Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 106 of 213
Found at i:30109020 original size:17 final size:17
Alignment explanation
Indices: 30108984--30109022 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30108974 TTTTATAATG
*
30108984 GATTGGAAGTTTGTTAA
1 GATTGGAAGTTTGTCAA
30109001 GATTGGAAG-TTGTCAGA
1 GATTGGAAGTTTGTCA-A
30109018 GATTG
1 GATTG
30109023 CATCACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.36
Consensus pattern (17 bp):
GATTGGAAGTTTGTCAA
Found at i:30113446 original size:81 final size:81
Alignment explanation
Indices: 30113345--30113615 Score: 228
Period size: 81 Copynumber: 3.3 Consensus size: 81
30113335 TCCTTGGCGA
* * * * * *
30113345 CAGTTTT-CAAAGCTTGTTCACTATCTTTCTTTACTGGTTCAACTTCTTGTGATGGTGGCTTTGC
1 CAGTTTTGC-AAGCTTCTTCACTATCTTTCTTTAATGGTGCAACTTCTTGTGAAGCTGGCTTGGC
** *
30113409 TTCA-GAATCTTTTATTT
65 TTCAGGAA-CTTCGACTT
* * *
30113426 CAGTTTTGCAAGCTTCTTCACTATCTTTCTTCAATGGTGGAACTTCTTGTGAAGCTGGGTTGGCT
1 CAGTTTTGCAAGCTTCTTCACTATCTTTCTTTAATGGTGCAACTTCTTGTGAAGCTGGCTTGGCT
30113491 TCAGGAACTTCGACTT
66 TCAGGAACTTCGACTT
* * * * ** *
30113507 CATTTTTGGAAGCTTCTTCACTCTCTTTCTTTAAAGGTGGGGAC-TCTTGTGACAG-TGGCTTTG
1 CAGTTTTGCAAGCTTCTTCACTATCTTTCTTTAATGGT-GCAACTTCTTGTGA-AGCTGGCTTGG
* * **
30113570 CTT-TGGAATTTTCGGTTT
64 CTTCAGGAA-CTTCGACTT
***
30113588 CAGTTTTTTTAGCTTCTTCACTATCTTT
1 CAGTTTTGCAAGCTTCTTCACTATCTTT
30113616 GCTTGATGGA
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
80 4 0.03
81 142 0.91
82 10 0.06
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (81 bp):
CAGTTTTGCAAGCTTCTTCACTATCTTTCTTTAATGGTGCAACTTCTTGTGAAGCTGGCTTGGCT
TCAGGAACTTCGACTT
Found at i:30115433 original size:18 final size:18
Alignment explanation
Indices: 30115378--30115483 Score: 86
Period size: 18 Copynumber: 5.9 Consensus size: 18
30115368 CTACATCACC
* * *
30115378 TGCAGGTGGCTCTGTACT
1 TGCAGGTGGATCCGTAGT
* * * *
30115396 TGTAGGCGGATCAGTTGT
1 TGCAGGTGGATCCGTAGT
*
30115414 TGTAGGTGGATCCGTAGT
1 TGCAGGTGGATCCGTAGT
*
30115432 TGCAGGTGGATCCATAGT
1 TGCAGGTGGATCCGTAGT
* * *
30115450 TGCAGGTGCATCTGTACT
1 TGCAGGTGGATCCGTAGT
* *
30115468 TGCAGGAGGACCCGTA
1 TGCAGGTGGATCCGTA
30115484 CTTGGCGATG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (18 bp):
TGCAGGTGGATCCGTAGT
Found at i:30118199 original size:64 final size:64
Alignment explanation
Indices: 30118093--30118225 Score: 248
Period size: 64 Copynumber: 2.1 Consensus size: 64
30118083 ATCGAACTCT
* *
30118093 ACTTGAGAGATGCGAGATTTTTGAACGTGGCCCTTATGGGTGAGGGGTGTAAATTGAACCCCAC
1 ACTTGAGAGATGCGAGATTTTTGAACGTGGCCCTTATAGGTGAGGGGTGTAAATTGAACCACAC
30118157 ACTTGAGAGATGCGAGATTTTTGAACGTGGCCCTTATAGGTGAGGGGTGTAAATTGAACCACAC
1 ACTTGAGAGATGCGAGATTTTTGAACGTGGCCCTTATAGGTGAGGGGTGTAAATTGAACCACAC
30118221 ACTTG
1 ACTTG
30118226 TAAGCGCGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (64 bp):
ACTTGAGAGATGCGAGATTTTTGAACGTGGCCCTTATAGGTGAGGGGTGTAAATTGAACCACAC
Found at i:30119009 original size:24 final size:24
Alignment explanation
Indices: 30118982--30119028 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30118972 TTTTTTAAAT
*
30118982 TTGAATTATATAA-TATTAGTATAG
1 TTGAATTATA-AATTAATAGTATAG
*
30119006 TTGACTTATAAATTAATAGTATA
1 TTGAATTATAAATTAATAGTATA
30119029 TATAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
TTGAATTATAAATTAATAGTATAG
Found at i:30120405 original size:17 final size:17
Alignment explanation
Indices: 30120363--30120399 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
30120353 CTAAAAGTTC
*
30120363 AAAAATAATGCATTGAA
1 AAAAATAATGCACTGAA
30120380 AAAAATAATGCACTGAA
1 AAAAATAATGCACTGAA
30120397 AAA
1 AAA
30120400 TCTAATCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAAATAATGCACTGAA
Found at i:30120650 original size:21 final size:22
Alignment explanation
Indices: 30120617--30120676 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 22
30120607 TTTACATCTC
30120617 AAAAAAT-TATAAAAAAAAC-T
1 AAAAAATATATAAAAAAAACTT
* *
30120637 AAAGAGTATATAAAAATAAACTT
1 AAAAAATATATAAAAA-AAACTT
30120660 AAAAAATATATAAAAAA
1 AAAAAATATATAAAAAA
30120677 CCCTTAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 5 0.15
23 15 0.45
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
AAAAAATATATAAAAAAAACTT
Found at i:30123246 original size:16 final size:16
Alignment explanation
Indices: 30123227--30123257 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30123217 ATATTAATCT
30123227 AATACTAATATAATAG
1 AATACTAATATAATAG
*
30123243 AATACTAATCTAATA
1 AATACTAATATAATA
30123258 CCAATAGAAT
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:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (16 bp):
AATACTAATATAATAG
Found at i:30123246 original size:27 final size:27
Alignment explanation
Indices: 30123216--30123280 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
30123206 ATCACTAACA
* * *
30123216 AATATTAATCTAATACTAATATAATAG
1 AATACTAATCTAATACCAATAGAATAG
30123243 AATACTAATCTAATACCAATAGAATAG
1 AATACTAATCTAATACCAATAGAATAG
30123270 AAAATACTAAT
1 --AATACTAAT
30123281 AGAATAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 24 0.73
29 9 0.27
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (27 bp):
AATACTAATCTAATACCAATAGAATAG
Found at i:30123281 original size:18 final size:18
Alignment explanation
Indices: 30123254--30123290 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30123244 ATACTAATCT
30123254 AATACCAATAGAATAGAA
1 AATACCAATAGAATAGAA
*
30123272 AATACTAATAGAATAGAA
1 AATACCAATAGAATAGAA
30123290 A
1 A
30123291 GAAAGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (18 bp):
AATACCAATAGAATAGAA
Found at i:30128881 original size:39 final size:39
Alignment explanation
Indices: 30128827--30128907 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
30128817 CTAACTATTT
*
30128827 AACTAAATTTCTAAAATCTTGTTACAGTATTTTTAGAAC
1 AACTAAATTTCTAAAATCTTGTTACAGTATTTTCAGAAC
30128866 AACTAAATTTCTAAAATCTTGTTACAGTATTTTCAGAAC
1 AACTAAATTTCTAAAATCTTGTTACAGTATTTTCAGAAC
30128905 AAC
1 AAC
30128908 CATATTAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (39 bp):
AACTAAATTTCTAAAATCTTGTTACAGTATTTTCAGAAC
Found at i:30129419 original size:25 final size:25
Alignment explanation
Indices: 30129371--30129419 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30129361 TCAATTTATT
* *
30129371 TCATAAACAATAAATATCCCTTAAC
1 TCATAAACAATAAATAGCCATTAAC
* *
30129396 TCATAATCACTAAATAGCCATTAA
1 TCATAAACAATAAATAGCCATTAA
30129420 TATGACTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (25 bp):
TCATAAACAATAAATAGCCATTAAC
Found at i:30130628 original size:22 final size:22
Alignment explanation
Indices: 30130603--30130645 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30130593 TATATATTAA
30130603 CTTTTAGTTGAATCTTTTCTTC
1 CTTTTAGTTGAATCTTTTCTTC
* **
30130625 CTTTTATTTTTATCTTTTCTT
1 CTTTTAGTTGAATCTTTTCTT
30130646 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.67
Consensus pattern (22 bp):
CTTTTAGTTGAATCTTTTCTTC
Found at i:30130722 original size:25 final size:24
Alignment explanation
Indices: 30130694--30130741 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30130684 AAAATGACAA
* *
30130694 TTAATTAATTTCATTTAAAAATTAT
1 TTAATGAA-TTCATCTAAAAATTAT
*
30130719 TTAATGAATTCATCTCAAAATTA
1 TTAATGAATTCATCTAAAAATTA
30130742 ATATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (24 bp):
TTAATGAATTCATCTAAAAATTAT
Found at i:30131043 original size:29 final size:29
Alignment explanation
Indices: 30131010--30131088 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
30131000 ATTAGCGTGA
*
30131010 TTCTGTTTTGATCACTCATGTTTA-AAAAT
1 TTCTGTTTT-ATCACTCATGTTGACAAAAT
*
30131039 TTCTGTTTTAGTCACTAATGTTGACAAAAT
1 TTCTGTTTTA-TCACTCATGTTGACAAAAT
* *
30131069 TTAATGTTTTAATCGCTCAT
1 TT-CTGTTTT-ATCACTCAT
30131089 CCGTTAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 20 0.49
30 7 0.17
31 12 0.29
32 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (29 bp):
TTCTGTTTTATCACTCATGTTGACAAAAT
Found at i:30131359 original size:20 final size:20
Alignment explanation
Indices: 30131303--30131351 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30131293 TCATTTTTCA
**
30131303 ATAAAAATACATCA-AATTTT
1 ATAAAAATACAT-ATAAAATT
30131323 ATAAAAATACATATAAAATT
1 ATAAAAATACATATAAAATT
30131343 ATAAAAATA
1 ATAAAAATA
30131352 TTTATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAATACATATAAAATT
Found at i:30132086 original size:7 final size:7
Alignment explanation
Indices: 30132076--30132106 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
30132066 TTTTAAATTT
30132076 TTTTAAA
1 TTTTAAA
30132083 TTTTAAA
1 TTTTAAA
30132090 TTTTAAA
1 TTTTAAA
30132097 TTTTAAA
1 TTTTAAA
30132104 TTT
1 TTT
30132107 AATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Found at i:30133664 original size:13 final size:13
Alignment explanation
Indices: 30133646--30133688 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
30133636 TAGATTTTTC
30133646 CTAAATATTATCA
1 CTAAATATTATCA
*
30133659 CTAAATA--AT-T
1 CTAAATATTATCA
30133669 CTAAATATTATCA
1 CTAAATATTATCA
30133682 CTAAATA
1 CTAAATA
30133689 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:30133676 original size:23 final size:23
Alignment explanation
Indices: 30133646--30133697 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
30133636 TAGATTTTTC
30133646 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
30133669 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
30133692 CAAAAT
1 CTAAAT
30133698 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:30138100 original size:17 final size:17
Alignment explanation
Indices: 30138080--30138114 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30138070 ACAAATTCAA
30138080 AAATGCAAAAATAAAAT
1 AAATGCAAAAATAAAAT
* *
30138097 AAATGGATAAATAAAAT
1 AAATGCAAAAATAAAAT
30138114 A
1 A
30138115 TTTTTTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (17 bp):
AAATGCAAAAATAAAAT
Found at i:30138960 original size:13 final size:13
Alignment explanation
Indices: 30138942--30138984 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
30138932 TAGGATTTTC
30138942 CTAAATATTATCA
1 CTAAATATTATCA
*
30138955 CTAAATA--AT-T
1 CTAAATATTATCA
30138965 CTAAATATTATCA
1 CTAAATATTATCA
30138978 CTAAATA
