
1 TTATGTATATAG-TT-TATTAAATCTA
*
67500138 -T-T-TATATAGTTTATTAAATTTA
1 TTATGTATATAGTTTATTAAATCTA
67500160 TTATGTATATAGTTTATT
1 TTATGTATATAGTTTATT
67500178 TTTTAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 8 0.23
25 14 0.40
26 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATGTATATAGTTTATTAAATCTA
Found at i:67501858 original size:99 final size:99
Alignment explanation
Indices: 67501687--67501873 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 99
67501677 TAAAAATTTC
* * *
67501687 TCCTTGCATTTTGGATCGAGCCTCCATTGTTGGGAAGTCTCCACCTAATTCTTCACTAAATTTGG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
67501752 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
66 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
* *
67501786 TCCTTGCATTTTGGATTGAGCCTCTATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
*
67501851 TACATTTAAGTCTCTTTTTTTTA
66 TACATTTAAGTCTCCTTTTTTTA
67501874 TATTTTATCT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (99 bp):
TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
Found at i:67502377 original size:30 final size:30
Alignment explanation
Indices: 67502341--67502401 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
67502331 AGGTAATGTG
67502341 TCAGTGATCAACTTGTAACTTTCAAATAGT
1 TCAGTGATCAACTTGTAACTTTCAAATAGT
67502371 TCAGTGATCAACTTGTAACTTTCAAATAGT
1 TCAGTGATCAACTTGTAACTTTCAAATAGT
67502401 T
1 T
67502402 TGGTGACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (30 bp):
TCAGTGATCAACTTGTAACTTTCAAATAGT
Found at i:67504331 original size:16 final size:16
Alignment explanation
Indices: 67504310--67504340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67504300 ACATTAATGA
*
67504310 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
67504326 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
67504341 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:67507165 original size:21 final size:21
Alignment explanation
Indices: 67507139--67507179 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67507129 AGACAAGCGA
* *
67507139 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67507160 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67507180 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67509121 original size:16 final size:16
Alignment explanation
Indices: 67509102--67509132 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67509092 ACATTAATGA
*
67509102 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
67509118 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
67509133 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:67511991 original size:46 final size:46
Alignment explanation
Indices: 67511939--67512203 Score: 352
Period size: 46 Copynumber: 5.7 Consensus size: 46
67511929 AGTGTGCTCT
* *
67511939 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67511985 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
67512031 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67512077 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATTCCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
67512123 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
67512170 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGA
67512204 AACTATGACA
Statistics
Matches: 198, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 157 0.79
47 41 0.21
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:67518325 original size:22 final size:22
Alignment explanation
Indices: 67518270--67518325 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
67518260 ATGACTTAAT
*
67518270 TATGGAAATTATAAATTAAAAA
1 TATGAAAATTATAAATTAAAAA
* *
67518292 T-TGGAGATTTATAAATTAAAAA
1 TAT-GAAAATTATAAATTAAAAA
67518314 TATGAAAATTAT
1 TATGAAAATTAT
67518326 GGTATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
TATGAAAATTATAAATTAAAAA
Found at i:67519027 original size:22 final size:21
Alignment explanation
Indices: 67518956--67519044 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
67518946 TTATTTCATT
* *
67518956 AAAT-AAAAAAATATAAAAAT
1 AAATAAAAAAAATATTAAAAC
*
67518976 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
67519000 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
67519022 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
67519043 AA
1 AA
67519045 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.42
22 14 0.25
23 5 0.09
24 7 0.13
25 5 0.09
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:67519121 original size:15 final size:16
Alignment explanation
Indices: 67519091--67519123 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
67519081 AAATGGTTAT
67519091 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
67519108 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
67519123 A
1 A
67519124 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:67521206 original size:131 final size:132
Alignment explanation
Indices: 67520972--67521222 Score: 468
Period size: 131 Copynumber: 1.9 Consensus size: 132
67520962 ATAATTTCCA
67520972 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
* *
67521037 AGGGGGAGATGATTTTAGGGATGTCTCTCCGCAGGGATTTAAGACCCCCC-CCCCAAAAAAAAAC
66 ACGGGGAAATGATTTTAGGGATGTCTCTCCGCAGGGATTTAAGACCCCCCGCCCCAAAAAAAAAC
67521101 CC
131 CC
67521103 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
*
67521168 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCCGCCCC
66 ACGGGGAAATGATTTTAGGGATGTCTCTCCGCAGGGATTTAAGACCCCCCGCCCC
67521223 CCCCAAACCC
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
131 112 0.97
132 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (132 bp):
AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
ACGGGGAAATGATTTTAGGGATGTCTCTCCGCAGGGATTTAAGACCCCCCGCCCCAAAAAAAAAC
CC
Found at i:67532164 original size:44 final size:44
Alignment explanation
Indices: 67532093--67532243 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 44
67532083 TATGTGTTCT
* *
67532093 CGTGTAAGACCACATCTGGGACGTTGGCATCGATTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
* * *
67532137 CGTGCAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
* * * *
67532179 CGTGTAAGACTC-TGTCTGGGACAGTGGAATCGATATT-T-AGTTA
1 CGTGTAAGAC-CACGTCTGGGACATTGGCATCGAT-TTATGATTTA
*
67532222 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
67532244 GTTAGCATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
42 31 0.34
43 30 0.33
44 29 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
Found at i:67540993 original size:17 final size:17
Alignment explanation
Indices: 67540973--67541028 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
67540963 ATTTGACACA
67540973 AATATATATTCAACATT
1 AATATATATTCAACATT
* *
67540990 AATAAATA-TCAACTTTT
1 AATATATATTCAAC-ATT
* * *
67541007 AATTTATATTCGACATG
1 AATATATATTCAACATT
67541024 AATAT
1 AATAT
67541029 TATAGAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (17 bp):
AATATATATTCAACATT
Found at i:67541405 original size:20 final size:20
Alignment explanation
Indices: 67541382--67541447 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
67541372 AAAAATACAA
67541382 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
67541402 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* * *
67541422 -TAAAATT-GAAATTATTTAT
1 AAAAAATTCAAAATAATTT-T
67541441 AAAAAAT
1 AAAAAAT
67541448 CTAAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.20
19 7 0.17
20 25 0.62
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:67558506 original size:24 final size:25
Alignment explanation
Indices: 67558387--67558516 Score: 140
Period size: 25 Copynumber: 5.2 Consensus size: 25
67558377 CATAGCTCTT
* *
