Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold354
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: 1591162
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 188200 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:472399 original size:55 final size:55
Alignment explanation
Indices: 472310--472440 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
472300 CCCATGTGGG
* * * *
472310 TATTCGAAATAAGGTCACACAGTCGTGTCACAGGCCATGTGCCAGA-CTGTGTGTA
1 TATTCGAAATATGGTCACACAGCCATGTCACAGGCCATGCGCCAGATC-GTGTGTA
* *
472365 TATTCGAAATATGGTCACAC-GACCATGTCGCAGGCCATGCGCTAGATCGTGTGTA
1 TATTCGAAATATGGTCACACAG-CCATGTCACAGGCCATGCGCCAGATCGTGTGTA
*
472420 TATTTGAAATATGGTCACACA
1 TATTCGAAATATGGTCACACA
472441 ACCGTGTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.02
55 64 0.97
56 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (55 bp):
TATTCGAAATATGGTCACACAGCCATGTCACAGGCCATGCGCCAGATCGTGTGTA
Found at i:472464 original size:55 final size:55
Alignment explanation
Indices: 472310--472464 Score: 152
Period size: 55 Copynumber: 2.8 Consensus size: 55
472300 CCCATGTGGG
* ** * * *
472310 TATTCGAAATAAGGTCACACAGTCGTGTC-ACAGGCCATGTGCCAGACTGTGTGTA
1 TATTCGAAATATGGTCACACAACCATGTCGA-AGACCATGTGCTAGACTGTGTGTA
* * * *
472365 TATTCGAAATATGGTCACACGACCATGTCGCAGGCCATGCGCTAGA-TCGTGTGTA
1 TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAGACT-GTGTGTA
* * * *
472420 TATTTGAAATATGGTCACACAACCGTGTTGAAGATCATGTGCTAG
1 TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAG
472465 GCCGTGTGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 1 0.01
55 81 0.99
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (55 bp):
TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAGACTGTGTGTA
Found at i:480288 original size:30 final size:30
Alignment explanation
Indices: 480243--480409 Score: 150
Period size: 30 Copynumber: 5.6 Consensus size: 30
480233 TTCAACAGCT
* * *
480243 GAAGCTATCCTTTTTCATAATTTGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
*
480273 GTCA-CCATCCCTTTTCATAA-TTGATAGTC
1 G-AAGCCATCCCTTTTCATAATTTGATAGTC
* * * *
480302 GAAGCTATCCTTTTTCATAGA-TCGATAGCC
1 GAAGCCATCCCTTTTCATA-ATTTGATAGTC
*
480332 GAAGCCATCCCTTTTCATAATTTGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
480362 -ATCA-CCATCCCTTTTCATAATTT-ATA-TCC
1 GA--AGCCATCCCTTTTCATAATTTGATAGT-C
*
480391 GAAGCTATCCCTTTTCATA
1 GAAGCCATCCCTTTTCATA
480410 GATTGATGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.03
29 41 0.37
30 66 0.59
31 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (30 bp):
GAAGCCATCCCTTTTCATAATTTGATAGTC
Found at i:480320 original size:89 final size:89
Alignment explanation
Indices: 480187--480412 Score: 301
Period size: 89 Copynumber: 2.5 Consensus size: 89
480177 AATGGCTGAC
* * * ** * * *
480187 CCATCCTTTTTCGTAATTTGATAACCGAAATTATCCCTTTTCATAGTTCAACAGCTGAAGCTATC
1 CCATCCCTTTTCATAA-TTGATATCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATC
* *
480252 CTTTTTCATAATTTGATGGTCGTCA
65 CCTTTTCATAATTTGATGGTCATCA
* * *
480277 CCATCCCTTTTCATAATTGATAGT-CGAAGCTATCCTTTTTCATAGATCGATAGCCGAAGCCATC
1 CCATCCCTTTTCATAATTGATA-TCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATC
480341 CCTTTTCATAATTTGATGGTCATCA
65 CCTTTTCATAATTTGATGGTCATCA
*
480366 CCATCCCTTTTCATAATTTATATCCGAAGCTATCCCTTTTCATAGAT
1 CCATCCCTTTTCATAATTGATATCCGAAGCTATCCCTTTTCATAGAT
480413 TGATGATCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 104 0.87
90 14 0.12
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (89 bp):
CCATCCCTTTTCATAATTGATATCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATCC
CTTTTCATAATTTGATGGTCATCA
Found at i:480340 original size:59 final size:58
Alignment explanation
Indices: 480189--480416 Score: 176
Period size: 59 Copynumber: 3.8 Consensus size: 58
480179 TGGCTGACCC
* * *** * * *
480189 ATCCTTTTTCGTAATTTGATAACCGAAATTATCCCTTTTCATAGTTCAACAG-CTGAAGCT
1 ATCCTTTTTCATAA-TTGATAGCCGAAGCCATCCCTTTTCATAATT-GATAGTC-GAAGCT
* * *
480249 ATCCTTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAATTGATAGTCGAAGCT
1 ATCCTTTTTCATAA-TTGATAGCCG-AAGCCATCCCTTTTCATAATTGATAGTCGAAGCT
* * *
480308 ATCCTTTTTCATAGATCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTC-ATCA-CC
1 ATCCTTTTTCATA-ATTGATAGCCGAAGCCATCCCTTTTCATAA-TTGATAGTCGA--AGCT
* * * *
480368 ATCCCTTTTCATAATTTATATCCGAAGCTATCCCTTTTCATAGATTGAT
1 ATCCTTTTTCATAATTGATAGCCGAAGCCATCCCTTTTCATA-ATTGAT
480417 GATCATCATT
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
58 1 0.01
59 76 0.55
60 60 0.43
61 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (58 bp):
ATCCTTTTTCATAATTGATAGCCGAAGCCATCCCTTTTCATAATTGATAGTCGAAGCT
Found at i:481424 original size:13 final size:13
Alignment explanation
Indices: 481406--481440 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
481396 ATTGAATTAT
481406 AAAATTTCTTAAC
1 AAAATTTCTTAAC
481419 AAAATTTCTTAAC
1 AAAATTTCTTAAC
481432 AAAATTTCT
1 AAAATTTCT
481441 ATACAGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTCTTAAC
Found at i:482526 original size:20 final size:20
Alignment explanation
Indices: 482503--482540 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
482493 TATTTGAGGA
*
482503 CATTTCATTAGTATTTTGTT
1 CATTTCATTAGGATTTTGTT
482523 CATTTCATTAGGATTTTG
1 CATTTCATTAGGATTTTG
482541 GACTGTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (20 bp):
CATTTCATTAGGATTTTGTT
Found at i:485892 original size:20 final size:20
Alignment explanation
Indices: 485868--485925 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
485858 TAAAAATGCT
485868 AACAGAGGCA-CGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
* *
485887 ATACAGAGGCATCAAAGTGCA
1 A-ACAGAGGCACCGAAGTGCA
*
485908 AATAGAGGCACCGAAGTG
1 AACAGAGGCACCGAAGTG
485926 TAATCTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 23 0.70
21 9 0.27
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:487934 original size:28 final size:28
Alignment explanation
Indices: 487894--488117 Score: 146
Period size: 27 Copynumber: 8.2 Consensus size: 28
487884 GGTCGCCGAG
*
487894 ACCCCCGATTTGCAAAAATTACTAAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
* *
487922 ACCCTCGATTTGCAAAAATTATTGAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
*
487950 ACCCT-TAGTTTGC-AAAATTA-TCAAAAT
1 ACCCTCGA-TTTGCAAAAATTACT-AAAAT
* *
487977 ACCC-CTGATTTG-TAAAATTACCAAAAT
1 ACCCTC-GATTTGCAAAAATTACTAAAAT
* * *
488004 ACCCTCTATATGCAAAAATTA-TCGAAAT
1 ACCCTCGATTTGCAAAAATTACT-AAAAT
** *
488032 ACCCTCGATTTG-TGAAATTA-TCGAAAT
1 ACCCTCGATTTGCAAAAATTACT-AAAAT
* * * *
488059 ACCTTC-AGTTTG-TAGAATTACCAAAAT
1 ACCCTCGA-TTTGCAAAAATTACTAAAAT
* **
488086 ACCATCGATTTGC-AAAATTACCGAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
488113 ACCCT
1 ACCCT
488118 TATAGGGTAA
Statistics
Matches: 158, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.01
27 97 0.61
28 59 0.37
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
ACCCTCGATTTGCAAAAATTACTAAAAT
Found at i:487987 original size:55 final size:55
Alignment explanation
Indices: 487902--488119 Score: 232
Period size: 55 Copynumber: 4.0 Consensus size: 55
487892 AGACCCCCGA
* **
487902 TTTGCAAAAATTA-CTAAAATACCCTCGATTTGCAAAAATTATTGAAATACCCTTAG
1 TTTGCAAAAATTATC-AAAATACCCTCGATTTG-TAAAATTACCGAAATACCCTTAG
*
487958 TTTGC-AAAATTATCAAAATACCC-CTGATTTGTAAAATTACCAAAATACCCTCTA-
1 TTTGCAAAAATTATCAAAATACCCTC-GATTTGTAAAATTACCGAAATACCCT-TAG
* * * *
488012 TATGCAAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGAAATA-CCTTCAG
1 TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTT-AG
* * * * *
488067 TTTG-TAGAATTACCAAAATACCATCGATTTGCAAAATTACCGAAATACCCTTA
1 TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTA
488120 TAGGGTAAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 61 0.45
55 67 0.49
56 7 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (55 bp):
TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAG
Found at i:488032 original size:82 final size:83
Alignment explanation
Indices: 487894--488119 Score: 271
Period size: 82 Copynumber: 2.7 Consensus size: 83
487884 GGTCGCCGAG
* * * *
487894 ACCCCCGATTTGCAAAAATTACTAAAATACCCTCGATTTGCAAAAATTATTGAAATACCCTTAG-
1 ACCCCTGATTTG-TAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGA
487958 TTTGCAAAATTATCAAAAT
65 TTTGCAAAATTATCAAAAT
* * *
487977 ACCCCTGATTTGTAAAATTACCAAAATACCCTCTATATGCAAAAATTATCGAAATACCC-TCGAT
1 ACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGAT
** *
488041 TTGTGAAATTATCGAAAT
66 TTGCAAAATTATCAAAAT
* * * * *
488059 A-CCTTCAGTTTGTAGAATTACCAAAATACCATCGATTTGC-AAAATTACCGAAATACCCTTA
1 ACCCCTGA-TTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTA
488120 TAGGGTAAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
81 23 0.19
82 88 0.72
83 11 0.09
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (83 bp):
ACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGAT
TTGCAAAATTATCAAAAT
Found at i:488397 original size:27 final size:27
Alignment explanation
Indices: 488362--488576 Score: 204
Period size: 27 Copynumber: 7.9 Consensus size: 27
488352 CAACCCTTAG
* *
488362 TTTGTAAAATTATCAAAATACCCCCAA
1 TTTGTAAAATTATCAAAATACCCTCGA
* *
488389 TTT-TCAAAATTACCGAAATACCCTCGA
1 TTTGT-AAAATTATCAAAATACCCTCGA
488416 TTTGTAAAAATTA-CTAAAATACCC-CTGA
1 TTTGT-AAAATTATC-AAAATACCCTC-GA
* *
488444 TTTGCAAAATTACCAAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCTCGA
* * *
488471 TATGCAAAAATTATCGAAATACCCTCGA
1 TTTG-TAAAATTATCAAAATACCCTCGA
* * * *
488499 TTTGTGAAATTATCGAAATACCTTCAA
1 TTTGTAAAATTATCAAAATACCCTCGA
* *
488526 TTTGTATAATTACCAAAATACCC-CTGA
1 TTTGTAAAATTATCAAAATACCCTC-GA
*
488553 TTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTATCAAAATACCCT
488577 TATAGGGTAA
Statistics
Matches: 154, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 105 0.68
28 47 0.31
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTATCAAAATACCCTCGA
Found at i:488437 original size:55 final size:54
Alignment explanation
Indices: 488362--488576 Score: 236
Period size: 55 Copynumber: 3.9 Consensus size: 54
488352 CAACCCTTAG
*
488362 TTTGTAAAATTATCAAAATACCCCCAATTT-TCAAAATTACCGAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCCCGATTTGT-AAAATTACCGAAATACCCTCGA
* * *
488416 TTTGTAAAAATTA-CTAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGA
1 TTTGT-AAAATTATC-AAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