1 CTAAATA
30138985 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:30138972 original size:23 final size:23
Alignment explanation
Indices: 30138942--30138993 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
30138932 TAGGATTTTC
30138942 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
30138965 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
30138988 CAAAAT
1 CTAAAT
30138994 TTAGAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:30140797 original size:23 final size:25
Alignment explanation
Indices: 30140744--30140798 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
30140734 ATCTTTAGAA
*
30140744 AAAATAATAACACGTAGAAATAATT
1 AAAATAATAACACATAGAAATAATT
* *
30140769 AGAAATAA-AACACATGGAAA-ATTT
1 A-AAATAATAACACATAGAAATAATT
30140793 AAAATA
1 AAAATA
30140799 CTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 11 0.42
26 6 0.23
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (25 bp):
AAAATAATAACACATAGAAATAATT
Found at i:30141047 original size:14 final size:15
Alignment explanation
Indices: 30141018--30141055 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
30141008 GTTTAAGGAG
*
30141018 TATGGATTTAGTGAT
1 TATGGATTTAGGGAT
30141033 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
30141047 TATGG-TTTA
1 TATGGATTTA
30141056 TGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:30141057 original size:21 final size:21
Alignment explanation
Indices: 30141032--30141086 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
30141022 GATTTAGTGA
*
30141032 TTATGGATTAGGGA-TTATGGT
1 TTATGG-TTAGGGATTTAAGGT
30141053 TTATGGGTT-GGGATTTAAGGT
1 TTAT-GGTTAGGGATTTAAGGT
30141074 TTAGTGGTTAGGG
1 TTA-TGGTTAGGG
30141087 GTTAGGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
TTATGGTTAGGGATTTAAGGT
Found at i:30141097 original size:22 final size:21
Alignment explanation
Indices: 30141071--30141122 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
30141061 TGGGATTTAA
* *
30141071 GGTTTAGTGGTTAGGGGTTAGG
1 GGTTTAG-GGTTAAGAGTTAGG
30141093 GGTTTAAGGGTTAAGAGTTAGG
1 GGTTT-AGGGTTAAGAGTTAGG
*
30141115 GATTTAGG
1 GGTTTAGG
30141123 ATTTAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.81
23 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (21 bp):
GGTTTAGGGTTAAGAGTTAGG
Found at i:30141203 original size:25 final size:25
Alignment explanation
Indices: 30141171--30141218 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
30141161 AGATTAATTA
*
30141171 TTTTTTAATTTATATTTTAAATATG
1 TTTTTTAATTTATATATTAAATATG
30141196 TTTTTTAATTTATATATTAAATA
1 TTTTTTAATTTATATATTAAATA
30141219 ATTTCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTAATTTATATATTAAATATG
Found at i:30141400 original size:14 final size:15
Alignment explanation
Indices: 30141375--30141411 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
30141365 GGGATTATAT
30141375 ATGGATTTAGGGATC
1 ATGGATTTAGGGATC
*
30141390 ATGGA-TTAGGGATT
1 ATGGATTTAGGGATC
30141404 ATGG-TTTA
1 ATGGATTTA
30141412 AGGGTTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.27, C:0.03, G:0.32, T:0.38
Consensus pattern (15 bp):
ATGGATTTAGGGATC
Found at i:30141420 original size:21 final size:21
Alignment explanation
Indices: 30141406--30141480 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
30141396 TAGGGATTAT
*
30141406 GGTTTAAGGGTTAGGATTTAA
1 GGTTTAAGGGTTAGGAGTTAA
*
30141427 GGTTT-AGAGGTTAGGAGTTAG
1 GGTTTAAG-GGTTAGGAGTTAA
* *
30141448 GGGTTAAGGGTTAAGAGTTAGA
1 GGTTTAAGGGTTAGGAGTTA-A
*
30141470 GATTT-AGGGTT
1 GGTTTAAGGGTT
30141481 TCAAGGGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 2 0.05
21 37 0.84
22 5 0.11
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGAGTTAA
Found at i:30141460 original size:14 final size:14
Alignment explanation
Indices: 30141409--30141505 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
30141399 GGATTATGGT
**
30141409 TTAAGGGTTAGGAT
1 TTAAGGGTTAGGGG
* *
30141423 TTAAGGTTTAGAGG
1 TTAAGGGTTAGGGG
30141437 TT-AGGAGTTAGGGG
1 TTAAGG-GTTAGGGG
* *
30141451 TTAAGGGTTAAGAG
1 TTAAGGGTTAGGGG
** *
30141465 TTAGAGATTTAGGGT
1 TTA-AGGGTTAGGGG
30141480 TTCAAGGGTT--GGG
1 TT-AAGGGTTAGGGG
*
30141493 TTAAGGTTTAGGG
1 TTAAGGGTTAGGG
30141506 TTTAGATTAA
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
12 6 0.10
13 7 0.12
14 31 0.52
15 15 0.25
16 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.39, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:30141614 original size:25 final size:24
Alignment explanation
Indices: 30141578--30141627 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
30141568 ATAATAATAA
*
30141578 ATTTAATGTATTGC-ATACATAAAT
1 ATTTAATGTATT-CAATACAAAAAT
*
30141602 ATTTATATTTATTCAATACAAAAAT
1 ATTTA-ATGTATTCAATACAAAAAT
30141627 A
1 A
30141628 GATTGATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTTAATGTATTCAATACAAAAAT
Found at i:30142395 original size:19 final size:19
Alignment explanation
Indices: 30142373--30142420 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
30142363 TCTCATTCTC
*
30142373 CCCCAAACCCCTAAAATTT
1 CCCCAAACCCCTAAAAGTT
* * **
30142392 CCCCTAATCCCTAATCGTT
1 CCCCAAACCCCTAAAAGTT
30142411 CCCCAAACCC
1 CCCCAAACCC
30142421 AACCACCTGC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.48, G:0.02, T:0.21
Consensus pattern (19 bp):
CCCCAAACCCCTAAAAGTT
Found at i:30146226 original size:43 final size:43
Alignment explanation
Indices: 30146178--30146359 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
30146168 ATGGCACTTT
*
30146178 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
* * * *
30146221 TAGCGGCGTTTGGGCA-AAAAGCGCCGCTAAATGT-TTGGAGCTA
1 TAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGGTCAT-GATCTA
* * *
30146264 TAGCGGCGTTTGTG-TAAAAGCGCCACTAAAGGTCCTGATTTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
** *
30146306 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
30146349 TAGCGGCGTTT
1 TAGCGGCGTTT
30146360 AATTCTAAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
42 35 0.29
43 83 0.70
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
Found at i:30146326 original size:85 final size:86
Alignment explanation
Indices: 30146178--30146359 Score: 253
Period size: 85 Copynumber: 2.1 Consensus size: 86
30146168 ATGGCACTTT
*
30146178 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
* * *
30146243 GCCGCTAAATGT-TTGGAGCTA
66 GCCGCTAAAGGTCAT-GACCTA
* * * *
30146264 TAGCGGCGTTTGTG-TAAAAGCGCCACTAAAGGTCCTGATTTATAGCGGCGTTTGTGG-GAAAAG
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTG-GGCAAAAAG
30146327 CGCCGCTAAAGGTCATGACCTA
65 CGCCGCTAAAGGTCATGACCTA
30146349 TAGCGGCGTTT
1 TAGCGGCGTTT
30146360 AATTCTAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
85 69 0.80
86 17 0.20
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
GCCGCTAAAGGTCATGACCTA
Found at i:30147600 original size:144 final size:144
Alignment explanation
Indices: 30147340--30147741 Score: 700
Period size: 144 Copynumber: 2.8 Consensus size: 144
30147330 GAGAGACTTG
* *
30147340 TATAGGTTTATGTACAAAAAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
*
30147405 AGTGCATTTGATTGTAAAACCTTTTTGTTGTGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
66 AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
30147470 TTTTCGATACTTAT
131 TTTTCGATACTTAT
30147484 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
* *
30147549 AGTGCATATGATTGTAAAACCTTTTTGTTATGGTTTTACAAGTTAAGTTTTCAGGGGAGAAGAGT
66 AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
30147614 TTTTCGATACTTAT
131 TTTTCGATACTTAT
*
30147628 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGAGGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
* *
30147693 AGTGCATTTGATTGTAAAACCTCTGTATGGTA--GTTTTACAAGCTAAGTT
66 AGTGCATTTGATTGTAAAACCT-T-TTTGTTATGGTTTTACAAGCTAAGTT
30147742 CTTAAGGGAG
Statistics
Matches: 246, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
144 240 0.98
145 1 0.00
146 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (144 bp):
TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
TTTTCGATACTTAT
Found at i:30149488 original size:51 final size:51
Alignment explanation
Indices: 30149402--30149791 Score: 404
Period size: 51 Copynumber: 7.7 Consensus size: 51
30149392 TATCGATGAA
* * *
30149402 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
* * * * * * * *
30149453 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT--TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAATT-GT
* * * *
30149504 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
* * * * * *
30149555 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-TAATT-GT
30149606 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA-TTG-T
*
30149657 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA-TTG-T
*
30149708 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTG-T
* *
30149758 CACATGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
30149792 TATTGAATGA
Statistics
Matches: 291, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
50 45 0.15
51 244 0.84
52 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
Found at i:30149578 original size:102 final size:101
Alignment explanation
Indices: 30149402--30149793 Score: 486
Period size: 102 Copynumber: 3.9 Consensus size: 101
30149392 TATCGATGAA
* * * *
30149402 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTG-TCACATGTCTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAA-TGATCACATGTGTAGTA
* *
30149466 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 CTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *
30149504 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAATGATCACATGTGTAGTAC
* *
30149569 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
65 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* *
30149606 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-AACTTGATCACGTATGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAA--TGATCACATGTGTAGTA
* * * * *
30149670 CTATGTGAAGGCTACTACGTGAACCGTAAAAAC-TTGAT
64 CTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
*
30149708 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-ACTTGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATA-ATGATCACATGTGTAGTAC