67558387 ATGAGCTTCCCGATAGTT-AGCTCGC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
*
67558412 ATGAGCTTGCCGTTACTT-AGCTCAC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
67558437 ATGAGCTTCCCGTTATTCAGCTCAC
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
67558462 ATGAGTTTTCCGTTATTCAGCTCAG
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
67558487 AGGAGCTTCCCGTT-TACAGCTCAT
1 ATGAGCTTCCCGTTATTCAGCTCAC
67558511 ATGAGC
1 ATGAGC
67558517 ATATATGAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.17
25 75 0.83
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCAC
Found at i:67559465 original size:12 final size:12
Alignment explanation
Indices: 67559448--67559474 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67559438 AAAATAATAG
67559448 TATATGTATATA
1 TATATGTATATA
67559460 TATATGTATATA
1 TATATGTATATA
67559472 TAT
1 TAT
67559475 TTATCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATGTATATA
Found at i:67562493 original size:20 final size:17
Alignment explanation
Indices: 67562468--67562520 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
67562458 TTCTTTATTA
67562468 AATATTGTTATTATTATTC
1 AATATT-TTATTATTA-TC
*
67562487 TAATATTATTAATATTATC
1 -AATATT-TTATTATTATC
67562506 AATATATTTATTATT
1 AATAT-TTTATTATT
67562521 TTTAGTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 12 0.41
19 3 0.10
20 14 0.48
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (17 bp):
AATATTTTATTATTATC
Found at i:67563049 original size:15 final size:15
Alignment explanation
Indices: 67563029--67563058 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
67563019 TTATGTTATG
67563029 TTTTTAATACCATAT
1 TTTTTAATACCATAT
67563044 TTTTTAATACCATAT
1 TTTTTAATACCATAT
67563059 ATATTGTGTT
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:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTTAATACCATAT
Found at i:67563413 original size:23 final size:22
Alignment explanation
Indices: 67563387--67563438 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
67563377 TATATACATT
* *
67563387 TTTTAATATTATATATGTGTATA
1 TTTT-ATAATATATATGCGTATA
67563410 TTTT-TAATATATATGCGTATA
1 TTTTATAATATATATGCGTATA
67563431 TATTTATA
1 T-TTTATA
67563439 TAGTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (22 bp):
TTTTATAATATATATGCGTATA
Found at i:67563420 original size:21 final size:20
Alignment explanation
Indices: 67563396--67563440 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
67563386 TTTTTAATAT
* *
67563396 TATATATGTGTATATTTTTAA
1 TATATATGCGTATATATTT-A
67563417 TATATATGCGTATATATTTA
1 TATATATGCGTATATATTTA
67563437 TATA
1 TATA
67563441 GTATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
TATATATGCGTATATATTTA
Found at i:67563500 original size:16 final size:15
Alignment explanation
Indices: 67563474--67563512 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
67563464 TTCTAGTATG
*
67563474 TATACATTATGTAAA
1 TATATATTATGTAAA
*
67563489 TATTATATTATGTATA
1 TA-TATATTATGTAAA
67563505 TATATATT
1 TATATATT
67563513 TATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATATTATGTAAA
Found at i:67563515 original size:16 final size:16
Alignment explanation
Indices: 67563479--67563524 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
67563469 GTATGTATAC
*
67563479 ATTATGTAAATATTAT
1 ATTATGTATATATTAT
67563495 ATTATGTATATA-TAT
1 ATTATGTATATATTAT
*
67563510 ATT-TATATATATTAT
1 ATTATGTATATATTAT
67563525 GTACATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 7 0.26
15 9 0.33
16 11 0.41
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
ATTATGTATATATTAT
Found at i:67563659 original size:18 final size:18
Alignment explanation
Indices: 67563638--67563672 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
67563628 AACACCGCTG
67563638 TTATTTTTATATATATAA
1 TTATTTTTATATATATAA
67563656 TTATTTTTATATATATA
1 TTATTTTTATATATATA
67563673 CGTACTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTTTTATATATATAA
Found at i:67563744 original size:9 final size:9
Alignment explanation
Indices: 67563730--67563760 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
67563720 CTAATATAGG
67563730 TATATATTA
1 TATATATTA
67563739 TATATATTA
1 TATATATTA
67563748 TATATA-TA
1 TATATATTA
67563756 TATAT
1 TATAT
67563761 TATGTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATATATTA
Found at i:67563751 original size:11 final size:11
Alignment explanation
Indices: 67563730--67563763 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
67563720 CTAATATAGG
67563730 TATATATTATA
1 TATATATTATA
67563741 TATATTATATATA
1 TATA-TAT-TATA
67563754 TATATATTAT
1 TATATATTAT
67563764 GTACTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATTATA
Found at i:67565454 original size:3 final size:3
Alignment explanation
Indices: 67565448--67565541 Score: 79
Period size: 3 Copynumber: 32.0 Consensus size: 3
67565438 AAAAGAAAGA
* * *
67565448 AAT AAT AAT AGT AA- AA- AAT AAT AGT AAT AAT AAT AAT AAT AGAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
67565492 AAT AAT AAT AAT AA- AAT AAGG AAT AAT AAT AA- AAA AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
67565536 AGT AAT
1 AAT AAT
67565542 TGTAACGACC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
2 8 0.11
3 62 0.84
4 4 0.05
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:67565463 original size:25 final size:25
Alignment explanation
Indices: 67565433--67565482 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
67565423 AATTTTAAAA
*
67565433 TAAAAAAAAGAAAGAAATAATAATAG
1 TAAAAAATA-AAAGAAATAATAATAG
* *
67565459 TAAAAAATAATAGTAATAATAATA
1 TAAAAAATAAAAGAAATAATAATA
67565483 ATAATAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (25 bp):
TAAAAAATAAAAGAAATAATAATAG
Found at i:67565480 original size:28 final size:28
Alignment explanation
Indices: 67565448--67565510 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
67565438 AAAAGAAAGA
* *
67565448 AATAATAATAGTAAAAAATAATAGTAAT
1 AATAATAATAATAAAAAATAATAATAAT
*
67565476 AATAATAATAATAGAAAATAATAATAAT
1 AATAATAATAATAAAAAATAATAATAAT
67565504 AA-AATAA
1 AATAATAA
67565511 GGAATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
AATAATAATAATAAAAAATAATAATAAT
Found at i:67565483 original size:31 final size:30
Alignment explanation
Indices: 67565448--67565536 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
67565438 AAAAGAAAGA
*
67565448 AATAATAATAGTAAAAAATAATAGTAATAAT
1 AATAATAATAGTAAAAAATAATAATAA-AAT
67565479 AATAATAATAG-AAAATAATAATAATAAAAT
1 AATAATAATAGTAAAA-AATAATAATAAAAT
* * *
67565509 AAGGAATAATAATAAAAAAACAATAATA
1 AA-TAATAATAGT-AAAAAATAATAATA
67565537 GTAATTGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
30 9 0.18
31 28 0.56
32 9 0.18
33 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.25
Consensus pattern (30 bp):
AATAATAATAGTAAAAAATAATAATAAAAT
Found at i:67565871 original size:5 final size:5
Alignment explanation
Indices: 67565844--67565902 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
67565834 TGTTAAAATA
* *
67565844 TATAT ATATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT
1 TATAT -TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT
67565893 TATAT TATAT
1 TATAT TATAT
67565903 AAATAAGTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 31 0.67
6 11 0.24
7 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:67565881 original size:10 final size:9
Alignment explanation
Indices: 67565841--67565903 Score: 64
Period size: 8 Copynumber: 7.3 Consensus size: 9
67565831 ATGTGTTAAA
67565841 ATATA-TAT
1 ATATATTAT
*
67565849 ATATATTAA
1 ATATATTAT
67565858 AT-TATTAT
1 ATATATTAT
67565866 -TATATTAT
1 ATATATTAT
67565874 AGTATATTAT
1 A-TATATTAT
67565884 AT-TA-TAT
1 ATATATTAT
