Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 117 of 163
Found at i:32710615 original size:58 final size:59
Alignment explanation
Indices: 32710449--32710761 Score: 395
Period size: 59 Copynumber: 5.3 Consensus size: 59
32710439 TTTTTTTTTG
32710449 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCA
* * * * *
32710508 AAAATTACCATTTTACCCCCAAAACTTTCTAAAATTTCATTTTTAACCCCGATTTTA-CT
1 AAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCA
32710567 AAAATTACCATTTTA-CCCTCAAACTTTCCAAAA-TTCTATTTTTGACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTTC-ATTTTTGACCCCGATTTCACCA
* * *
32710626 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTTGACCCTGATTTCACC-
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCA
* * ** * *
32710683 AAAATTACCATTTTACCCCTCGAACTTTCCAAAAATTCCCGTTTTGA-CCCAATTTCAACA
1 AAAATTACCATTTTACCCCT-AAACTTTCC-AAAATTTCATTTTTGACCCCGATTTCACCA
* *
32710743 AAAATCACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
32710762 CGAGTATCCA
Statistics
Matches: 225, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
57 26 0.12
58 56 0.25
59 77 0.34
60 66 0.29
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCA
Found at i:32722387 original size:50 final size:51
Alignment explanation
Indices: 32722267--32722932 Score: 297
Period size: 50 Copynumber: 13.2 Consensus size: 51
32722257 ATTATGAAAT
32722267 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
*
32722318 ACAAAGGGAAAGATCTAAGA-TAGCAATGGCATATCCAGTA-C-CGTAAAAAC
1 ACAAAGGGAAAGATCTAAGACT-GCAATGGCAGATCCAGTACCACG-AAAAAC
* * * * * ** *
32722368 ACAAAGGAAAAGATCTAAGACCGCAACGGCGGATCTAGTACTGC-AAAAGTAG
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAA--AC
* * * * * * * * *
32722420 A-AAAGGGAAAGGTCTAAG-TTACAACGGCGGA-CCGTGTACCTC-TAAAGC
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
** * * * *
32722468 ATGGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGCACCTC-CAAAAC
1 A-CAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
* * * * * * * *
32722519 ACAAAAGGGAAAGGTCTAAGTC-GCAACGAC-GAACCGTGTACCTC-AGAAAC
1 AC-AAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
* * *
32722569 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTATCGC-AAAAAC
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
* * * ** * * *
32722619 ACAAAAGGGAAAGGTCTAAGTC-GCAACGGTGGA-CCGTGTACCTC-AGAAAC
1 AC-AAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
* * * * * * *
32722669 ATGAAAGGGAAAGATCTAAGTC-GCAATGGCGGA-CCGTGTACCTC-AGAAGC
1 A-CAAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
** * * *
32722719 ATGAAGGGAAAGATCTAAGACTACAATGGCGGATCCAGTACCGC-AAAAAC
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
* * * ** * * *
32722769 ACAAAAGGGAAAGGTCTAAGTC-GCAACGGC-GGGCCGTGTACCTC-AGAAAC
1 AC-AAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
* * * * * * *
32722819 ATGAAAGGGAAATATCTAAGTC-GCAATGACAGA-CCGTGTACCTC-AAAAGC
1 A-CAAAGGGAAAGATCTAAGACTGCAATGGCAGATCC-AGTACCACGAAAAAC
** ** *
32722869 ATGAAGGGAAAGATCTAAGACCACAATGGCTGATCCAGTACCAC-AAAGATAC
1 ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAA-A-AC
*
32722921 AAAAAGGGAAAG
1 ACAAAGGGAAAG
32722933 GTTTAAGTCG
Statistics
Matches: 481, Mismatches: 105, Indels: 57
0.75 0.16 0.09
Matches are distributed among these distances:
48 1 0.00
49 62 0.13
50 272 0.57
51 130 0.27
52 16 0.03
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.14
Consensus pattern (51 bp):
ACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAAC
Found at i:32722618 original size:100 final size:100
Alignment explanation
Indices: 32722262--32722970 Score: 550
Period size: 100 Copynumber: 7.1 Consensus size: 100
32722252 TCAGAATTAT
* * *
32722262 GAAATACAAAGGGAAAGATCTAAGACTGCAATGGCAGATCCAGTACCACGAAAAACAC-AAAGGG
1 GAAACACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCTC-AAAAACACAAAAGGG
* * * *
32722326 AAAGATCTAAGATAGCAATGGC-ATATCC-AGTACCGT-A
65 AAAGGTCTAAG-TCGCAACGGCGA-A-CCGTGTACC-TCA
* * * * * ** *
32722363 AAAACACAAAGGAAAAGATCTAAGACCGCAACGGCGGATCTAGTA-CTGCAAAAGTAGAAAAGGG
1 GAAACACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCT-CAAAAACACAAAAGGG
** *
32722427 AAAGGTCTAAGTTACAACGGCGGACCGTGTACCTCTA
65 AAAGGTCTAAGTCGCAACGGCGAACCGTGTACCTC-A
* ** * *
32722464 -AAGCATGGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGCACCTCCAAAACACAAAAGGG
1 GAAACA-CAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCTCAAAAACACAAAAGGG
*
32722528 AAAGGTCTAAGTCGCAACGACGAACCGTGTACCTCA
65 AAAGGTCTAAGTCGCAACGGCGAACCGTGTACCTCA
* *
32722564 GAAACACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTATCGCAAAAACACAAAAGGGA
1 GAAACACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCTCAAAAACACAAAAGGGA
* *
32722629 AAGGTCTAAGTCGCAACGGTGGACCGTGTACCTCA
66 AAGGTCTAAGTCGCAACGGCGAACCGTGTACCTCA
* * * * * * **
32722664 GAAACATGAAAGGGAAAGATCTAAG-TCGCAATGGCGGA-CCGTGTACCTCAGAAGCA-TGAAGG
1 GAAACA-CAAAGGGAAAGATCTAAGACCGCAATGGCAGATCC-AGTACCTCAAAAACACAAAAGG
* * * * * * *
32722726 GAAAGATCTAAGACTACAATGGCGGATCC-AGTACCGCA
64 GAAAGGTCTAAGTC-GCAACGGC-GAACCGTGTACCTCA
* * * * ** * * **
32722764 AAAACACAAAAGGGAAAGGTCTAAG-TCGCAACGGC-GGGCCGTGTACCTCAGAAACATGAAAGG
1 GAAACAC-AAAGGGAAAGATCTAAGACCGCAATGGCAGATCC-AGTACCTCAAAAACACAAAAGG
** * *
32722827 GAAATATCTAAGTCGCAATGAC-AGACCGTGTACCTCA
64 GAAAGGTCTAAGTCGCAACGGCGA-ACCGTGTACCTCA
** * * *
32722864 -AAAGCATGAAGGGAAAGATCTAAGACCACAATGGCTGATCCAGTACCACAAAGATACA-AAAAG
1 GAAA-CACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCTCAAA-A-ACACAAAAG
* * *
32722927 GGAAAGGTTTAAGTCGCAACGACGAATCCGT-TACCTTA
63 GGAAAGGTCTAAGTCGCAACGGCGAA-CCGTGTACCTCA
32722965 GAAACA
1 GAAACA
32722971 TGAAAGGTCA
Statistics
Matches: 488, Mismatches: 94, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
98 1 0.00
99 42 0.09
100 225 0.46
101 207 0.42
102 13 0.03
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (100 bp):
GAAACACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCTCAAAAACACAAAAGGGA
AAGGTCTAAGTCGCAACGGCGAACCGTGTACCTCA
Found at i:32722676 original size:150 final size:150
Alignment explanation
Indices: 32722522--32722977 Score: 659
Period size: 150 Copynumber: 3.0 Consensus size: 150
32722512 CCAAAACACA
* * **
32722522 AAAGGGAAAGGTCTAAGTCGCAACGACGAACCGTGTACCTCAGAAACACAAAGGGAAAGATCTAA
1 AAAGGGAAAGATCTAAGTCGCAATGACGAACCGTGTACCTCAGAAACATGAAGGGAAAGATCTAA
* * *
32722587 GACCGCAATGGCAGATCCAGTATCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGTGGA
66 GACCACAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGA
32722652 CCGTGTACCTCAGAAACATG
131 CCGTGTACCTCAGAAACATG
* * *
32722672 AAAGGGAAAGATCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAA
1 AAAGGGAAAGATCTAAGTCGCAATGACGAACCGTGTACCTCAGAAACATGAAGGGAAAGATCTAA
* * *
32722737 GACTACAATGGCGGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGG
66 GACCACAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGA
32722802 CCGTGTACCTCAGAAACATG
131 CCGTGTACCTCAGAAACATG
*
32722822 AAAGGGAAATATCTAAGTCGCAATGAC-AGACCGTGTACCTCA-AAAGCATGAAGGGAAAGATCT
1 AAAGGGAAAGATCTAAGTCGCAATGACGA-ACCGTGTACCTCAGAAA-CATGAAGGGAAAGATCT
* * * *
32722885 AAGACCACAATGGCTGATCCAGTACCACAAAGATACA-AAAAGGGAAAGGTTTAAGTCGCAACGA
64 AAGACCACAATGGCAGATCCAGTACCGCAAA-A-ACACAAAAGGGAAAGGTCTAAGTCGCAACGG
* *
32722949 CGAATCCGT-TACCTTAGAAACATG
127 CGGA-CCGTGTACCTCAGAAACATG
32722973 AAAGG
1 AAAGG
32722978 TCAAACCCAC
Statistics
Matches: 276, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
149 2 0.01
150 220 0.80
151 47 0.17
152 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (150 bp):
AAAGGGAAAGATCTAAGTCGCAATGACGAACCGTGTACCTCAGAAACATGAAGGGAAAGATCTAA
GACCACAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGA
CCGTGTACCTCAGAAACATG
Found at i:32723349 original size:11 final size:11
Alignment explanation
Indices: 32723335--32723411 Score: 72
Period size: 11 Copynumber: 7.1 Consensus size: 11
32723325 ACCAAATCAT
*
32723335 TTTAAATTTAT
1 TTTAAATTTAA
32723346 TTTAAATTTTAA
1 TTTAAA-TTTAA
*
32723358 TTT--ATTAAA
1 TTTAAATTTAA
32723367 TTTAAATTTAA
1 TTTAAATTTAA
32723378 TTTAAATTTAGA
1 TTTAAATTTA-A
*
32723390 TTT-AATATAAA
1 TTTAAAT-TTAA
32723401 TTT-AATTTAA
1 TTTAAATTTAA
32723411 T
1 T
32723412 GTCCAAATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
9 7 0.12
10 5 0.09
11 31 0.55
12 13 0.23
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:32723361 original size:17 final size:17
Alignment explanation
Indices: 32723333--32723411 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
32723323 CAACCAAATC
*
32723333 ATTTTAAATTTATTTTAA
1 ATTTT-AATTTAATTTAA
32723351 ATTTTAATTT-A-TTAA
1 ATTTTAATTTAATTTAA
*
32723366 ATTTAAATTTAATTTAA
1 ATTTTAATTTAATTTAA
*
32723383 A-TTTAGATTTAATATAA
1 ATTTTA-ATTTAATTTAA
32723400 A-TTTAATTTAAT
1 ATTTTAATTTAAT
32723412 GTCCAAATAC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.24
16 11 0.20
17 25 0.46
18 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
ATTTTAATTTAATTTAA
Found at i:32723367 original size:26 final size:26
Alignment explanation
Indices: 32723336--32723410 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 26
32723326 CCAAATCATT
* *
32723336 TTAAATTT-ATTTTAAATTTTAATTTA
1 TTAAATTTAAATTT-AATTTAAATTTA
32723362 TTAAATTTAAATTTAATTTAAATTTAGA
1 TTAAATTTAAATTTAATTTAAATTT--A
* *
32723390 TTTAATATAAATTTAATTTAA
1 TTAAATTTAAATTTAATTTAA
32723411 TGTCCAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.43
27 4 0.10
28 20 0.48
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
TTAAATTTAAATTTAATTTAAATTTA
Found at i:32723387 original size:6 final size:6
Alignment explanation
Indices: 32723335--32723410 Score: 67
Period size: 6 Copynumber: 13.8 Consensus size: 6
32723325 ACCAAATCAT
* *
32723335 TTTAAA TTT-AT TTTAAA TTTTAA TTT--A -TTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
32723378 TTTAAA TTTAGA TTT-AA TATAAA TTT-AA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
32723411 TGTCCAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 18 0.32
6 35 0.62
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:32725186 original size:29 final size:29
Alignment explanation
Indices: 32725114--32725249 Score: 143
Period size: 30 Copynumber: 4.6 Consensus size: 29
32725104 TAGACTGTCC
*
32725114 AAAAATTATATTTTGACCCCAAAACTTTCT
1 AAAAATTATATTTTGACCCCTAAACTTT-T
* *
32725144 AAAAATTACT-TTTTAACTCCTAAACTTTT
1 AAAAATTA-TATTTTGACCCCTAAACTTTT
** *
32725173 TGAAATTATATTTTGA-CCCTAAAACTATCT
1 AAAAATTATATTTTGACCCCT-AAACT-TTT
*
32725203 AAAAATTACATTTTGACCCCTAAAC-TTT
1 AAAAATTATATTTTGACCCCTAAACTTTT
32725231 ACAAAATTATATTTTGACC
1 A-AAAATTATATTTTGACC
32725250 TTGAATTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
28 7 0.08
29 33 0.38
30 42 0.48
31 5 0.06
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAAATTATATTTTGACCCCTAAACTTTT
Found at i:32725265 original size:59 final size:59
Alignment explanation
Indices: 32725101--32725697 Score: 447
Period size: 59 Copynumber: 10.0 Consensus size: 59
32725091 CATTGGAAGT
* * * * *
32725101 CCCTAGACTGTCCAAAAATTATATTTTGACCCCAAAACTTT--CTAAAAATTA-CTTTTTAAC
1 CCCTAAACTTTCC-AAAATTATATTTTGACCCC-GAA-TTTCACCAAAAATTACCATTTT-AC
* *** ** ** *
32725161 TCCTAAACTTTTTGAAATTATATTTTGACCCTAAAACT-ATCTAAAAATTA-CATTTTGAC
1 CCCTAAACTTTCCAAAATTATATTTTGACCCCGAATTTCA-CCAAAAATTACCATTTT-AC
* ** **** * *
32725220 CCCTAAACTTTACAAAATTATATTTTGACCTTGAATTTTTTTAAAAAATACCAATTTAC
1 CCCTAAACTTTCCAAAATTATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
*
32725279 CCCTAAACTTTCCAAAATTCCAT-TTTTGACCCCG-ATTTCACCAAAAA-TACCATTTCAC
1 CCCTAAACTTTCCAAAATT--ATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
* ** * *
32725337 CCCTAAATTTTCCAAAATTCCATTTTAACCTC-AATTTCACCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATTATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
*
32725395 CCCTAAACTTTCCAAAATT-TCATTTTGACCTCG-ATTTCACCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATTAT-ATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
* * * *
32725453 TCCTAAACTTTCCAAAATTCTATTTTTGACCCCG-ATTTCACTAAAAGTTACCATTTTAC
1 CCCTAAACTTTCCAAAATTATA-TTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
** * * * *
32725512 CCCCGAACTTTCCAAAATTCTATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATTATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
* * *
32725571 CCTTAAACTTTCCAAAATAGACAAAATTCCATTTTTGATCCCG-ATTTCACCAAAAATTACCATT
1 CCCTAAACTTTCCAAAAT------TA-T--A-TTTTGACCCCGAATTTCACCAAAAATTACCATT
32725635 TTA-
56 TTAC
* * *
32725638 CCCTCGAACTTTCC-AAATTCCAT-TTTTGA-CCCTAATTTCACC-AAAATCACCATTTTAC
1 CCCT-AAACTTTCCAAAATT--ATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
32725696 CC
1 CC
32725698 TGGGTATCCA
Statistics
Matches: 442, Mismatches: 66, Indels: 60
0.78 0.12 0.11
Matches are distributed among these distances:
57 39 0.09
58 136 0.31
59 192 0.43
60 22 0.05
61 2 0.00
62 1 0.00
63 1 0.00
66 1 0.00
67 7 0.02
68 33 0.07
69 8 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (59 bp):
CCCTAAACTTTCCAAAATTATATTTTGACCCCGAATTTCACCAAAAATTACCATTTTAC
Found at i:32725311 original size:30 final size:27
Alignment explanation
Indices: 32725264--32725588 Score: 153
Period size: 30 Copynumber: 11.2 Consensus size: 27
32725254 ATTTTTTTAA
* *
32725264 AAAATACCAATTTACCCCTAAACTTTCC
