Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 99 of 141
Found at i:32182017 original size:40 final size:40
Alignment explanation
Indices: 32181973--32182143 Score: 168
Period size: 40 Copynumber: 4.3 Consensus size: 40
32181963 GTTTGAATAA
* * * *
32181973 AAAAATGCCGCTGTAGATTGTGCATTAGCAGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGAGCTTTTTG
* * *
32182013 AAAAACGCCGCTATAGATCAAGCATTAGCGGAGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGAGCTTTTTG
*
32182053 AAAAATGCCGCTATAGATCGAGCATTAGC-G-GCATTTTTC
1 AAAAATGCCGCTATAGATCGAGCATTAGCAGAGC-TTTTTG
** * * *
32182092 AAAAGGCGCCGCTATAGGTCGAGCATTAGCGGCGCTTCTTT-
1 AAAA-ATGCCGCTATAGATCGAGCATTAGCAGAGCTT-TTTG
*
32182133 AAAAACGCCGC
1 AAAAATGCCGC
32182144 AAAAAAATTA
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 10 0.09
40 88 0.79
41 7 0.06
42 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCAGAGCTTTTTG
Found at i:32182070 original size:80 final size:80
Alignment explanation
Indices: 32181973--32182143 Score: 213
Period size: 80 Copynumber: 2.1 Consensus size: 80
32181963 GTTTGAATAA
* * * *
32181973 AAAAATGCCGCTGTAGATTGTGCATTAGCAGCGC-TTTTTGAAAA-ACGCCGCTATAGATCAAGC
1 AAAAATGCCGCTATAGATCGAGCATTAGC-G-GCATTTTTCAAAAGACGCCGCTATAGATCAAGC
32182036 ATTAGCGGAGCTT-TTT
64 ATTAGCGGAGCTTCTTT
* * *
32182052 GAAAAATGCCGCTATAGATCGAGCATTAGCGGCATTTTTCAAAAGGCGCCGCTATAGGTCGAGCA
1 -AAAAATGCCGCTATAGATCGAGCATTAGCGGCATTTTTCAAAAGACGCCGCTATAGATCAAGCA
*
32182117 TTAGCGGCGCTTCTTT
65 TTAGCGGAGCTTCTTT
*
32182133 AAAAACGCCGC
1 AAAAATGCCGC
32182144 AAAAAAATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 10 0.13
80 64 0.81
81 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (80 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCGGCATTTTTCAAAAGACGCCGCTATAGATCAAGCAT
TAGCGGAGCTTCTTT
Found at i:32182373 original size:141 final size:139
Alignment explanation
Indices: 32182126--32182398 Score: 406
Period size: 141 Copynumber: 1.9 Consensus size: 139
32182116 ATTAGCGGCG
32182126 CTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCAATTTATGTTGAGCTTTGGTGGCATT
1 CTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCAATTTATGTTGAGCTTTGGTGGCATT
* * * *
32182191 AGTGGCGCTTCTTAGAAAACGCTGCTATAAATCAAGTATTAGTGGCACTTTTTGAAAA-CGCCGC
66 AGCGGCGCTTCTTAGAAAACGCTACTATAAATCAAGCATTAGCGGCACTTTTTGAAAATCGCCGC
32182255 TAAGCGGTA
131 TAAGCGGTA
* *
32182264 CTTCTTTAAAAATGCCGCAAAAAAATTAAGCACAACGCCATCGTTCTATGTTGAGCTTTGGTGGC
1 CTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCA--ATT-TATGTTGAGCTTTGGTGGC
* * **
32182329 ATTAGCGGCGCTTTTTAGAAAACG-TCACTATAGATCAAGCATTAGCGGTGCTTTTTGAAAATCG
63 ATTAGCGGCGCTTCTTAGAAAACGCT-ACTATAAATCAAGCATTAGCGGCACTTTTTGAAAATCG
32182393 CCGCTA
127 CCGCTA
32182399 TAGGTCGAGC
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
138 39 0.32
140 3 0.03
141 70 0.58
142 8 0.07
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (139 bp):
CTTCTTTAAAAACGCCGCAAAAAAATTAAGCACAACGCCAATTTATGTTGAGCTTTGGTGGCATT
AGCGGCGCTTCTTAGAAAACGCTACTATAAATCAAGCATTAGCGGCACTTTTTGAAAATCGCCGC
TAAGCGGTA
Found at i:32182382 original size:40 final size:40
Alignment explanation
Indices: 32182327--32182430 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
32182317 AGCTTTGGTG
* *
32182327 GCATTAGCGGCGCTTTTTAGAAAA-CGTCACTATAGATCAA
1 GCATTAGCGGTGCTTTTT-GAAAATCGCCACTATAGATCAA
* * *
32182367 GCATTAGCGGTGCTTTTTGAAAATCGCCGCTATAGGTCGA
1 GCATTAGCGGTGCTTTTTGAAAATCGCCACTATAGATCAA
32182407 GCATTAGCGGTGCTTTTTTGAAAA
1 GCATTAGCGGTGC-TTTTTGAAAA
32182431 ACACCGCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 5 0.09
40 42 0.74
41 10 0.18
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
GCATTAGCGGTGCTTTTTGAAAATCGCCACTATAGATCAA
Found at i:32182749 original size:7 final size:7
Alignment explanation
Indices: 32182734--32182886 Score: 78
Period size: 7 Copynumber: 21.6 Consensus size: 7
32182724 ATCATTATAA
32182734 TTTAGGG
1 TTTAGGG
*
32182741 TTTATGG
1 TTTAGGG
32182748 TTTAGGG
1 TTTAGGG
* *
32182755 ATTATGTG
1 TTTA-GGG
32182763 TTTAGGG
1 TTTAGGG
* *
32182770 ATTATGGA
1 TTTA-GGG
*
32182778 TTAAGGG
1 TTTAGGG
*
32182785 -TTGGGG
1 TTTAGGG
*
32182791 GTTAGGG
1 TTTAGGG
*
32182798 GTTAGGG
1 TTTAGGG
*
32182805 GTTAGGG
1 TTTAGGG
*
32182812 TTTAGAAG
1 TTTAG-GG
32182820 -TTAGGG
1 TTTAGGG
*
32182826 GTTAGGGG
1 TTTA-GGG
*
32182834 TTAAGGG
1 TTTAGGG
32182841 -TTAGGGG
1 TTTA-GGG
32182848 TTTAGGG
1 TTTAGGG
* *
32182855 GTTAAGG
1 TTTAGGG
* *
32182862 TTTATGT
1 TTTAGGG
*
32182869 TTTATGG
1 TTTAGGG
32182876 TTTAGGG
1 TTTAGGG
32182883 TTTA
1 TTTA
32182887 AGAGATAGGG
Statistics
Matches: 111, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
6 7 0.06
7 86 0.77
8 18 0.16
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:32182784 original size:15 final size:14
Alignment explanation
Indices: 32182734--32182776 Score: 68
Period size: 15 Copynumber: 3.0 Consensus size: 14
32182724 ATCATTATAA
*
32182734 TTTAGGGTTTATGG
1 TTTAGGGATTATGG
32182748 TTTAGGGATTATGTG
1 TTTAGGGATTATG-G
32182763 TTTAGGGATTATGG
1 TTTAGGGATTATGG
32182777 ATTAAGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
TTTAGGGATTATGG
Found at i:32182806 original size:21 final size:21
Alignment explanation
Indices: 32182782--32182858 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
32182772 TATGGATTAA
*
32182782 GGGTTGGGGGTTAGGGGTTAG
1 GGGTTAGGGGTTAGGGGTTAG
* **
32182803 GGGTTAGGGTTTAGAAGTTAG
1 GGGTTAGGGGTTAGGGGTTAG
*
32182824 GGGTTAGGGGTTAAGGGTTAG
1 GGGTTAGGGGTTAGGGGTTAG
32182845 GGGTTTAGGGGTTA
1 GGG-TTAGGGGTTA
32182859 AGGTTTATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 37 0.79
22 10 0.21
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (21 bp):
GGGTTAGGGGTTAGGGGTTAG
Found at i:32185129 original size:31 final size:31
Alignment explanation
Indices: 32185094--32185157 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
32185084 TATTGGGTCT
32185094 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
32185125 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
32185156 AA
1 AA
32185158 ACTTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (31 bp):
AATTATATGTGTTTTTTGGACTTTTAACCCA
Found at i:32188257 original size:32 final size:32
Alignment explanation
Indices: 32188221--32188390 Score: 138
Period size: 32 Copynumber: 5.5 Consensus size: 32
32188211 AGTTTTGCTG
* *
32188221 CAAAGGCTGTCCTTTACATCCAGTAATTGCCA
1 CAAAGGCTTTCCTTTACATCCAGTACTTGCCA
** *
32188253 CAAAGGCTTT-CTTGT-C-TAGAGT-TTTGCCA
1 CAAAGGCTTTCCTT-TACATCCAGTACTTGCCA
* * *
32188282 CAAAGGCTTTCTTTTGCATCCAGTACTTGACA
1 CAAAGGCTTTCCTTTACATCCAGTACTTGCCA
* * * **
32188314 TAAAGACTTTCCTTTACATCCAATACTCACCA
1 CAAAGGCTTTCCTTTACATCCAGTACTTGCCA
* *
32188346 CAAAGGCTTTCCTTTCCA--GAGT-CTTGCCA
1 CAAAGGCTTTCCTTTACATCCAGTACTTGCCA
*
32188375 CAAAGGCTATCCTTTA
1 CAAAGGCTTTCCTTTA
32188391 ATTGGTGTTT
Statistics
Matches: 107, Mismatches: 26, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
29 36 0.34
30 9 0.08
31 8 0.07
32 54 0.50
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (32 bp):
CAAAGGCTTTCCTTTACATCCAGTACTTGCCA
Found at i:32188260 original size:61 final size:61
Alignment explanation
Indices: 32188190--32188324 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
32188180 ACAGAGGTTG
**
32188190 CACAAAGGCTTATCTT-TCCAGAGTTTTGCTGCAAAGGCTGTCCTTTACATCCAGTAATTGC
1 CACAAAGGCTT-TCTTGTCCAGAGTTTTGCCACAAAGGCTGTCCTTTACATCCAGTAATTGC
* * * * * *
32188251 CACAAAGGCTTTCTTGTCTAGAGTTTTGCCACAAAGGCTTTCTTTTGCATCCAGTACTTGA
1 CACAAAGGCTTTCTTGTCCAGAGTTTTGCCACAAAGGCTGTCCTTTACATCCAGTAATTGC
* *
32188312 CATAAAGACTTTC
1 CACAAAGGCTTTC
32188325 CTTTACATCC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 4 0.06
61 59 0.94
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (61 bp):
CACAAAGGCTTTCTTGTCCAGAGTTTTGCCACAAAGGCTGTCCTTTACATCCAGTAATTGC
Found at i:32208976 original size:45 final size:44
Alignment explanation
Indices: 32208911--32209010 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
32208901 ACAGATAATG
** * * * *
32208911 CCATAGTTGAAAGACCCTATGGCACTATATCGGAACTGAATAAGA
1 CCATAGTTGAAAGAAACTATGG-ACCATACCAGAAATGAATAAGA
*
32208956 CCATAGTTGAAAGAAACTATGGACCATACCAGAAATGAGTAAGA
1 CCATAGTTGAAAGAAACTATGGACCATACCAGAAATGAATAAGA
*
32209000 CCATAGCTGAA
1 CCATAGTTGAA
32209011 TGACGTTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 27 0.57
45 20 0.43
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (44 bp):
CCATAGTTGAAAGAAACTATGGACCATACCAGAAATGAATAAGA
Found at i:32209116 original size:45 final size:45
Alignment explanation
Indices: 32208989--32209116 Score: 159
Period size: 45 Copynumber: 2.8 Consensus size: 45
32208979 CCATACCAGA
* *
32208989 AATGAGTAAGACCATAGCTGAATGACGTTATGGA-ATCACGATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTAT-GACATCACGATTCT
* * * *
32209034 AACGAGTAAGACCATAACTGAAAGACGTTATGTCATCAGGATTCT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGACATCACGATTCT
* * *
32209079 AATGAGTAAGACCATAGTTGAAAGATGCTATGACATCA
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGACATCA
32209117 TGAATCAGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
44 1 0.01
45 69 0.99
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTGAAAGACGTTATGACATCACGATTCT
Found at i:32213744 original size:21 final size:20
Alignment explanation
Indices: 32213706--32213744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32213696 TTGAATTTTT
*
32213706 TTTCAAACATTCTCAAAGCA
1 TTTCAAACATTCTAAAAGCA
*
32213726 TTTCAAAGACTTCTAAAAG
1 TTTCAAACA-TTCTAAAAG
32213745 TACTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TTTCAAACATTCTAAAAGCA
Found at i:32215412 original size:55 final size:56
Alignment explanation
Indices: 32215313--32215506 Score: 232
Period size: 55 Copynumber: 3.5 Consensus size: 56
32215303 TAATGCCAGA
* * * *
32215313 GGTCTTAACCACATGGTTTTACATACATTCTTTCAGTCATTTCATATATTGTAATG
1 GGTCTTAACCACATGGTTTTACATTCATTCATTCAGTCATTTCATATCTTGTCATG
* * *