67565891 ATTATATTAT
1 A-TATATTAT
67565901 ATA
1 ATA
67565904 AATAAGTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
7 5 0.11
8 19 0.41
9 9 0.20
10 13 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATTAT
Found at i:67567239 original size:18 final size:19
Alignment explanation
Indices: 67567216--67567254 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
67567206 ATATATAGAT
67567216 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
67567234 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
67567253 AT
1 AT
67567255 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:67567604 original size:39 final size:39
Alignment explanation
Indices: 67567494--67567628 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
67567484 GACCTCGAGT
* * * *
67567494 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** * ** * *
67567535 CGATGAGGTATTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
67567573 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
67567612 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
67567629 CCATATTGGT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:67567772 original size:18 final size:19
Alignment explanation
Indices: 67567751--67567791 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
67567741 AATGAAATGA
67567751 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
67567769 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
67567788 GAAA
1 GAAA
67567792 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:67568520 original size:12 final size:12
Alignment explanation
Indices: 67568501--67568596 Score: 111
Period size: 12 Copynumber: 7.9 Consensus size: 12
67568491 GGGGCGTTAC
67568501 AGTAATAATAAT
1 AGTAATAATAAT
* *
67568513 AATAATAATGAT
1 AGTAATAATAAT
67568525 AGTAATAATAAT
1 AGTAATAATAAT
*
67568537 AGTAATAATAGAA
1 AGTAATAATA-AT
* *
67568550 AATAATAGTAAT
1 AGTAATAATAAT
* *
67568562 AGTAATAGTAAA
1 AGTAATAATAAT
*
67568574 AATAATAATAAT
1 AGTAATAATAAT
67568586 AGTAATAATAA
1 AGTAATAATAA
67568597 ATAAATAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
12 60 0.87
13 9 0.13
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (12 bp):
AGTAATAATAAT
Found at i:67568617 original size:49 final size:48
Alignment explanation
Indices: 67568527--67568623 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 48
67568517 ATAATGATAG
* *
67568527 TAATAATAATAGTAATAATAGAAAATAATAGTAATAGTAATAGTAAAAA
1 TAATAATAATAGTAATAATAAAAAATAATAG-AATAGTAATAATAAAAA
**
67568576 TAATAATAATAGTAATAATAAATAAATAAATA-AATTTTAATAATAAAA
1 TAATAATAATAGTAATAATAAA-AAAT-AATAGAATAGTAATAATAAAA
67568624 TAGAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 34 0.81
50 4 0.10
51 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (48 bp):
TAATAATAATAGTAATAATAAAAAATAATAGAATAGTAATAATAAAAA
Found at i:67568621 original size:3 final size:3
Alignment explanation
Indices: 67568503--67568596 Score: 98
Period size: 3 Copynumber: 31.0 Consensus size: 3
67568493 GGCGTTACAG
* * *
67568503 TAA TAA TAA TAA TAA TAA TGA TAG TAA TAA TAA TAG TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * *
67568549 AAA TAA TAG TAA TAG TAA TAG TAA AAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
67568597 ATAAATAAAT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
3 70 0.97
4 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:67568639 original size:25 final size:25
Alignment explanation
Indices: 67568588--67568640 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
67568578 ATAATAATAG
*
67568588 TAATAATAAATAAATAAATAAATTT
1 TAATAATAAATAAATAAATAAACTT
67568613 TAATAATAAAATAGAA-AAAT-AACTT
1 TAATAAT-AAATA-AATAAATAAACTT
67568638 TAA
1 TAA
67568641 AAAAAGGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 14 0.56
26 9 0.36
27 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
TAATAATAAATAAATAAATAAACTT
Found at i:67569316 original size:12 final size:12
Alignment explanation
Indices: 67569299--67569333 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
67569289 ATTTAGTCCA
67569299 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
67569311 TTTTCTATTTTC
1 TTTTCTTTTTTC
67569323 -TTTCTTTTTTC
1 TTTTCTTTTTTC
67569334 CTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:67569337 original size:12 final size:12
Alignment explanation
Indices: 67569300--67569337 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
67569290 TTTAGTCCAT
*
67569300 TTTCTTTTTTCT
1 TTTCTTTTTTCC
*
67569312 TTTCTATTTT-C
1 TTTCTTTTTTCC
67569323 TTTCTTTTTTCC
1 TTTCTTTTTTCC
67569335 TTT
1 TTT
67569338 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTCC
Found at i:67571440 original size:13 final size:13
Alignment explanation
Indices: 67571419--67571450 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
67571409 TACACTCAAC
*
67571419 TATATTATATATA
1 TATACTATATATA
67571432 TATACTATATATA
1 TATACTATATATA
67571445 TATACT
1 TATACT
67571451 TAAAGGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
TATACTATATATA
Found at i:67580949 original size:5 final size:5
Alignment explanation
Indices: 67580939--67580971 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
67580929 CTGTGTGTTC
67580939 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
67580972 CACAAATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:67586700 original size:5 final size:5
Alignment explanation
Indices: 67586690--67586717 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
67586680 CTGTGTGTTC
67586690 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
67586718 CACAACTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:67588137 original size:21 final size:22
Alignment explanation
Indices: 67588111--67588151 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
67588101 ATGAAAAGAT
*
67588111 GATAATAAAATAAT-AATAATG
1 GATAATAAAAAAATCAATAATG
67588132 GATAATAAAAAAATCAATAA
1 GATAATAAAAAAATCAATAA
67588152 AAAGGAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
GATAATAAAAAAATCAATAATG
Found at i:67593908 original size:17 final size:17
Alignment explanation
Indices: 67593854--67593908 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
67593844 TTAAAAATAA
*
67593854 ATATAATATAATAGTA-
1 ATATAAAATAATAGTAT
67593870 ATATTAAAATAA-AGT-T
1 ATA-TAAAATAATAGTAT
*
67593886 AT-TAAAATAATACTAT
1 ATATAAAATAATAGTAT
67593902 ATATAAA
1 ATATAAA
67593909 TGTACGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 11 0.34
17 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (17 bp):
ATATAAAATAATAGTAT
Found at i:67593929 original size:8 final size:7
Alignment explanation
Indices: 67593915--67593970 Score: 50
Period size: 6 Copynumber: 8.4 Consensus size: 7
67593905 TAAATGTACG
67593915 AATATAT
1 AATATAT
67593922 ACATATAT
1 A-ATATAT
67593930 AATATA-
1 AATATAT
*
67593936 CATATATT
1 AATATA-T
67593944 AATAT-T
1 AATATAT
67593950 AATAT-T
1 AATATAT
67593956 AATAT-T
1 AATATAT
67593962 AATAT-T
1 AATATAT
67593968 AAT
1 AAT
67593971 TATTGGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
6 27 0.61
7 6 0.14
8 11 0.25
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (7 bp):
AATATAT
Found at i:67593936 original size:13 final size:13
Alignment explanation
Indices: 67593918--67593960 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
67593908 ATGTACGAAT
67593918 ATATACATATATA
1 ATATACATATATA
67593931 ATATACATATATTA
1 ATATACATATA-TA
67593945 ATATTA-ATAT-TA
1 ATA-TACATATATA
67593957 ATAT
1 ATAT
67593961 TAATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 5 0.18
13 11 0.39
14 9 0.32
15 2 0.07
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATACATATATA
Found at i:67593948 original size:6 final size:6
