Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D08
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: 69935236
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1740000 characters in sequence are not A, C, G, or T
File 41 of 223
Found at i:12224486 original size:46 final size:44
Alignment explanation
Indices: 12224382--12224489 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12224372 TGTCTTTGAC
** * * *
12224382 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12224426 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12224472 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12224490 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12234458 original size:17 final size:17
Alignment explanation
Indices: 12234436--12234468 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12234426 ATCCACTAAT
*
12234436 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
12234453 CCACTACCAACAACAA
1 CCACTACCAACAACAA
12234469 AATCCACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:12235044 original size:49 final size:50
Alignment explanation
Indices: 12234984--12235084 Score: 170
Period size: 49 Copynumber: 2.0 Consensus size: 50
12234974 AATTAAAACA
12234984 CTAATAATTTAACTATCTAACTAAAAT-TAAAAAATAAATTTAATTTGAAG
1 CTAATAATTTAACTATCTAACTAAAATAT-AAAAATAAATTTAATTTGAAG
*
12235034 CTAAT-ATTTAACTATCTAACTAAAATATAAAAATAGATTTAATTTGAAG
1 CTAATAATTTAACTATCTAACTAAAATATAAAAATAAATTTAATTTGAAG
12235083 CT
1 CT
12235085 TTTTTCTGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
49 43 0.88
50 6 0.12
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.37
Consensus pattern (50 bp):
CTAATAATTTAACTATCTAACTAAAATATAAAAATAAATTTAATTTGAAG
Found at i:12235413 original size:21 final size:21
Alignment explanation
Indices: 12235368--12235413 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12235358 ATATATATAT
* ** *
12235368 TTAAATTTTTTTTTTCAGGAT
1 TTAAATTTTTTTTTCCAAAAA
12235389 TTAAATTTTTTTTTCCAAAAA
1 TTAAATTTTTTTTTCCAAAAA
12235410 TTAA
1 TTAA
12235414 TAAAATTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (21 bp):
TTAAATTTTTTTTTCCAAAAA
Found at i:12252756 original size:3 final size:3
Alignment explanation
Indices: 12252750--12252784 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
12252740 ATTATTGAGT
*
12252750 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12252785 TCTTCCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12255168 original size:23 final size:24
Alignment explanation
Indices: 12255133--12255178 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
12255123 ATATGGGCCT
* *
12255133 AAAATTTTCTCTAGGCCCAGCCCA
1 AAAAATTTCTCTAAGCCCAGCCCA
*
12255157 AAAAATTT-TCTAAGCCCGGCCC
1 AAAAATTTCTCTAAGCCCAGCCC
12255179 GGCTCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (24 bp):
AAAAATTTCTCTAAGCCCAGCCCA
Found at i:12255229 original size:25 final size:25
Alignment explanation
Indices: 12255201--12255255 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
12255191 AATAAACACC
*
12255201 AAAAATTTA-TTTAAAAATAAATAAT
1 AAAAATGTATTTTAAAAATAAA-AAT
* *
12255226 AAAAA-GTATTTTAAAATTAAAATT
1 AAAAATGTATTTTAAAAATAAAAAT
12255250 AAAAAT
1 AAAAAT
12255256 ATATATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAATGTATTTTAAAAATAAAAAT
Found at i:12268568 original size:39 final size:40
Alignment explanation
Indices: 12268522--12268656 Score: 165
Period size: 39 Copynumber: 3.5 Consensus size: 40
12268512 CCGAATATAA
12268522 TAATTTTTTTTT-ATTTT-TTTATTTTAAAATACTTTTTT
1 TAATTTTTTTTTAATTTTATTTATTTTAAAATACTTTTTT
12268560 TAATTTTTTTTTAATTTTAATTT-TTTTAAAATAC-TTTTT
1 TAATTTTTTTTTAATTTT-ATTTATTTTAAAATACTTTTTT
* **
12268599 TAA--TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTT
1 TAATTTTTTTTTAATTTT-ATTTA-TTTTAAAATACTTTTTT
*
12268639 TAATTTTGTTTTAATTTT
1 TAATTTTTTTTTAATTTT
12268657 TAAAATAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
37 15 0.18
38 12 0.14
39 24 0.29
40 19 0.23
41 3 0.04
42 11 0.13
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (40 bp):
TAATTTTTTTTTAATTTTATTTATTTTAAAATACTTTTTT
Found at i:12273745 original size:30 final size:30
Alignment explanation
Indices: 12273709--12274077 Score: 290
Period size: 30 Copynumber: 12.0 Consensus size: 30
12273699 CAGTTCGTGC
*
12273709 AAATGCAGCTCGTGTGACCTGC-CTTCATGT
1 AAATGCAGCTCGTGTGA-CTGCAATTCATGT
** * *
12273739 AAATGCAGCTCGTGCAATTGCACTTCATGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
* ** * *
12273769 AAATGCAGCTCATGCAACTGCAATCCGTGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
* * *
12273799 AAATGCAGCTCGTGCGACTGCAATCCGTGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
* * *
12273829 AAATGCAGCTCGTGCGACTGCAATCCGTGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
* *
12273859 AAATGCAGCTCGTGTGACTGTAGTTCATGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
* * *
12273889 AAATGCAGCTCATGTGACTGTAGTTCATGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
** *
12273919 AAATGCAGCAGTTTATGTGACTGCAGTTCATGT
1 AAATGCAGC---TCGTGTGACTGCAATTCATGT
** * * *
12273952 AAATGCAGCAGTTTATGCGACTGCAGTTCTTGT
1 AAATGCAGC---TCGTGTGACTGCAATTCATGT
* ** *
12273985 AAATGCAGCTCATGCAACTGCAGTTCATGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
** * *
12274015 AAATGCAGCAGTTTATGCGACTGCAGTTCATGT
1 AAATGCAGC---TCGTGTGACTGCAATTCATGT
* *
12274048 AAATGCAGCTTGTGTGACTGCAAATCATGT
1 AAATGCAGCTCGTGTGACTGCAATTCATGT
12274078 TTAAGCTGCT
Statistics
Matches: 303, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
29 3 0.01
30 213 0.70
33 87 0.29
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (30 bp):
AAATGCAGCTCGTGTGACTGCAATTCATGT
Found at i:12273872 original size:15 final size:15
Alignment explanation
Indices: 12273736--12273927 Score: 86
Period size: 15 Copynumber: 12.8 Consensus size: 15
12273726 CCTGCCTTCA
12273736 TGTAAATGCAGCTCG
1 TGTAAATGCAGCTCG
* * *
12273751 TGCAATTGCA-CTTCA
1 TGTAAATGCAGC-TCG
*
12273766 TGTAAATGCAGCTCA
1 TGTAAATGCAGCTCG
* * *
12273781 TGCAACTGCA-ATCCG
1 TGTAAATGCAGCT-CG
12273796 TGTAAATGCAGCTCG
1 TGTAAATGCAGCTCG
** * *
12273811 TGCGACTGCA-ATCCG
1 TGTAAATGCAGCT-CG
12273826 TGTAAATGCAGCTCG
1 TGTAAATGCAGCTCG
** * *
12273841 TGCGACTGCA-ATCCG
1 TGTAAATGCAGCT-CG
12273856 TGTAAATGCAGCTCG
1 TGTAAATGCAGCTCG
* * * * *
12273871 TGTGACTGTAGTTCA
1 TGTAAATGCAGCTCG
*
12273886 TGTAAATGCAGCTCA
1 TGTAAATGCAGCTCG
* * * * *
12273901 TGTGACTGTAGTTCA
1 TGTAAATGCAGCTCG
12273916 TGTAAATGCAGC
1 TGTAAATGCAGC
12273928 AGTTTATGTG
Statistics
Matches: 124, Mismatches: 45, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
14 4 0.03
15 116 0.94
16 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (15 bp):
TGTAAATGCAGCTCG
Found at i:12273936 original size:18 final size:18
Alignment explanation
Indices: 12273910--12274056 Score: 63
Period size: 15 Copynumber: 9.0 Consensus size: 18
12273900 ATGTGACTGT
12273910 AGTTCATGTAAATGCAGC
1 AGTTCATGTAAATGCAGC
* * *
12273928 AGTTTATGT-GA--CTGC
1 AGTTCATGTAAATGCAGC
12273943 AGTTCATGTAAATGCAGC
1 AGTTCATGTAAATGCAGC
* ** *
12273961 AGTTTATG-CGA--CTGC
1 AGTTCATGTAAATGCAGC
*
12273976 AGTTCTTGTAAATGCAGC
1 AGTTCATGTAAATGCAGC
* *
12273994 ---TCATG-CAA--CTGC
1 AGTTCATGTAAATGCAGC
12274006 AGTTCATGTAAATGCAGC
1 AGTTCATGTAAATGCAGC
* ** *
12274024 AGTTTATG-CGA--CTGC
1 AGTTCATGTAAATGCAGC
12274039 AGTTCATGTAAATGCAGC
1 AGTTCATGTAAATGCAGC
12274057 TTGTGTGACT
Statistics
Matches: 86, Mismatches: 28, Indels: 30
0.60 0.19 0.21
Matches are distributed among these distances:
12 3 0.03
14 2 0.02
15 39 0.45
16 5 0.06
17 3 0.03
18 34 0.40
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (18 bp):
AGTTCATGTAAATGCAGC
Found at i:12273947 original size:33 final size:33
Alignment explanation
Indices: 12273874--12274056 Score: 252
Period size: 33 Copynumber: 5.7 Consensus size: 33
12273864 CAGCTCGTGT
* * *
12273874 GACTGTAGTTCATGTAAATGCAGC---TCATGT
1 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
* *
12273904 GACTGTAGTTCATGTAAATGCAGCAGTTTATGT
1 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
12273937 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
1 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
* *
12273970 GACTGCAGTTCTTGTAAATGCAGC---TCATGC
1 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
*
12274000 AACTGCAGTTCATGTAAATGCAGCAGTTTATGC
1 GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
12274033 GACTGCAGTTCATGTAAATGCAGC
1 GACTGCAGTTCATGTAAATGCAGC
12274057 TTGTGTGACT
Statistics
Matches: 138, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
30 51 0.37
33 87 0.63
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (33 bp):
GACTGCAGTTCATGTAAATGCAGCAGTTTATGC
Found at i:12273990 original size:96 final size:96
Alignment explanation
Indices: 12273757--12274056 Score: 312
Period size: 96 Copynumber: 3.2 Consensus size: 96
12273747 CTCGTGCAAT
* * * * * * * *
12273757 TGCACTTCATGTAAATGCAGC---TCATGCAACTGCAATCCGTGTAAATGCAGCTCGTGCGACTG
1 TGCAGTTCATGTAAATGCAGCAGTTTATGCGACTGCAGTTCATGTAAATGCAGCTCATGCAACTG
* * * **
12273819 CAATCCGTGTAAATGCAGC---TCGTGCGAC
66 CAGTTCATGTAAATGCAGCAGTTTATGCGAC
* * * ** * * **
12273847 TGCAATCCGTGTAAATGCAGC---TCGTGTGACTGTAGTTCATGTAAATGCAGCTCATGTGACTG
1 TGCAGTTCATGTAAATGCAGCAGTTTATGCGACTGCAGTTCATGTAAATGCAGCTCATGCAACTG
* *
12273909 TAGTTCATGTAAATGCAGCAGTTTATGTGAC
66 CAGTTCATGTAAATGCAGCAGTTTATGCGAC
*
12273940 TGCAGTTCATGTAAATGCAGCAGTTTATGCGACTGCAGTTCTTGTAAATGCAGCTCATGCAACTG
1 TGCAGTTCATGTAAATGCAGCAGTTTATGCGACTGCAGTTCATGTAAATGCAGCTCATGCAACTG
12274005 CAGTTCATGTAAATGCAGCAGTTTATGCGAC
66 CAGTTCATGTAAATGCAGCAGTTTATGCGAC
12274036 TGCAGTTCATGTAAATGCAGC
1 TGCAGTTCATGTAAATGCAGC
12274057 TTGTGTGACT
Statistics
Matches: 173, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
90 65 0.38
93 24 0.14
96 84 0.49
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (96 bp):
TGCAGTTCATGTAAATGCAGCAGTTTATGCGACTGCAGTTCATGTAAATGCAGCTCATGCAACTG
CAGTTCATGTAAATGCAGCAGTTTATGCGAC
Found at i:12279934 original size:16 final size:16
Alignment explanation
Indices: 12279909--12279939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12279899 TAACACAAGT
12279909 TAAATACAAAATTAAA
1 TAAATACAAAATTAAA
*
12279925 TAAATTCAAAATTAA
1 TAAATACAAAATTAA
12279940 CGGAATCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAATACAAAATTAAA
Found at i:12280473 original size:20 final size:20
Alignment explanation
Indices: 12280450--12280487 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12280440 TTGTTTAAAT
12280450 TTTTAAAA-ATTTAAAATTTG
1 TTTTAAAATA-TTAAAATTTG
*
12280470 TTTTTAAATATTAAAATT
1 TTTTAAAATATTAAAATT
12280488 ATTAAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTAAAATATTAAAATTTG
Found at i:12280475 original size:21 final size:20
Alignment explanation
Indices: 12280449--12280487 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
12280439 TTTGTTTAAA
12280449 TTTTTAAAAATTTAAAATTTG
1 TTTTTAAAAA-TTAAAATTTG
*
12280470 TTTTTAAATATTAAAATT
1 TTTTTAAAAATTAAAATT
12280488 ATTAAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTAAAATTTG
Found at i:12292447 original size:22 final size:20
Alignment explanation
Indices: 12292380--12292476 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
12292370 CGAACCCTGG
*
12292380 GGTTCAAGGTTCAA-ATTTA
1 GGTTCAAGGTTCAAGATTTT
* * * *
12292399 GGTTCGAGGCTACATG-TTTG
1 GGTTCAAGG-TTCAAGATTTT
12292419 GGTTCAAGGTTCAAGATTTAAT
1 GGTTCAAGGTTCAAGATTT--T
12292441 GGTTCAAGGTT-ACAGATTTT
1 GGTTCAAGGTTCA-AGATTTT
*
12292461 GAGTTCGAGGTTCAAG
1 G-GTTCAAGGTTCAAG
12292477 GTTCGAGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
19 12 0.20
20 19 0.31
21 12 0.20
22 18 0.30
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (20 bp):
GGTTCAAGGTTCAAGATTTT
Found at i:12294305 original size:2 final size:2
Alignment explanation
Indices: 12294300--12294329 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12294290 CACACATTCT
12294300 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
12294330 TCTTAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:12295271 original size:3 final size:3
Alignment explanation
Indices: 12295263--12295291 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12295253 GCCTAAAGTT
12295263 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
12295292 ATCTTCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:12321656 original size:20 final size:20
Alignment explanation
Indices: 12321633--12321685 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
12321623 TTCTATCGGC
* *
12321633 AATTTACAATTTCTTTTTGA
1 AATTTACAATGTATTTTTGA
*
12321653 AATTTAAAATGTATTTTTGA
1 AATTTACAATGTATTTTTGA
*
12321673 TATTTATCAATGT
1 AATTTA-CAATGT
12321686 CTGAAATTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
AATTTACAATGTATTTTTGA
Found at i:12321973 original size:162 final size:162
Alignment explanation
Indices: 12321706--12322059 Score: 502
Period size: 162 Copynumber: 2.2 Consensus size: 162
12321696 GTCAATAATA
* * *
12321706 TTTTCATGCACTACTTCGTAACGAAATATGATACGTATGTTTAATTTAAAGAAGTCACGAACACA
1 TTTTCATGCACTATTTTGTAACGAAATATGATACGTATGTTTAATTGAAAGAAGTCACGAACACA
* * *
12321771 CTAGGAGTATTTAACTTAAGAAGGCGCGGAAATAACGAATTTTTGAAATGTAACTTCAATACCTC
66 CTACGAGTATTTAACTTAAGAAGGCACGGAAATAACGAATTTTTGAAATATAACTTCAATACCTC
*
12321836 TTTTCCCATATTCGA-CGTAATCTC-TTTCGATG
131 TTTTCCCATATT-GAGCGTAATCTCGATT-GATG
** *
12321868 TTTTCATGCACTATTTTGTAACGACGTATGATACGTGTGTTTAATTGAAAGAAGAT-AC-AA-AC
1 TTTTCATGCACTATTTTGTAACGAAATATGATACGTATGTTTAATTGAAAGAAG-TCACGAACAC
* *
12321930 ACGTCACGAGTATTTAATTTAAGAAGGTACGGAAATAACGAATTTTTGAAATATAACTTCAATAC
65 AC-T-ACGAGTATTTAACTTAAGAAGGCACGGAAATAACGAATTTTTGAAATATAACTTCAATAC
* *
12321995 CTCTTTTCCCATATTTAGGGTAATCTCGATTGATG
128 CTCTTTTCCCATATTGAGCGTAATCTCGATTGATG
12322030 TTTTCATGCACTATTTTGTAACGAAATATG
1 TTTTCATGCACTATTTTGTAACGAAATATG
12322060 GTAAACGTGT
Statistics
Matches: 171, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
160 4 0.02
161 4 0.02
162 160 0.94
163 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (162 bp):
TTTTCATGCACTATTTTGTAACGAAATATGATACGTATGTTTAATTGAAAGAAGTCACGAACACA
CTACGAGTATTTAACTTAAGAAGGCACGGAAATAACGAATTTTTGAAATATAACTTCAATACCTC
TTTTCCCATATTGAGCGTAATCTCGATTGATG
Found at i:12324158 original size:415 final size:416
Alignment explanation
Indices: 12322682--12324765 Score: 2639
Period size: 415 Copynumber: 5.0 Consensus size: 416
12322672 ATGCTATAAT
* ** * *
12322682 TTTTAAAGAATTAAATTAAATTTTTATCA-TTTTAAGGGGGGCTAAAGTGTAAATTTATCTTTAC
1 TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAA-GGGGGC-AAAGTGTAATTTTACCTTTAC
* * * * *
12322746 TAATTTAAAATTTTTAAAACATTAAAGGGCCTAAATAGAAAACTTTACATTTTAGGGGAGCC-GG
64 TAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAATTTTTCATTTTAAGGGAGCCGGG
* * *
12322810 GACCCTGTCAGCCCACTTGATACCCCATTGTTGAAACTTATAATAAAAAATTTACTTATCTTTAC
129 GCCCCTGCCAGCCC-C-TG--A---C-----T---AC-TATAATAAAAAATTCACTTATCTTTAC
*
12322875 ATTCGAACCTGATTTTTTTCTAAAGCAAAAAAAAACTATAATCCAAGTGAAACCGAAATCAATAA