1 AAAATTCCATTTTACCCCTAAA-TTTCC
*
32725292 AAAATTCCATTTTTGACCCC--GATTTCACC
1 AAAATTCCA-TTTT-ACCCCTAAATTT--CC
* *
32725321 AAAAATACCATTTCACCCCTAAATTTTCC
1 -AAAATTCCATTTTACCCCTAAA-TTTCC
* *
32725350 AAAATTCCATTTTA-ACCTCAATTTCACC
1 AAAATTCCATTTTACCCCTAAATTT--CC
32725378 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAA-TTTCC
* **
32725408 AAAATTTCATTTTGA--CCTCGATTTCACC
1 AAAATTCCATTTT-ACCCCTAAATTT--CC
*
32725436 AAAAATTACCATTTTACTCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAA-TTTCC
* *
32725466 AAAATTCTATTTTTGACCCC--GATTTCAC
1 AAAATTCCA-TTTT-ACCCCTAAATTTC-C
* *
32725494 TAAAAGTTACCATTTTACCCCCGAACTTTCC
1 -AAAA-TT-CCATTTTA-CCCCTAAATTTCC
* *
32725525 AAAATTCTATTTTTAACCCT-AATTTCACC
1 AAAATTCCA-TTTTACCCCTAAATTT--CC
*
32725554 AAAAATTACCATTTTACCCTTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAA-TTTCC
32725584 AAAAT
1 AAAAT
32725589 AGACAAAATT
Statistics
Matches: 228, Mismatches: 31, Indels: 75
0.68 0.09 0.22
Matches are distributed among these distances:
26 6 0.03
27 20 0.09
28 45 0.20
29 59 0.26
30 66 0.29
31 19 0.08
32 13 0.06
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCTAAATTTCC
Found at i:32725349 original size:58 final size:59
Alignment explanation
Indices: 32725203--32725697 Score: 522
Period size: 58 Copynumber: 8.3 Consensus size: 59
32725193 AAAACTATCT
* ** ****
32725203 AAAAATTA-CATTTTGACCCCTAAACTTTACAAAATT--ATATTTTGACCTTGAATTTTTTT
1 AAAAATTACCATTTT-ACCCCTAAACTTTCCAAAATTCCAT-TTTTGACCCCG-ATTTCACC
* *
32725262 AAAAAATACCAATTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
* * * * *
32725321 AAAAA-TACCATTTCACCCCTAAATTTTCCAAAATTCCA-TTTTAACCTCAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
* *
32725378 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCA-TTTTGACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
* * *
32725436 AAAAATTACCATTTTACTCCTAAACTTTCCAAAATTCTATTTTTGACCCCGATTTCACT
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
* ** * * **
32725495 AAAAGTTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
* *
32725554 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATAGACAAAATTCCATTTTTGATCCCGATTTC
1 AAAAATTACCATTTTACCCCTAAACTTT-C--------CAAAATTCCATTTTTGACCCCGATTTC
32725619 ACC
57 ACC
* **
32725622 AAAAATTACCATTTTA-CCCTCGAACTTTCC-AAATTCCATTTTTGACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
*
32725680 -AAAATCACCATTTTACCC
1 AAAAATTACCATTTTACCC
32725698 TGGGTATCCA
Statistics
Matches: 372, Mismatches: 48, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
57 35 0.09
58 140 0.38
59 129 0.35
60 15 0.04
61 2 0.01
67 4 0.01
68 47 0.13
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACC
Found at i:32725573 original size:29 final size:30
Alignment explanation
Indices: 32725313--32725698 Score: 146
Period size: 29 Copynumber: 12.9 Consensus size: 30
32725303 TTTGACCCCG
*
32725313 ATTTCACCAAAAA-TACCATTTCACCCCTAA
1 ATTTCACCAAAAATTACCATTTTA-CCCTAA
* * *
32725343 ATTT-TCC-AAAATT-CCATTTTAACCTCA
1 ATTTCACCAAAAATTACCATTTTACCCTAA
32725370 ATTTCACCAAAAATTACCATTTTACCCCTAA
1 ATTTCACCAAAAATTACCATTTTA-CCCTAA
* **
32725401 ACTTT--CC-AAAATT-TCATTTTGA-CCTCG
1 A-TTTCACCAAAAATTACCATTTT-ACCCTAA
32725428 ATTTCACCAAAAATTACCATTTTACTCCTAA
1 ATTTCACCAAAAATTACCATTTTAC-CCTAA
* **
32725459 ACTTT--CC-AAAATT-CTATTTTTGACCC-CG
1 A-TTTCACCAAAAATTACCA-TTTT-ACCCTAA
* * *
32725487 ATTTCACTAAAAGTTACCATTTTACCCCCGAA
1 ATTTCACCAAAAATTACCATTTTA--CCCTAA
* *
32725519 CTTT--CC-AAAATT-CTATTTTTAACCCT-A
1 ATTTCACCAAAAATTACCA-TTTT-ACCCTAA
32725546 ATTTCACCAAAAATTACCATTTTACCCTTAA
1 ATTTCACCAAAAATTACCATTTTACCC-TAA
** *
32725577 ACTTTCCAAAATAGACAAAATT-CCATTTTTGATCCC--G
1 A-TTT-C---A-CCA-AAAATTACCA-TTTT-A-CCCTAA
32725614 ATTTCACCAAAAATTACCATTTTACCCTCGAA
1 ATTTCACCAAAAATTACCATTTTACCCT--AA
*
32725646 CTTT--CC--AAATT-CCATTTTTGACCCT-A
1 ATTTCACCAAAAATTACCA-TTTT-ACCCTAA
*
32725672 ATTTCACC-AAAATCACCATTTTACCCT
1 ATTTCACCAAAAATTACCATTTTACCCT
32725699 GGGTATCCAA
Statistics
Matches: 267, Mismatches: 37, Indels: 106
0.65 0.09 0.26
Matches are distributed among these distances:
26 7 0.03
27 22 0.08
28 48 0.18
29 66 0.25
30 61 0.23
31 22 0.08
32 16 0.06
33 1 0.00
35 1 0.00
36 4 0.01
37 5 0.02
38 10 0.04
39 1 0.00
40 3 0.01
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
ATTTCACCAAAAATTACCATTTTACCCTAA
Found at i:32725633 original size:68 final size:68
Alignment explanation
Indices: 32725524--32725654 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 68
32725514 CCGAACTTTC
* *
32725524 CAAAATTCTATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCTTAAACTTTCCAAAAT
1 CAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCCAAAAT
32725589 AGA
66 AGA
* * *
32725592 CAAAATTCCATTTTTGATCCC-GATTTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAA
1 CAAAATTCCATTTTT-AACCCTAATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCCAAA
32725655 TTCCATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 53 0.93
69 4 0.07
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (68 bp):
CAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCCAAAAT
AGA
Found at i:32725646 original size:127 final size:125
Alignment explanation
Indices: 32725465--32725698 Score: 378
Period size: 127 Copynumber: 1.9 Consensus size: 125
32725455 CTAAACTTTC
* * *
32725465 CAAAATTCTATTTTTGACCCCGATTTCACTAAAAGTTACCATTTTACCCCCGAACTTTCCAAAAT
1 CAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC-AAAT
* *
32725530 TCTATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATAGA
65 TCCATTTTTAACCCTAATTTCACC-AAAATCACCATTTTACCCTTAAACTTTCCAAAATAGA
* *
32725592 CAAAATTCCATTTTTGATCCCGATTTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAATT
1 CAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAATT
*
32725657 CCATTTTTGACCCTAATTTCACCAAAATCACCATTTTACCCT
66 CCATTTTTAACCCTAATTTCACCAAAATCACCATTTTACCCT
32725699 GGGTATCCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
125 18 0.18
126 26 0.26
127 55 0.56
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (125 bp):
CAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAATT
CCATTTTTAACCCTAATTTCACCAAAATCACCATTTTACCCTTAAACTTTCCAAAATAGA
Found at i:32725681 original size:28 final size:28
Alignment explanation
Indices: 32725594--32725682 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 28
32725584 AAAATAGACA
*
32725594 AAATTCCATTTTTGATCCC-GATTTCACC
1 AAATTCCATTTTTGA-CCCTAATTTCACC
32725622 AAAAATTACCA-TTTT-ACCCTCGAACTTT--CC
1 --AAATT-CCATTTTTGACCCT--AA-TTTCACC
32725652 AAATTCCATTTTTGACCCTAATTTCACC
1 AAATTCCATTTTTGACCCTAATTTCACC
32725680 AAA
1 AAA
32725683 ATCACCATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 20
0.70 0.01 0.29
Matches are distributed among these distances:
26 3 0.06
27 5 0.10
28 17 0.35
29 6 0.12
30 11 0.22
31 4 0.08
32 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.36
Consensus pattern (28 bp):
AAATTCCATTTTTGACCCTAATTTCACC
Found at i:32725697 original size:28 final size:28
Alignment explanation
Indices: 32725614--32725698 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 28
32725604 TTTGATCCCG
32725614 ATTTCACCAAAAATTACCATTTTACCCTCGA
1 ATTTCACC-AAAA-TACCATTTTACCCTC-A
*
32725645 ACTTT--CC-AAATTCCATTTTTGACCCT-A
1 A-TTTCACCAAAATACCA-TTTT-ACCCTCA
32725672 ATTTCACCAAAATCACCATTTTACCCT
1 ATTTCACCAAAAT-ACCATTTTACCCT
32725699 GGGTATCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
26 3 0.07
27 6 0.13
28 14 0.31
29 13 0.29
30 5 0.11
31 1 0.02
32 3 0.07
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (28 bp):
ATTTCACCAAAATACCATTTTACCCTCA
Found at i:32735588 original size:37 final size:37
Alignment explanation
Indices: 32735547--32735625 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
32735537 CTTTTAATCT
*
32735547 ATAAAATAAAAATTTAAGTCTTTAAAGGTATAAAAGG
1 ATAAAATAAAAATTTAAGTCCTTAAAGGTATAAAAGG
32735584 ATAAAATAAAAATTTAAGTCCTTAAAGGTATAAAAGG
1 ATAAAATAAAAATTTAAGTCCTTAAAGGTATAAAAGG
32735621 ATAAA
1 ATAAA
32735626 CTACACTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.28
Consensus pattern (37 bp):
ATAAAATAAAAATTTAAGTCCTTAAAGGTATAAAAGG
Found at i:32738056 original size:30 final size:30
Alignment explanation
Indices: 32738022--32738094 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
32738012 GCTTCGAGAA
32738022 CAAAATGGTAACTTTCAAAAAGTTCG-GGGT
1 CAAAATGGTAA-TTTCAAAAAGTTCGAGGGT
***
32738052 CAAAAATGG-AATTTTTGAAAGTTCGAGGGT
1 C-AAAATGGTAATTTCAAAAAGTTCGAGGGT
32738082 -AAAATGGTAATTT
1 CAAAATGGTAATTT
32738095 TTAGAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 7 0.19
29 16 0.43
30 7 0.19
31 7 0.19
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
CAAAATGGTAATTTCAAAAAGTTCGAGGGT
Found at i:32738075 original size:29 final size:29
Alignment explanation
Indices: 32738040--32738271 Score: 145
Period size: 29 Copynumber: 7.9 Consensus size: 29
32738030 TAACTTTCAA
32738040 AAAGTTCGGGGTCAAAAATGGAATTTTT-G
1 AAAGTTCGGGGT-AAAAATGGAATTTTTAG
32738069 AAAGTTCGAGGGT-AAAATGGTAATTTTTAG
1 AAAGTTCG-GGGTAAAAATGG-AATTTTTAG
* * *
32738099 AAAAATT-AGGGTTAAAATGGAATTTTTAG
1 -AAAGTTCGGGGTAAAAATGGAATTTTTAG
* * * *
32738128 -AGGTTTGGGGGTAAAAATGTAATTTTTGG
1 AAAG-TTCGGGGTAAAAATGGAATTTTTAG
** *
32738157 AAAGTTTAAGGTTAAAAATGGAATTTTT-G
1 AAAG-TTCGGGGTAAAAATGGAATTTTTAG
* *** *
32738186 AAGGCTT-GGGGGGGAAATGTAATTTTTAG
1 AAAG-TTCGGGGTAAAAATGGAATTTTTAG
* * * *
32738215 AAAGTTCAGGGTTAAAATGTAATTTTTGG
1 AAAGTTCGGGGTAAAAATGGAATTTTTAG
* *
32738244 AAAGTTTGGGGGTCAAAAA-GTAATTTTT
1 AAAG-TTCGGGGT-AAAAATGGAATTTTT
32738272 GGACAATTTA
Statistics
Matches: 161, Mismatches: 30, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 25 0.16
29 77 0.48
30 49 0.30
31 9 0.06
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAGTTCGGGGTAAAAATGGAATTTTTAG
Found at i:32738140 original size:58 final size:58
Alignment explanation
Indices: 32738054--32738271 Score: 230
Period size: 58 Copynumber: 3.7 Consensus size: 58
32738044 TTCGGGGTCA
* *
32738054 AAAATGGAATTTTTGAAAGTTCGAGGGT-AAAATGGTAATTTTTAGAAAAATTAGGGTT
1 AAAATGGAATTTTTGAAAGTTTGGGGGTAAAAAT-GTAATTTTTAGAAAAATTAGGGTT
* * ** *
32738112 AAAATGGAATTTTT-AGAGGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTTAAGGTT
1 AAAATGGAATTTTTGA-AAGTTTGGGGGTAAAAATGTAATTTTTAGAAAAATTAGGGTT
* * ** *
32738170 AAAAATGGAATTTTTGAAGGCTTGGGGG-GGAAATGTAATTTTTAG-AAAGTTCAGGGTT
1 -AAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTAGAAAAATT-AGGGTT
*
32738228 AAAATGTAATTTTTGGAAAGTTTGGGGGTCAAAAA-GTAATTTTT
1 AAAATGGAATTTTT-GAAAGTTTGGGGGT-AAAAATGTAATTTTT
32738272 GGACAATTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
57 18 0.14
58 73 0.55
59 38 0.29
60 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (58 bp):
AAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTAGAAAAATTAGGGTT
Found at i:32739398 original size:18 final size:19
Alignment explanation
Indices: 32739377--32739428 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
32739367 TATTATTACC
*
32739377 ATTATTAATATTA-TATTT
1 ATTATTAATATTATTATAT
*
32739395 ATTATTAACATTATTATAT
1 ATTATTAATATTATTATAT
32739414 AGTTAATTAATATTA
1 A-TT-ATTAATATTA
32739429 ATGTACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.43
19 5 0.18
20 2 0.07
21 9 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTATTAATATTATTATAT
Found at i:32739427 original size:27 final size:27
Alignment explanation
Indices: 32739363--32739429 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
32739353 TCCCTTTTTT
* *
32739363 TATTTATTATTACCATTATTAATATTA
1 TATTTAATATTAACATTATTAATATTA
*
32739390 TATTTATTATTAACATTATTATATAGTTA
1 TATTTAATATTAACATTATTA-ATA-TTA
32739419 -A-TTAATATTAA
1 TATTTAATATTAA
32739430 TGTACATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 29 0.81
28 4 0.11
29 3 0.08
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (27 bp):
TATTTAATATTAACATTATTAATATTA
Found at i:32740211 original size:17 final size:18
Alignment explanation
Indices: 32740189--32740242 Score: 85
Period size: 17 Copynumber: 3.1 Consensus size: 18
32740179 AAACCGTTTC
32740189 AATTT-AAACTAAATTTA
1 AATTTAAAACTAAATTTA
32740206 AATTTAAAAC-AAATTTA
1 AATTTAAAACTAAATTTA
*
32740223 AATTTAAAAATAAATTTA
1 AATTTAAAACTAAATTTA
32740241 AA
1 AA
32740243 ATCAATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 21 0.62
18 13 0.38
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTTAAAACTAAATTTA
Found at i:32740238 original size:12 final size:12
Alignment explanation
Indices: 32740221--32740253 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32740211 AAAACAAATT
32740221 TAAATTTAAAAA
1 TAAATTTAAAAA
32740233 TAAATTT-AAAA
1 TAAATTTAAAAA
*
32740244 TCAATTTAAA
1 TAAATTTAAA
32740254 CTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:32742564 original size:2 final size:2
Alignment explanation
Indices: 32742559--32742592 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
32742549 AAGCATGTAC
* *
32742559 AT AT AT AC AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32742593 CTTGATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:32742649 original size:58 final size:56
Alignment explanation
Indices: 32742575--32742766 Score: 172
Period size: 58 Copynumber: 3.2 Consensus size: 56
32742565 ACATATATAA
*
32742575 ATATATATATATATATATCTTGATTTTATTTTAGTTTTATTTATATACATACGTAAGT