Alignment explanation
Indices: 67593939--67593970 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
67593929 TAATATACAT
67593939 ATATTA ATATTA ATATTA ATATTA ATATTA AT
1 ATATTA ATATTA ATATTA ATATTA ATATTA AT
67593971 TATTGGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:67594040 original size:3 final size:3
Alignment explanation
Indices: 67593997--67594097 Score: 63
Period size: 3 Copynumber: 34.3 Consensus size: 3
67593987 ACTTTTTAAA
* *
67593997 AAT AATT AAT AA- ATT AAT AA- AAT AAC AAT AAT GAA- AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *
67594041 AACT -GT AAT AAT AA- AGAT AAT AAT AGA- AAT AA- AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
67594085 AAT ATT AAT AAT A
1 AAT AAT AAT AAT A
67594098 TGTAAAAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
2 10 0.13
3 58 0.76
4 8 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:67595170 original size:23 final size:24
Alignment explanation
Indices: 67595136--67595190 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 24
67595126 GGCGAACGGC
67595136 GGTGG-CAGAGGCATGGTGGAGCA
1 GGTGGCCAGAGGCATGGTGGAGCA
67595159 GGTGGCCA-AGGCATGGTGGAGCA
1 GGTGGCCAGAGGCATGGTGGAGCA
67595182 GGTGGCCAG
1 GGTGGCCAG
67595191 TGCTGGTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.20, C:0.16, G:0.51, T:0.13
Consensus pattern (24 bp):
GGTGGCCAGAGGCATGGTGGAGCA
Found at i:67595901 original size:17 final size:17
Alignment explanation
Indices: 67595881--67595924 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
67595871 AATAATATTT
67595881 TAATAAAAATAAATAAA
1 TAATAAAAATAAATAAA
*
67595898 TAATAAAAA-AATTAAA
1 TAATAAAAATAAATAAA
67595914 -AATTAAAAATA
1 TAA-TAAAAATA
67595925 TTATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 12 0.50
17 10 0.42
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAATAAAAATAAATAAA
Found at i:67595949 original size:23 final size:22
Alignment explanation
Indices: 67595923--67595965 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
67595913 AAATTAAAAA
*
67595923 TATTATTATTTTTTAATTTTACT
1 TATTATT-TTATTTAATTTTACT
*
67595946 TATTATTTTATTTATTTTTA
1 TATTATTTTATTTAATTTTA
67595966 AAATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTATTTTATTTAATTTTACT
Found at i:67595972 original size:23 final size:23
Alignment explanation
Indices: 67595919--67595977 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
67595909 TTAAAAATTA
*
67595919 AAAATATTATTATTTTTTAATTTT
1 AAAATATTATT-TTATTTAATTTT
** *
67595943 -ACTTATTATTTTATTTATTTTT
1 AAAATATTATTTTATTTAATTTT
*
67595965 AAAATATTTTTTT
1 AAAATATTATTTT
67595978 TATAGTTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
AAAATATTATTTTATTTAATTTT
Found at i:67598241 original size:16 final size:15
Alignment explanation
Indices: 67598215--67598249 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
67598205 TGATGTGAAT
67598215 AATATAAAATATTAA
1 AATATAAAATATTAA
*
67598230 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
67598246 AATA
1 AATA
67598250 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:67598435 original size:20 final size:21
Alignment explanation
Indices: 67598393--67598435 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
67598383 CCTTTTTTAG
* *
67598393 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
67598414 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
67598434 AA
1 AA
67598436 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:67598597 original size:23 final size:21
Alignment explanation
Indices: 67598565--67598607 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
67598555 AGTATTTCGG
*
67598565 AGTATGTACATGAGATAATATAA
1 AGTATATACAT-AGA-AATATAA
67598588 AGTATATACATAGAAATATA
1 AGTATATACATAGAAATATA
67598608 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (21 bp):
AGTATATACATAGAAATATAA
Found at i:67598618 original size:23 final size:23
Alignment explanation
Indices: 67598571--67598620 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
67598561 TCGGAGTATG
*
67598571 TACATGAGATAATATAAAGTATA
1 TACATGAGATAATATAAAGAATA
67598594 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGATAATATA-AAGAA-TA
67598617 TACA
1 TACA
67598621 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (23 bp):
TACATGAGATAATATAAAGAATA
Found at i:67599195 original size:13 final size:13
Alignment explanation
Indices: 67599179--67599203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67599169 AAAAAGGAAA
67599179 AAAAATAAAAAAT
1 AAAAATAAAAAAT
67599192 AAAAATAAAAAA
1 AAAAATAAAAAA
67599204 GAGTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:67599226 original size:14 final size:13
Alignment explanation
Indices: 67599180--67599226 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
67599170 AAAAGGAAAA
67599180 AAAATAAAAA-AT
1 AAAATAAAAAGAT
67599192 AAAAATAAAAAAGAGT
1 -AAAAT-AAAAAGA-T
67599208 AAAATAAAGAAGAT
1 AAAATAAA-AAGAT
67599222 AAAAT
1 AAAAT
67599227 CACCTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.17
14 14 0.47
15 10 0.33
16 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAGAT
Found at i:67599486 original size:21 final size:21
Alignment explanation
Indices: 67599440--67599486 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
67599430 TAAAGTTTCT
* **
67599440 GGGTTTTTTTTTTTTGGGGTT
1 GGGTTTTTCTTTTTTGGGGGG
*
67599461 AGGTTTTTCTTTTTTGGGGGG
1 GGGTTTTTCTTTTTTGGGGGG
67599482 GGGTT
1 GGGTT
67599487 AGGTTTTTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.02, G:0.38, T:0.57
Consensus pattern (21 bp):
GGGTTTTTCTTTTTTGGGGGG
Found at i:67599494 original size:27 final size:27
Alignment explanation
Indices: 67599455--67599522 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
67599445 TTTTTTTTTT
67599455 GGGGTTAGG-TTTTTCTTTTTTGGGGG
1 GGGGTTAGGTTTTTTCTTTTTTGGGGG
**
67599481 GGGGTTAGGTTTTTTCTTTTTTTTGGG
1 GGGGTTAGGTTTTTTCTTTTTTGGGGG
67599508 GGGGTTAGGTTTTTT
1 GGGGTTAGGTTTTTT
67599523 TTTGGGAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 9 0.23
27 30 0.77
ACGTcount: A:0.04, C:0.03, G:0.38, T:0.54
Consensus pattern (27 bp):
GGGGTTAGGTTTTTTCTTTTTTGGGGG
Found at i:67601026 original size:364 final size:364
Alignment explanation
Indices: 67600377--67601370 Score: 1820
Period size: 364 Copynumber: 2.7 Consensus size: 364
67600367 CATGTGTGAT
* **
67600377 TTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
*
67600442 TGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
66 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
67600507 ACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
131 ACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
67600572 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAC
196 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAC
67600637 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAGTATGAGTTGA-
261 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAGTATGAGTTGAT
67600701 TTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
326 TTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
67600740 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCA
67600805 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
65 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
67600870 TACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
130 TACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
67600935 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAA
195 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAA
67601000 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAGTATGAGTTGA
260 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAGTATGAGTTGA
67601065 TTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