178 ATTCGAACCTGATTTTTTTCTAAAG-AAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAA
* * * *
12322940 ATTTGAGATTATCTCTCAGGAATCATTTGGCAAAATTTAAATCTAGA-TTTACAGATTTAAAAGA
242 ATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTTAAGTCTAGATTTTA-ATATTTAAAAGA
*
12323004 CAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACGAGTGGACCATTTCTGTAATGGT
306 CAAACAAA-TGATGTAACCTTTTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGT
*
12323069 TATTGTG-AAAA-ATA-TATAT-TA---GGGTAAAGTTAGAAGAGAA
370 TATTGTGAAAAATATATTATATATATTGGGGTAAAGTTAGAAAAGAA
* * * * * *
12323109 ATTTGAATGATTAATTCGAATTTTTATCATTTTT-AGGGGGCCAAATTGCAATTTTACCTTTACT
1 TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAAGGGGG-CAAAGTGTAATTTTACCTTTACT
* * * * * *
12323173 AATATAAAATTTTCAAAAAATTAAAGGGCCTAAATA-AAAAATTTTCTATTTTAAGAGAGTCAGG
65 AATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAATTTTTC-ATTTTAAGGGAGCCGGG
** * *
12323237 GCCTTTGCCAGCCCCT-AGCTACTACAATAAAAAATTCACTTATCTTTACATTAGAACCTGATTT
129 GCCCCTGCCAGCCCCTGA-CTACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTT
* *
12323301 TTTTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATCATCTCT
193 TTTTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGT
* * * ** *
12323366 CATGAATCATTTGGTAAAATTGAAGTCTAGATTTCAATATTTAAAAGATGAACAAAGTAATGTAA
258 CAGGAATCATTTGGTAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAA-TGATGTAA
* * *
12323431 CCTTTTAGGGTTTACATATACAAACGAGTGAACCCTCTCTGTAATGGTTATTGTGAAAATTATAT
322 CCTTTTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGTTATTGTGAAAA--ATAT
* * *
12323496 ATTATATATATTGGGATAGAGTTAGAAAAAAA
385 ATTATATATATTGGGGTAAAGTTAGAAAAGAA
** * * * * *
12323528 AATTAAAGGACTAAATTGAATTTTTATCAATTTTAAGGGGGCAAAGTGTAATTTTACTTTTATTA
1 TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAAGGGGGCAAAGTGTAATTTTACCTTTACTA
** * *
12323593 ATTT-AAATTTTAAAAAAAATTAAAGGGCCTAAATAG-ATTTTTGTTCTATTTTAAGGGTGTCGG
66 ATTTAAAATTTT-AAAAAAATTAAAGGGCCTAAATAGAAAATTT-TTC-ATTTTAAGGGAGCCGG
* * * *
12323656 GCCCCCTGCCAACCCCTGGCTACTATAATAAAAAAATTCACTTATCTTAACATTCGAACCTGATT
128 GGCCCCTGCCAGCCCCTGACTACTATAAT-AAAAAATTCACTTATCTTTACATTCGAACCTGATT
*
12323721 TTTTTCTAAAG-AAAAAAAACTATAATTCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTG
192 TTTTTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTG
* *
12323785 TAAGGAATCATTTGATAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAA-GA-GTAA
257 TCAGGAATCATTTGGTAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAATGATGTAA
* * * *
12323848 CCTTTTAGGGGTTACATATACAAACAAGTGGACTAACTCTATAATGGTTATTGTGAAAAATATAT
322 CCTTTTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGTTATTGTGAAAAATATAT
12323913 TATATATATTGGGGTAAAGTTAGAAAAGAA
387 TATATATATTGGGGTAAAGTTAGAAAAGAA
* * *
12323943 TTTTAAAGGATTAAATCAAATTTTTATCATTTTTAAGGGGGTTAAAGTATAATTTTACCTTTACT
1 TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAAGGGGG-CAAAGTGTAATTTTACCTTTACT
*
12324008 AATTTAAAATTTTACAAAAATTAAAGGGCCTAAATAGAAAATTTTTCATTTTAAGGGAGCCGGGG
65 AATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAATTTTTCATTTTAAGGGAGCCGGGG
* * * * *
12324073 CCCCTACCAGCCCCTGACTACTATAATAAAAAATTCACTTATTTTTACATTCGAACTTAATTTTA
130 CCCCTGCCAGCCCCTGACTACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTT
* * *
12324138 TTCTAAA-AAAGAAAAAACTATAATTCAAGTGAAACTGGAATCAATAAATTTGATATTATCTGTC
195 TTCTAAAGAAA-AAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTC
* * *
12324202 AGGAATCATTTGGTAAAATTTATGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAAT
259 AGGAATCATTTGGTAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAA-TGATGTAAC
* * *
12324267 CTTTTAGGGGTTACATATACAAACGAGTGAACTATCTCTGTAATGATTATTGTG-AAAA-ATATT
323 CTTTTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGTTATTGTGAAAAATATATT
12324330 ATATATATTGGGGTAAAGTTAGAAAAGAA
388 ATATATATTGGGGTAAAGTTAGAAAAGAA
* ** *
12324359 TTTTAAAAGATTAAATCGAATTTTTATCATTTTT-AGGGGAGCAAAGTACAAATTTACCTTTACT
1 TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAAGGGG-GCAAAGTGTAATTTTACCTTTACT
* * * * *
12324423 AATTTAAAATTTTAAAAAAATTAAAAGACCTAAATAGAAAATTTTTCATTTTAGGGGAGACAGGG
65 AATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAATTTTTCATTTTAAGGGAGCCGGGG
* * * *
12324488 CCCCTGCCAGCCCCTGACTACTATAATAAAGAATCCACTTATCTTTATATTTGAACCTGATTTTT
130 CCCCTGCCAGCCCCTGACTACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTT
12324553 TTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTT-AGGATTATCTGTC
195 TTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGA-GATTATCTGTC
* * *
12324617 AGGAATCATTTGGTAAAATTTAAGTCTAGACTTTAACATTTAAAAGACAAACAAAATGATATAAC
259 AGGAATCATTTGGTAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAAC-AAATGATGTAAC
* * * * * ** *
12324682 CTTTTAGGGTTTAAATAAACAAACGAGTAGACCCTCTCTACAATGTTTATTGTGAAAAATATATT
323 CTTTTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGTTATTGTGAAAAATATATT
*
12324747 ATATATATTTGGGTAAAGT
388 ATATATATTGGGGTAAAGT
12324766 CAAAAATTTT
Statistics
Matches: 1453, Mismatches: 170, Indels: 78
0.85 0.10 0.05
Matches are distributed among these distances:
410 156 0.11
411 55 0.04
412 2 0.00
413 1 0.00
414 46 0.03
415 509 0.35
416 129 0.09
417 96 0.07
418 61 0.04
419 90 0.06
420 146 0.10
421 44 0.03
422 1 0.00
425 9 0.01
426 68 0.05
427 36 0.02
428 4 0.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (416 bp):
TTTTAAAGGATTAAATCGAATTTTTATCATTTTTAAGGGGGCAAAGTGTAATTTTACCTTTACTA
ATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAATTTTTCATTTTAAGGGAGCCGGGGC
CCCTGCCAGCCCCTGACTACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTTT
TCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAG
GAATCATTTGGTAAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAATGATGTAACCTT
TTAGGGGTTACATATACAAACGAGTGGACCATCTCTGTAATGGTTATTGTGAAAAATATATTATA
TATATTGGGGTAAAGTTAGAAAAGAA
Found at i:12324210 original size:835 final size:829
Alignment explanation
Indices: 12322700--12324765 Score: 2667
Period size: 835 Copynumber: 2.5 Consensus size: 829
12322690 AATTAAATTA
* ** * *
12322700 AATTTTTATCATTTTAAGGGGGGCTAAAGTGTAAATTTATCTTTACTAATTTAAAATTTTTAAAA
1 AATTTTTATCATTTTAAGGGGAGC-AAAGTACAAATTTACCTTTACTAATTTAAAATTTTAAAAA
* * * * * * * * * *
12322765 CATTAAAGGGCCTAAATAGAAAACTTTACATTTTAGGGGAG-CCGGGACCCTGTCAGCCCACTTG
65 AATTAAAAGACCTAAATAGAAAATTTTTCATTTTAAGGGAGACAGGGCCCCTGCCAACCC-C-TG
*
12322829 ATACCCCATTGTTGAAACTTATAATAAAAAATTTACTTATCTTTACATTCGAACCTGATTTTTTT
128 --A---C-----T---AC-TATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTTTT
* *
12322894 CTAAAGCAAAAAAAAACTATAATCCAAGTGAAACCGAAATCAATAAATTTGAGATTATCTCTCAG
179 CTAAAG-AAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAG
* * *
12322959 GAATCATTTGGCAAAATTTAAATCTAGATTTACAGATTTAAAAGACAAACAAAGTGATGTAACCT
243 GAATCATTTGGTAAAATTTAAGTCTAGATTTA-ACATTTAAAAGACAAACAAA-TGATGTAACCT
* *
12323024 TTTAGGGGTTACATATACAAACGAGTGGACCATTTCTGTAATGGTTATTGTG-AAAA-ATA-TAT
306 TTTAGGGGTTACATATACAAACGAGTGGACCATCTCTATAATGGTTATTGTGAAAAATATATTAT
* * * * *
12323086 AT-TA--GGGTAAAGTTAGAAGAGAAATTTGAATGATTAATTCGAATTTTTATCATTTTTAGGGG
371 ATATATTGGGTAAAGTTAGAAAAGAAATTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGG
* *
12323148 GCCAAATTGCAATTTTACCTTTACTAATATAAAATTTTCAAAAAATTAAAGGGCCTAAATAAAAA
436 GCCAAAGTACAATTTTACCTTTACTAATATAAAATTTTCAAAAAATTAAAGGGCCTAAATAAAAA
* ** *
12323213 ATTTTCTATTTTAAGAGAGTCAGGGCCTTTGCCAGCCCCTAGCTACTACAATAAAAAATTCACTT
501 ATTTTCTATTTTAAGAGAGCCAGGGCCCCTACCAGCCCCTAGCTACTACAATAAAAAATTCACTT
* *
12323278 ATCTTTACATTAGAACCTGATTTTTTTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAA
566 ATCTTTACATTAGAACCTAATTTTATTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAA
*
12323343 TCAATAAATTTGAGATCATCTCTCATGAATCATTTGGTAAAATTGAAGTCTAGATTTCAATATTT
631 TCAATAAATTTGAGATCATCTCTCAGGAATCATTTGGTAAAATTGAAGTCTAGATTTCAATATTT
** * *
12323408 AAAAGATGAACAAAGTAATGTAACCTTTTAGGGTTTACATATACAAACGAGTGAACCCTCTCTGT
696 AAAAGACAAACAAAGTAATGTAACCTTTTAGGGGTTACATATACAAACGAGTGAACCATCTCTGT
* * *
12323473 AATGGTTATTGTGAAAATTATATATTATATATATTGGGATAGAGTTAGAAAAAAAAATTAAAGGA
761 AATGATTATTGTG-AAA--A-ATATTATATATATTGGGATAAAGTTAGAAAAAAAAATTAAAAGA
*
12323538 CTAAATTG
822 CTAAATCG
** * * *
12323546 AATTTTTATCAATTTTAAGGGG-GCAAAGTGTAATTTTACTTTTATTAATTT-AAATTTTAAAAA
1 AATTTTTATC-ATTTTAAGGGGAGCAAAGTACAAATTTACCTTTACTAATTTAAAATTTT-AAAA
* * ** * *
12323609 AAATTAAAGGGCCTAAATAG-ATTTTTGTTCTATTTTAAGGGTGTC-GGGCCCCCTGCCAACCCC
64 AAATTAAAAGACCTAAATAGAAAATTT-TTC-ATTTTAAGGGAGACAGGG-CCCCTGCCAACCCC
* *
12323672 TGGCTACTATAATAAAAAAATTCACTTATCTTAACATTCGAACCTGATTTTTTTCTAAAG-AAAA
126 TGACTACTATAAT-AAAAAATTCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAA
* * *
12323736 AAAACTATAATTCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTAAGGAATCATTTGAT
190 AAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGT
*
12323801 AAAATTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAA-GA-GTAACCTTTTAGGGGTTACA
255 AAAATTTAAGTCTAGA-TTTAACATTTAAAAGACAAACAAATGATGTAACCTTTTAGGGGTTACA
* * *
12323864 TATACAAACAAGTGGACTAACTCTATAATGGTTATTGTGAAAAATATATTATATATATTGGGGTA
319 TATACAAACGAGTGGACCATCTCTATAATGGTTATTGTGAAAAATATATTATATATATT-GGGTA
* ** *
12323929 AAGTTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAAGGGGGTTAAAGTATA
383 AAGTTAGAAAAGAAATTTAAAGGATTAAATCAAATTTTTATCATTTTT-AGGGGGCCAAAGTACA
* *
12323994 ATTTTACCTTTACTAATTTAAAATTTT-ACAAAAATTAAAGGGCCTAAATAGAAAATTTT-TCAT
447 ATTTTACCTTTACTAATATAAAATTTTCA-AAAAATTAAAGGGCCTAAATAAAAAATTTTCT-AT
* * * *
12324057 TTTAAGGGAGCCGGGGCCCCTACCAGCCCCT-GACTACTATAATAAAAAATTCACTTATTTTTAC
510 TTTAAGAGAGCCAGGGCCCCTACCAGCCCCTAG-CTACTACAATAAAAAATTCACTTATCTTTAC
* * * *
12324121 ATTCGAACTTAATTTTATTCTAAA-AAAGAAAAAACTATAATTCAAGTGAAACTGGAATCAATAA
574 ATTAGAACCTAATTTTATTCTAAAGAAA-AAAAAACTATAATCCAAGTGAAACCGGAATCAATAA
* * * * *
12324185 ATTTGATATTATCTGTCAGGAATCATTTGGTAAAATTTATGTCTAGATTTCAATATTTAAAAGAC
638 ATTTGAGATCATCTCTCAGGAATCATTTGGTAAAATTGAAGTCTAGATTTCAATATTTAAAAGAC
* * *
12324250 AAACAAAGTGATGTAATCTTTTAGGGGTTACATATACAAACGAGTGAACTATCTCTGTAATGATT
703 AAACAAAGTAATGTAACCTTTTAGGGGTTACATATACAAACGAGTGAACCATCTCTGTAATGATT
* * ** *
12324315 ATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGAAAAGAATTTTAAAAGATTAAATCG
768 ATTGTGAAAAATATTATATATATTGGGATAAAGTTAGAAAAAAAAATTAAAAGACTAAATCG
*
12324377 AATTTTTATCATTTTTAGGGGAGCAAAGTACAAATTTACCTTTACTAATTTAAAATTTTAAAAAA
1 AATTTTTATCATTTTAAGGGGAGCAAAGTACAAATTTACCTTTACTAATTTAAAATTTTAAAAAA
* *
12324442 ATTAAAAGACCTAAATAGAAAATTTTTCATTTTAGGGGAGACAGGGCCCCTGCCAGCCCCTGACT
66 ATTAAAAGACCTAAATAGAAAATTTTTCATTTTAAGGGAGACAGGGCCCCTGCCAACCCCTGACT
* * * *
12324507 ACTATAATAAAGAATCCACTTATCTTTATATTTGAACCTGATTTTTTTCTAAAGAAAAAAAAACT
131 ACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACT
12324572 ATAATCCAAGTGAAACCGGAATCAATAAATTT-AGGATTATCTGTCAGGAATCATTTGGTAAAAT
196 ATAATCCAAGTGAAACCGGAATCAATAAATTTGA-GATTATCTGTCAGGAATCATTTGGTAAAAT
* * * *
12324636 TTAAGTCTAGACTTTAACATTTAAAAGACAAACAAAATGATATAACCTTTTAGGGTTTAAATAAA
260 TTAAGTCTAGA-TTTAACATTTAAAAGACAAAC-AAATGATGTAACCTTTTAGGGGTTACATATA
* * * *
12324701 CAAACGAGTAGACCCTCTCTACAATGTTTATTGTGAAAAATATATTATATATATTTGGGTAAAGT
323 CAAACGAGTGGACCATCTCTATAATGGTTATTGTGAAAAATATATTATATATA-TTGGGTAAAGT
12324766 CAAAAATTTT
Statistics
Matches: 1074, Mismatches: 116, Indels: 73
0.85 0.09 0.06
Matches are distributed among these distances:
827 54 0.05
828 6 0.01
829 45 0.04
830 248 0.23
831 121 0.11
832 60 0.06
833 75 0.07
834 58 0.05
835 299 0.28
840 1 0.00
844 10 0.01
845 49 0.05
846 26 0.02
847 22 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (829 bp):
AATTTTTATCATTTTAAGGGGAGCAAAGTACAAATTTACCTTTACTAATTTAAAATTTTAAAAAA
ATTAAAAGACCTAAATAGAAAATTTTTCATTTTAAGGGAGACAGGGCCCCTGCCAACCCCTGACT
ACTATAATAAAAAATTCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACT
ATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATT
TAAGTCTAGATTTAACATTTAAAAGACAAACAAATGATGTAACCTTTTAGGGGTTACATATACAA
ACGAGTGGACCATCTCTATAATGGTTATTGTGAAAAATATATTATATATATTGGGTAAAGTTAGA
AAAGAAATTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTACAATTTTACCT
TTACTAATATAAAATTTTCAAAAAATTAAAGGGCCTAAATAAAAAATTTTCTATTTTAAGAGAGC
CAGGGCCCCTACCAGCCCCTAGCTACTACAATAAAAAATTCACTTATCTTTACATTAGAACCTAA
TTTTATTCTAAAGAAAAAAAAACTATAATCCAAGTGAAACCGGAATCAATAAATTTGAGATCATC
TCTCAGGAATCATTTGGTAAAATTGAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTAATG
TAACCTTTTAGGGGTTACATATACAAACGAGTGAACCATCTCTGTAATGATTATTGTGAAAAATA
TTATATATATTGGGATAAAGTTAGAAAAAAAAATTAAAAGACTAAATCG
Found at i:12327125 original size:414 final size:414
Alignment explanation
Indices: 12326046--12327548 Score: 2026
Period size: 414 Copynumber: 3.6 Consensus size: 414
12326036 TATTGAAACT
*
12326046 TATAATAAAAAAAATCACTTATCTTTACATTCGAACATGATTTTTTTCTAAAGAAAAAAAACTAT
1 TATAATAAAAAAAATCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAG-AAAAAAACTAT
* *
12326111 AATCCAAGTGAAACCTAAATCAATCAATTTG-GAATTATCTGTCAGGAATCATTTGGTAAAATTT
65 AATCCAAGTGAAACCGAAATCAAT-AAATTGAGAATTATCTGTCAGGAATCATTTGGTAAAATTT
* *
12326175 AAGTTTAGATTTCAATATTTAAAAGATAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
129 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* * *
12326240 AACGAGTGGACCCTTTCT-ATAATGGTTATTGTGAAAAATATGTATGATATATATATTGGGGTAA
194 AACGAGTAGACCCTCTCTGCTAATGGTTATTGTGAAAAA-A--TAT-ATATATATATTGGGGTAA
* * *
12326304 AGTTAGAAAAGAATTTTAAAGAATTAAATCAAATTTTTATCATTTTTAGGTGGTTAAAGTGTAAT
255 AGTTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGG-GGCTAAAGTGCAAT
* * * *
12326369 TTTACCTTTACTAATTTAAAA-TATTAAAAAATTAAAGGGCCTAAATAGAAAATTTTTTATTTTA
319 TTTACCTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAA-AAAAAAATTTTCATTTTA
* *
12326433 GGAGAGCCGAGGCCCGTACCAGCCCCTGGCTAC
383 GGGGAGCCGGGGCCC-TACCAGCCCCTGGCTAC
* * *
12326466 TATAATAAAAAAAATCACTTATCTTTACATTAGAACCTGATTCTTTTCTAAATAAAAAAACTATA
1 TATAATAAAAAAAATCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAACTATA
* * * * *
12326531 ATACAAGTGAAACCGAAATCAATAAATTTAGGATTATCTGTCAGGAATAATTTGATAAAATTTAA
66 ATCCAAGTGAAACCGAAATCAATAAATTGAGAATTATCTGTCAGGAATCATTTGGTAAAATTTAA
* * *
12326596 GTCTAAATTTTAATATTTAAAAGACAAACAAAATGATGTAACCTTTTAGGGGTTACATATACAAA
131 GTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAA
** * * *
12326661 AAAGTACACCCTCTCTAC-AAAGGTTATTGTGAAAAAATAT-TATATATATTGGGGTAAAGTTAG
196 CGAGTAGACCCTCTCTGCTAATGGTTATTGTGAAAAAATATATATATATATTGGGGTAAAGTTAG
* * * * *
12326724 AAAAGACTTTTAAAGGATTAAATCAAAATTTTACCATTTTTAAGGGCCAAAGTGCAATTTTACCT
261 AAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGCTAAAGTGCAATTTTACCT
* **
12326789 TTACTAATTTAAAATTTTTAAAACATTAAAGGGCCTAAACAAAAAAAAATTCATTTTAGGGGAGC
326 TTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAA-AAAAAAATTTTCATTTTAGGGGAGC
* *
12326854 CGGGGCTCCTACCAGCCCCTAGTTAC
390 CGGGGC-CCTACCAGCCCCTGGCTAC
* *
12326880 TATAATAAAAAAACTCACTTATCTTTACATTCGAACCTAATTTTTTTC-AAA-AAAAAAACTATA
1 TATAATAAAAAAAATCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAACTATA
*
12326943 ATCCAAGTGAAACC-ATAATCAATAAAATTGAG-ATTATCTGTCATGAATCATTTGGTAAAATTT
66 ATCCAAGTGAAACCGA-AATCAAT-AAATTGAGAATTATCTGTCAGGAATCATTTGGTAAAATTT