32215369 GGTCTTAACCACATGTTTTTA-ATTCATTCATTCAGTCATTTCATAGCTCGTCATG
1 GGTCTTAACCACATGGTTTTACATTCATTCATTCAGTCATTTCATATCTTGTCATG
* ** * *
32215424 GGTCTTAA-CATATGGCCTTACA-TCATTCATTTAGTCATTTCATATCTTGCCATG
1 GGTCTTAACCACATGGTTTTACATTCATTCATTCAGTCATTTCATATCTTGTCATG
* * *
32215478 GGTTTTAACCACATGGTCTTACATACATT
1 GGTCTTAACCACATGGTTTTACATTCATT
32215507 TATGTATCAT
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
54 43 0.37
55 49 0.42
56 24 0.21
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (56 bp):
GGTCTTAACCACATGGTTTTACATTCATTCATTCAGTCATTTCATATCTTGTCATG
Found at i:32222714 original size:27 final size:26
Alignment explanation
Indices: 32222670--32222921 Score: 226
Period size: 27 Copynumber: 9.4 Consensus size: 26
32222660 GTATAACAAA
*
32222670 TCATTTTA-CCTATGGGGGTATTTCAG
1 TCATTTTACCCT-TCGGGGTATTTCAG
*
32222696 TCATTTTACCCTTCAGGGGAATTTC-G
1 TCATTTTACCCTTC-GGGGTATTTCAG
**
32222722 ATCATTTTACCCTTCGGGGGTATTTTGG
1 -TCATTTTACCCTTC-GGGGTATTTCAG
* *
32222750 TCATTTTACCCTTCGAAGGCATTTCAG
1 TCATTTTACCCTTCG-GGGTATTTCAG
* *
32222777 TTATTTTACCCTTTGGGGGTATTTC-G
1 TCATTTTACCC-TTCGGGGTATTTCAG
32222803 ATCATTTTACCCTTCGAGGGTATTTCAG
1 -TCATTTTACCCTTCG-GGGTATTTCAG
* **
32222831 TTATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCG-GGGTATTTCAG
* *
32222858 TCATTTTTACCCTTCAAGGGTA-TTCGG
1 TCA-TTTTACCCTTC-GGGGTATTTCAG
*
32222885 TCATTTTACCCTTCGAGGGTGTTTCAG
1 TCATTTTACCCTTCG-GGGTATTTCAG
*
32222912 TTA-TTTACCC
1 TCATTTTACCC
32222922 ATGAATCGCA
Statistics
Matches: 188, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
26 37 0.20
27 130 0.69
28 21 0.11
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTTCGGGGTATTTCAG
Found at i:32222783 original size:81 final size:81
Alignment explanation
Indices: 32222689--32222921 Score: 299
Period size: 81 Copynumber: 2.9 Consensus size: 81
32222679 CTATGGGGGT
* * **
32222689 ATTTCAGTCATTTTACCCTTCAGGGGAATTTCGATCATTTTACCCTTCGGGGGTATTTTGGTCAT
1 ATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTCAT
32222754 TTTACCCTTCGAAGGC
66 TTTACCCTTCGAAGGC
* ** *
32222770 ATTTCAGTTATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTAT
1 ATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTCAT
* *
32222835 TTTACCCTTCGAGGGT
66 TTTACCCTTCGAAGGC
** * * * *
32222851 ATTTTGGTCATTTTTACCCTTCAAGGGTA-TTCGGTCATTTTACCCTTCGAGGGTGTTTCAGTTA
1 ATTTCAGTCA-TTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTCA
32222915 -TTTACCC
65 TTTTACCC
32222922 ATGAATCGCA
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 7 0.05
81 111 0.83
82 15 0.11
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (81 bp):
ATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTCAT
TTTACCCTTCGAAGGC
Found at i:32223527 original size:15 final size:16
Alignment explanation
Indices: 32223504--32223536 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32223494 GCACTAGAAT
32223504 GAAGAGGAGAAGAAGA
1 GAAGAGGAGAAGAAGA
*
32223520 GAAG-GGAGGAGAAGA
1 GAAGAGGAGAAGAAGA
32223535 GA
1 GA
32223537 TGAGAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (16 bp):
GAAGAGGAGAAGAAGA
Found at i:32223533 original size:10 final size:10
Alignment explanation
Indices: 32223506--32223549 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
32223496 ACTAGAATGA
32223506 AGAGGAGAAG
1 AGAGGAGAAG
32223516 A-A-GAGAAG
1 AGAGGAGAAG
*
32223524 GGAGGAGAAG
1 AGAGGAGAAG
*
32223534 AGATGAGAAG
1 AGAGGAGAAG
32223544 AGAGGA
1 AGAGGA
32223550 TTCGGCAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (10 bp):
AGAGGAGAAG
Found at i:32226903 original size:25 final size:25
Alignment explanation
Indices: 32226836--32226905 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
32226826 ACCTACCGCT
* *
32226836 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCACCACACACTGTC
* *
32226861 CCTTTAGAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCACCACACACTGTC
*
32226886 CCTTCAGAGTTCATCACACA
1 CCTTCAGAGTTCACCACACA
32226906 TTCTAACCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.37, G:0.13, T:0.26
Consensus pattern (25 bp):
CCTTCAGAGTTCACCACACACTGTC
Found at i:32226905 original size:27 final size:25
Alignment explanation
Indices: 32226836--32226897 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
32226826 ACCTACCGCT
*
32226836 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCGCCACACACTGTC
*
32226861 CCTTTAGAGTTCGCCACACACTGTC
1 CCTTCAGAGTTCGCCACACACTGTC
32226886 CCTTCAGAGTTC
1 CCTTCAGAGTTC
32226898 ATCACACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.27
Consensus pattern (25 bp):
CCTTCAGAGTTCGCCACACACTGTC
Found at i:32227080 original size:28 final size:28
Alignment explanation
Indices: 32227039--32227094 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
32227029 TTCATCATTT
32227039 GCCACAAAAGCTTTCCTTTCCTTAGATC
1 GCCACAAAAGCTTTCCTTTCCTTAGATC
32227067 GCCA-AAAAGGCTTTCCTTTCCTTAGATC
1 GCCACAAAA-GCTTTCCTTTCCTTAGATC
32227095 ACTATAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (28 bp):
GCCACAAAAGCTTTCCTTTCCTTAGATC
Found at i:32227103 original size:28 final size:28
Alignment explanation
Indices: 32227044--32227107 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
32227034 CATTTGCCAC
*
32227044 AAAA-GCTTTCCTTTCCTTAGATCGCCA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
32227071 AAAAGGCTTTCCTTTCCTTAGATCACTA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
32227099 TAAAGGCTT
1 AAAAGGCTT
32227108 CGATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (28 bp):
AAAAGGCTTTCCTTTCCTTAGATCACCA
Found at i:32231938 original size:39 final size:38
Alignment explanation
Indices: 32231814--32231953 Score: 118
Period size: 39 Copynumber: 3.6 Consensus size: 38
32231804 TGTAATTATA
*
32231814 CCCTGATTGCATATACATGCCCATGTTGTACTTCGGTAC
1 CCCTGATTGCACATACATGCCCATGTTGTA-TTCGGTAC
* * * ** * * *
32231853 CCCTAAATGCATATATGTGCCCCTATTGTAATTCGATAC
1 CCCTGATTGCACATACATGCCCATGTTGT-ATTCGGTAC
* **
32231892 CCTTGATTGCACATACATGCCTGTGTTGTATTGCGGTAC
1 CCCTGATTGCACATACATGCCCATGTTGTATT-CGGTAC
* *
32231931 CCCTGATTTGCACTTACGTGCCC
1 CCCTGA-TTGCACATACATGCCC
32231954 TTCATTACAT
Statistics
Matches: 77, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
38 3 0.04
39 60 0.78
40 14 0.18
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (38 bp):
CCCTGATTGCACATACATGCCCATGTTGTATTCGGTAC
Found at i:32236627 original size:24 final size:24
Alignment explanation
Indices: 32236600--32236645 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32236590 ACTGATTCTC
*
32236600 AGCTCGT-ATGAGCTTATCGATTGT
1 AGCTCGTGA-GAGCTTACCGATTGT
32236624 AGCTCGTGAGAGCTTACCGATT
1 AGCTCGTGAGAGCTTACCGATT
32236646 CTCAACTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (24 bp):
AGCTCGTGAGAGCTTACCGATTGT
Found at i:32236670 original size:49 final size:49
Alignment explanation
Indices: 32236588--32236696 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
32236578 TCATTAGGGA
* * * *
32236588 TTACTGATTCTCAGCTCGTATGAGCTTATCGATTGT-AGCTCGTGAGAGC
1 TTACTGATTCTCAACTCATATGAGCATACCGATT-TAAGCTCGTGAGAGC
* *
32236637 TTACCGATTCTCAACTCATATGAGCATACCGATTTACAGCTCTTGAGAGC
1 TTACTGATTCTCAACTCATATGAGCATACCGATTTA-AGCTCGTGAGAGC
*
32236687 ATACTGATTC
1 TTACTGATTC
32236697 ATAGCTTGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.02
49 29 0.58
50 20 0.40
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
TTACTGATTCTCAACTCATATGAGCATACCGATTTAAGCTCGTGAGAGC
Found at i:32236686 original size:25 final size:25
Alignment explanation
Indices: 32236593--32236696 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
32236583 AGGGATTACT
* * *
32236593 GATTCTCAGCTCGT-ATGAGCTTATC
1 GATTCTCAGCTCATGA-GAGCATACC
* * *
32236618 GATTGT-AGCTCGTGAGAGCTTACC
1 GATTCTCAGCTCATGAGAGCATACC
*
32236642 GATTCTCAACTCAT-ATGAGCATACC
1 GATTCTCAGCTCATGA-GAGCATACC
* *
32236667 GATT-TACAGCTCTTGAGAGCATACT
1 GATTCT-CAGCTCATGAGAGCATACC
32236692 GATTC
1 GATTC
32236697 ATAGCTTGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
24 22 0.34
25 41 0.64
26 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (25 bp):
GATTCTCAGCTCATGAGAGCATACC
Found at i:32242954 original size:24 final size:25
Alignment explanation
Indices: 32242914--32242983 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
32242904 TACCGATTCT
* *
32242914 CAGCTCAT-ATGAACTTACC-AATTG
1 CAGCTCATGA-GAGCTTACCGAATTA
*
32242938 CAGCTCATGAGAGCTTACCGATTTA
1 CAGCTCATGAGAGCTTACCGAATTA
*
32242963 CAGCTCTTGAGAG-TATACCGA
1 CAGCTCATGAGAGCT-TACCGA
32242984 TTCATAACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 17 0.44
25 22 0.56
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
CAGCTCATGAGAGCTTACCGAATTA
Found at i:32242973 original size:25 final size:25
Alignment explanation
Indices: 32242938--32242985 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
32242928 TTACCAATTG
32242938 CAGCTCATGAGAGCT-TACCGATTTA
1 CAGCTCATGAGAG-TATACCGATTTA
*
32242963 CAGCTCTTGAGAGTATACCGATT
1 CAGCTCATGAGAGTATACCGATT
32242986 CATAACTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTCATGAGAGTATACCGATTTA
Found at i:32243193 original size:30 final size:30
Alignment explanation
Indices: 32243154--32243215 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
32243144 TACATGAAAT
32243154 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
32243185 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
32243214 AC
1 AC
32243216 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:32246605 original size:32 final size:31
Alignment explanation
Indices: 32246550--32246609 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
32246540 CATGCTCAAC
* *
32246550 CTTTACTTTTCAGACTTTTAGCAAACTTTGCT
1 CTTTACTTTTCAGAATTTGAGC-AACTTTGCT
* *
32246582 CTTTATTTTTGAGAATTTGAGCAACTTT
1 CTTTACTTTTCAGAATTTGAGCAACTTT
32246610 TCTTTGCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 6 0.25
32 18 0.75
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (31 bp):