* * *
30149772 TATGTGGAGGCTACTACGTGTA
65 TAAGTGAAGGCTACTATGTGTA
30149794 TTGAATGATA
Statistics
Matches: 260, Mismatches: 25, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
100 1 0.00
101 42 0.16
102 213 0.82
103 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:30149661 original size:153 final size:151
Alignment explanation
Indices: 30149406--30149791 Score: 456
Period size: 153 Copynumber: 2.5 Consensus size: 151
30149396 GATGAACACG
* * *
30149406 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACATGTCTAGTACTAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAAT-ATTGGTCACATGTGTAGTACTAT
* * * * * * * *
30149470 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTAC
64 GTGAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTATGTAGTACTATGTGAAGGCTACTAC
* * *
30149535 GTGAATCGATAAATGA-TGGTCACA
129 GTGAACCG-TAAA-AACTGATCACA
* * * *
30149559 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGTCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA-TATTGGTCACATGTGTAGTACTATG
30149624 TGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTATGTAGTACTATGTGAAGGCTACTAC
65 TGAAGGCTACTACGTGAACCG-AAAAACTTTGATCACGTATGTAGTACTATGTGAAGGCTACTAC
*
30149688 GTGAACCGTAAAAACTTGATCACG
129 GTGAACCGTAAAAAC-TGATCACA
* * * *
30149712 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-CTTGATCACATGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAATATTGGTCACATGTGTAGTACTATG
*
30149776 TGGAGGCTACTACGTG
65 TGAAGGCTACTACGTG
30149792 TATTGAATGA
Statistics
Matches: 200, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
151 1 0.00
152 45 0.22
153 146 0.73
154 8 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATATTGGTCACATGTGTAGTACTATGT
GAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTATGTAGTACTATGTGAAGGCTACTACGT
GAACCGTAAAAACTGATCACA
Found at i:30152617 original size:27 final size:27
Alignment explanation
Indices: 30152583--30152670 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
30152573 CGACATCATA
* * *
30152583 GATAGTCTGACGAGACATTAAATATGG
1 GATAGTCTGACGGGACATTAAACACGG
*
30152610 GATAGTCTGATGGGACATTAAACACGG
1 GATAGTCTGACGGGACATTAAACACGG
* *
30152637 GATAGTCTAATGGGACATTAAACACGG
1 GATAGTCTGACGGGACATTAAACACGG
30152664 GATAGTC
1 GATAGTC
30152671 CATTACGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (27 bp):
GATAGTCTGACGGGACATTAAACACGG
Found at i:30152680 original size:27 final size:27
Alignment explanation
Indices: 30152596--30152685 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
30152586 AGTCTGACGA
* * ** **
30152596 GACATTAAATATGGGATAGTCTGATGG
1 GACATTAAACACGGGATAGTCCAATAC
* **
30152623 GACATTAAACACGGGATAGTCTAATGG
1 GACATTAAACACGGGATAGTCCAATAC
*
30152650 GACATTAAACACGGGATAGTCCATTAC
1 GACATTAAACACGGGATAGTCCAATAC
30152677 GACATTAAA
1 GACATTAAA
30152686 TATGGGGATC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (27 bp):
GACATTAAACACGGGATAGTCCAATAC
Found at i:30156541 original size:11 final size:11
Alignment explanation
Indices: 30156522--30156559 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
30156512 ATTTTAGTAA
30156522 AATATATGTTAT
1 AATA-ATGTTAT
30156534 AATAATGTTAT
1 AATAATGTTAT
*
30156545 AATAATGTTAA
1 AATAATGTTAT
30156556 AATA
1 AATA
30156560 TATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
AATAATGTTAT
Found at i:30159927 original size:41 final size:41
Alignment explanation
Indices: 30159881--30160037 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
30159871 GCGTTTCCAA
* * ** * **
30159881 GAAAGCGCTGCTAATGTTTAGGGTTTTAGCGACGTTTTTTA
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
* *
30159922 AAAAGCGCCGCTACTGCTT-GAGCCTTTAGCGGCGTTTTTGG
1 GAAAGCGCCGCTAATGCTTAG-GCCTTTAGCGGCGTTTTTGG
30159963 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
30160004 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCG
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCG
30160038 CTTCTATAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
Found at i:30162656 original size:17 final size:18
Alignment explanation
Indices: 30162634--30162667 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30162624 ATGAGTAAAG
30162634 AAAAAC-TTTTTTATTTA
1 AAAAACTTTTTTTATTTA
30162651 AAAAACTTTTTTTATTT
1 AAAAACTTTTTTTATTT
30162668 TATAGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAAACTTTTTTTATTTA
Found at i:30164111 original size:43 final size:42
Alignment explanation
Indices: 30164039--30164347 Score: 325
Period size: 43 Copynumber: 7.2 Consensus size: 42
30164029 AAGTCATGTT
* * * *
30164039 TTTAGTGGCATTTGTGAAAAAGCGCCGCTAAAGGTCACGAGT-
1 TTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCACGA-TC
* * * * *
30164081 TTTAGTGGTGTTTGTGGTAGAAGCGTCGCTAAAGGCCAAGATC
1 TTTAGCGGCGTTTGTGG-AGAAGCGCCGCTAAAGGTCACGATC
* * *
30164124 TTTAGCGGCGTTTGTTGGAGAAGCACCGCTAAAGGTCATGAGC
1 TTTAGCGGCGTTTG-TGGAGAAGCGCCGCTAAAGGTCACGATC
** * * *
30164167 TTTAGCAACGTTTGTGGGGGAGGCGCCACTAAAGGTCACGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
* *
30164210 TTTAGCGGCAATTGTGTGG-GAAGTGCCGCTAAAGGTCACGATC
1 TTTAGCGGC-GTT-TGTGGAGAAGCGCCGCTAAAGGTCACGATC
* * *
30164253 TTTAGCGGCGTTTGTGGGAGAAGTGCCGCTTAAGGTCGCGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
*
30164296 TTTAGCGGCGTTTGTGGGTGAAGCGCCGCTAAAGGTCACGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
30164339 TTTAGCGGC
1 TTTAGCGGC
30164348 ATTTTTCCAA
Statistics
Matches: 224, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.01
42 20 0.09
43 191 0.85
44 7 0.03
45 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCACGATC
Found at i:30164299 original size:129 final size:129
Alignment explanation
Indices: 30164107--30164348 Score: 358
Period size: 129 Copynumber: 1.9 Consensus size: 129
30164097 GTAGAAGCGT
* *
30164107 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTTGGAGAAGCACCGCTAAAGGTCATGAGCTTTAG
1 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
*
30164172 CAACGTTTGTGGGGGAGGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
66 CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
* * ** * * *
30164236 CGCTAAAGGTCACGATCTTTAGCGGCGTTTGTGGGAGAAGTGCCGCTTAAGGTCGCGATCTTTAG
1 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
** * *
30164301 CGGCGTTTGTGGGTGAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCA
66 CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCA
30164349 TTTTTCCAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (129 bp):
CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
Found at i:30166086 original size:17 final size:16
Alignment explanation
Indices: 30166066--30166097 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
30166056 TTTTTTAATT
30166066 AAAAATATTTTAAAATA
1 AAAAATA-TTTAAAATA
30166083 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
30166098 TATATAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATTTAAAATA
Found at i:30169017 original size:25 final size:25
Alignment explanation
Indices: 30168983--30169061 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
30168973 TAGGATTACT
*
30168983 GATTTATAGCTCGTAAGAGCATACC
1 GATTTATAGCTCATAAGAGCATACC
*
30169008 GATTTATAGCTCATGAGAGCATACC
1 GATTTATAGCTCATAAGAGCATACC
*
30169033 GATCTT-TAGCT-AAAATGAGCATACC
1 GAT-TTATAGCTCATAA-GAGCATACC
30169058 GATT
1 GATT
30169062 CACAGCTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.06
25 43 0.90
26 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
GATTTATAGCTCATAAGAGCATACC
Found at i:30170211 original size:27 final size:27
Alignment explanation
Indices: 30170181--30170430 Score: 315
Period size: 27 Copynumber: 9.3 Consensus size: 27
30170171 TATAAAGATC
* * *
30170181 ATTTTACCCTTAGGGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
30170208 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
30170235 ATTTTACCCTGT-GAGGCTACTTT-GGTA
1 ATTTTACCCT-TCGAGGGTA-TTTCGGTA
*
30170262 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
30170289 ATTTAACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
30170316 ATTTTACCCTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
30170343 AATTCACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
30170370 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
30170397 ATTTTACCCTTTGAGGTTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
30170424 ATTTTAC
1 ATTTTAC
30170431 TCATGAATCG
Statistics
Matches: 193, Mismatches: 26, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 185 0.96
28 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:30177271 original size:27 final size:27
Alignment explanation
Indices: 30177128--30177269 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
30177118 TATAAAGATC
* *
30177128 ATTTTACCCTTCGAGGGTATTT-TAGTA
1 ATTTTACCCTTTGAGGGTATTTCGA-TA
*
30177155 ATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTCGATA
*
30177182 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* * *
30177209 TTTTTACCCTTCGAGGGTATTTGGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* *
30177236 ATTTTACTCTTTGAGGGTATGTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
30177263 ATTTTAC
1 ATTTTAC
30177270 TCATGAATAG
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTCGATA
Found at i:30181140 original size:18 final size:18
Alignment explanation
Indices: 30181117--30181152 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30181107 TAAGTTCGTA
30181117 AATATTTTTATTTAATAT
1 AATATTTTTATTTAATAT
30181135 AATATTTTTATTTAATAT
1 AATATTTTTATTTAATAT
30181153 TTACGACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATTTTTATTTAATAT
Found at i:30182469 original size:25 final size:25
Alignment explanation
Indices: 30182441--30182502 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
30182431 GATATTTGGT
30182441 TCACAAGAGCTTCCCGATATACGGC
1 TCACAAGAGCTTCCCGATATACGGC
* * * * * *
30182466 TCACATGGGCTTCCTGTTCTATGGC
1 TCACAAGAGCTTCCCGATATACGGC
*
30182491 TCAAAAGAGCTT
1 TCACAAGAGCTT
30182503 TCTGTTTACA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
TCACAAGAGCTTCCCGATATACGGC
Found at i:30188687 original size:25 final size:25
Alignment explanation
Indices: 30188659--30188715 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
30188649 TCATTAGGGT