* * *
12327006 AACTCTAGATTTCAATATTTAAAAGACAAATAAAGTGATGTAACCTTTTAAGGGTTACATATACA
129 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* * *
12327071 AACGAGTAGACCGTCTCTGCT-ATGGTTATTGTGAAAAAATATATCATCTATATTGGGCTAAAGT
194 AACGAGTAGACCCTCTCTGCTAATGGTTATTGTGAAAAAATATAT-ATATATATTGGGGTAAAGT
** * **
12327135 TAGAAAA-AAAATTAAAGGATTAAATCTAATTTTTATCATTTTTAGGGAGACTAAAGCACAATTT
258 TAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGG-G-CTAAAGTGCAATTT
* * * *
12327199 TATCTTTACTAATTTAAATTTTTTAAAAAATTAAAGGGCCTAAATAGAAAATTTTCCATTTTAGG
321 TACCTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAAAAAAAAATTTT-CATTTTAGG
* * *
12327264 GGAGCCGGGGCCCTGCTAGCCCCTGGCTAT
385 GGAGCCGGGGCCCTACCAGCCCCTGGCTAC
* * * * *
12327294 TATAATAAAAAAATTCACTTATCTTTATATTTGAACTTGATTTTTTT-TAAAGAAAAAAATTTAT
1 TATAATAAAAAAAATCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAA-CTAT
*
12327358 AATTCC-AGTGAAACCGAAATCAATAAATTTAGAATTATCTGTCAGGAATCATTTGGTAAAATTT
65 AA-TCCAAGTGAAACCGAAATCAATAAATTGAGAATTATCTGTCAGGAATCATTTGGTAAAATTT
* * * *
12327422 AAGTCTAGATTTTACTATTTAAAAGACAAACAAAGTAATGTAACTTTTTAGGGGTTACATATACA
129 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* * * *
12327487 AACGAGTAGACCATCTCTG-TAATGGTTATTGTGAAAATATATATTTTATATATTAGGGTAAA
194 AACGAGTAGACCCTCTCTGCTAATGGTTATTGTGAAAAAATATA-TATATATATTGGGGTAAA
12327549 CTCAATATAT
Statistics
Matches: 954, Mismatches: 109, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
411 1 0.00
412 154 0.16
413 76 0.08
414 258 0.27
415 89 0.09
416 164 0.17
417 5 0.01
418 5 0.01
419 153 0.16
420 49 0.05
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (414 bp):
TATAATAAAAAAAATCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAACTATA
ATCCAAGTGAAACCGAAATCAATAAATTGAGAATTATCTGTCAGGAATCATTTGGTAAAATTTAA
GTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAA
CGAGTAGACCCTCTCTGCTAATGGTTATTGTGAAAAAATATATATATATATTGGGGTAAAGTTAG
AAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGCTAAAGTGCAATTTTACCT
TTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAAAAAAAAATTTTCATTTTAGGGGAGCC
GGGGCCCTACCAGCCCCTGGCTAC
Found at i:12327972 original size:30 final size:30
Alignment explanation
Indices: 12327936--12327998 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
12327926 ACTTAACAAG
12327936 CAAATGTCTCTAAAATAATAAAAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
* *
12327966 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
12327996 CAA
1 CAA
12327999 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAAAAAAATTAA
Found at i:12332877 original size:52 final size:48
Alignment explanation
Indices: 12332858--12333060 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
12332848 TGACAAGTGG
* *
12332858 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
12332904 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
12332956 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
12333002 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
12333048 AAAGTGATAAGTG
1 AAAGTGATAAGTG
12333061 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:12332912 original size:98 final size:98
Alignment explanation
Indices: 12332792--12333060 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
12332782 TTTGAGTACT
*
12332792 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
12332857 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
12332890 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
12332955 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
12332988 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
12333053 GATAAGTG
65 GAAAAGTG
12333061 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:12333068 original size:37 final size:37
Alignment explanation
Indices: 12333024--12333169 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
12333014 GATAGCTTTA
*
12333024 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12333061 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
12333098 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
12333135 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
12333170 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:12335371 original size:414 final size:412
Alignment explanation
Indices: 12333994--12336289 Score: 2857
Period size: 394 Copynumber: 5.6 Consensus size: 412
12333984 TGTTGAAACT
* *
12333994 TATAATAAAAAATTCACTTATCTTTACATTCGAACTTGA-TTTTTTCTAAAGAAAAAAAAACTAT
1 TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
* * *
12334058 AATCCAAGTGAAACCGAAATCAATAAATTTGAGATTATCTCTCAGGAATTATTTGGTAAAATTTA
66 AATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTTA
* * *
12334123 AGGCTAGATTT-ACAGATTTAAAAGGCAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
131 AGTCTAGATTTCA-ATATTTAAAAGACAAACAAA-TGATGTAACCTTTTAGGGGTTACATATACA
* * *
12334187 AATGAGTGGACCCTTTCTGTAATGGTTATTGTGAAAAATA-TATAT-TA---GGGTAAAGTTAGA
194 AACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGA
* * * * * *
12334247 AGAGAAATTTGAATGATT-AATTCGAATTTTTATCATTTTTAGGGGGGGCCAAAGTGCAATTTTA
259 AAAGAATTTTAAAAGATTAAATT-GAATTTTTATCA-TTTTA-AGGGGG-CAAAGTACAATTTTA
* * * * * *
12334311 CCTTTACTAATGTAAAATTTAAAAAAATTAAAGGGCCTAAATAAAAAATTTTCAATTTTAAGAGA
320 CCTTTACTAATTTAAAATTTTAAAAAATTAAAGGACCTAAATAGAAAATTTTCCATTTTAAGGGA
* *
12334376 GTCGGGGCCTTTGCCAGCCCCT-AGCTAC
385 GCCGGGGCCTCTGCCAGCCCCTGA-CTAC
* * *
12334404 TACAATAAAAAATTCACTTATCTTTACATTAGAACCTGATTTTTTTCTAAAGAAAAAAAAA-TAT
1 TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
** * * * *
12334468 AATCCAAGTGAAACCAAAATCAATAAATTTGAGATCATCTCTCATGAATCATTTGGTAAAATTGA
66 AATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTTA
** * *
12334533 AGTCTAGATTTCAATATTTAAAAGATTAACAAAGTAATGTAACCTTTTAGGGTTTACATATACAA
131 AGTCTAGATTTCAATATTTAAAAGACAAACAAA-TGATGTAACCTTTTAGGGGTTACATATACAA
* * *
12334598 ACGAGTGAACCCTCTCTATAATGGTTATTGTGAAAATTATATATTATATATATTGGGATAGAGTT
195 ACGAGTGGACCCTCTCTATAATGGTTATTGTG-AAA--A-ATATTATATATATTGGGGTAAAGTT
** * **
12334663 AGAAAA-AAAATTAAAGGATTAAATTGAATTTTTATCAATTTTAAGGGGGCAAAGTGTAATTTTA
256 AGAAAAGAATTTTAAAAGATTAAATTGAATTTTTATC-ATTTTAAGGGGGCAAAGTACAATTTTA
* * ** *
12334727 CCTTTATTAATTTAAAATTTTAAAAAATTAAAGGTCCTAAATAGAATTTTTTTTCTATTTTAAGG
320 CCTTTACTAATTTAAAATTTTAAAAAATTAAAGGACCTAAATAGAA--AATTTTCCATTTTAAGG
* * * * * *
12334792 GTGTC-AGGCCCCTGCCAACCCCTGGCTAC
383 GAGCCGGGGCCTCTGCCAGCCCCTGACTAC
* *
12334821 TATAATAAAAAAATTCACTTATCTTAACATTCGAACCTGATTTTTTTCT--------AAAAA--A
1 TATAAT-AAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTA
* * *
12334876 TAATTCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTGAGGAATCATTTGATAAAATTT
65 TAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTT
*
12334941 AAGTCTAGATTTCAATATTTAAAAGACAAACAAA-G-CGTAACCTTTTAGGGGTTACATATACAA
130 AAGTCTAGATTTCAATATTTAAAAGACAAACAAATGATGTAACCTTTTAGGGGTTACATATACAA
* ** *
12335004 ACAAGTGGACCAACTCTATAATGGTTATTGTGAAAATATATTATATATATTGGGGTAAAGCTAGA
195 ACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAA-ATATTATATATATTGGGGTAAAGTTAGA
* * * *
12335069 AAAGAATTTTAAAGGATTAAATTAAATTTTTATCATTTTAAGGGGGTTAAAGTATAATTTTACCT
259 AAAGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTAAGGGGG-CAAAGTACAATTTTACCT
*
12335134 TTACTAATTTAAAATTTTACAAAAATTAAAGGGCCTAAATAGAAAATTTTCCATTTTAAGGGAGC
323 TTACTAATTTAAAATTTTA-AAAAATTAAAGGACCTAAATAGAAAATTTTCCATTTTAAGGGAGC
* *
12335199 CGGGGCCCCTACCAGCCCCTGACTAC
387 CGGGGCCTCTGCCAGCCCCTGACTAC
* * * * *
12335225 TATAACAAAAAATCCACTTATTTTTACATTCGAACCTAATTTTATTCTAAAAAAGAAAAAAACTA
1 TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAA-AAAAAAACTA
* ** *
12335290 TAATTCAAGTGAAACTAGAATCAATAAATTTGATATTATCTGTCAGGAATCATTTGGTAAAATTT
65 TAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTT
* *
12335355 ATGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGAAACCTTTTAGGGGTTACATATACA
130 AAGTCTAGATTTCAATATTTAAAAGACAAACAAA-TGATGTAACCTTTTAGGGGTTACATATACA
* * *
12335420 AACGAGTGGACCATCTTTGTAATGGTTATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGA
194 AACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGA
* *
12335485 AAAGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTTAGGGGAGCAAAGTACAAATTTACCT
259 AAAGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTAAGGGG-GCAAAGTACAATTTTACCT
* * *
12335550 TTACTAATTTAAAATTTTAAAAAAATAAAGGACCTAAATAGAAAATTTTTCATTTTAGGGGAGCC
323 TTACTAATTTAAAATTTTAAAAAATTAAAGGACCTAAATAGAAAATTTTCCATTTTAAGGGAGCC
*
12335615 GGCGCCTCTGCCAGCCCCTGACTAC
388 GGGGCCTCTGCCAGCCCCTGACTAC
* * * *
12335640 TATAATAAAGAATCCGCTTATCTTTATATTTGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
1 TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
12335705 AATCCAAGTGAAACCGGAATCAATAAATTT-AGGATTATCTGTCAGGAATCATTTGGTAAAATTT
66 AATCCAAGTGAAACCGGAATCAATAAATTTGA-GATTATCTGTCAGGAATCATTTGGTAAAATTT
* * * * * *
12335769 AAGTCTAGATTTTAACATTTAAAAGACAAACAAAATGATATAACCTTTTAGGGTTTAAATAAACA
130 AAGTCTAGATTTCAATATTTAAAAGACAAAC-AAATGATGTAACCTTTTAGGGGTTACATATACA
* * * *
12335834 AACGAGTAGA-CC-CTC------------TGT--ACAATGTT-TAT-T-GT-GGGTAAAGTTAGA
194 AACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGA
* *
12335879 AAAGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTTAGGGGAGCAAAGTACAAATTTACCT
259 AAAGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTAAGGGG-GCAAAGTACAATTTTACCT
* * * *
12335944 TTACTAATTTAAAATTTTAAAAAAATAAAGGATCTAAATAGAAAATTTTTCATTTTAGGGGAGCC
323 TTACTAATTTAAAATTTTAAAAAATTAAAGGACCTAAATAGAAAATTTTCCATTTTAAGGGAGCC
*
12336009 GGCGCCTCTGCCAGCCCCTGACTAC
388 GGGGCCTCTGCCAGCCCCTGACTAC
* * * *
12336034 TATAATAAAGAATCCGCTTATCTTTATATTTGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
1 TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
12336099 AATCCAAGTGAAACCGGAATCAATAAATTT-AGGATTATCTGTCAGGAATCATTTGGTAAAATTT
66 AATCCAAGTGAAACCGGAATCAATAAATTTGA-GATTATCTGTCAGGAATCATTTGGTAAAATTT
* * * * * *
12336163 AAGTCTAGATTTTAACATTTAAAAGACAAACAAAATGATATAACCTTTTAGGGTTTAAATAAACA
130 AAGTCTAGATTTCAATATTTAAAAGACAAAC-AAATGATGTAACCTTTTAGGGGTTACATATACA
* * * *
12336228 AACGAGTAGACCCTCTCTACAATGTTTATTGTGAAAATATATTATATATATTTGGGTAAAGT
194 AACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAA-ATATTATATATATTGGGGTAAAGT
12336290 CAAAATTTTT
Statistics
Matches: 1682, Mismatches: 145, Indels: 113
0.87 0.07 0.06
Matches are distributed among these distances:
394 371 0.22
395 3 0.00
396 4 0.00
397 3 0.00
398 6 0.00
400 3 0.00
403 96 0.06
404 86 0.05
405 26 0.02
406 54 0.03
408 3 0.00
409 89 0.05
410 190 0.11
411 29 0.02
412 10 0.01
413 4 0.00
414 229 0.14
415 126 0.07
416 161 0.10
417 87 0.05
418 84 0.05
419 18 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (412 bp):
TATAATAAAAAATCCACTTATCTTTACATTCGAACCTGATTTTTTTCTAAAGAAAAAAAAACTAT
AATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATCTGTCAGGAATCATTTGGTAAAATTTA
AGTCTAGATTTCAATATTTAAAAGACAAACAAATGATGTAACCTTTTAGGGGTTACATATACAAA
CGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAATATTATATATATTGGGGTAAAGTTAGAAA
AGAATTTTAAAAGATTAAATTGAATTTTTATCATTTTAAGGGGGCAAAGTACAATTTTACCTTTA
CTAATTTAAAATTTTAAAAAATTAAAGGACCTAAATAGAAAATTTTCCATTTTAAGGGAGCCGGG
GCCTCTGCCAGCCCCTGACTAC
Found at i:12338347 original size:414 final size:414
Alignment explanation
Indices: 12337570--12339072 Score: 1971
Period size: 414 Copynumber: 3.6 Consensus size: 414
12337560 TATTGAAACT
* *
12337570 TATAATAAAAAAA-TCACTTATCTTTACATTCGAACATGATTTTTTTCTAAAGAAAAAAAAACTA
1 TATAATAAAAAAACTCACTTATCTTTACATTTGAACCTGATTTTTTTCT--A-AAAAAAAAACTA
* * *
12337634 TAATCCAAGTGAAACCTAAATCAATCAATTTGGAATTATCTGTTAGGAATCATTTGGTAAAATTT
63 TAATCCAAGTGAAACCGAAATCAATAAATTTGG-ATTATCTGTCAGGAATCATTTGGTAAAATTT
* * * * *
12337699 AAGTTTAAATTTCAGTATTTAAAAGATAAACAAAGTGATGTAACCTTTTAGGGGTTAGATATAGA
127 AAGTCTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* * * *
12337764 AACGAGTGGACCCTTTCTATAATGGTTATTGTGAAAAATATATATGATATATATATTGGGGTAAA
192 AACAAGTAGACCCTCTCTACAATGGTTATTGTGAAAAATATAT-T-ATATATATATTGGGGTAAA
* * * **
12337829 GTTAGAAAAGAATTTTAAAGAATTAAATCGAATTTTTATCATTTTTAGGTGGTTAAAGTATAATT
255 GTTAGAAAAG-ATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGG-GGCTAAAGTGCAATT
* * *
12337894 TTACCTTTACTAATTTAAAATATTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTATTTTAG
318 TTACCTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAG
* *
12337959 GAGAGCCGGGGCCCCTTCCAGCCCCTAGCTAC
383 GGGAGCCGGGGCCCCTGCCAGCCCCTAGCTAC
* * * *
12337991 TATAATAAAAAAA-TCACTTATCTTAACATTAGAACCTGATTCTTTTCT-AAAAATAAACTATAA
1 TATAATAAAAAAACTCACTTATCTTTACATTTGAACCTGATTTTTTTCTAAAAAAAAAACTATAA
* * * *
12338054 TACAAGTCAAACCGAAATCAATAAATTTAGGATTATCTGTCAGGAATAATTTGATAAAATTTAAG
66 TCCAAGTGAAACCGAAATCAATAAATTT-GGATTATCTGTCAGGAATCATTTGGTAAAATTTAAG
*
12338119 TCTAAACTTT-AATATTTAAAAGACAAACAAAATGATGTAACCTTTTAGGGGTTACATATACAAA
130 TCTAAA-TTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAA
* *
12338183 CAAGTACACCCTCTCTACAAAGGTTATTGTGAAAAA-ATATTATATATATATTGGGGTAAAGTTA
194 CAAGTAGACCCTCTCTACAATGGTTATTGTGAAAAATATATTATATATATATTGGGGTAAAGTTA
* *
12338247 GAAAAGACTTTTAAAGGATTAAATCAAATTTTTACCATTTTTAAGGGGCCAAAGTGCAATTTTAC
259 GAAAAGA-TTTTAAAGGATTAAATCAAATTTTTATCATTTTT-AGGGGCTAAAGTGCAATTTTAC
* * *
12338312 CTTTACTAATTTAAAATTTTTAAAACATTAAAGGGCCTAAACA-AAACAAATTTCATTTTAGGGG
322 CTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAATAGAAA-AATTTTCATTTTAGGGG
* *
12338376 AGCCGGGGCCCCTGCCAGCCCCTTGTTAC
386 AGCCGGGGCCCCTGCCAGCCCCTAGCTAC
* * *
12338405 TATAATAAAAAAACTCACTTATCTTTTCATTTGAACCTAATTTTTTTC--AAAAAAAAACTGTAA
1 TATAATAAAAAAACTCACTTATCTTTACATTTGAACCTGATTTTTTTCTAAAAAAAAAACTATAA
* *
12338468 TCCAAGTGAAACC-ATAATCAATAAAATTGAGATTATCTGTCATGAATCATTTGGTAAAATTTAA
66 TCCAAGTGAAACCGA-AATCAATAAATTTG-GATTATCTGTCAGGAATCATTTGGTAAAATTTAA
* * * *
12338532 CTCTAGATTTCAATATTTAAAAGACAAATAAAGTGATGTAACCTTTTAAGGGTTACATATACAAA
129 GTCTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAA
* * * * * *
12338597 CGAGTAGACCGTCTCTGCTATGGTTATTGTGAAAAA-ATA-TATCATCTATATTGGGCTAAAGTT
194 CAAGTAGACCCTCTCTACAATGGTTATTGTGAAAAATATATTAT-ATATATATTGGGGTAAAGTT
** *
12338660 AGAAAA-AAATTAAAGGATTAAATCTAATTTTTATCATTTTTAGGGAGACTAAAGTGCAATTTTA
258 AGAAAAGATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGG-G-CTAAAGTGCAATTTTA
* *
12338724 TCTTTACTAATTTAAATTTTTTAAAAAATTAAAGGGCCTAAATAG-AAAATTTTCCATTTTAGGG
321 CCTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAATAGAAAAATTTT-CATTTTAGGG
* * *
12338788 GAGCCGGGG-CCCTGCTAGCCCCTGGCTAT
385 GAGCCGGGGCCCCTGCCAGCCCCTAGCTAC
* * * *
12338817 TATAATAAAAAAATTCACTTATCTTTATATTTGAACTTGATTTTTTT-TAAAGAAAAAAATTATA
1 TATAATAAAAAAACTCACTTATCTTTACATTTGAACCTGATTTTTTTCTAAA-AAAAAAACTATA
* * * *
12338881 ATTCC-AGTGAAACTGAAATCAATAAATTTAGAATTATCTGTTAGGAATCATTTGGTAAATTTTA
65 A-TCCAAGTGAAACCGAAATCAATAAATTT-GGATTATCTGTCAGGAATCATTTGGTAAAATTTA
* * * *
12338945 AGTCTAGATTTTAATATTTAAAAGACAAACAAAGTAATGTAACTTTTTAGGGGTTACATATACAA
128 AGTCTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAA
*
12339010 ACAAGTAGACCCTCTCTATAATGGTTATTGTGAAAATATATATTATATATAT-TT-GGGTAAAGT
