Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 60 of 333
Found at i:17634468 original size:16 final size:16
Alignment explanation
Indices: 17634444--17634490 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17634434 TGTTATTAAA
*
17634444 TTATATAATTTTATTT
1 TTATATAATTATATTT
*
17634460 TTATTTAATTATATTT
1 TTATATAATTATATTT
*
17634476 AGTA-ATAATTATATT
1 -TTATATAATTATATT
17634491 AAAACATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 24 0.92
17 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATATAATTATATTT
Found at i:17647538 original size:20 final size:20
Alignment explanation
Indices: 17647513--17647552 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17647503 CCACTTCATT
17647513 TTGCTTAAATTGAGTTAGGG
1 TTGCTTAAATTGAGTTAGGG
17647533 TTGCTTAAATTGAGTTAGGG
1 TTGCTTAAATTGAGTTAGGG
17647553 AAAATTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (20 bp):
TTGCTTAAATTGAGTTAGGG
Found at i:17650292 original size:7 final size:7
Alignment explanation
Indices: 17650280--17650312 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17650270 TTACTAATTT
17650280 AAATATA
1 AAATATA
17650287 AAATATA
1 AAATATA
*
17650294 AATTATA
1 AAATATA
17650301 AAATATA
1 AAATATA
17650308 AAATA
1 AAATA
17650313 ATTAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:17660332 original size:21 final size:21
Alignment explanation
Indices: 17660306--17660346 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17660296 ATCTGCTCAA
* *
17660306 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
17660327 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
17660347 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:17663265 original size:27 final size:27
Alignment explanation
Indices: 17663202--17663266 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
17663192 CTGCACACGG
* *
17663202 CAAACGTTTCGTGGGTTCCCCAAACCA
1 CAAACGTTTCATGGATTCCCCAAACCA
* * *
17663229 TAAACATTTCATGGATTCCCCAAACTA
1 CAAACGTTTCATGGATTCCCCAAACCA
*
17663256 CGAACGTTTCA
1 CAAACGTTTCA
17663267 ACTGATCAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CAAACGTTTCATGGATTCCCCAAACCA
Found at i:17667146 original size:42 final size:43
Alignment explanation
Indices: 17667099--17667211 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
17667089 TGTGTTTTCG
17667099 TGTAAGACCACATCTGGGACATTGGCATC-AT-TTGAGATTTA-A
1 TGTAAGACCACATCTGGGACATTGGCATCGATATT-AGA-TTACA
* * * *
17667141 TGTAAGACC-CTGTCTGGGACAGTGGCGTCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCGATATTAGATTACA
17667184 TGTAAGACCACATCTGGGACATTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
17667212 TGTACGAGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.46
43 28 0.47
44 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATATTAGATTACA
Found at i:17671678 original size:43 final size:43
Alignment explanation
Indices: 17671617--17671698 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
17671607 GTGAGAAATG
17671617 TCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGATAATT
1 TCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGATAATT
*
17671660 TCATGTTTATTCTGATCATAAAAGTTTGAAATATTTGAT
1 TCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGAT
17671699 GACTGAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (43 bp):
TCATGTTTATTCTGATCATAAAAGTTTGAAATATCTGATAATT
Found at i:17674483 original size:38 final size:38
Alignment explanation
Indices: 17674382--17674509 Score: 157
Period size: 38 Copynumber: 3.3 Consensus size: 38
17674372 AAACCAGAAC
* * * *
17674382 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
17674422 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
17674460 ATAATACCAACACGAAGCATGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
17674498 ATAATTCCAGCA
1 ATAATACCAGCA
17674510 TATAGCCTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 51 0.67
39 3 0.04
40 22 0.29
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:17678186 original size:29 final size:30
Alignment explanation
Indices: 17678150--17678341 Score: 123
Period size: 29 Copynumber: 6.6 Consensus size: 30
17678140 GTTGAAGAAC
**
17678150 TCGCACACACAGTGCCTCAATTACCGGTCT
1 TCGCACACACAGTGCCTCAATTACCGGAAT
* ** **
17678180 T-GCACACATAGTG-CTCGGTTAAAGGAAT
1 TCGCACACACAGTGCCTCAATTACCGGAAT
17678208 TCGCACACACAGTGCCTCAATTACC--AAT
1 TCGCACACACAGTGCCTCAATTACCGGAAT
* * * ** *
17678236 CTCGAACACATAATG-CTCGGTTGA-AGGAAT
1 -TCGCACACACAGTGCCTCAATT-ACCGGAAT
17678266 TCGCACACACAGTGCCTCAATTACC-G-AT
1 TCGCACACACAGTGCCTCAATTACCGGAAT
* ** **
17678294 CTCGCACACATAGTG-CTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCCTCAATTACCGGAAT
*
17678324 TTGCACACACAGTGCCTC
1 TCGCACACACAGTGCCTC
17678342 TAATCATTCG
Statistics
Matches: 119, Mismatches: 31, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
28 26 0.22
29 73 0.61
30 20 0.17
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (30 bp):
TCGCACACACAGTGCCTCAATTACCGGAAT
Found at i:17678226 original size:58 final size:58
Alignment explanation
Indices: 17678115--17678341 Score: 366
Period size: 58 Copynumber: 3.9 Consensus size: 58
17678105 GTGCCCACTG
* *
17678115 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
17678172 ACCGGTCTTGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* * * *
17678230 ACCAATCTCGAACACATAATGCTCGGTTGAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
17678288 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
17678342 TAATCATTCG
Statistics
Matches: 154, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
57 28 0.18
58 126 0.82
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:17678559 original size:43 final size:43
Alignment explanation
Indices: 17678495--17678596 Score: 150
Period size: 43 Copynumber: 2.3 Consensus size: 43
17678485 CCTTGCTCGA
** *
17678495 ATCACCGGCATTAAGCTTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
17678538 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
17678581 ATCACTAGGCACGAAG
1 ATCAC-CGGCACGAAG
17678597 GCCCGAATAC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 44 0.83
44 9 0.17
ACGTcount: A:0.31, C:0.30, G:0.25, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:17678597 original size:28 final size:28
Alignment explanation
Indices: 17678557--17678613 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
17678547 ACGAAGCCTG
*
17678557 CTAGGCACGAAGGCCCGAATACATATCA
1 CTAGGCACGAAGGCCCGAATACACATCA
17678585 CTAGGCACGAAGGCCCGAATACACATCA
1 CTAGGCACGAAGGCCCGAATACACATCA
17678613 C
1 C
17678614 CGGCATGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.21, T:0.12
Consensus pattern (28 bp):
CTAGGCACGAAGGCCCGAATACACATCA
Found at i:17678630 original size:71 final size:71
Alignment explanation
Indices: 17678514--17678656 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
17678504 ATTAAGCTTG
*
17678514 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATAC
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATAC
*
17678579 ATATCA
66 ACATCA
*
17678585 CTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCAAATAC
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATAC
17678650 ACATCA
66 ACATCA
17678656 C
1 C
17678657 CGAGTTTCAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.11
Consensus pattern (71 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATAC
ACATCA
Found at i:17684084 original size:42 final size:43
Alignment explanation
Indices: 17683984--17684156 Score: 176
Period size: 43 Copynumber: 4.0 Consensus size: 43
17683974 AGCTCGTACA
* *
17683984 ATGCCAACGTCCCAGACGTGGTCTTAC-CTGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-GAAATCAAATATCG
*
17684027 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* ** *
17684069 ATGCCAATGTCCCAGACATGGTCAAACACGTAAATCACAA-ATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* * *
17684113 ATGCCAACGTCCTAGACGTGGTCTTACACGATAA-CACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCAAATATCG
17684156 A
1 A
17684157 AATCCTATGT
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
42 29 0.27
43 47 0.44
44 31 0.29
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:17686057 original size:15 final size:15
Alignment explanation
Indices: 17686019--17686064 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
17686009 AAAGATTATT
17686019 ATAAAGGTTAA-ATTA
1 ATAAAGGTTAATA-TA
*
17686034 GTAAA--TTAATATA
1 ATAAAGGTTAATATA
17686047 ATAAAGGTTAATATA
1 ATAAAGGTTAATATA
17686062 ATA
1 ATA
17686065 TAACAACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (15 bp):
ATAAAGGTTAATATA
Found at i:17695360 original size:12 final size:12
Alignment explanation
Indices: 17695343--17695372 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17695333 GTTAGTTATG
17695343 TTTTGGTAATGA
1 TTTTGGTAATGA
17695355 TTTTGGTAATGA
1 TTTTGGTAATGA
17695367 TTTTGG
1 TTTTGG
17695373 CCATTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (12 bp):
TTTTGGTAATGA
Found at i:17701656 original size:46 final size:45