CTTTACTTTTCAGAATTTGAGCAACTTTGCT
Found at i:32250719 original size:26 final size:28
Alignment explanation
Indices: 32250676--32250728 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
32250666 AAATTACAAA
32250676 AAGGAAAAAAGAGCCAAAGAAAAGAAAG
1 AAGGAAAAAAGAGCCAAAGAAAAGAAAG
* *
32250704 AAGGAAAATAG-G-CAAAGAGAAGAAA
1 AAGGAAAAAAGAGCCAAAGAAAAGAAA
32250729 AGAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 1 0.04
28 10 0.43
ACGTcount: A:0.66, C:0.06, G:0.26, T:0.02
Consensus pattern (28 bp):
AAGGAAAAAAGAGCCAAAGAAAAGAAAG
Found at i:32252730 original size:11 final size:12
Alignment explanation
Indices: 32252714--32252746 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
32252704 TTTTTCCAAC
32252714 TTATTTTTCT-T
1 TTATTTTTCTCT
32252725 TTATTTTTCTCT
1 TTATTTTTCTCT
32252737 TT-TTTTTCTC
1 TTATTTTTCTC
32252747 CTCGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTCTCT
Found at i:32252788 original size:2 final size:2
Alignment explanation
Indices: 32252783--32252811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32252773 ATCTTTTTTC
32252783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32252812 TACAAGCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32253024 original size:17 final size:17
Alignment explanation
Indices: 32253002--32253039 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
32252992 TCATGTCTGG
32253002 TTCATCAAGAAAATGGA
1 TTCATCAAGAAAATGGA
*
32253019 TTCATCATGAAAATGGA
1 TTCATCAAGAAAATGGA
32253036 TTCA
1 TTCA
32253040 AACTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (17 bp):
TTCATCAAGAAAATGGA
Found at i:32254987 original size:173 final size:172
Alignment explanation
Indices: 32254794--32255140 Score: 685
Period size: 173 Copynumber: 2.0 Consensus size: 172
32254784 TTTTATTTAT
32254794 TATATATATAAATTATATAAAAATAATATAAAAAAATTAATACAAGCGGGCCGAGCCCAGTCCAG
1 TATATATATAAATTATATAAAAATAATATAAAAAAATTAATACAAGCGGGCCGAGCCCAGTCCAG
32254859 GTTTTAGCATTTTTATCTAGTCTGGGCTTAGGAAAAACTTTAGGCCTACTTTCTACGTCGGCCCG
66 GTTTTAGCATTTTTATCTAGTCTGGGCTTAGGAAAAACTTTAGGCCTACTTTCTACGTCGGCCCG
32254924 AGCATAGAAAATGGGCCTAAAATTTTGGTTGGGCTCGGCCCA
131 AGCATAGAAAATGGGCCTAAAATTTTGGTTGGGCTCGGCCCA
32254966 TATATATATATAATTATATAAAAATAATATAAAAAAATTAATACAAGCGGGCCGAGCCCAGTCCA
1 TATATATATA-AATTATATAAAAATAATATAAAAAAATTAATACAAGCGGGCCGAGCCCAGTCCA
32255031 GGTTTTAGCATTTTTATCTAGTCTGGGCTTAGGAAAAACTTTAGGCCTACTTTCTACGTCGGCCC
65 GGTTTTAGCATTTTTATCTAGTCTGGGCTTAGGAAAAACTTTAGGCCTACTTTCTACGTCGGCCC
32255096 GAGCATAGAAAATGGGCCTAAAATTTTGGTTGGGCTCGGCCCA
130 GAGCATAGAAAATGGGCCTAAAATTTTGGTTGGGCTCGGCCCA
32255139 TA
1 TA
32255141 AACACCTCTA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 10 0.06
173 164 0.94
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (172 bp):
TATATATATAAATTATATAAAAATAATATAAAAAAATTAATACAAGCGGGCCGAGCCCAGTCCAG
GTTTTAGCATTTTTATCTAGTCTGGGCTTAGGAAAAACTTTAGGCCTACTTTCTACGTCGGCCCG
AGCATAGAAAATGGGCCTAAAATTTTGGTTGGGCTCGGCCCA
Found at i:32259722 original size:22 final size:19
Alignment explanation
Indices: 32259695--32259744 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 19
32259685 TGAAGTGCAA
32259695 TCTTCATCTTTCCTCAATTG
1 TCTTCATCTTTCCTC-ATTG
32259715 CTCTTTCATACTTTCCTCATTG
1 -TC-TTCAT-CTTTCCTCATTG
32259737 TCTTCATC
1 TCTTCATC
32259745 CACCTCGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 5 0.19
21 4 0.15
22 9 0.33
23 8 0.30
ACGTcount: A:0.14, C:0.32, G:0.04, T:0.50
Consensus pattern (19 bp):
TCTTCATCTTTCCTCATTG
Found at i:32264395 original size:8 final size:8
Alignment explanation
Indices: 32264378--32264410 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
32264368 TAATCTTTTG
*
32264378 AAAATTAT
1 AAAATAAT
32264386 AAAATAAT
1 AAAATAAT
32264394 AAAATAAT
1 AAAATAAT
32264402 AAAATAAT
1 AAAATAAT
32264410 A
1 A
32264411 TTTTTAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATAAT
Found at i:32284063 original size:21 final size:21
Alignment explanation
Indices: 32284037--32284079 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32284027 AAAAAAAGTG
32284037 ATATTTATACCTAGGTTTACT
1 ATATTTATACCTAGGTTTACT
32284058 ATATTTATACCTAGGTTTACT
1 ATATTTATACCTAGGTTTACT
32284079 A
1 A
32284080 GGTAGGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (21 bp):
ATATTTATACCTAGGTTTACT
Found at i:32289202 original size:11 final size:12
Alignment explanation
Indices: 32289174--32289206 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32289164 TCCATGTAAA
*
32289174 TATTGTACATTG
1 TATTGTAAATTG
32289186 TATTGTAAATT-
1 TATTGTAAATTG
32289197 TATTGTAAAT
1 TATTGTAAAT
32289207 AGGTAGTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TATTGTAAATTG
Found at i:32289750 original size:38 final size:38
Alignment explanation
Indices: 32289694--32289766 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
32289684 GGTGGGGGAA
* *
32289694 TGTTGGAGTGATTTTAGGAGGAAAATATGATATTGGAG
1 TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGAG
*
32289732 TGTTTGAGTGACTTTAGGAGGAAAATATGAGATTG
1 TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
32289767 TGGAGTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.01, G:0.33, T:0.34
Consensus pattern (38 bp):
TGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGAG
Found at i:32297096 original size:38 final size:38
Alignment explanation
Indices: 32297045--32297121 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
32297035 GCGTGGTGGG
* ** *
32297045 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGATATT
1 GGAGTGTTGGAGTGACTTTAAAAGGAAAATATGAGATT
32297083 GGAGTGTTGGAGTGACTTTAAAAGGAAAATATGAGATT
1 GGAGTGTTGGAGTGACTTTAAAAGGAAAATATGAGATT
32297121 G
1 G
32297122 TAGAGTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.01, G:0.34, T:0.31
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAAAAGGAAAATATGAGATT
Found at i:32297913 original size:25 final size:23
Alignment explanation
Indices: 32297885--32297951 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
32297875 GCCCCACACG
*
32297885 ATTAACCACACGAGCGTGTGGGAAT
1 ATTAACC-CA-GAGCGTGTGAGAAT
**
32297910 ATTAGGCCAGAGCGTGTGAGAAT
1 ATTAACCCAGAGCGTGTGAGAAT
** *
32297933 ATTAGGCCAGACCGTGTGA
1 ATTAACCCAGAGCGTGTGA
32297952 ACCACACGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 31 0.82
24 2 0.05
25 5 0.13
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (23 bp):
ATTAACCCAGAGCGTGTGAGAAT
Found at i:32297922 original size:23 final size:23
Alignment explanation
Indices: 32297896--32297951 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
32297886 TTAACCACAC
*
32297896 GAGCGTGTGGGAATATTAGGCCA
1 GAGCGTGTGAGAATATTAGGCCA
32297919 GAGCGTGTGAGAATATTAGGCCA
1 GAGCGTGTGAGAATATTAGGCCA
*
32297942 GACCGTGTGA
1 GAGCGTGTGA
32297952 ACCACACGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.27, C:0.14, G:0.38, T:0.21
Consensus pattern (23 bp):
GAGCGTGTGAGAATATTAGGCCA
Found at i:32300264 original size:46 final size:47
Alignment explanation
Indices: 32300206--32300312 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 47
32300196 CAGTTAAACT
* **
32300206 GCCAG-ATCAGATATATGTGGTCAAGCCACTAT-ATTGTTGTCAAGCA
1 GCCAGAAT-AGATATATGCGGTCAAGCCACTATAATTGCAGTCAAGCA
* *
32300252 GCCAGAATAGATATATGCGGTCTAGCCACTATAATTGCAGTCAAGCC
1 GCCAGAATAGATATATGCGGTCAAGCCACTATAATTGCAGTCAAGCA
32300299 GCCAGAATAGATAT
1 GCCAGAATAGATAT
32300313 GTGGTTAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
46 27 0.50
47 27 0.50
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (47 bp):
GCCAGAATAGATATATGCGGTCAAGCCACTATAATTGCAGTCAAGCA
Found at i:32302689 original size:20 final size:20
Alignment explanation
Indices: 32302655--32302696 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32302645 AACTATTTAA
** *
32302655 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
32302675 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
32302695 AT
1 AT
32302697 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:32306035 original size:22 final size:22
Alignment explanation
Indices: 32306002--32306061 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
32305992 AAACAAAATT
32306002 AAGAAAAA-GAAATAGAAAAAGA
1 AAGAAAAATGAAA-AGAAAAAGA
* * *
32306024 AA-AAAAGTGAAACGAAACAGA
1 AAGAAAAATGAAAAGAAAAAGA
32306045 AAGAAAAATG-AAAGAAA
1 AAGAAAAATGAAAAGAAA
32306062 GAAGGAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.05
Consensus pattern (22 bp):
AAGAAAAATGAAAAGAAAAAGA
Found at i:32306057 original size:11 final size:10
Alignment explanation
Indices: 32306002--32306061 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 10
32305992 AAACAAAATT
32306002 AAGAAAAAGAA
1 AAGAAAAAG-A
32306013 ATAGAAAAAGA
1 A-AGAAAAAGA
*
32306024 AA-AAAAGTGA
1 AAGAAAA-AGA
*
32306034 AACGAAACAGA
1 AA-GAAAAAGA
32306045 AAGAAAAATGA
1 AAGAAAAA-GA
32306056 AAGAAA
1 AAGAAA
32306062 GAAGGAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
9 4 0.10
10 10 0.25
11 15 0.38
12 11 0.28
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.05
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:32306440 original size:20 final size:20
Alignment explanation
Indices: 32306404--32306441 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32306394 GTGAAATTTG
*
32306404 TGTGAAAATATAGAATTAAT
1 TGTGAAAATATAAAATTAAT
32306424 TGTGAAGAA-ATAAAATTA
1 TGTGAA-AATATAAAATTA
32306442 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAT
Found at i:32307004 original size:40 final size:40
Alignment explanation
Indices: 32306939--32307067 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
32306929 GACTTCGAGT
* * *
32306939 CGATGAGACATTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTAGGTGTCAATTTACTACTTCGGATT-ATC
* * * *
32306980 CGATGAGGCACT-GGTGCCAATTTACT--TT-GGTTTAGC
1 CGATGAGACACTAGGTGTCAATTTACTACTTCGGATTATC
* * *
32307016 CGATGAGACATTAGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGACACTAGGTGTCAATTTACTACTTCGGATTATC
*
32307056 CGATGAGGCACT