30188659 TACCGATTAATAGCTCATGAGAGCA
1 TACCGATTAATAGCTCATGAGAGCA
* * *
30188684 TACCAATTTATAGCTCGTGAGAGCA
1 TACCGATTAATAGCTCATGAGAGCA
30188709 TACCGAT
1 TACCGAT
30188716 CTTCTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
TACCGATTAATAGCTCATGAGAGCA
Found at i:30193867 original size:40 final size:40
Alignment explanation
Indices: 30193830--30194094 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
30193820 GCTACTCGTT
*
30193830 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30193870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30193910 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30193950 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
30193990 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30194029 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30194070 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30194095 CATCATTCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 34 0.17
40 149 0.75
41 14 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30207529 original size:101 final size:101
Alignment explanation
Indices: 30207392--30207576 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 101
30207382 AAAGTGCTGG
* * **
30207392 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAAT-G-ATGGTTTGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGTAGGCTACTAAGTGTATCAG-ATGGAATGG-TCACATGTGTAGT
*
30207455 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
64 ACTATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
*
30207493 TCACGTGTGTAGTACTATGTGCT-GGCTACTAAGTGTATCAGATGGAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTG-TAGGCTACTAAGTGTATCAGATGG-AATGGTCACATGTGTAGT
30207557 ACTATATGCAGGCTACTATG
64 ACTATATGCAGGCTACTATG
30207577 TGAACCGGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
100 2 0.03
101 37 0.50
102 31 0.42
103 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGTAGGCTACTAAGTGTATCAGATGGAATGGTCACATGTGTAGTAC
TATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:30207553 original size:51 final size:49
Alignment explanation
Indices: 30207389--30207574 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
30207379 GTGAAAGTGC
* * *
30207389 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAATGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAATGA
** * * * *
30207438 TGGTTTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CCGAATAGCT
1 TGG-TCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAAT-G-A
* * *
30207489 TCGATCACGTGTGTAGTACTATGTGCTGGCTACTAAGTGTATCAG-ATGGAAA
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAAT-G--A
*
30207541 TGGTCACATGTGTAGTACTATATGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
30207575 TGTGAACCGG
Statistics
Matches: 109, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 8 0.07
50 33 0.30
51 64 0.59
52 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAATGA
Found at i:30213635 original size:50 final size:50
Alignment explanation
Indices: 30213523--30213698 Score: 146
Period size: 50 Copynumber: 3.5 Consensus size: 50
30213513 TGAGAGGTCT
* * * **
30213523 CATGTAAGACCATGTCTGGGACAT-G-ACGGTTGAACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGG--GCACCGATATGAGAACTCC
*** *
30213573 CCCATAAAACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
* * * **
30213623 CATGTAAGACCATATCTGGGATATGGCATTGGCA---ATACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAG-AAC-TCC
*
30213672 CATGTAAGACCATGTCTGAGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
30213699 TTTGGCATGT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 27 0.27
50 62 0.61
51 1 0.01
52 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
Found at i:30213698 original size:49 final size:48
Alignment explanation
Indices: 30213581--30213705 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 48
30213571 CCCCCATAAA
* **
30213581 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
1 ACCATGTCTGGGACATGGCATTGGCA-C-ATACAAGAACTCCCATGTAAG
* *
30213631 ACCATATCTGGGATATGGCATTGGCA-ATACAAGAAACATCCCATGTAAG
1 ACCATGTCTGGGACATGGCATTGGCACATACAAG-AAC-TCCCATGTAAG
* *
30213680 ACCATGTCTGAGACATGGCTTTGGCA
1 ACCATGTCTGGGACATGGCATTGGCA
30213706 TGTTATTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 5 0.08
48 3 0.05
49 33 0.52
50 23 0.36
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (48 bp):
ACCATGTCTGGGACATGGCATTGGCACATACAAGAACTCCCATGTAAG
Found at i:30231637 original size:44 final size:44
Alignment explanation
Indices: 30231579--30231952 Score: 225
Period size: 44 Copynumber: 8.5 Consensus size: 44
30231569 GAAGATGGCG
* *
30231579 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * **
30231622 TAATCTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
** * * * ** *
30231667 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCA-CA
* * * * **
30231712 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * *
30231756 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAA-CCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * * ** *
30231799 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAA-TAATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCCACA
* *** * * ***
30231843 AACCTTATC-CTCCTGAAGTTGCAGTGGGGTAGGTTGAAGATGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * *
30231887 AGTCTTATCTCCCTGACGTTGCAGTGGAGCAGAGTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * *
30231931 AATATCACCCCCCTGAAGTTGC
1 AATCTTATCTCCCTGAAGTTGC
30231953 GGCAGAGTAG
Statistics
Matches: 260, Mismatches: 64, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
43 35 0.13
44 185 0.71
45 40 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
Found at i:30231645 original size:89 final size:87
Alignment explanation
Indices: 30231536--30231919 Score: 335
Period size: 89 Copynumber: 4.3 Consensus size: 87
30231526 GAAAGCAAGT
* * * * * *
30231536 CTTATCCCCCTTGAAGTTGCAGTGGGGCAGAATGAAGATGGCGAATCTTATTTCCCTGAAGTTGT
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGAT-AC-AATCTTATCTCCCTGAAGTTGC
* *
30231601 AGTGGAACAGATTAAAGCCA-ATAAT
63 AGTGGAGCAGATTAAAGCCACA-AAC
* * *
30231626 CTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AATCTTATCTCCCTGAAGTTGCAG
* * * * ** *
30231691 TGGAGTAGACTGAGGATAGAAAAC
65 TGGAGCAGATTAAAGCCA-CAAAC
*
30231715 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TCTTATCTCCCTGAAGTTGCAG
*
30231780 TGGAGCATATTAAA-CCACAAAC
65 TGGAGCAGATTAAAGCCACAAAC
* * * * *
30231802 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAATAAACCTTATC-CTCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A-CAATCTTATCTC-CCTGAAGTTGC
* * * * *** **
30231865 AGTGGGGTAGGTTGAAGATGCAAGT
63 AGTGGAGCAGATTAAAGCCACAAAC
*
30231890 CTTATCTCCCTGACGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
30231920 GTAAAACCAC
Statistics
Matches: 239, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
86 3 0.01
87 66 0.28
88 68 0.28
89 93 0.39
90 9 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAGATTAAAGCCACAAAC
Found at i:30231785 original size:133 final size:131
Alignment explanation
Indices: 30231535--30231952 Score: 412
Period size: 133 Copynumber: 3.2 Consensus size: 131
30231525 AGAAAGCAAG
* * * ** * *
30231535 TCTTATCCCCCTTGAAGTTGCAGTGGGGCAGAATGAAGATGGCGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGAATG-AGATAGAAAACCTTATCTCCCTGAAGTTG
* * * * * * * **
30231600 TAGTGGAACAGATTAAAGCCA-ATAA-TCTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGT
64 CAGTGGAGCAGGTTGAAG--ATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAC
*
30231663 TACAAA
126 CACAAA
* *
30231669 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAGAAAACCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGA-GATAGAAAACCTTATCTCCCTGAAGTTGC
*
30231734 AGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAACCACA
65 AGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCACA
30231799 AA
130 AA
* * * ** *
30231801 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATA-ATAAACCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAGATAGA-AAACCTTATCTC-CCTGAAGTTG
* * * * *
30231864 CAGTGGGGTAGGTTGAAGATGCAAGTCTTATCTCCCTGACGTTGCAGTGGAGCAGAGTAAAACCA
64 CAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAACCA
30231929 CAAA
128 CAAA
* * * *
30231933 TATCACCCCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGC
30231953 GGCAGAGTAG
Statistics
Matches: 239, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
130 2 0.01
131 75 0.31
132 65 0.27
133 87 0.36
134 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (131 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAGATAGAAAACCTTATCTCCCTGAAGTTGCA
GTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCACAA
A
Found at i:30231877 original size:131 final size:132
Alignment explanation
Indices: 30231582--30231932 Score: 397
Period size: 131 Copynumber: 2.7 Consensus size: 132
30231572 GATGGCGAAT
* * * * * * *
30231582 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCA-ATAA-TCTTAACTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--ATACAAGTCTTATCTCCCTGAAGTTGC
* *** * * * *
30231645 AGTGGAGCGGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAG
64 AGTGGAGCAGATT-AAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAG
30231710 AAAAC
128 AAAAC
30231715 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
* * **
30231780 TGGAGCATATTAAACCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA-AATA-ATA
66 TGGAGCAGATTAAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAGA-A
30231843 AAC
130 AAC
* * * *
30231846 CTTATC-CTCCTGAAGTTGCAGTGGGGTAGGTTGAAGATGCAAGTCTTATCTCCCTGACGTTGCA
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCA
*
30231910 GTGGAGCAGAGTAAAACCACAAA
65 GTGGAGCAGA-TTAAACCACAAA
30231933 TATCACCCCC
Statistics
Matches: 188, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
130 2 0.01
131 75 0.40
132 50 0.27
133 61 0.32
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAGAAA
AC
Found at i:30236315 original size:28 final size:26
Alignment explanation
Indices: 30236264--30236316 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
30236254 ATGTTCGTTA
*
30236264 TTTATTTTTTATTTTTGCAATTAATG
1 TTTATTTTTTATTTTTGAAATTAATG
*
30236290 TTTATTTTATTATTTTTTTAAATTAAT