Alignment explanation
Indices: 17701599--17701775 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
17701589 ATATTTGGGC
17701599 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *** * *
17701644 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-G-C
1 -ATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
*
17701692 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
17701737 CGCACGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 ATC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17701776 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 67 0.61
47 33 0.30
48 1 0.01
49 2 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (45 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:17701755 original size:93 final size:93
Alignment explanation
Indices: 17701596--17701767 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
17701586 AGGATATTTG
*
17701596 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAGCCGAACTCGTTGAG
17701661 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
17701689 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-CGCACGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAGC-CGAACTCGTTGA
*
17701753 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
17701768 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATAGCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17706010 original size:8 final size:8
Alignment explanation
Indices: 17705997--17706028 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
17705987 CTAGATCGGC
17705997 AAAAGCCG
1 AAAAGCCG
17706005 AAAAGCCG
1 AAAAGCCG
*
17706013 AAATGCCG
1 AAAAGCCG
17706021 AAAAGCCG
1 AAAAGCCG
17706029 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:17706316 original size:28 final size:28
Alignment explanation
Indices: 17706272--17706339 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
17706262 TAGATGTACT
*
17706272 ATTATACCCCTACGTATGCAAAATTACC
1 ATTATACCCCTACGTATGCAAAATGACC
*
17706300 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTACGTATGCAAAATGACC
*
17706328 TTTATACCCCTA
1 ATTATACCCCTA
17706340 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (28 bp):
ATTATACCCCTACGTATGCAAAATGACC
Found at i:17706476 original size:28 final size:26
Alignment explanation
Indices: 17706445--17706534 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 26
17706435 AGGAAGCGTC
17706445 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* * *
17706473 CTGGTGGCCCTGCCAGATATATCTGTT
1 CTGGTGG-CATGCCACAAATATCTGTT
17706500 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
17706529 CTGGTG
1 CTGGTG
17706535 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 20 0.38
28 23 0.44
29 8 0.15
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:17706503 original size:27 final size:28
Alignment explanation
Indices: 17706445--17706534 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
17706435 AGGAAGCGTC
*
17706445 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
17706473 CTGGTGGCCCTGCCA-GATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
17706500 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
17706529 CTGGTG
1 CTGGTG
17706535 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:17708851 original size:48 final size:48
Alignment explanation
Indices: 17708747--17708922 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
17708737 GTAGACTAAA
** * * *
17708747 TGCCAATATCATGGCCCAAAGCCAACTCAAT--ATCTCGCACCCAAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
*
17708793 TGCTAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
* *
17708841 TGCCAATATCATAGCCTGAAGCCAAATCAATGAAGCTCGCACCTGAAG
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
*
17708889 TGCCAATATCATGGCCTGAAGCCAAATAAATGAA
1 TGCCAATATCATGGCCTGAAGCCAAATCAATGAA
17708923 TCCCCTAATG
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 27 0.23
48 90 0.77
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.19
Consensus pattern (48 bp):
TGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGCACCCGAAG
Found at i:17713172 original size:42 final size:43
Alignment explanation
Indices: 17713083--17713195 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 43
17713073 TGCGATAACA
*
17713083 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTAGGACATTGGCATTCTATTGAGATTACG
* * * **
17713126 TGTAAGACCATGTTTGGGACATTGGCA-TCTATTGTGATTTTG
1 TGTAAGACCATGTCTAGGACATTGGCATTCTATTGAGATTACG
* * * *
17713168 TGTAAGACCCTATCTAGGATAGTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
17713196 CGATATGTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 32 0.56
43 25 0.44
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATTCTATTGAGATTACG
Found at i:17745773 original size:21 final size:20
Alignment explanation
Indices: 17745730--17745773 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17745720 ATTTCCCACG
*
17745730 TTGGCCCGTTTTCTCTATTT
1 TTGGCCCGTTTTCGCTATTT
*
17745750 TTGGCCCGTTTCTCGCTCTTT
1 TTGGCCCGTTT-TCGCTATTT
17745771 TTG
1 TTG
17745774 CCCTCCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.02, C:0.27, G:0.18, T:0.52
Consensus pattern (20 bp):
TTGGCCCGTTTTCGCTATTT
Found at i:17750451 original size:15 final size:16
Alignment explanation
Indices: 17750431--17750465 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
17750421 ATTACCAGGT
17750431 AAGTTCGTGTAACTC-
1 AAGTTCGTGTAACTCG
17750446 AAGTTCGTGTAACTCG
1 AAGTTCGTGTAACTCG
17750462 AAGT
1 AAGT
17750466 AGACTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (16 bp):
AAGTTCGTGTAACTCG
Found at i:17751458 original size:19 final size:19
Alignment explanation
Indices: 17751434--17751479 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17751424 GTAAACCTAC
*
17751434 TAAATGTGCATGTTATGCT
1 TAAATGTGCATGTGATGCT
* *
17751453 TAAATGTTCATGTGATGGT
1 TAAATGTGCATGTGATGCT
17751472 TAAATGTG
1 TAAATGTG
17751480 GTATATCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (19 bp):
TAAATGTGCATGTGATGCT
Found at i:17754523 original size:30 final size:30
Alignment explanation
Indices: 17754487--17754550 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
17754477 ATGGCAATTG
* *
17754487 AGTAATAATTAGCGTGCACTCTAGATTCTA
1 AGTAATAATTAGCATGCACTCTAGAGTCTA
17754517 AGTAATAATTAGCATGCACTCTAGAGTCTA
1 AGTAATAATTAGCATGCACTCTAGAGTCTA
17754547 AGTA
1 AGTA
17754551 GTTACTGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (30 bp):
AGTAATAATTAGCATGCACTCTAGAGTCTA
Found at i:17757108 original size:44 final size:41
Alignment explanation
Indices: 17757059--17757152 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 41
17757049 TGTGTTTTTG
*
17757059 TGTAAGACCATGTCTGTGACATTGGCATCG-AGTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATT-GCATCGTA-TT-TGATTT-CA
*
17757103 TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCA
17757144 TGTAAGACC
1 TGTAAGACC
17757153 CTATCTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
41 10 0.21
42 6 0.13
43 8 0.17
44 23 0.49
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGCATCGTATTTGATTTCA
Found at i:17763596 original size:13 final size:13
Alignment explanation
Indices: 17763578--17763615 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
17763568 ATTTGATATC
*
17763578 TGTGAAAGTTTTG
1 TGTGAAAATTTTG
*
17763591 TGTGAAAATTTCG
1 TGTGAAAATTTTG
17763604 TGTGAAAATTTT
1 TGTGAAAATTTT
17763616 ATCGTTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:17764821 original size:42 final size:43
Alignment explanation
Indices: 17764762--17764871 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
17764752 ATTTACGTGC
* * * *
17764762 AAGACCATCG-CTAGGACATTGGCATC-GTATTTGATTTCGTGT
1 AAGACCA-CGTCTGGGACATTGGCATCAATATTTGATTACATGT
* *
17764804 AAGACC-CTGTTTGGGACAGTGGCATCAATATTTGATTACATGT
1 AAGACCAC-GTCTGGGACATTGGCATCAATATTTGATTACATGT
17764847 AAGACCACGTCTGGGACATTGGCAT
1 AAGACCACGTCTGGGACATTGGCAT
17764872 GGTACAAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 19 0.34
43 34 0.61
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
AAGACCACGTCTGGGACATTGGCATCAATATTTGATTACATGT
Found at i:17768252 original size:6 final size:6
Alignment explanation
Indices: 17768241--17768282 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
17768231 AATCATTTCC
*
17768241 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTC CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
17768283 GATAAAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (6 bp):
CATTTT
Found at i:17768264 original size:18 final size:18
Alignment explanation
Indices: 17768233--17768282 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
17768223 TGCAAATGAA
17768233 TCATTTCCCATTTTCATTT
1 TCATTT-CCATTTTCATTT
*
17768252 TCATTTTCATTTTCATTT
1 TCATTTCCATTTTCATTT
17768270 TCATTTCCATTTT
1 TCATTTCCATTTT
17768283 GATAAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (18 bp):
TCATTTCCATTTTCATTT
Found at i:17773471 original size:27 final size:27
Alignment explanation