1 CGATGAGACACT
32307068 GAGTTCCAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
36 11 0.16
37 16 0.23
38 2 0.03
39 2 0.03
40 28 0.41
41 10 0.14
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAATTTACTACTTCGGATTATC
Found at i:32308145 original size:27 final size:27
Alignment explanation
Indices: 32308110--32308315 Score: 292
Period size: 27 Copynumber: 7.7 Consensus size: 27
32308100 GACCAAAATA
* *
32308110 CCCTATAGGATAAAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
32308137 CCCTGTAGGGTAAAATAACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
32308164 CCCTGTAGGGTAAAATAACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
32308191 CCCTGTAGGGTAAAATAACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
32308218 CCCTGTAGGGTAAAATGACTGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * * *
32308245 TCTTGTAGGGTAAAATGATCGTAATAC
1 CCCTGTAGGGTAAAATGACCGTAATGC
32308272 CCCTGTAGGGTAAAATGACCGTAATG-
1 CCCTGTAGGGTAAAATGACCGTAATGC
32308298 CCCTGGT-GGGT-AAATGAC
1 CCCT-GTAGGGTAAAATGAC
32308316 TATTTTTACC
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
25 7 0.04
26 8 0.05
27 149 0.91
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCGTAATGC
Found at i:32308591 original size:32 final size:32
Alignment explanation
Indices: 32308544--32308678 Score: 126
Period size: 32 Copynumber: 4.2 Consensus size: 32
32308534 CTGCAAAACC
* *
32308544 ACTGATGGCTTTGTGCCAATCATATTACCGTT
1 ACTGATGGCTGTGTGCCGATCATATTACCGTT
* ** ***
32308576 ACCGATGGCTGTGTGCCGATCATAACACTACT
1 ACTGATGGCTGTGTGCCGATCATATTACCGTT
* * * *
32308608 ACTAATGGCTTTGTACCGATCATGTTACCGTT
1 ACTGATGGCTGTGTGCCGATCATATTACCGTT
* * * *
32308640 ACTGATGGCTGTATGCCGATCATATCACTGCT
1 ACTGATGGCTGTGTGCCGATCATATTACCGTT
32308672 ACTGATG
1 ACTGATG
32308679 AATTTGTACC
Statistics
Matches: 77, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (32 bp):
ACTGATGGCTGTGTGCCGATCATATTACCGTT
Found at i:32308649 original size:64 final size:64
Alignment explanation
Indices: 32308548--32308699 Score: 205
Period size: 64 Copynumber: 2.4 Consensus size: 64
32308538 AAAACCACTG
* *
32308548 ATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCCGATCATAACACTACTACTA
1 ATGGCTTTGTACCAATCATATTACCGTTACCGATGGCTGTATGCCGATCATAACACTACTACTA
* * * * * *
32308612 ATGGCTTTGTACCGATCATGTTACCGTTACTGATGGCTGTATGCCGATCATATCACTGCTACTG
1 ATGGCTTTGTACCAATCATATTACCGTTACCGATGGCTGTATGCCGATCATAACACTACTACTA
** *
32308676 ATGAATTTGTACCAATCACATTAC
1 ATGGCTTTGTACCAATCATATTAC
32308700 TGTACTTATG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGGCTTTGTACCAATCATATTACCGTTACCGATGGCTGTATGCCGATCATAACACTACTACTA
Found at i:32318106 original size:525 final size:524
Alignment explanation
Indices: 32317111--32318374 Score: 2205
Period size: 525 Copynumber: 2.4 Consensus size: 524
32317101 CAAATGCGAC
* * * * * *
32317111 ATTTGCCCCTCCGCTCAAAAACGCGCGGATCCTAGGCTGGGCCGGGTTGGTGTCGGGTCAACCCA
1 ATTTTCCCCTCCGCTCAAAAACGCTCGGATCCTAGGCCGGGTCGGGTCGGTGTCGGGTCGACCCA
* * * *
32317176 TACCCAAAACGGCGCCGTCTTGAAGGGCTATTTAAACCAATTTTAGTTCAAAAAAACACATTTTC
66 TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTCAAAAAAACACATTTTC
*
32317241 ATTCTTTGTCAGAAAAAA-ATAGAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCG
131 ATTCTTTCTCAGAAAAAACA-A-AAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCG
32317305 GCCAGGATCCGATCACCGGCCAGGATCGGGTCATCGGCTTATAAAAAATAAAAATAATAATATCA
194 GCCAGGATCCGATCACCGGCCAGGATCGGGTCATCGGCTTATAAAAAATAAAAATAATAATATCA
32317370 ATTAATTTCAAGGAAAATAAAAAAGGGACTAAATATTGAACTGCATAAAAAAATCTGGGGTAAAT
259 ATTAATTTCAAGGAAAATAAAAAAGGGACTAAATATTGAACTGCATAAAAAAATCTGGGGTAAAT
32317435 CTACAAATAAATAAAGTCCAAAGGACCGTATTGAACGCGAGAATAATCCTGGAGGGACTAGAAGG
324 CTACAAATAAATAAAGTCCAAAGGACCGTATTGAACGCGAGAATAATCCTGGAGGGACTAGAAGG
* *
32317500 AAATTTTCCCTTTCCCTCTAAATGGCGTCGTTCCATAAGGACCAAATTGAAATTGAAAAGAAATT
389 AAATTTTCCCTTTCCCTCTAAACGGCGTCGTTCCATAAGGACCAAATTGAAATTAAAAAGAAATT
32317565 AAAGGGCGAATTTAAAAAATATAAAAAATTTAATTGTAAACATATTAAAAGGCGGAGGGGCTAAA
454 AAAGGGCGAATTTAAAAAATATAAAAAATTTAATTGTAAACATATTAAAAGGCGGAGGGGCTAAA
*
32317630 AGCGCA
519 AGCACA
* **
32317636 ATTTTCCCCTCCGCTCAAAAACGTTCGGATCCTAGGCCGGGTCGCATCGGTGTCGGGTCGACCCA
1 ATTTTCCCCTCCGCTCAAAAACGCTCGGATCCTAGGCCGGGTCGGGTCGGTGTCGGGTCGACCCA
32317701 TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTCAAAAAAACACATTTTC
66 TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTCAAAAAAACACATTTTC
*
32317766 ATTCTTTCTCAGAAAAAACCAAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCGGC
131 ATTCTTTCTCAGAAAAAACAAAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCGGC
32317831 CAGGATCCGATCACCGGCCAGGATCGGGTCATCGGCTTATAAAAAATAAAAATAATAATATCAAT
196 CAGGATCCGATCACCGGCCAGGATCGGGTCATCGGCTTATAAAAAATAAAAATAATAATATCAAT
32317896 TAATTTCAAGGAAAATAAAAAAAGGGACT-AA-ATTGAACTGCAAATAAAAAAATCTGGGGTAAA
261 TAATTTCAAGGAAAAT-AAAAAAGGGACTAAATATTGAACTGC--ATAAAAAAATCTGGGGTAAA
32317959 TCTACAAATAAATAAAGTCCAAAGGACCGTATTGAACGCGCA-AATAATCCTGGAGGGACTAGAA
323 TCTACAAATAAATAAAGTCCAAAGGACCGTATTGAACGCG-AGAATAATCCTGGAGGGACTAGAA
* *
32318023 GGAAATTTTCCTTTTCCCTCTAAACGGCGTCGTTCCATAAGGACCAAATTGAAATTAAAAATAAA
387 GGAAATTTTCCCTTTCCCTCTAAACGGCGTCGTTCCATAAGGACCAAATTGAAATTAAAAAGAAA
*
32318088 TTAAATGGCGAATTTAAAAAATATAAAAAATTTAATTGTAAACATATTAAAAGGCGGAGGGGCTA
452 TTAAAGGGCGAATTTAAAAAATATAAAAAATTTAATTGTAAACATATTAAAAGGCGGAGGGGCTA
32318153 AAAGCACA
517 AAAGCACA
32318161 ATTTTCCCCTCCGCTCAAAAACGCTCGGATCCTAGGCCGGGTCGGGTCGGTGTCGGGTCGACCCA
1 ATTTTCCCCTCCGCTCAAAAACGCTCGGATCCTAGGCCGGGTCGGGTCGGTGTCGGGTCGACCCA
*
32318226 TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTTAAAAAAACACATTTTC
66 TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTCAAAAAAACACATTTTC
* *
32318291 ATTCCTTCTCAG-AAAAACAAAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCTAAACATCCGGC
131 ATTCTTTCTCAGAAAAAACAAAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCGGC
* *
32318355 CAGGATCCGGTCATCGGCCA
196 CAGGATCCGATCACCGGCCA
32318375 CCGCACCGAC
Statistics
Matches: 704, Mismatches: 30, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
523 10 0.01
524 195 0.28
525 498 0.71
526 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (524 bp):
ATTTTCCCCTCCGCTCAAAAACGCTCGGATCCTAGGCCGGGTCGGGTCGGTGTCGGGTCGACCCA
TGCCCAAAACGACGCCATCTTGAAGGGCTATTTAAACCAATTTTTGTTCAAAAAAACACATTTTC
ATTCTTTCTCAGAAAAAACAAAAAAAAACTCCTTAAAAACTCTCTCCCCTCCCCAAACATCCGGC
CAGGATCCGATCACCGGCCAGGATCGGGTCATCGGCTTATAAAAAATAAAAATAATAATATCAAT
TAATTTCAAGGAAAATAAAAAAGGGACTAAATATTGAACTGCATAAAAAAATCTGGGGTAAATCT
ACAAATAAATAAAGTCCAAAGGACCGTATTGAACGCGAGAATAATCCTGGAGGGACTAGAAGGAA
ATTTTCCCTTTCCCTCTAAACGGCGTCGTTCCATAAGGACCAAATTGAAATTAAAAAGAAATTAA
AGGGCGAATTTAAAAAATATAAAAAATTTAATTGTAAACATATTAAAAGGCGGAGGGGCTAAAAG
CACA
Found at i:32318738 original size:9 final size:9
Alignment explanation
Indices: 32318724--32318754 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32318714 GTTAAACGAA
32318724 TCGAGTTAT
1 TCGAGTTAT
*
32318733 TCGAGTTAA
1 TCGAGTTAT
32318742 TCGAGTTAT
1 TCGAGTTAT
32318751 TCGA
1 TCGA
32318755 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32318825 original size:9 final size:9
Alignment explanation
Indices: 32318808--32318844 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
32318798 TGAGTTTTCG
32318808 AATTCGAAT
1 AATTCGAAT
*
32318817 AACTCGAAT
1 AATTCGAAT
32318826 AATTCGAAT
1 AATTCGAAT
32318835 AATTCGAAT
1 AATTCGAAT
32318844 A
1 A
32318845 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32319192 original size:17 final size:17
Alignment explanation
Indices: 32319170--32319226 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
32319160 TTTAATATTT
32319170 TCCCTCCAAAATTATAC
1 TCCCTCCAAAATTATAC
*
32319187 TCCCTCC--TATT-TAC
1 TCCCTCCAAAATTATAC
32319201 TTTCCCTCCAAAATTATAC
1 --TCCCTCCAAAATTATAC
32319220 TCCCTCC
1 TCCCTCC
32319227 TATTTACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 7 0.21
17 14 0.42
18 3 0.09
19 3 0.09
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (17 bp):
TCCCTCCAAAATTATAC
Found at i:32319206 original size:33 final size:33
Alignment explanation
Indices: 32319168--32319241 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
32319158 TTTTTAATAT
32319168 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
1 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
32319201 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
1 TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
32319234 TTTCCCTC
1 TTTCCCTC
32319242 AAACTTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTCCCTCCAAAATTATACTCCCTCCTATTTAC
Found at i:32319208 original size:16 final size:16
Alignment explanation
Indices: 32319187--32319241 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
32319177 AAAATTATAC
32319187 TCCCTCCTATTTACTT
1 TCCCTCCTATTTACTT
*
32319203 TCCCTCCAAAATTATAC--
1 TCCCTCC--TATT-TACTT
32319220 TCCCTCCTATTTACTT
1 TCCCTCCTATTTACTT
32319236 TCCCTC
1 TCCCTC
32319242 AAACTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 13 0.41
17 7 0.22
18 3 0.09
19 3 0.09
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (16 bp):
TCCCTCCTATTTACTT
Found at i:32321614 original size:169 final size:169
Alignment explanation
Indices: 32321085--32321591 Score: 813
Period size: 169 Copynumber: 3.0 Consensus size: 169
32321075 TCTTTTAAAT
* * * *
32321085 TGCAATGTTGGGGAAATAAGATTCGC--CGTCGTAGCTTCAATCTGTTCCACTATAATGCCAAAG
1 TGCAATGCTAGGGAAATAAGATTCGCTACCTC-TAGCTTTAATCTGTTCCACTATAATGCCAAAG
*
32321148 AGATAGGATTCGCTGCCCACAGCTTTAATCCACTCCACTTCAGCTATTTCAAGTCTTAACACCAG
65 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAG
32321213 GGAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGC
130 GGAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGC
* * *
32321253 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGA
1 TGCAATGCTAGGGAAATAAGATTCGCTACCTCTAGCTTTAATCTGTTCCACTATAATGCCAAAGA
* *