1 ATATATATATATATATAT-TTGATTTTATTTTA-TTTTATTTATATACATACGTATGT
* * * * * *
32742633 ATATATATATATATATATAAATAGATATACATT-TTTTATTTTATTTTTATGTATATGCGCATCT
1 ATATATATATATATATAT---TTGAT-T---TTATTTTATTTTA--TTTATATACATACGTATGT
*
32742697 ATATATATATATAAATATATTCTGATTTTATCTT-TTTTATTTATATACATACGTATGT
1 ATATATATATAT--ATATATT-TGATTTTATTTTATTTTATTTATATACATACGTATGT
32742755 ATATATATATAT
1 ATATATATATAT
32742767 CTTGATTTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 24
0.73 0.10 0.16
Matches are distributed among these distances:
58 44 0.41
60 11 0.10
61 4 0.04
62 5 0.05
63 7 0.07
64 30 0.28
66 6 0.06
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (56 bp):
ATATATATATATATATATTTGATTTTATTTTATTTTATTTATATACATACGTATGT
Found at i:32743604 original size:30 final size:30
Alignment explanation
Indices: 32743413--32743645 Score: 219
Period size: 30 Copynumber: 7.8 Consensus size: 30
32743403 TGAAGGTCCT
*
32743413 TAAACTT-TCCCAAAATCT-CATTTTGACCCC
1 TAAACTTCT-CCAAAAT-TACATTTTAACCCC
* * *
32743443 TAAACTTCTCTAAAATTATATTTTGACCCC
1 TAAACTTCTCCAAAATTACATTTTAACCCC
* *
32743473 -AAACTTCTCCAAAATTACATTTCAA-CCA
1 TAAACTTCTCCAAAATTACATTTTAACCCC
* * *
32743501 TCAAACCTTCAT--GAAATCACATTTTAACCCT
1 T-AAA-CTTC-TCCAAAATTACATTTTAACCCC
* *
32743532 TAAACTTCTTCAAAATTACATTTTGACCCC
1 TAAACTTCTCCAAAATTACATTTTAACCCC
32743562 TAAACTTCTCCAAAATTACATTTTAACCCC
1 TAAACTTCTCCAAAATTACATTTTAACCCC
* * *
32743592 TAAACTTGTCCAATATTATATTTTAA-CCC
1 TAAACTTCTCCAAAATTACATTTTAACCCC
* *
32743621 TCAAACTTTTCCAAAATCACATTTT
1 T-AAACTTCTCCAAAATTACATTTT
32743646 GACCATCAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
28 3 0.02
29 30 0.18
30 127 0.75
31 8 0.05
32 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (30 bp):
TAAACTTCTCCAAAATTACATTTTAACCCC
Found at i:32743615 original size:90 final size:88
Alignment explanation
Indices: 32743425--32743649 Score: 251
Period size: 90 Copynumber: 2.5 Consensus size: 88
32743415 AACTTTCCCA
* * * *
32743425 AAATCTCATTTTGACCCCTAAACTTC-TCTAAAATTATATTTTGACCCCAAACTTCTCCAAAATT
1 AAATCACATTTTAACCCTTAAACTTCTTC-AAAATTACATTTTGACCCCAAACTTCTCCAAAATT
32743489 ACATTTCAACCATCAAACCTTCATG
65 ACATTTCAACCATCAAACCTTCA-G
32743514 AAATCACATTTTAACCCTTAAACTTCTTCAAAATTACATTTTGACCCCTAAACTTCTCCAAAATT
1 AAATCACATTTTAACCCTTAAACTTCTTCAAAATTACATTTTGACCCC-AAACTTCTCCAAAATT
* * *
32743579 ACATTTTAACC-CCTAAACTTGTCCA-
65 ACATTTCAACCATC-AAACCT-T-CAG
* * * * *
32743604 ATATTATATTTTAACCCTCAAACTT-TTCCAAAATCACATTTTGACC
1 AAATCACATTTTAACCCTTAAACTTCTT-CAAAATTACATTTTGACC
32743650 ATCAAACCTT
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
89 44 0.37
90 71 0.60
91 1 0.01
92 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (88 bp):
AAATCACATTTTAACCCTTAAACTTCTTCAAAATTACATTTTGACCCCAAACTTCTCCAAAATTA
CATTTCAACCATCAAACCTTCAG
Found at i:32743655 original size:30 final size:29
Alignment explanation
Indices: 32743414--32743738 Score: 210
Period size: 30 Copynumber: 11.0 Consensus size: 29
32743404 GAAGGTCCTT
*
32743414 AAACTTTCCCAAAATCT-CATTTTGACCCC
1 AAACTTTTCCAAAAT-TACATTTTGACCCC
* * *
32743443 TAAACTTCTCTAAAATTATATTTTGACCCC
1 -AAACTTTTCCAAAATTACATTTTGACCCC
* ** *
32743473 AAACTTCTCCAAAATTACATTTCAACCATC
1 AAACTTTTCCAAAATTACATTTTGACC-CC
* * * *
32743503 AAAC-CTT-CATGAAATCACATTTTAACCCTT
1 AAACTTTTCCA--AAATTACATTTTGACCC-C
32743533 AAACTTCTT-CAAAATTACATTTTGACCCC
1 AAACTT-TTCCAAAATTACATTTTGACCCC
* *
32743562 TAAACTTCTCCAAAATTACATTTTAACCCC
1 -AAACTTTTCCAAAATTACATTTTGACCCC
* * * *
32743592 TAAACTTGTCCAATATTATATTTTAACCCTC
1 -AAACTTTTCCAAAATTACATTTTGACCC-C
* *
32743623 AAACTTTTCCAAAATCACATTTTGACCATC
1 AAACTTTTCCAAAATTACATTTTGACC-CC
* * * * * *
32743653 AAACCTTCCCGAAATCATATTTTGATCCC
1 AAACTTTTCCAAAATTACATTTTGACCCC
** * *
32743682 AAACTCCTCCGAAATCACATTTTTGA-CCC
1 AAACTTTTCCAAAATTACA-TTTTGACCCC
* * *
32743711 AAGCTTTCCCAAAATTACATTTTTACCC
1 AAACTTTTCCAAAATTACATTTTGACCC
32743739 TTAATTTTTT
Statistics
Matches: 234, Mismatches: 48, Indels: 27
0.76 0.16 0.09
Matches are distributed among these distances:
28 7 0.03
29 59 0.25
30 163 0.70
31 1 0.00
32 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTGACCCC
Found at i:32746307 original size:6 final size:6
Alignment explanation
Indices: 32746298--32746375 Score: 56
Period size: 6 Copynumber: 13.5 Consensus size: 6
32746288 GATTTATTTC
** *
32746298 TAAATT TAAATT TAAATT T-GTTT TAAATT TAAATT T-AGTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * *
32746344 TGAAA-- TAATTT TAAACT TAACTT TAAAAT TAA
1 T-AAATT TAAATT TAAATT TAAATT TAAATT TAA
32746376 TTTCAAGGTC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
4 2 0.04
5 8 0.15
6 41 0.76
7 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:32746324 original size:17 final size:17
Alignment explanation
Indices: 32746302--32746349 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
32746292 TATTTCTAAA
32746302 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAG
32746318 TTTTAAATTTAAATTTAG
1 -TTTAAATTTAAATTTAG
32746336 TTTAAATTTGAAAT
1 TTTAAATTT-AAAT
32746350 AATTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAG
Found at i:32746328 original size:23 final size:24
Alignment explanation
Indices: 32746284--32746334 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
32746274 TTAGATTGGT
*
32746284 TTTAGATTTATTTCTAAATTTAAA
1 TTTAAATTTATTTCTAAATTTAAA
*
32746308 TTTAAATTTGTTT-TAAATTTAAA
1 TTTAAATTTATTTCTAAATTTAAA
32746331 TTTA
1 TTTA
32746335 GTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAAATTTATTTCTAAATTTAAA
Found at i:32746356 original size:17 final size:17
Alignment explanation
Indices: 32746302--32746363 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
32746292 TATTTCTAAA
**
32746302 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTAAT
* *
32746319 TTTAAATTTAAATTTAG
1 TTTAAATTTAAATTAAT
32746336 TTTAAATTTGAAA-TAAT
1 TTTAAATTT-AAATTAAT
*
32746353 TTTAAACTTAA
1 TTTAAATTTAA
32746364 CTTTAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
16 2 0.05
17 34 0.87
18 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTAAT
Found at i:32747035 original size:3 final size:3
Alignment explanation
Indices: 32747027--32747112 Score: 57
Period size: 3 Copynumber: 27.0 Consensus size: 3
32747017 TTAATAACAT
* *
32747027 TAA TAA TAA TAA TAT TAA TAA TAA TAA -ATA TAA TAA TAA TGAA CTTAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA --TAA
* * * *
32747075 TAA TAA CAA TAAA TAA TAT TGA TAAA TAT TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA
32747113 ATAAAAAGGG
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
2 1 0.02
3 53 0.83
4 8 0.12
5 1 0.02
6 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:32747038 original size:15 final size:14
Alignment explanation
Indices: 32747018--32747114 Score: 81
Period size: 15 Copynumber: 6.6 Consensus size: 14
32747008 TAAATGATTT
32747018 TAATAACATTAATAA
1 TAATAA-ATTAATAA
32747033 TAATAATATTAATAA
1 TAATAA-ATTAATAA
32747048 TAATAAATATAATAA
1 TAATAAAT-TAATAA
32747063 TAATGAACTTATTAATAA
1 TAAT-AA---ATTAATAA
* *
32747081 CAATAAA-TAATAT
1 TAATAAATTAATAA
* *
32747094 TGATAAA-TATTAA
1 TAATAAATTAATAA
32747107 TAATAAAT
1 TAATAAAT
32747115 AAAAAGGGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
13 20 0.29
14 3 0.04
15 30 0.44
16 2 0.03
17 2 0.03
18 9 0.13
19 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (14 bp):
TAATAAATTAATAA
Found at i:32748219 original size:26 final size:26
Alignment explanation
Indices: 32748183--32748252 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
32748173 ACCATTAAAC
32748183 TTCCAAAAATTCCATTTTTGTAATTT
1 TTCCAAAAATTCCATTTTTGTAATTT
32748209 TTCCAAAAATTCCATTTTTGTAATTT
1 TTCCAAAAATTCCATTTTTGTAATTT
32748235 TTCCAAAAATTACCATTT
1 TTCCAAAAATT-CCATTT
32748253 ACCCCCAGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 37 0.86
27 6 0.14
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (26 bp):
TTCCAAAAATTCCATTTTTGTAATTT
Found at i:32748391 original size:57 final size:57
Alignment explanation
Indices: 32748266--32748458 Score: 280
Period size: 57 Copynumber: 3.4 Consensus size: 57
32748256 CCCAGACTTT
* * * * **
32748266 CAAATATTACCATTCTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTGGTTTTTC
1 CAAAAATTACCATTTTACCCCTAAACTTCC-AAAATTCC-CTTTTGACCCTAATTTTTC
*
32748325 CAAAAATTACCATTTTACCCTTAAACTTCCAAAATTCCCTTTTGACCCTAATTTTTC
1 CAAAAATTACCATTTTACCCCTAAACTTCCAAAATTCCCTTTTGACCCTAATTTTTC
*
32748382 CAAAAATTACCA-TTTACCCCTAAACTTCCAAAATTCCCTTTTTAACCCTAATTTTTC
1 CAAAAATTACCATTTTACCCCTAAACTTCCAAAATTCCC-TTTTGACCCTAATTTTTC
32748439 CAAAAATTACCATTTTACCC
1 CAAAAATTACCATTTTACCC
32748459 TCGAATGTCT
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
56 25 0.20
57 57 0.46
58 15 0.12
59 26 0.21
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCTAAACTTCCAAAATTCCCTTTTGACCCTAATTTTTC
Found at i:32748459 original size:29 final size:28
Alignment explanation
Indices: 32748152--32748539 Score: 173
Period size: 29 Copynumber: 13.8 Consensus size: 28
32748142 GACCCCGAAC
*
32748152 TTTTCCAAAAATTA-CATTTTTACCATTAA
1 TTTTCCAAAAATTACCA-TTTTACC-CTAA
** **
32748181 ACTTCCAAAAATT-CCATTTT--TGTAA
1 TTTTCCAAAAATTACCATTTTACCCTAA
**
32748206 TTTTTCCAAAAATT-CCATTTT--TGTAA
1 -TTTTCCAAAAATTACCATTTTACCCTAA
*
32748232 TTTTTCCAAAAATTACCA-TTTACCCCCAGA
1 -TTTTCCAAAAATTACCATTTTA-CCCTA-A
* * * *
32748262 CTTT-CAAATATTACCATTCTACCCCCAA
1 TTTTCCAAAAATTACCATTTTA-CCCTAA
** **
32748290 ACTTCCAAAAATT-CCATTTTTGACCCTGGT
1 TTTTCCAAAAATTACCA-TTTT-ACCCT-AA
32748320 TTTTCCAAAAATTACCATTTTACCCTTAA
1 TTTTCCAAAAATTACCATTTTACCC-TAA
** *
32748349 ACTTCC-AAAATT-CCCTTTTGACCCTAA
1 TTTTCCAAAAATTACCATTTT-ACCCTAA
32748376 TTTTTCCAAAAATTACCA-TTTACCCCTAA
1 -TTTTCCAAAAATTACCATTTTA-CCCTAA
** * *
32748405 ACTTCC-AAAATTCCCTTTTTAACCCTAA
1 TTTTCCAAAAATTACCATTTT-ACCCTAA
32748433 TTTTTCCAAAAATTACCATTTTACCCTCGAA
1 -TTTTCCAAAAATTACCATTTTACCCT--AA
* * * *
32748464 -TGTCTAAAAATT-CTATTTTTGACCCAAA
1 TTTTCCAAAAATTACCA-TTTT-ACCCTAA
* **
32748492 CTTTCTC-AAAATTACCATTTTACCCCGA
1 TTTTC-CAAAAATTACCATTTTACCCTAA
* *
32748520 GTGTCC-AAAATTACCATTTT
1 TTTTCCAAAAATTACCATTTT
32748540 GCCCCCAAGC
Statistics
Matches: 281, Mismatches: 48, Indels: 62
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.01
26 40 0.14
27 35 0.12
28 61 0.22
29 99 0.35
30 38 0.14
31 5 0.02
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
TTTTCCAAAAATTACCATTTTACCCTAA
Found at i:32748555 original size:28 final size:27
Alignment explanation
Indices: 32748498--32748557 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
32748488 CAAACTTTCT
* **
32748498 CAAAATTACCATTTTACCCCGAGTGTC
1 CAAAATTACCATTTTACCCCAAGCATC
*
32748525 CAAAATTACCATTTTGCCCCCAAGCATC
1 CAAAATTACCATTTT-ACCCCAAGCATC
32748553 CAAAA
1 CAAAA
32748558 ATCTCACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.35, C:0.32, G:0.08, T:0.25
Consensus pattern (27 bp):
CAAAATTACCATTTTACCCCAAGCATC
Found at i:32749115 original size:11 final size:11
Alignment explanation
Indices: 32749092--32749154 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
32749082 TCAAATTTAT
32749092 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
32749104 TTTATTTTAAA
1 TTTAATTTAAA
*
32749115 TTCAATTTAAA
1 TTTAATTTAAA
*
32749126 TTTAAATTTGAA
1 TTT-AATTTAAA
*
32749138 TTCAATTTAAA
1 TTTAATTTAAA
32749149 TTTAAT
1 TTTAAT
32749155 GTTATTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 28 0.67
12 14 0.33
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:32749143 original size:23 final size:23
Alignment explanation
Indices: 32749099--32749153 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
32749089 TATTTTAATC
*
32749099 TTAAATTT-ATTTTAAATTCAAT
1 TTAAATTTAAATTTAAATTCAAT
*
32749121 TTAAATTTAAATTTGAATTCAAT
1 TTAAATTTAAATTTAAATTCAAT
32749144 TTAAATTTAA
1 TTAAATTTAA
32749154 TGTTATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 8 0.27
23 22 0.73
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAATTTAAATTTAAATTCAAT
Found at i:32749171 original size:6 final size:6
Alignment explanation
Indices: 32749099--32749153 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
32749089 TATTTTAATC
* * * *
32749099 TTAAAT TT-ATT TTAAA- TTCAAT TTAAAT TTAAAT TTGAA- TTCAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
32749144 TTAAAT TTAA
1 TTAAAT TTAA
32749154 TGTTATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
5 12 0.31
6 27 0.69
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:32749216 original size:14 final size:14
Alignment explanation
Indices: 32749197--32749257 Score: 90
Period size: 14 Copynumber: 4.5 Consensus size: 14
32749187 CATGGCCCAG
32749197 GGCCCAATTACAAT
1 GGCCCAATTACAAT
*
32749211 GGCCCAATTACAAA
1 GGCCCAATTACAAT
*
32749225 GGCCCAATT--AAG
1 GGCCCAATTACAAT
32749237 GGCCCAATTACAAT
1 GGCCCAATTACAAT
32749251 GGCCCAA
1 GGCCCAA
32749258 ATCCCTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 11 0.26
14 31 0.74
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (14 bp):
GGCCCAATTACAAT
Found at i:32749246 original size:26 final size:27
Alignment explanation
Indices: 32749197--32749257 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
32749187 CATGGCCCAG
*
32749197 GGCCCAATTACAATGGCCCAATTACAAA
1 GGCCCAATTA-AAGGGCCCAATTACAAA
*
32749225 GGCCCAATT-AAGGGCCCAATTACAAT