325 TTTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
*
67601105 TTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
1 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
67601170 CGT-TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAACA-AAATTGAAATT
66 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
* *
67601231 ACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAA
131 ACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAA
** * *
67601296 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTT
194 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTA
67601361 A-AACAGAAAT
259 ACAACAGAAAT
67601371 AAAAACATCA
Statistics
Matches: 616, Mismatches: 11, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
360 59 0.10
361 14 0.02
362 80 0.13
363 68 0.11
364 323 0.52
365 72 0.12
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (364 bp):
TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAG
CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATT
ACCTCAGCGTCTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAGTATGAGTTGAT
TTTTTTGAAAGACAAAAATTAAAAATACCTCAACGTGTC
Found at i:67601359 original size:74 final size:72
Alignment explanation
Indices: 67600382--67601357 Score: 1451
Period size: 72 Copynumber: 13.5 Consensus size: 72
67600372 GTGATTTGAA
*
67600382 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAGTGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67600446 TCCCGAG
66 TCCTGAG
*
67600453 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67600518 TCCCGAG
66 TCCTGAG
*
67600525 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
67600590 TCCTGAG
66 TCCTGAG
** *
67600597 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
67600662 TGTCCTGAG
64 TGTCCTGAG
* * * * * *
67600671 GCTCAACTCACCTTTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTAAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAAATTGAAATTACCTCAGCG
*
67600736 TGTCTTGAG
64 TGTCCTGAG
** *
67600745 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67600810 TCCCGAG
66 TCCTGAG
*
67600817 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67600882 TCCCGAG
66 TCCTGAG
*
67600889 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
67600954 TCCTGAG
66 TCCTGAG
** *
67600961 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
67601026 TGTCCTGAG
64 TGTCCTGAG
* * * * * *
67601035 GCTCAACTCACCTTTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTAAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
*
67601100 GTGTCTTGAG
63 GTGTCCTGAG
** *
67601110 GCTCAACTCATTTCTCACAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAGCGT-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67601173 TCCCGAG
66 TCCTGAG
*
67601180 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAACA-AAATTGAAATTACCTCAGCGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
67601242 TCCCGAG
66 TCCTGAG
*
67601249 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCG
67601314 TGTCCTGAG
64 TGTCCTGAG
*
67601323 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
67601358 TTTAAACAGA
Statistics
Matches: 822, Mismatches: 69, Indels: 27
0.90 0.08 0.03
Matches are distributed among these distances:
68 21 0.03
69 42 0.05
70 37 0.05
71 51 0.06
72 346 0.42
73 25 0.03
74 239 0.29
75 61 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAG
Found at i:67611199 original size:16 final size:15
Alignment explanation
Indices: 67611173--67611207 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
67611163 TGATGTGAAT
67611173 AATATAAAATATTAA
1 AATATAAAATATTAA
*
67611188 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
67611204 AATA
1 AATA
67611208 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:67611392 original size:20 final size:21
Alignment explanation
Indices: 67611350--67611392 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
67611340 CCTTTTTTAG
* *
67611350 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
67611371 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
67611391 AA
1 AA
67611393 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:67611564 original size:21 final size:23
Alignment explanation
Indices: 67611522--67611564 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67611512 AGTATTTCGG
*
67611522 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
67611545 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
67611565 CAAGAAGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:67612154 original size:13 final size:13
Alignment explanation
Indices: 67612136--67612160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67612126 AAAAAGGAAA
67612136 AAAAATAAAAAAT
1 AAAAATAAAAAAT
67612149 AAAAATAAAAAA
1 AAAAATAAAAAA
67612161 GAGTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:67612183 original size:14 final size:13
Alignment explanation
Indices: 67612137--67612183 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
67612127 AAAAGGAAAA
67612137 AAAATAAAAA-AT
1 AAAATAAAAAGAT
67612149 AAAAATAAAAAAGAGT
1 -AAAAT-AAAAAGA-T
67612165 AAAATAAAGAAGAT
1 AAAATAAA-AAGAT
67612179 AAAAT
1 AAAAT
67612184 CACCTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.17
14 14 0.47
15 10 0.33
16 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAGAT
Found at i:67612428 original size:25 final size:24
Alignment explanation
Indices: 67612400--67612477 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 24
67612390 AGTTTTTTGA
*
67612400 TTTTTTTT-GCGGGTTAGGTTTTT
1 TTTTTTTTGGGGGGTTAGGTTTTT
*
67612423 CTTTTTTTGGGGGGTTAGGTTTTT
1 TTTTTTTTGGGGGGTTAGGTTTTT
*
67612447 TCTTTTTTGGGGGGGTTAGGTTTTT
1 T-TTTTTTTGGGGGGTTAGGTTTTT
67612472 TTTTTT
1 TTTTTT
67612478 GGAGGGCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.14
24 19 0.39
25 23 0.47
ACGTcount: A:0.04, C:0.04, G:0.29, T:0.63
Consensus pattern (24 bp):
TTTTTTTTGGGGGGTTAGGTTTTT
Found at i:67614570 original size:45 final size:45
Alignment explanation
Indices: 67614512--67614606 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
67614502 ATAATTTAAT
*
67614512 AAAA-ATTATGATATTTACACATTTAAGAATAATTAGGATGTAAA
1 AAAATATTATGATATTTACACATTTAAGAATAATTAGGAAGTAAA
67614556 AAAATATTATGATATTTACACATTTAAGAATAATTAGGAAGTAAA
1 AAAATATTATGATATTTACACATTTAAGAATAATTAGGAAGTAAA
67614601 AAAATA
1 AAAATA
67614607 GTGCTAATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.08
45 45 0.92
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.33
Consensus pattern (45 bp):
AAAATATTATGATATTTACACATTTAAGAATAATTAGGAAGTAAA
Found at i:67634719 original size:24 final size:23
Alignment explanation
Indices: 67634682--67634732 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
67634672 TACAATTAAG
* *
67634682 TTTTAAATATAATTTTATTTTTAT
1 TTTTAAATAGAA-TTTATTTATAT
*
67634706 TTTTAATTAGAATTTATTTATAT
1 TTTTAAATAGAATTTATTTATAT
67634729 TTTT
1 TTTT
67634733 TAATGATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTAAATAGAATTTATTTATAT
Found at i:67635734 original size:20 final size:21
Alignment explanation
Indices: 67635692--67635748 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
67635682 TTAGAATCTT
67635692 TTTAGAAAA-TTTTAAAACTTTA
1 TTTA-AAAATTTTTAAAAC-TTA
67635714 TTTAAAAATTTTTAAAA-TTA
1 TTTAAAAATTTTTAAAACTTA
*
67635734 -TTAAATATATTTTAA
1 TTTAAAAAT-TTTTAA
67635749 TTTATAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 4 0.12
22 12 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAAATTTTTAAAACTTA
Found at i:67636011 original size:21 final size:22
Alignment explanation
Indices: 67635973--67636014 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
67635963 TTTTATATGT
67635973 TAAATGTAATTTTGATTTTAAA