Indices: 17773433--17773486 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
17773423 TTACTTAATT
17773433 TTTTTTATTGTTCATTTACAATTTTAA
1 TTTTTTATTGTTCATTTACAATTTTAA
*
17773460 TTTTTTATTGTTCATTTACCATTTTAA
1 TTTTTTATTGTTCATTTACAATTTTAA
17773487 CCTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTTTATTGTTCATTTACAATTTTAA
Found at i:17776060 original size:77 final size:77
Alignment explanation
Indices: 17775933--17776075 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 77
17775923 AGACATTGAG
* * *
17775933 TTGGCTTCAGGCCATGATATTAGCACTTCGGGTACGAGTTATACTGATTTGGCTTCGGGCCATGA
1 TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATACTGATTTGGCTTCGGGCCATGA
17775998 TTATCGACTAAT
66 TTATCGACTAAT
* * * * *
17776010 TTGGCTTCGGGCCATGATATCAGTACTTTGGATATAAGTTA-CCTTGATTTGGCTTCGGGCCATG
1 TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATAC-TGATTTGGCTTCGGGCCATG
17776074 AT
65 AT
17776076 ATAAGTACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 1 0.02
77 56 0.98
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (77 bp):
TTGGCTTCAGGCCATGATATCAGCACTTCGGATACAAGTTATACTGATTTGGCTTCGGGCCATGA
TTATCGACTAAT
Found at i:17790603 original size:15 final size:16
Alignment explanation
Indices: 17790574--17790604 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17790564 CAAACATGCT
17790574 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17790590 TTAACACA-TATCAAA
1 TTAACACATTATCAAA
17790605 AAGGCACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17792415 original size:13 final size:13
Alignment explanation
Indices: 17792399--17792423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17792389 TTAAATTAGT
17792399 TAATTAGTTTAAA
1 TAATTAGTTTAAA
17792412 TAATTAGTTTAA
1 TAATTAGTTTAA
17792424 TAAAAAATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:17796824 original size:26 final size:26
Alignment explanation
Indices: 17796793--17796900 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
17796783 TGAAATGCCC
*
17796793 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17796819 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17796845 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17796871 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17796897 ATCA
1 ATCA
17796901 ATTTTTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17803878 original size:26 final size:26
Alignment explanation
Indices: 17803843--17803950 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
17803833 TGAAATGCCC
*
17803843 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
17803869 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17803895 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17803921 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17803947 ATCA
1 ATCA
17803951 ATTTTTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17808910 original size:40 final size:40
Alignment explanation
Indices: 17808827--17809089 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
17808817 TTGAATGCTG
* * * * * *
17808827 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
17808867 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17808907 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
17808947 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
17808987 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17809027 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17809066 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17809090 TGAACGAGGT
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17816854 original size:40 final size:40
Alignment explanation
Indices: 17816771--17817033 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
17816761 TTGAATGCTG
* * * * * *
17816771 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
17816811 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17816851 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
17816891 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17816931 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17816971 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17817010 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17817034 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17817053 original size:79 final size:80
Alignment explanation
Indices: 17816810--17817068 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
17816800 AAGTGAATAT
* * * * * *
17816810 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
17816874 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
17816890 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
17816955 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
17816970 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
17817034 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
17817049 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
17817069 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:17835434 original size:86 final size:86
Alignment explanation
Indices: 17835289--17835637 Score: 520
Period size: 86 Copynumber: 4.1 Consensus size: 86
17835279 AGTGAAAATT
* * * * * * *
17835289 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCGT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
17835354 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
17835375 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
17835440 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
17835461 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
17835526 GCACTGATAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
17835547 GAAGAC-AACCTTGCCTCTCTCGTTTGTAGCGGAGCTAGTTGAAGATATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
17835611 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
*
17835633 AAAGA
1 GAAGA
17835638 TGGCAGATTT
Statistics
Matches: 242, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
85 55 0.23
86 187 0.77
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:17835476 original size:42 final size:42
Alignment explanation
Indices: 17835343--17835476 Score: 96
Period size: 42 Copynumber: 3.1 Consensus size: 42
17835333 GTTATCAGAT
*
17835343 CTTGCCTTCGTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
17835385 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
17835429 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
17835471 CTTGCC
1 CTTGCC
17835477 ACTCTCGTTT
Statistics
Matches: 63, Mismatches: 19, Indels: 20
0.62 0.19 0.20
Matches are distributed among these distances:
40 1 0.02
41 13 0.21
42 19 0.30
43 2 0.03
44 14 0.22
45 13 0.21
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:17836126 original size:136 final size:136
Alignment explanation
Indices: 17835585--17836539 Score: 1760
Period size: 136 Copynumber: 7.1 Consensus size: 136
17835575 GCGGAGCTAG
17835585 TTGAAGATAT-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
17835649 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA-TTGGCAGTG
65 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
17835713 GAATAGA
130 GAATAGA
*
17835720 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGA-TTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
17835784 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
17835849 AATAGA
131 AATAGA
*
17835855 TTAAAGATTGCAGATCTTGCCTTCCTGTATTT-GCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
17835919 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
17835984 AATAGA
131 AATAGA
*
17835990 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
17836055 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
17836120 AATAGA
131 AATAGA
17836126 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
17836191 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
17836256 AATAGA
131 AATAGA
17836262 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
17836327 CCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
17836392 AATAGA
131 AATAGA
*
17836398 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* * * *
17836463 CCTCC--CTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCTCTGCATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
*
17836526 AAGAGA
131 AATAGA
17836532 TTGAAGAT
1 TTGAAGAT
17836540 CAAAGATGGC
Statistics
Matches: 801, Mismatches: 15, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
134 150 0.19
135 210 0.26
136 441 0.55
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (136 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
AATAGA
Found at i:17836549 original size:95 final size:95
Alignment explanation
Indices: 17836441--17836634 Score: 327
Period size: 95 Copynumber: 2.0 Consensus size: 95
17836431 GCAGCGAAGC
17836441 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTAAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATG-GGAGTACATTAAAGCCGATAACTCTA
*
17836505 TCTCTCTGCATTTGGCAGTGGAAGAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAAGAGATTGA
* *
17836536 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
* *
17836601 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAAGAGATTGA
17836631 AGAT
1 AGAT
17836635 TGTAGATCTT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 92 0.99
96 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAAGAGATTGA
Found at i:17836595 original size:229 final size:230
Alignment explanation
Indices: 17836305--17836722 Score: 723
Period size: 229 Copynumber: 1.8 Consensus size: 230
17836295 GCAGCGAAGC
* * *
17836305 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
17836370 ATCTCCCTGTATTTGGCAGTGGAATAGATTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
17836435 CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAA
130 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAA
17836500 CTCTATCTCTCTGCATTTGGCAGTGGAAGAGATTGA
195 CTCTATCTCTCTGCATTTGGCAGTGGAAGAGATTGA
*
17836536 AGATCAAAGATGGCAGATTTTACTTCC-CTGACTACA-TGGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGT-GGAGTACATTGAAGCCGATAACTCT
*
17836599 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
* *
17836664 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGC
130 CAAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGC
17836723 TAATAGTTCT
Statistics
Matches: 177, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
228 1 0.01
229 150 0.85
231 26 0.15
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (230 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
AAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAAC
TCTATCTCTCTGCATTTGGCAGTGGAAGAGATTGA
Found at i:17836910 original size:44 final size:44
Alignment explanation
Indices: 17836747--17837176 Score: 300
Period size: 44 Copynumber: 9.8 Consensus size: 44
17836737 CCCGGGGCAA
* * * * *
17836747 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGG-CGT
* * * * * *
17836791 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGG-CGT
* * * * *
17836835 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCGT
* * * **
17836879 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTG-GCGT
* * * * *
17836923 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGG-CGT
* * * * *
17836967 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCGT
* * * **
17837011 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTG-GCGT
* * * * *
17837055 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGG-CGT
* * * * *
17837099 GAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCGT
* * *
17837142 GAAGTAGATTGAAGATTA-CAGATCTTATCTCCCTA
1 GAAGTAGATCGAAGA-TAGCAGATCTTGTCTTCCTA
17837177 AGCAGTAGTG
Statistics
Matches: 292, Mismatches: 82, Indels: 24
0.73 0.21 0.06
Matches are distributed among these distances:
43 83 0.28
44 156 0.53
45 53 0.18
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCGT
Found at i:17836984 original size:132 final size:132
Alignment explanation
Indices: 17836747--17837157 Score: 698
Period size: 132 Copynumber: 3.1 Consensus size: 132
17836737 CCCGGGGCAA
* * * * * * **
17836747 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
17836812 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
17836877 GT
131 GT
17836879 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
17836944 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
17837009 GT
131 GT
17837011 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
* * *
17837076 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
*
17837140 AT
131 GT
*
17837142 GAAGTAGATTGAAGAT
1 GAAGTAGATCGAAGAT
17837158 TACAGATCTT
Statistics
Matches: 266, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 28 0.11
132 238 0.89
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:17839542 original size:15 final size:15
Alignment explanation
Indices: 17839522--17839555 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17839512 TTACTTTTTG
* *
17839522 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
17839537 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
17839552 TTAT
1 TTAT
17839556 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:17843132 original size:28 final size:28
Alignment explanation
Indices: 17843092--17843170 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
17843082 GCAATCAAAT
* * *
17843092 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
17843120 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
17843148 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
17843171 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:17845398 original size:13 final size:13
Alignment explanation
Indices: 17845382--17845414 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17845372 TTTAATTAAA
*
17845382 TTAGTTAATTAGT
1 TTAGATAATTAGT
17845395 TTAGATAATTAGT
1 TTAGATAATTAGT
17845408 TTA-ATAA
1 TTAGATAA
17845415 AAAAAATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:17848275 original size:8 final size:8
Alignment explanation
Indices: 17848262--17848292 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
17848252 AGAAAGTTTA
17848262 TATATATG
1 TATATATG
17848270 TATATATG
1 TATATATG
17848278 TATATATG
1 TATATATG
17848286 TATATAT
1 TATATAT
17848293 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:17858564 original size:60 final size:61
Alignment explanation
Indices: 17858471--17858585 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 61
17858461 TTCTATAATA
17858471 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGA-CAAAAAAATTTGAT
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
* * *
17858531 AAAATTAGATCCATGGCACTTGATTGTCGTGAGAGTATAATTAGGACCAAAAAAA
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAA
17858586 AAAATGTAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 43 0.84
61 8 0.16
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (61 bp):
AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
Found at i:17869161 original size:20 final size:20
Alignment explanation
Indices: 17869138--17869183 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
17869128 TTTTAAAATC
*
17869138 TAATATGTTTTA-TTTTTCTT
1 TAATATGTTGTACTTTTT-TT
*
17869158 TAATTTGTTGTACTTTTTTT
1 TAATATGTTGTACTTTTTTT
17869178 T-ATATG
1 TAATATG
17869184 ATTGAAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (20 bp):
TAATATGTTGTACTTTTTTT
Found at i:17871367 original size:47 final size:46
Alignment explanation
Indices: 17871303--17871413 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 46
17871293 GACATTGATT
17871303 CGATG-AGACACTATGTGTCGACTAT-TGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGT--ACTATATGTTAAAGTTCCGGATTTGTTC
* *
17871350 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACTAT-ATGTTAAAGTTCCGGATTTGTTC
17871397 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
17871414 CTTATCCCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 5 0.09
47 50 0.88
48 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (46 bp):
CGATGAAGCACTATGTGTACTATATGTTAAAGTTCCGGATTTGTTC
Found at i:17888161 original size:17 final size:17
Alignment explanation
Indices: 17888139--17888178 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17888129 AATTTCCAAA
17888139 AAAAAATTCAAAAATTC
1 AAAAAATTCAAAAATTC
* *
17888156 AAAAAATTTAAAAGTTC
1 AAAAAATTCAAAAATTC
17888173 ATAAAA
1 A-AAAA
17888179 CTATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAAATTCAAAAATTC
Found at i:17891873 original size:17 final size:16
Alignment explanation
Indices: 17891847--17891885 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
17891837 ATTTTTTATT
17891847 TTAATTGATATA-ATTA
1 TTAATTGATA-ACATTA
17891863 TTAAGTTGATAACATTA
1 TTAA-TTGATAACATTA
17891880 TTAATT
1 TTAATT
17891886 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (16 bp):
TTAATTGATAACATTA
Found at i:17893778 original size:6 final size:6
Alignment explanation
Indices: 17893764--17893798 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
17893754 TCTAGTACAT
*
17893764 AAGAAC AAGATC AAGATC AAGATC AAGATC AAGAT
1 AAGATC AAGATC AAGATC AAGATC AAGATC AAGAT
17893799 AGAGGTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.14
Consensus pattern (6 bp):
AAGATC
Found at i:17897637 original size:79 final size:81
Alignment explanation
Indices: 17897501--17897685 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
17897491 TTGAATGATG
*
17897501 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17897565 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17897580 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17897642 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
17897660 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17897686 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17897699 original size:40 final size:40
Alignment explanation
Indices: 17897502--17897685 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
17897492 TGAATGATGT
* * * *