193 ACAAGTAGACCCTCTCTACAATGGTTATTGTGAAAA-ATATATTATATATATATTGGGGTAAAGT
12339073 CAAAAATTTT
Statistics
Matches: 952, Mismatches: 107, Indels: 53
0.86 0.10 0.05
Matches are distributed among these distances:
411 4 0.00
412 94 0.10
413 91 0.10
414 505 0.53
415 41 0.04
416 12 0.01
417 156 0.16
418 5 0.01
421 44 0.05
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (414 bp):
TATAATAAAAAAACTCACTTATCTTTACATTTGAACCTGATTTTTTTCTAAAAAAAAAACTATAA
TCCAAGTGAAACCGAAATCAATAAATTTGGATTATCTGTCAGGAATCATTTGGTAAAATTTAAGT
CTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACA
AGTAGACCCTCTCTACAATGGTTATTGTGAAAAATATATTATATATATATTGGGGTAAAGTTAGA
AAAGATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGCTAAAGTGCAATTTTACCTTT
ACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAGGGGAGCCG
GGGCCCCTGCCAGCCCCTAGCTAC
Found at i:12339039 original size:828 final size:830
Alignment explanation
Indices: 12337570--12339072 Score: 2170
Period size: 828 Copynumber: 1.8 Consensus size: 830
12337560 TATTGAAACT
*
12337570 TATAATAAAAAAATCACTTATCTTTACATTCGAACATGATTTTTTTCTAAAGAAAAAAAAACTAT
1 TATAATAAAAAAATCACTTATCTTTACATTCGAACATAATTTTTTTC---A-AAAAAAAAACTAT
* * *
12337635 AATCCAAGTGAAACCTAAATCAATCAATTTGGAATTATCTGTTAGGAATCATTTGGTAAAATTTA
62 AATCCAAGTGAAACCTAAATCAATAAAATTGGAATTATCTGTCAGGAATCATTTGGTAAAATTTA
* * * * * * *
12337700 AGTTTAAATTTCAGTATTTAAAAGATAAACAAAGTGATGTAACCTTTTAGGGGTTAGATATAGAA
127 ACTCTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAAGGGTTACATATACAA
* * * *
12337765 ACGAGTGGACCCTTTCTATAATGGTTATTGTGAAAAATATATATGATATATATATTGGGGTAAAG
192 ACGAGTAGACCCTCTCTATAATGGTTATTGTGAAAAATATATAT-ACATATATATTGGGCTAAAG
* * *
12337830 TTAGAAAAGAATTTTAAAGAATTAAATCGAATTTTTATCATTTTTAGGTGGTTAAAGTATAATTT
256 TTAGAAAAGAATATTAAAGAATTAAATCGAATTTTTATCATTTTTAGGTGGCTAAAGTACAATTT
*
12337895 TACCTTTACTAATTTAAAATATTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTATTTTAGG
321 TACCTTTACTAATTTAAAATATTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAGG
*
12337960 AGAGCCGGGGCCCCTTCCAGCCCCTAGCTACTATAATAAAAAAATCACTTATCTTAACATTAGAA
386 AGAGCCGGGGCCCCTGCCAGCCCCTAGCTACTATAATAAAAAAATCACTTATCTTAACATTAGAA
* *
12338025 CCTGATTCTTTTCTAAAAATAAACTATAATACAAGTCAAACCGAAATCAATAAATTTAGGATTAT
451 CCTGATTCTTTTCTAAAAAAAAACTATAATACAAGTCAAACCGAAATCAATAAATTTAGAATTAT
*
12338090 CTGTCAGGAATAATTTGATAAAATTTAAGTCTAAACTTTAATATTTAAAAGACAAACAAAATGAT
516 CTGTCAGGAATAATTTGATAAAATTTAAGTCTAAACTTTAATATTTAAAAGACAAACAAAATAAT
12338155 GTAACCTTTTAGGGGTTACATATACAAACAAGTACACCCTCTCTACAAAGGTTATTGTGAAAA-A
581 GTAACCTTTTAGGGGTTACATATACAAACAAGTACACCCTCTCTACAAAGGTTATTGTGAAAATA
12338219 -ATATTATATATATATTGGGGTAAAGTTAGAAAAGACTTTTAAAGGATTAAATCAAATTTTTACC
646 TATATTATATATAT-TT-GGGTAAAGTTAGAAAAGACTTTTAAAGGATTAAATCAAATTTTTACC
12338283 ATTTTTAAGGGGCCAAAGTGCAATTTTACCTTTACTAATTTAAAATTTTTAAAACATTAAAGGGC
709 ATTTTTAAGGGGCCAAAGTGCAATTTTACCTTTACTAATTTAAAATTTTTAAAACATTAAAGGGC
12338348 CTAAACAAAACAAATTTCATTTTAGGGGAGCCGGGGCCCCTGCCAGCCCCTTGTTAC
774 CTAAACAAAACAAATTTCATTTTAGGGGAGCCGGGGCCCCTGCCAGCCCCTTGTTAC
* * * *
12338405 TATAATAAAAAAACTCACTTATCTTTTCATTTGAACCTAATTTTTTTC-AAAAAAAAACTGTAAT
1 TATAATAAAAAAA-TCACTTATCTTTACATTCGAACATAATTTTTTTCAAAAAAAAAACTATAAT
*
12338469 CCAAGTGAAACC-ATAATCAATAAAATT-GAGATTATCTGTCATGAATCATTTGGTAAAATTTAA
65 CCAAGTGAAACCTA-AATCAATAAAATTGGA-ATTATCTGTCAGGAATCATTTGGTAAAATTTAA
* *
12338532 CTCTAGATTTCAATATTTAAAAGACAAATAAAGTGATGTAACCTTTTAAGGGTTACATATACAAA
128 CTCTAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAAGGGTTACATATACAAA
* * *
12338597 CGAGTAGACCGTCTCTGCT-ATGGTTATTGTGAAAAA-ATATAT-CATCTATATTGGGCTAAAGT
193 CGAGTAGACCCTCTCT-ATAATGGTTATTGTGAAAAATATATATACATATATATTGGGCTAAAGT
* * *
12338659 TAGAAAA-AA-ATTAAAGGATTAAATCTAATTTTTATCATTTTTAGG-GAGACTAAAGTGCAATT
257 TAGAAAAGAATATTAAAGAATTAAATCGAATTTTTATCATTTTTAGGTG-G-CTAAAGTACAATT
* * * *
12338721 TTATCTTTACTAATTTAAATTTTTTAAAAAATTAAAGGGCCTAAATAG-AAAATTTTCCATTTTA
320 TTACCTTTACTAATTTAAAATATTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTT-CATTTTA
* * * * * * *
12338785 GGGGAGCCGGGG-CCCTGCTAGCCCCTGGCTATTATAATAAAAAAATTCACTTATCTTTATATTT
384 GGAGAGCCGGGGCCCCTGCCAGCCCCTAGCTACTATAATAAAAAAA-TCACTTATCTTAACATTA
* * * * * * *
12338849 GAACTTGATT-TTTTTTAAAGAAAAAAATTATAATTCCAGTGAAACTGAAATCAATAAATTTAGA
448 GAACCTGATTCTTTTCT-AA-AAAAAAACTATAATACAAGTCAAACCGAAATCAATAAATTTAGA
* * * * * *
12338913 ATTATCTGTTAGGAATCATTTGGTAAATTTTAAGTCTAGATTTTAATATTTAAAAGACAAACAAA
511 ATTATCTGTCAGGAATAATTTGATAAAATTTAAGTCTAAACTTTAATATTTAAAAGACAAACAAA
* * * * *
12338978 GTAATGTAACTTTTTAGGGGTTACATATACAAACAAGTAGACCCTCTCTATAATGGTTATTGTGA
576 ATAATGTAACCTTTTAGGGGTTACATATACAAACAAGTACACCCTCTCTACAAAGGTTATTGTGA
12339043 AAATATATATTATATATATTTGGGTAAAGT
641 AAATATATATTATATATATTTGGGTAAAGT
12339073 CAAAAATTTT
Statistics
Matches: 591, Mismatches: 65, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
825 1 0.00
826 76 0.13
827 99 0.17
828 191 0.32
829 3 0.01
830 22 0.04
831 155 0.26
832 1 0.00
835 13 0.02
836 30 0.05
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (830 bp):
TATAATAAAAAAATCACTTATCTTTACATTCGAACATAATTTTTTTCAAAAAAAAAACTATAATC
CAAGTGAAACCTAAATCAATAAAATTGGAATTATCTGTCAGGAATCATTTGGTAAAATTTAACTC
TAAATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAAGGGTTACATATACAAACGA
GTAGACCCTCTCTATAATGGTTATTGTGAAAAATATATATACATATATATTGGGCTAAAGTTAGA
AAAGAATATTAAAGAATTAAATCGAATTTTTATCATTTTTAGGTGGCTAAAGTACAATTTTACCT
TTACTAATTTAAAATATTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAGGAGAGC
CGGGGCCCCTGCCAGCCCCTAGCTACTATAATAAAAAAATCACTTATCTTAACATTAGAACCTGA
TTCTTTTCTAAAAAAAAACTATAATACAAGTCAAACCGAAATCAATAAATTTAGAATTATCTGTC
AGGAATAATTTGATAAAATTTAAGTCTAAACTTTAATATTTAAAAGACAAACAAAATAATGTAAC
CTTTTAGGGGTTACATATACAAACAAGTACACCCTCTCTACAAAGGTTATTGTGAAAATATATAT
TATATATATTTGGGTAAAGTTAGAAAAGACTTTTAAAGGATTAAATCAAATTTTTACCATTTTTA
AGGGGCCAAAGTGCAATTTTACCTTTACTAATTTAAAATTTTTAAAACATTAAAGGGCCTAAACA
AAACAAATTTCATTTTAGGGGAGCCGGGGCCCCTGCCAGCCCCTTGTTAC
Found at i:12339522 original size:11 final size:12
Alignment explanation
Indices: 12339492--12339525 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
12339482 CGACCCGCCC
12339492 ATATTAATTTTT
1 ATATTAATTTTT
12339504 ATATTAATTTTT
1 ATATTAATTTTT
12339516 ATA-TAATTTT
1 ATATTAATTTT
12339526 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:12339548 original size:19 final size:18
Alignment explanation
Indices: 12339526--12339571 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
12339516 ATATAATTTT
12339526 AAAATATATATAATACATC
1 AAAATATATATAA-ACATC
*
12339545 AAAA-ATA-CTAAACATC
1 AAAATATATATAAACATC
*
12339561 AAAATAAATAT
1 AAAATATATAT
12339572 TTCCTAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 4 0.18
19 4 0.18
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATATATATAAACATC
Found at i:12339696 original size:30 final size:31
Alignment explanation
Indices: 12339648--12339711 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
12339638 ACTTAACAAG
12339648 CAAATGTCTCTAAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAAATAATAACAAAATTAA
*
12339679 CAAATGTCT-TTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAAATAATAACAAAATTAA
12339709 CAA
1 CAA
12339712 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (31 bp):
CAAATGTCTCTAAAAATAATAACAAAATTAA
Found at i:12342094 original size:417 final size:418
Alignment explanation
Indices: 12341077--12343845 Score: 3337
Period size: 417 Copynumber: 6.6 Consensus size: 418
12341067 TTTTAAAACT
* * *
12341077 TATAATAAAAAATTTCACTTATTTTTACATTCGAACCTGATTATTTTT-TAAAG-AAAAAAATTA
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAATT-TTTTTCTAAAGAAAAAAAATTA
* * * * * * * * *
12341140 TAATTCAAGTGAAACCAAAATCAATAAATTTGAGATTGTATTTTAGGAATTATTTAGTAAAATTT
65 TAATCCAAGTGAAACCGAAATCAATAAATTTG-GATTATCTGTCAGAAATCATTTGGTAAAATTT
* *
12341205 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACATTTTAGGGGTTATATATACA
129 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* *
12341270 AACGAGTGGACCCTCTCTATAATGGTTATTATGAAAAATATATATGATATATATATTGGGGTAAA
194 AACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATAT--TATATATATTGGGGTAAA
* *
12341335 GTTAGAAAAGAATTTTAAAGGACTAAATCAAATTTTTATCATTTTTAGGGGGTCAAAGTGTAATT
257 GTTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTGTAATT
* * ***
12341400 TTATCTTTACTAATTTAAAATTTCAAAAAAAATTAAAGGGCCTAAATAGAATTTTTTTTCATTTT
322 TTACCTTTACTAATTTAAAATTT-TAAAAAAATTAAAGGGCCTAAATAGAA-AAATTTTCATTTT
* * * *
12341465 AAGGGAGTCAGGGCCTCTGTCAGCCCCTGACTAC
385 AAGGGAGCCAGGGCCCCTGCCAGCCCCTGGCTAC
* * * *
12341499 TATAATAAAAAAAATTCACTTATCATTACATTCAAACCTAA-TTTTTTCTAAATAAAAATAATTA
1 TATAAT-AAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAAATTA
** * *
12341563 TAATCCAAGTGAAATAGAAATCAATAAATTTGGGATTATCTGTCAGGAATAATTTGGTAAAATTT
65 TAATCCAAGTGAAACCGAAATCAATAAATTT-GGATTATCTGTCAGAAATCATTTGGTAAAATTT
*
12341628 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTATATATACA
129 AAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* *
12341693 AACGAGTGGACCCTCTCTGTGATGGTTATTGTGAAAAATATATATTATATACATTGGGGTAAAGT
194 AACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATATTATATATATTGGGGTAAAGT
* * *
12341758 TAGAGAAGAATTTTAAAAGATTAAATCAAATTTTTATCACTTTTAGGGGGCCAAAGTGTAATTTT
259 TAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTGTAATTTT
* * ** *
12341823 ACATTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTAAATA-AAAAAAATTCATTTTAAGA
324 ACCTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAAGG
* * *
12341887 GAACCAGGGCCCCTGCCAGGCCCAGGCTAC
389 GAGCCAGGGCCCCTGCCAGCCCCTGGCTAC
* * *
12341917 TATAAT-AAAAAATTCACTTATCTTTACATTCGAGCCTAATTTTTTTCTAAGGAAAAAAAAATAT
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAAATTAT
* *
12341981 AATCCAAGTGAAACCGAAATCAATAAATTTTGGATTATCTATCACAAATCATTTGGTAAAATTTA
66 AATCCAAGTGAAACCGAAATCAATAAA-TTTGGATTATCTGTCAGAAATCATTTGGTAAAATTTA
*
12342046 AGTCTAGATTTCAA-ATTTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTATATATACA
130 AGTCTAGATTTCAATA-TTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACA
* * *
12342110 AACAAGTGGATCCTCTCTGTAATGGTTATTGTGAAAAGTATATATTATATATATTGGGGTAAAGT
194 AACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATATTATATATATTGGGGTAAAGT
* * * *
12342175 TAGAAAAGAAATTTAAAGGATTAACTCGAATTTTTATCATTTTTAAGGGGCCAAAGTGTAATTTT
259 TAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTGTAATTTT
* * * * *
12342240 ACTTTTACAAATTTAAAATTTTAAAAAAATTAAATGGCCTAAATAGAAAAATTTTTATTTTAGGG
324 ACCTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAAGG
* * * *
12342305 GAGTC-GAGGCCTCTACCAGCCCCTGGCTAT
389 GAGCCAG-GGCCCCTGCCAGCCCCTGGCTAC
* * *
12342335 TATAATAAAAAAATTCATTTATCTTTACATTCGAACCTGATTTTTTTTCTAAAGAAAAAAAAAAC
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCT-AATTTTTTTCTAAAG--AAAAAAAAT
* * * * *
12342400 TAAAATCCAAGTGAAACCGGAATCAATAAATTTGAGATTATTTGTCTGGAATCATTTGGTAAAAT
63 TATAATCCAAGTGAAACCGAAATCAATAAATTTG-GATTATCTGTCAGAAATCATTTGGTAAAAT
*
12342465 TTAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGACGTAACCTTTTAGGGGTTACATATA
127 TTAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATA
* * * ** *
12342530 CAAACAAGTGCACCCTGTCTACAATGGTTATTGTGAAAAAAATAT-TATATATATATTGGGGTAA
192 CAAACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATAT-TATATATATTGGGGTAA
* *
12342594 AGCTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGTCAAAGTGTAAT
256 AGTTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTGTAAT
** *
12342659 TTTACCTTTACTAATTTAAAATTTTTTAAAAATTAAAGGGCTTAAATA-AAAAA-TTTCTATTTT
321 TTTACCTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTC-ATTTT
* *
12342722 AGGGGAGCCGGGGGCCCGGGGCCCCTGCCAGCCCCT-GCTAC
385 A----A---GGGAG-CCAGGGCCCCTGCCAGCCCCTGGCTAC
** * * * *
12342763 TATAATAAAAAAACCCACTTATCTTTACATTCGAAACTAATTTTTTTTTCTAATGTAAAAAAACT
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAA--TTTTTTTCTAAAGAAAAAAAATT
* * * *
12342828 ATAATCTAAGTGAAACCGGAATCAATAAAATTAGGATTATCTGTCACAAATCATTTGGTAAAATT
64 ATAATCCAAGTGAAACCGAAATCAAT-AAATTTGGATTATCTGTCAGAAATCATTTGGTAAAATT
* *
12342893 TAAGTCTAGATTTCAATATTTAAAATACAAATAAAGTGATGTAACCTTTTAGGGGTTACATATAC
128 TAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATAC
* * * * * * * *
12342958 AAACGAGTGGACCCTATATGCAATGGTTATTGTGAAAAAAAACATATTATCTTTATTGGGGTCAA
193 AAACGAGTGGACCCTCTCTGTAATGGTTATTGTG-AAAAATATATATTATATATATTGGGGTAAA
* * * * * *
12343023 GTTAGAAAA-ACA-ATTAAAAGATTAAATCGATTTTTTATCATTTTTAGGGGGATCAAAGTGAAA
257 GTTAGAAAAGA-ATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGG-CCAAAGTGTAA
** *
12343086 TTTTACCTTTACTAATTT-AAATTTTAAAAAAATTAAAGGGATTAAATAGAAAATTTTTCATTTT
320 TTTTACCTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTT
* * *
12343150 -AGAAGAGTCAGGG-CCCTGCTAGCCCCTGG-TAC
385 AAG-GGAGCCAGGGCCCCTGCCAGCCCCTGGCTAC
* * *
12343182 TATAATAAAAAAATTCACTTATTTTTACATTCAAACTTAATTTTTTTTCTAAAG-AAAAAAATTA
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAA-TTTTTTTCTAAAGAAAAAAAATTA
* * * *
12343246 TAATTCAAGTGAAACCGAAATCAATAAATTTGGGATTATTTTTCTA-AAACCATTTGGTAAAATT
65 TAATCCAAGTGAAACCGAAATCAATAAATTT-GGATTATCTGTC-AGAAATCATTTGGTAAAATT
* *
12343310 TAAGTCTAGATTTCGATATTTAAAAGATAAACAAAGTGATGTAACCTTTTAGGGGTTACATATAC
128 TAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATAC
* * * * *
12343375 AAACGAGTAGATCCTCTCTGAAATGGTTATTATG-AAAATATAAATTATATACATATTGGGGTAA
193 AAACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATATTATAT--ATATTGGGGTAA
* * * ** *
12343439 AGTTAAAAAATAA--TTAAATGG-TTAAATCAAATTTTTATTATTTTTTAGATGGCTAAAGTGTA
256 AGTTAGAAAAGAATTTTAAA-GGATTAAATCAAATTTTTATCA-TTTTTAGGGGGCCAAAGTGTA
* * ***
12343501 ATTTGACCTTTACTAATTTAAAATTTTTAAAAAAAATTAAATGGCCTAAATAGAATTTTTTTTCA
319 ATTTTACCTTTACTAATTTAAAA-TTTT-AAAAAAATTAAAGGGCCTAAATAGAA-AAATTTTCA
*
12343566 TTTTAGGGGAGCCGAGGG-----G---GCCCCT-GCTAC
381 TTTTAAGGGAGCC-AGGGCCCCTGCCAGCCCCTGGCTAC
* * * *
12343596 TATAAT-AAAAAATTCACTTATCTTTACGTTTGAACTTAATTTTTTTCTAAAGAAAAAAAGACTA
1 TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAA-ATTA
* *
12343660 TAATCCAAGTGAAACTGAAATCAATAAATGTGG--TA--T-T-----ATC---TGGTAAAATTTA
65 TAATCCAAGTGAAACCGAAATCAATAAATTTGGATTATCTGTCAGAAATCATTTGGTAAAATTTA
* *
12343712 AGTCTAGATTTTAATATTTAAAAGACAAACAAAGTGATGTAACTTTTTAGGGGTTACATATACAA
130 AGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAA
* * * * *
12343777 ATGAGTAGACCCTCTCTATAATGGTTATTGTGAAAAA-ATATATTATATATATTTGGGTAAAGTC
195 ACGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATATTATATATATTGGGGTAAAGTT
12343841 AGAAA
260 AGAAA
12343846 TTTTTTGAGG
Statistics
Matches: 2055, Mismatches: 238, Indels: 132
0.85 0.10 0.05
Matches are distributed among these distances:
398 18 0.01
400 110 0.05
401 4 0.00
403 2 0.00
408 1 0.00
409 1 0.00
411 2 0.00
412 13 0.01
413 38 0.02
414 46 0.02
415 12 0.01
416 82 0.04
417 478 0.23
418 103 0.05
419 104 0.05
420 59 0.03
421 126 0.06
422 289 0.14
423 199 0.10
424 1 0.00
427 215 0.10
428 118 0.06
429 33 0.02
430 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (418 bp):
TATAATAAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAAATTAT
AATCCAAGTGAAACCGAAATCAATAAATTTGGATTATCTGTCAGAAATCATTTGGTAAAATTTAA
GTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAA
CGAGTGGACCCTCTCTGTAATGGTTATTGTGAAAAATATATATTATATATATTGGGGTAAAGTTA
GAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGGGGCCAAAGTGTAATTTTAC
CTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTCATTTTAAGGGA
GCCAGGGCCCCTGCCAGCCCCTGGCTAC
Found at i:12342696 original size:839 final size:832
Alignment explanation
Indices: 12341077--12343845 Score: 3468
Period size: 839 Copynumber: 3.3 Consensus size: 832
12341067 TTTTAAAACT
* * *
12341077 TATAATAAAAAATTTCACTTATTTTTACATTCGAACCTGATTATTTTT-TAAAG-AAAAAAATTA
1 TATAATAAAAAA-TTCACTTATCTTTACATTCGAACCTAATT-TTTTTCTAAAGAAAAAAAACTA
* * * ** * *
12341140 TAATTCAAGTGAAACCAAAATCAATAAATTTGAGATTGTAT-TTTAGGAATTATTTAGTAAAATT
64 TAATCCAAGTGAAACCGAAATCAATAAATTTG-GA-T-TATCTTCACAAATCATTTGGTAAAATT
* *
12341204 TAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACATTTTAGGGGTTATATATAC
126 TAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATAC
* *
12341269 AAACGAGTGGACCCTCTCTATAATGGTTATTATGAAAAATATATATGATATATATATTGGGGTAA
191 AAACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAAAATATAT--TATATATATTGGGGTAA
* * *
12341334 AGTTAGAAAAGAATTTTAAAGGACTAAATCAAATTTTTATCATTTTTAGGGGGTCAAAGTGTAAT
254 AGTTAGAAAAGAAATTTAAAGGATTAAATCGAATTTTTATCATTTTTAGGGGGTCAAAGTGTAAT
* ***
12341399 TTTA-TCTTTACTAATTTAAAATTTCAAAAAAAATTAAAGGGCCTAAATAGAATTTTTTTTCATT
319 TTTACT-TTTACTAATTTAAAATTT-TAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTCATT
* * * *
12341463 TTAAGGGAGTCAGGGCCTCTGTCAGCCCCTGACTACTATAATAAAAAAAATTCACTTATCATTAC
382 TTAGGGGAGTCAGGGCCTCTGCCAGCCCCTGGCTACTATAAT-AAAAAAATTCACTTATCTTTAC
* * * **
12341528 ATTCAAACCTA-ATTTTTTCTAAA-TAAAAATAATTATAATCCAAGTGAAATAGAAATCAATAAA
446 ATTCAAACCTATTTTTTTTCTAAAGAAAAAAAAATTATAATCCAAGTGAAACCGAAATCAATAAA
* * *
12341591 TTTGGGATTATCTGTCAGGAATAATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACA
511 TTTGGGATTATTTGTCTGGAATCATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACA
* **
12341656 AACAAAGTGATGTAACCTTTTAGGGGTTATATATACAAACGAGTGGACCCTCTCTGTGATGGTTA
576 AACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACGAGT-GACCCTCTCT-AAATGGTTA
* * * *
12341721 TTGTGAAAAATATA-TATTATATACATTGGGGTAAAGTTAGAGAAGAATTTTAAAAGATTAAATC
639 TTGTGAAAAAAATATTA-TATATATATTGGGGTAAAGTTAGAAAAGAATTTTAAAGGATTAAATC
* *
12341785 AAATTTTTATCACTTTTAGGGGGCCAAAGTGTAATTTTACATTTACTAATTTAAAATTTTTAAAA
703 AAATTTTTATCATTTTTAGGGGG-CAAAGTGTAATTTTACCTTTACTAATTTAAAATTTTTAAAA
* * **
12341850 AATTAAAGGGCCTAAATAAAAAAAATTCATTTTAAGAGAACCAGGGCCCCTGCCAGGCCCAGGCT
767 AATTAAAGGGCCTAAATAAAAAAATTTCATTTTAAGGGAACC-GGGCCCCTGCCAGGCCCCTGCT
12341915 AC
831 AC
* * *
12341917 TATAATAAAAAATTCACTTATCTTTACATTCGAGCCTAATTTTTTTCTAAGGAAAAAAAAATATA
1 TATAATAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAAACTATA
12341982 ATCCAAGTGAAACCGAAATCAATAAATTTTGGATTATCTATCACAAATCATTTGGTAAAATTTAA
66 ATCCAAGTGAAACCGAAATCAATAAA-TTTGGATTATCT-TCACAAATCATTTGGTAAAATTTAA
*
12342047 GTCTAGATTTCAA-ATTTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTATATATACAA
129 GTCTAGATTTCAATA-TTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAA
* * * **
12342111 ACAAGTGGATCCTCTCTGTAATGGTTATTGTGAAAAGTATATATTATATATATTGGGGTAAAGTT
193 ACGAGTGGACCCTCTCTATAATGGTTATTGTGAAAAAAATATATTATATATATTGGGGTAAAGTT
* * *
12342176 AGAAAAGAAATTTAAAGGATTAACTCGAATTTTTATCATTTTTAAGGGGCCAAAGTGTAATTTTA
258 AGAAAAGAAATTTAAAGGATTAAATCGAATTTTTATCATTTTTAGGGGGTCAAAGTGTAATTTTA
* *
12342241 CTTTTACAAATTTAAAATTTTAAAAAAATTAAATGGCCTAAATAGAAAAATTTTT-ATTTTAGGG
323 CTTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTCATTTTAGGG
* * * *
12342305 GAGTC-GAGGCCTCTACCAGCCCCTGGCTATTATAATAAAAAAATTCATTTATCTTTACATTCGA
388 GAGTCAG-GGCCTCTGCCAGCCCCTGGCTACTATAATAAAAAAATTCACTTATCTTTACATTCAA
* * *
12342369 ACCTGATTTTTTTTCTAAAGAAAAAAAAAACTAAAATCCAAGTGAAACCGGAATCAATAAATTTG
452 ACCT-ATTTTTTTTCTAAAG-AAAAAAAAATTATAATCCAAGTGAAACCGAAATCAATAAATTTG
*
12342434 AGATTATTTGTCTGGAATCATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACAAACA
515 GGATTATTTGTCTGGAATCATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACAAACA
* * *
12342499 AAGTGACGTAACCTTTTAGGGGTTACATATACAAACAAGTGCACCCTGTCTACAATGGTTATTGT
580 AAGTGATGTAACCTTTTAGGGGTTACATATACAAACGAGTG-ACCCTCTCTA-AATGGTTATTGT
*
12342564 GAAAAAAATATTATATATATATTGGGGTAAAGCTAGAAAAGAATTTTAAAGGATTAAATCAAATT
643 GAAAAAAATATTATATATATATTGGGGTAAAGTTAGAAAAGAATTTTAAAGGATTAAATCAAATT
*
12342629 TTTATCATTTTTAGGGGGTCAAAGTGTAATTTTACCTTTACTAATTTAAAATTTTTTAAAAATTA
708 TTTATCATTTTTAGGGGG-CAAAGTGTAATTTTACCTTTACTAATTTAAAATTTTTAAAAAATTA
* **
12342694 AAGGGCTTAAAT-AAAAAATTTCTATTTTAGGGGAGCCGGGGGCCCGGGGCCCCTGCCA-GCCCC
772 AAGGGCCTAAATAAAAAAATTTC-ATTTTA----A----GGGAACC-GGGCCCCTGCCAGGCCCC
12342757 TGCTAC
827 TGCTAC
** * * *
12342763 TATAATAAAAAAACCCACTTATCTTTACATTCGAAACTAATTTTTTTTTCTAATGTAAAAAAACT
1 TATAAT-AAAAAATTCACTTATCTTTACATTCGAACCTAA--TTTTTTTCTAAAGAAAAAAAACT
* * *
12342828 ATAATCTAAGTGAAACCGGAATCAATAAAATTAGGATTATCTGTCACAAATCATTTGGTAAAATT
63 ATAATCCAAGTGAAACCGAAATCAAT-AAATTTGGATTATCT-TCACAAATCATTTGGTAAAATT
* *
12342893 TAAGTCTAGATTTCAATATTTAAAATACAAATAAAGTGATGTAACCTTTTAGGGGTTACATATAC
126 TAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATAC
* * ** * * * *
12342958 AAACGAGTGGACCCTATATGCAATGGTTATTGTGAAAAAAAACATATTATCTTTATTGGGGTCAA
191 AAACGAGTGGACCCTCTCTATAATGGTTATTGTG-AAAAAAATATATTATATATATTGGGGTAAA
* * *
12343023 GTTAGAAAA-ACAA-TTAAAAGATTAAATCGATTTTTTATCATTTTTAGGGGGATCAAAGTGAAA
255 GTTAGAAAAGA-AATTTAAAGGATTAAATCGAATTTTTATCATTTTTAGGGGG-TCAAAGTGTAA
* **
12343086 TTTTACCTTTACTAATTT-AAATTTTAAAAAAATTAAAGGGATTAAATAG-AAAATTTTTCATTT
318 TTTTACTTTTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTCATTT
** * *
12343149 TAGAAGAGTCAGGGCC-CTGCTAGCCCCTGG-TACTATAATAAAAAAATTCACTTATTTTTACAT
383 TAGGGGAGTCAGGGCCTCTGCCAGCCCCTGGCTACTATAATAAAAAAATTCACTTATCTTTACAT
* *
12343212 TCAAACTTAATTTTTTTTCTAAAG--AAAAAAATTATAATTCAAGTGAAACCGAAATCAATAAAT
448 TCAAACCT-ATTTTTTTTCTAAAGAAAAAAAAATTATAATCCAAGTGAAACCGAAATCAATAAAT
* ** * * *
12343275 TTGGGATTATTTTTCTAAAACCATTTGGTAAAATTTAAGTCTAGATTTCGATATTTAAAAGATAA
512 TTGGGATTATTTGTCTGGAATCATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACAA
*
12343340 ACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACGAGTAGATCCTCTCTGAAATGGTTAT
577 ACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACGAGT-GACCCTCTCT-AAATGGTTAT
* * * *
12343405 TATGAAAATATAA-ATTATATACATATTGGGGTAAAGTTAAAAAATAA--TTAAATGG-TTAAAT
640 TGTGAAAA-A-AATATTATATATATATTGGGGTAAAGTTAGAAAAGAATTTTAAA-GGATTAAAT
* ** *
12343466 CAAATTTTTATTATTTTTTAGATGGCTAAAGTGTAATTTGACCTTTACTAATTTAAAATTTTTAA
702 CAAATTTTTATCA-TTTTTAGGGGGC-AAAGTGTAATTTTACCTTTACTAATTTAAAATTTTT--
* **** * *
12343531 AAAAAATTAAATGGCCTAAATAGAATTTTTTTTCATTTTAGGGGAGCCGAGG-----G---GGCC
763 AAAAAATTAAAGGGCCTAAATA-AA-AAAATTTCATTTTAAGGGAACCG-GGCCCCTGCCAGGCC
12343588 CCTGCTAC
825 CCTGCTAC
* * *
12343596 TATAATAAAAAATTCACTTATCTTTACGTTTGAACTTAATTTTTTTCTAAAGAAAAAAAGACTAT
1 TATAATAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAA-ACTAT
* *
12343661 AATCCAAGTGAAACTGAAATCAATAAATGTGG--TA--TT-----ATC---TGGTAAAATTTAAG
65 AATCCAAGTGAAACCGAAATCAATAAATTTGGATTATCTTCACAAATCATTTGGTAAAATTTAAG
* * *
12343714 TCTAGATTTTAATATTTAAAAGACAAACAAAGTGATGTAACTTTTTAGGGGTTACATATACAAAT
130 TCTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAAC
* * *
12343779 GAGTAGACCCTCTCTATAATGGTTATTGTG-AAAAAATATATTATATATATTTGGGTAAAGTCAG
195 GAGTGGACCCTCTCTATAATGGTTATTGTGAAAAAAATATATTATATATATTGGGGTAAAGTTAG
12343843 AAA
260 AAA
12343846 TTTTTTGAGG
Statistics
Matches: 1698, Mismatches: 182, Indels: 123
0.85 0.09 0.06
Matches are distributed among these distances:
815 31 0.02
817 99 0.06
820 3 0.00
825 1 0.00
826 1 0.00
828 2 0.00
830 24 0.01
831 26 0.02
832 27 0.02
833 17 0.01
835 31 0.02
836 39 0.02
837 41 0.02
838 115 0.07
839 324 0.19
840 178 0.10
841 4 0.00
843 25 0.01
844 203 0.12
845 33 0.02
846 35 0.02
847 96 0.06
848 29 0.02
849 249 0.15
850 65 0.04
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (832 bp):
TATAATAAAAAATTCACTTATCTTTACATTCGAACCTAATTTTTTTCTAAAGAAAAAAAACTATA
ATCCAAGTGAAACCGAAATCAATAAATTTGGATTATCTTCACAAATCATTTGGTAAAATTTAAGT
CTAGATTTCAATATTTAAAAGACAAACAAAGTGATGTAACCTTTTAGGGGTTACATATACAAACG
AGTGGACCCTCTCTATAATGGTTATTGTGAAAAAAATATATTATATATATTGGGGTAAAGTTAGA
AAAGAAATTTAAAGGATTAAATCGAATTTTTATCATTTTTAGGGGGTCAAAGTGTAATTTTACTT
TTACTAATTTAAAATTTTAAAAAAATTAAAGGGCCTAAATAGAAAAATTTTTCATTTTAGGGGAG
TCAGGGCCTCTGCCAGCCCCTGGCTACTATAATAAAAAAATTCACTTATCTTTACATTCAAACCT
ATTTTTTTTCTAAAGAAAAAAAAATTATAATCCAAGTGAAACCGAAATCAATAAATTTGGGATTA
TTTGTCTGGAATCATTTGGTAAAATTTAAGTCTAGATTTCAATATTTAAAAGACAAACAAAGTGA
TGTAACCTTTTAGGGGTTACATATACAAACGAGTGACCCTCTCTAAATGGTTATTGTGAAAAAAA
TATTATATATATATTGGGGTAAAGTTAGAAAAGAATTTTAAAGGATTAAATCAAATTTTTATCAT
TTTTAGGGGGCAAAGTGTAATTTTACCTTTACTAATTTAAAATTTTTAAAAAATTAAAGGGCCTA
AATAAAAAAATTTCATTTTAAGGGAACCGGGCCCCTGCCAGGCCCCTGCTAC
Found at i:12349117 original size:21 final size:22
Alignment explanation
Indices: 12349083--12349123 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12349073 TATTTTGTAT
* *
12349083 TTTTATTTTCAAAATCGACTTA
1 TTTTATTTTAAAAATAGACTTA
12349105 TTTT-TTTTAAAAATAGACT
1 TTTTATTTTAAAAATAGACT
12349124 AAAATCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTTATTTTAAAAATAGACTTA
Found at i:12355857 original size:46 final size:46
Alignment explanation
Indices: 12355756--12355889 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
12355746 TACGTATAAT
*
12355756 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
12355799 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
12355845 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
12355890 ACTGATACGG
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
43 10 0.12
44 5 0.06
45 20 0.23
46 51 0.59
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:12370965 original size:11 final size:10
Alignment explanation
Indices: 12370949--12370984 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12370939 CTTATTTCTC
12370949 TTTTCTTCTTT
1 TTTTCTT-TTT
12370960 TTTTCTTTTT
1 TTTTCTTTTT
*
12370970 TTTCCTTTTT
1 TTTTCTTTTT
12370980 TTTTC
1 TTTTC
12370985 AAGAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:12370970 original size:18 final size:18
Alignment explanation
Indices: 12370943--12370981 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12370933 AATTCTCTTA
12370943 TTTCTCTTTTCTT-CTTTT
1 TTTCTCTTTT-TTCCTTTT
*
12370961 TTTCTTTTTTTTCCTTTT
1 TTTCTCTTTTTTCCTTTT
12370979 TTT
1 TTT
12370982 TTCAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTCTCTTTTTTCCTTTT
Found at i:12384465 original size:51 final size:52
Alignment explanation
Indices: 12384370--12384562 Score: 148
Period size: 51 Copynumber: 3.8 Consensus size: 52
12384360 AAACACGTGT
* *
12384370 GTAGTACTA-AGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGA
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACATGA
* * * * *
12384421 GTAGTACTATA-TGCAGGCTACTATGTGTACCGAAAGGCT-TTGGTCACGTGT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAA-GATAATGGTCACATGA
** * * * * * *
12384472 GTAGTACTAT-GTATAGGTTACTACGTGAACCGGAAAG-T-TTGATCACGTGT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACC-GAAAGATAATGGTCACATGA
* * * *
12384522 GTAGTACAAT-GTGAAGGCTACTACGTGTATCGAATGATAAT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAAT
12384563 AATTACACGG
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.33
51 66 0.57
52 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (52 bp):
GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACATGA
Found at i:12388522 original size:16 final size:17
Alignment explanation
Indices: 12388495--12388530 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12388485 AGAGATTTGA
12388495 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
12388512 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
12388528 GAG
1 GAG
12388531 GGATGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:12388541 original size:7 final size:7
Alignment explanation
Indices: 12388514--12388548 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
12388504 TGAGAGATGA
12388514 GAGGGAT
1 GAGGGAT
12388521 GAGGGAT
1 GAGGGAT
12388528 GAGGGAT
1 GAGGGAT
*
12388535 GAAGGAT
1 GAGGGAT
*
12388542 GATGGAT
1 GAGGGAT
12388549 AAAGTGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.17
Consensus pattern (7 bp):
GAGGGAT
Found at i:12388543 original size:21 final size:23
Alignment explanation
Indices: 12388501--12388548 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
12388491 TTGAGAGAGA
12388501 GGATGAGAGATGAGAGGGATGAG
1 GGATGAGAGATGAGAGGGATGAG
* *
12388524 GGATGAGGGATGA-A-GGATGAT
1 GGATGAGAGATGAGAGGGATGAG
12388545 GGAT
1 GGAT
12388549 AAAGTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 1 0.04
23 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (23 bp):
GGATGAGAGATGAGAGGGATGAG
Found at i:12389932 original size:18 final size:18
Alignment explanation
Indices: 12389909--12389943 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12389899 ACAGAATTGG
* *
12389909 ATGCATATTTAGATACAA
1 ATGCATAATAAGATACAA
12389927 ATGCATAATAAGATACA
1 ATGCATAATAAGATACA
12389944 GAATTAGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATGCATAATAAGATACAA
Found at i:12402597 original size:17 final size:17
Alignment explanation
Indices: 12402575--12402611 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12402565 ATGTTATAAA
12402575 TAGTCAATTGTGCATAT
1 TAGTCAATTGTGCATAT
12402592 TAGTCAATTGTGCATAT
1 TAGTCAATTGTGCATAT
12402609 TAG
1 TAG
12402612 GTTAGTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (17 bp):
TAGTCAATTGTGCATAT
Found at i:12407444 original size:15 final size:15
Alignment explanation
Indices: 12407424--12407452 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12407414 GTACCAATCA
12407424 TCCTAGGAAGGGCGT
1 TCCTAGGAAGGGCGT
12407439 TCCTAGGAAGGGCG
1 TCCTAGGAAGGGCG
12407453 AGCTCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (15 bp):
TCCTAGGAAGGGCGT
Found at i:12414196 original size:43 final size:43
Alignment explanation
Indices: 12414135--12414233 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
12414125 TATCATTGTG
* * *
12414135 TGTAAGACCCTGTCTGGGACAGTGGCA-TCAATAGTTGATTTTA
1 TGTAAGACCCTATATGGGACAATGGCACT-AATAGTTGATTTTA
* *
12414178 TGTAAGACCCTATATGGGACAATGGCACTGATAGTTGATTTTG
1 TGTAAGACCCTATATGGGACAATGGCACTAATAGTTGATTTTA
12414221 TGTAAGACCCTAT
1 TGTAAGACCCTAT
12414234 CTAGGATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCCTATATGGGACAATGGCACTAATAGTTGATTTTA
Found at i:12419379 original size:23 final size:22
Alignment explanation
Indices: 12419344--12419387 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
12419334 AATGTATATT
*
12419344 AAATTTAGCAAGTGTGAAATTCC
1 AAATTTAGCAAGT-AGAAATTCC
12419367 AAATTTAAG-AAGTAGAAATTC
1 AAATTT-AGCAAGTAGAAATTC
12419388 TTGAGACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (22 bp):