32321318 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTTCACTTCAGCTATTTCAAGTCTGAACACCAGG
66 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
* * * *
32321383 GAGATAAGATTCGCCGCCCTCAACTTTAATCTGCTCCGT
131 GAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGC
* *
32321422 TGCAATGCTAGGGAAAAAAGATTCGCTACCTCTAGCTTTAATCTGTTTCACTATAATGCCAAAGA
1 TGCAATGCTAGGGAAATAAGATTCGCTACCTCTAGCTTTAATCTGTTCCACTATAATGCCAAAGA
*
32321487 GATAGGATTCTCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACATCC-G
66 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA-CCAG
*
32321551 GGAGATAAGATTCACTACCCTCAGCTTTAATCTGCTCCGC
130 GGAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGC
32321591 T
1 T
32321592 ATAACGTCAG
Statistics
Matches: 310, Mismatches: 26, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
168 23 0.07
169 283 0.91
170 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (169 bp):
TGCAATGCTAGGGAAATAAGATTCGCTACCTCTAGCTTTAATCTGTTCCACTATAATGCCAAAGA
GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
GAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGC
Found at i:32321674 original size:44 final size:44
Alignment explanation
Indices: 32321610--32321786 Score: 228
Period size: 44 Copynumber: 4.0 Consensus size: 44
32321600 AGGAAAGTAA
* * *
32321610 GATTCACGATCTTCAGCCTATTCCACTGCTAACCAGGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTAACCAAGGAGATAG
* * * *
32321654 GATTCACAACCTTTAACCTATTCCACTGCTGACCAGGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTAACCAAGGAGATAG
* * *
32321698 GATTCACAATCTTCAACCCATTCCACTGTTGACCAAGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTAACCAAGGAGATAG
* * * *
32321742 GATTCACAATCTTCAGCCTATTCTACTGCTATCCAAAGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTAACCAAGGAGATAG
32321786 G
1 G
32321787 GCTGGGGTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
GATTCACAATCTTCAACCTATTCCACTGCTAACCAAGGAGATAG
Found at i:32327342 original size:22 final size:24
Alignment explanation
Indices: 32327272--32327342 Score: 58
Period size: 26 Copynumber: 2.9 Consensus size: 24
32327262 CTTAATGTCG
32327272 AGAGTTAAAAATATGATCCTTAGT
1 AGAGTTAAAAATATGATCCTTAGT
* * *
32327296 AGAAAATTTAAAA-ATGCATTACTTA-T
1 AG--AGTTAAAAATATG-A-TCCTTAGT
32327322 -GAGTTAAAAATATGATCCTTA
1 AGAGTTAAAAATATGATCCTTA
32327343 AAAAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 5 0.14
23 8 0.22
24 5 0.14
25 4 0.11
26 9 0.25
27 5 0.14
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (24 bp):
AGAGTTAAAAATATGATCCTTAGT
Found at i:32332964 original size:28 final size:28
Alignment explanation
Indices: 32332924--32332995 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
32332914 AAACCAAAAG
* * * *
32332924 TGCAAGCTAAAGTGGCGGACAGTCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCCAAA
32332952 TGCAAGCCAAAGTGGCAGACAATCCAAA
1 TGCAAGCCAAAGTGGCAGACAATCCAAA
32332980 TGCAAGCCAAAAGTGG
1 TGCAAGCC-AAAGTGG
32332996 GTGCTAGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.82
29 7 0.18
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCCAAA
Found at i:32333082 original size:88 final size:89
Alignment explanation
Indices: 32332952--32333125 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 89
32332942 ACAGTCTAAA
* * *
32332952 TGCAAGCCAAAGTGGCAGACAATCCAAATGCAAGCCAAAAGTGGGTGCTAGCCTAATTGGT-GAC
1 TGCAAGCCAAAGTGGCAGACAATCCAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAC
*
32333016 AGTTTAAGTGAAAGCCAAAGTTGG
66 AGTCTAAGTGAAAGCCAAAGTTGG
* *
32333040 TGCAAGCCACAA-TGGCAGACAGTCTAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGA
1 TGCAAGCCA-AAGTGGCAGACAATCCAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGA
*
32333104 CAGTCTAAGTGCAAGCCAAAGT
65 CAGTCTAAGTGAAAGCCAAAGT
32333126 GGCAGACAGT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
88 53 0.69
89 24 0.31
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.17
Consensus pattern (89 bp):
TGCAAGCCAAAGTGGCAGACAATCCAAATGCAAGCCAAAAGTGGGTGCAAGCCAAAGTGGTGGAC
AGTCTAAGTGAAAGCCAAAGTTGG
Found at i:32333091 original size:45 final size:44
Alignment explanation
Indices: 32332952--32333127 Score: 194
Period size: 45 Copynumber: 4.0 Consensus size: 44
32332942 ACAGTCTAAA
* *
32332952 TGCAAGCCAAAGTGGCAGACAATCCAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCC-AAAGTGGG
* * * * * * * *
32332997 TGCTAGCCTAATTGG-TGACAGTTTAAGTGAAAGCCAAAGTTGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAGTGGG
32333040 TGCAAGCCACAA-TGGCAGACAGTCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCA-AAGTGGCAGACAGTCTAAATGCAAGCC-AAAGTGGG
** *
32333085 TGCAAGCCAAAGTGGTGGACAGTCTAAGTGCAAGCCAAAGTGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAGTGG
32333128 CAGACAGTCT
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
43 17 0.16
44 41 0.38
45 49 0.46
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (44 bp):
TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAGTGGG
Found at i:32333098 original size:16 final size:17
Alignment explanation
Indices: 32333068--32333099 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32333058 ACAGTCTAAA
32333068 TGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAAGTGGG
32333085 TGCAAGCC-AAAGTGG
1 TGCAAGCCAAAAGTGG
32333100 TGGACAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (17 bp):
TGCAAGCCAAAAGTGGG
Found at i:32333124 original size:28 final size:28
Alignment explanation
Indices: 32333084--32333235 Score: 175
Period size: 28 Copynumber: 5.4 Consensus size: 28
32333074 CCAAAAGTGG
32333084 GTGCAAGCCAAAGTGGTGGACAGTCTAA
1 GTGCAAGCCAAAGTGGTGGACAGTCTAA
**
32333112 GTGCAAGCCAAAGTGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGTGGACAGTCTAA
*
32333140 GTGCAAACCAAAGTAGCG-GGA-AGTCTAA
1 GTGCAAGCCAAAGT-G-GTGGACAGTCTAA
* * *
32333168 ATCCAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGACAGTCTAA
*
32333196 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
1 GTGCAAGCCAAAGTGG-TGGACAGTCTAA
* *
32333224 ATGCAAGTCAAA
1 GTGCAAGCCAAA
32333236 AGTAGCGGCA
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 4 0.04
28 95 0.90
29 5 0.05
30 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGTGGACAGTCTAA
Found at i:32333193 original size:84 final size:85
Alignment explanation
Indices: 32333087--32333243 Score: 262
Period size: 84 Copynumber: 1.9 Consensus size: 85
32333077 AAAGTGGGTG
* *
32333087 CAAGCCAAAGTGGTGGACAGTCTAAGTGCAAGCCAAAGTGGCAGACAGTCTAAGTGCAA-ACCAA
1 CAAGCCAAAGTGGTGGACAGTCTAAGTGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGACAAA
32333151 AGTAGCGGGAAGTCTAAATC
66 AGTAGCGGGAAGTCTAAATC
* * *
32333171 CAAGCCAAAGTGGTGGATAGTCTAAGTGCAAGCCAAAGTGGCAGGCAGTCTAAATGCAAGTCAAA
1 CAAGCCAAAGTGGTGGACAGTCTAAGTGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGACAAA
32333236 AGTAGCGG
66 AGTAGCGG
32333244 CAAGCCAAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 56 0.84
85 11 0.16
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (85 bp):
CAAGCCAAAGTGGTGGACAGTCTAAGTGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGACAAA
AGTAGCGGGAAGTCTAAATC
Found at i:32341644 original size:45 final size:44
Alignment explanation
Indices: 32341577--32341680 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 44
32341567 CCAAAAAAAG
* * *
32341577 TGCAAGCCAAAGTTGGTGCAAGCCAAAGCGACAAACAGTCTAAA
1 TGCAAGCCAAAGTGGGGGCAAGCCAAAGCGACAAACAATCTAAA
* * * *
32341621 TGCAAGCCAAAAGTGGGGGCAAGCCAAAGTGGCAGACAATCTAAG
1 TGCAAGCC-AAAGTGGGGGCAAGCCAAAGCGACAAACAATCTAAA
*
32341666 TGTAAGCCAAAGTGG
1 TGCAAGCCAAAGTGG
32341681 AAGACAATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 15 0.29
45 36 0.71
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.13
Consensus pattern (44 bp):
TGCAAGCCAAAGTGGGGGCAAGCCAAAGCGACAAACAATCTAAA
Found at i:32341685 original size:28 final size:28
Alignment explanation
Indices: 32341641--32341733 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
32341631 AAGTGGGGGC
*
32341641 AAGCCAAAGTGGCAGACAATCTAAGTGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
* **
32341669 AAGCCAAAGTGGAAGACAATCTAAATAC
1 AAGCCAAAGTGGCAGACAATCTAAATGT
*
32341697 AAGCCAAAGTGGCATACAATCTAAATGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
32341725 AAGCCAAAG
1 AAGCCAAAG
32341734 ATGGTGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGT
Found at i:32341746 original size:44 final size:43
Alignment explanation
Indices: 32341696--32341827 Score: 156
Period size: 44 Copynumber: 3.0 Consensus size: 43
32341686 AATCTAAATA
* *
32341696 CAAGCCAAAGTGGCATACAATCTAAATGTAAGCCAAAGATGGTG
1 CAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAA-ATGGTG
* * * * * *
32341740 CAAGCCAAAGTGGTAGATAGTCTAAGTGCAAGTCAAACTTGGTG
1 CAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAA-ATGGTG
* *
32341784 CAAGACAAAGTGGCAGAGAATCTAAATGCAAGCCAAAATGGTG
1 CAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAATGGTG
32341827 C
1 C
32341828 GCAATATAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 6 0.08
44 66 0.92
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.18
Consensus pattern (43 bp):
CAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAATGGTG
Found at i:32344285 original size:15 final size:15
Alignment explanation
Indices: 32344265--32344293 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32344255 GGCTACTCGG
32344265 TTTTGGAAAATTTTA
1 TTTTGGAAAATTTTA
32344280 TTTTGGAAAATTTT
1 TTTTGGAAAATTTT
32344294 TAAAGCTCTG
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTGGAAAATTTTA
Found at i:32350492 original size:18 final size:19
Alignment explanation
Indices: 32350465--32350503 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
32350455 ATTAATTTTG
*
32350465 ATCAAGTAAATT-AAATTA
1 ATCAAATAAATTAAAATTA
32350483 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
32350502 AT
1 AT
32350504 ATGATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:32352786 original size:16 final size:17