1 TAAATGTAATTTTGATTTTAAA
* *
67635995 TAAAT-TATTTTTTATTTTAA
1 TAAATGTAATTTTGATTTTAA
67636015 TATTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TAAATGTAATTTTGATTTTAAA
Found at i:67640209 original size:24 final size:24
Alignment explanation
Indices: 67640182--67640227 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
67640172 ACATGCATGT
*
67640182 AAGTGCTAA-TAATCACGAGCACTG
1 AAGTGCTAAGGAA-CACGAGCACTG
67640206 AAGTGCTAAGGAACACGAGCAC
1 AAGTGCTAAGGAACACGAGCAC
67640228 ATAGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (24 bp):
AAGTGCTAAGGAACACGAGCACTG
Found at i:67646896 original size:21 final size:19
Alignment explanation
Indices: 67646870--67646908 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
67646860 AATTAAGTAA
67646870 TTAAAATTATTAAAATTATAT
1 TTAAAATTA--AAAATTATAT
67646891 TTAAAATTAAAAATTATA
1 TTAAAATTAAAAATTATA
67646909 ATATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATTAAAAATTATAT
Found at i:67646898 original size:27 final size:27
Alignment explanation
Indices: 67646868--67646920 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
67646858 TAAATTAAGT
*
67646868 AATT-AAAATTATTAAAATTATATTTAA
1 AATTAAAAATTA-TAAAATTAAATTTAA
*
67646895 AATTAAAAATTATAATATTAAATTTA
1 AATTAAAAATTATAAAATTAAATTTA
67646921 TATATTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTAAAAATTATAAAATTAAATTTAA
Found at i:67646915 original size:21 final size:21
Alignment explanation
Indices: 67646869--67646922 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
67646859 AAATTAAGTA
67646869 ATTAAAATTATTAAAATTATAT
1 ATTAAAATTA-TAAAATTATAT
67646891 -TTAAAATTA-AAAATTATAAT
1 ATTAAAATTATAAAATTAT-AT
*
67646911 ATTAAATTTATA
1 ATTAAAATTATA
67646923 TATTTGTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.29
20 2 0.07
21 17 0.61
22 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATTATAAAATTATAT
Found at i:67650411 original size:12 final size:12
Alignment explanation
Indices: 67650358--67650431 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
67650348 TTATTATTGC
67650358 TATTATTATCAT
1 TATTATTATCAT
* *
67650370 TAGTATTATTAT
1 TATTATTATCAT
*
67650382 TATTATTATTACTGT
1 TATTATTA-T-C-AT
67650397 TATTATTATCAT
1 TATTATTATCAT
*
67650409 TATAGTATCATCAT
1 TAT--TATTATCAT
*
67650423 CATTATTAT
1 TATTATTAT
67650432 TGTCAAAACT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
12 26 0.54
13 2 0.04
14 11 0.23
15 9 0.19
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:67650432 original size:3 final size:3
Alignment explanation
Indices: 67650317--67650411 Score: 84
Period size: 3 Copynumber: 31.7 Consensus size: 3
67650307 TCCTATCAAC
* * * **
67650317 ATT ATT GTT ATT ATT ACT ATT ATG ATT -TCT ATT ATT ATT GCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * *
67650362 ATT ATC ATT AGT ATT ATT ATT ATT ATT ATT ACT GTT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67650410 AT
1 AT
67650412 AGTATCATCA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
2 1 0.01
3 68 0.97
4 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:67651409 original size:26 final size:24
Alignment explanation
Indices: 67651380--67651508 Score: 99
Period size: 24 Copynumber: 5.4 Consensus size: 24
67651370 AAAAAATAAG
*
67651380 TTTAAAATAGATATTATAAAAAGCAA
1 TTTAAAATAGATAATAT-AAAA-CAA
* *
67651406 TTTAAAGT-GAATAGTATAAAACAA
1 TTTAAAATAG-ATAATATAAAACAA
67651430 TTTAAAATA-ATTAATATGTAAAACAA
1 TTTAAAATAGA-TAATA--TAAAACAA
*
67651456 TTTAAAAT--A-AA-ATAAAGCAA
1 TTTAAAATAGATAATATAAAACAA
* * *
67651476 CTTAAAATAAATAATATATAACAA
1 TTTAAAATAGATAATATAAAACAA
67651500 TTTAAAATA
1 TTTAAAATA
67651509 ACATGTTGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
20 14 0.16
22 2 0.02
23 5 0.06
24 29 0.34
25 6 0.07
26 29 0.34
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TTTAAAATAGATAATATAAAACAA
Found at i:67651491 original size:46 final size:46
Alignment explanation
Indices: 67651421--67651559 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 46
67651411 AGTGAATAGT
* * *
67651421 ATAAAACAATTTAAAATAATTAATATGTAAAACAATTTAAAATAAA
1 ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
* *
67651467 ATAAAGCAACTTAAAATAAATAATA--TATAACAATTTAAAATAAC
1 ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
*** * * * *
67651511 ATGTTGAAAGTCTAGAATAAATAATATGTCAAAAGAAATTTAAAATAAA
1 ATAAAGCAACT-TAAAATAAATAATATGT-AAAA-CAATTTAAAATAAA
67651560 TGACATGTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
44 23 0.31
45 13 0.18
46 22 0.30
47 1 0.01
48 3 0.04
49 12 0.16
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (46 bp):
ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
Found at i:67651616 original size:24 final size:23
Alignment explanation
Indices: 67651589--67651633 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
67651579 TATGAAAAGT
*
67651589 TTAATAGAAATAATATATAAAATC
1 TTAAAAGAAATAATA-ATAAAATC
**
67651613 TTAAAATTAATAATAATAAAA
1 TTAAAAGAAATAATAATAAAA
67651634 AGGTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAAGAAATAATAATAAAATC
Found at i:67651940 original size:4 final size:4
Alignment explanation
Indices: 67651931--67651983 Score: 61
Period size: 4 Copynumber: 13.2 Consensus size: 4
67651921 AAATAAAAGC
* * ** *
67651931 ATAA ATAA ATAA ATAA ATAA ATGA ATGA ATGT ATAA ATAA ATGA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
67651979 ATAA A
1 ATAA A
67651984 AGAAAACATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:67653716 original size:23 final size:22
Alignment explanation
Indices: 67653686--67653732 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
67653676 TTCACTAGAA
*
67653686 TTTTCTTTGTTATTTCATTTAT
1 TTTTCTTTATTATTTCATTTAT
*
67653708 TTTTCCTTTATTATTTTATTTAT
1 TTTT-CTTTATTATTTCATTTAT
67653731 TT
1 TT
67653733 ATTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCTTTATTATTTCATTTAT
Found at i:67654123 original size:46 final size:47
Alignment explanation
Indices: 67654058--67654156 Score: 173
Period size: 46 Copynumber: 2.1 Consensus size: 47
67654048 TTTTCAATGC
67654058 ATTAATTTTTAAATATTCTCGAGAATTAA-AAAAAAATCGAAATCTA
1 ATTAATTTTTAAATATTCTCGAGAATTAAGAAAAAAATCGAAATCTA
*
67654104 ATTAATTTTTAAATATTCTCGAGAATTAAGAAAAAAATCGTAATCTA
1 ATTAATTTTTAAATATTCTCGAGAATTAAGAAAAAAATCGAAATCTA
67654151 ACTTAA
1 A-TTAA
67654157 GGAATATGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 29 0.58
47 17 0.34
48 4 0.08
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (47 bp):
ATTAATTTTTAAATATTCTCGAGAATTAAGAAAAAAATCGAAATCTA
Found at i:67655447 original size:38 final size:38
Alignment explanation
Indices: 67655375--67655449 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
67655365 GAGGTCGTTA
**
67655375 ATTTTTTTTATGATTTTTATAAAATGTTACAATTTTTT
1 ATTTTTTTTATGATTTTTATAAAAAATTACAATTTTTT
*
67655413 ATTTTTTTTACT-ATTTTTATAAAAAATTATAATTTTT
1 ATTTTTTTTA-TGATTTTTATAAAAAATTACAATTTTT
67655450 AATAAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (38 bp):
ATTTTTTTTATGATTTTTATAAAAAATTACAATTTTTT
Found at i:67655700 original size:87 final size:83
Alignment explanation
Indices: 67655556--67655799 Score: 229
Period size: 84 Copynumber: 2.8 Consensus size: 83
67655546 ACTTAATTTC
* * ** *
67655556 TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGTATTTTGAAAGTTCAAATACTCAATTGAGCGAA
1 TTTTTTGAAAAAATTTAAGGG-CTTTTT-ATAAATTTTGAAAGTTCAAGTACTCAATTGAG-GAA
*
67655621 AAAAAAGCAGGGGCCTAATTAAT
63 AAAAAA--AGGGACCTAATTAAT
* *
67655644 TTTTTTGAAAAAATTTAAGGGCATTTTTATAAATTTTGAAAGTTTAAGTA-TCCAATTGAGTAAA
1 TTTTTTGAAAAAATTTAAGGGC-TTTTTATAAATTTTGAAAGTTCAAGTACT-CAATTGAGGAAA
*
67655708 AAAAAAGGGACCTAATTACT
64 AAAAAAGGGACCTAATTAAT
* * ** * * * * *
67655728 TTTTTTGAAGAAGTTTAAGAGTTTTTTTATACATTTTAAAAGTTCAAGTGCTTAATTAAGTAGAA