* * * * * * * *
488471 TATGCAAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAA
1 TTTG-TAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
* * * *
488526 TTTGTATAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCT
488577 TATAGGGTAA
Statistics
Matches: 132, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
54 45 0.34
55 86 0.65
56 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
Found at i:488509 original size:82 final size:81
Alignment explanation
Indices: 488362--488576 Score: 247
Period size: 82 Copynumber: 2.6 Consensus size: 81
488352 CAACCCTTAG
* * * *
488362 TTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATTTGTAAAAAT
1 TTTGTAAAATTACCAAAATA-CCCCGATTTGCAAAATTATCGAAATACCCTCGATTTGTAAAAAT
*
488427 TA-CTAAAATACCC-CTGA
65 TATC-AAAATACCCTC-AA
* * *
488444 TTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCGAAATACCCTCGATTTGT-GAAA
1 TTTGTAAAATTACCAAAATACCC-CGATTTGC-AAAATTATCGAAATACCCTCGATTTGTAAAAA
* *
488508 TTATCGAAATACCTTCAA
64 TTATCAAAATACCCTCAA
* *
488526 TTTGTATAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCC-GATTTGCAAAATTATCGAAATACCCT
488577 TATAGGGTAA
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
81 23 0.20
82 63 0.55
83 28 0.25
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACCAAAATACCCCGATTTGCAAAATTATCGAAATACCCTCGATTTGTAAAAATT
ATCAAAATACCCTCAA
Found at i:488766 original size:459 final size:459
Alignment explanation
Indices: 487963--488794 Score: 1524
Period size: 459 Copynumber: 1.8 Consensus size: 459
487953 CTTAGTTTGC
* *
487963 AAAATTATCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCTATATGCAAAAATTATCG
1 AAAATTATCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCG
*
488028 AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAGTTTGTAGAATTACCAAAATACCATCG
66 AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATCG
*
488093 ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAATGACCGTTTTGCCCTTGTGGGTAGATGA
131 ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGATGA
*
488158 CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATTACTGGTATGCTTTTAATATGT
196 CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATATGT
488223 GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
261 GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
488288 ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
326 ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
488353 AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
391 AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
488418 TGTA
456 TGTA
488422 AAAATTA-CTAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATC
1 AAAATTATC-AAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATC
* *
488486 GAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTATAATTACCAAAATACC-CC
65 GAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATC
* *
488550 TGATTTGTAAAATTATCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGAT
130 -GATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGAT
*
488615 GACTGGCTTGGTCTTTGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATAT
194 GACTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATAT
*
488680 GTGTGTAAATGATTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACAT
259 GTGTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACAT
*
488745 ACACGACATATTGCATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTT
324 ACACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTT
488795 TTTGGTGGCT
Statistics
Matches: 359, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
458 2 0.01
459 357 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (459 bp):
AAAATTATCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCG
AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATCG
ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGATGA
CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATATGT
GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
TGTA
Found at i:495101 original size:50 final size:50
Alignment explanation
Indices: 495043--495198 Score: 231
Period size: 50 Copynumber: 3.1 Consensus size: 50
495033 TATTGAGGTT
* *
495043 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
* *
495093 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACGTGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
* * * * *
495143 ATGAGAGGTCCCCCGTAAGACCATGTCTAAGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
495193 ATGAGA
1 ATGAGA
495199 ACTCCCATGG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
Found at i:495213 original size:100 final size:100
Alignment explanation
Indices: 495043--495224 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 100
495033 TATTGAGGTT
* ** * * ** *
495043 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATGAGAGGTCCCCCG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAAGACATGGCATGGGCACCAAGATGAGAACTCCCACG
* *
495108 TAAGACCATGTCTGGGACGTGGCGTTGGCACCGAG
66 GAAGACCATATCTGGGACGTGGCGTTGGCACCGAG
* * *
495143 ATGAGAGGTCCCCCGTAAGACCATGTCTAAGACATGGCATGGGCACCAATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAAGACATGGCATGGGCACCAAGATGAGAACTCCCACG
495208 GAAGACCATATCTGGGA
66 GAAGACCATATCTGGGA
495225 TATGGCATTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAAGACATGGCATGGGCACCAAGATGAGAACTCCCACG
GAAGACCATATCTGGGACGTGGCGTTGGCACCGAG
Found at i:502949 original size:50 final size:50
Alignment explanation
Indices: 502804--502936 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
502794 TTATTGAGGT
502804 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
502854 GATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCC-CACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
** * *
502904 TATGAGAACTCCCATGTAAGACCATATCTGGGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGA
502937 TATGACATTG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 1 0.01
50 73 0.97
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:507161 original size:27 final size:27
Alignment explanation
Indices: 507131--507279 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
507121 CATGATAGCT
* *
507131 AAAGAATAGCCTTTGTGGCGAACTTTG
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* ** *
507158 AAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* * *
507185 AAAGAATAGTCTTTGTGGTAAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* * * *
507212 AAAGAATAACCATTGTGATGAA-TTCTG
1 AAAGAATAGCCTTTGTGGTGAACTT-TA
*
507239 AAAGAATAGTCTTTGTGGTGAACTTTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
507266 AAAGAGAT-GCCTTT
1 AAAGA-ATAGCCTTT
507280 ACGGAAAATT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 94 0.95
28 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGTGAACTTTA
Found at i:507216 original size:54 final size:54
Alignment explanation
Indices: 507131--507270 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
507121 CATGATAGCT
* * * * *
507131 AAAGAATAGCCTTTGTGGCGAACTTTGAAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
* * ** * *
507185 AAAGAATAGTCTTTGTGGTAAACTCTAAAAGAATAACCATTGTGATGAATTCTG
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
507239 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA
507271 GATGCCTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (54 bp):
AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
Found at i:507290 original size:54 final size:52
Alignment explanation
Indices: 507131--507294 Score: 159
Period size: 54 Copynumber: 3.0 Consensus size: 52
507121 CATGATAGCT
* * * * *
507131 AAAGAATAGCCTTTGTGGCGAACTTTGAAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACC-TT-TGGAAAATTCTA
* * * * *
507185 AAAGAATAGTCTTTGTGGTAAACTCTAAAAGAATAACCATTGTGATGAATTCTG
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCTTTG-GA-AAATTCTA
*
507239 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAGAT-GCCTTTACGGAAAATTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA-ATAACCTTT--GGAAAATTCTA
507293 AA
1 AA
507295 TAGATCACCT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 80 0.90
55 4 0.04
56 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (52 bp):
AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCTTTGGAAAATTCTA
Found at i:519649 original size:16 final size:16
Alignment explanation
Indices: 519625--519655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
519615 AGTATTTCAT
519625 AATGACTAGCTATTGG
1 AATGACTAGCTATTGG
*
519641 AATGGCTAGCTATTG
1 AATGACTAGCTATTG
519656 ACATGTTTGG
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:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
AATGACTAGCTATTGG
Found at i:523198 original size:20 final size:19
Alignment explanation
Indices: 523162--523208 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
523152 TTATTTAGTT
*
523162 TAATTGAACTTAATTAATC
1 TAATTTAACTTAATTAATC
523181 TAATTTAACTTAAATTAATC
1 TAATTTAACTT-AATTAATC
*
523201 TAGTTTAA
1 TAATTTAA
523209 TAATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (19 bp):
TAATTTAACTTAATTAATC
Found at i:526306 original size:36 final size:37
Alignment explanation
Indices: 526238--526311 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
526228 TAAATCCCTT
*
526238 TTCCTCCCCTTGTATTTTACCATGTAATAGCACAAAA
1 TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
*
526275 TTCCTCCGCTTGTATTTTA-CATGTAAAAGCACAAAA
1 TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
526311 T
1 T
526312 AAACAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 17 0.49
37 18 0.51
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (37 bp):
TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
Found at i:528905 original size:3 final size:3
Alignment explanation
Indices: 528897--528926 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
528887 AACAATCCCT
528897 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
528927 CCCTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:530338 original size:14 final size:14
Alignment explanation
Indices: 530316--530349 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
530306 GAAAGAGACA
*
530316 TTAACCAAGGATTT
1 TTAATCAAGGATTT
530330 TTAATCAAGGATTT
1 TTAATCAAGGATTT
530344 TTAATC
1 TTAATC
530350 TCTTACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (14 bp):
TTAATCAAGGATTT