AAATTTAGCAAGTAGAAATTCC
Found at i:12428305 original size:22 final size:21
Alignment explanation
Indices: 12428254--12428316 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
12428244 CAGTAATCAG
*
12428254 AATGGCTAAGAGCCATAAACAG
1 AATGGCTAA-AGCCATAAACAA
* * *
12428276 GATAGCTATAAGCTATAAACAA
1 AATGGCTA-AAGCCATAAACAA
12428298 AATGGCTACAAGCCATAAA
1 AATGGCTA-AAGCCATAAA
12428317 TACAGTAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
AATGGCTAAAGCCATAAACAA
Found at i:12428362 original size:32 final size:32
Alignment explanation
Indices: 12428319--12428425 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
12428309 GCCATAAATA
12428319 CAGTAATATGATTACCACAAAGCCATCAGTAG
1 CAGTAATATGATTACCACAAAGCCATCAGTAG
* * *
12428351 CAGTGATATGATCGACTCAC--AGCCATCAGTAA
1 CAGTAATATGAT-TAC-CACAAAGCCATCAGTAG
* **
12428383 CGGTAATATGATTGGCACAAAGCCATCAGTAG
1 CAGTAATATGATTACCACAAAGCCATCAGTAG
*
12428415 CAGTGATATGA
1 CAGTAATATGA
12428426 CCGGCACACA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
30 3 0.05
32 52 0.87
33 2 0.03
34 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (32 bp):
CAGTAATATGATTACCACAAAGCCATCAGTAG
Found at i:12428422 original size:64 final size:64
Alignment explanation
Indices: 12428321--12428472 Score: 232
Period size: 64 Copynumber: 2.4 Consensus size: 64
12428311 CATAAATACA
** * *
12428321 GTAATATGATTACCACAAAGCCATCAGTAGCAGTGATATGATCGACTCACAGCCATCAGTAACG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
* *
12428385 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
**
12428449 GTAATATGACCGGCACAAAGCCAT
1 GTAATATGATTGGCACAAAGCCAT
12428473 AAGCAGCATC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (64 bp):
GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
Found at i:12428432 original size:32 final size:32
Alignment explanation
Indices: 12428334--12428472 Score: 152
Period size: 32 Copynumber: 4.3 Consensus size: 32
12428324 ATATGATTAC
* * * *
12428334 CACAAAGCCATCAGTAGCAGTGATATGATCGA
1 CACAAAGCCATCAGTAACAGTAATATGACCGG
* * * **
12428366 CTCACAGCCATCAGTAACGGTAATATGATTGG
1 CACAAAGCCATCAGTAACAGTAATATGACCGG
* *
12428398 CACAAAGCCATCAGTAGCAGTGATATGACCGG
1 CACAAAGCCATCAGTAACAGTAATATGACCGG
* **
12428430 CACACAGCCATCAGTAATGGTAATATGACCGG
1 CACAAAGCCATCAGTAACAGTAATATGACCGG
12428462 CACAAAGCCAT
1 CACAAAGCCAT
12428473 AAGCAGCATC
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 87 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTAATATGACCGG
Found at i:12428708 original size:24 final size:24
Alignment explanation
Indices: 12428650--12428711 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
12428640 CCATGCTCAG
** *
12428650 AATCAATCATACAATTCACAGACA
1 AATCAATCATTTAAATCACAGACA
*
12428674 AAACAATCATTTAAATCACAGACA
1 AATCAATCATTTAAATCACAGACA
12428698 AATCAATCATTTAA
1 AATCAATCATTTAA
12428712 CCTCGAAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGACA
Found at i:12428811 original size:27 final size:27
Alignment explanation
Indices: 12428729--12428869 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
12428719 GGGAAAAATA
* *
12428729 GTCA-TTTACCCTTC-AGGGGCATTACG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * *
12428755 ATCATTTTACCC-T-AAGGGAATATCTCG
1 GTCATTTTACCCTTCGAGGG--TATTTCG
* *
12428782 GTCATTTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* **
12428809 GTCGTTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
12428836 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
12428863 GTCATTT
1 GTCATTT
12428870 AAAAATATTT
Statistics
Matches: 90, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.03
26 5 0.06
27 78 0.87
28 1 0.01
29 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:12429912 original size:24 final size:24
Alignment explanation
Indices: 12429863--12429913 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12429853 TTTTAAAATT
* * * *
12429863 TCCTTGATTTTCTCCCCAATATCC
1 TCCTTGATTTGCTCCACAAAACCC
12429887 TCCTTGATTTGCTCCACAAAACCC
1 TCCTTGATTTGCTCCACAAAACCC
12429911 TCC
1 TCC
12429914 AAGACCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (24 bp):
TCCTTGATTTGCTCCACAAAACCC
Found at i:12432071 original size:66 final size:66
Alignment explanation
Indices: 12431996--12432146 Score: 241
Period size: 66 Copynumber: 2.3 Consensus size: 66
12431986 CCAAAAGTGT
*
12431996 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAA-GAAGTATGTGGTTGCTA
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATG-AGTATGTGGTTGCCA
12432060 TA
65 TA
*
12432062 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTTCCAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCCAT
*
12432127 G
66 A
*
12432128 CAAATTATCATTTAAATGT
1 CAAATTATC-TTAAAATGT
12432147 GATCTTATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 70 0.89
67 9 0.11
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (66 bp):
CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCCAT
A
Found at i:12437948 original size:13 final size:13
Alignment explanation
Indices: 12437930--12437954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12437920 TAATGGTATA
12437930 TTGAATCCATGAC
1 TTGAATCCATGAC
12437943 TTGAATCCATGA
1 TTGAATCCATGA
12437955 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:12439622 original size:47 final size:47
Alignment explanation
Indices: 12439541--12440075 Score: 788
Period size: 47 Copynumber: 11.4 Consensus size: 47
12439531 AATGTGAAAG
*
12439541 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
12439589 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGAT-AAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA-GTGAACA
* * * *
12439636 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
12439683 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
12439730 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGAT-AAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA-GTGAACA
* * * *
12439777 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
12439824 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
12439871 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
12439918 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * * *
12439965 GGTGTATGTGTGATAAAGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
12440012 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
12440058 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
12440076 TCCCGAAGGG
Statistics
Matches: 444, Mismatches: 38, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
46 7 0.02
47 421 0.95
48 16 0.04
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:12439950 original size:24 final size:24
Alignment explanation
Indices: 12439923--12439998 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
12439913 GAACATGTAT
12439923 ATGTGTGATAAAGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
* * ***
12439947 A--TGTGATGAAAG-TGAACAGGTGT
1 ATGTGTGAT-AAAGCCGAA-TGGCCA
*
12439970 ATGTGTGATAAAGCCGAGTGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
12439994 ATGTG
1 ATGTG
12439999 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 9 0.25
23 7 0.19
24 12 0.33
25 8 0.22
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.24
Consensus pattern (24 bp):
ATGTGTGATAAAGCCGAATGGCCA
Found at i:12440250 original size:37 final size:37
Alignment explanation
Indices: 12440194--12440273 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
12440184 CCGGGCTCTA
* * *
12440194 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
12440231 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
12440268 AAGACT
1 AAGACT
12440274 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12447587 original size:15 final size:16
Alignment explanation
Indices: 12447567--12447596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12447557 CAAGAAAAGC
12447567 ATATTT-CAATAGAAG
1 ATATTTGCAATAGAAG
12447582 ATATTTGCAATAGAA
1 ATATTTGCAATAGAA
12447597 TAAAAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (16 bp):
ATATTTGCAATAGAAG
Found at i:12453323 original size:15 final size:15
Alignment explanation
Indices: 12453303--12453333 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12453293 GTTATGTAAG
12453303 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
12453318 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
12453333 T
1 T
12453334 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:12454276 original size:15 final size:15
Alignment explanation
Indices: 12454252--12454281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12454242 TGGAGATCGA
*
12454252 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
12454267 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
12454282 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:12465938 original size:57 final size:57
Alignment explanation
Indices: 12465831--12465941 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
12465821 TTAAATTTGT
* * * *
12465831 TAAACTGTGCAGGAAGTGATACCAAAACCATAAGAACAAGCAAATACTCAGAAATCC
1 TAAACTGTGCAAGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATCC
* * * *
12465888 TAAATTGTGCAAGAAGCGATACCAAAAACATAAGAATAAACAATTCCTCAGAAA
1 TAAACTGTGCAAGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAA
12465942 GCTCTATCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (57 bp):
TAAACTGTGCAAGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATCC
Found at i:12468405 original size:25 final size:25
Alignment explanation
Indices: 12468345--12468416 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
12468335 TTTTAAGATC
* * * *
12468345 TAAAAATATATAACAAAT-GAAATT
1 TAAAAATATACAAAAAATAAAAAAT
12468369 TAAAAATATACAAAAAATTAAAAAAT
1 TAAAAATATACAAAAAA-TAAAAAAT
*
12468395 TAAAAAT-TACAGAAAATAAAAA
1 TAAAAATATACAAAAAATAAAAA
12468417 TAAAAACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 21 0.51
25 9 0.22
26 11 0.27
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (25 bp):
TAAAAATATACAAAAAATAAAAAAT
Found at i:12468414 original size:16 final size:15
Alignment explanation
Indices: 12468381--12468422 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
12468371 AAAATATACA
12468381 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
12468396 AAAAATTACAGAAAA-T
1 AAAAATTA-A-AAAATT
12468412 AAAAA-TAAAAA
1 AAAAATTAAAAA
12468423 CAAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 10 0.40
16 7 0.28
17 4 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:12469332 original size:9 final size:9
Alignment explanation
Indices: 12469312--12469342 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12469302 AAAGATTCTA
12469312 AAAAATTA-
1 AAAAATTAT
12469320 AAAAATTAT
1 AAAAATTAT
12469329 AAAAATTAT
1 AAAAATTAT
12469338 AAAAA
1 AAAAA
12469343 AATTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:12469782 original size:88 final size:86
Alignment explanation
Indices: 12469673--12469843 Score: 247
Period size: 88 Copynumber: 2.0 Consensus size: 86
12469663 CTACGTCATG
* *
12469673 TTTGATAGTACAAATTGTAATTACACAGTTATATAATTTATAT-TTTTAAAAAATATAGTAATTA
1 TTTGATAGTACAAATTGTAATTACACAATTACATAATTTATATATTTT-AAAAATAT--TAATTA
12469737 CTATAAAAAATT-TTAGTATGAATA
63 CTAT-AAAAATTATTAGTATGAATA
* * *
12469761 TTTGGTAGTACAAATTGTAATTGCACAATTACATAATTTATATATTTTTAAAATATTAATTACTA
1 TTTGATAGTACAAATTGTAATTACACAATTACATAATTTATATATTTTAAAAATATTAATTACTA
12469826 TAAAAATTATTAGTATGA
66 TAAAAATTATTAGTATGA
12469844 TAAGTATAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
85 7 0.09
86 19 0.25
88 46 0.61
89 4 0.05
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (86 bp):
TTTGATAGTACAAATTGTAATTACACAATTACATAATTTATATATTTTAAAAATATTAATTACTA
TAAAAATTATTAGTATGAATA
Found at i:12471123 original size:6 final size:6
Alignment explanation
Indices: 12471112--12471146 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
12471102 CTTCATACAT
12471112 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
12471147 TACTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:12471126 original size:18 final size:18
Alignment explanation
Indices: 12471105--12471144 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12471095 GGTACATCTT
*
12471105 CATACATATATACATATA
1 CATACACATATACATATA
*
12471123 CATATACATATACATATA
1 CATACACATATACATATA
12471141 CATA
1 CATA
12471145 TATACTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (18 bp):
CATACACATATACATATA
Found at i:12471979 original size:41 final size:41
Alignment explanation
Indices: 12471817--12472018 Score: 194
Period size: 41 Copynumber: 4.9 Consensus size: 41
12471807 TTTAAAATGA
* * * * *
12471817 TTCACCGGCATGT-AGCCTGCTAGGCTTAAAGCCTGATTTAG
1 TTCACTGGCAT-TAAGCCTGCTAGACGTAAAGCCTGAATTAT
** * * * *
12471858 AACACCGACATTAAGCCTGCTAGACGTAAAGTCTGAAATAT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGCCTGAATTAT
* * * * *
12471899 TTCACCGACATTAAGCCTGCTAAACGTAAAGTCTAAATTAT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGCCTGAATTAT
*
12471940 TTCATTGGCATTAAGCCTGCTAGACGTAAAGCCTGAATTAT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGCCTGAATTAT
*
12471981 TTCACTGGCATTAAGCCAGCTAAGCAC--AAAGCCTGAAT
1 TTCACTGGCATTAAGCCTGCT-AG-ACGTAAAGCCTGAAT
12472019 AACTCAGATA
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 131 0.96
42 2 0.01
43 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACTGGCATTAAGCCTGCTAGACGTAAAGCCTGAATTAT
Found at i:12472331 original size:65 final size:63
Alignment explanation
Indices: 12472193--12472342 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 63
12472183 TTAGTTTAAA
* *
12472193 ACATTAAATTCAGCTCAATGAATTTGTAACCTATATTTGAACCACATATATATATATAATGTAT
1 ACATTAAATTCAGCTCAA-GAATTTGCAACCTATATTTGAACCACATATATATAGATAATGTAT
* * * * *
12472257 ACATCAAATTCGGCTCAAGAGATTTTGCAATCTATGTTTGAACCACATACGTATA-AGA-AATTT
1 ACATTAAATTCAGCTCAAGA-A-TTTGCAACCTATATTTGAACCACATA--TATATAGATAATGT
12472320 AT
62 AT
* *
12472322 ATATTAAATTCAACTCAAGAA
1 ACATTAAATTCAGCTCAAGAA
12472343 CTTGAATATA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
63 2 0.03
64 18 0.25
65 45 0.63
66 2 0.03
67 4 0.06
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (63 bp):
ACATTAAATTCAGCTCAAGAATTTGCAACCTATATTTGAACCACATATATATAGATAATGTAT
Found at i:12473919 original size:18 final size:20
Alignment explanation
Indices: 12473875--12473923 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
12473865 CCTAAACAAA
*
12473875 AAGTATCGATACTTATTAGT
1 AAGTATCGATACCTATTAGT
12473895 AAGTATCGATACCT-TTAGT
1 AAGTATCGATACCTATTAGT
12473914 -AGTATCGATA
1 AAGTATCGATA
12473924 TGTATTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 10 0.36
19 5 0.18
20 13 0.46
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (20 bp):
AAGTATCGATACCTATTAGT
Found at i:12474480 original size:30 final size:30
Alignment explanation
Indices: 12474446--12474506 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
12474436 CAGATTTCAA
*
12474446 GAGCCACACGGGCTAGACACACTGCCGTGT
1 GAGCCACACGGGCTAGACACACTGCCATGT
* *
12474476 GAGCCATACGGGCTGGACACACTGCCATGT