1 TTTTTTGAAAAAATTTAAG-GGCTTTTTATAAATTTTGAAAGTTCAAGTACTCAATTGAG--GAA
67655793 AAAAAAA
63 AAAAAAA
67655800 AGCTTAATTT
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
84 59 0.45
85 2 0.02
86 18 0.14
87 27 0.21
88 24 0.18
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (83 bp):
TTTTTTGAAAAAATTTAAGGGCTTTTTATAAATTTTGAAAGTTCAAGTACTCAATTGAGGAAAAA
AAAAGGGACCTAATTAAT
Found at i:67659707 original size:20 final size:20
Alignment explanation
Indices: 67659678--67659741 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
67659668 TTAATACTTG
* *
67659678 AAAGGCTACTTCAAATATTA
1 AAAGGTTACTTAAAATATTA
* * *
67659698 AAAGGTTACTTGTAAATAATG
1 AAAGGTTACTT-AAAATATTA
*
67659719 AAAGGTTACTTAAAACATTA
1 AAAGGTTACTTAAAATATTA
67659739 AAA
1 AAA
67659742 TAGTTTTTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAGGTTACTTAAAATATTA
Found at i:67659714 original size:21 final size:21
Alignment explanation
Indices: 67659690--67659729 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67659680 AGGCTACTTC
*
67659690 AAATATTAAAAGGTTACTTGT
1 AAATAATAAAAGGTTACTTGT
*
67659711 AAATAATGAAAGGTTACTT
1 AAATAATAAAAGGTTACTT
67659730 AAAACATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (21 bp):
AAATAATAAAAGGTTACTTGT
Found at i:67661049 original size:20 final size:21
Alignment explanation
Indices: 67661007--67661049 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
67660997 CAAATTATAA
*
67661007 AATTTTATTTAAAAATCATTT
1 AATTTTATTTAAAAATCAGTT
67661028 AATTTT-TTTAATAAAT-AGTT
1 AATTTTATTTAA-AAATCAGTT
67661048 AA
1 AA
67661050 CTCGAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTATTTAAAAATCAGTT
Found at i:67673290 original size:21 final size:19
Alignment explanation
Indices: 67673261--67673302 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
67673251 AAATGGATTG
67673261 AGTAGTTTTTTTTTAGCAAAA
1 AGTAGTTTTTTTTT--CAAAA
*
67673282 AGTATTTTTTTTTTCAAAA
1 AGTAGTTTTTTTTTCAAAA
67673301 AG
1 AG
67673303 AAAAGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (19 bp):
AGTAGTTTTTTTTTCAAAA
Found at i:67673299 original size:19 final size:21
Alignment explanation
Indices: 67673261--67673302 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
67673251 AAATGGATTG
67673261 AGTAGTTTTTTTTTAGCAAAA
1 AGTAGTTTTTTTTTAGCAAAA
*
67673282 AGTA-TTTTTTTTT-TCAAAA
1 AGTAGTTTTTTTTTAGCAAAA
67673301 AG
1 AG
67673303 AAAAGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
AGTAGTTTTTTTTTAGCAAAA
Found at i:67683182 original size:22 final size:22
Alignment explanation
Indices: 67683157--67683199 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
67683147 GGTCTTAAGA
67683157 ATTTAACTTCTGTTTTCTTTTC
1 ATTTAACTTCTGTTTTCTTTTC
* * *
67683179 ATTTCATTTCTGTTTTTTTTT
1 ATTTAACTTCTGTTTTCTTTT
67683200 TAAATTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (22 bp):
ATTTAACTTCTGTTTTCTTTTC
Found at i:67684499 original size:30 final size:30
Alignment explanation
Indices: 67684465--67684526 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
67684455 TATTTTATTA
*
67684465 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTAATTTAAAGACATTTG
*
67684495 TTAATTTTGTTATTAATTTAGAGACATTTG
1 TTAATTTTGTTATTAATTTAAAGACATTTG
67684525 TT
1 TT
67684527 TATTAAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTATTAATTTAAAGACATTTG
Found at i:67684915 original size:29 final size:30
Alignment explanation
Indices: 67684864--67684924 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
67684854 ACTTATTTTC
67684864 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
67684894 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
67684923 TT
1 TT
67684925 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:67685043 original size:18 final size:18
Alignment explanation
Indices: 67685008--67685047 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
67684998 GAAATATTTA
*
67685008 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
67685026 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
67685046 TT
1 TT
67685048 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:67690870 original size:24 final size:24
Alignment explanation
Indices: 67690842--67690890 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
67690832 ATAGTAAGAG
67690842 TATTTTTCTCAAATAAATTATATT
1 TATTTTTCTCAAATAAATTATATT
67690866 TATTTTTCTCAAATAAATTATATT
1 TATTTTTCTCAAATAAATTATATT
67690890 T
1 T
67690891 TTGTGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTTTCTCAAATAAATTATATT
Found at i:67693529 original size:36 final size:36
Alignment explanation
Indices: 67693489--67693561 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
67693479 CATACTTCAA
67693489 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
1 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
67693525 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
1 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
67693561 G
1 G
67693562 CCATCCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (36 bp):
GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
Found at i:67697646 original size:21 final size:21
Alignment explanation
Indices: 67697620--67697660 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67697610 AGACGAGCAA
* *
67697620 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67697641 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67697661 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67707690 original size:12 final size:12
Alignment explanation
Indices: 67707673--67707697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67707663 ATCTATTTCT
67707673 TAAATATATATA
1 TAAATATATATA
67707685 TAAATATATATA
1 TAAATATATATA
67707697 T
1 T
67707698 TATCTCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATATATATA
Found at i:67709148 original size:54 final size:54
Alignment explanation
Indices: 67709089--67709211 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
67709079 CGAAGCTGGG
* * *
67709089 ACACACGGCCGTGTCCCAGCCCATGCCTTTACCCGTGTAAC-TCACTGACTTGAA
1 ACACACGGCCGTGTCCCAACCCATACCTCTACCCGTGTAACAT-ACTGACTTGAA
* * * *
67709143 ACACACGGCCGTATCCCAACCCGTACCTCTGCCCGTGTAACATACTGACTTGGA
1 ACACACGGCCGTGTCCCAACCCATACCTCTACCCGTGTAACATACTGACTTGAA
* *
67709197 TCACACGGCCATGTC
1 ACACACGGCCGTGTC
67709212 GCAGGCCCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (54 bp):
ACACACGGCCGTGTCCCAACCCATACCTCTACCCGTGTAACATACTGACTTGAA
Found at i:67710186 original size:16 final size:17
Alignment explanation
Indices: 67710167--67710200 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
67710157 AATGTCTATA
67710167 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
67710183 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
67710201 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:67713544 original size:17 final size:18
Alignment explanation
Indices: 67713524--67713561 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
67713514 TTAGTTAACT
*
67713524 TATAAATATA-ACATGTA
1 TATAAATATACACATGCA
67713541 TAT-AATATACACATGCA
1 TATAAATATACACATGCA
67713558 TATA
1 TATA
67713562 TCATTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
TATAAATATACACATGCA
Found at i:67714456 original size:22 final size:22
Alignment explanation
Indices: 67714431--67714473 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
67714421 GAGTTATACA
67714431 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
67714453 ATAATAGTAAAATTGTAGCAA
1 ATAATAACAAAATAGTAGCAA
67714474 AATGGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:67715177 original size:26 final size:26
Alignment explanation
Indices: 67715120--67715179 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