Alignment explanation
Indices: 32352756--32352787 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32352746 ACAATCTAAA
32352756 TGCAAGCCGAAAGTGGG
1 TGCAAGCCGAAAGTGGG
32352773 TGCAAGCC-AAAGTGG
1 TGCAAGCCGAAAGTGG
32352788 TGGACGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.19, G:0.38, T:0.12
Consensus pattern (17 bp):
TGCAAGCCGAAAGTGGG
Found at i:32352909 original size:28 final size:28
Alignment explanation
Indices: 32352772--32352915 Score: 144
Period size: 28 Copynumber: 5.1 Consensus size: 28
32352762 CCGAAAGTGG
* * **
32352772 GTGCAAGCCAAAGTGGTGGACGGTTTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * * *
32352800 ATGCAAGCCAAAAGTGGTGGATAGTCTAA
1 GTGCAAGCC-AAAGTGGCGGACAGTCCAA
* * *
32352829 GTGCAAGCCAAAGTGGCGGGCAATCAAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * *
32352857 ATGCAAGCCAAAGTGGCGAATAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
*
32352885 GTGCAAGCCAAAGTGGCAGACAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
32352913 GTG
1 GTG
32352916 GGAGACAAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 71 0.75
29 24 0.25
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCGGACAGTCCAA
Found at i:32352924 original size:28 final size:28
Alignment explanation
Indices: 32352822--32352950 Score: 98
Period size: 28 Copynumber: 4.6 Consensus size: 28
32352812 AGTGGTGGAT
* * * *
32352822 AGTCTAAGTGCAAGCCAAAGTGGCGGGC
1 AGTCCAAGTGCAAGACAAAGTGGCAGAC
* * * * *
32352850 AATCAAAATGCAAGCCAAAGTGGC-GAAT
1 AGTCCAAGTGCAAGACAAAGTGGCAG-AC
*
32352878 AGTCCAAGTGCAAGCCAAAGTGGCAGAC
1 AGTCCAAGTGCAAGACAAAGTGGCAGAC
** * *
32352906 AGTCCAAGTGGGAGACAAAATGACAGAC
1 AGTCCAAGTGCAAGACAAAGTGGCAGAC
* *
32352934 AATCCAAGTGTAAGACA
1 AGTCCAAGTGCAAGACA
32352951 CTCCATAACA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
27 1 0.01
28 80 0.98
29 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (28 bp):
AGTCCAAGTGCAAGACAAAGTGGCAGAC
Found at i:32353914 original size:31 final size:31
Alignment explanation
Indices: 32353879--32353937 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
32353869 GTTATCATAG
* *
32353879 AAACTACAATGTAAAATTTTATTTTTTATAT
1 AAACTACAATGTAAAATTCTATATTTTATAT
** *
32353910 AAACTTTAGTGTAAAATTCTATATTTTA
1 AAACTACAATGTAAAATTCTATATTTTA
32353938 AATTTATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AAACTACAATGTAAAATTCTATATTTTATAT
Found at i:32358164 original size:2 final size:2
Alignment explanation
Indices: 32358147--32358182 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
32358137 TGTAGTACTG
* *
32358147 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32358183 TATTGAGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:32363886 original size:29 final size:29
Alignment explanation
Indices: 32363808--32363946 Score: 203
Period size: 28 Copynumber: 4.9 Consensus size: 29
32363798 CAGTCTGCCT
* *
32363808 TTTTGGCTTGCA-TTTGGACTATCTATCA
1 TTTTGGCTTGCACTTTGGACTGTCTGTCA
* *
32363836 TTTTGGCTTGCA-TTTGGACTGTCCGCCA
1 TTTTGGCTTGCACTTTGGACTGTCTGTCA
* *
32363864 CTTTGGATTGCACTTTGGACTGTCTGTCA
1 TTTTGGCTTGCACTTTGGACTGTCTGTCA
32363893 TTTTGGCTTGCAC-TTGGACTGTCTGTCA
1 TTTTGGCTTGCACTTTGGACTGTCTGTCA
32363921 TTTTGGCTTGCACTTTGGACTGTCTG
1 TTTTGGCTTGCACTTTGGACTGTCTG
32363947 CATGATCTTC
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 62 0.63
29 37 0.37
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.43
Consensus pattern (29 bp):
TTTTGGCTTGCACTTTGGACTGTCTGTCA
Found at i:32363897 original size:57 final size:57
Alignment explanation
Indices: 32363809--32363946 Score: 206
Period size: 57 Copynumber: 2.4 Consensus size: 57
32363799 AGTCTGCCTT
* * *
32363809 TTTGGCTTGCA-TTTGGACTATCTATCATTTTGGCTTGCATTTGGACTGTCCGCCAC
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCCGCCAC
* * * *
32363865 TTTGGATTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCTGTCAT
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCCGCCAC
32363922 TTTGGCTTGCACTTTGGACTGTCTG
1 TTTGGCTTGCACTTTGGACTGTCTG
32363947 CATGATCTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 10 0.14
57 63 0.86
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.43
Consensus pattern (57 bp):
TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCCGCCAC
Found at i:32364816 original size:109 final size:109
Alignment explanation
Indices: 32364703--32364899 Score: 288
Period size: 109 Copynumber: 1.8 Consensus size: 109
32364693 TTCTGACAAT
* * * *
32364703 GCTATAACGTCGCATACATGTGTCTCCACTAACTAGAGGTATAGACACAATGGATGCGTCTCCAC
1 GCTATAACGTCGCACACATGTGTCTCCACTAACTAGAAGTAGAGACACAATGGATGCATCTCCAC
32364768 TGAC-ACACCTATAGAGATGCATGCCTCGTGTCTTCATAGACTGA
66 TGACTA-ACCTATAGAGATGCATGCCTCGTGTCTTCATAGACTGA
* * * *
32364812 GCTATAGCGTCGCGCACATGTGTCTCCACTAACTAGAAGTAGAGACACAATGGATGTATCTCTAC
1 GCTATAACGTCGCACACATGTGTCTCCACTAACTAGAAGTAGAGACACAATGGATGCATCTCCAC
* *
32364877 TGACTAAGCTATGGAGATGCATG
66 TGACTAACCTATAGAGATGCATG
32364900 AGTTTTTGCA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 76 0.99
110 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (109 bp):
GCTATAACGTCGCACACATGTGTCTCCACTAACTAGAAGTAGAGACACAATGGATGCATCTCCAC
TGACTAACCTATAGAGATGCATGCCTCGTGTCTTCATAGACTGA
Found at i:32368445 original size:51 final size:51
Alignment explanation
Indices: 32368386--32368489 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
32368376 AACCATCACA
* *
32368386 AATTTTGTTCTTTCG-AATATTGATATATTAGCTCTTCTGGAGCTTTTAACT
1 AATTTTGTTC-TACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
* *
32368437 AATTTTGTTCTACGAAATATTGATATATTTGCTCTTTTGGAGCTTTCAACT
1 AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
32368488 AA
1 AA
32368490 GTTTCATATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 3 0.06
51 45 0.94
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (51 bp):
AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
Found at i:32369216 original size:21 final size:21
Alignment explanation
Indices: 32369185--32369237 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
32369175 AAAATAAGTT
* *
32369185 AATAAAATAATT-ATAACTAAT
1 AATAAATTAATTAATAA-TAAA
*
32369206 AATGAATTAATTAATAATAAA
1 AATAAATTAATTAATAATAAA
32369227 AATAAATTAAT
1 AATAAATTAAT
32369238 CAAATATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAAATTAATTAATAATAAA
Found at i:32377145 original size:24 final size:24
Alignment explanation
Indices: 32377020--32377146 Score: 119
Period size: 24 Copynumber: 5.3 Consensus size: 24
32377010 GAGTCTTGGT
* * *
32377020 GATTTGTTCAAATATTGTTCTAGC
1 GATTTGTTCACATATTATTCTGGC
* *
32377044 GATTTTTTCGCATATTATTCTGGC
1 GATTTGTTCACATATTATTCTGGC
* * *
32377068 GATCTGTTCACAAATTATTCTTGC
1 GATTTGTTCACATATTATTCTGGC
* ** * * *
32377092 GACTTGTTCGTATATTGTGCTGAC
1 GATTTGTTCACATATTATTCTGGC
32377116 GATTTGTTCACATATTATTCTGGC
1 GATTTGTTCACATATTATTCTGGC
*
32377140 GGTTTGT
1 GATTTGT
32377147 CTGTAACACT
Statistics
Matches: 77, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.46
Consensus pattern (24 bp):
GATTTGTTCACATATTATTCTGGC
Found at i:32378532 original size:21 final size:21
Alignment explanation
Indices: 32378498--32378541 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32378488 CATTAACGTG
*
32378498 TCAATATTGTGACAC-CAACAT
1 TCAATATTGCGACACTCAA-AT
*
32378519 TCAATGTTGCGACACTCAAAT
1 TCAATATTGCGACACTCAAAT
32378540 TC
1 TC
32378542 GAGGCCAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (21 bp):
TCAATATTGCGACACTCAAAT
Found at i:32379296 original size:42 final size:42
Alignment explanation
Indices: 32379249--32379333 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
32379239 AATTCATTAG
32379249 AACCCTAAATATAAAATTAATTATGAAAACTTAAGTGAGATA
1 AACCCTAAATATAAAATTAATTATGAAAACTTAAGTGAGATA
* *
32379291 AACCCTAAATATGAAATTAATTATGAACACTTAAGTGAGATA
1 AACCCTAAATATAAAATTAATTATGAAAACTTAAGTGAGATA
32379333 A
1 A
32379334 TCTTCTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (42 bp):
AACCCTAAATATAAAATTAATTATGAAAACTTAAGTGAGATA
Found at i:32380760 original size:21 final size:22
Alignment explanation
Indices: 32380726--32380767 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
32380716 ATTTAGGCTT
32380726 TATATATCATCCATCACACATA
1 TATATATCATCCATCACACATA
*
32380748 TATATAT-ATCCATTACACAT
1 TATATATCATCCATCACACAT
32380768 TCTTCTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (22 bp):
TATATATCATCCATCACACATA
Found at i:32384874 original size:88 final size:88
Alignment explanation
Indices: 32384711--32384890 Score: 270
Period size: 88 Copynumber: 2.0 Consensus size: 88
32384701 TTCACCGTTA
* *
32384711 AAAATTAGTGGTGGAGGAGGTGTAAAGCTGACTGAAGACATTTTTACAAAAAACAACAAGGAAAC
1 AAAATTAGTGGTGGAAGAGGTGTAAAGCTGACTAAAGACATTTTTACAAAAAACAACAAGGAAAC
**
32384776 ATATGTTTTTTCTTTTAGGAAAC
66 ATATGTTTTTTCTTTTAAAAAAC
* * * * *
32384799 AAAATTGGTGGTGGAAGAGGTGTAAAGCTGGCTAAAGACGTTTTTACAAAAAAACTATAAGGAAA
1 AAAATTAGTGGTGGAAGAGGTGTAAAGCTGACTAAAGACATTTTTAC-AAAAAACAACAAGGAAA
32384864 CATATGTTTTTTCTTTTAAAAAAC
65 CATATGTTTTTTCTTTTAAAAAAC
32384888 AAA
1 AAA
32384891 GGCCCTCAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 42 0.51
89 40 0.49
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (88 bp):
AAAATTAGTGGTGGAAGAGGTGTAAAGCTGACTAAAGACATTTTTACAAAAAACAACAAGGAAAC
ATATGTTTTTTCTTTTAAAAAAC
Found at i:32385421 original size:29 final size:29
Alignment explanation
Indices: 32385371--32385438 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
32385361 CACCTTTTTG
32385371 GCTTGCA-TTTGAACTGTCCGTCACTTTA
1 GCTTGCACTTTGAACTGTCCGTCACTTTA
* * *
32385399 GCTTGCACTTTGGACTGTTCGTCACTTTG
1 GCTTGCACTTTGAACTGTCCGTCACTTTA
*
32385428 GCTTGTACTTT
1 GCTTGCACTTT
32385439 AGACAACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.43
Consensus pattern (29 bp):
GCTTGCACTTTGAACTGTCCGTCACTTTA
Found at i:32389240 original size:7 final size:7
Alignment explanation
Indices: 32389228--32389253 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32389218 TAGTCTCATC