1 GGCCCAATTAAAGGGCCCAATTACAAA
32749251 GGCCCAA
1 GGCCCAA
32749258 ATCCCTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 22 0.71
28 9 0.29
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (27 bp):
GGCCCAATTAAAGGGCCCAATTACAAA
Found at i:32751582 original size:29 final size:30
Alignment explanation
Indices: 32751437--32751613 Score: 234
Period size: 30 Copynumber: 5.9 Consensus size: 30
32751427 GTAAGCCCTT
32751437 AACTTTTCCAAAATTACATTTTAACCCCAA
1 AACTTTTCCAAAATTACATTTTAACCCCAA
*
32751467 AACTTTTCCAAAATTACATTTTGACCCCAA
1 AACTTTTCCAAAATTACATTTTAACCCCAA
*
32751497 AACTTTTCCAAAATTATATTTTAACCCCAA
1 AACTTTTCCAAAATTACATTTTAACCCCAA
* *
32751527 AACTTTTCCAAAATTATATTTTGACCCCAA
1 AACTTTTCCAAAATTACATTTTAACCCCAA
* * *
32751557 AAC-TTTCAAAAATTACCATTTTACCCCCCGA
1 AACTTTTCCAAAATTA-CATTTTA-ACCCCAA
* *
32751588 ATCTTTT--AAAATTCCATTTTAACCCC
1 AACTTTTCCAAAATTACATTTTAACCCC
32751614 GATTTCACCA
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.03
29 18 0.14
30 100 0.76
31 7 0.05
32 3 0.02
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
AACTTTTCCAAAATTACATTTTAACCCCAA
Found at i:32751607 original size:59 final size:55
Alignment explanation
Indices: 32751441--32751761 Score: 207
Period size: 59 Copynumber: 5.5 Consensus size: 55
32751431 GCCCTTAACT
* * * * *
32751441 TTTCCAAAATTA-CATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAA
1 TTTCAAAAATTACCATTTTACCCCCGAAACTTTT--AAAATTCCATTTTAACCCC--AA
* * * * ** *
32751499 CTTTTCCAAAATTA-TATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAA
1 --TTTCAAAAATTACCATTTTACCCCCGAAACTTTT--AAAATTCCATTTTAACCCC--AA
* *
32751559 CTTTCAAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTAACCCCGA
1 -TTTCAAAAATTACCATTTTA-CCCCCGAAACTTTTAAAATTCCATTTTAACCCCAA
* * *
32751616 TTTCACCAAAAATTACCATTTTACCCCCGAAGA-TTCTAAAATTCCATTTTTAACCTCGA
1 TTT---CAAAAATTACCATTTTACCCCCGAA-ACTTTTAAAATTCCA-TTTTAACCCCAA
* * * *
32751675 TTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGA
1 TTTCA---AAAATTACCATTTTACCCCCGAAACTTTTAAAATTCCA-TTTTAACCCCAA
* *
32751734 TTACACCAAAATTACCATTTTGCCCCCG
1 TTTCA--AAAATTACCATTTTACCCCCG
32751762 GGTATCCATA
Statistics
Matches: 228, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.02
57 1 0.00
58 40 0.18
59 109 0.48
60 62 0.27
61 11 0.05
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (55 bp):
TTTCAAAAATTACCATTTTACCCCCGAAACTTTTAAAATTCCATTTTAACCCCAA
Found at i:32751635 original size:30 final size:29
Alignment explanation
Indices: 32751594--32751754 Score: 116
Period size: 29 Copynumber: 5.5 Consensus size: 29
32751584 CCGAATCTTT
32751594 TAAAATTCCATTTTAACCCCGATTTCACC
1 TAAAATTCCATTTTAACCCCGATTTCACC
* * *
32751623 AAAAATTACCATTTTACCCCCGAAGATT---C
1 TAAAATT-CCATTTTAACCCCG-A-TTTCACC
*
32751652 TAAAATTCCATTTTTAACCTCGATTTCACC
1 TAAAATTCCA-TTTTAACCCCGATTTCACC
* * * ***
32751682 GAAAATTGCCATTTTACCCCCGA-ATCTTT
1 TAAAATT-CCATTTTAACCCCGATTTCACC
* *
32751711 TAAAATTCCATTTTTAACCTCGATTACACC
1 TAAAATTCCA-TTTTAACCCCGATTTCACC
32751741 -AAAATTACCATTTT
1 TAAAATT-CCATTTT
32751755 GCCCCCGGGT
Statistics
Matches: 99, Mismatches: 22, Indels: 22
0.69 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 7 0.07
29 50 0.51
30 34 0.34
31 4 0.04
32 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
TAAAATTCCATTTTAACCCCGATTTCACC
Found at i:32751783 original size:117 final size:118
Alignment explanation
Indices: 32751565--32751796 Score: 310
Period size: 117 Copynumber: 2.0 Consensus size: 118
32751555 AAAACTTTCA
*
32751565 AAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTAACCCCGATTACACCAAAAATT
* * *
32751630 ACCATTTTACCCCCGAAGATTCTAAAATTCCATTTTTAACCTCGATTTCACCG
66 ACCATTTTACCCCCGAAGATCCTAAAATCCCATTTTTAACCCCGATTTCACCG
* *
32751683 AAAATTGCCATTTTA-CCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTACACC-AAAAT
1 AAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCA-TTTTAACCCCGATTACACCAAAAAT
* * * * *
32751746 TACCATTTTGCCCCCG-GGTATCC-ATAAGTCCCGTTTTTCACCCCGATTTCA
65 TACCATTTTACCCCCGAAG-ATCCTA-AAATCCCATTTTTAACCCCGATTTCA
32751797 TCATTTATCA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
116 2 0.02
117 67 0.67
118 31 0.31
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTAACCCCGATTACACCAAAAATT
ACCATTTTACCCCCGAAGATCCTAAAATCCCATTTTTAACCCCGATTTCACCG
Found at i:32753983 original size:34 final size:34
Alignment explanation
Indices: 32753940--32754009 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
32753930 TTACCTCAGA
32753940 GCCTAAAATCGCATATAGTGAGCCGTAAATACTC
1 GCCTAAAATCGCATATAGTGAGCCGTAAATACTC
*
32753974 GCCTAAAATCGCATATAGTGAGCCGTAAGTACTC
1 GCCTAAAATCGCATATAGTGAGCCGTAAATACTC
32754008 GC
1 GC
32754010 TCTAGACGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (34 bp):
GCCTAAAATCGCATATAGTGAGCCGTAAATACTC
Found at i:32759595 original size:18 final size:18
Alignment explanation
Indices: 32759568--32759611 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32759558 CAGATGTGAA
32759568 GGAAAAGAAGAAAGAGAT
1 GGAAAAGAAGAAAGAGAT
* **
32759586 GGAAAGGAAGCGAGAGAT
1 GGAAAAGAAGAAAGAGAT
32759604 GAGAAAAG
1 G-GAAAAG
32759612 CACGACTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.55, C:0.02, G:0.39, T:0.05
Consensus pattern (18 bp):
GGAAAAGAAGAAAGAGAT
Found at i:32763814 original size:18 final size:18
Alignment explanation
Indices: 32763791--32763825 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32763781 CATCTAATAC
32763791 TGTTCCTTGTAAATATTT
1 TGTTCCTTGTAAATATTT
32763809 TGTTCCTTGTAAATATT
1 TGTTCCTTGTAAATATT
32763826 CAGCATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:32764390 original size:49 final size:49
Alignment explanation
Indices: 32764257--32764605 Score: 231
Period size: 49 Copynumber: 7.1 Consensus size: 49
32764247 TCAGTACCAT
* ** * * *
32764257 GGAAAGATCTAAGCCGCAATGGTAGATCTAGTACCGCAAAGATACAAGAG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGAGACACAA-AG
* * * * * * * **
32764307 GGAAATG-TTTAAGTCGCAACGAC-AAACCTTGTACCTCAGAGACATGAAG
1 GGAAA-GATCTAAGCCGCAACGGCGGATCC-AGTACCGCAGAGACACAAAG
* *
32764356 GAAAAGATCTAAGCCGCAACAGCGGATCCAGTACCGCA-AGGACACAAAG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGA-GACACAAAG
* * * * * * * **
32764405 GGAAAGGTTTAAGTCGTAATGGC-GAACCTAGTACCTCAGAGACATGAAG
1 GGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCGCAGAGACACAAAG
* * * *
32764454 GGAAAGATCTAGGCCGCAATGGTGGATCCAGTACCGCAAAGACACAAAG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGAGACACAAAG
* * * * * ** * **
32764503 GGAAAGGTTTAAGTCGCAATGACTAATCCAGTACCTCAGAGACATGAAG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGAGACACAAAG
* * *
32764552 GGAAAGATCTAAGCCGCAACGGCGAATCCAATACCGCAAAGACACAAA-
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGAGACACAAAG
32764600 GGAAAG
1 GGAAAG
32764606 GCGAGACATG
Statistics
Matches: 221, Mismatches: 70, Indels: 18
0.72 0.23 0.06
Matches are distributed among these distances:
48 12 0.05
49 172 0.78
50 36 0.16
51 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (49 bp):
GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAGAGACACAAAG
Found at i:32764433 original size:98 final size:98
Alignment explanation
Indices: 32764257--32764606 Score: 488
Period size: 98 Copynumber: 3.6 Consensus size: 98
32764247 TCAGTACCAT
* ** * * *
32764257 GGAAAGATCTAAGCCGCAATGGTAGATCTAGTACCGCAAAGATACAAGAGGGAAATGTTTAAGTC
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAAAGACACAA-AGGGAAAGGTTTAAGTC
* *
32764322 GCAACGACAAACCTTGTACCTCAGAGACATGAAG
65 GCAATGACAAACCTAGTACCTCAGAGACATGAAG
* * *
32764356 GAAAAGATCTAAGCCGCAACAGCGGATCCAGTACCGCAAGGACACAAAGGGAAAGGTTTAAGTCG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAAAGACACAAAGGGAAAGGTTTAAGTCG
* * *
32764421 TAATGGCGAACCTAGTACCTCAGAGACATGAAG
66 CAATGACAAACCTAGTACCTCAGAGACATGAAG
* * *
32764454 GGAAAGATCTAGGCCGCAATGGTGGATCCAGTACCGCAAAGACACAAAGGGAAAGGTTTAAGTCG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAAAGACACAAAGGGAAAGGTTTAAGTCG
*
32764519 CAATGACTAATCC-AGTACCTCAGAGACATGAAG
66 CAATGAC-AAACCTAGTACCTCAGAGACATGAAG
* *
32764552 GGAAAGATCTAAGCCGCAACGGCGAATCCAATACCGCAAAGACACAAA-GGAAAGG
1 GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAAAGACACAAAGGGAAAGG
32764607 CGAGACATGA
Statistics
Matches: 221, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
97 7 0.03
98 172 0.78
99 42 0.19
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (98 bp):
GGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCAAAGACACAAAGGGAAAGGTTTAAGTCG
CAATGACAAACCTAGTACCTCAGAGACATGAAG
Found at i:32764727 original size:67 final size:67
Alignment explanation
Indices: 32764541--32764727 Score: 302
Period size: 67 Copynumber: 2.8 Consensus size: 67
32764531 CAGTACCTCA
* * * *
32764541 GAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAATACCGCAAAGACACAAAGGAAAG
1 GAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAAAAGAAAG
32764606 GC
66 GC
* *
32764608 GAGACATGAAGGGAAAGATCTAAGCCGTAACGGCAGATCCAGTACCGCGAAGACACAAAAGAAAG
1 GAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAAAAGAAAG
32764673 GC
66 GC
* *
32764675 GAGACATGAAAGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGTGAAGA
1 GAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGA
32764728 TGCGAGGGCA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 110 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.09
Consensus pattern (67 bp):
GAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAAAAGAAAG
GC
Found at i:32765192 original size:6 final size:6
Alignment explanation
Indices: 32765183--32765278 Score: 74
Period size: 6 Copynumber: 16.5 Consensus size: 6
32765173 GATTTATTTC
* * **
32765183 TAAATT TAAATT T-ACTT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * * *
32765230 TAAATT T-AGTT TAAATT TGAAA-- TAATTT TAAACT TAACTT TAAAAT
1 TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT
32765276 TAA
1 TAA
32765279 TTTCAAGGTC
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
4 2 0.03
5 9 0.13
6 54 0.79
7 3 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:32765205 original size:17 final size:18
Alignment explanation
Indices: 32765169--32765213 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
32765159 GTAGATTGGT
* *
32765169 TTTAGATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
32765187 TTTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
32765204 TTTAAATTTA
1 TTTAAATTTA
32765214 AATTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:32765226 original size:35 final size:34
Alignment explanation
Indices: 32765187--32765278 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 34
32765177 TATTTCTAAA
*
32765187 TTTAAATTTACTTTAAATTTAAATTT-AAATTCATT
1 TTTAAATTTACTTTAAATTTAAATTTGAAA-T-AAT
* *
32765222 TTTAAATTTAAATTT-AGTTTAAATTTGAAATAAT
1 TTTAAATTT-ACTTTAAATTTAAATTTGAAATAAT
* *
32765256 TTTAAACTTAACTTTAAAATTAA
1 TTTAAA-TTTACTTTAAATTTAA
32765279 TTTCAAGGTC
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
34 12 0.26
35 27 0.59
36 7 0.15
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (34 bp):
TTTAAATTTACTTTAAATTTAAATTTGAAATAAT
Found at i:32765228 original size:41 final size:42
Alignment explanation
Indices: 32765169--32765252 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
32765159 GTAGATTGGT
* *
32765169 TTTAGATTTATTTCTAAATTTAAATTTACTTTAAATTT-AAA
1 TTTAAATTCATTTCTAAATTTAAATTTACTTTAAATTTGAAA
* *
32765210 TTTAAATTCATTTTTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTCTAAATTTAAATTTACTTTAAATTTGAAA
32765252 T
1 T
32765253 AATTTTAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAATTTAAATTTACTTTAAATTTGAAA
Found at i:32765259 original size:17 final size:17
Alignment explanation
Indices: 32765187--32765266 Score: 72
Period size: 17 Copynumber: 4.6 Consensus size: 17
32765177 TATTTCTAAA
** *
32765187 TTTAAATTTACTTTAAA
1 TTTAAATTTAAATTAAT
*
32765204 TTTAAATTTAAATTCATT
1 TTTAAATTTAAATT-AAT
* *
32765222 TTTAAATTTAAATTTAG
1 TTTAAATTTAAATTAAT
32765239 TTTAAATTTGAAA-TAAT
1 TTTAAATTT-AAATTAAT
*
32765256 TTTAAACTTAA
1 TTTAAATTTAA
32765267 CTTTAAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
16 2 0.04
17 31 0.61
18 18 0.35
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAATTAAT
Found at i:32765645 original size:15 final size:14
Alignment explanation
Indices: 32765625--32765706 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 14
32765615 TAAATGATTT
32765625 TAATAACATTAATAA
1 TAATAA-ATTAATAA
32765640 TAATAAATATAATAA
1 TAATAAAT-TAATAA
32765655 TAATGAACTTATTAATAA
1 TAAT-AA---ATTAATAA
* *
32765673 CAATAAA-TAATAT
1 TAATAAATTAATAA
* *
32765686 TGATAAA-TATTAA
1 TAATAAATTAATAA
32765699 TAATAAAT
1 TAATAAAT
32765707 AAAAAGGGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
13 20 0.37
14 3 0.06
15 16 0.30
16 2 0.04
17 2 0.04
18 9 0.17
19 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (14 bp):
TAATAAATTAATAA
Found at i:32766205 original size:66 final size:66
Alignment explanation
Indices: 32766099--32766230 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
32766089 CGCGTTGGAC
*
32766099 GGAGGCGATGTTCGGTCGGGGCTTGGCCAGCCTTAGAGAGGAAGAAGAGAGGGCTTGAGAGAGAG
1 GGAGGCGATGTTCGCTCGGGGCTTGGCCAGCCTTAGAGAGGAAGAAGAGAGGGCTTGAGAGAGAG
32766164 T
66 T