1 TTTATTTT-TTA-TTTTTGAAATTAAT
30236317 ATTGCTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTATTTTTTATTTTTGAAATTAATG
Found at i:30236485 original size:20 final size:20
Alignment explanation
Indices: 30236437--30236485 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
30236427 AGTTGGAATT
*
30236437 ATATAAAAAATATTTTATTA
1 ATATATAAAATATTTTATTA
* *
30236457 ACATTTAAAATA-TTTATTTA
1 ATATATAAAATATTTTA-TTA
30236477 ATATATAAA
1 ATATATAAA
30236486 TTTATATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATAAAATATTTTATTA
Found at i:30239180 original size:21 final size:21
Alignment explanation
Indices: 30239151--30239207 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
30239141 TCGATAATTT
* *
30239151 CAATAAAGTATCGGTACCAAA
1 CAATCAAGTATCGATACCAAA
*
30239172 CAATCAAGTATCAATACCAAA
1 CAATCAAGTATCGATACCAAA
*
30239193 CAATCAAATATCGAT
1 CAATCAAGTATCGAT
30239208 GTTAAACCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (21 bp):
CAATCAAGTATCGATACCAAA
Found at i:30240147 original size:21 final size:21
Alignment explanation
Indices: 30240121--30240180 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
30240111 AAGAATCGAG
30240121 GATTTATTATAAATTTTTAAT
1 GATTTATTATAAATTTTTAAT
* *
30240142 GATTTATTATATATTTTAAAT
1 GATTTATTATAAATTTTTAAT
*
30240163 -ATTT-TTTTACAATTTTTA
1 GATTTATTATA-AATTTTTA
30240181 GTAATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 19 0.58
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
GATTTATTATAAATTTTTAAT
Found at i:30240226 original size:19 final size:19
Alignment explanation
Indices: 30240198--30240237 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30240188 TGAGAACATA
*
30240198 TTTATAATTTTCTAATAAT
1 TTTATAATTTTCAAATAAT
* *
30240217 TTTATGATTTTGAAATAAT
1 TTTATAATTTTCAAATAAT
30240236 TT
1 TT
30240238 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTCAAATAAT
Found at i:30242553 original size:18 final size:20
Alignment explanation
Indices: 30242530--30242572 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
30242520 TATTATTTTA
30242530 AAATTATA-TAA-TTAGAAG
1 AAATTATATTAATTTAGAAG
30242548 AAATTATATTAATTTAGAAG
1 AAATTATATTAATTTAGAAG
30242568 AAATT
1 AAATT
30242573 TATGTGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (20 bp):
AAATTATATTAATTTAGAAG
Found at i:30243128 original size:16 final size:15
Alignment explanation
Indices: 30243109--30243162 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
30243099 TCGTCAGCCT
30243109 CTCCCTCCGTCGACCG
1 CTCCCTCCGTCGA-CG
*
30243125 CTCCCTCTGTCGACG
1 CTCCCTCCGTCGACG
* *
30243140 TTTCCTTCCGTCGAACG
1 -CTCCCTCCGTCG-ACG
30243157 CTCCCT
1 CTCCCT
30243163 TCATTGCTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 25 0.83
17 3 0.10
ACGTcount: A:0.07, C:0.48, G:0.17, T:0.28
Consensus pattern (15 bp):
CTCCCTCCGTCGACG
Found at i:30246107 original size:14 final size:14
Alignment explanation
Indices: 30246088--30246117 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30246078 AAAAATAAAA
30246088 AAAATTTAAATTTT
1 AAAATTTAAATTTT
*
30246102 AAAATTTACATTTT
1 AAAATTTAAATTTT
30246116 AA
1 AA
30246118 CCTCTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATTTAAATTTT
Found at i:30246139 original size:30 final size:30
Alignment explanation
Indices: 30246103--30246253 Score: 141
Period size: 30 Copynumber: 5.1 Consensus size: 30
30246093 TTAAATTTTA
*
30246103 AAATTTACATTTTAACCTCTTAATTTTTCT
1 AAATTTACATTTTGACCTCTTAATTTTTCT
*
30246133 AAATTTATATTTTGACC-CTTTAA-TTTTCT
1 AAATTTACATTTTGACCTC-TTAATTTTTCT
* * *
30246162 TAATATTACATTTTGACCTCTAAACTTTTCT
1 AAAT-TTACATTTTGACCTCTTAATTTTTCT
* *
30246193 AAAATTACATTTTGAAC-CTTAACTTTTT-T
1 AAATTTACATTTTGACCTCTTAA-TTTTTCT
* * * *
30246222 AAAATTATATTTTGACCT-TAAATTTTCCT
1 AAATTTACATTTTGACCTCTTAATTTTTCT
30246251 AAA
1 AAA
30246254 ATAACTCTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
28 4 0.04
29 37 0.37
30 50 0.50
31 9 0.09
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (30 bp):
AAATTTACATTTTGACCTCTTAATTTTTCT
Found at i:30246191 original size:60 final size:58
Alignment explanation
Indices: 30246098--30246271 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 58
30246088 AAAATTTAAA
* * * * *
30246098 TTTTAAAATTTACATTTTAACCTCTTAATTTTTCTAAATTTATATTTTGACCCTTTAA-TT
1 TTTTAAAA-TTACATTTTGACCTC-TAAATTTTCTAAAATTACATTTTGAACC-TTAACTT
*
30246158 TTCTTAATATTACATTTTGACCTCTAAACTTTTCTAAAATTACATTTTGAACCTTAACTT
1 TT-TTAAAATTACATTTTGACCTCTAAA-TTTTCTAAAATTACATTTTGAACCTTAACTT
* *
30246218 TTTTAAAATTATATTTTGACCT-TAAATTTTCCTAAAATAAC-TCTTTG-ACCTTAA
1 TTTTAAAATTACATTTTGACCTCTAAATTTT-CTAAAATTACAT-TTTGAACCTTAA
30246272 AAGTTTTACA
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
57 12 0.12
58 17 0.17
59 25 0.25
60 41 0.41
61 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (58 bp):
TTTTAAAATTACATTTTGACCTCTAAATTTTCTAAAATTACATTTTGAACCTTAACTT
Found at i:30246253 original size:29 final size:28
Alignment explanation
Indices: 30246093--30246272 Score: 159
Period size: 29 Copynumber: 6.2 Consensus size: 28
30246083 TAAAAAAAAT
*
30246093 TTAAA-TTT-TAAAATTTACATTTTAACCTC
1 TTAAATTTTCTAAAA-TTACATTTTGA-C-C
* * *
30246122 TTAATTTTTCTAAATTTATATTTTGACCC
1 TTAAATTTTCTAAAATTACATTTTGA-CC
* *
30246151 TTTAATTTTCTTAATATTACATTTTGACC
1 TTAAATTTTC-TAAAATTACATTTTGACC
30246180 TCTAAACTTTTCTAAAATTACATTTTGAACC
1 T-TAAA-TTTTCTAAAATTACATTTTG-ACC
* * *
30246211 TTAACTTTTTTAAAATTATATTTTGACC
1 TTAAATTTTCTAAAATTACATTTTGACC
*
30246239 TTAAATTTTCCTAAAATAAC-TCTTTGACC
1 TTAAATTTT-CTAAAATTACAT-TTTGACC
30246268 TTAAA
1 TTAAA
30246273 AGTTTTACAC
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
28 12 0.10
29 53 0.42
30 47 0.38
31 13 0.10
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (28 bp):
TTAAATTTTCTAAAATTACATTTTGACC
Found at i:30246793 original size:17 final size:18
Alignment explanation
Indices: 30246771--30246827 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
30246761 TAGGGCTGGG
30246771 AGAAAGAA-AGAAAAAAA
1 AGAAAGAAGAGAAAAAAA
*
30246788 AGAAAGAAGGGAAAAAAGA
1 AGAAAGAAGAGAAAAAA-A
* *
30246807 A-AAA-AATAGAAAAAAT
1 AGAAAGAAGAGAAAAAAA
30246823 AGAAA
1 AGAAA
30246828 ATATAACGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.03
17 20 0.61
18 10 0.30
19 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (18 bp):
AGAAAGAAGAGAAAAAAA
Found at i:30246827 original size:26 final size:25
Alignment explanation
Indices: 30246770--30246828 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
30246760 CTAGGGCTGG
*
30246770 GAGAAAGAAAGAAAAAAAAGAAAGAA
1 GAGAAA-AAAGAAAAAAAAGAAAAAA
*
30246796 GGGAAAAAAGAAAAAAATAGAAAAAA
1 GAGAAAAAAGAAAAAAA-AGAAAAAA
*
30246822 TAGAAAA
1 GAGAAAA
30246829 TATAACGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (25 bp):
GAGAAAAAAGAAAAAAAAGAAAAAA
Found at i:30252459 original size:30 final size:30
Alignment explanation
Indices: 30252423--30252579 Score: 165
Period size: 30 Copynumber: 5.2 Consensus size: 30
30252413 ACGATGAGGT
*
30252423 ATTTTAGGAAAGTTTTA-GGGTTAAAATATA
1 ATTTTAGGAAA-ATTTAGGGGTTAAAATATA
30252453 ATTTTAGGAAAATTTAGGGGTTAAAATATA
1 ATTTTAGGAAAATTTAGGGGTTAAAATATA
* * *
30252483 ATTTTA-AAAAACTTAAGAGGTTAAAATATA
1 ATTTTAGGAAAA-TTTAGGGGTTAAAATATA
* *
30252513 AATTTAGGAAAATTTAGGGGTCAAAATATA
1 ATTTTAGGAAAATTTAGGGGTTAAAATATA
* * * * * *
30252543 AATTTAGAAAAATTGAGAGGTCAAAATGTAA
1 ATTTTAGGAAAATTTAGGGGTTAAAATAT-A
30252574 ATTTTA
1 ATTTTA
30252580 AATTTTAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.07
30 91 0.83
31 10 0.09
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (30 bp):
ATTTTAGGAAAATTTAGGGGTTAAAATATA
Found at i:30252508 original size:60 final size:60
Alignment explanation
Indices: 30252441--30252579 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
30252431 AAAGTTTTAG
* *
30252441 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTTAAAATATAATTTTA-AAAAACTTAAGA
1 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAA-TTAAGA
* *
30252501 GGTTAAAATATAAATTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTGAGA
1 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTAAGA
* *
30252561 GGTCAAAATGTAAATTTTA
1 GGTTAAAATAT-AATTTTA
30252580 AATTTTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
60 59 0.84
61 11 0.16
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (60 bp):
GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTAAGA
Found at i:30261492 original size:41 final size:41
Alignment explanation
Indices: 30261466--30261585 Score: 213
Period size: 41 Copynumber: 2.9 Consensus size: 41
30261456 ATAAGGTTCA
30261466 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
* *
30261507 ATATGATCTACTCTACTGCGACTTCAGAGAAATAAGATTTG
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
*
30261548 ATATGATCTGCTCTACTGCGACTTTAGAGAGATAAGAT
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGAT
30261586 CTGTTATGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (41 bp):
ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
Found at i:30261736 original size:138 final size:138
Alignment explanation
Indices: 30261553--30261861 Score: 433
Period size: 138 Copynumber: 2.2 Consensus size: 138
30261543 ATTTGATATG
* * * *
30261553 ATCTGCTCTACTGCGACTTTAGAGAGATAAGATCTGTTATGGTAGATTTAATCCGACCTACTGCA
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATGGTAGATTTAATCCGACCGACTGCA
* *
30261618 ACTTCAAAGGTATAGGATTCATCA-TTTTAATCCGCTCGACTGTAACTTCAGGGAGATAGGATTA
66 ACTTCAAAGGTATAGGATTCAT-AGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTA
30261682 GTAGCTTCA
130 GTAGCTTCA
* * *
30261691 GTCTGCTCCACTGCAATTTTAGGGAGATAAGA-CTTGTTATGGTAGATTTGATCCGACCGACTGC
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATC-TGTTATGGTAGATTTAATCCGACCGACTGC
* * * *
30261755 AACTTCAGAGGTATAGTATTTATAGTTTTAATCCGCTCCACTGTAATTTCAGGGAAATAGGATTA
65 AACTTCAAAGGTATAGGATTCATAGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTA
* *
30261820 GTGGTTTCA
130 GTAGCTTCA
* *
30261829 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
30261862 TCACCATGAT
Statistics
Matches: 149, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
137 2 0.01
138 147 0.99
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (138 bp):
ATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATGGTAGATTTAATCCGACCGACTGCA
ACTTCAAAGGTATAGGATTCATAGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTAG
TAGCTTCA
Found at i:30261839 original size:44 final size:44
Alignment explanation
Indices: 30261779--30261862 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
30261769 AGTATTTATA
* * *
30261779 GTTTTAATCCGCTCCACTGTAATTTCAGGGAAATAGGATTAGTG
1 GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATTAGTG
* *
30261823 GTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATT
30261863 CACCATGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (44 bp):
GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATTAGTG
Found at i:30261897 original size:138 final size:138
Alignment explanation
Indices: 30261595--30261913 Score: 349
Period size: 138 Copynumber: 2.3 Consensus size: 138
30261585 TCTGTTATGG
* * * * *
30261595 TAGATTTAATCCGACCTACTGCAACTTCAAAGGTATAGGATTCATCATTTTAATCCGCTCGACTG
1 TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTG
* * * *
30261660 TAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAATTTTAGGGAGATAAGACT
66 TAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*** *
30261725 TGTTATGG
131 TACCATGA
* * * *
30261733 TAGATTTGATCCGACCGACTGCAACTTCAGAGGTATAGTATTTAT-AGTTTTAATCCGCTCCACT
1 TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCA-TTTTAATCCGCTCCACT
* * * *
30261797 GTAATTTCAGGGAAATAGGATTAGTGGTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-
65 GTAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
30261861 TTCACCATGA
130 TT-ACCATGA
* * * *
30261871 T-GACTTTAATCTC-TCCCACTATAACTTTAGGGGTATAGGATTT
1 TAGA-TTTAATC-CGACCCACTACAACTTCAGAGGTATAGGATTT
30261914 GTGGTTTCAC
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
137 5 0.03
138 145 0.96
139 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (138 bp):
TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTG
TAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TACCATGA
Found at i:30285292 original size:59 final size:59
Alignment explanation
Indices: 30285200--30285318 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
30285190 TTAAACTATC
30285200 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
1 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
30285259 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
1 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
30285318 T
1 T
30285319 AATCTAATGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (59 bp):
TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
Found at i:30285509 original size:15 final size:14
Alignment explanation
Indices: 30285489--30285526 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
30285479 TTTGTTGAAA
30285489 TTTCACTTCTAGTCC
1 TTTCACTTCTAG-CC
30285504 TTTCACTTCTAGCC
1 TTTCACTTCTAGCC
30285518 TTTCCACTT
1 TTT-CACTT
30285527 TTTCTTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.13, C:0.34, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTCACTTCTAGCC
Found at i:30290220 original size:128 final size:128
Alignment explanation
Indices: 30289048--30290208 Score: 1784
Period size: 128 Copynumber: 9.1 Consensus size: 128
30289038 CGCAACGTCG
* * * * * * *
30289048 GGGAGATAGGATTTGTGGCTTCAATCTACTTCCCTACTCCTAAAGATAAGATTCGTCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * *
30289113 TATGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * ** *
30289176 GGGAGATAGAACTTGTGGCATAAATCTGTTTCCCTACTCTTGAAGATAAGATTTTCCGTTTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
** * *
30289241 TCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * *
30289304 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTAATCTTAAAGATAAGATTCGCCATCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
30289369 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * *
30289432 GGGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACTTTTGAAGATAAGATTCGCCATCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * *
30289497 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTGACAA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* ** *
30289560 GGGGGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTACCGTCTTTGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * *
30289625 TCTGCTCCACTACTACTTAGGGAGACAAGATCTATAATTTCCAACATATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
*
30289688 GGGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
30289753 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* *
30289816 GGGAGATAGGACTTGTGGCTTAAATTTGCTTCCTTACTCTTGAAGATAAGATTCGTCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* *
30289881 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * *
30289944 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCATCTTTGG
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
30290009 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
*
30290072 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * **
30290137 TTTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATCTT-CAATCTATTCCACTGCCAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-TTCCAACCTATTCCACTGCTGACCA
*
30290200 GTGAGATAG
1 GGGAGATAG
30290209 AATTACGGGC
Statistics
Matches: 950, Mismatches: 82, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
128 948 1.00
129 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (128 bp):
GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
Found at i:30291702 original size:7 final size:7
Alignment explanation
Indices: 30291692--30291730 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
30291682 CCTTTTCCAT
30291692 TTTTTCA
1 TTTTTCA
30291699 TTTTTCA
1 TTTTTCA
30291706 -TTTTCA
1 TTTTTCA
30291712 -TTTTCA
1 TTTTTCA
30291718 TTTTTCA
1 TTTTTCA
30291725 CTTTTT
1 -TTTTT
30291731 TTTGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:30292668 original size:6 final size:6
Alignment explanation
Indices: 30292644--30292721 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
30292634 CATTTTCATT
* * ** * * *
30292644 TTTTGA CTTTGA CTTTGA TTTTGA TTTTTTCT TTTTGC TTTTGC TTTTGC
1 TTTTGA TTTTGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA
* *
30292694 TTTTGC TTTTGC TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
30292722 TCTTCCCCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
6 59 0.94
8 4 0.06
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:30292685 original size:12 final size:12
Alignment explanation
Indices: 30292676--30292721 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
30292666 GATTTTTTCT
30292676 TTTTGCTTTTGC
1 TTTTGCTTTTGC
30292688 TTTTGCTTTTGC
1 TTTTGCTTTTGC
*
30292700 TTTTGCTTTTGA
1 TTTTGCTTTTGC
*
30292712 TTTTGATTTT
1 TTTTGCTTTT
30292722 TCTTCCCCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.04, C:0.11, G:0.15, T:0.70
Consensus pattern (12 bp):
TTTTGCTTTTGC
Found at i:30292691 original size:18 final size:18
Alignment explanation
Indices: 30292676--30292721 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
30292666 GATTTTTTCT
30292676 TTTTGCTTTTGCTTTTGC
1 TTTTGCTTTTGCTTTTGC
*
30292694 TTTTGCTTTTGCTTTTGA
1 TTTTGCTTTTGCTTTTGC
*
30292712 TTTTGATTTT
1 TTTTGCTTTT
30292722 TCTTCCCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.04, C:0.11, G:0.15, T:0.70
Consensus pattern (18 bp):
TTTTGCTTTTGCTTTTGC
Found at i:30299380 original size:12 final size:12
Alignment explanation
Indices: 30299363--30299388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30299353 CAAAACAGGC
30299363 TTTTAGCGGCGT
1 TTTTAGCGGCGT
30299375 TTTTAGCGGCGT
1 TTTTAGCGGCGT
30299387 TT
1 TT
30299389 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:30299710 original size:42 final size:41
Alignment explanation
Indices: 30299619--30299710 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
30299609 GCTTTCTAAA
*
30299619 AAACGCCACTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
1 AAACGCCGCTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
* *
30299660 AAACGCCGCTAATGCTCAGGG-TATTAGCGGCGTTTTTTGGG
1 AAACGCCGCTAACGCTCAGGGAT-TTAGCGGCGTTTTTTAGG
30299701 AAAGCGCCGC
1 AAA-CGCCGC
30299711 AAAAAAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.02
41 39 0.85
42 6 0.13
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
Found at i:30299880 original size:113 final size:114
Alignment explanation
Indices: 30299637--30300253 Score: 926
Period size: 113 Copynumber: 5.4 Consensus size: 114
30299627 CTAACGCTCA
*
30299637 GGGATTTAGCGGCGTTTTTTAGGAAA-CGCCGCTAATGCTCAGGG-TATTAGCGGCGTTTTTTGG
1 GGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT-TTAGCGGCG-TTTTTGG
* *
30299700 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCG
63 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* * *
30299752 TGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
** *
30299817 AGCGCCGC-AAAAAAACTAAGCCCAACGACGCTATTTTCTGAACTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
30299865 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGAGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
* *
30299930 AGCGCCGCAAAAAAAAAACTAAGCCCAACGGCGGCGTTTTCTGAGCTTTCG
66 AGCGCCGC--AAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
30299981 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
*
30300046 AGCGTCGC-AAAAAAA--AA-CCCAACGACGCCGTTTTCTGAGCTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
*
30300091 GGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
*
30300156 AGCGCCGCAAAAAAAACTAAACCCAACGACGCCGTTTTCTGAGCTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* * * *
30300205 GGGATTTAGCGGCGTTTCTACA-AAAGCACCGCTAATACTCAGGGATTTA
1 GGGATTTAGCGGCGTTTTTA-AGAAAGCGCCGCTAATGCTCAGGGCTTTA
30300254 AAATAATTTA
Statistics
Matches: 458, Mismatches: 34, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
110 95 0.21
111 9 0.02
113 112 0.24
114 98 0.21
115 39 0.09
116 105 0.23
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
Found at i:30299949 original size:229 final size:224
Alignment explanation
Indices: 30299637--30300253 Score: 943
Period size: 229 Copynumber: 2.7 Consensus size: 224
30299627 CTAACGCTCA
*
30299637 GGGATTTAGCGGCGTTTTTTAGGAAA-CGCCGCTAATGCTCAGGG-TATTAGCGGCGTTTTTTGG