1 GAGCCACACGGGCTAGACACACTGCCATGT
12474506 G
1 G
12474507 CCAAATCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (30 bp):
GAGCCACACGGGCTAGACACACTGCCATGT
Found at i:12476178 original size:14 final size:14
Alignment explanation
Indices: 12476159--12476193 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12476149 CGATTGTGGA
12476159 GCTCAATGCGGTTT
1 GCTCAATGCGGTTT
12476173 GCTCAATGCGGTTT
1 GCTCAATGCGGTTT
*
12476187 ACTCAAT
1 GCTCAAT
12476194 ACTTTGGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (14 bp):
GCTCAATGCGGTTT
Found at i:12479121 original size:21 final size:21
Alignment explanation
Indices: 12479062--12479121 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
12479052 AGAATAATGA
*
12479062 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTACCCC
* * *
12479083 T-ATTTGTAC-TTCGGTACCCC
1 TGAATTGCACATAC-GTACCCC
12479103 TGAATTGCACATACGTACC
1 TGAATTGCACATACGTACC
12479122 ACTGTTTGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 12 0.41
22 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTACCCC
Found at i:12479130 original size:41 final size:41
Alignment explanation
Indices: 12479062--12479144 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
12479052 AGAATAATGA
* * *
12479062 TGAATTGCACATACGTGCCCCTATTTG-TACTTCGGTACCCC
1 TGAATTGCACATACGTACCACTATTTGTTA-TTCAGTACCCC
*
12479103 TGAATTGCACATACGTACCACTGTTTGTTATTCAGTACCCC
1 TGAATTGCACATACGTACCACTATTTGTTATTCAGTACCCC
12479144 T
1 T
12479145 AGATGTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTACCACTATTTGTTATTCAGTACCCC
Found at i:12479328 original size:15 final size:15
Alignment explanation
Indices: 12479308--12479338 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12479298 CTGTTGACAC
12479308 TTTGGACGGATCAAG
1 TTTGGACGGATCAAG
12479323 TTTGGACGGATCAAG
1 TTTGGACGGATCAAG
12479338 T
1 T
12479339 CTTCAGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (15 bp):
TTTGGACGGATCAAG
Found at i:12483111 original size:103 final size:103
Alignment explanation
Indices: 12482926--12483125 Score: 305
Period size: 103 Copynumber: 1.9 Consensus size: 103
12482916 GTTACATTTA
*
12482926 TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAGGGTGTTACATTTGCTCCC
1 TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCCC
**
12482991 TTCAGTGTGCAGACTTTCCTTTTCTTTTTCCCCAAACG
66 TTCAGTGCACAGACTTTCCTTTTCTTTTTCCCCAAACG
* *
12483029 TATGGTAATGCTCCT-TAACCCTACTCCAGCGACGTATACGAGATAAAGGTGTTACATTTTCT-C
1 TATGGTAATGCT-CTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCC
* *
12483092 CTCTCCGTGCACAGCCTTTCCTTTTCTTTTTCCC
65 CT-TCAGTGCACAGACTTTCCTTTTCTTTTTCCC
12483126 TATTCTTTTC
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
102 3 0.03
103 83 0.94
104 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (103 bp):
TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCCC
TTCAGTGCACAGACTTTCCTTTTCTTTTTCCCCAAACG
Found at i:12485947 original size:27 final size:27
Alignment explanation
Indices: 12485916--12486093 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12485906 TAAATTGTAC
12485916 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12485943 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12485969 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
12485997 GGCACTAAGTATGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12486025 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12486052 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12486079 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12486094 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12486030 original size:82 final size:81
Alignment explanation
Indices: 12485917--12486072 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12485907 AAATTGTACA
* * *
12485917 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTATGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12485981 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12485998 GCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTATGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12486063 TGCGAGTTGA
65 TGCGAATTGA
12486073 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTATGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12486084 original size:82 final size:81
Alignment explanation
Indices: 12485913--12486093 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12485903 GATTAAATTG
* *
12485913 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12485978 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
12485994 TGCGGCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12486058 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12486076 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12486094 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12494068 original size:27 final size:27
Alignment explanation
Indices: 12494037--12494214 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12494027 TAAATTGTAC
12494037 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12494064 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12494090 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12494118 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12494146 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12494173 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12494200 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12494215 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12494151 original size:82 final size:81
Alignment explanation
Indices: 12494038--12494193 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12494028 AAATTGTACA
* *
12494038 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12494102 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12494119 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12494184 TGCGAGTTGA
65 TGCGAATTGA
12494194 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12494205 original size:82 final size:81
Alignment explanation
Indices: 12494034--12494214 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12494024 GATTAAATTG
* *
12494034 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12494099 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12494115 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12494179 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12494197 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12494215 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12506302 original size:13 final size:13
Alignment explanation
Indices: 12506279--12506305 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12506269 TTTTTTTTTG
12506279 TTATATTTTTGTA
1 TTATATTTTTGTA
12506292 TTATATTTTTGTA
1 TTATATTTTTGTA
12506305 T
1 T
12506306 GTTTAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATATTTTTGTA
Found at i:12507572 original size:87 final size:86
Alignment explanation
Indices: 12507481--12507692 Score: 227
Period size: 89 Copynumber: 2.4 Consensus size: 86
12507471 TGAGCCAAGA
* * * * **
12507481 CTCAACTCACTTCTTGCAATATGAGTTGGTTTTTGAATCT-TAATTTGAAAAGA-AGATTTTGAA
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAACTAGAATTTGAAAA-ATAGAAATTGAA
12507544 AATAT-CTC-GACATGTGACCC-GAGG
65 AAT-TCCTCAG-C--GTG-CCCTGAGG
* * *
12507568 CTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAGTAGAATTTGAAAAATAGAAATTG
1 CTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTG-AAACTAGAATTTGAAAAATAGAAATTG
12507633 AAAATTCCTCAGCGTGCCCTGAGG
63 AAAATTCCTCAGCGTGCCCTGAGG
12507657 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGA
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGA
12507693 CAAACAGAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
86 1 0.01
87 31 0.29
88 3 0.03
89 40 0.38
90 5 0.05
91 25 0.24
92 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (86 bp):
CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAACTAGAATTTGAAAAATAGAAATTGAAA
ATTCCTCAGCGTGCCCTGAGG
Found at i:12507631 original size:15 final size:14
Alignment explanation
Indices: 12507601--12507636 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12507591 AGTTAATTTT
*
12507601 TTTGAAAAGTAGAA
1 TTTGAAAAATAGAA
12507615 TTTGAAAAATAGAA
1 TTTGAAAAATAGAA
*
12507629 ATTGAAAA
1 TTTGAAAA
12507637 TTCCTCAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (14 bp):
TTTGAAAAATAGAA
Found at i:12507737 original size:73 final size:73
Alignment explanation
Indices: 12507615--12507763 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 73
12507605 AAAAGTAGAA
* * * *
12507615 TTTGAAAAATAGAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTTGAAAAACAGAAATTGAAAATTCCTCAGCGCGCCCTCAGGCTCAACTCACCTCTCGCAATATG
12507680 AGTTGATT
66 AGTTGATT
* * *
12507688 TTTGACAAACAGAAATTG-AAATTACCTCAGCGCGTCCTCAGGCTTAACTCACCTCTCGCAATAT
1 TTTGAAAAACAGAAATTGAAAATT-CCTCAGCGCGCCCTCAGGCTCAACTCACCTCTCGCAATAT
12507752 GAGTTGATT
65 GAGTTGATT
12507761 TTT
1 TTT
12507764 TTGAAGAGCA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 5 0.07
73 63 0.93
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (73 bp):
TTTGAAAAACAGAAATTGAAAATTCCTCAGCGCGCCCTCAGGCTCAACTCACCTCTCGCAATATG
AGTTGATT
Found at i:12507841 original size:163 final size:163
Alignment explanation
Indices: 12507559--12507936 Score: 510
Period size: 163 Copynumber: 2.3 Consensus size: 163
12507549 CTCGACATGT
* * *
12507559 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAGTAGAATTTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAA
* * * *
12507624 TAGAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
66 GAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
12507689 TTGACAAACAGAAATTGAAATTACCTCAGC-GC
131 TTGACAAACAGAAATTGAAAATACCTCAGCAGA
* * * *
12507721 GTCCTC-AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCATAAATT-AAAA
1 GACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA
* *
12507784 AGACGGAAATCGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 AGA--GAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*** * *
12507849 TTTTTTTGAAACATAAATTGAAAATACCTCGGCATGA
128 TTTTTGACAAACAGAAATTGAAAATACCTCAGCA-GA
12507886 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA
12507937 CAGGAATAAA
Statistics
Matches: 186, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
161 6 0.03
162 50 0.27
163 83 0.45
164 1 0.01
165 35 0.19
166 11 0.06
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (163 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAA
GAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGACAAACAGAAATTGAAAATACCTCAGCAGA
Found at i:12507852 original size:90 final size:88
Alignment explanation
Indices: 12507699--12507872 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 88
12507689 TTGACAAACA
* * *
12507699 GAAATTGAAATTACCTCAGCGCGTCCTCAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATCGAAAATACCTCAGCGCGTCCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
12507764 TTGAAGAGCATAAATTAAAAAGACG
66 TTGAA-A-CATAAATTAAAAAGACG
* * *
12507789 GAAATCGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATCGAAAATACCTCAGCGCGTCCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
12507854 TTGAAACATAAATTGAAAA
66 TTGAAACATAAATTAAAAA
12507873 TACCTCGGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 12 0.16
89 1 0.01
90 64 0.83
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (88 bp):
GAAATCGAAAATACCTCAGCGCGTCCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAACATAAATTAAAAAGACG
Found at i:12520539 original size:22 final size:20
Alignment explanation
Indices: 12520507--12520551 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
12520497 TACATACATA
12520507 ATATATAAAAT-ATATATAAT
1 ATATATAAAATGATA-ATAAT
12520527 ATATATTAGAAATGATAATAAT
1 ATATA-TA-AAATGATAATAAT
12520549 ATA
1 ATA
12520552 AAAACTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 12 0.55
23 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
ATATATAAAATGATAATAAT
Found at i:12522131 original size:13 final size:13
Alignment explanation
Indices: 12522115--12522141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12522105 TGTTTTTTTG
12522115 TTATATTTTTGTA
1 TTATATTTTTGTA
12522128 TTATATTTTTGTA
1 TTATATTTTTGTA
12522141 T
1 T
12522142 GTTTGGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATATTTTTGTA
Found at i:12524752 original size:72 final size:72
Alignment explanation
Indices: 12524668--12524879 Score: 282
Period size: 72 Copynumber: 2.9 Consensus size: 72
12524658 AAGCAATCGT
* * * *
12524668 ATTCACATTCGGCTAACACTTCTTGTCATCTGGATTTTTAGAGCAATGACTATTTACCGGGCTCG
1 ATTCACATTCGGCTGATACTTCTTATCATCCGGATTTTTAGAGCAATGACTATTTACCGGGCTCG
12524733 TCATCAC
66 TCATCAC
* * * *
12524740 ATTCACATTCGGCCGATACTTCTTATCATCCGGATTTTTCGGGCAATGACTATTTACCGGGCTTG
1 ATTCACATTCGGCTGATACTTCTTATCATCCGGATTTTTAGAGCAATGACTATTTACCGGGCTCG
*
12524805 TCATCGC
66 TCATCAC
* * * **
12524812 ATTCATATTCAGCTGATACTTCTTATCATCCGGATTTGTCA-AGCAATGACTATTTTTCGGGCTC
1 ATTCACATTCGGCTGATACTTCTTATCATCCGGATTT-TTAGAGCAATGACTATTTACCGGGCTC
12524876 GTCA
65 GTCA
12524880 GGGGGCAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
72 120 0.99
73 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (72 bp):
ATTCACATTCGGCTGATACTTCTTATCATCCGGATTTTTAGAGCAATGACTATTTACCGGGCTCG
TCATCAC
Found at i:12526812 original size:27 final size:27
Alignment explanation
Indices: 12526781--12526958 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12526771 TAAATTGTAC
12526781 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12526808 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12526834 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
12526862 GGCACTAAGTGTGCGCGTTTGACTATGT
1 AGCACTAAGTGTGCG-ATTTGACTATGT
* *
12526890 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12526917 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12526944 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12526959 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12526895 original size:82 final size:81
Alignment explanation
Indices: 12526782--12526937 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12526772 AAATTGTACA
* *
12526782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12526846 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
12526863 GCACTAAGTGTGCGCGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-ATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12526928 TGCGAGTTGA
65 TGCGAATTGA
12526938 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12526949 original size:82 final size:81
Alignment explanation
Indices: 12526778--12526958 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12526768 GATTAAATTG
* *
12526778 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12526843 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
12526859 TGCGGCACTAAGTGTGCGCGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-ATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12526923 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12526941 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12526959 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12534914 original size:27 final size:27