32766165 GGAGGCGATGTTCGACT-GGGGCTTGGCC-GACCTTAGAGAGGAAGAAGAGAGGGCTTGAGAGAG
1 GGAGGCGATGTTCG-CTCGGGGCTTGGCCAG-CCTTAGAGAGGAAGAAGAGAGGGCTTGAGAGAG
32766228 AGT
64 AGT
32766231 TTTGGTTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
65 1 0.02
66 61 0.97
67 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.45, T:0.17
Consensus pattern (66 bp):
GGAGGCGATGTTCGCTCGGGGCTTGGCCAGCCTTAGAGAGGAAGAAGAGAGGGCTTGAGAGAGAG
T
Found at i:32766816 original size:29 final size:29
Alignment explanation
Indices: 32766773--32766991 Score: 78
Period size: 29 Copynumber: 7.5 Consensus size: 29
32766763 GAACTTTTCC
32766773 AAAAATTACCA-TTTTACCCTCAAACTTCT
1 AAAAATT-CCATTTTTACCCTCAAACTTCT
*** *
32766802 AAAAATTCCATTTTTGA-CCTCGTTCTTTCA
1 AAAAATTCCATTTTT-ACCCTCAAAC-TTCT
* *
32766832 AAAAATTATCA-TTTTACCCTCAAACTTTT
1 AAAAATT-CCATTTTTACCCTCAAACTTCT
* * * ** *
32766861 GAGAATTCTATTTTTAACCCT-AATTTTTCC
1 AAAAATTCCATTTTT-ACCCTCAA-ACTTCT
** *
32766891 AAAAATTACCA-TTTTACCCTTGAATTTC-
1 AAAAATT-CCATTTTTACCCTCAAACTTCT
* * * *
32766919 CAAAATTCCCTTTTTGACCC-CAAATTTTCC
1 AAAAATTCCATTTTT-ACCCTCAAA-CTTCT
* *
32766949 AAAAATTAC-TATTTTACCCTCGAA-TGTCT
1 AAAAATTCCAT-TTTTACCCTCAAACT-TCT
*
32766978 AAAAATTTCATTTT
1 AAAAATTCCATTTT
32766992 GATCCCAAAC
Statistics
Matches: 140, Mismatches: 32, Indels: 36
0.67 0.15 0.17
Matches are distributed among these distances:
27 2 0.01
28 17 0.12
29 65 0.46
30 52 0.37
31 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAAATTCCATTTTTACCCTCAAACTTCT
Found at i:32766839 original size:59 final size:58
Alignment explanation
Indices: 32766767--32766991 Score: 229
Period size: 59 Copynumber: 3.8 Consensus size: 58
32766757 GACCCCGAAC
*
32766767 TTTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTGACCTCGT
1 TTTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTGACCTCAT
* * * * * * * *
32766825 TCTTTCAAAAAATTATCATTTTACCCTCAAACTTTTGAGAATTCTATTTTTAACCCTAAT
1 T-TTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTGA-CCTCAT
** * * * * *
32766885 TTTTCCAAAAATTACCATTTTACCCTTGAATTTC-CAAAATTCCCTTTTTGACCCCAAA
1 TTTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTGACCTC-AT
* * *
32766943 TTTTCCAAAAATTACTATTTTACCCTCGAA-TGTCTAAAAATTTCATTTT
1 TTTTCCAAAAATTACCATTTTACCCTCAAACT-TCTAAAAATTCCATTTT
32766992 GATCCCAAAC
Statistics
Matches: 134, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
57 3 0.02
58 44 0.33
59 82 0.61
60 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (58 bp):
TTTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTGACCTCAT
Found at i:32766954 original size:58 final size:59
Alignment explanation
Indices: 32766748--32767021 Score: 259
Period size: 58 Copynumber: 4.6 Consensus size: 59
32766738 TGTCCATAAA
* *
32766748 CCATATTTTGACCCCGAACTTTTCCAAAAATTACCATTTTACCCTCAAACTTCTAAAAATT
1 CCAT-TTTTGACCCC-AAATTTTCCAAAAATTACCATTTTACCCTCAAATTTCTAAAAATT
* ** * * * *
32766809 CCATTTTTGACCTC-GTTCTTTCAAAAAATTATCATTTTACCCTCAAACTTT-TGAGAATT
1 CCATTTTTGACCCCAAAT-TTTCCAAAAATTACCATTTTACCCTCAAA-TTTCTAAAAATT
* * * * ** *
32766868 CTATTTTTAACCCTAATTTTTCCAAAAATTACCATTTTACCCTTGAATTTC-CAAAATT
1 CCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCCTCAAATTTCTAAAAATT
* * * *
32766926 CCCTTTTTGACCCCAAATTTTCCAAAAATTACTATTTTACCCTCGAATGTCTAAAAATT
1 CCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCCTCAAATTTCTAAAAATT
* * * * *
32766985 TCA-TTTTGATCCCAAACTTTCCCAAAATTATCATTTT
1 CCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTT
32767022 GCCCCCGAGT
Statistics
Matches: 173, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
58 81 0.47
59 75 0.43
60 13 0.08
61 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (59 bp):
CCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCCTCAAATTTCTAAAAATT
Found at i:32767048 original size:58 final size:57
Alignment explanation
Indices: 32766752--32767054 Score: 173
Period size: 58 Copynumber: 5.2 Consensus size: 57
32766742 CATAAACCAT
* * * * *
32766752 ATTTTGACCCCGAACTTTTCCAAAAATTACCATTTTACCCTCAAACT-TCTAAAAATTCC
1 ATTTTGACCCCAAAC-TTTCCAAAAATTACTATTTTACCCCCGAA-TGTC-CAAAATTCC
* *** * * * * ** * *
32766811 ATTTTTGACCTCGTTCTTTCAAAAAATTA-TCATTTTACCCTCAAACTTTTGAGAATTCT
1 A-TTTTGACCCCAAACTTTCCAAAAATTACT-ATTTTACCCCCGAA-TGTCCAAAATTCC
* * ** * ** *
32766870 ATTTTTAACCCTAATTTTTCCAAAAATTACCATTTTACCCTTGAATTTCCAAAATTCCC
1 A-TTTTGACCCCAAACTTTCCAAAAATTACTATTTTACCCCCGAATGTCCAAAATT-CC
* * * * *
32766929 TTTTTGACCCCAAATTTTCCAAAAATTACTATTTTACCCTCGAATGTCTAAAAATTTC
1 ATTTTGACCCCAAACTTTCCAAAAATTACTATTTTACCCCCGAATGTC-CAAAATTCC
* * * *
32766987 ATTTTGATCCCAAACTTTCCCAAAATTA-TCATTTTGCCCCCGAGTGTCCAAAATTACC
1 ATTTTGACCCCAAACTTTCCAAAAATTACT-ATTTTACCCCCGAATGTCCAAAATT-CC
32767045 ATTTT-ACCCC
1 ATTTTGACCCC
32767055 CCGGGTATCC
Statistics
Matches: 194, Mismatches: 42, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
57 11 0.06
58 95 0.49
59 76 0.39
60 12 0.06
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (57 bp):
ATTTTGACCCCAAACTTTCCAAAAATTACTATTTTACCCCCGAATGTCCAAAATTCC
Found at i:32767065 original size:29 final size:28
Alignment explanation
Indices: 32767006--32767066 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
32766996 CCAAACTTTC
* * *
32767006 CCAAAATTATCATTTTGCCCCCGAGTGT
1 CCAAAATTACCATTTTCCCCCCGAGTAT
*
32767034 CCAAAATTACCATTTTACCCCCCGGGTAT
1 CCAAAATTACCATTTT-CCCCCCGAGTAT
32767063 CCAA
1 CCAA
32767067 TAATCTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (28 bp):
CCAAAATTACCATTTTCCCCCCGAGTAT
Found at i:32769772 original size:9 final size:9
Alignment explanation
Indices: 32769759--32769848 Score: 77
Period size: 9 Copynumber: 10.6 Consensus size: 9
32769749 AAATAAATAA
32769759 AAAAAGAAAG
1 AAAAAG-AAG
32769769 AAAAAAGAAG
1 -AAAAAGAAG
32769779 AAAAAGAAG
1 AAAAAGAAG
*
32769788 --AAA-AAT
1 AAAAAGAAG
32769794 AAAAAG-AG
1 AAAAAGAAG
* *
32769802 GAAAAGAGG
1 AAAAAGAAG
*
32769811 AAAAAGGA-
1 AAAAAGAAG
32769819 AAAAAGAAG
1 AAAAAGAAG
32769828 --AAAGAAG
1 AAAAAGAAG
32769835 AAAAAGAAG
1 AAAAAGAAG
32769844 AAAAA
1 AAAAA
32769849 TGGAAAAAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
6 2 0.03
7 10 0.16
8 16 0.25
9 27 0.42
10 3 0.05
11 6 0.09
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:32769782 original size:32 final size:32
Alignment explanation
Indices: 32769743--32769862 Score: 118
Period size: 32 Copynumber: 3.7 Consensus size: 32
32769733 CAGATTCGAT
*
32769743 GAAGAAAAATAAATAAAAAAAGAAAGA-AAAAA
1 GAAGAAAAAGAAA-AAAAAAAGAAAGAGAAAAA
* *
32769775 GAAGAAAAAGAAGAAAAATAA-AAAGAGGAAAA
1 GAAGAAAAAGAA-AAAAAAAAGAAAGAGAAAAA
* * *
32769807 GAGGAAAAAGGAAAAAAGAAGAAAGAAGAAAAA
1 GAAGAAAAAGAAAAAAAAAAGAAAG-AGAAAAA
*
32769840 GAAGAAAAATGGAAAAAGAAAAG
1 GAAGAAAAA--GAAAAAAAAAAG
32769863 GAGAGGTCTA
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
31 12 0.17
32 35 0.49
33 15 0.21
35 9 0.13
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (32 bp):
GAAGAAAAAGAAAAAAAAAAGAAAGAGAAAAA
Found at i:32769797 original size:24 final size:23
Alignment explanation
Indices: 32769757--32769839 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
32769747 AAAAATAAAT
*
32769757 AAAAA-AAGAAAGAAAAAAGAAG
1 AAAAAGAAGAAAAAAAAAAGAAG
32769779 AAAAAGAAGAAAAATAAAAAG-AG
1 AAAAAGAAGAAAAA-AAAAAGAAG
* * *
32769802 GAAAAGAGGAAAAAGGAAAA-AAG
1 AAAAAGAAGAAAAA-AAAAAGAAG
32769825 AAGAAAGAAGAAAAA
1 AA-AAAGAAGAAAAA
32769840 GAAGAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 5 0.10
23 28 0.56
24 17 0.34
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (23 bp):
AAAAAGAAGAAAAAAAAAAGAAG
Found at i:32769816 original size:17 final size:16
Alignment explanation
Indices: 32769765--32769858 Score: 61
Period size: 16 Copynumber: 5.8 Consensus size: 16
32769755 ATAAAAAAAG
* *
32769765 AAAGAAAAAAGAAGAA
1 AAAGGAAAAAGAGGAA
*
32769781 AAAGAAGAAAAATA--AA
1 AAAG--GAAAAAGAGGAA
32769797 AAGAGG-AAAAGAGGAA
1 AA-AGGAAAAAGAGGAA
*
32769813 AAAGGAAAAAAGAAGAA
1 AAAGG-AAAAAGAGGAA
*
32769830 AGAA-GAAAAAGAAGAA
1 A-AAGGAAAAAGAGGAA
32769846 AAATGGAAAAAGA
1 AAA-GGAAAAAGA
32769859 AAAGGAGAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
14 5 0.08
15 6 0.09
16 24 0.38
17 21 0.33
18 8 0.12
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAGGAAAAAGAGGAA
Found at i:32769840 original size:24 final size:25
Alignment explanation
Indices: 32769768--32769840 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
32769758 AAAAAAGAAA
32769768 GAAAAAAGAAGAAAAAGAAGAAAAA-
1 GAAAAAAGAAG-AAAAGAAGAAAAAG
* * *
32769793 -TAAAAAGAGGAAAAGAGGAAAAAG
1 GAAAAAAGAAGAAAAGAAGAAAAAG
32769817 GAAAAAAGAAG-AAAGAAGAAAAAG
1 GAAAAAAGAAGAAAAGAAGAAAAAG
32769841 AAGAAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 12 0.30
24 20 0.50
25 8 0.20
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (25 bp):
GAAAAAAGAAGAAAAGAAGAAAAAG
Found at i:32769847 original size:24 final size:23
Alignment explanation
Indices: 32769757--32769848 Score: 62
Period size: 25 Copynumber: 3.7 Consensus size: 23
32769747 AAAAATAAAT
32769757 AAAAAAAGAAAGAAAAAAGAAGAAA
1 AAAAAAAGA-AG-AAAAAGAAGAAA
* *
32769782 AAGAAGAAA-AATAAAAAGAGGAAA
1 AA-AA-AAAGAAGAAAAAGAAGAAA
*
32769806 AGAGGAAAAAGGA-AAAAAGAAGAAA
1 A-A--AAAAAGAAGAAAAAGAAGAAA
32769831 GAAGAAAAAGAAGAAAAA
1 -AA-AAAAAGAAGAAAAA
32769849 TGGAAAAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
24 20 0.36
25 24 0.44
26 8 0.15
27 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAAGAAGAAA
Found at i:32771099 original size:49 final size:49
Alignment explanation
Indices: 32770787--32771666 Score: 417
Period size: 50 Copynumber: 17.8 Consensus size: 49
32770777 GGTACCTTAA
* * * * * * *
32770787 AAGATGTGAAGAGAAAGGTTGAGACCGCAACGGCGAACCCAATACTTAAT-
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATAC--CATG
* * * *** * **
32770837 AAGATGTGATGGGAAAGGTTGAGGCCGTAACGACAAACCCGATACCTAAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACC-ATG
* * * * ** * *
32770887 AAGATGTGATGGAAAAGGTTGAGGCCTCAACGACGAAC-CCAGTACCTAAG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACC-ATG
* * * * * *
32770937 AAGATGTGATGGGAAAGGTTGAGGCCGTAACGATAAACCCGATACCATG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATG
* * * * * ** * *
32770986 AAGAGATGAAAGG-AAGGATTGACGCTGCGATAGTGAA-TCCGGTACCTTAG
1 AAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACT-CGATACCAT-G
* * *
32771036 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGTGAACTCGATACCATG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATG
* * * * * *
32771085 AAGATTTGAAGGGAAAAGTTGAGACTGCAATGGTGAA-TCCAGTACCATG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCATG
* * * * *
32771134 AAGATGTAAAGGGAAAAGTTGAGGCCGCAACGGTGAA-TCCAGTACCTAAG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACC-ATG
* * * * * *
32771184 AGGACATGACGGGAATGGTTGAGGCCACAACGGTGAAC-CTAGTACCATG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCATG
* ** * ** *
32771233 AAGAGATGAAGGG-AAGGATTGAGGCTACGACGACGAA-TCTAATACCATAG
1 AAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTC-GATACCAT-G
* * * * * *
32771283 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAAC-CTAGTACCACG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCATG
* * * **
32771332 AAGATATGAACGGAAAGGTTGAGGCCGTAACGGTGAAC-CTGGTACCTAAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC-GATACC-ATG
* *** *
32771382 AAGATGTGATA-GGAAAGGTTGAGGCCGCAACGACAAAC-CCAGTACCATG
1 AAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCATG
* * * * * *
32771431 AAGATATGAAAGGAAAGTTTGAGGCCACAACAGTGAACCCGATACCTAAG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACC-ATG
* * * ** *
32771481 AAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCAAAC-CCAGTACCATG
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCATG
* *** * * *
32771530 AAGAGATGAAGGG-AAGGATTGAGGCCATGACTGTGAA-TCTGGTACC-TT
1 AAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTC-GATACCATG
* * * **
32771578 AAAATATGTAATGGGAAAGATTGAGGCCGCAATGACGAACTCGATACCATG
1 AAGATATG-AA-GGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATG
* * * *
32771629 AAGATATGAAGAGAAAGGTTGATGTCGCAATGGTGAAC
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAAC
32771667 CTAACACCTT
Statistics
Matches: 638, Mismatches: 157, Indels: 71
0.74 0.18 0.08
Matches are distributed among these distances:
48 22 0.03
49 277 0.43
50 314 0.49
51 25 0.04
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (49 bp):
AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCATG
Found at i:32771469 original size:247 final size:246
Alignment explanation
Indices: 32770787--32771476 Score: 701
Period size: 247 Copynumber: 2.8 Consensus size: 246
32770777 GGTACCTTAA
* * * * * * * * * *
32770787 AAGATGTGAAGAGAAAGGTTGAGACCGCAACGGCGAACCCAATACTTAATAAGATGTGATGGGAA
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAGTAC-CAAGAAGATATGAAGGGAA
*** * *
32770852 AGGTTGAGGCCGTAACGACAAACCCGATACCTAAAAAGATGTGAT-GGAAAAGGTTGAGGCCTCA
65 AGGTTGAGGCCGTAACGGTGAA-CCGGTACCTAAAAAGATGTGATAGG-AAAGGTTGAGGCCGCA
* * ** * *
32770916 ACGACGAACCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGATAAACCCGATA
128 ACGACGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCCACAACG-TGAACCAGATA
* * * ** *
32770981 CCATGAAGAGATGAAAGGAAGGATTGACGCTGCGATAGTGAATCCGGTACCTTAG
192 CCATGAAGAGATGAAAGGAAGGATTGACGCTACGAGAGCGAATCCAATACCATAG
* * * *