1 GGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT-TTAGCGGC-TTTTTTGG
* * *
30299700 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCGTGGATTTAGCAGC
63 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* * *
30299765 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGGGAAAGCGCCGCAAAAA
128 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAAAGCGCCGCAAAAA
*
30299830 AACTAAGCCCAACGACGCTATTTTCTGAACTTTCG
193 AA--AA-CCCAACGACGCCATTTTCTGAACTTTCG
*
30299865 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGAGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
*
30299930 AGCGCCGCAAAAAAAAAACTAAGCCCAACGGCGGCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
66 AGCGCCGC--AAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
*
30299995 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAAAGCGTCGCAAAAAA
129 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAAAGCGCCGCAAAAAA
* *
30300060 AAACCCAACGACGCCGTTTTCTGAGCTTTCG
194 AAACCCAACGACGCCATTTTCTGAACTTTCG
* *
30300091 GGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
* *
30300156 AGCGCCGCAAAAAAAACTAAACCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
66 AGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
* * * *
30300221 TCTACA-AAAGCACCGCTAATACTCAGGGATTTA
131 TTTA-AGAAAGCGCCGCTAATGCTCAGGGCTTTA
30300254 AAATAATTTA
Statistics
Matches: 361, Mismatches: 23, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
224 81 0.22
225 1 0.00
226 95 0.26
227 30 0.08
228 40 0.11
229 114 0.32
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (224 bp):
GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
AGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTT
TTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAAAGCGCCGCAAAAAAAA
ACCCAACGACGCCATTTTCTGAACTTTCG
Found at i:30300546 original size:16 final size:17
Alignment explanation
Indices: 30300516--30300556 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
30300506 ATGCTTTAGA
*
30300516 GGTTAGGGAGATTTATG
1 GGTTAGGGAGATTTAAG
30300533 GGTTAGGG-GATTTAAG
1 GGTTAGGGAGATTTAAG
30300549 GGTTAGGG
1 GGTTAGGG
30300557 TTTAGGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (17 bp):
GGTTAGGGAGATTTAAG
Found at i:30306007 original size:210 final size:210
Alignment explanation
Indices: 30305645--30306064 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
30305635 TTAGCCATTA
30305645 ATCATTATTGAGTGTTGACATGGGGGATCTATGCTACTATATCTATGTTACTCTTAACTCATCAT
1 ATCATTATTGAGTGTTGACATGGGGGATCTATGCTACTATATCTATGTTACTCTTAACTCATCAT
30305710 TTTTTCTGAAGTGCTCATGTTTGACACTTTTGTTTGATGCATATTTGGACATGGATACATGAACA
66 TTTTTCTGAAGTGCTCATGTTTGACACTTTTGTTTGATGCATATTTGGACATGGATACATGAACA
30305775 TGATCCTCCAAATATATTAAAATCCTTAAAAAGGTTGATCATACCTATGTGGGATATATACCTTA
131 TGATCCTCCAAATATATTAAAATCCTTAAAAAGGTTGATCATACCTATGTGGGATATATACCTTA
30305840 TCTGAAAAGAAAGGT
196 TCTGAAAAGAAAGGT
30305855 ATCATTATTGAGTGTTGACATGGGGGATCTATGCTACTATATCTATGTTACTCTTAACTCATCAT
1 ATCATTATTGAGTGTTGACATGGGGGATCTATGCTACTATATCTATGTTACTCTTAACTCATCAT
30305920 TTTTTCTGAAGTGCTCATGTTTGACACTTTTGTTTGATGCATATTTGGACATGGATACATGAACA
66 TTTTTCTGAAGTGCTCATGTTTGACACTTTTGTTTGATGCATATTTGGACATGGATACATGAACA
30305985 TGATCCTCCAAATATATTAAAATCCTTAAAAAGGTTGATCATACCTATGTGGGATATATACCTTA
131 TGATCCTCCAAATATATTAAAATCCTTAAAAAGGTTGATCATACCTATGTGGGATATATACCTTA
30306050 TCTGAAAAGAAAGGT
196 TCTGAAAAGAAAGGT
30306065 TATGCCTTTT
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (210 bp):
ATCATTATTGAGTGTTGACATGGGGGATCTATGCTACTATATCTATGTTACTCTTAACTCATCAT
TTTTTCTGAAGTGCTCATGTTTGACACTTTTGTTTGATGCATATTTGGACATGGATACATGAACA
TGATCCTCCAAATATATTAAAATCCTTAAAAAGGTTGATCATACCTATGTGGGATATATACCTTA
TCTGAAAAGAAAGGT
Found at i:30307008 original size:43 final size:42
Alignment explanation
Indices: 30306938--30307183 Score: 287
Period size: 43 Copynumber: 5.8 Consensus size: 42
30306928 TTTCATAAAC
* * *
30306938 GCCGCTAAAGAACGTATT-TTTAGCGGCGTTTGTGATAAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAT-AAAGT
* *
30306980 GCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGTGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTG-ATAAAGT
* * * *
30307023 GCCGCTAAAGGTCATGTTCTTTAGCGACGTTTATGGGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAGT
* * * *
30307066 ACTGCTAAAGATCATGTTCTTTAGTGGCATTTGTGAGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGA-TAAAGT
* *
30307109 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAGT
* *
30307152 GCTGTTAAAGATCATGTTCTTTAGCGGCGTTT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
30307184 AACGCCGCAA
Statistics
Matches: 176, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
42 15 0.09
43 158 0.90
44 3 0.02
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAGT
Found at i:30307065 original size:86 final size:86
Alignment explanation
Indices: 30306975--30307183 Score: 319
Period size: 86 Copynumber: 2.4 Consensus size: 86
30306965 GTTTGTGATA
* * * *
30306975 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGTGTAAAGTGCCGCTAAAGGTCATGT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
30307040 TCTTTAGCGACGTTTATGGGT
66 TCTTTAGCGACGTTTATGGGT
* * *
30307061 AAAGTACTGCTAAAGATCATGTTCTTTAGTGGCATTTGTGAGTAAAGTGCCGCTAAAGATCATGT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
* *
30307126 TCTTTAGCGGCGTTTGTGGGT
66 TCTTTAGCGACGTTTATGGGT
* *
30307147 AAAGCGCTGTTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTT
30307184 AACGCCGCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (86 bp):
AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
TCTTTAGCGACGTTTATGGGT
Found at i:30313982 original size:9 final size:9
Alignment explanation
Indices: 30313968--30314014 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
30313958 CGAAAAAATT
30313968 GAGTTATTC
1 GAGTTATTC
*
30313977 GAGTTAATC
1 GAGTTATTC
30313986 GAGTTATTC
1 GAGTTATTC
*
30313995 GAGTTAATC
1 GAGTTATTC
*
30314004 AAGTTATTC
1 GAGTTATTC
30314013 GA
1 GA
30314015 ATTAACTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (9 bp):
GAGTTATTC
Found at i:30313989 original size:18 final size:18
Alignment explanation
Indices: 30313968--30314024 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
30313958 CGAAAAAATT
30313968 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
30313986 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
* *
30314004 AAGTTATTCGAATTAACTC
1 GAGTTATTCGAGTTAA-TC
30314023 GA
1 GA
30314025 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 32 0.91
19 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (18 bp):
GAGTTATTCGAGTTAATC
Found at i:30314474 original size:16 final size:16
Alignment explanation
Indices: 30314441--30314470 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30314431 CCTATTTACT
30314441 TTCCCTCAAACTTTTA
1 TTCCCTCAAACTTTTA
30314457 TTCCCT-AAACTTTT
1 TTCCCTCAAACTTTT
30314471 TATTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCCCTCAAACTTTTA
Found at i:30314940 original size:5 final size:5
Alignment explanation
Indices: 30314930--30314957 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
30314920 GAACAAATAT
30314930 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
30314958 TCCATCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:30315055 original size:5 final size:5
Alignment explanation
Indices: 30315045--30315071 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30315035 CTCGAAAATT
30315045 TTCGA TTCGA TTCGA TTCGA TTCGA TT
1 TTCGA TTCGA TTCGA TTCGA TTCGA TT
30315072 GATCGAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTCGA
Found at i:30317700 original size:6 final size:6
Alignment explanation
Indices: 30317683--30317718 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
30317673 TAGTTTTTTC
*
30317683 ACAAAA AAAAAA ACAAAA ACAAAA ACAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
30317719 CAAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:30317700 original size:12 final size:12
Alignment explanation
Indices: 30317683--30317728 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
30317673 TAGTTTTTTC
30317683 ACAAAAAAAAAA
1 ACAAAAAAAAAA
*
30317695 ACAAAAACAAAA
1 ACAAAAAAAAAA
*
30317707 AC-AAAAACAAA
1 ACAAAAAAAAAA
30317718 ACAAGAAAAAA
1 ACAA-AAAAAA
30317729 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:30317706 original size:18 final size:17
Alignment explanation
Indices: 30317683--30317728 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
30317673 TAGTTTTTTC
30317683 ACAAAAAAAAAAACAAAA
1 ACAAAAAAAAAAAC-AAA
*
30317701 ACAAAAACAAAAACAAA
1 ACAAAAAAAAAAACAAA
30317718 ACAAGAAAAAA
1 ACAA-AAAAAA
30317729 TTTTTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:30318898 original size:21 final size:21
Alignment explanation
Indices: 30318852--30318907 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
30318842 CAACGTTTGT
* *
30318852 ATGTCTCAAGACATTAGCTTC
1 ATGTCTCAAGACATAAGCGTC
*
30318873 GTGTCTCAAGACATAAG-GTC
1 ATGTCTCAAGACATAAGCGTC
30318893 AATGTCTCAAGACAT
1 -ATGTCTCAAGACAT
30318908 GACCTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTCTCAAGACATAAGCGTC
Found at i:30320343 original size:65 final size:65
Alignment explanation
Indices: 30320239--30320375 Score: 256
Period size: 65 Copynumber: 2.1 Consensus size: 65
30320229 TCTTTATTTC
* *
30320239 ACCACCTTTGAAGCCATATTTCTTCATTCCTTTTCCACTCCACCACCACACATGGCAACTGCACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
30320304 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
30320369 ACCACCT
1 ACCACCT
30320376 CACCTCTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.26
Consensus pattern (65 bp):
ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
Found at i:30320982 original size:21 final size:21
Alignment explanation
Indices: 30320957--30320996 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30320947 CATTCTTGAT
*
30320957 AATAATTAATAATATTGATTA
1 AATAATAAATAATATTGATTA
30320978 AATAATAAATAATATTGAT
1 AATAATAAATAATATTGAT
30320997 ATTTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAATAAATAATATTGATTA
Found at i:30333699 original size:21 final size:21
Alignment explanation
Indices: 30333674--30333716 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
30333664 TTGTTGCTCA
30333674 TTAAAAATATA-AAATCAAATT