67715110 GAAATTTTAG
*
67715120 AATATTATTTTATTTTACTTTCAGAA
1 AATATTATTTTATTTTACTTTAAGAA
*
67715146 AATATTATTTTATTTTTA-TTTAATAA
1 AATATTATTTTA-TTTTACTTTAAGAA
*
67715172 ATTATTAT
1 AATATTAT
67715180 AGTCAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
AATATTATTTTATTTTACTTTAAGAA
Found at i:67715709 original size:22 final size:22
Alignment explanation
Indices: 67715681--67715723 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
67715671 ATTTAATTTT
67715681 TTAAAATTA-AAAATATAAATTA
1 TTAAAATTATAAAAT-TAAATTA
67715703 TTAAAATTATAAAATTAAATT
1 TTAAAATTATAAAATTAAATT
67715724 TTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATTATAAAATTAAATTA
Found at i:67717317 original size:22 final size:20
Alignment explanation
Indices: 67717291--67717339 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
67717281 AATATTACAT
*
67717291 ATATATTAATTTTGAAAATATA
1 ATATATT-ATTTTAAAAAT-TA
* *
67717313 ATATAATCTTTTAAAAATTA
1 ATATATTATTTTAAAAATTA
67717333 ATATATT
1 ATATATT
67717340 GTAGGGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATTATTTTAAAAATTA
Found at i:67724513 original size:16 final size:16
Alignment explanation
Indices: 67724492--67724559 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
67724482 TTTGGTTCGC
67724492 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
67724508 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
67724524 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
67724540 TGTAATGGAATAAAGG
1 TGTATTGGATTAGAGG
67724556 TGTA
1 TGTA
67724560 ATAACAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:67724812 original size:16 final size:16
Alignment explanation
Indices: 67724775--67724816 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
67724765 TTAATCATAT
*
67724775 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
67724791 TT-AAATATATTATAA
1 TTAAAATATATTATAA
67724806 TTAAAATATAT
1 TTAAAATATAT
67724817 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:67724823 original size:14 final size:15
Alignment explanation
Indices: 67724784--67724932 Score: 55
Period size: 15 Copynumber: 9.9 Consensus size: 15
67724774 TTTAAACATA
*
67724784 ATTATTATTAAATAT
1 ATTATAATTAAATAT
67724799 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
67724815 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
67724831 TTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* * *
67724847 CTTAT-A-TGAATTT
1 ATTATAATTAAATAT
*
67724860 ACTCA-AATTATAATAT
1 A-TTATAATTA-AATAT
*
67724876 A-GATAATTTAACATA-
1 ATTATAA-TTAA-ATAT
*
67724891 ATTATTATTAAATAT
1 ATTATAATTAAATAT
67724906 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
67724920 A-TATAATTTAATA
1 ATTATAATTAAATA
67724933 AAATTCTTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 35
0.66 0.11 0.23
Matches are distributed among these distances:
13 11 0.11
14 19 0.19
15 34 0.34
16 27 0.27
17 4 0.04
18 5 0.05
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:67724889 original size:107 final size:108
Alignment explanation
Indices: 67724773--67724983 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
67724763 ATTTAATCAT
*
67724773 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
67724838 ATTAATATTCTTATATGAATTTACTCAAATTATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
67724881 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
67724945 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
67724984 TAATACTATA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 95 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:67724921 original size:16 final size:16
Alignment explanation
Indices: 67724865--67724923 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
67724855 AATTTACTCA
* *
67724865 AATTATAATATA-GAT
1 AATTAAAATATATTAT
*
67724880 AATTTAACATA-ATTAT
1 AA-TTAAAATATATTAT
*
67724896 TATT-AAATATATTAT
1 AATTAAAATATATTAT
67724911 AATTAAAATATAT
1 AATTAAAATATAT
67724924 AATTTAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.12
15 13 0.38
16 17 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:67725034 original size:107 final size:107
Alignment explanation
Indices: 67724776--67725039 Score: 335
Period size: 107 Copynumber: 2.5 Consensus size: 107
67724766 TAATCATATT
* * * *
67724776 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * * *
67724841 AATATTCTTATATGAATTTACTCAAATTATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
67724884 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
67724949 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
67724992 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
67725040 ATATGATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
102 5 0.04
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 97 0.68
108 12 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:67730319 original size:21 final size:23
Alignment explanation
Indices: 67730279--67730321 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
67730269 CAGTCCACGT
*
67730279 ATATTTTATACAAATTAATAAAA
1 ATATTTTATACAAATAAATAAAA
67730302 ATATTTTA-A-AAATAAATAAA
1 ATATTTTATACAAATAAATAAA
67730322 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATTTTATACAAATAAATAAAA
Found at i:67734292 original size:29 final size:29
Alignment explanation
Indices: 67734250--67734309 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
67734240 GTTATAACCA
* * *
67734250 AACCTTTATATGCCATTGTTGACCA-AATT
1 AACCTATACATGCCATT-TTAACCATAATT
67734279 AACCTATACATGCCATTTTAACCATAATT
1 AACCTATACATGCCATTTTAACCATAATT
67734308 AA
1 AA
67734310 TTTACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (29 bp):
AACCTATACATGCCATTTTAACCATAATT
Found at i:67738034 original size:20 final size:20
Alignment explanation
Indices: 67738011--67738049 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67738001 TCTAAAAATC
* *
67738011 TAAGGATTTATCAATATTTT
1 TAAGAATTTATCAAAATTTT
*
67738031 TAAGAATTTCTCAAAATTT
1 TAAGAATTTATCAAAATTT
67738050 ATCTTTTACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TAAGAATTTATCAAAATTTT
Found at i:67752792 original size:21 final size:22
Alignment explanation
Indices: 67752746--67752793 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
67752736 ATGATCTTTA
67752746 TTGACACATTGAACCAAATAAG
1 TTGACACATTGAACCAAATAAG
* * *
67752768 -TGACACCTTGAA-CTAATTAG
1 TTGACACATTGAACCAAATAAG
67752788 TTGACA
1 TTGACA
67752794 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (22 bp):
TTGACACATTGAACCAAATAAG
Found at i:67766104 original size:8 final size:8
Alignment explanation
Indices: 67766091--67766119 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
67766081 TTATGTTTAG
67766091 TATATTAT
1 TATATTAT
67766099 TATATTAT
1 TATATTAT
67766107 TATATTAT
1 TATATTAT
67766115 TATAT
1 TATAT
67766120 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:67766152 original size:5 final size:5
Alignment explanation
Indices: 67766142--67766192 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
67766132 TTATGTTTTA
67766142 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
67766191 AT
1 AT
67766193 AAACTAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 41 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:67767476 original size:15 final size:15
Alignment explanation
Indices: 67767456--67767512 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
67767446 CGATGAATTT
67767456 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
67767471 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
67767486 ATTGAATTTATATTG
1 ATTGAATTTATATTG
67767501 ATTGAA-TTATAT
1 ATTGAATTTATAT
67767513 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Done.