17897502 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17897542 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
17897582 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17897620 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
17897661 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17897686 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17897707 original size:79 final size:79
Alignment explanation
Indices: 17897554--17897718 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
17897544 GGACTAAGAT
* **
17897554 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
17897619 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17897633 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
17897696 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17897712 CCGAAGG
1 CCGAAGG
17897719 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17901016 original size:36 final size:37
Alignment explanation
Indices: 17900976--17901049 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
17900966 ATCGGTAGAT
*
17900976 AATCGAGGAAGAG-AAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
17901012 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
17901049 A
1 A
17901050 CACTCCTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.16
Consensus pattern (37 bp):
AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
Found at i:17901122 original size:14 final size:15
Alignment explanation
Indices: 17901102--17901138 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17901092 ATATTTTTGC
17901102 GTATTTTGGAA-TGT
1 GTATTTTGGAATTGT
*
17901116 TTATTTT-GAATTGT
1 GTATTTTGGAATTGT
17901130 GTATTTTGG
1 GTATTTTGG
17901139 GAAGTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 3 0.16
14 15 0.79
15 1 0.05
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (15 bp):
GTATTTTGGAATTGT
Found at i:17913052 original size:34 final size:34
Alignment explanation
Indices: 17913004--17913082 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
17912994 TTATACCATG
*
17913004 TGCGAACCTATGTTATATGCGAACCCATGTTATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
* *
17913038 TGCGAGCCTGTGTTATATGCGAACCCATGATATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
17913072 TGCGAACCTAT
1 TGCGAACCTAT
17913083 ATGATATTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (34 bp):
TGCGAACCTATGTTATATGCGAACCCATGATATA
Found at i:17913089 original size:17 final size:17
Alignment explanation
Indices: 17913004--17913082 Score: 113
Period size: 17 Copynumber: 4.6 Consensus size: 17
17912994 TTATACCATG
17913004 TGCGAACCTATGTTATA
1 TGCGAACCTATGTTATA
*
17913021 TGCGAACCCATGTTATA
1 TGCGAACCTATGTTATA
* *
17913038 TGCGAGCCTGTGTTATA
1 TGCGAACCTATGTTATA
* *
17913055 TGCGAACCCATGATATA
1 TGCGAACCTATGTTATA
17913072 TGCGAACCTAT
1 TGCGAACCTAT
17913083 ATGATATTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (17 bp):
TGCGAACCTATGTTATA
Found at i:17913935 original size:22 final size:22
Alignment explanation
Indices: 17913897--17913938 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17913887 AGAAATAAGG
17913897 TGTGATATGTTACATTGATGCC
1 TGTGATATGTTACATTGATGCC
*
17913919 TGTGATCTGTCTA-ATTGATG
1 TGTGATATGT-TACATTGATG
17913939 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (22 bp):
TGTGATATGTTACATTGATGCC
Found at i:17914302 original size:27 final size:29
Alignment explanation
Indices: 17914234--17914302 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
17914224 TAAGTTGCGG
* *
17914234 ACTAGTGGTTCACAGGGTAAGTTTTACGA
1 ACTAGGGGTTCACAGGGTAAGTATTACGA
* *
17914263 ACTAGGTGTTCACAGGGT-AG-ATTGCGA
1 ACTAGGGGTTCACAGGGTAAGTATTACGA
*
17914290 GCTAGGGGTTCAC
1 ACTAGGGGTTCAC
17914303 CGAGTCATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 16 0.47
28 2 0.06
29 16 0.47
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
ACTAGGGGTTCACAGGGTAAGTATTACGA
Found at i:17914924 original size:54 final size:54
Alignment explanation
Indices: 17914863--17914971 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
17914853 AGAACTTGAG
*
17914863 ATAATTTTCAAACATCCCATCCCAGGAATCCTAAACGGTCATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
*
17914917 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTTATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
17914971 A
1 A
17914972 ATTTTTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (54 bp):
ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
Found at i:17917968 original size:56 final size:56
Alignment explanation
Indices: 17917908--17918021 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
17917898 ATCAAAGCCT
17917908 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
1 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
17917964 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
1 AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
17918020 AA
1 AA
17918022 GGTATGTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (56 bp):
AAAATAAAAGAAAATAAATAAAGTTTTCTTATATTCGGCCATTGCTAAGCTCAATC
Found at i:17918201 original size:15 final size:15
Alignment explanation
Indices: 17918181--17918211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17918171 AAATATGAAA
17918181 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
17918196 GATATGTTTTGTATT
1 GATATGTTTTGGATT
17918211 G
1 G
17918212 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:17923278 original size:37 final size:37
Alignment explanation
Indices: 17923228--17923306 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17923218 TTATTACGAA
* * *
17923228 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17923265 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17923302 GTCTT
1 GTCTT
17923307 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17923503 original size:47 final size:47
Alignment explanation
Indices: 17923425--17923600 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
17923415 CCCTTCGGGA
* * * * * *
17923425 CTTATCACATTTATACACTTTCACACCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
17923472 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
17923519 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
17923566 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
17923601 AGAATCCTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:17936565 original size:39 final size:39
Alignment explanation
Indices: 17936484--17936625 Score: 144
Period size: 39 Copynumber: 3.6 Consensus size: 39
17936474 ACCAGCTCGA
* * * * * *
17936484 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCTGCACAT
*
17936523 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCTGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCTGCACAT
* *
17936562 AGCCTACGGACCTTAAGTCTGGATATAATT-CTAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCT-GCACAT
* * *
17936601 AGCCTGCAGACCCTAAGCCCGGATA
1 AGCCTGCGGACCTTAAGTCCGGATA
17936626 AACATCACTG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 5 0.06
39 81 0.94
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCTGCACAT
Found at i:17940872 original size:46 final size:46
Alignment explanation
Indices: 17940771--17940935 Score: 167
Period size: 46 Copynumber: 3.5 Consensus size: 46
17940761 TATGAAAGAT
* *
17940771 AGTGTAAGACCATGTCTGGGACATGCCATCGGCATCGAGACG-AGTGC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTTGAGACGAAGT-C
* *
17940818 TAGGGTAAGA-CATGTCTAGGACATGCATCGGCCTTGAGACGTAAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACG-AAGTC
* * * *
17940865 AGTGTAAGA-CATGTCTGGGACATACATCAG-CTATGATATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGA-AGTC
*
17940911 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
17940936 GAATCTTCAT
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.03
46 58 0.58
47 28 0.28
48 11 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGAAGTC
Found at i:17943529 original size:19 final size:21
Alignment explanation
Indices: 17943492--17943530 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
17943482 TCGATATGGT
17943492 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
17943513 CACAC-GGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
17943531 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:17944939 original size:26 final size:26
Alignment explanation
Indices: 17944900--17945007 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
17944890 TGGTACAAAT
*
17944900 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
17944926 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
17944952 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
17944978 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
17945004 TGAT
1 TGAT
17945008 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 2 0.03
26 73 0.95
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:17946661 original size:27 final size:26
Alignment explanation
Indices: 17946621--17946761 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