32389228 TTTATAT
1 TTTATAT
32389235 TTTATAT
1 TTTATAT
32389242 TTTATAT
1 TTTATAT
32389249 TTTAT
1 TTTAT
32389254 GCTGCCTGAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:32390158 original size:2 final size:2
Alignment explanation
Indices: 32390151--32390179 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32390141 TAACCCAATT
32390151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32390180 TAACATGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32391596 original size:11 final size:11
Alignment explanation
Indices: 32391580--32391604 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32391570 AAATTTTAAG
32391580 AAATTTAAACA
1 AAATTTAAACA
32391591 AAATTTAAACA
1 AAATTTAAACA
32391602 AAA
1 AAA
32391605 AAAAGTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAACA
Found at i:32392583 original size:35 final size:35
Alignment explanation
Indices: 32392543--32392609 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
32392533 GCTGGTTTCA
**
32392543 GTTGGATTAGCTCTTTTGAGCATTGGCGTGTTGTG
1 GTTGGATTAAATCTTTTGAGCATTGGCGTGTTGTG
*
32392578 GTTGGATTAAATCTTTTGAGTATTGGCGTGTT
1 GTTGGATTAAATCTTTTGAGCATTGGCGTGTT
32392610 TAGGGTGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.15, C:0.09, G:0.31, T:0.45
Consensus pattern (35 bp):
GTTGGATTAAATCTTTTGAGCATTGGCGTGTTGTG
Found at i:32392633 original size:35 final size:34
Alignment explanation
Indices: 32392553--32392646 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
32392543 GTTGGATTAG
* * *
32392553 CTCTTTTGAGCATTGGCGTGTTGTGGTTGGATTAA
1 CTCTTTTGAGTATTGGCGTGTT-TGGGTGGACTAA
*
32392588 ATCTTTTGAGTATTGGCGTGTTTAGGGTGGACTAA
1 CTCTTTTGAGTATTGGCGTGTTT-GGGTGGACTAA
* *
32392623 CTCTTGTGAGTACTTGGTGTGTTT
1 CTCTTTTGAGTA-TTGGCGTGTTT
32392647 TGGAGGGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 39 0.78
36 10 0.20
ACGTcount: A:0.15, C:0.11, G:0.31, T:0.44
Consensus pattern (34 bp):
CTCTTTTGAGTATTGGCGTGTTTGGGTGGACTAA
Found at i:32402428 original size:13 final size:13
Alignment explanation
Indices: 32402410--32402434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32402400 TATAGATACT
32402410 AAACATTAAATTC
1 AAACATTAAATTC
32402423 AAACATTAAATT
1 AAACATTAAATT
32402435 ATTGTTTTGG
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAACATTAAATTC
Found at i:32402555 original size:27 final size:29
Alignment explanation
Indices: 32402490--32402555 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
32402480 AACTATTTGG
32402490 AAGTTTTCATTTAAGTCACTGAACTATTCA
1 AAGTTTTCATTTAAGTCACTGAACTATT-A
* * *
32402520 ATAGTTTTTATTTAAGTCATTGGACTATT-
1 A-AGTTTTCATTTAAGTCACTGAACTATTA
32402549 AAGTTTT
1 AAGTTTT
32402556 TTTTTAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 1 0.03
30 1 0.03
31 24 0.75
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (29 bp):
AAGTTTTCATTTAAGTCACTGAACTATTA
Found at i:32411625 original size:17 final size:17
Alignment explanation
Indices: 32411603--32411635 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32411593 ATTTAACAAT
32411603 CAAACAAGCTTACATAG
1 CAAACAAGCTTACATAG
32411620 CAAACAAGCTTACATA
1 CAAACAAGCTTACATA
32411636 CCTTATGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAACAAGCTTACATAG
Found at i:32416607 original size:2 final size:2
Alignment explanation
Indices: 32416600--32416625 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32416590 AGCATGCATG
32416600 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
32416626 AATAAAGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32431069 original size:1 final size:1
Alignment explanation
Indices: 32431065--32431159 Score: 82
Period size: 1 Copynumber: 95.0 Consensus size: 1
32431055 AAAAATATCC
* * * * * * *
32431065 AAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAACAAAAAAGAAGAAAAAATAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
32431130 AAGAAGAAAAAACAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32431160 CCCCGCTGGG
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.01
Consensus pattern (1 bp):
A
Found at i:32431087 original size:19 final size:19
Alignment explanation
Indices: 32431065--32431159 Score: 102
Period size: 19 Copynumber: 5.0 Consensus size: 19
32431055 AAAAATATCC
32431065 AAAAAAAAAA-AAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
*
32431083 AAAAAAAAAACAAAAAAACA
1 AAAAAAAAAAGAAAAAAA-A
* *
32431103 AAACAAAAAAGAAGAAAAA
1 AAAAAAAAAAGAAAAAAAA
* * *
32431122 ATAGAAAAAAGAAGAAAAA
1 AAAAAAAAAAGAAAAAAAA
* *
32431141 ACAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
32431160 CCCCGCTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.15
19 42 0.62
20 16 0.24
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAA
Found at i:32431684 original size:14 final size:14
Alignment explanation
Indices: 32431659--32431705 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
32431649 AAAAGATGTG
32431659 AAAAAATG-AAAAT
1 AAAAAATGAAAAAT
32431672 AAAAAATGAAAAAT
1 AAAAAATGAAAAAT
*
32431686 GAAAAATGGAAAAAAT
1 AAAAAAT-G-AAAAAT
32431702 AAAA
1 AAAA
32431706 TTGGATAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.28
14 11 0.38
15 1 0.03
16 9 0.31
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (14 bp):
AAAAAATGAAAAAT
Found at i:32433117 original size:50 final size:50
Alignment explanation
Indices: 32433060--32433622 Score: 201
Period size: 50 Copynumber: 11.3 Consensus size: 50
32433050 GTAGCAATTA
* *
32433060 AAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGTGTAGTGG
1 AAAAGATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
** * * * * * * * * *** * **
32433110 AGCAGATTGAAGTCACAACGCCAGGTCTGGTTTCCCCGACAGCATAATTA
1 AAAAGATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
* *
32433160 AAAAGATTGAAGCCACAACCG-C-GTATCTTACTTCCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAA-CGACAG-ATCTTGCTTCCCTGGCGGTGCAGTGG
* * * * * * * * * * * * **
32433210 AACAGATTGAAGTCATAACGGCAGGTCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
* * *
32433260 AAAAGATTGAAGCCACAACGGA-GGATTTTGCTTCCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAAC-GACAGATCTTGCTTCCCTGGCGGTGCAGTGG
** * * * * * * * * * **
32433310 AGTAGATTGAAGTCACAACGGCGGATCTGGTTTCCAC-GACAGCGCAATTA
1 AAAAGATTGAAGCCACAACGACAGATCTTGCTTCC-CTGGCGGTGCAGTGG
* **
32433360 AAAAGATTGAAGCCACAACGACGGATCTTATTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
** * * * * * * * * *
32433410 AGCAGATTGAAGTCACAAC-AGCAGGTC-TGGTTTCCTCGACAGCGCAAT-T
1 AAAAGATTGAAGCCACAACGA-CAGATCTTGCTTCCCT-GGCGGTGCAGTGG
** *
32433459 AAAAGGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAA-GATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
** * * * * * * * * * *
32433510 AGCAGATTGAAGTCACAACGGC-GAATCTGGTTTCCCCGACAGCGCAAT-T
1 AAAAGATTGAAGCCACAACGACAG-ATCTTGCTTCCCTGGCGGTGCAGTGG
* * * * *
32433559 AAAAGGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCGGTGCAGCT-G
1 AAAA-GATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAG-TGG
*
32433610 AACAGATTGAAGC
1 AAAAGATTGAAGC
32433623 TACGACAGCG
Statistics
Matches: 348, Mismatches: 147, Indels: 36
0.66 0.28 0.07
Matches are distributed among these distances:
49 17 0.05
50 313 0.90
51 18 0.05
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGACAGATCTTGCTTCCCTGGCGGTGCAGTGG
Found at i:32433650 original size:100 final size:100
Alignment explanation
Indices: 32433053--32433621 Score: 815
Period size: 100 Copynumber: 5.7 Consensus size: 100
32433043 TCTTGACGTA
* * *
32433053 GCAATTAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
*
32433118 GAAGTCACAACGCCAGGTCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGGTCTGGTTTCCCCGACAGC
** * *
32433153 ATAATTAAAAAGATTGAAGCCACAACCGC-GTATCTTACTTCCCTAGCGGTGCAGTGGAACAGAT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAG-ATCTTACTTCCCTAGCGGTGCAGTGGAGCAGAT
*
32433217 TGAAGTCATAACGGCAGGTCTGGTTTCCCCGACAGC
65 TGAAGTCACAACGGCAGGTCTGGTTTCCCCGACAGC
* * *
32433253 GCAATTAAAAAGATTGAAGCCACAACGG-AGGATTTTGCTTCCCTAGCGGTGCAGTGGAGTAGAT
1 GCAATTAAAAAGATTGAAGCCACAACGGCA-GATCTTACTTCCCTAGCGGTGCAGTGGAGCAGAT
*
32433317 TGAAGTCACAACGGC-GGATCTGGTTTCCACGACAGC
65 TGAAGTCACAACGGCAGG-TCTGGTTTCCCCGACAGC
* * * *
32433353 GCAATTAAAAAGATTGAAGCCACAACGACGGATCTTATTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
* *
32433418 GAAGTCACAACAGCAGGTCTGGTTTCCTCGACAGC
66 GAAGTCACAACGGCAGGTCTGGTTTCCCCGACAGC
* * *
32433453 GCAATTAAAAGGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
*
32433518 GAAGTCACAACGGC-GAATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAG-GTCTGGTTTCCCCGACAGC
* * * *
32433553 GCAATTAAAAGGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCGGTGCAGCT-GAACAGAT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAG-TGGAGCAGAT
32433617 TGAAG
65 TGAAG
32433622 CTACGACAGC
Statistics
Matches: 421, Mismatches: 40, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
99 4 0.01
100 413 0.98
101 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCAGGTCTGGTTTCCCCGACAGC
Found at i:32444563 original size:40 final size:40
Alignment explanation
Indices: 32444492--32444586 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
32444482 GTTTGCAATT
* *
32444492 CTGGTGGCTTGTCCATAATTCTGGCAGTTTATCTACATTA
1 CTGGTGGCTTGTCCACAATTCTAGCAGTTTATCTACATTA
* * **
32444532 CTGGTGGCTTGTCCAC-ATATCTAGTATTTTATCTGTATTA
1 CTGGTGGCTTGTCCACAAT-TCTAGCAGTTTATCTACATTA
32444572 CTGGTGGCTTGTCCA
1 CTGGTGGCTTGTCCA
32444587 TAAATTGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (40 bp):
CTGGTGGCTTGTCCACAATTCTAGCAGTTTATCTACATTA
Found at i:32457002 original size:23 final size:21
Alignment explanation
Indices: 32456972--32457014 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32456962 GAACAAATGA
32456972 TTTTAAAACCATTAAAATTATTT
1 TTTTAAAA-CA-TAAAATTATTT
*
32456995 TTTTAAAATATAAAATTATT
1 TTTTAAAACATAAAATTATT
32457015 AAATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAACATAAAATTATTT
Found at i:32457940 original size:14 final size:15
Alignment explanation
Indices: 32457914--32457944 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
32457904 ATAAACATTA
32457914 AAAATATATTTTAAT
1 AAAATATATTTTAAT
32457929 AAAATA-ATTTTAAT
1 AAAATATATTTTAAT
32457943 AA
1 AA
32457945 TTTTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATATTTTAAT
Found at i:32459002 original size:20 final size:21
Alignment explanation
Indices: 32458964--32459002 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
32458954 TATTGGCATT
*
32458964 TAGTTGAGTAGTTGGATTGTA
1 TAGTTGAGTAGTTGAATTGTA
*
32458985 TAGTTGA-TAGTTTAATTG
1 TAGTTGAGTAGTTGAATTG
32459003 GTAGCTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TAGTTGAGTAGTTGAATTGTA
Found at i:32460566 original size:14 final size:17
Alignment explanation
Indices: 32460531--32460566 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
32460521 GGAATGGTGA
32460531 ATTGATGAGAAATTGAG
1 ATTGATGAGAAATTGAG
32460548 ATTGAT-AG-AATTG-G
1 ATTGATGAGAAATTGAG
32460562 ATTGA
1 ATTGA
32460567 ATTTATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 5 0.26
16 2 0.11
17 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (17 bp):
ATTGATGAGAAATTGAG
Found at i:32460679 original size:43 final size:43
Alignment explanation
Indices: 32460617--32460873 Score: 264
Period size: 43 Copynumber: 6.0 Consensus size: 43
32460607 TAGGTGACTT
* *
32460617 TTCGGTTTATTCCAATGATGCACTGTGTGTGCTAGTAGATTTAC
1 TTCGGTTTA-TCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * *
32460661 TTCGGTTTATCCAATGATGCGCTGTGTGTGATAGTATAGTTGC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
32460704 TTCAGCTTATCCAATGATGCACTGTGTGTG-TCGATATACTTAC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGCTAG-TATAGTTAC
* * * * * * *
32460747 TTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAGTTGC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * * *
32460790 TTCGGTATATTCGATGATGCACCGTGTGTGCCAGTATAGTTAC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
32460833 TTCTGTATATCCAATGATGCATTGTGGGTGCTAGTATAGTT
1 TTCGGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTT
32460874 GCTTTGGTAT
Statistics
Matches: 174, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
42 2 0.01
43 161 0.93
44 11 0.06
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (43 bp):
TTCGGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
Found at i:32460733 original size:86 final size:86
Alignment explanation
Indices: 32460627--32460877 Score: 299
Period size: 86 Copynumber: 2.9 Consensus size: 86
32460617 TTCGGTTTAT
* * ** *
32460627 TCCAATGATGCACTGTGTGTGCTAGTAGATTTACTTCGGTTTATCCAATGATGCGCTGTGTGTGA
1 TCCAATGATGCACTGTGTGTGCTAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
32460692 TAGTATAGTTGCTTCAGCT-TA
66 TAGTATAGTTGCTTC-GCTATA
* * *
32460713 TCCAATGATGCACTGTGTGTG-TCGATATACTTACTTCGGTTTATACGATGATGCATTGTGGGTG
1 TCCAATGATGCACTGTGTGTGCTAG-TATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTG
* * *
32460777 TTAGAATAGTTGCTTCGGTATA
65 ATAGTATAGTTGCTTCGCTATA
* * * * * * * *
32460799 TTCGATGATGCACCGTGTGTGCCAGTATAGTTACTTCTGTATATCCAATGATGCATTGTGGGTGC
1 TCCAATGATGCACTGTGTGTGCTAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
32460864 TAGTATAGTTGCTT
66 TAGTATAGTTGCTT
32460878 TGGTATACCT
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
85 4 0.03
86 134 0.96
87 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (86 bp):
TCCAATGATGCACTGTGTGTGCTAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
TAGTATAGTTGCTTCGCTATA
Found at i:32461616 original size:29 final size:29
Alignment explanation
Indices: 32461583--32461646 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
32461573 TTTTTGACTC
32461583 TAGATTGTAGGCCTTATAAATGAATGTGG
1 TAGATTGTAGGCCTTATAAATGAATGTGG
*
32461612 TAGATTGTAGGCTTTATAAATGAATGTGG
1 TAGATTGTAGGCCTTATAAATGAATGTGG
32461641 TAGATT
1 TAGATT
32461647 TATGCCACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (29 bp):
TAGATTGTAGGCCTTATAAATGAATGTGG
Found at i:32461704 original size:22 final size:22
Alignment explanation
Indices: 32461674--32461729 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
32461664 CTGTGGTGTA
*
32461674 GTGGTAAGGTGGCGACACAGGT
1 GTGGCAAGGTGGCGACACAGGT
*
32461696 GTGGCAAGGAGGTGGTGACACAGGT
1 GTGGC-A--AGGTGGCGACACAGGT
32461721 GTGGCAAGG
1 GTGGCAAGG
32461730 AGGTTAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 1 0.03
24 1 0.03
25 20 0.69
ACGTcount: A:0.23, C:0.12, G:0.48, T:0.16
Consensus pattern (22 bp):
GTGGCAAGGTGGCGACACAGGT
Found at i:32461708 original size:25 final size:25
Alignment explanation
Indices: 32461680--32461733 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
32461670 TGTAGTGGTA
32461680 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
*
32461705 AGGTGGTGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
32461730 AGGT
1 AGGT
32461734 TAGAGGTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.13, G:0.48, T:0.15
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:32463264 original size:27 final size:26
Alignment explanation
Indices: 32463228--32463443 Score: 216
Period size: 27 Copynumber: 8.0 Consensus size: 26
32463218 AAAGGTTGTT
* *
32463228 AAATGACCAAAATACCCCCATAGGGTA
1 AAATTACCAAAATACCCCGAT-GGGTA
* *
32463255 AAATAACCAAAATACCCTCGATGGTTA
1 AAATTACCAAAATACCC-CGATGGGTA
* * *
32463282 AAATTATCGAAATACCCCTTATGGGTA
1 AAATTACCAAAATACCCC-GATGGGTA
* * **
32463309 AAATTATCGAAATACTCTTGATGGGTA
1 AAATTACCAAAATAC-CCCGATGGGTA
*
32463336 AAATTACCGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCC-CGATGGGTA
*
32463363 AAATTACCAAAATACCCCCAATGGGTA
1 AAATTACCAAAATA-CCCCGATGGGTA
**
32463390 AAATTACTGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCC-CGATGGGTA
*
32463417 AAATTACCAAAATACCCCAATAGGGTA
1 AAATTACCAAAATACCCCGAT-GGGTA
32463444 GAATGACCGT
Statistics
Matches: 160, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.05
27 145 0.91
28 7 0.04
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATGGGTA
Found at i:32463308 original size:54 final size:53
Alignment explanation
Indices: 32463237--32463433 Score: 245
Period size: 54 Copynumber: 3.7 Consensus size: 53
32463227 TAAATGACCA
* * *
32463237 AAATACCC-CCATAGGGTAAAATAACCAAAATACCCTCGATGGTTAAAATTATCG
1 AAATACCCTCGAT-GGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTA-CG
* * * * *
32463291 AAATACCC-CTTATGGGTAAAATTATCGAAATACTCTTGATGGGTAAAATTACCG
1 AAATACCCTC-GATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTA-CG
* *
32463345 AAATACCCTCGATGGGTAAAATTACCAAAATACCCCCAATGGGTAAAATTACTG
1 AAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTAC-G
32463399 AAATACCCTCGATGGGTAAAATTACCAAAATACCC
1 AAATACCCTCGATGGGTAAAATTACCAAAATACCC
32463434 CAATAGGGTA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 121 0.97
55 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (53 bp):
AAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACG
Found at i:32463443 original size:81 final size:81
Alignment explanation
Indices: 32463237--32463433 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
32463227 TAAATGACCA
* * * * * *
32463237 AAATACCC-CCATAGGGTAAAATAACCAAAATACCCTCGATGGTTAAAATTATCGAAATACCCCT
1 AAATACCCTCGAT-GGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCC
*
32463301 TATGGGTAAAATTATCG
65 AATGGGTAAAATTATCG
* * *
32463318 AAATACTCTTGATGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCCCA
1 AAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCCA
32463383 ATGGGTAAAATTA-CTG
66 ATGGGTAAAATTATC-G
32463399 AAATACCCTCGATGGGTAAAATTACCAAAATACCC
1 AAATACCCTCGATGGGTAAAATTACCAAAATACCC
32463434 CAATAGGGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 98 0.97
82 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (81 bp):
AAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCCA
ATGGGTAAAATTATCG
Found at i:32470024 original size:7 final size:7
Alignment explanation
Indices: 32470012--32470043 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
32470002 TTATTATCAT
32470012 AACCCTA
1 AACCCTA
32470019 AACCCTA
1 AACCCTA
32470026 AACCCTA
1 AACCCTA
32470033 AACCCTA
1 AACCCTA
32470040 AACC
1 AACC
32470044 ACTCATTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Found at i:32478993 original size:20 final size:19
Alignment explanation
Indices: 32478956--32478992 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
32478946 CTTTTGTTTC
32478956 TCTTTATTCTCTTCTTTTA
1 TCTTTATTCTCTTCTTTTA
32478975 TCTTT-TTCTCTCTCTTTT
1 TCTTTATTCTCT-TCTTTT
32478993 TGGAAATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTATTCTCTTCTTTTA
Found at i:32480195 original size:21 final size:21
Alignment explanation
Indices: 32480171--32480240 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
32480161 GGGCACACAC
32480171 CCATGTGACTGAGGGACACGA
1 CCATGTGACTGAGGGACACGA
* * * *
32480192 CCATATGGCTGAGAGACATG-
1 CCATGTGACTGAGGGACACGA
*
32480212 CCTGTGTGACTG-GGGTACACGA
1 CC-ATGTGACTGAGGG-ACACGA
*
32480234 CCGTGTG
1 CCATGTG
32480241 GGCAGACCGT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.11
21 31 0.84
22 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (21 bp):
CCATGTGACTGAGGGACACGA
Found at i:32480866 original size:3 final size:3
Alignment explanation
Indices: 32480860--32480891 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
32480850 TTTTTTGTTG
32480860 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32480892 AAACAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32486333 original size:17 final size:18
Alignment explanation
Indices: 32486307--32486342 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
32486297 CACTATCCTA
*
32486307 TATTAGTTTATT-TAATT
1 TATTAATTTATTATAATT
32486324 TATTAATTTATTATAATT
1 TATTAATTTATTATAATT
32486342 T
1 T
32486343 TCTAACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTAATTTATTATAATT
Done.