Found at i:534687 original size:100 final size:99
Alignment explanation
Indices: 534555--534819 Score: 433
Period size: 100 Copynumber: 2.6 Consensus size: 99
534545 TCGCTACATT
* * *
534555 TAGCTTTAATCTGTTCCACTAGACCGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
534620 TAACTGCAATGTTAGG-GAAACAAGATTCACCGTCG
65 TAACTGCAATGTT-GGAGAAACAAGATTCACCGTCG
*
534655 TAGCTTCAATCTGTTCCACTACATCGCTAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
*
534720 TAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
65 TAACTGCAATGTTGGAGAAACAAGATTCACCGTCG
*
534755 TATCTTCAATCTGTTCCACTACACAGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACAC-GCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
534820 CCACTGTAAT
Statistics
Matches: 155, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
99 3 0.02
100 152 0.98
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (99 bp):
TAGCTTCAATCTGTTCCACTACACGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTT
AACTGCAATGTTGGAGAAACAAGATTCACCGTCG
Found at i:534822 original size:50 final size:50
Alignment explanation
Indices: 534557--534824 Score: 229
Period size: 50 Copynumber: 5.4 Consensus size: 50
534547 GCTACATTTA
* * * * * *
534557 GCTTTAATCTGTTCCACTAGACCGCCAGGGAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
** * * ** * * *
534607 GCTTCAATCTATTTAACTGCA-ATGTTAGGGAAACAAGATTCACCGTCGTA
1 GCTTCAATCTATTCCACTACACA-GCTAGGGAAGTAAGATTCGCCGTTGTG
*
534657 GCTTCAATCTGTTCCACTACATC-GCTAGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTATTCCACTACA-CAGCTAGGGAAGTAAGATTCGCCGTTGTG
** * * ** * *
534707 GCTTCAATCTATTTAACTGCA-ATG-TTGGAGAAACAAGATTCGCCGTCGTA
1 GCTTCAATCTATTCCACTACACA-GCTAGG-GAAGTAAGATTCGCCGTTGTG
* * *
534757 TCTTCAATCTGTTCCACTACACAGCCAGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
534807 GCTTCAATCTATTCCACT
1 GCTTCAATCTATTCCACT
534825 GTAATGCCAA
Statistics
Matches: 163, Mismatches: 47, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
49 3 0.02
50 157 0.96
51 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
Found at i:535056 original size:44 final size:44
Alignment explanation
Indices: 534958--535111 Score: 244
Period size: 44 Copynumber: 3.6 Consensus size: 44
534948 CTTCGATCTG
* * * *
534958 CTCCACTACTGCTTAGGGAGATAAGATCTATAAT--T--TCCTA
1 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
534998 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
535042 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
535086 CTCCACTGCTGCTCAGGGAGATAAGG
1 CTCCACTGCTGCTCAGGGAGATAAGG
535112 CTAGTGGATT
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
40 31 0.29
42 1 0.01
44 74 0.70
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
Found at i:535223 original size:44 final size:44
Alignment explanation
Indices: 535175--535522 Score: 144
Period size: 44 Copynumber: 8.1 Consensus size: 44
535165 TTCGATCTGA
* * *
535175 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
1 TCCACTGCTGCTTAGGGAGATAAGATCTATAATCTTCAACCTAC
* * * * *
535219 TCCACTGCTGCTTAGGAAGATAGGAT-TCACAATCTTCAACTTAT
1 TCCACTGCTGCTTAGGGAGATAAGATCT-ATAATCTTCAACCTAC
* * * *
535263 TCCAGTGCTGAC-CAGGGAGAT-AG------GA--TTC-ACCTAT
1 TCCACTGCTG-CTTAGGGAGATAAGATCTATAATCTTCAACCTAC
* * * * *
535297 TCCACTACTGAC-CAGGGAGAT-AGAACTTACAATCTTCAACCTAT
1 TCCACTGCTG-CTTAGGGAGATAAGATC-TATAATCTTCAACCTAC
* * * * *
535341 TCCACTGCTGATCAGGGAGATAGGA-CTCACAATCTTCAACCTAT
1 TCCACTGCTGCTTAGGGAGATAAGATCT-ATAATCTTCAACCTAC
* * * *
535385 TCCACTGCTGAC-CAGGGAGATAGGAT-TCACAATCTTCAACCTAT
1 TCCACTGCTG-CTTAGGGAGATAAGATCT-ATAATCTTCAACCTAC
* * * *
535429 TCCACTGCTGAC-CAGGGAGATAGGAT-TCACAATCTTCAACCTAT
1 TCCACTGCTG-CTTAGGGAGATAAGATCT-ATAATCTTCAACCTAC
* * * *
535473 TCCACTGCTGAC-CAGGGAGATAGGAT-TCACAATCTTCAACCTAT
1 TCCACTGCTG-CTTAGGGAGATAAGATCT-ATAATCTTCAACCTAC
535517 TCCACT
1 TCCACT
535523 ACTTTCCAGG
Statistics
Matches: 266, Mismatches: 21, Indels: 34
0.83 0.07 0.11
Matches are distributed among these distances:
34 26 0.10
35 3 0.01
37 1 0.00
41 1 0.00
43 6 0.02
44 226 0.85
45 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
TCCACTGCTGCTTAGGGAGATAAGATCTATAATCTTCAACCTAC
Found at i:535280 original size:88 final size:87
Alignment explanation
Indices: 535188--535541 Score: 424
Period size: 88 Copynumber: 4.1 Consensus size: 87
535178 ACTACTGCTT
** * * * *
535188 AGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG-CTTAGGAAGATAGGATTCACAAT
1 AGGGAGATAAGATC-ACAATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAAT
* *
535252 CTTCAACTTATTCCAGTGCTGACC
64 CTTCAACCTATTCCACTGCTGACC
* * *
535276 AGGGAGAT-AG-----GA--TTC-ACCTATTCCACTACTGACCAGGGAGATAGAACTT-ACAATC
1 AGGGAGATAAGATCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
535331 TTCAACCTATTCCACTGCTGATC
65 TTCAACCTATTCCACTGCTGACC
*
535354 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 AGGGAGATAAGA-TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
535419 TTCAACCTATTCCACTGCTGACC
65 TTCAACCTATTCCACTGCTGACC
*
535442 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 AGGGAGATAAGA-TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* **
535507 TTCAACCTATTCCACTACTTTCC
65 TTCAACCTATTCCACTGCTGACC
*
535530 AGGGAGACAAGA
1 AGGGAGATAAGA
535542 CTACTATCTT
Statistics
Matches: 233, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
78 58 0.25
79 7 0.03
81 1 0.00
85 1 0.00
87 7 0.03
88 159 0.68
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (87 bp):
AGGGAGATAAGATCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCT
TCAACCTATTCCACTGCTGACC
Found at i:535532 original size:44 final size:44
Alignment explanation
Indices: 535291--535536 Score: 413
Period size: 44 Copynumber: 5.6 Consensus size: 44
535281 GATAGGATTC
* *
535291 ACCTATTCCACTACTGACCAGGGAGATAGAACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
* *
535335 ACCTATTCCACTGCTGATCAGGGAGATAGGACTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
535379 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
535423 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
535467 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* **
535511 ACCTATTCCACTACTTTCCAGGGAGA
1 ACCTATTCCACTGCTGACCAGGGAGA
535537 CAAGACTACT
Statistics
Matches: 192, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
43 1 0.01
44 191 0.99
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:538124 original size:25 final size:25
Alignment explanation
Indices: 538071--538136 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
538061 AAGAAAATCC
* *
538071 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
538096 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
538121 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
538137 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:542436 original size:23 final size:21
Alignment explanation
Indices: 542410--542469 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
542400 CATAATGGTG
542410 TTAATAATATTAAAACAATTAAT
1 TTAATAA-A-TAAAACAATTAAT
*
542433 TTAAT-AATAAAATAATTAAT
1 TTAATAAATAAAACAATTAAT
*
542453 TTAATAAAAAATAACAA
1 TTAATAAATAA-AACAA
542470 ATAGAGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 17 0.53
21 5 0.16
22 5 0.16
23 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAATAAATAAAACAATTAAT
Found at i:542443 original size:20 final size:20
Alignment explanation
Indices: 542414--542463 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
542404 ATGGTGTTAA
*
542414 TAATATTAAAACAATTAATT
1 TAATAATAAAACAATTAATT
*
542434 TAATAATAAAATAATTAATT
1 TAATAATAAAACAATTAATT
542454 TAATAA-AAAA
1 TAATAATAAAA
542464 TAACAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAATAAAACAATTAATT
Found at i:542692 original size:22 final size:20
Alignment explanation
Indices: 542651--542695 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
542641 GCAAATCAAC
*
542651 AAAATAAGAACAAGCCAGAG
1 AAAATAAGAACAAGACAGAG
*
542671 AAAATAAGAACGCAAGAGAGAG
1 AAAATAAGAA--CAAGACAGAG
542693 AAA
1 AAA
542696 TTTGAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.11, G:0.22, T:0.04
Consensus pattern (20 bp):
AAAATAAGAACAAGACAGAG
Found at i:542881 original size:23 final size:22
Alignment explanation
Indices: 542838--542895 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
542828 AAAGGATATC
* *
542838 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
542859 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
542882 TGCATATCATATCT
1 TACAAATCATATCT
542896 AAGATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:548359 original size:47 final size:47
Alignment explanation
Indices: 548290--548383 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
548280 TGGGTAAGAA
* *
548290 GCCTTTTTTAGCATAAGAGAATTCTTCCCAGTTCTGTTTATATATTT
1 GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
* *
548337 GCCTTATTTAGCATAGGAGAATTCTTCCCAGTTTTGTTCATATATTT
1 GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
548384 TCTCATCCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (47 bp):
GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
Found at i:555763 original size:23 final size:23
Alignment explanation
Indices: 555737--555782 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
555727 ACTTTCTTAT
555737 TGTAGTAATTTTCAGGG-TATTAC
1 TGTAGTAATTTTC-GGGATATTAC
555760 TGTAGTAATTTTCGGGATATTAC
1 TGTAGTAATTTTCGGGATATTAC
555783 AAGCACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTAGTAATTTTCGGGATATTAC
Found at i:561141 original size:101 final size:102
Alignment explanation
Indices: 561021--561212 Score: 298
Period size: 101 Copynumber: 1.9 Consensus size: 102
561011 AAAGTGATGG
* *
561021 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGGATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TGGGATGATAATGGCCACATGTGTAGT
*
561084 ACTATATGCAGGCTACTATGTGTACCAGATAGTTTCGA
65 ACTATATGCAGGCTACTATGTGAACCAGATAGTTTCGA
* * *
561122 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATGGTAATGGCCACATGTGTTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATGGGATGATAATGGCCACATGTGTAGTA
*
561187 CTATGTGCAGGCTACTATGTGAACCA
66 CTATATGCAGGCTACTATGTGAACCA
561213 AACATCATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 7 0.09
101 38 0.46
102 37 0.45
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATGGGATGATAATGGCCACATGTGTAGTA
CTATATGCAGGCTACTATGTGAACCAGATAGTTTCGA