17946611 AGGAAGCGTC
*
17946621 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
17946648 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
17946675 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
17946702 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
17946729 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
17946756 CTGGTG
1 CTGGTG
17946762 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:17946703 original size:54 final size:53
Alignment explanation
Indices: 17946621--17946761 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
17946611 AGGAAGCGTC
*
17946621 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
17946675 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
17946729 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
17946762 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:17946772 original size:27 final size:26
Alignment explanation
Indices: 17946621--17946778 Score: 147
Period size: 27 Copynumber: 5.9 Consensus size: 26
17946611 AGGAAGCGTC
* * *
17946621 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
17946648 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * * *
17946675 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
* *
17946702 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
17946729 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
17946756 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGACTCT-GCCACAATATCT
17946779 AGCAGCCTCG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:17951960 original size:26 final size:26
Alignment explanation
Indices: 17951921--17952028 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
17951911 TGGTACAAAT
*
17951921 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
17951947 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
17951973 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* * *
17951999 TAATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
17952025 TGAT
1 TGAT
17952029 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:17953689 original size:27 final size:27
Alignment explanation
Indices: 17953649--17953789 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
17953639 AGGAAGCGTC
17953649 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
17953676 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
17953703 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
17953730 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
17953757 ATGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
17953784 CTGGTG
1 CTGGTG
17953790 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.10
27 87 0.87
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:17953731 original size:54 final size:53
Alignment explanation
Indices: 17953649--17953807 Score: 221
Period size: 54 Copynumber: 3.0 Consensus size: 53
17953639 AGGAAGCGTC
17953649 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
*
17953703 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
* * * * * *
17953757 ATGGTGGCTCTGCCACAATATCTGTATCTGGTGACTTCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
17953808 GCAGCCTCGC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 14 0.15
54 81 0.85
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
Found at i:17953800 original size:27 final size:27
Alignment explanation
Indices: 17953649--17953807 Score: 145
Period size: 27 Copynumber: 5.9 Consensus size: 27
17953639 AGGAAGCGTC
17953649 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
*
17953676 CTGGTGGCTTTGCCACATATATCTGT-T
1 CTGGTGGCTTCGCCACA-ATATCTGTAT
*
17953703 CTGGTGGCTAT-GCCACGATTATCTG-AT
1 CTGGTGGCT-TCGCCAC-AATATCTGTAT
17953730 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
*
17953757 ATGGTGGC-TCTGCCACAATATCTGTAT
1 CTGGTGGCTTC-GCCACAATATCTGTAT
* *
17953784 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGCTTCGCCACAATATCTG
17953808 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 6, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
25 1 0.01
26 10 0.09
27 98 0.86
28 5 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:17955795 original size:15 final size:15
Alignment explanation
Indices: 17955775--17955805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17955765 AAATATGAAA
17955775 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
17955790 GATATGTTTTGTATT
1 GATATGTTTTGGATT
17955805 G
1 G
17955806 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:17961646 original size:37 final size:37
Alignment explanation
Indices: 17961589--17961693 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
17961579 TATGATCACT
*
17961589 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
17961624 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
17961661 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
17961694 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:17961736 original size:52 final size:52
Alignment explanation
Indices: 17961657--17961873 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
17961647 TAAGTGTAGC
* * *
17961657 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
17961710 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
17961762 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
17961808 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
17961860 CACTTTGTCACTTG
1 CACTTT-TCACTTG
17961874 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:17961779 original size:46 final size:46
Alignment explanation
Indices: 17961707--17961879 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
17961697 AGCTATCACT
*
17961707 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
17961752 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
17961798 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
17961850 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
17961880 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:17961823 original size:98 final size:98
Alignment explanation
Indices: 17961656--17961879 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
17961646 ATAAGTGTAG
* * * *
17961656 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
17961721 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
17961754 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
17961819 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
17961852 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
17961880 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:17965058 original size:49 final size:50
Alignment explanation
Indices: 17965003--17965206 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
17964993 TTCGTTTTCT
*
17965003 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
17965052 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
17965101 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
17965159 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
17965207 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:17965173 original size:58 final size:59
Alignment explanation
Indices: 17965087--17965205 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
17965077 TACACGAAAT
17965087 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
17965145 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
17965204 CA
1 CA
17965206 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:17965186 original size:28 final size:28
Alignment explanation
Indices: 17965096--17965186 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
17965086 TCACATATCA
17965096 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
17965124 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
17965154 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
17965182 CTTAC
1 CTTAC
17965187 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:17966518 original size:37 final size:37
Alignment explanation
Indices: 17966461--17966565 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
17966451 TATGATCACT
*
17966461 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
17966496 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
17966533 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
17966566 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:17966608 original size:52 final size:52
Alignment explanation
Indices: 17966529--17966745 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
17966519 TAAGTGTAGC
* * *
17966529 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
17966582 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
17966634 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
17966680 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
17966732 CACTTTGTCACTTG
1 CACTTT-TCACTTG
17966746 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:17966651 original size:46 final size:46
Alignment explanation
Indices: 17966579--17966751 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