32771036 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGTGAA-CTCGATACCATGAAGATTTGAAGGGAA
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAG-TACCAAGAAGATATGAAGGGAA
* * * * * * ** * *
32771100 AAGTTGAGACTGCAATGGTGAATCCAGTACC-ATGAAGATGT-AAAGGGAAAAGTTGAGGCCGCA
65 AGGTTGAGGCCGTAACGGTGAA-CCGGTACCTAAAAAGATGTGATA-GGAAAGGTTGAGGCCGCA
** * * * * *
32771163 ACGGTGAATCCAGTACCTAAGAGGACATGACGGGAATGGTTGAGGCCACAACGGTGAACCTAG-T
128 ACGACGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCCACAAC-GTGAACC-AGAT
* * *
32771227 ACCATGAAGAGATGAAGGGAAGGATTGAGGCTACGACGA-CGAATCTAATACCATAG
191 ACCATGAAGAGATGAAAGGAAGGATTGACGCTACGA-GAGCGAATCCAATACCATAG
* *
32771283 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAGTACCACGAAGATATGAACGGAAA
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAGTACCAAGAAGATATGAAGGGAAA
32771348 GGTTGAGGCCGTAACGGTGAACCTGGTACCTAAAAAGATGTGATAGGAAAGGTTGAGGCCGCAAC
66 GGTTGAGGCCGTAACGGTGAACC-GGTACCTAAAAAGATGTGATAGGAAAGGTTGAGGCCGCAAC
* * * * *
32771413 GACAAACCCAGTACC-ATGAAGATATGAAAGGAAAGTTTGAGGCCACAACAGTGAACCCGATACC
130 GACGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCCACAAC-GTGAACCAGATACC
32771477 TAAGAAGATG
Statistics
Matches: 352, Mismatches: 78, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
246 4 0.01
247 230 0.65
248 81 0.23
249 37 0.11
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (246 bp):
AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAGTACCAAGAAGATATGAAGGGAAA
GGTTGAGGCCGTAACGGTGAACCGGTACCTAAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACG
ACGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCCACAACGTGAACCAGATACCAT
GAAGAGATGAAAGGAAGGATTGACGCTACGAGAGCGAATCCAATACCATAG
Found at i:32771535 original size:297 final size:297
Alignment explanation
Indices: 32771123--32771668 Score: 717
Period size: 297 Copynumber: 1.8 Consensus size: 297
32771113 AATGGTGAAT
* * * * *
32771123 CCAGTACCATGAAGATGTAAAGGGAAAAGTTGAGGCCGCAACGGTGAATCCAGTACCTAAGAGGA
1 CCAGTACCATGAAGATATAAAGGGAAAAGTTGAGGCCACAACAGTGAACCCAGTACCTAAGAAGA
* ** *
32771188 CATGACGGGAATGGTTGAGGCCACAACGGTGAACCTAGTACCATGAAGAGATGAAGGGAAGGATT
66 CATGACGGGAAAGGTTGAGGCCACAACGGCAAACCCAGTACCATGAAGAGATGAAGGGAAGGATT
* * * * *
32771253 GAGGCTACGAC-GACGAATCTAATACCATAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGC
131 GAGGCCACGACTG-CGAATCTAATACCATAAAAGATGTAATGGGAAAGATTGAGGCCGCAATGAC
*
32771317 GAACCTAG-TACCACGAAGATATGAACG-GAAAGGTTGAGGCCGTAACGGTGAACCTGGTACCTA
195 GAA-CTAGATACCACGAAGATATGAA-GAGAAAGGTTGAGGCCGCAACGGTGAACCTGGTACCTA
32771380 AAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGACAAAC
258 AAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGACAAAC
32771420 CCAGTACCATGAAGATATGAAA-GG-AAAGTTTGAGGCCACAACAGTGAACCC-GATACCTAAGA
1 CCAGTACCATGAAGATAT-AAAGGGAAAAG-TTGAGGCCACAACAGTGAACCCAG-TACCTAAGA
** * **
32771482 AGATGTGATGGGAAAGGTTGAGGCCGTAACGGCAAACCCAGTACCATGAAGAGATGAAGGGAAGG
63 AGACATGACGGGAAAGGTTGAGGCCACAACGGCAAACCCAGTACCATGAAGAGATGAAGGGAAGG
* * ** * *
32771547 ATTGAGGCCATGACTGTGAATCTGGTACCTTAAAATATGTAATGGGAAAGATTGAGGCCGCAATG
128 ATTGAGGCCACGACTGCGAATCTAATACCATAAAAGATGTAATGGGAAAGATTGAGGCCGCAATG
* * * * *
32771612 ACGAACTCGATACCATGAAGATATGAAGAGAAAGGTTGATGTCGCAATGGTGAACCT
193 ACGAACTAGATACCACGAAGATATGAAGAGAAAGGTTGAGGCCGCAACGGTGAACCT
32771669 AACACCTTAA
Statistics
Matches: 212, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
296 9 0.04
297 199 0.94
298 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.18
Consensus pattern (297 bp):
CCAGTACCATGAAGATATAAAGGGAAAAGTTGAGGCCACAACAGTGAACCCAGTACCTAAGAAGA
CATGACGGGAAAGGTTGAGGCCACAACGGCAAACCCAGTACCATGAAGAGATGAAGGGAAGGATT
GAGGCCACGACTGCGAATCTAATACCATAAAAGATGTAATGGGAAAGATTGAGGCCGCAATGACG
AACTAGATACCACGAAGATATGAAGAGAAAGGTTGAGGCCGCAACGGTGAACCTGGTACCTAAAA
AGATGTGATAGGAAAGGTTGAGGCCGCAACGACAAAC
Found at i:32771676 original size:99 final size:98
Alignment explanation
Indices: 32770779--32771680 Score: 532
Period size: 99 Copynumber: 9.1 Consensus size: 98
32770769 GCAAATCCGG
* * * * * * * *
32770779 TACCTTAAAAGATGTGAAGAGAAAGGTTGAGACCGCAACGGCGAACCCAATACTTAAT-AAGATG
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTAC--CATGAAGATA
* * *** *
32770843 TGATGGGAAAGGTTGAGGCCGTAACGACAAACCCGA
64 TGA-AGGAAAGGTTGAGGCCGCAACGGTGAACCTGA
* * * * * *
32770879 TACCTAAAAAGATGTGATGGAAAAGGTTGAGGCCTCAACGACGAACCCAGTACCTAAGAAGATGT
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACC-ATGAAGATAT
* * * * *
32770944 GATGGGAAAGGTTGAGGCCGTAACGATAAACCCGA
65 GA-AGGAAAGGTTGAGGCCGCAACGGTGAACCTGA
* * ** * * ** * * *
32770979 TACCAT-GAAGA-GATGAAAGG-AAGGATTGACGCTGCGATA-G-TGAATCCGGTACCTTAGAAG
1 TACCTTAAAAGATG-TGATGGGAAAGG-TTGAGGCCGC-A-ACGACAAACCCAGTACCAT-GAAG
* * *
32771039 ATGTGATGGGAAAGGTTGAGGCCGCAATGGTGAA-CTCGA
61 ATATGA-AGGAAAGGTTGAGGCCGCAACGGTGAACCT-GA
* * * * * * * * *** * * *
32771078 TACCAT-GAAGATTTGAAGGGAAAAGTTGAGACTGCAATGGTGAATCCAGTACCATGAAGATGTA
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATATG
* *
32771142 AAGGGAAAAGTTGAGGCCGCAACGGTGAATCCAG-
66 AA-GGAAAGGTTGAGGCCGCAACGGTGAA-CCTGA
* ** * * * *** * *
32771176 TACC-TAAGAGGACATGACGGGAATGGTTGAGGCCACAACGGTGAACCTAGTACCATGAAGAGAT
1 TACCTTAA-AAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATAT
* ** * ** * *
32771240 GAAGGGAAGGATTGAGGCTACGACGACGAATCTAA
65 GAAGGAAAGG-TTGAGGCCGCAACGGTGAACCTGA
* * * * * * *
32771275 TACCATAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCTAGTACCACGAAGATATG
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATATG
* *
32771340 AACGGAAAGGTTGAGGCCGTAACGGTGAACCTGG
66 AA-GGAAAGGTTGAGGCCGCAACGGTGAACCTGA
* *
32771374 TACCTAAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATATG
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATATG
* * * *
32771439 AAAGGAAAGTTTGAGGCCACAACAGTGAACCCGA
66 -AAGGAAAGGTTGAGGCCGCAACGGTGAACCTGA
* * *
32771473 TACC-TAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCAAACCCAGTACCATGAAGAGAT
1 TACCTTAA-AAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATAT
* *** * * *
32771537 GAAGGGAAGGATTGAGGCCATGACTGTGAATCTGG
65 GAAGGAAAGG-TTGAGGCCGCAACGGTGAACCTGA
* * * * * *
32771572 TACCTTAAAATATGTAATGGGAAAGATTGAGGCCGCAATGACGAACTC-GATACCATGAAGATAT
1 TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAG-TACCATGAAGATAT
* * * *
32771636 GAAGAGAAAGGTTGATGTCGCAATGGTGAACCTAA
65 GAAG-GAAAGGTTGAGGCCGCAACGGTGAACCTGA
*
32771671 CACCTTAAAA
1 TACCTTAAAA
32771681 ACACAACGGG
Statistics
Matches: 637, Mismatches: 138, Indels: 55
0.77 0.17 0.07
Matches are distributed among these distances:
97 2 0.00
98 61 0.10
99 459 0.72
100 114 0.18
101 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (98 bp):
TACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGACAAACCCAGTACCATGAAGATATG
AAGGAAAGGTTGAGGCCGCAACGGTGAACCTGA
Found at i:32772004 original size:39 final size:39
Alignment explanation
Indices: 32771954--32772119 Score: 115
Period size: 39 Copynumber: 4.3 Consensus size: 39
32771944 AAAGATTCCG
*
32771954 ATCTCTTACCCCAATCATGAGGCAGATCACAGTCATCCT
1 ATCTCTTACCCCAATCATGAGGCAGATCACAGTCATCCA
* * * * * * *
32771993 ATCTTTTACCCCGAGCTTGGGGTAGATCACCA-TCAACCA
1 ATCTCTTACCCCAATCATGAGGCAGATCA-CAGTCATCCA
*** *
32772032 ATCTCTTACCCCAAGTC-T-AGGGCAGATTGTAGCCATCCA
1 ATCTCTTACCCCAA-TCATGA-GGCAGATCACAGTCATCCA
* * * * *
32772071 ATCTTTTACCCCAATCATGTGGCAGATTATC-GTTAGCCA
1 ATCTCTTACCCCAATCATGAGGCAGATCA-CAGTCATCCA
32772110 ATCTCTTACC
1 ATCTCTTACC
32772120 TCGCGATAGG
Statistics
Matches: 94, Mismatches: 26, Indels: 14
0.70 0.19 0.10
Matches are distributed among these distances:
38 3 0.03
39 88 0.94
40 3 0.03
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (39 bp):
ATCTCTTACCCCAATCATGAGGCAGATCACAGTCATCCA
Found at i:32772863 original size:7 final size:7
Alignment explanation
Indices: 32772851--32772912 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
32772841 ACCCAATAGT
32772851 TAAACCC
1 TAAACCC
32772858 TAAACCC
1 TAAACCC
*
32772865 TAAACCT
1 TAAACCC
*
32772872 TAAACCT
1 TAAACCC
*
32772879 TAAACTC
1 TAAACCC
*
32772886 TAAACCT
1 TAAACCC
* *
32772893 TAAATCT
1 TAAACCC
32772900 TAAACCC
1 TAAACCC
32772907 TAAACC
1 TAAACC
32772913 TTTAAAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:32772875 original size:21 final size:21
Alignment explanation
Indices: 32772850--32772946 Score: 104
Period size: 21 Copynumber: 4.5 Consensus size: 21
32772840 AACCCAATAG
*
32772850 TTAAACCCTAAACCCTAAACC
1 TTAAACCTTAAACCCTAAACC
*
32772871 TTAAACCTTAAACTCTAAACC
1 TTAAACCTTAAACCCTAAACC
*
32772892 TTAAATCTTAAACCCTAAACC
1 TTAAACCTTAAACCCTAAACC
** *
32772913 TTTAAAAATTAAAACCCTAATTCC
1 -TTAAACCTT-AAACCCTAA-ACC
*
32772937 TTAACCCTTA
1 TTAAACCTTA
32772947 TGCTGCTGCC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
21 38 0.60
22 8 0.13
23 15 0.24
24 2 0.03
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAACCTTAAACCCTAAACC
Found at i:32773390 original size:14 final size:14
Alignment explanation
Indices: 32773371--32773404 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32773361 ATTTTATTTT
*
32773371 TATATATATACGCA
1 TATATATATAAGCA
*
32773385 TATATATATAAGTA
1 TATATATATAAGCA
32773399 TATATA
1 TATATA
32773405 AGTATATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (14 bp):
TATATATATAAGCA
Found at i:32773400 original size:10 final size:10
Alignment explanation
Indices: 32773387--32773411 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32773377 TATACGCATA
32773387 TATATATAAG
1 TATATATAAG
32773397 TATATATAAG
1 TATATATAAG
32773407 TATAT
1 TATAT
32773412 GTAAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
TATATATAAG
Found at i:32774069 original size:30 final size:30
Alignment explanation
Indices: 32774028--32774443 Score: 303
Period size: 30 Copynumber: 13.9 Consensus size: 30
32774018 GAAGGTCCTT
* *
32774028 AAACTTTTCCAAAATTACATTTTGACTCTC
1 AAACTTCTCCAAAATTACATTTTGACCCTC
* *
32774058 GAACTTCTCCAAAATTACATTTCGACCACT-
1 AAACTTCTCCAAAATTACATTTTGACC-CTC
* * *
32774088 AAACTTCTCTAAAATTATATTTTAACCC-C
1 AAACTTCTCCAAAATTACATTTTGACCCTC
* *
32774117 TAAACTTCTCCAAAATTACATTTTGACCATT
1 -AAACTTCTCCAAAATTACATTTTGACCCTC
* * *
32774148 AAATTTCTCCAAAATTACATTTTAACCCCCC
1 AAACTTCTCCAAAATTACATTTTGA-CCCTC
* *
32774179 AAACTTTTCCAAAATTGCATTTTGA-CCTC
1 AAACTTCTCCAAAATTACATTTTGACCCTC
* * * *
32774208 TAAACTTTTCTAAAATCACATTTTGACCCTT
1 -AAACTTCTCCAAAATTACATTTTGACCCTC
* * ** * *
32774239 GAACTTTTCCAAAATTGTATTTTGACACTT
1 AAACTTCTCCAAAATTACATTTTGACCCTC
* * **
32774269 AAACTTTTCCAAAATCACATTTTGACTATC
1 AAACTTCTCCAAAATTACATTTTGACCCTC
* * *
32774299 AAACCTTCT-CGAAATCACATTTTAACCCT-
1 AAA-CTTCTCCAAAATTACATTTTGACCCTC
* * * *
32774328 AAACTCCTCTAAAATCATATTTTTGACCCT-
1 AAACTTCTCCAAAATTACA-TTTTGACCCTC
* *
32774358 AAACTT-TCCCAAAATTACATTTTTACCCTT
1 AAACTTCT-CCAAAATTACATTTTGACCCTC
* * **
32774388 AAACTTTTCCAAAATTACGTTTT-AATCTC
1 AAACTTCTCCAAAATTACATTTTGACCCTC
*
32774417 GAAC-TCTCCAAAACTT-CATTTTCGACC
1 AAACTTCTCCAAAA-TTACATTTT-GACC
32774444 TCATTTTTTC
Statistics
Matches: 305, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
28 17 0.06
29 32 0.10
30 223 0.73
31 33 0.11
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
AAACTTCTCCAAAATTACATTTTGACCCTC
Found at i:32774104 original size:60 final size:60
Alignment explanation
Indices: 32774027--32774443 Score: 343
Period size: 60 Copynumber: 7.0 Consensus size: 60
32774017 AGAAGGTCCT
* * *
32774027 TAAACTTTTCCAAAATTACATTTTGACTCTCGAACTTCTCCAAAATTACATTTCGACCAC
1 TAAACTTTTCCAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTGACCAC
* * * * *
32774087 TAAACTTCTCTAAAATTATATTTTAACCC-CTAAACTTCTCCAAAATTACATTTTGACCAT
1 TAAACTTTTCCAAAATTACATTTTGACCCTC-AAACTTCTCCAAAATTACATTTTGACCAC
* * * * *
32774147 TAAA-TTTCTCCAAAATTACATTTTAACCCCCCAAACTTTTCCAAAATTGCATTTTGACCTC
1 TAAACTTT-TCCAAAATTACATTTTGA-CCCTCAAACTTCTCCAAAATTACATTTTGACCAC
* * ** * **
32774208 TAAACTTTTCTAAAATCACATTTTGACCCTTGAACTTTTCCAAAATTGTATTTTGA-CAC
1 TAAACTTTTCCAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTGACCAC
* ** * * *
32774267 TTAAACTTTTCCAAAATCACATTTTGACTATCAAACCTTCT-CGAAATCACATTTTAACC-C
1 -TAAACTTTTCCAAAATTACATTTTGACCCTCAAA-CTTCTCCAAAATTACATTTTGACCAC
** * * * *
32774327 TAAACTCCTCTAAAATCATATTTTTGACCCT-AAACTT-TCCCAAAATTACATTTTTACC-C
1 TAAACTTTTCCAAAATTACA-TTTTGACCCTCAAACTTCT-CCAAAATTACATTTTGACCAC
* ** *
32774386 TTAAACTTTTCCAAAATTACGTTTT-AATCTCGAAC-TCTCCAAAACTT-CATTTTCGACC
1 -TAAACTTTTCCAAAATTACATTTTGACCCTCAAACTTCTCCAAAA-TTACATTTT-GACC
32774444 TCATTTTTTC
Statistics
Matches: 288, Mismatches: 53, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
57 1 0.00
58 19 0.07
59 53 0.18
60 159 0.55
61 52 0.18
62 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (60 bp):
TAAACTTTTCCAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTGACCAC
Found at i:32777930 original size:16 final size:16
Alignment explanation
Indices: 32777890--32777923 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32777880 ATATGCATAC
*
32777890 AACATATTTCATATAT
1 AACAAATTTCATATAT
32777906 AACAAATTTCATATAT
1 AACAAATTTCATATAT
32777922 AA
1 AA
32777924 ATCATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
AACAAATTTCATATAT
Found at i:32786577 original size:29 final size:29
Alignment explanation
Indices: 32786545--32786605 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