Found at i:561145 original size:51 final size:49
Alignment explanation
Indices: 561017--561212 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 49
561007 AGTGAAAGTG
* **
561017 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGGATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CAGATGT
* * *
561066 ATAGGTCGCATGTGTAGTACTATATGCAGGCTACTATGTGTACCAGATAGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GT
* * * ***
561117 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GT
* * * *
561168 AATGGCCACATGTGTTGTACTATGTGCAGGCTACTATGTGAACCA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
561213 AACATCATTT
Statistics
Matches: 116, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 5 0.04
50 37 0.32
51 73 0.63
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGT
Found at i:561278 original size:45 final size:45
Alignment explanation
Indices: 561214--561302 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
561204 TGTGAACCAA
* * *
561214 ACATCATTTATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
561259 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
561303 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:567552 original size:42 final size:42
Alignment explanation
Indices: 567494--567647 Score: 229
Period size: 42 Copynumber: 3.7 Consensus size: 42
567484 TAGTGAAGCC
567494 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAATAA
* *
567536 ATTCAGAATTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAATAA
*
567578 ATTCAGACTTTACGTCTAGCAGGCTTAAT-ACTGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCT-GTGAAATAA
* * * *
567620 ATTTAGACTATAAGTGTAGCAGGCTTAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAA
567648 AGCTGGTGTA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 101 0.99
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
ATTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAATAA
Found at i:568974 original size:28 final size:28
Alignment explanation
Indices: 568934--568990 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
568924 TAAACTCGGA
568934 TGCATTGACAATGTCCTCAACAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
568962 TGCATTGACAATGTCCTCAACAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
568990 T
1 T
568991 TCTCAGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
TGCATTGACAATGTCCTCAACAGATTCT
Found at i:569004 original size:15 final size:15
Alignment explanation
Indices: 568986--569028 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
568976 CCTCAACAGA
568986 TTCTTTCTCAGTAGC
1 TTCTTTCTCAGTAGC
* **
569001 TTCTATCTCAGTATT
1 TTCTTTCTCAGTAGC
*
569016 TTCTTCCTCAGTA
1 TTCTTTCTCAGTA
569029 TTCTCCCTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.09, T:0.49
Consensus pattern (15 bp):
TTCTTTCTCAGTAGC
Found at i:571970 original size:82 final size:82
Alignment explanation
Indices: 571865--572019 Score: 256
Period size: 82 Copynumber: 1.9 Consensus size: 82
571855 TGAGTTCCAA
571865 ACTAAATGGGACCATTCAAGAGTTTGTTAGCAAGGCCTTAGATGCATACACAAAAGAACAAGAAA
1 ACTAAATGGGACCATTCAAGAGTTTGTTAGCAAGGCCTTAGATGCATACACAAAAGAACAAGAAA
571930 ATCAAGATCCACTTTCT
66 ATCAAGATCCACTTTCT
* * ** **
571947 ACTAAATGGGACCATTCAGGAGTTTGTTAGCAAGGCCTTAGATGCGTACATGAAAGAACGGGAAA
1 ACTAAATGGGACCATTCAAGAGTTTGTTAGCAAGGCCTTAGATGCATACACAAAAGAACAAGAAA
572012 ATCAAGAT
66 ATCAAGAT
572020 TTCAAATATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (82 bp):
ACTAAATGGGACCATTCAAGAGTTTGTTAGCAAGGCCTTAGATGCATACACAAAAGAACAAGAAA
ATCAAGATCCACTTTCT
Found at i:574764 original size:40 final size:40
Alignment explanation
Indices: 574707--574786 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
574697 GATAAAGAAA
* *
574707 CAACTATGGTTCGATTTATTGATGGTTTGAACAGGCCGAT
1 CAACTATGGTTCAATTTATTGATGGTTTAAACAGGCCGAT
*
574747 CAACTATGGTTCAATTTATTGATGGTTTAAATAGGCCGAT
1 CAACTATGGTTCAATTTATTGATGGTTTAAACAGGCCGAT
574787 AGCTAATACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (40 bp):
CAACTATGGTTCAATTTATTGATGGTTTAAACAGGCCGAT
Found at i:584579 original size:16 final size:17
Alignment explanation
Indices: 584560--584593 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
584550 AAATATTATG
584560 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
584576 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
584593 A
1 A
584594 TTTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:593674 original size:50 final size:50
Alignment explanation
Indices: 593606--593741 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
593596 ACTACCAATT
* * ** * * *
593606 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
** *
593656 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
* * *
593706 TCATGTCTCAGACATGGTCTTACATGAGACCTCTCA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCA
593742 AAATCTCAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
Found at i:610328 original size:21 final size:22
Alignment explanation
Indices: 610278--610341 Score: 85
Period size: 21 Copynumber: 2.9 Consensus size: 22
610268 ACCTTTTTGA
*
610278 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
* *
610301 ACCATACCATTTCATACCAACT
1 ACCATACCATTTCGTACCAAAT
610323 -CCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
610342 TTCCCAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 18 0.49
22 15 0.41
23 4 0.11
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.27
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:614670 original size:50 final size:50
Alignment explanation
Indices: 614586--614715 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
614576 TGCCATATCC
* ** * *
614586 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCA-TGTCATGTC-
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACT-CCATGTCT
** *
614635 CTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACTCCATGTCT
1 C-AGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACTCCATGTCT
*
614686 CAGACATGGTCTTACATGAGACCTCTCATA
1 CAGACATGGTCTTACATGGGACCTCTCATA
614716 ATCTCAATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.02
50 63 0.95
51 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACTCCATGTCT
Found at i:619308 original size:16 final size:15
Alignment explanation
Indices: 619283--619323 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
619273 AGATTCAATC
619283 CAAAAAAAAACACAA
1 CAAAAAAAAACACAA
619298 CAAAAACAAAACACAA
1 CAAAAA-AAAACACAA
619314 -AAACAAAAAA
1 CAAA-AAAAAA
619324 AGGGGGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACACAA
Found at i:619313 original size:13 final size:14
Alignment explanation
Indices: 619283--619321 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
619273 AGATTCAATC
*
619283 CAAAAAAAAACACAA
1 CAAAAACAAA-ACAA
619298 CAAAAACAAAAC-A
1 CAAAAACAAAACAA
619311 CAAAAACAAAA
1 CAAAAACAAAA
619322 AAAGGGGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAACAA
Found at i:619324 original size:16 final size:16
Alignment explanation
Indices: 619284--619324 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
619274 GATTCAATCC
619284 AAAAAAAAACACAACA
1 AAAAAAAAACACAACA
*
619300 AAAACAAAACACAA-A
1 AAAAAAAAACACAACA
619315 AACAAAAAAA
1 AA-AAAAAAA
619325 GGGGGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACACAACA
Found at i:619353 original size:19 final size:18
Alignment explanation
Indices: 619331--619372 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
619321 AAAAGGGGGG
*
619331 AAAAAGAAGAAAAAATAGA
1 AAAAAAAAGAAAAAA-AGA
*
619350 AAAAAAAAGAGAAAAAGA
1 AAAAAAAAGAAAAAAAGA
619368 AAAAA
1 AAAAA
619373 CCCCGCTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAGA
Found at i:619894 original size:8 final size:7
Alignment explanation
Indices: 619864--619896 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
619854 AAAGATGTGA
619864 AAAAATG
1 AAAAATG
619871 -AAAATG
1 AAAAATG
619877 AAAAATG
1 AAAAATG
619884 AAAAATGG
1 AAAAAT-G
619892 AAAAA
1 AAAAA
619897 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:619904 original size:15 final size:14
Alignment explanation
Indices: 619864--619896 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
619854 AAAGATGTGA
619864 AAAAATG-AAAATG
1 AAAAATGAAAAATG
619877 AAAAATGAAAAATGG
1 AAAAATGAAAAAT-G
619892 AAAAA
1 AAAAA
619897 GTAAAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:621292 original size:50 final size:50
Alignment explanation
Indices: 621238--622204 Score: 486
Period size: 50 Copynumber: 19.5 Consensus size: 50
621228 GTAGCGGAGC
* * *
621238 AGATTGAAGTTACAACGGCAGATCTAGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
621288 AGATTGAAGTCACAACGGCGGATCTTA-CTTCCCTGGCAATGCAATGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* *
621338 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
621387 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGGC-GATGCAATGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAG-TGCAATTGAAA
* * * *
621437 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGCCAGCGTAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * * **
621486 AGATTGAGGCCACAACGGCGGATCTTA-CTTCCCTGGCAATGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * * *
621536 AGATTAAAGTCACAATGGCAGATCTGGTTCCCCCGACAGTGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
621585 AGATTGAAGCCACAACGGCGGATCTTA-CTT-CCCTAGC-GATGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAG-TGCAATTGAAA
* * *
621635 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * *** **
621684 AGATTGAAGCCACAACGACGGATCTTA-CTT-CCCTAGCGGTGCAGCGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAGTGCAATTGAAA
* ** *
621734 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCTGACAACGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * ** *** **
621784 AGATTGAAGCCACAACGGCAGATCTTA-TTTCCCTGGTAGTGCAGCGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * *
621834 AGATTGAAGTCACAACGGTAGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * ** * * * * * * **
621883 AGGATTGAAGCCACAGCGGTGGATCTTA-CTTCCCTGGCGGTGCAGTGGAGC
1 A-GATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * *
621934 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * **
621983 AG---GATGCCACAGCGGCGGATCTTA-CTT-CCCTAGCAGTGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAGTGCAATTGAAA
* * * * * *
622030 AGATTGAAGTCACAACGACAGATCTGGTTTTCCCGATAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * **
622080 AGATTGAAGCCACAACGGCAGATCTTA-CTTCCCTGGCGGTACAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * *
622130 AGATTGAAGTCACAGCGGCAGATTTGGTTTCCTCGATAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* *
622180 AGATTGAAGCCACAACGGCGGATCT
1 AGATTGAAGTCACAACGGCAGATCT
622205 TACCTCCTTA
Statistics
Matches: 648, Mismatches: 231, Indels: 76
0.68 0.24 0.08
Matches are distributed among these distances:
45 4 0.01
46 25 0.04
47 4 0.01
48 10 0.02
49 141 0.22
50 443 0.68
51 21 0.03
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
Found at i:622287 original size:100 final size:99
Alignment explanation
Indices: 621233--622238 Score: 1464
Period size: 99 Copynumber: 10.1 Consensus size: 99
621223 GCGTTGTAGC
* * *
621233 GGAGCAGATTGAAGTTACAACGGCAGATCTAGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* *
621298 CACAACGGCGGATCTTACTTCCCTGGCAATGCAAT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
621333 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
621398 ACAACGGCGGATCTTACTTCCCTGGC-GATGCAAT
66 ACAACGGCGGATCTTACTTCCCTGGCAG-TGCAGT
* * *
621432 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGCCAGCGTAATTAAAAGATTGAGGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
621497 ACAACGGCGGATCTTACTTCCCTGGCAATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * * *
621531 GGAGCAGATTAAAGTCACAATGGCAGATCTGGTTCCCCCGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
621596 ACAACGGCGGATCTTACTTCCCTAGC-GATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAG-TGCAGT
*
621630 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* * * *
621695 ACAACGACGGATCTTACTTCCCTAGCGGTGCAGC
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * *
621729 GGAGCAGATTGAAGTCACAACGGCAGATCTAGTTTCCCTGACAACGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * * *
621794 CACAACGGCAGATCTTATTTCCCTGGTAGTGCAGC
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
*
621829 GGAGCAGATTGAAGTCACAACGGTAGATCTGGTTTCCCCGACAGCGCAATTAAAAGGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAA-GATTGAAGC
* * *
621894 CACAGCGGTGGATCTTACTTCCCTGGCGGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* *
621929 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAG---GATGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* *
621991 ACAGCGGCGGATCTTACTTCCCTAGCAGTGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * *
622025 GGAGCAGATTGAAGTCACAACGACAGATCTGGTTTTCCCGATAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * *
622090 CACAACGGCAGATCTTACTTCCCTGGCGGTACAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * * *
622125 GGAGCAGATTGAAGTCACAGCGGCAGATTTGGTTTCCTCGATAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * *
622190 CACAACGGCGGATCTTACCTCCTTAGCAGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* *
622225 TGAACAGATTGAAG
1 GGAGCAGATTGAAG
622239 CTACGACGGC
Statistics
Matches: 821, Mismatches: 75, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
96 83 0.10
97 5 0.01
99 369 0.45
100 364 0.44
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (99 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
Found at i:623719 original size:3 final size:3
Alignment explanation
Indices: 623711--623765 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
623701 TGTTTATTTA
*
623711 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
623756 ATAT TAT TAT
1 -TAT TAT TAT
623766 ACTTACTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 35 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:623733 original size:22 final size:22
Alignment explanation
Indices: 623684--623765 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
623674 TTTTTATATA
* *
623684 TATTACATTATTAATACTGT-T
1 TATTATATTATTATTACTGTAT
623705 TATTTATATTATTATTACTGTAT
1 TA-TTATATTATTATTACTGTAT
* *
623728 TATTATTAGTTTATTATTATTATAT
1 TATTA-TA--TTATTATTACTGTAT
623753 TA-TATATTATTAT
1 TATTATATTATTAT
623766 ACTTACTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
21 9 0.17
22 19 0.37
23 7 0.13
24 2 0.04
25 15 0.29
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTATATTATTATTACTGTAT
Found at i:623755 original size:14 final size:14
Alignment explanation
Indices: 623711--623764 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
623701 TGTTTATTTA
*
623711 TATTATTATTACTG
1 TATTATTATTACTT
*
623725 TATTATTATTAGTT
1 TATTATTATTACTT
623739 TATTATTATTA-TAT
1 TATTATTATTACT-T
623753 TATATATTATTA
1 TAT-TATTATTA
623765 TACTTACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 1 0.03
14 27 0.75
15 8 0.22
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (14 bp):
TATTATTATTACTT
Found at i:643568 original size:23 final size:25
Alignment explanation
Indices: 643511--643594 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 25
643501 GAGCCATGAT
643511 CGGTAAGCTCATTCTGAGCTGATAAA
1 CGGTAAGCTCATTCTGAGCTGA-AAA
643537 CGGTAAGCTC-TATC-GAGCTG-AAA
1 CGGTAAGCTCAT-TCTGAGCTGAAAA
* ** **
643560 TGGTAAGCTCCGT-AAAGCT-AAAA
1 CGGTAAGCTCATTCTGAGCTGAAAA
643583 CGGTAAGCTCAT
1 CGGTAAGCTCAT
643595 ACAAGTTGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
23 29 0.60
25 7 0.15
26 12 0.25
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATTCTGAGCTGAAAA
Found at i:646021 original size:19 final size:21
Alignment explanation
Indices: 645985--646023 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
645975 AACTAGATGA
*
645985 GAGAGAAAATAAGTGAAAATG
1 GAGAGAAAATAAGAGAAAATG
646006 GAGAG-AAA-AAGAGAAAAT
1 GAGAGAAAATAAGAGAAAAT
646024 ATGGAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (21 bp):
GAGAGAAAATAAGAGAAAATG
Found at i:647223 original size:29 final size:29
Alignment explanation
Indices: 647181--647300 Score: 152
Period size: 29 Copynumber: 4.1 Consensus size: 29
647171 ATCGATGCTT
* *
647181 ATCGAATATGAAAAGGGATGATTTCGACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
** *
647210 ATCGAATATGAAAAGGGATGGTGACAACT
1 ATCGAATATGAAAAGGGATGGTTTCAACC
* *
647239 ATCGAATATGAAAAGGGATGGTGAT-GACC
1 ATCGAATATGAAAAGGGATGGT-TTCAACC
*
647268 ATCGAATATGAAAGGGGATGGTTTCAACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
647297 ATCG
1 ATCG
647301 TTTAGCACAC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.01
29 76 0.99
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCAACC
Found at i:647250 original size:58 final size:58
Alignment explanation
Indices: 647180--647289 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
647170 TATCGATGCT
*
647180 TATCGAATATGAAAAGGGATGAT-TTCGACCATCGAATATGAAAAGGGATGGTGACAAC
1 TATCGAATATGAAAAGGGATGATGAT-GACCATCGAATATGAAAAGGGATGGTGACAAC
* *
647238 TATCGAATATGAAAAGGGATGGTGATGACCATCGAATATGAAAGGGGATGGT
1 TATCGAATATGAAAAGGGATGATGATGACCATCGAATATGAAAAGGGATGGT
647290 TTCAACCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 47 0.98
59 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (58 bp):
TATCGAATATGAAAAGGGATGATGATGACCATCGAATATGAAAAGGGATGGTGACAAC
Found at i:657893 original size:38 final size:39
Alignment explanation
Indices: 657842--657917 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
657832 CTCATAGTTC
*
657842 ACCAACATGTTTGGTC-TTTGCAGTTAGGTGACATGATG
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
*
657880 ACCAACATGTTTGGTCTTTTGCAATTAGTTGACATGAT
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGAT
657918 CAGTTGTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 16 0.46
39 19 0.54
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (39 bp):
ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
Found at i:660092 original size:32 final size:30
Alignment explanation
Indices: 660055--660157 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
660045 TTAATTAATT
660055 TAATATTAAATTAATATAATACTTATCAAGA
1 TAATATTAAATTAATATAATAC-TATCAAGA
* *
660086 TGAATATTAGATTAAATTTAATA-T-T-AAGA
1 T-AATATTAAATT-AATATAATACTATCAAGA
* *
660115 T-A-ATTAATTTAATAAAATACTATCAAGA
1 TAATATTAAATTAATATAATACTATCAAGA
660143 TAAGTATTAAATTAA
1 TAA-TATTAAATTAA
660158 ATTAAATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
25 7 0.12
26 7 0.12
27 2 0.04
28 5 0.09
29 6 0.11
30 1 0.02
31 11 0.19
32 10 0.18
33 8 0.14
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATATAATACTATCAAGA
Found at i:660160 original size:57 final size:58
Alignment explanation
Indices: 660059--660169 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
660049 TTAATTTAAT
* * *
660059 ATTAAATTAATATAATACTTATCAAGATGAATATTAGATTAAATTTAATATTAAGATA
1 ATTAAATTAATAAAATACTTATCAAGATGAATATTAAATTAAATTAAATATTAAGATA
* *
660117 ATTAATTTAATAAAATAC-TATCAAGAT-AAGTATTAAATTAAATTAAATGTTAA
1 ATTAAATTAATAAAATACTTATCAAGATGAA-TATTAAATTAAATTAAATATTAA
660170 ATTTATTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 2 0.04
57 29 0.62
58 16 0.34
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (58 bp):
ATTAAATTAATAAAATACTTATCAAGATGAATATTAAATTAAATTAAATATTAAGATA
Found at i:661578 original size:45 final size:45
Alignment explanation
Indices: 661438--661568 Score: 244
Period size: 45 Copynumber: 2.9 Consensus size: 45
661428 TACTAAGTAT
661438 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
661483 CATTGATTAGAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
661528 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCGG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGG
661569 AAATTATTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
Found at i:665853 original size:101 final size:101
Alignment explanation
Indices: 665635--665888 Score: 345
Period size: 101 Copynumber: 2.5 Consensus size: 101
665625 TCATTTAACT
* * *
665635 ATTATCATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTC
1 ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTCTCGGTAC
* *
665700 ACGTAGTAGCCTGCACATAGTACTACACACGTGACC
66 ACATAGTAGCCTGCACATAGTACTACACACGCGACC
* * *
665736 ATTAAT-ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACTTGATCGAAGCTATCT-GG
1 ATT-ATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACT-TCTCGG
* *
665799 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACC
63 TACACATAGTAGCCTGCACATAGTACTACACACGCGACC
*
665838 -TT-TCATTCTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCA
1 ATTATCATTC-GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCA
665889 TCACTTTCAT
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 5 0.04