17966569 AGCTATCACT
*
17966579 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
17966624 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
17966670 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
17966722 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
17966752 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:17966695 original size:98 final size:98
Alignment explanation
Indices: 17966528--17966751 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
17966518 ATAAGTGTAG
* * * *
17966528 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
17966593 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
17966626 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
17966691 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
17966724 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
17966752 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:17976091 original size:5 final size:5
Alignment explanation
Indices: 17976081--17976164 Score: 60
Period size: 5 Copynumber: 15.4 Consensus size: 5
17976071 GAGTTAGCAA
* * *
17976081 TTTAT TTTAT TTTAT TTTAT TTTATT TTTCT TTTAT TTAATT GCTTTAC
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTA-T --TTTAT
* *
17976130 TTTAGT TTTGT CTTTAT TTTAT TTTGT TTTCAT TT
1 TTTA-T TTTAT -TTTAT TTTAT TTTAT TTT-AT TT
17976165 CTACCTTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
5 44 0.71
6 15 0.24
8 3 0.05
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:17984745 original size:20 final size:20
Alignment explanation
Indices: 17984722--17984769 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17984712 TACTTGTCCA
* *
17984722 CAATACTGCCAGTTTGTCTG
1 CAATACTGCCACTTTATCTG
*
17984742 CAATACTGTCACTTTATCTG
1 CAATACTGCCACTTTATCTG
*
17984762 CATTACTG
1 CAATACTG
17984770 GTGGCTTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
CAATACTGCCACTTTATCTG
Found at i:17984799 original size:60 final size:60
Alignment explanation
Indices: 17984685--17984808 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
17984675 AACGAGGAAG
* * * * *
17984685 TACTGACAGTTTATCTGCATTTCTGGTTACTTGTCCACAATACTGCCAGTTTGTCTGCAA
1 TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAATACTGCCAGCTTGTCTACAA
* * * * *
17984745 TACTGTCACTTTATCTGCATTACTGGTGGCTTGTCCA-TATAATTGGCAGCTTGTCTACAA
1 TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAAT-ACTGCCAGCTTGTCTACAA
17984805 TACT
1 TACT
17984809 CGTAACTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 51 0.96
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.39
Consensus pattern (60 bp):
TACTGACACTTTATCTGCATTACTGGTGACTTGTCCACAATACTGCCAGCTTGTCTACAA
Found at i:18002469 original size:25 final size:25
Alignment explanation
Indices: 18002440--18002492 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
18002430 TCTAAGTACT
18002440 AAATTGCAAAGAGTACAAAACTAAG
1 AAATTGCAAAGAGTACAAAACTAAG
*
18002465 AAATTGCAAATAGTACAAAACTAAG
1 AAATTGCAAAGAGTACAAAACTAAG
18002490 AAA
1 AAA
18002493 ATAACCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.17
Consensus pattern (25 bp):
AAATTGCAAAGAGTACAAAACTAAG
Found at i:18007364 original size:52 final size:51
Alignment explanation
Indices: 18007302--18007486 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 51
18007292 TGCCAAATAA
* *
18007302 ATAGTCGAAGCTATTTCGATCTCGTACACTAAGTGCCAATATATATATATAT
1 ATAGCCGAAGCTATTTCGATCTCGCACACTAAGTGCCAAT-TATATATATAT
* * * *
18007354 ATAGCCGAAGCTATCTC-ATTTATGCACACTAAGTGCC----A-ACATATAT
1 ATAGCCGAAGCTATTTCGATCT-CGCACACTAAGTGCCAATTATATATATAT
*
18007400 ATAGCCGAAGCTATTTCGGTCTCGCACACTAAGTGCCAATGTATATA-A-AT
1 ATAGCCGAAGCTATTTCGATCTCGCACACTAAGTGCCAAT-TATATATATAT
* * * * *
18007450 ATAGTCGAAACTATTTTCAATCTCACACACAAAGTGC
1 ATAGCCGAAGCTA-TTTCGATCTCGCACACTAAGTGC
18007487 ACATATTTAA
Statistics
Matches: 107, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
46 37 0.35
47 3 0.03
50 13 0.12
51 24 0.22
52 30 0.28
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (51 bp):
ATAGCCGAAGCTATTTCGATCTCGCACACTAAGTGCCAATTATATATATAT
Found at i:18008010 original size:21 final size:20
Alignment explanation
Indices: 18007986--18008024 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18007976 AAACTTGTAT
18007986 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
18008007 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
18008025 AAACTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:18009682 original size:565 final size:564
Alignment explanation
Indices: 18008482--18010173 Score: 3058
Period size: 565 Copynumber: 3.0 Consensus size: 564
18008472 AGTAAAATTT
18008482 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
*
18008547 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTATT-TCGGTTTGACTAAAAACGGGCTCTTAC
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTATTCT-GGTTTGACTAAAAACGGGCTGTTAC
18008611 AATCTTTCTTCAGATCCTTCTAAAACGATCCCTCCTCTAATCGGTTGCACAAATACAAACATTGT
130 AATCTTTCTTCAGATCCTTCTAAAACGAT-CCTCCTCTAATCGGTTGCACAAATACAAACATTGT
*
18008676 GCTTGTTGTGTTCTGACCTCTACTAGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCC
194 GCTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCC
18008741 TATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGG-C--
259 TATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAA
*
18008803 -C---TTTTTCTCCCTCATGGTTGCACGCACATCTTTCTACATAAAAATTCATAACTTCGATTAT
324 GCTAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTAT
* *
18008864 TTAGGAGTCGTAACATTTTGGCTCCATTAGCTCATCAAGTCATTTTTTAATGCTTTTCAACATGT
389 TTAGGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCATTTTTGAATGCTTTTCAACATGT
*
18008929 TTTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTATTCTTCCTCTTTTTCATGTATTCGCTCT
454 TTTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCT
* * *
18008994 CATTTGTCATGTTGGTCCTATTAGAGTGCCTTGAATTTCTTATAGA
519 CATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
18009040 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
*
18009105 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTGTTCTGGTTTGACTAAAAACGGGCTGTTACA
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTATTCTGGTTTGACTAAAAACGGGCTGTTACA
* *
18009170 ATCTTTCTTCAGATTCTTCTAAAATGATACCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
131 ATCTTTCTTCAGATCCTTCTAAAACGAT-CCTCCTCTAATCGGTTGCACAAATACAAACATTGTG
* * *
18009235 CTTGTTGTGTTCTAACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTTTTCT
195 CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
18009300 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAG
260 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAG
18009365 CTAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATT
325 CTAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATT
18009430 TAGGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCATTTTTGAATGCTTTTCAACATGTT
390 TAGGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCATTTTTGAATGCTTTTCAACATGTT
18009495 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTC
455 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTC
18009560 ATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
520 ATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
18009605 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
1 TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
* * *
18009670 ATTTCAACTTCGGATTTGTGGTTCCAAAACCACTATTCCGGTTTGACTAAAAACAGGCTGTTACA
66 ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTATTCTGGTTTGACTAAAAACGGGCTGTTACA
*
18009735 ATCTTTCTTCAGATCCTTCTAAAACGATCCGTCCTCTAATCGGTTGCACAAATACAAACATTATG
131 ATCTTTCTTCAGATCCTTCTAAAACGATCC-TCCTCTAATCGGTTGCACAAATACAAACATTGTG
* * *
18009800 CTTGTTGTGTTCTGACCTCTACTGGATTTTTCGTTCCTCATTTTTTCATTCCTTTCCTTTCTCCA
195 CTTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCT
18009865 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAG
260 ATCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAG
18009930 CTAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATT
325 CTAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATT
* *
18009995 TAAGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCGTTTTTGAATGCTTTTCAACATGTT
390 TAGGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCATTTTTGAATGCTTTTCAACATGTT
*
18010060 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTTTC
455 TTCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTC
*
18010125 ATTTTTCATGTTGCTCCTATTGGAGTGCATTGAATTTCTTATAGA
520 ATTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
18010170 TTGA
1 TTGA
18010174 GTCACCTATC
Statistics
Matches: 1092, Mismatches: 33, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
558 309 0.28
559 2 0.00
562 1 0.00
564 2 0.00
565 778 0.71
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (564 bp):
TTGAACGAAACTTTCACATAGTCATTTTATCATGCTAAAAATATTAAAATAATAATAAAATAATT
ATTTCGACTTCGGATTTGTGGTTCCAAAACCACTATTCTGGTTTGACTAAAAACGGGCTGTTACA
ATCTTTCTTCAGATCCTTCTAAAACGATCCTCCTCTAATCGGTTGCACAAATACAAACATTGTGC