32786535 AAAATGCGAT
* ** *
32786545 TTTTTGGATACTTGGGGGTAAAATGGTAA
1 TTTTTGGACACTCAGGGGCAAAATGGTAA
32786574 -TTTTGGACACTCAGGGGCAAAATGGTAA
1 TTTTTGGACACTCAGGGGCAAAATGGTAA
32786602 TTTT
1 TTTT
32786606 AGGGAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (29 bp):
TTTTTGGACACTCAGGGGCAAAATGGTAA
Found at i:32786686 original size:59 final size:59
Alignment explanation
Indices: 32786619--32786754 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 59
32786609 GAAAGTTGAT
*
32786619 GGTCAAAAATGGAATTTTTAGACA--TCTGGGGGTAAAACT-G-TACTTTTTGAAAGAATCGG
1 GGTCAAAAATGGAATTTTTAGA-AGTTC-GAGGGTAAAA-TAGATACTTTTTGAAA-AATCGG
* * * **
32786678 GGTTAAAAATAGAATTTTTTGAAGTTCGAGGGTAAAATAGATTTTTTTTGAAAAATCGG
1 GGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAATAGATACTTTTTGAAAAATCGG
32786737 GGTCAAAAATGGAATTTT
1 GGTCAAAAATGGAATTTT
32786755 GGAAAGTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 51 0.78
60 12 0.18
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.34
Consensus pattern (59 bp):
GGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAATAGATACTTTTTGAAAAATCGG
Found at i:32786739 original size:29 final size:29
Alignment explanation
Indices: 32786662--32786754 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
32786652 AAAACTGTAC
32786662 TTTTTGAAAGAATCGGGGTTAAAAATAGAAT
1 TTTTTGAAA-AATCGGGG-TAAAAATAGAAT
** *
32786693 TTTTTG-AAGTTCGAGGGT-AAAATAGATTT
1 TTTTTGAAAAATCG-GGGTAAAAATAGA-AT
*
32786722 TTTTTGAAAAATCGGGGTCAAAAATGGAAT
1 TTTTTGAAAAATCGGGGT-AAAAATAGAAT
32786752 TTT
1 TTT
32786755 GGAAAGTTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 8 0.16
29 15 0.30
30 14 0.28
31 13 0.26
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
TTTTTGAAAAATCGGGGTAAAAATAGAAT
Found at i:32786803 original size:29 final size:29
Alignment explanation
Indices: 32786736--32786954 Score: 163
Period size: 30 Copynumber: 7.3 Consensus size: 29
32786726 TGAAAAATCG
* * *
32786736 GGGTCAAAAATGGAATTTT-GGAAAGTTCAA
1 GGGTC-AAAATGTAATTTTAGAAAAGTT-TA
* * *
32786766 GAGTAAAAATGTAATTTTCAG-AAAGTTTT
1 GGGTCAAAATGTAATTTT-AGAAAAGTTTA
* * *
32786795 GGGTCAAAAATGTAATTTTGGAGAAGTTTG
1 GGGTC-AAAATGTAATTTTAGAAAAGTTTA
* *
32786825 GGGTTAAAATATAATTTTAGAAAAGTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTA
** *
32786854 GGAGTCAAAGGGTAATTTTGGAAAAGTTTA
1 GG-GTCAAAATGTAATTTTAGAAAAGTTTA
* * *
32786884 GAGGTTAAAATATAATTTTAAAAAAGTTTAA
1 G-GGTCAAAATGTAATTTTAGAAAAGTTT-A
* * * *
32786915 GGGTTAAAGTGTAATTTTGGAAAAGTTTGG
1 GGGTCAAAATGTAATTTTAGAAAAGTTT-A
32786945 GGGTCAAAAT
1 GGGTCAAAAT
32786955 ATGATTTTTG
Statistics
Matches: 148, Mismatches: 34, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
29 38 0.26
30 106 0.72
31 4 0.03
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTA
Found at i:32786898 original size:60 final size:59
Alignment explanation
Indices: 32786749--32786976 Score: 230
Period size: 60 Copynumber: 3.8 Consensus size: 59
32786739 TCAAAAATGG
* * * * *
32786749 AATTTTGG-AAAGTTCA-AGAGTAAAAATGTAATTTTCAG-AAAGTTTTGGGTCAAAAATGT
1 AATTTTGGAAAAGTTTAGAG-GTTAAAATATAATTTT-AGAAAAGTTTAGGGTC-AAAGTGT
* * *
32786808 AATTTTGGAGAAGTTT-GGGGTTAAAATATAATTTTAGAAAAGTTTAGGAGTCAAAGGGT
1 AATTTTGGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTTAGG-GTCAAAGTGT
* *
32786867 AATTTTGGAAAAGTTTAGAGGTTAAAATATAATTTTAAAAAAGTTTAAGGGTTAAAGTGT
1 AATTTTGGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTT-AGGGTCAAAGTGT
* * * * * * *
32786927 AATTTTGGAAAAGTTTGGGGGTCAAAATATGATTTTTGGATAGTTTAGGG
1 AATTTTGGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTTAGGG
32786977 GCCTTTAGGG
Statistics
Matches: 142, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.01
59 55 0.39
60 82 0.58
61 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (59 bp):
AATTTTGGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTTAGGGTCAAAGTGT
Found at i:32787409 original size:7 final size:7
Alignment explanation
Indices: 32787397--32787439 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
32787387 GTACCATTTT
32787397 GGGTTTA
1 GGGTTTA
32787404 GGGTTTA
1 GGGTTTA
*
32787411 AGGTTTA
1 GGGTTTA
*
32787418 GGATTTA
1 GGGTTTA
*
32787425 AGGTTTA
1 GGGTTTA
*
32787432 AGGTTTA
1 GGGTTTA
32787439 G
1 G
32787440 AACCAAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:32787417 original size:14 final size:14
Alignment explanation
Indices: 32787398--32787438 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
32787388 TACCATTTTG
32787398 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
32787412 GGTTTAGGATTTAA
1 GGTTTAGGGTTTAA
*
32787426 GGTTTAAGGTTTA
1 GGTTTAGGGTTTA
32787439 GAACCAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:32787429 original size:21 final size:21
Alignment explanation
Indices: 32787400--32787439 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32787390 CCATTTTGGG
*
32787400 TTTAGGGTTTAAGGTTTAGGA
1 TTTAAGGTTTAAGGTTTAGGA
32787421 TTTAAGGTTTAAGGTTTAG
1 TTTAAGGTTTAAGGTTTAG
32787440 AACCAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTTTAGGA
Found at i:32788170 original size:10 final size:10
Alignment explanation
Indices: 32788157--32788217 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
32788147 ATTTAATAAT
32788157 ATTATTATTA
1 ATTATTATTA
*
32788167 ATTATTAATA
1 ATTATTATTA
*
32788177 GTTATTATTA
1 ATTATTATTA
32788187 ATTACCGTTATTA
1 ATTA---TTATTA
32788200 A-TACTTATTA
1 ATTA-TTATTA
32788210 A-TATTATT
1 ATTATTATT
32788218 GTAAATTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 5 0.12
10 29 0.67
12 2 0.05
13 7 0.16
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (10 bp):
ATTATTATTA
Found at i:32788183 original size:20 final size:19
Alignment explanation
Indices: 32788153--32788190 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
32788143 GTTTATTTAA
32788153 TAATATTATTATTAATTAT
1 TAATATTATTATTAATTAT
32788172 TAATAGTTATTATTAATTA
1 TAATA-TTATTATTAATTA
32788191 CCGTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TAATATTATTATTAATTAT
Found at i:32795002 original size:30 final size:27
Alignment explanation
Indices: 32794968--32795032 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
32794958 CATCCGAGGG
* *
32794968 TAAAATGGTACTTTTTGGAAGAATTTGGGC
1 TAAAATGG-AATTTTGGGAAG--TTTGGGC
*
32794998 TAAAAATGGAATTTTGGGAAGTTTGGGG
1 T-AAAATGGAATTTTGGGAAGTTTGGGC
32795026 TAAAATG
1 TAAAATG
32795033 ACCATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.19
28 7 0.23
30 11 0.35
31 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (27 bp):
TAAAATGGAATTTTGGGAAGTTTGGGC
Found at i:32795070 original size:29 final size:29
Alignment explanation
Indices: 32795038--32795324 Score: 130
Period size: 30 Copynumber: 9.8 Consensus size: 29
32795028 AAATGACCAT
*
32795038 TTTTGGAAAAATAGAGGTCAAAAATGGAA
1 TTTTGGAAAATTAGAGGTCAAAAATGGAA
* ** *
32795067 TTTTAAGAAGTTTAGGGGT---AAATGGTAA
1 TTTT-GGAAAATTAGAGGTCAAAAATGG-AA
*
32795095 TTTTAGATAAATTAG-GGTCAAAAATGGAA
1 TTTTGGA-AAATTAGAGGTCAAAAATGGAA
* *
32795124 TTTTGG-AAGTTCA-AGGGT-AAAAATGTAA
1 TTTTGGAAAATT-AGA-GGTCAAAAATGGAA
* * *
32795152 TTTTTGGAAAAATCGAGATCAAAAATGGAA
1 -TTTTGGAAAATTAGAGGTCAAAAATGGAA
* * *
32795182 TTTTGGAAAGTTCGAGAGT-AAAAATGTAA
1 TTTTGGAAAATTAGAG-GTCAAAAATGGAA
* * *
32795211 TTTTTAGAAAGTTTAG-GGTCAAAAATGTAA
1 -TTTTGGAAA-ATTAGAGGTCAAAAATGGAA
* *
32795241 TTTTGGAGAAGTTTGAGGTCAAAATAT--AA
1 TTTTGGA-AAATTAGAGGTCAAAA-ATGGAA
* * * *
32795270 TTTTAGAAAAGTTTAGGGGTC-AAAGTGTAA
1 TTTTGGAAAA--TTAGAGGTCAAAAATGGAA
* *
32795300 TTTTAGAAAAGTTTAGAGGTTAAAA
1 TTTTGGAAAA--TTAGAGGTCAAAA
32795325 TATAATTTTA
Statistics
Matches: 201, Mismatches: 32, Indels: 48
0.72 0.11 0.17
Matches are distributed among these distances:
27 16 0.08
28 24 0.12
29 67 0.33
30 86 0.43
31 8 0.04
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.32
Consensus pattern (29 bp):
TTTTGGAAAATTAGAGGTCAAAAATGGAA
Found at i:32795203 original size:115 final size:114
Alignment explanation
Indices: 32794999--32795247 Score: 285
Period size: 115 Copynumber: 2.1 Consensus size: 114
32794989 AATTTGGGCT
** *
32794999 AAAAATGGAATTTTGGGAAGTTTGGGGTAAAATGACCATTTTTGGAAAAATAGAGGTCAAAAATG
1 AAAAATGGAATTTT-GGAAGTTAAGGGTAAAATGA-CATTTTTGGAAAAATAGAGATCAAAAATG
* *
32795064 GAATTTTAAGAAGTTTAGGGGT-AAATGGTAA-TTTTAGATAA-ATTAGGGTC
64 GAATTTTAAGAAGTTGAGGAGTAAAAT-GTAATTTTTAGA-AAGATTAGGGTC
*
32795114 AAAAATGGAATTTTGGAAGTTCAAGGGTAAAAATGTA-ATTTTTGGAAAAATCGAGATCAAAAAT
1 AAAAATGGAATTTTGGAAGTT-AAGGGT-AAAATG-ACATTTTTGGAAAAATAGAGATCAAAAAT
* *
32795178 GGAATTTT-GGAAAGTTCGA-GAGTAAAAATGTAATTTTTAGAAAGTTTAGGGTC
63 GGAATTTTAAG-AAGTT-GAGGAGT-AAAATGTAATTTTTAGAAAGATTAGGGTC
*
32795231 AAAAATGTAATTTTGGA
1 AAAAATGGAATTTTGGA
32795248 GAAGTTTGAG
Statistics
Matches: 116, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
114 8 0.07
115 59 0.51
116 13 0.11
117 36 0.31
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (114 bp):
AAAAATGGAATTTTGGAAGTTAAGGGTAAAATGACATTTTTGGAAAAATAGAGATCAAAAATGGA
ATTTTAAGAAGTTGAGGAGTAAAATGTAATTTTTAGAAAGATTAGGGTC
Found at i:32795212 original size:59 final size:58
Alignment explanation
Indices: 32794962--32795279 Score: 237
Period size: 58 Copynumber: 5.5 Consensus size: 58
32794952 TTTAGACATC
* * * ** *
32794962 CGAGGGTAAAATGGTACTTTTTGGAAGAATTTGGG-CTAAAAATGGAATTTTGGGAAGTT
1 CGAGGGTAAAAT-GTAATTTTTAGAAAAATGAGGGTC-AAAAATGGAATTTTGGAAAGTT
* * *
32795021 TG-GGGTAAAATG-ACCATTTTTGGAAAAAT-AGAGGTCAAAAATGGAATTTT-AAGAAGTT
1 CGAGGGTAAAATGTA--ATTTTTAGAAAAATGAG-GGTCAAAAATGGAATTTTGGA-AAGTT
* * *
32795079 -TAGGGGT-AAATGGTAA-TTTTAGATAAATTAGGGTCAAAAATGGAATTTTGG-AAGTT
1 CGA-GGGTAAAAT-GTAATTTTTAGAAAAATGAGGGTCAAAAATGGAATTTTGGAAAGTT
* * *
32795135 CAAGGGTAAAAATGTAATTTTTGGAAAAATCGA-GATCAAAAATGGAATTTTGGAAAGTT
1 CGAGGGT-AAAATGTAATTTTTAGAAAAAT-GAGGGTCAAAAATGGAATTTTGGAAAGTT
* ** * *
32795194 CGAGAGTAAAAATGTAATTTTTAGAAAGTTTAGGGTCAAAAATGTAATTTTGGAGAAGTT
1 CGAGGGT-AAAATGTAATTTTTAGAAAAATGAGGGTCAAAAATGGAATTTTGGA-AAGTT
* *
32795254 TGA-GGTCAAAATATAA-TTTTAGAAAA
1 CGAGGGT-AAAATGTAATTTTTAGAAAA
32795280 GTTTAGGGGT
Statistics
Matches: 212, Mismatches: 28, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
56 10 0.05
57 35 0.17
58 92 0.43
59 67 0.32
60 8 0.04
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (58 bp):
CGAGGGTAAAATGTAATTTTTAGAAAAATGAGGGTCAAAAATGGAATTTTGGAAAGTT
Found at i:32795223 original size:30 final size:29
Alignment explanation
Indices: 32795114--32795278 Score: 140
Period size: 29 Copynumber: 5.7 Consensus size: 29
32795104 AATTAGGGTC
* * *
32795114 AAAAATGGAATTTTGG-AAGTTCAAGGGT
1 AAAAATGTAATTTTGGAAAGTTCGAGAGT
**
32795142 AAAAATGTAATTTTTGGAAAAATCGAGA-T
1 AAAAATGTAA-TTTTGGAAAGTTCGAGAGT
*
32795171 CAAAAATGGAATTTTGGAAAGTTCGAGAGT
1 -AAAAATGTAATTTTGGAAAGTTCGAGAGT
* * *
32795201 AAAAATGTAATTTTTAGAAAGTT-TAGGGT
1 AAAAATGTAA-TTTTGGAAAGTTCGAGAGT
*
32795230 CAAAAATGTAATTTTGGAGAAGTTTGAG-GT
1 -AAAAATGTAATTTTGGA-AAGTTCGAGAGT
* * *
32795260 CAAAATATAATTTTAGAAA
1 AAAAATGTAATTTTGGAAA
32795279 AGTTTAGGGG
Statistics
Matches: 112, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
28 11 0.10
29 55 0.49
30 44 0.39
31 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (29 bp):
AAAAATGTAATTTTGGAAAGTTCGAGAGT
Found at i:32795281 original size:59 final size:59
Alignment explanation
Indices: 32795053--32795347 Score: 254
Period size: 59 Copynumber: 5.0 Consensus size: 59
32795043 GAAAAATAGA
* * *
32795053 GGTCAAAAATGGAATTTTAAGAAGTTTAGGGGT--AAATGGTAATTTTAGATAAA--TTAG
1 GGTCAAAAATGGAATTTTGAGAAGTTTAGAGGTAAAAAT-ATAATTTTAGA-AAAGTTTAG
* * * * **
32795110 GGTCAAAAATGGAATTTTG-GAAGTTCA-AGGGTAAAAATGTAATTTTTGGAAAAATCGA-
1 GGTCAAAAATGGAATTTTGAGAAGTTTAGA-GGTAAAAATATAA-TTTTAGAAAAGTTTAG
* * *
32795168 GATCAAAAATGGAATTTTG-GAAAG-TTCGAGAGTAAAAATGTAATTTTTAG-AAAGTTTAG
1 GGTCAAAAATGGAATTTTGAG-AAGTTTAGAG-GTAAAAATATAA-TTTTAGAAAAGTTTAG
* *
32795227 GGTCAAAAATGTAATTTTGGAGAAGTTT-GAGGTCAAAATATAATTTTAGAAAAGTTTAGG
1 GGTCAAAAATGGAATTTT-GAGAAGTTTAGAGGTAAAAATATAATTTTAGAAAAGTTTA-G
* * * *
32795287 GGTC-AAAGTGTAATTTTAGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTTAG
1 GGTCAAAAATGGAATTTT-GAGAAGTTTAGAGGTAAAAATATAATTTTAGAAAAGTTTAG
32795346 GG
1 GG
32795348 GTTAAAGTGT
Statistics
Matches: 201, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
56 10 0.05
57 25 0.12
58 42 0.21
59 80 0.40
60 41 0.20
61 3 0.01
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (59 bp):
GGTCAAAAATGGAATTTTGAGAAGTTTAGAGGTAAAAATATAATTTTAGAAAAGTTTAG
Found at i:32795291 original size:30 final size:30
Alignment explanation
Indices: 32795202--32795385 Score: 230
Period size: 30 Copynumber: 6.2 Consensus size: 30
32795192 TTCGAGAGTA
32795202 AAAATGTAATTTTTAG-AAAGTTTA-GGGTC
1 AAAATGTAA-TTTTAGAAAAGTTTAGGGGTC
* * *
32795231 AAAAATGTAATTTTGGAGAAGTTT-GAGGTC
1 -AAAATGTAATTTTAGAAAAGTTTAGGGGTC
*
32795261 AAAATATAATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* * *
32795291 AAAGTGTAATTTTAGAAAAGTTTAGAGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* *
32795321 AAAATATAATTTTAGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* *
32795351 AAAGTGTAATTTTAGAAAAGTTTGGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
32795381 AAAAT
1 AAAAT
32795386 ATGATTTTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.19
30 107 0.81
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTC
Found at i:32795326 original size:60 final size:58
Alignment explanation
Indices: 32795180--32795406 Score: 260
Period size: 60 Copynumber: 3.8 Consensus size: 58
32795170 TCAAAAATGG
* * * * *
32795180 AATTTT-GGAAAGTTCGAGAGTAAAAATGTAATTTTTAGAAAGTTTA-GGGTCAAAAATGT
1 AATTTTAGAAAAGTTTGAG-GTCAAAATATAA-TTTTAGAAAGTTTAGGGGTC-AAAGTGT
* *
32795239 AATTTTGGAGAAGTTTGAGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTCAAAGTGT
1 AATTTTAGAAAAGTTTGAGGTCAAAATATAATTTTAG-AAAGTTTAGGGGTCAAAGTGT
* *
32795298 AATTTTAGAAAAGTTTAGAGGTTAAAATATAATTTTAGAAAAGTTTAGGGGTTAAAGTGT
1 AATTTTAGAAAAGTTT-GAGGTCAAAATATAATTTTAG-AAAGTTTAGGGGTCAAAGTGT
* * *
32795358 AATTTTAGAAAAGTTTGGGGGTCAAAATATGATTTTTAGACAGTTTAGG
1 AATTTTAGAAAAGTTT-GAGGTCAAAATAT-AATTTTAGAAAGTTTAGG
32795407 AGCCTTCAGG
Statistics
Matches: 148, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
58 6 0.04
59 44 0.30
60 91 0.61
61 7 0.05
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (58 bp):
AATTTTAGAAAAGTTTGAGGTCAAAATATAATTTTAGAAAGTTTAGGGGTCAAAGTGT
Found at i:32795393 original size:30 final size:30
Alignment explanation
Indices: 32795202--32795406 Score: 220
Period size: 30 Copynumber: 6.9 Consensus size: 30
32795192 TTCGAGAGTA
*
32795202 AAAATGTAATTTTTAG-AAAGTTTA-GGGTC
1 AAAATATAA-TTTTAGAAAAGTTTAGGGGTC
* * * *
32795231 AAAAATGTAATTTTGGAGAAGTTT-GAGGTC
1 -AAAATATAATTTTAGAAAAGTTTAGGGGTC
32795261 AAAATATAATTTTAGAAAAGTTTAGGGGTC
1 AAAATATAATTTTAGAAAAGTTTAGGGGTC
* * * *
32795291 AAAGTGTAATTTTAGAAAAGTTTAGAGGTT
1 AAAATATAATTTTAGAAAAGTTTAGGGGTC
*
32795321 AAAATATAATTTTAGAAAAGTTTAGGGGTT
1 AAAATATAATTTTAGAAAAGTTTAGGGGTC
* * *
32795351 AAAGTGTAATTTTAGAAAAGTTTGGGGGTC
1 AAAATATAATTTTAGAAAAGTTTAGGGGTC
* *
32795381 AAAATATGATTTTTAG-ACAGTTTAGG
1 AAAATAT-AATTTTAGAAAAGTTTAGG
32795407 AGCCTTCAGG
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.17
30 116 0.78
31 7 0.05
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAATATAATTTTAGAAAAGTTTAGGGGTC
Found at i:32796461 original size:16 final size:17
Alignment explanation
Indices: 32796440--32796480 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
32796430 TTCTTTTTAT
32796440 TTAATTAATAATA-TTA
1 TTAATTAATAATAGTTA
*
32796456 TTAATTATTAATAGTTA
1 TTAATTAATAATAGTTA
32796473 TT-ATTAAT
1 TTAATTAAT
32796481 TACCGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAATTAATAATAGTTA
Found at i:32797207 original size:11 final size:11
Alignment explanation
Indices: 32797170--32797288 Score: 61
Period size: 11 Copynumber: 10.7 Consensus size: 11
32797160 TTGGGCTTTT
32797170 AATTTAATATTA
1 AATTTAA-ATTA
*
32797182 AATTTTAAA-TC
1 AA-TTTAAATTA
*
32797193 AATTCAAATTA
1 AATTTAAATTA
32797204 AA-TTAAATTTA
1 AATTTAAA-TTA
**
32797215 AATTTAAAGCA
1 AATTTAAATTA
32797226 AATTTAAATTTA
1 AATTTAAA-TTA
32797238 AA---AAGA-TA
1 AATTTAA-ATTA
*
32797246 AATTTAAATTT
1 AATTTAAATTA
**
32797257 AAGATAAATCTA
1 AATTTAAAT-TA
*
32797269 AATTTAAAAATA
1 AATTT-AAATTA
32797281 AATTTAAA
1 AATTTAAA
32797289 CCAATTTAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
8 4 0.05
9 2 0.03
10 11 0.14
11 33 0.41
12 22 0.28
13 8 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:32797215 original size:6 final size:6
Alignment explanation
Indices: 32797201--32797288 Score: 58
Period size: 6 Copynumber: 14.8 Consensus size: 6
32797191 TCAATTCAAA
** * *
32797201 TTAAA- TTAAAT TTAAAT TTAAA- GCAAAT TTAAAT TTAAAAAG ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT--AAAT TTAAAT
* * *
32797249 TTAAAT TTAAGA- -TAAAT CTAAAT TTAAAA ATAAAT TTAAA
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
32797289 CCAATTTAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
4 1 0.02
5 11 0.17
6 46 0.73
7 1 0.02
8 4 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:32797221 original size:17 final size:16
Alignment explanation
Indices: 32797179--32797288 Score: 87
Period size: 17 Copynumber: 6.3 Consensus size: 16
32797169 TAATTTAATA
*
32797179 TTAAATTTTAAATCAAT
1 TTAAA-TTTAAATAAAT
*
32797196 TCAAA-TTAAATTAAAT
1 TTAAATTTAAA-TAAAT
*
32797212 TTAAATTTAAAGCAAAT
1 TTAAATTTAAA-TAAAT
32797229 TTAAATTTAAAAAGATAAAT
1 TTAAATTT---AA-ATAAAT
32797249 TTAAATTTAAGATAAAT
1 TTAAATTTAA-ATAAAT
*
32797266 CTAAATTTAAAAATAAAT
1 TTAAATTT--AAATAAAT
32797284 TTAAA
1 TTAAA
32797289 CCAATTTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.06
16 8 0.10
17 37 0.48
18 10 0.13
19 2 0.03
20 14 0.18
21 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAATTTAAATAAAT
Found at i:32797254 original size:37 final size:35
Alignment explanation
Indices: 32797207--32797288 Score: 112
Period size: 37 Copynumber: 2.3 Consensus size: 35
32797197 CAAATTAAAT
*
32797207 TAAATTTAAATTTAA-AGCAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTTAAGA-CAAATCTAAATTT-AAAA-A
*
32797244 TAAATTTAAATTTAAGATAAATCTAAATTTAAAAA
1 TAAATTTAAATTTAAGACAAATCTAAATTTAAAAA
32797279 TAAATTTAAA
1 TAAATTTAAA
32797289 CCAATTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 11 0.26
36 4 0.10
37 26 0.62
38 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (35 bp):
TAAATTTAAATTTAAGACAAATCTAAATTTAAAAA
Found at i:32798805 original size:15 final size:15
Alignment explanation
Indices: 32798785--32798817 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
32798775 TTGACAATTC
32798785 TTCGTTGAATCATTG
1 TTCGTTGAATCATTG
32798800 TTCGTTGAATCATTG
1 TTCGTTGAATCATTG
32798815 TTC
1 TTC
32798818 TTACTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (15 bp):
TTCGTTGAATCATTG
Found at i:32800871 original size:46 final size:46
Alignment explanation
Indices: 32800800--32800888 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
32800790 ATCAAATTTA
* *
32800800 TATATCAATTTTGGTTCAATGTATAATTTGATACATGAACTTTAAT
1 TATATCAATTTTGGTTCAATATATAATTTGATACATAAACTTTAAT
*
32800846 TATATCAATTTTGGTTCAATATATAATTTGATGCATAAACTTT
1 TATATCAATTTTGGTTCAATATATAATTTGATACATAAACTTT
32800889 TATTTAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (46 bp):
TATATCAATTTTGGTTCAATATATAATTTGATACATAAACTTTAAT
Found at i:32802194 original size:41 final size:41
Alignment explanation
Indices: 32802150--32802453 Score: 242
Period size: 41 Copynumber: 7.4 Consensus size: 41
32802140 CAAAAGATAA
* * * *
32802150 AGCAATAGCAGCGTTTTTACATAAACGCCGCTAAAGGTCTA
1 AGCAATAGCAGCGCTTATACATAAGCGCCGCTAAAGGTCTG
***
32802191 AGCAATAGC-GACGCTTATGGGTAAGCGCCGCTAAAGGTCTG
1 AGCAATAGCAG-CGCTTATACATAAGCGCCGCTAAAGGTCTG
* * * *
32802232 AGCAATAGCGGCGCTTATGGC--AAGTGCCGCTAAAGATCTG
1 AGCAATAGCAGCGCTTAT-ACATAAGCGCCGCTAAAGGTCTG
* * *
32802272 AGCAATAGCAGCACTTATAGACAAGCGCCGCTAAAGGTCTG
1 AGCAATAGCAGCGCTTATACATAAGCGCCGCTAAAGGTCTG
** ****
32802313 AGCAATAGTGGCGCTTATGGGCAAGCGCCGCTAAAGGTCAT-
1 AGCAATAGCAGCGCTTATACATAAGCGCCGCTAAAGGTC-TG
* * * *
32802354 AGCAATAGCGGTGCTTATTAGA-AAGCGCCGCTAAAGGTCAG
1 AGCAATAGCAGCGCTTA-TACATAAGCGCCGCTAAAGGTCTG
* ** * * *
32802395 AGCACTAGCAGCGCTTATGGAAAAGTGCCGCTAAAAGTCAT-
1 AGCAATAGCAGCGCTTATACATAAGCGCCGCTAAAGGTC-TG
*
32802436 AGCAATAGCGGCGCTTAT
1 AGCAATAGCAGCGCTTAT
32802454 TGGAAAGCGC
Statistics
Matches: 218, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
40 37 0.17
41 176 0.81
42 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (41 bp):
AGCAATAGCAGCGCTTATACATAAGCGCCGCTAAAGGTCTG
Found at i:32802383 original size:82 final size:82
Alignment explanation
Indices: 32802175--32802469 Score: 355
Period size: 82 Copynumber: 3.6 Consensus size: 82
32802165 TTTACATAAA
* ** *
32802175 CGCCGCTAAAGGTCTAAGCAATAGCGACGCTTATGGGTAAGCGCCGCTAAAGGTCTGAGCAATAG
1 CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATTAGAAAGCGCCGCTAAAGGTCTGAGCAATAG
32802240 CGGCGCTTAT-GGCAAG
66 CGGCGCTTATGGGCAAG
* * * * *
32802256 TGCCGCTAAAGATCTGAGCAATAGCAGCACTTA-TAGACAAGCGCCGCTAAAGGTCTGAGCAATA
1 CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATTAGA-AAGCGCCGCTAAAGGTCTGAGCAATA
*
32802320 GTGGCGCTTATGGGCAAG
65 GCGGCGCTTATGGGCAAG
* * *
32802338 CGCCGCTAAAGGTC-ATAGCAATAGCGGTGCTTATTAGAAAGCGCCGCTAAAGGTCAGAGCACTA
1 CGCCGCTAAAGGTCTA-AGCAATAGCGGCGCTTATTAGAAAGCGCCGCTAAAGGTCTGAGCAATA
* **
32802402 GCAGCGCTTATGGAAAAG
65 GCGGCGCTTATGGGCAAG
* * * *
32802420 TGCCGCTAAAAGTC-ATAGCAATAGCGGCGCTTATTGGAAAGCGCCTCTAA
1 CGCCGCTAAAGGTCTA-AGCAATAGCGGCGCTTATTAGAAAGCGCCGCTAA
32802470 TTTATTTAAA
Statistics
Matches: 183, Mismatches: 27, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 63 0.34
82 115 0.63
83 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (82 bp):
CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATTAGAAAGCGCCGCTAAAGGTCTGAGCAATAG
CGGCGCTTATGGGCAAG
Found at i:32802443 original size:123 final size:122
Alignment explanation
Indices: 32802175--32802469 Score: 378
Period size: 123 Copynumber: 2.4 Consensus size: 122
32802165 TTTACATAAA
* *
32802175 CGCCGCTAAAGGTCTAAGCAATAGCGACGCTTATGGGTAAGCGCCGCTAAAGGTCTGAGCAATAG
1 CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCTGAGCAATAG
* * * * *
32802240 CGGCGCTTATGGCAAGTGCCGCTAAAGATCTGAGCAATAGCAGCACTTATAGACAAG
66 CGGCGCTTATAGAAAGCGCCGCTAAAGATCAGAGCAATAGCAGCACTTATAGAAAAG
* * *
32802297 CGCCGCTAAAGGTCTGAGCAATAGTGGCGCTTATGGGCAAGCGCCGCTAAAGGTCAT-AGCAATA
1 CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTC-TGAGCAATA
* * * * *
32802361 GCGGTGCTTATTAGAAAGCGCCGCTAAAGGTCAGAGCACTAGCAGCGCTTATGGAAAAG
65 GCGGCGCTTA-TAGAAAGCGCCGCTAAAGATCAGAGCAATAGCAGCACTTATAGAAAAG
* * * *
32802420 TGCCGCTAAAAGTC-ATAGCAATAGCGGCGCTTATTGGAAAGCGCCTCTAA
1 CGCCGCTAAAGGTCTA-AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAA
32802470 TTTATTTAAA
Statistics
Matches: 149, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
122 67 0.45
123 82 0.55
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (122 bp):
CGCCGCTAAAGGTCTAAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCTGAGCAATAG
CGGCGCTTATAGAAAGCGCCGCTAAAGATCAGAGCAATAGCAGCACTTATAGAAAAG
Found at i:32806527 original size:16 final size:16
Alignment explanation
Indices: 32806503--32806537 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32806493 TAATTCATTG
* *
32806503 GTTCCATTTTGTTTTT
1 GTTCAATTTTGCTTTT
32806519 GTTCAATTTTGCTTTT
1 GTTCAATTTTGCTTTT
32806535 GTT
1 GTT
32806538 GTGTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.66
Consensus pattern (16 bp):
GTTCAATTTTGCTTTT
Found at i:32807980 original size:43 final size:43
Alignment explanation
Indices: 32807882--32808104 Score: 294
Period size: 42 Copynumber: 5.3 Consensus size: 43
32807872 TTTGTTAATG
* *
32807882 TTAGTGGCGTTTGT-GGAAAAGTGCCGCTAAAGACCAT-TTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
*
32807923 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * *
32807966 TTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * *
32808009 TTAGCGGCGTTTGCGGG-TAAGCGCCGCTAAAGAACATGGTT-T
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCAT-GTTCT
* * *
32808051 TTAGCGGCATTTGT-GGATAAGCGCCGCTAAAGACCATGGTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
32808093 TTAGCGGCGTTT
1 TTAGCGGCGTTT
32808105 TTCTTCATAA
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
41 17 0.11
42 84 0.52
43 60 0.37
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
Found at i:32814794 original size:17 final size:18
Alignment explanation
Indices: 32814755--32814799 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
32814745 TAAAATGGAT
* *
32814755 TTTAATTTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
32814773 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
32814790 TTTAAATTTA
1 TTTAAATTTA
32814800 AATTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:32814839 original size:18 final size:18
Alignment explanation
Indices: 32814790--32814839 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
32814780 TTACTTTAAA
* *
32814790 TTTAAATTTAAATTCATT
1 TTTAAATTTAAAATAATT
*
32814808 TTTAAATTTGAAATAATT
1 TTTAAATTTAAAATAATT
32814826 TTTAAATTTAAAAT
1 TTTAAATTTAAAAT
32814840 TAAAAAGCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAAATTTAAAATAATT
Found at i:32816614 original size:30 final size:30
Alignment explanation
Indices: 32816575--32816647 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
32816565 AGAAATTATA
32816575 TTTTAACCCCAAAACTT-TCAAAAAGTACAT
1 TTTTAACCCCAAAACTTCT-AAAAAGTACAT
* * * *
32816605 TTTTTACCCC-GAACTTCTAAAAATTCCAT
1 TTTTAACCCCAAAACTTCTAAAAAGTACAT
*
32816634 TTTTGACCCCAAAA
1 TTTTAACCCCAAAA
32816648 ATTACATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (30 bp):
TTTTAACCCCAAAACTTCTAAAAAGTACAT
Found at i:32816637 original size:28 final size:28
Alignment explanation
Indices: 32816591--32816724 Score: 122
Period size: 29 Copynumber: 5.0 Consensus size: 28
32816581 CCCCAAAACT
* *
32816591 TTCAAAAAGTACATTTTTTACCCCGAAC
1 TTCAAAAATTACATTTTTGACCCCGAAC
*
32816619 TTCTAAAAATTCCATTTTTGA--CC---C
1 TTC-AAAAATTACATTTTTGACCCCGAAC
**
32816643 --CAAAAATTACATTTTTG-CCCTTAAAC
1 TTCAAAAATTACATTTTTGACCC-CGAAC
32816669 TTCCAAAAATTACATTTTTGACCCCGAAC
1 TT-CAAAAATTACATTTTTGACCCCGAAC
* *
32816698 TTCAAAAATTCCATTTTTGACCTCGAA
1 TTCAAAAATTACATTTTTGACCCCGAA
32816725 ACCCTCAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
21 15 0.17
22 2 0.02
24 1 0.01
26 1 0.01
27 2 0.02
28 26 0.30
29 36 0.42
30 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (28 bp):
TTCAAAAATTACATTTTTGACCCCGAAC
Done.