101 86 0.63
102 42 0.31
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (101 bp):
ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTCTCGGTAC
ACATAGTAGCCTGCACATAGTACTACACACGCGACC
Found at i:670540 original size:18 final size:19
Alignment explanation
Indices: 670514--670549 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
670504 ATTTCTATGA
*
670514 TGAATAAGAAA-GAGAGAT
1 TGAAAAAGAAACGAGAGAT
670532 TGAAAAAGAAACGAGAGA
1 TGAAAAAGAAACGAGAGA
670550 AGAAGAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.28, T:0.11
Consensus pattern (19 bp):
TGAAAAAGAAACGAGAGAT
Found at i:672710 original size:33 final size:34
Alignment explanation
Indices: 672673--672741 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
672663 TGAATACACT
**
672673 CTCCCAAG-CTATTCGAGAACTTGAAGTGTCAAG
1 CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
* * *
672706 CTCCCAAGACTGTTCGGGAACTCCAATTGTCAAG
1 CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
672740 CT
1 CT
672742 GATCATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 8 0.27
34 22 0.73
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (34 bp):
CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
Found at i:675509 original size:51 final size:49
Alignment explanation
Indices: 675433--675621 Score: 216
Period size: 51 Copynumber: 3.8 Consensus size: 49
675423 TATAAACACG
* * *
675433 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AGAT-TTGGTCACA
* * *
675484 TGTGTAGTACTATGTGGAGGCTACTATGTGTACCAGAAGTCTTTGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAG-ATTTGGTCACA
* * * * **
675535 TGTGTAGTACTATGTGCAGGCTACAACGTGAACCGAAAAGTTTGATCAGG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGA-TTTGGTCACA
*
675585 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
675622 TGATAATAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 44 0.38
51 70 0.60
52 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGATTTGGTCACA
Found at i:681051 original size:35 final size:35
Alignment explanation
Indices: 681005--681073 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
680995 GTAATTCAAG
681005 TTCTTGAAGACATGCTCCGATGTTGTGTCTTAGAA
1 TTCTTGAAGACATGCTCCGATGTTGTGTCTTAGAA
*
681040 TTCTTGAAGACATGCTTCGATGTTGTGTCTTAGA
1 TTCTTGAAGACATGCTCCGATGTTGTGTCTTAGA
681074 GTTTGAAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (35 bp):
TTCTTGAAGACATGCTCCGATGTTGTGTCTTAGAA
Found at i:684754 original size:51 final size:50
Alignment explanation
Indices: 684699--684836 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 50
684689 CGATAGATAA
* * * * * *
684699 TGGTCACATGTGTAGTAGTATGTGCAGACTACTATGTGTACCGGAAGGCTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TT
* *
684750 TGGTCACGTGTGTTGTACTATGTACAGGCTACTACGTGAACCGGAAAGTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTT
* * *
684800 TGATCAGGTGTGTAGTACTATGTGAAGGCTACTACGT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGT
684837 ATATCGAATG
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 34 0.46
51 40 0.54
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTT
Found at i:686642 original size:27 final size:28
Alignment explanation
Indices: 686611--686673 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
686601 TGGAAGTTGT
* *
686611 GTTCGCTAGTTTGTTTGGTGAGTT-GGG
1 GTTCGCCAGTTTGTTTGGTGACTTGGGG
686638 GTTCGCCAGTTTGTTTGGTGACTTGGGG
1 GTTCGCCAGTTTGTTTGGTGACTTGGGG
686666 GTTCGCCA
1 GTTCGCCA
686674 ATTGAGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.08, C:0.14, G:0.38, T:0.40
Consensus pattern (28 bp):
GTTCGCCAGTTTGTTTGGTGACTTGGGG
Found at i:688857 original size:50 final size:50
Alignment explanation
Indices: 688681--688859 Score: 207
Period size: 50 Copynumber: 3.6 Consensus size: 50
688671 ATTTGGGTAA
* * * *
688681 AGAGATCCCATGTAAGAACATGTCTAGGACATGGCGTTAGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
688731 AGAGGTCTCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
688781 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATG
1 AGA-GCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
688831 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGCTCCCATGTAAGACCATGTCTGGGA
688860 TATGTCATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 4 0.04
50 102 0.93
51 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:690601 original size:24 final size:24
Alignment explanation
Indices: 690547--690601 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
690537 ACATGTAACT
* *
690547 GATAAGATAAGATAAGTTTGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
**
690571 GCCAAGTTAAGATAAGTATGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
690595 GATAAGT
1 GATAAGT
690602 GCGAGAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (24 bp):
GATAAGTTAAGATAAGTATGTTAA
Found at i:693605 original size:12 final size:12
Alignment explanation
Indices: 693588--693617 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
693578 AGCCACACGC
693588 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
693600 CCGTGTGCTAGG
1 CCGTGTGCCAGG
693612 CCGTGT
1 CCGTGT
693618 AACTGCCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:699235 original size:40 final size:40
Alignment explanation
Indices: 699180--699255 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
699170 GATGCATAAA
*
699180 AGGGGCACCAAAGTGCAATCA-GGAGCACGAATGTGCGATC
1 AGGGGCACCAAAGTGCAATCAGGGA-CACAAATGTGCGATC
* *
699220 AGGGGCACCGAAGTGCAATTAGGGACACAAATGTGC
1 AGGGGCACCAAAGTGCAATCAGGGACACAAATGTGC
699256 TTTCCAGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (40 bp):
AGGGGCACCAAAGTGCAATCAGGGACACAAATGTGCGATC
Found at i:699243 original size:20 final size:20
Alignment explanation
Indices: 699180--699243 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
699170 GATGCATAAA
*
699180 AGGGGCACCAAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* *
699200 AGGAGCA-CGAATGTGCGATC
1 AGGGGCACCGAA-GTGCAATC
*
699220 AGGGGCACCGAAGTGCAATT
1 AGGGGCACCGAAGTGCAATC
699240 AGGG
1 AGGG
699244 ACACAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.08
20 29 0.81
21 4 0.11
ACGTcount: A:0.31, C:0.20, G:0.36, T:0.12
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAATC
Found at i:699273 original size:40 final size:39
Alignment explanation
Indices: 699240--699322 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
699230 AAGTGCAATT
* *
699240 AGGGACACAAATGTGCT-TTCCAGGGTGCTGAAGTACAAC
1 AGGGACACAAATGTG-TATTCAAGGGTGCCGAAGTACAAC
* *
699279 AGGGGCACAGATGTGTATTCAAGGGTGCCGAAGTACAAAC
1 AGGGACACAAATGTGTATTCAAGGGTGCCGAAGTAC-AAC
699319 AGGG
1 AGGG
699323 GCACTTCTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.03
39 30 0.79
40 7 0.18
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (39 bp):
AGGGACACAAATGTGTATTCAAGGGTGCCGAAGTACAAC
Found at i:719205 original size:60 final size:58
Alignment explanation
Indices: 719127--719290 Score: 168
Period size: 60 Copynumber: 2.8 Consensus size: 58
719117 CTAAATATGA
* * * *
719127 GGATCAACATCTTAACCATTCAAATTATCATTTAGACCAGGTATCACCCTACAAACAGG
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGG-ATCACCCTACAAACAGG
* * * * *
719186 AGGA-TCACTATCCTGACCATTCAAGTTATCATTCAGACTAGGCATCACCCTACGAATAGG
1 -GGATTAAC-ATCCTGACCATTCAAATTATCATTCAGACCAGG-ATCACCCTACAAACAGG
* * * *
719246 GGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGGATCA
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCA
719291 TTCCCGTTGC
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
58 4 0.05
59 32 0.38
60 49 0.58
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (58 bp):
GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCACCCTACAAACAGG
Found at i:728677 original size:63 final size:63
Alignment explanation
Indices: 728492--728713 Score: 245
Period size: 63 Copynumber: 3.6 Consensus size: 63
728482 AGACACCACA
* * * *
728492 TTGTGGCCAAGCCACT-AATATAGCAGACAAGCTGCACATTGTGGTCAAACTACTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* * * * * *
728554 TTGGGGCTAAGCCACTCAATATTGCAGACAAGCTGCACATTCTGGATAAGCCATTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* * * ** * *
728617 TTGTGGCCGAGCCACTCAATATTGCAGATAAGCTACATGTTGTGGACAAGCAACTGAATAACG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* *
728680 TTGTGGCCAAG---CTAAATATTGCAGACAAGTTGCA
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCA
728714 TAATGTTGTG
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
60 19 0.14
62 14 0.11
63 99 0.75
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (63 bp):
TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
Found at i:728850 original size:33 final size:33
Alignment explanation
Indices: 728806--728874 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
728796 GGGCATGCTT
*
728806 AACATGCGAATCAGATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
* *
728839 AACATGTGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
728872 AAC
1 AAC
728875 GTGCTCAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:728897 original size:18 final size:18
Alignment explanation
Indices: 728861--728903 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
728851 AAATTTATAG
*
728861 TCAACATAGTCAACGTGC
1 TCAACATAGTCAACATGC
*
728879 TCAACATAGTCAATATGC
1 TCAACATAGTCAACATGC
*
728897 TTAACAT
1 TCAACAT
728904 GAAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (18 bp):
TCAACATAGTCAACATGC
Found at i:731197 original size:249 final size:250
Alignment explanation
Indices: 730758--731258 Score: 880
Period size: 249 Copynumber: 2.0 Consensus size: 250
730748 AGAGAAGACG
* * * *
730758 GATAGAGTTGCTGAAAGATTATTCCTATGTGATAGGGTATCTCCCTGGAAAGGGAAATATGGTAG
1 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
730823 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
66 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
730888 GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
131 GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
* *
730953 CAAGCCTTAGATGAATAATTGACGAAGAGGGTTCACCAAGTGGTGCAATAAGTGT
196 CAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
*
731008 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATGTGGT-G
1 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
* *
731072 TAGATGCATTAAATAGAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCATAATTGAGTGTGACAA
66 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
* *
731137 GTGATGGGGGATTTATGC-TGGAATTGCAAGTGAGACCAATTTTTTCACATAAAATCAAAGAAAA
131 GTGATGGGGGATTTAT-CTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAA
731201 ACAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
195 ACAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
731257 GA
1 GA
731259 GGGGACCTCA
Statistics
Matches: 239, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
249 180 0.75
250 59 0.25
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (250 bp):
GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
CAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
Found at i:732401 original size:14 final size:14
Alignment explanation
Indices: 732382--732435 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
732372 TGCATAAATT
732382 TTTAAGTTTATTTA
1 TTTAAGTTTATTTA
* *
732396 TTTAAGTTTA-GTG
1 TTTAAGTTTATTTA
732409 TTTAATGTGTTTATTTA
1 TTTAA---GTTTATTTA
732426 TTTAAGTTTA
1 TTTAAGTTTA
732436 ATGTGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 6 0.19
14 15 0.47
16 5 0.16
17 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTAAGTTTATTTA
Found at i:732423 original size:30 final size:32
Alignment explanation
Indices: 732387--732452 Score: 109
Period size: 30 Copynumber: 2.1 Consensus size: 32
732377 AAATTTTTAA
*
732387 GTTTATTTATTTAAGTTT-A-GTGTTTAATGT
1 GTTTATTTATTTAAGTTTAATGTGATTAATGT
732417 GTTTATTTATTTAAGTTTAATGTGATTAATGT
1 GTTTATTTATTTAAGTTTAATGTGATTAATGT
732449 GTTT
1 GTTT
732453 GTTTTAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 18 0.55
31 1 0.03
32 14 0.42
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (32 bp):
GTTTATTTATTTAAGTTTAATGTGATTAATGT
Found at i:733429 original size:18 final size:18
Alignment explanation
Indices: 733406--733530 Score: 83
Period size: 18 Copynumber: 6.6 Consensus size: 18
733396 GAAAGAAAAT
* *
733406 AAAGAAAAAGCAATTGAA
1 AAAGAAAAAGAAAGTGAA
733424 AAAGAAAAAGAAAGTGAA
1 AAAGAAAAAGAAAGTGAA
*
733442 AAAGAAAAAGAGAGTGAGA
1 AAAGAAAAAGAAAGTGA-A
* * *
733461 GAATGAAAAAAGAGATTGAA
1 -AAAG-AAAAAGAAAGTGAA
*
733481 AAGGAAATAA-AAAGT-AA
1 AAAGAAA-AAGAAAGTGAA
* *
733498 CAAAAAAAAAGAAATGAGAGAA
1 -AAAGAAAAAG-AA--AGTGAA
733520 AAAGAAAAAGA
1 AAAGAAAAAGA
733531 GATCAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
17 4 0.05
18 43 0.51
19 8 0.09
20 5 0.06
21 23 0.27
22 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.08
Consensus pattern (18 bp):
AAAGAAAAAGAAAGTGAA
Found at i:733472 original size:57 final size:56
Alignment explanation
Indices: 733410--733542 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 56
733400 GAAAATAAAG
* *
733410 AAAAAGCA-ATTGAAAAAGAAA-AAGAAAGTGAA-AAAGAAAAAGAGAGTGAGAGAATGA
1 AAAAAG-AGATTGAAAAAGAAATAA-AAAGT-AACAAAAAAAAAGA-AATGAGAGAATGA
* **
733467 AAAAAGAGATTGAAAAGGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAAAAA
1 AAAAAGAGATTGAAAAAGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAATGA
**
733523 GAAAAAGAGATCAAAAAAGA
1 -AAAAAGAGATTGAAAAAGA
733543 GCAAAAAGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
56 13 0.20
57 49 0.77
58 2 0.03
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.08
Consensus pattern (56 bp):
AAAAAGAGATTGAAAAAGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAATGA
Found at i:739186 original size:13 final size:13
Alignment explanation
Indices: 739170--739212 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
739160 TTAATATTCT
739170 GCATTAAACAACA
1 GCATTAAACAACA
739183 GCATTAAACAATAGCA
1 GCATTAAAC-A-A-CA
*
739199 ACATTAAACAACA
1 GCATTAAACAACA
739212 G
1 G
739213 TAGCAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.44
14 2 0.08
15 2 0.08
16 10 0.40
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.16
Consensus pattern (13 bp):
GCATTAAACAACA
Found at i:739304 original size:16 final size:16
Alignment explanation
Indices: 739283--739316 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
739273 GTTTGAGACA
739283 TAATTAAGCACTTAAT
1 TAATTAAGCACTTAAT
*
739299 TAATTAAGTACTTAAT
1 TAATTAAGCACTTAAT
739315 TA
1 TA
739317 GGTCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATTAAGCACTTAAT
Found at i:741167 original size:6 final size:6
Alignment explanation
Indices: 741158--741290 Score: 59
Period size: 6 Copynumber: 21.7 Consensus size: 6
741148 TTTTTCAACA
* * * * *
741158 TCTTTT TCTTTT TCAATTT TCTTTTCT TCATTT TCTTTT TCTCTC ACTTTT
1 TCTTTT TCTTTT TC-TTTT TC-TTT-T TCTTTT TCTTTT TCTTTT TCTTTT
** * ** * *** ****
741209 TCAGTT TCTTTT TCTTTT GCAATT TCTTTT TCATTT TCTCGC TCGCAC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
**
741257 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
741291 CTTTTTCGTT
Statistics
Matches: 89, Mismatches: 36, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
6 77 0.87
7 9 0.10
8 3 0.03
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (6 bp):
TCTTTT
Found at i:741190 original size:14 final size:14
Alignment explanation
Indices: 741161--741197 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
741151 TTCAACATCT
741161 TTTTC-TTTTTCAA
1 TTTTCTTTTTTCAA
741174 TTTTCTTTTCTTC-A
1 TTTTCTTTT-TTCAA
741188 TTTTCTTTTT
1 TTTTCTTTTT
741198 CTCTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:741225 original size:18 final size:18
Alignment explanation
Indices: 741144--741288 Score: 83
Period size: 18 Copynumber: 7.6 Consensus size: 18
741134 TTTTCTCTCG
**
741144 TTTCTTTTTCAACATCTT
1 TTTCTTTTTCAATTTCTT
741162 TTTCTTTTTCAATTTTCTTT
1 TTTCTTTTTCAA-TTTC-TT
* ** *
741182 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCAATTTCTT
** *
741201 TCACTTTTTCAGTTTCTT
1 TTTCTTTTTCAATTTCTT
*
741219 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCAATTTCTT
** *
741237 TTTCATTTTCTCGCTCGCACTCTT
1 TTTC-TTTT-TCAAT----TTCTT
*
741261 TTTCTTTTTCACTTTCTT
1 TTTCTTTTTCAATTTCTT
741279 TTTCTTTTTC
1 TTTCTTTTTC
741289 TTCTTTTTCG
Statistics
Matches: 96, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
18 55 0.57
19 8 0.08
20 9 0.09
21 8 0.08
22 4 0.04
23 4 0.04
24 8 0.08
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:743313 original size:23 final size:23
Alignment explanation
Indices: 743281--743392 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
743271 CTTTTTGAAC
* *
743281 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
743304 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
743327 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
743350 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
743373 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
743393 CCCAGAACCG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:743357 original size:46 final size:46
Alignment explanation
Indices: 743281--743392 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
743271 CTTTTTGAAC
* *
743281 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
743327 CCTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
743373 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
743393 CCCAGAACCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:745347 original size:13 final size:13
Alignment explanation
Indices: 745331--745359 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
745321 TTAATATTCT
745331 GCATTAAACAACA
1 GCATTAAACAACA
745344 GCATTAAACAACA
1 GCATTAAACAACA
745357 GCA
1 GCA
745360 GCTAAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (13 bp):
GCATTAAACAACA
Found at i:745449 original size:16 final size:16
Alignment explanation
Indices: 745428--745461 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
745418 GTTTGAGACA
745428 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
745444 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
745460 TA
1 TA
745462 GGTCATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:751001 original size:30 final size:30
Alignment explanation
Indices: 750967--751027 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
750957 ATTAGAAATT
*
750967 ATACTTTCATATGAGCTAATTTATGAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
*
750997 ATACTTTCATCTGAGCTAATTTATCAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
751027 A
1 A
751028 AATTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (30 bp):
ATACTTTCATATGAGCTAATTTATCAACAA
Found at i:751682 original size:40 final size:40
Alignment explanation
Indices: 751627--751706 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
751617 TTGATTGTTG
751627 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
1 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
751667 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
1 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
751707 TTTGCATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (40 bp):
AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
Found at i:759987 original size:60 final size:60
Alignment explanation
Indices: 759892--760075 Score: 235
Period size: 60 Copynumber: 3.1 Consensus size: 60
759882 CTCGGCCATC
* * * *
759892 TATCACCCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTATCATTTAGACTAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
* * * *
759952 TATCACCCTACGAATAGGAGGATCAGCGTCTTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
* * * * * *
760012 TATCACCCTACGAACAGGGGGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
760072 -ATCA
1 TATCA
760076 TTCCCATTAC
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 4 0.04
60 102 0.96
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
Found at i:762198 original size:63 final size:63
Alignment explanation
Indices: 762081--762277 Score: 184
Period size: 63 Copynumber: 3.1 Consensus size: 63
762071 ACCACATTGT
* * * * *
762081 GGCCAAGCCACTCAATA-TAGCAGACAAGCTGTACA--TTATGGTCAAACTACTCAATAATGTTG
1 GGCCAAGCCACTCAATATTA-CAGACAAGC--TACATGTTCTGGACAAGCCATTCAATAATGTTG
762143 G
63 G
* * * * *
762144 GGCTAAGCCACTCAATATTACAGACAAGTTGCATGTTCTGGATAAGCCATTCAATAATGTTGT
1 GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
* * * * * * * *
762207 GGCCAAGCCACTCAATATTGCAGATAAGCTACATGTTGTGGACAAGCAACTGAATAACGTTGT
1 GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
762270 GGCCAAGC
1 GGCCAAGC
762278 TGATTATTGT
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
61 3 0.03
63 105 0.95
64 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (63 bp):
GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
Found at i:762436 original size:33 final size:33
Alignment explanation
Indices: 762391--762463 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
762381 AGGCATGCTT
*
762391 AACATGCAAATCAGATTTATAGTCAACACAGTC
1 AACATGCAAATCAAATTTATAGTCAACACAGTC
*
762424 AACATGCGAATCAAATTTATAGTCAACACAGTC
1 AACATGCAAATCAAATTTATAGTCAACACAGTC
762457 AACATGC
1 AACATGC
762464 TCAACATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.23
Consensus pattern (33 bp):
AACATGCAAATCAAATTTATAGTCAACACAGTC
Found at i:762488 original size:18 final size:18
Alignment explanation
Indices: 762446--762488 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
762436 AAATTTATAG
*
762446 TCAACACAGTCAACATGC
1 TCAACATAGTCAACATGC
*
762464 TCAACATAGTCAATATGC
1 TCAACATAGTCAACATGC
*
762482 TTAACAT
1 TCAACAT
762489 GCAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (18 bp):
TCAACATAGTCAACATGC
Found at i:774685 original size:30 final size:30
Alignment explanation
Indices: 774651--774707 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
774641 AGAAATTATC
774651 CTTTCATATGAGCTAATTTATCAACAATTA
1 CTTTCATATGAGCTAATTTATCAACAATTA
774681 CTTTCATATGAGCTAATTTATCAACAA
1 CTTTCATATGAGCTAATTTATCAACAA
774708 AAAAATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
CTTTCATATGAGCTAATTTATCAACAATTA
Found at i:774723 original size:30 final size:30
Alignment explanation
Indices: 774652--774716 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
774642 GAAATTATCC
** *
774652 TTTCATATGAGCTAATTTATCAACAATTAC
1 TTTCATATGAGCTAATTTATCAACAAAAAA
774682 TTTCATATGAGCTAATTTATCAACAAAAAAA
1 TTTCATATGAGCTAATTTATCAAC-AAAAAA
774713 TTTC
1 TTTC
774717 TCTGAGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTCATATGAGCTAATTTATCAACAAAAAA
Found at i:781353 original size:77 final size:77
Alignment explanation
Indices: 781221--781379 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
781211 ATCATACAAT
* * *
781221 GTTGAAAAGTTTTCAGGTCATTACATAACACGAATGACATCCATCTGAATGCAAAAGTACCATAT
1 GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
781286 GGACATGTGAAA
66 GGACATGTGAAA
*
781298 GTTGTAAAGTTGTCGGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
1 GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
781363 GGACATGTGAAA
66 GGACATGTGAAA
781375 GTTGT
1 GTTGT
781380 CTTATCTTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (77 bp):
GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
GGACATGTGAAA
Found at i:782682 original size:21 final size:21
Alignment explanation
Indices: 782653--782692 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
782643 GAGACGCAGC
782653 CTGACTCTAAATTACAACAGT
1 CTGACTCTAAATTACAACAGT
*
782674 CTGATTCTAAATTACAACA
1 CTGACTCTAAATTACAACA
782693 TCATTTTTAG
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:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
CTGACTCTAAATTACAACAGT
Found at i:783886 original size:60 final size:60
Alignment explanation
Indices: 783793--783942 Score: 201
Period size: 60 Copynumber: 2.5 Consensus size: 60
783783 CTCGGCCATC
* * * *
783793 TATCACTCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTTAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
* * * *
783853 TATCACCCTACGAATAGGAGGATCAGCGTCCTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
* * *
783913 TATCACCCTACGAACAGGGGGATTAACATC
1 TATCACCCTACGAATAGGAGGATCAACATC
783943 TTGGTCAGTC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
Found at i:783960 original size:60 final size:60
Alignment explanation
Indices: 783793--783976 Score: 174
Period size: 60 Copynumber: 3.1 Consensus size: 60
783783 CTCGGCCATC
* * * * * * * *
783793 TATCACTCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTTAGACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
* * * *
783853 TATCACCCTACGAATAGGAGGATCAGCGTCCTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
* * * ** * *
783913 TATCACCCTACGAACAGGGGGATTAACATCTTGGTCAGTCATA-TTATCATTGAGACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCA-AGTTATCATTCACACCAGG
783973 -ATCA
1 TATCA
783977 TTCCCATTAC
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 99 0.95
61 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (60 bp):
TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
Found at i:795307 original size:27 final size:27
Alignment explanation
Indices: 795266--795568 Score: 228
Period size: 27 Copynumber: 11.3 Consensus size: 27
795256 TACCTAGACT
*
795266 GAAATACCCTTGAT-GGGTAAAATGACC
1 GAAATACCC-CGATAGGGTAAAATGACC
*
795293 GAAATACCCTCGAT-GGGTAAACTGACC
1 GAAATACCC-CGATAGGGTAAAATGACC
* * *
795320 GAAATGCCCCTATAGGGTAAAATGACT
1 GAAATACCCCGATAGGGTAAAATGACC
* * **
795347 GAAATGCCCCTATAGGGTAAAACAACC
1 GAAATACCCCGATAGGGTAAAATGACC
* * *
795374 GAAATACCCTC-AT-GAGTAAAAGGACT
1 GAAATACCC-CGATAGGGTAAAATGACC
* * * * *
795400 GCAATGCCCCTATAAGGTAAAATGATC
1 GAAATACCCCGATAGGGTAAAATGACC
*
795427 GAAATACCCC-AGTAGGGTAGAAT-ACC
1 GAAATACCCCGA-TAGGGTAAAATGACC
* *
795453 GAAATACCCCCATAGGGTAAAATGATC
1 GAAATACCCCGATAGGGTAAAATGACC
* *
795480 GTAATATCCCTG-TAGGGTAAAATGACC
1 GAAATA-CCCCGATAGGGTAAAATGACC
* *
795507 GTAATGCCCCTG-TAGGGTAAAATGACC
1 GAAATACCCC-GATAGGGTAAAATGACC
* * * *
795534 GTAATGCCCTG-TAGGGTAAAATGACT
1 GAAATACCCCGATAGGGTAAAATGACC
*
795560 GTAATACCC
1 GAAATACCC
795569 TGGTGGGTAA
Statistics
Matches: 230, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.00
26 70 0.30
27 155 0.67
28 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
GAAATACCCCGATAGGGTAAAATGACC
Found at i:795472 original size:53 final size:53
Alignment explanation
Indices: 795280--795558 Score: 258
Period size: 53 Copynumber: 5.2 Consensus size: 53
795270 TACCCTTGAT
* * * *
795280 GGGTAAAATGACCGAAATACCCTCGAT-GGGTAAACTGACCGAAATGCCCCTATA
1 GGGTAAAATGACCGAAATGCCC-CTATAGGGTAAAATGACCGAAATACCCC-ATA
* **
795334 GGGTAAAATGACTGAAATGCCCCTATAGGGTAAAACAACCGAAATACCCTCAT-
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCC-CATA
* * * * * *
795387 GAGTAAAAGGACTGCAATGCCCCTATAAGGTAAAATGATCGAAATACCCCAGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCA-TA
* * * * * **
795441 GGGTAGAAT-ACCGAAATACCCCCATAGGGTAAAATGATCGTAATATCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATA-CCCCATA
* * * * **
795494 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCATA
795547 GGGTAAAATGAC
1 GGGTAAAATGAC
795559 TGTAATACCC
Statistics
Matches: 187, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 105 0.56
54 79 0.42
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (53 bp):
GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCATA
Found at i:795564 original size:80 final size:81
Alignment explanation
Indices: 795280--795568 Score: 284
Period size: 80 Copynumber: 3.6 Consensus size: 81
795270 TACCCTTGAT
* * * *
795280 GGGTAAAATGACCGAAATACCCTCG-ATGGGTAAACTGACCGAAATGCCCCTATAGGGTAAAATG
1 GGGTAAAATGACCGAAATACCCT-GTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATG
* *
795344 ACTGAAATGCCCCTATA
65 ACCGAAATGCCCCTGTA
** * * * * * *
795361 GGGTAAAACAACCGAAATACCCT-CATGAGTAAAAGGACTGCAATGCCCCTATAAGGTAAAATGA
1 GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
* * *
795425 TCGAAATACCCCAGTA
66 CCGAAATGCCCCTGTA
* ** * *
795441 GGGTAGAAT-ACCGAAATACCC-CCATAGGGTAAAATGA-TCGTAATATCCCTGTAGGGTAAAAT
1 GGGTAAAATGACCGAAATACCCTGTAT-GGGTAAAATGACT-GTAATACCCCTATAGGGTAAAAT
*
795503 GACCGTAATGCCCCTGTA
64 GACCGAAATGCCCCTGTA
* *
795521 GGGTAAAATGACCGTAATGCCCTGTA-GGGTAAAATGACTGTAATACCC
1 GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCC
795569 TGGTGGGTAA
Statistics
Matches: 169, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
79 16 0.09
80 120 0.71
81 32 0.19
82 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (81 bp):
GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
CCGAAATGCCCCTGTA
Found at i:795678 original size:24 final size:24
Alignment explanation
Indices: 795613--795678 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
795603 CAAATGATTG
* *
795613 TTGTCTATGGTT-AAATGACTGAT
1 TTGTCTATGTTTGGAATGACTGAT
*
795636 TTGTCTATGTTTGGTATGACTGAT
1 TTGTCTATGTTTGGAATGACTGAT
*
795660 TTGTCTGTGATTT-GAATGA
1 TTGTCTATG-TTTGGAATGA
795679 ATGGTTATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.31
24 22 0.61
25 3 0.08
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (24 bp):
TTGTCTATGTTTGGAATGACTGAT
Found at i:795809 original size:27 final size:27
Alignment explanation
Indices: 795753--795810 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
795743 GGAAGGATTG
* *
795753 TACTGGTGGTTCTGCCACAATCACTGT
1 TACTGGTGGTTCGGCCACAATCACTAT
795780 TACTGGTGGCTT-GGCCACATAT-ACTAT
1 TACTGGTGG-TTCGGCCACA-ATCACTAT
795807 TACT
1 TACT
795811 AGCAGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGGTGGTTCGGCCACAATCACTAT
Found at i:795968 original size:32 final size:32
Alignment explanation
Indices: 795856--795968 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
795846 GCTGCGATGC
* *
795856 TACTGATGGCTTTGTCCTGATCATAGTACCGT
1 TACTGATGGCTTTGTACTGATCATAGTACCAT
* * * *
795888 TACTAATGGCCTTGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTACTGATCATAGTACCAT
795920 TACTGATGGCTTTGTACTGATCATA-TGACCAT
1 TACTGATGGCTTTGTACTGATCATAGT-ACCAT
*
795952 TACTGATGGCTATGTAC
1 TACTGATGGCTTTGTAC
795969 CAATCATTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
31 1 0.01
32 69 0.99
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTACTGATCATAGTACCAT
Found at i:795975 original size:32 final size:32
Alignment explanation
Indices: 795856--796038 Score: 140
Period size: 32 Copynumber: 5.7 Consensus size: 32
795846 GCTGCGATGC
*
795856 TACTGATGGCTTTGT-CCTGATCATA-GTACCGT
1 TACTGATGGCTTTGTGCC-AATCATATG-ACCGT
* * * *
795888 TACTAATGGCCTTGTGCCGATCATA-GTACCAT
1 TACTGATGGCTTTGTGCCAATCATATG-ACCGT
* ** *
795920 TACTGATGGCTTTGTACTGATCATATGACCAT
1 TACTGATGGCTTTGTGCCAATCATATGACCGT
* * * * **
795952 TACTGATGGCTATGTACCAATCATTTCATTGT
1 TACTGATGGCTTTGTGCCAATCATATGACCGT
* * *
795984 TACTGATGG-TTGTGTGCCAATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATGACCGT
796016 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCAATCA
796039 CATTACTGTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.01
32 121 0.95
33 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATGACCGT
Done.