Alignment explanation
Indices: 12534883--12535060 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12534873 TAAATTGTAC
12534883 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
12534910 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12534936 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12534964 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12534992 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12535019 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12535046 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12535061 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12534997 original size:82 final size:81
Alignment explanation
Indices: 12534884--12535039 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12534874 AAATTGTACA
* *
12534884 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTA-GCACTAAGTG
12534948 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
12534965 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTG
*
12535030 TGCGAGTTGA
65 TGCGAATTGA
12535040 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12535051 original size:82 final size:81
Alignment explanation
Indices: 12534880--12535060 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12534870 GATTAAATTG
* *
12534880 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
12534945 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
12534961 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
12535025 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12535043 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12535061 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12540958 original size:45 final size:45
Alignment explanation
Indices: 12540909--12541122 Score: 304
Period size: 45 Copynumber: 4.8 Consensus size: 45
12540899 CTTTGATTCG
* *
12540909 TGATGCCATAGCGTCTTTCAG-CTATGGTCTTATTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA
* ** * *
12540954 TGATGTCATAGTGTCTTTTAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
* *
12540999 TGATGCCATAACTTCTTTTAGTCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
12541044 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
* *
12541089 TGATGCCATAACGTCTTTCAATTATGGTCTTACT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
12541123 TGTTTCTAGT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 152 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:12545219 original size:18 final size:17
Alignment explanation
Indices: 12545173--12545220 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
12545163 TTATTGGGAA
*
12545173 ATATTTATTTAATGTTT
1 ATATATATTTAATGTTT
* *
12545190 TTATTATTTTTAATGTATT
1 ATA-TATATTTAATGT-TT
12545209 ATATATATTTAA
1 ATATATATTTAA
12545221 AAATTATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.08
18 18 0.75
19 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
ATATATATTTAATGTTT
Found at i:12545245 original size:12 final size:11
Alignment explanation
Indices: 12545218--12545251 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12545208 TATATATATT
*
12545218 TAAAAATTATA
1 TAAAAATAATA
12545229 TAAAAATAATA
1 TAAAAATAATA
12545240 TAAAAAATAATA
1 T-AAAAATAATA
12545252 CGGTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:12551741 original size:41 final size:41
Alignment explanation
Indices: 12551686--12551821 Score: 186
Period size: 41 Copynumber: 3.3 Consensus size: 41
12551676 TATATGATTG
**
12551686 GCACTAAGTGTGCGAAGTTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
12551727 GCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
12551768 GCATTAAGTGTGCGAAACCAAATAATAATGTT-AATAAC-A
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
12551807 GGCATTAAGTGTGCG
1 -GCACTAAGTGTGCG
12551822 GAACCGAGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 20 0.23
41 66 0.76
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Found at i:12554141 original size:18 final size:18
Alignment explanation
Indices: 12554118--12554152 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12554108 TCTAAGAAGC
12554118 ACTTTTGAGATAAAAACT
1 ACTTTTGAGATAAAAACT
12554136 ACTTTTGAGATAAAAAC
1 ACTTTTGAGATAAAAAC
12554153 ATTGCTAAGC
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:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTTTTGAGATAAAAACT
Found at i:12555630 original size:17 final size:17
Alignment explanation
Indices: 12555610--12555643 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12555600 GAATAGGTTA
12555610 GATAAAAAATCTCTATC
1 GATAAAAAATCTCTATC
12555627 GATAAAAAATCTCTATC
1 GATAAAAAATCTCTATC
12555644 CACAGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
GATAAAAAATCTCTATC
Found at i:12560671 original size:7 final size:7
Alignment explanation
Indices: 12560659--12560684 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12560649 AAAATAAAAT
12560659 AAAAACA
1 AAAAACA
12560666 AAAAACA
1 AAAAACA
12560673 AAAAACA
1 AAAAACA
12560680 AAAAA
1 AAAAA
12560685 ATATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:12564399 original size:17 final size:17
Alignment explanation
Indices: 12564377--12564410 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12564367 AAAAACCTCT
12564377 TTGTTAGTGTTTAACAA
1 TTGTTAGTGTTTAACAA
12564394 TTGTTAGTGTTTAACAA
1 TTGTTAGTGTTTAACAA
12564411 AACAACTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
TTGTTAGTGTTTAACAA
Found at i:12565577 original size:27 final size:27
Alignment explanation
Indices: 12565547--12566151 Score: 694
Period size: 27 Copynumber: 22.4 Consensus size: 27
12565537 TTTCATCTCT
* *
12565547 TGGGGGTATTCCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
12565574 TGGGGGTAATTCGATCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
*
12565601 TGGGGGTATTTCGATCATTTTCCCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
** *
12565628 TCAGGGTATTTCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
12565655 TAGGGGTATTTCAATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
*
12565682 TGGGGGTATTTCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
12565709 TGAGGGTGTTTCGATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
12565736 TAGGGGTATTTCGGTCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
*
12565763 TGGGGGTATTTCGATCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
12565790 TGGGGGTATTTCGAACAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
** * *
12565817 TAAGAGTATTTC-AGTCAATTTACCCTA
1 TGGGGGTATTTCGA-TCATTTTACCCTA
* * *
12565844 TAGGGGTATTTCAATCATTTTACTCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
12565871 TGGGGGTATTTCGATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
12565898 TGGGGGTATTT-TAGTCATTTTACCTTG
1 TGGGGGTATTTCGA-TCATTTTACCCTA
*
12565925 TGGGGGTATTTCGATTATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * * *
12565952 TAGGGGTATTTTGGTCATTTTACCCTG
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
12565979 TGGGCGTATTT-TAGTCATTTTATCCTA
1 TGGGGGTATTTCGA-TCATTTTACCCTA
* *
12566006 TAGGGGTATTTCGATCATTTTACCTTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * * *
12566033 TGGGGGGTATTTTGGTCATTTTATCTTA
1 T-GGGGGTATTTCGATCATTTTACCCTA
* * *
12566061 TAGGGGTATTTCGATTATTTTATCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
12566088 TGGGGGTATTTCGGTTATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
12566115 TAGGGGTATTTCGATTATTTTATCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
12566142 TGGGGGTATT
1 TGGGGGTATT
12566152 AACCTCTCGA
Statistics
Matches: 492, Mismatches: 79, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.00
27 464 0.94
28 26 0.05
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
TGGGGGTATTTCGATCATTTTACCCTA
Found at i:12573012 original size:14 final size:15
Alignment explanation
Indices: 12572979--12573010 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12572969 TATGCATGCA
*
12572979 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
12572994 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
12573009 AA
1 AA
12573011 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:12579066 original size:16 final size:16
Alignment explanation
Indices: 12579045--12579103 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
12579035 TTAATCACTT
12579045 TAATATTAAATTAATA
1 TAATATTAAATTAATA
** *
12579061 TAATATTTATCTTGATA
1 TAATA-TTAAATTAATA
* *
12579078 -AATATTATATTAATT
1 TAATATTAAATTAATA
12579093 TAATATTAAAT
1 TAATATTAAAT
12579104 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 8 0.24
16 18 0.53
17 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:12579650 original size:9 final size:9
Alignment explanation
Indices: 12579630--12579660 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
12579620 AAAAATTCAT
12579630 ATTAATTTTA
1 ATTAA-TTTA
12579640 ATTAATTTA
1 ATTAATTTA
12579649 ATTAATTTA
1 ATTAATTTA
12579658 ATT
1 ATT
12579661 TTACTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:12589244 original size:25 final size:25
Alignment explanation
Indices: 12589209--12589306 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 25
12589199 TCACAGCTCT
* *
12589209 TATAAGTTTCCTGTTATTCAACTCA
1 TATAAGCTTCCCGTTATTCAACTCA
* *
12589234 TATAAGCTTCCCGCTATTCAGCTCA
1 TATAAGCTTCCCGTTATTCAACTCA
** * *
12589259 TAGGAGCTTCCCGTTATTCAGCTCC
1 TATAAGCTTCCCGTTATTCAACTCA
* * **
12589284 CATGAGCTTCCTATTATTCAACT
1 TATAAGCTTCCCGTTATTCAACT
12589307 TAGAAAAGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (25 bp):
TATAAGCTTCCCGTTATTCAACTCA
Found at i:12601875 original size:130 final size:130
Alignment explanation
Indices: 12601642--12602275 Score: 774
Period size: 130 Copynumber: 4.9 Consensus size: 130
12601632 GAAACATGTA
* * * * **
12601642 AAATAACTCGTTGATTTAATATCACAACTGATATTATTAAGGCTCGTTGATTTACAATCACAATT
1 AAATAGCTCGCTGATTTAATATCACAGCTGATATTATTAAGGCTCGTTGATTTACGATCACAACC
* *
12601707 TAAGTTCATTGATTTACTATCATGAACAATTTTCTATGACTTAGTTGATTTACTATCGCTACTCC
66 TAAGTTCATTGATTTACTATCATGAACAATCTTCTATGAGTTAGTTGATTTACTATCGCTACTCC
* * * *
12601772 AAATAGCTCGTTGAATTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACC
1 AAATAGCTCGCTGATTTAATATCACAGCTGATATTATTAAGGCTCGTTGATTTACGATCACAACC
* * **
12601837 TAAGTTCATTTATTTACTATTATGAACAATCTTCTATGAGTTAGTTGATTTACTATCAATACTCC
66 TAAGTTCATTGATTTACTATCATGAACAATCTTCTATGAGTTAGTTGATTTACTATCGCTACTCC
* * * * *
12601902 AAACAGCTCGCTGATTTAATATCACAGTTGATATTATTGAGGCTCATTGATTTACGATCGCAACC
1 AAATAGCTCGCTGATTTAATATCACAGCTGATATTATTAAGGCTCGTTGATTTACGATCACAACC
* * * * **
12601967 TAAGTTCATTTATTTACTATCATGAAAAATCTTCTATGATTTAGTTGATTTACTATTGCTACTTT
66 TAAGTTCATTGATTTACTATCATGAACAATCTTCTATGAGTTAGTTGATTTACTATCGCTACTCC
* * * * *
12602032 AAACATCTCACTGATTTAATATCACAGATGATATTATTAAGGCTCGTTGATTTACGAT-AGCAGC
1 AAATAGCTCGCTGATTTAATATCACAGCTGATATTATTAAGGCTCGTTGATTTACGATCA-CAAC
* * * *
12602096 CTAAGTTCATTGA-TTACTATCATGAACAATCTTCTATAAGTTAGTTGATTTACAATTGCTGCTC
65 CTAAGTTCATTGATTTACTATCATGAACAATCTTCTATGAGTTAGTTGATTTACTATCGCTACTC
12602160 C
130 C
* * * * * * *
12602161 AAATAGCTCGCT-AGTTTAAGATCACAACTGATATTATTAAGGCT-GACTGGTTTAGGAACACAG
1 AAATAGCTCGCTGA-TTTAATATCACAGCTGATATTATTAAGGCTCG-TTGATTTACGATCACAA
* * * *
12602224 CCTAAGTTCATTAATTTACAATCATGAATAATCCTTC-CTGAGTTAGTTGATT
64 CCTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTATGAGTTAGTTGATT
12602276 CATAGTCATA
Statistics
Matches: 439, Mismatches: 59, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
128 2 0.00
129 105 0.24
130 328 0.75
131 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (130 bp):
AAATAGCTCGCTGATTTAATATCACAGCTGATATTATTAAGGCTCGTTGATTTACGATCACAACC
TAAGTTCATTGATTTACTATCATGAACAATCTTCTATGAGTTAGTTGATTTACTATCGCTACTCC
Found at i:12606006 original size:40 final size:40
Alignment explanation
Indices: 12605976--12606185 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
12605966 GGACTAAGAT
* * * *
12605976 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12606016 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12606056 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
12606096 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
12606136 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12606175 CCGAAGGCATT
1 CCGAAGGCATT
12606186 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:12606060 original size:80 final size:80
Alignment explanation
Indices: 12605923--12606185 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
12605913 TTGAATGCTG
* * * * * **
12605923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
12605986 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
12606003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
12606068 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
12606083 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
12606147 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
12606162 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
12606186 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:12606137 original size:120 final size:120
Alignment explanation
Indices: 12605923--12606185 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
12605913 TTGAATGCTG
* * *
12605923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
12605987 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
12606043 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
12606106 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
12606162 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
12606186 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:12606205 original size:79 final size:80
Alignment explanation
Indices: 12605976--12606220 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
12605966 GGACTAAGAT
* * * * * ** * *
12605976 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
12606040 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
12606056 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
12606121 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
12606136 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
12606200 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
12606214 CCGAAGG
1 CCGAAGG
12606221 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:12613929 original size:40 final size:40
Alignment explanation
Indices: 12613899--12614108 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
12613889 GGACTAAGAT
* * * *
12613899 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12613939 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12613979 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
12614019 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
12614059 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
12614098 CCGAAGGCATT
1 CCGAAGGCATT
12614109 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Done.