TTGTTGTGTTCTGACCTCTACTGGATTTGTCGTTCCTCATTTTTTCGTTCCTTTCCTTTCTCCTA
TCCTCATGGTTTTCCATTCCACACTTTTCTTGAACTTAGGATCTTTTTTGTTTCATTGGCCAAGC
TAGTTTTTCTCCCTCATGGTTGCACGCACATCTTTCCACATAAAAATTCATAACTTCGATTATTT
AGGAGTCGTAACATTTTGGCTCCATTAGCTCGTCAAGTCATTTTTGAATGCTTTTCAACATGTTT
TCTATTTTTGATTTTGTTAGGTATGATTGCGTCTACTCTTCCTCTTTTTCATGTATTCGCTCTCA
TTTTTCATGTTGCTCCTATTGGAGTGCCTTGAATTTCTTATAGA
Found at i:18011240 original size:17 final size:18
Alignment explanation
Indices: 18011207--18011240 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18011197 CATGTGGACT
18011207 ACCCGTGTGGACCCACAC
1 ACCCGTGTGGACCCACAC
18011225 ACCCGTGTGG-CCCACA
1 ACCCGTGTGGACCCACA
18011241 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
ACCCGTGTGGACCCACAC
Found at i:18019715 original size:8 final size:9
Alignment explanation
Indices: 18019699--18019741 Score: 63
Period size: 8 Copynumber: 5.0 Consensus size: 9
18019689 TCAAATTATA
18019699 TTAATTCAT
1 TTAATTCAT
18019708 TT-ATTCAT
1 TTAATTCAT
18019716 TTAATTCAT
1 TTAATTCAT
*
18019725 TT-ATTAAT
1 TTAATTCAT
18019733 TTAATTCAT
1 TTAATTCAT
18019742 GTGAAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATTCAT
Found at i:18019719 original size:17 final size:16
Alignment explanation
Indices: 18019664--18019741 Score: 88
Period size: 17 Copynumber: 4.7 Consensus size: 16
18019654 AAGCTTGTAC
18019664 ATTTAATTCATTTATT
1 ATTTAATTCATTTATT
*
18019680 ATTTAACTGTCA--AATT
1 ATTTAA-T-TCATTTATT
18019696 ATATTAATTCATTTATT
1 AT-TTAATTCATTTATT
18019713 CATTTAATTCATTTATT
1 -ATTTAATTCATTTATT
18019730 AATTTAATTCAT
1 -ATTTAATTCAT
18019742 GTGAAAACTA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
15 3 0.06
16 12 0.23
17 33 0.62
18 5 0.09
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.55
Consensus pattern (16 bp):
ATTTAATTCATTTATT
Found at i:18024154 original size:17 final size:17
Alignment explanation
Indices: 18024117--18024154 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
18024107 ACATAATATT
18024117 TTTTTATTTTTTTCGTA
1 TTTTTATTTTTTTCGTA
18024134 -TTTTATTTTTTT-GTA
1 TTTTTATTTTTTTCGTA
18024149 CTTTTT
1 -TTTTT
18024155 TCGATCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTTTCGTA
Found at i:18027493 original size:48 final size:47
Alignment explanation
Indices: 18027439--18027584 Score: 220
Period size: 48 Copynumber: 3.0 Consensus size: 47
18027429 TTACACGATG
* * *
18027439 TCTCATATCGACGCCAATGTCATATCCCAAATATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATG-CATGTCCCAAACATGGTCTTACATGGGA
*
18027487 TCTCATATCGATGCCAATGCTATGTCCCAAACATGGTCTTTCATGGGA
1 TCTCATATCGATGCCAATGC-ATGTCCCAAACATGGTCTTACATGGGA
*
18027535 TCTCATATCGATGCCAATGACATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATG-CATGTCCCAAACATGGTCTTACATGGGA
18027583 TC
1 TC
18027585 ATATAACCCT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 88 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (47 bp):
TCTCATATCGATGCCAATGCATGTCCCAAACATGGTCTTACATGGGA
Found at i:18027931 original size:44 final size:44
Alignment explanation
Indices: 18027881--18027970 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
18027871 ACATCACATT
18027881 TAGCCCACTTATTAGTCACATTATTCATTGTGACCCAAAAATCA
1 TAGCCCACTTATTAGTCACATTATTCATTGTGACCCAAAAATCA
18027925 TAGCCCACTTATTAGTCACATTATTCATTGTGACCCAAAAATCA
1 TAGCCCACTTATTAGTCACATTATTCATTGTGACCCAAAAATCA
18027969 TA
1 TA
18027971 CTATGGAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (44 bp):
TAGCCCACTTATTAGTCACATTATTCATTGTGACCCAAAAATCA
Found at i:18043219 original size:12 final size:12
Alignment explanation
Indices: 18043202--18043238 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
18043192 AAACCTAGAG
18043202 AAAACTAAGGCT
1 AAAACTAAGGCT
18043214 AAAACTAAGGCT
1 AAAACTAAGGCT
18043226 AAAACTAA-GCT
1 AAAACTAAGGCT
18043237 AA
1 AA
18043239 TGTGTGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (12 bp):
AAAACTAAGGCT
Found at i:18046747 original size:160 final size:160
Alignment explanation
Indices: 18046483--18046803 Score: 633
Period size: 160 Copynumber: 2.0 Consensus size: 160
18046473 GAGGCCCCGG
18046483 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
1 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
18046548 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
66 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
18046613 AGATCTGTGTACCCAATGTGTGGTGATAGA
131 AGATCTGTGTACCCAATGTGTGGTGATAGA
18046643 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
1 GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
18046708 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
66 GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
*
18046773 AGATCTGTGTATCCAATGTGTGGTGATAGA
131 AGATCTGTGTACCCAATGTGTGGTGATAGA
18046803 G
1 G
18046804 CCCACTTTTA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (160 bp):
GATAGATGAGAGGGATAAGGGAATGTCGAGTTAGGCTCCATTCATTGGGACATGTTAGTGTGTTG
GAGAGTGTTAGTTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCATTAATGTGATGG
AGATCTGTGTACCCAATGTGTGGTGATAGA
Found at i:18048104 original size:64 final size:65
Alignment explanation
Indices: 18048015--18048145 Score: 219
Period size: 64 Copynumber: 2.0 Consensus size: 65
18048005 CAATTCAAAA
* *
18048015 TAGATTAGAATAAAATGTTGCTATAATCAAACATAGTCAAGTCAATATCCATTTCAAGGATATAT
1 TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
* *
18048080 TAGATCAGAAT-AGATGTTGCTATAATCAGACATAATCAAGTCAATATCCATTTCAAGGATATAT
1 TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
18048144 TA
1 TA
18048146 CTAATCATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 52 0.84
65 10 0.16
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (65 bp):
TAGATCAGAATAAAATGTTGCTATAATCAAACATAATCAAGTCAATATCCATTTCAAGGATATAT
Found at i:18050238 original size:13 final size:13
Alignment explanation
Indices: 18050220--18050244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18050210 TATATATATG
18050220 AAAATAAAATAAA
1 AAAATAAAATAAA
18050233 AAAATAAAATAA
1 AAAATAAAATAA
18050245 TAAAGAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:18050525 original size:16 final size:18
Alignment explanation
Indices: 18050504--18050541 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18050494 TTCTATATGG
18050504 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
18050520 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
18050538 ATTT
1 ATTT
18050542 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:18054686 original size:5 final size:5
Alignment explanation
Indices: 18054676--18054702 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18054666 CTAATTTGTG
18054676 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
18054703 TAAAGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:18061016 original size:42 final size:42
Alignment explanation
Indices: 18060957--18061037 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
18060947 CAATTTAAGA
18060957 TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTTT
1 TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTTT
* **
18060999 TTTTAAATATTAT-TTTTAATTCTTTATTTAATTTTTTAT
1 TTTTAAAAATT-TGTTTTAATGATTTATTTAATTTTTTAT
18061038 ATCTTTAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (42 bp):
TTTTAAAAATTTGTTTTAATGATTTATTTAATTTTTTATTTT
Found at i:18063955 original size:22 final size:23
Alignment explanation
Indices: 18063922--18063971 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
18063912 AATACTTACT
18063922 AATATCTGTAGGAATATTCTGTA
1 AATATCTGTAGGAATATTCTGTA
*
18063945 AATATCT-TAGGAATATTTTGTA
1 AATATCTGTAGGAATATTCTGTA
*
18063967 GATAT
1 AATAT
18063972 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (23 bp):
AATATCTGTAGGAATATTCTGTA
Found at i:18068552 original size:22 final size:22
Alignment explanation
Indices: 18068524--18068568 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18068514 AGGGGAAGTG
18068524 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
18068546 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
18068568 T
1 T
18068569 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:18071244 original size:25 final size:25
Alignment explanation
Indices: 18071210--18071257 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18071200 TTTTAATTCG
18071210 AAAACATGCTATTAGAAGCAGACTC
1 AAAACATGCTATTAGAAGCAGACTC
*
18071235 AAAACGTGCTATTAGAAGCAGAC
1 AAAACATGCTATTAGAAGCAGAC
18071258 AATATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
AAAACATGCTATTAGAAGCAGACTC
Found at i:18074829 original size:30 final size:29
Alignment explanation
Indices: 18074779--18074843 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
18074769 CGTAAATTTG
*
18074779 AATTTAAATTTTTTACTTTTATATTTAAA
1 AATTTAAATTTTTTACTTTTAAATTTAAA
* *
18074808 AATTTAATTTTTTTATTTTTTAAATTTAAA
1 AATTTAAATTTTTTA-CTTTTAAATTTAAA
18074838 AATTTA
1 AATTTA
18074844 GGTTCAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
AATTTAAATTTTTTACTTTTAAATTTAAA
Done.