1 TTAAAAA-ATACAAATCAAATT
30333695 TTAAAAAATACAAATCAAATT
1 TTAAAAAATACAAATCAAATT
30333716 T
1 T
30333717 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAAAATACAAATCAAATT
Found at i:30336066 original size:89 final size:89
Alignment explanation
Indices: 30335959--30336155 Score: 236
Period size: 90 Copynumber: 2.2 Consensus size: 89
30335949 TTTAACTGTA
* * * *
30335959 AACACTAGTGGTTTATCCA-AAAATTACTGGCAGC-ATTTATCTGCAAACCAGTTGTGTACTCAC
1 AACACTAGTGGTTTATCCATAAAATTACTGACAACTA-GTATCTGCAAACCAGTTGTCTACTCAC
* * *
30336022 AACTACTGGCAGCGTATTAACTTGC
65 AACTACTGACAGCGTAGTAACATGC
** * *
30336047 AAGCACTAGTGGTTTATCCATAAGTTTACTGACAACTAGTATCTGCAAACCTGTTGTCTATTCAC
1 AA-CACTAGTGGTTTATCCATAAAATTACTGACAACTAGTATCTGCAAACCAGTTGTCTACTCAC
*
30336112 AAGTACTGACAGCGTAGTAACATGC
65 AACTACTGACAGCGTAGTAACATGC
* *
30336137 AACACTGGTGGTTCATCCA
1 AACACTAGTGGTTTATCCA
30336156 CAAACTGGAG
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
88 2 0.02
89 32 0.35
90 57 0.62
91 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (89 bp):
AACACTAGTGGTTTATCCATAAAATTACTGACAACTAGTATCTGCAAACCAGTTGTCTACTCACA
ACTACTGACAGCGTAGTAACATGC
Found at i:30337636 original size:21 final size:21
Alignment explanation
Indices: 30337610--30337657 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30337600 TTCTTCTTCT
30337610 TTCTTTGAAAGTACTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
*** *
30337631 TTCTTTTTTAGTAGTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
30337652 TTCTTT
1 TTCTTT
30337658 TTCTTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.62
Consensus pattern (21 bp):
TTCTTTGAAAGTACTTTTTGA
Found at i:30337658 original size:21 final size:21
Alignment explanation
Indices: 30337619--30337659 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30337609 TTTCTTTGAA
30337619 AGTACTTTTTGATTCTTTTTT
1 AGTACTTTTTGATTCTTTTTT
*
30337640 AGTAGTTTTTGATTCTTTTT
1 AGTACTTTTTGATTCTTTTT
30337660 CTTAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.66
Consensus pattern (21 bp):
AGTACTTTTTGATTCTTTTTT
Found at i:30342405 original size:20 final size:20
Alignment explanation
Indices: 30342380--30342417 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30342370 ATATCAGTAC
30342380 CAATCAAACAACTATTCAGT
1 CAATCAAACAACTATTCAGT
* *
30342400 CAATCAAGCAACTTTTCA
1 CAATCAAACAACTATTCA
30342418 AACATGCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
CAATCAAACAACTATTCAGT
Found at i:30346068 original size:21 final size:21
Alignment explanation
Indices: 30346042--30346083 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30346032 GTGAATTTTG
30346042 CTTGTATGTTATACTAACTTA
1 CTTGTATGTTATACTAACTTA
30346063 CTTGTATGTTATACTAACTTA
1 CTTGTATGTTATACTAACTTA
30346084 TGGTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
CTTGTATGTTATACTAACTTA
Found at i:30356824 original size:85 final size:86
Alignment explanation
Indices: 30356719--30357663 Score: 343
Period size: 85 Copynumber: 11.0 Consensus size: 86
30356709 AGATCGCATC
* *
30356719 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAA-TCTTATCTCCTTGAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
* * *
30356783 AGTGGAGAAGACACAAGTAAT
66 AATGGAGAAGACAAAAGAAAT
* * * *
30356804 TAGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAA-CAAGTCTTATCTCCCTAAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
*
30356868 AATGGAGCAGACAAAAGAAAT
66 AATGGAGAAGACAAAAGAAAT
* * **
30356889 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTATAAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * *
30356954 GTAATAGAGAAGATC----G-CAT
64 GCAATGGAGAAGA-CAAAAGAAAT
* * * ** * *
30356973 CCAGACCTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATCAGTCCTATCTCCCTGAAG
1 -CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-CCA--AGTCTTATCTCCCTAAAG
* ** * **
30357037 TTGCAGTGGAGTGGATTAAAACCAAT
62 TTGCAATGGAGAAGA-CAAAAGAAAT
* * * ** * * * * *
30357063 C--T--TATCTCCCTAAAGTTGCAGCGGAGC-AAACAAAA-GAAATCAATTATATATCTCTGAAG
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTC---T-TATCTCCCTAAAG
* * ** *
30357122 TTGCAGTAGAGTGGGTTA-AAACCACAAAT
62 TTGCAATGGAG-AAG--ACAAA--AGAAAT
* * * *** * * * *
30357151 C--T-C-ATCTCTCTGAAGTTGTAGTAGAGCGGA-TCGCATCTAGTCTCATCTCCCTGAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
* * *
30357211 AGTGTAGTAGACAAAAGAAAT
66 AATGGAGAAGACAAAAGAAAT
* * * ** ** * * *
30357232 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAA-TCCTATCTCCCTGAAGT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGC--GGATTA-AAACCAAGTCTTATCTCCCTAAAGT
* * * **
30357296 TGCAGT-GAAACAGATTAAAA-CCA-
63 TGCAATGGAGA-AGA-CAAAAGAAAT
* * * * *
30357319 CGGATCTTATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAA-TCTTATATCCCTTAAAGTT
1 CAG-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCC-TAAAGTT
* *
30357383 GTAATGGAGCAGACAAAAGAAAT
64 GCAATGGAGAAGACAAAAGAAAT
* * * * * * * *
30357406 CAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATCTCATCTCTCTGAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * ** *
30357471 GC-A-GTAG-AG-CGGATCG-CAT
64 GCAATGGAGAAGAC-AAAAGAAAT
** ** * *
30357490 CTAGT-CTCATCTCCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAA-TCTTATCTCCCTGAA
1 C-AGTCCT-ATCTCCCTGAAGTTGCAGTGGAGC--GGATTA-AAACCAAGTCTTATCTCCCTAAA
* ** *
30357553 GTTGTAGGGGAGCAGACAAAAGAAAT
61 GTTGCAATGGAGAAGACAAAAGAAAT
* * * * * * *
30357579 CAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTATCCCCCTGAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * *
30357644 GCAGTGGAGCAGACTAAAGA
64 GCAATGGAGAAGACAAAAGA
30357664 TAGCAAATTT
Statistics
Matches: 638, Mismatches: 162, Indels: 117
0.70 0.18 0.13
Matches are distributed among these distances:
81 9 0.01
82 1 0.00
83 5 0.01
84 16 0.03
85 319 0.50
86 65 0.10
87 15 0.02
88 178 0.28
89 28 0.04
90 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (86 bp):
CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
AATGGAGAAGACAAAAGAAAT
Found at i:30356826 original size:44 final size:43
Alignment explanation
Indices: 30356720--30357100 Score: 183
Period size: 44 Copynumber: 9.0 Consensus size: 43
30356710 GATCGCATCC
* * ** **
30356720 AGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ACCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* * * * * *
30356762 A-TCTTATCTCCTTGAAGTTGCAGTGGAGAAGACACAAGTAATT
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AATA
* ** *
30356805 AGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGA-TTAA-AACA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* *
30356846 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACAAAAGAAATCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AAT-A
* * * * ** *
30356891 A-TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCA-C
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGA-CAAAAGAATA
* ** * * ** * *
30356933 AGATCTTATCTCTATAAAGTTGTAAT--AG-AGA-AGATCGCATCC
1 AG-TCCTATCTCCCTAAAGTTGCAGTGGAGCAGACA-AAAGAAT-A
* * *
30356975 AGACCTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATC
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AATA
* ** ** **
30357019 AGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* * *
30357061 A-TCTTATCTCCCTAAAGTTGCAGCGGAGCAAACAAAAGAA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAA
30357101 ATCAATTATA
Statistics
Matches: 251, Mismatches: 69, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 107 0.43
42 12 0.05
43 6 0.02
44 113 0.45
45 9 0.04
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (43 bp):
AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
Found at i:30356951 original size:129 final size:129
Alignment explanation
Indices: 30356676--30357663 Score: 598
Period size: 129 Copynumber: 7.7 Consensus size: 129
30356666 AATGGATTCT
* * * ** * * *
30356676 ACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCGCATCCAGTCCTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* ** * * * * ** * * **
30356741 CAGTGGAGC-G-GATTA-AAACCAATCTTATCTCCTTGAAGTTGCAGTGGAGAAGA-CACAAGT
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
* * * * *
30356801 A-ATTAGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAACAAGTCTTATCTCCCTAAAGT
1 ACA-GA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGT
*
30356865 TGCAATGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
64 TGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
30356930 C
129 C
** * * * * ** * * * *
30356931 ACAGATCTTATCTCTATAAAGTTGTAATAGAGAAGATCGCATCCAGACCTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* * *
30356996 CAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA-C
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
* * * * * *
30357059 -CA-ATCTTATCTCCCTAAAGTTGCAGCGGAGCA-AACAAAAGAAATCAATTATATATCTCTGAA
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTC---T-TATCTCCCTGAA
* ** ** ** * *
30357121 GTTGCAGTAGAGTGGGTTAAAA-CCA-CAAAT-CTCATCTCTCTGAAGTTGTAGTAGAGCGGA-T
62 GTTGCAGTGGAG-CAGACAAAAGAAATC-AATCCT-ATCTCCCTGAAGTTGCAGTAGAGCGGATT
*** *
30357182 CGCATC
124 AAAACC
* * * * *
30357188 -TAG-TCTCATCTCCCTGAAGTTGCAGTGTAGTAGA-CAAAAGAAATCAA-TCTTATCTCCCTGA
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC---A-AAA-CAAGTCTTATCTCCCTGA
* * * * *
30357249 AGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGT-GAAACAGATTA
61 AGTTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAG-AGCGGATTA
30357313 AAACC
125 AAACC
* * * * * *
30357318 ACGGATCTTATCCCCCTGAAGTTGCAGTGGAGCGGA-CTAAAACCAA-TCTTATATCCCTTAAAG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC-AAAA-CAAGTCTTATCTCCC-TGAAG
* * * * * * *
30357381 TTGTAATGGAGCAGACAAAAGAAATCAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAA
63 TTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
30357446 CC
128 CC
* * * * * ** * * *
30357448 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* * * ** * * **
30357513 CAGTGGAGCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAGA-CAAAAGAA
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA-CC
* * * * * * * * *
30357577 ATCA-ATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTATCCCCCTGAA
1 A-CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAA-CA-AG-TCTTATCTCCCTGAA
*
30357641 GTTGCAGTGGAGCAGACTAAAGA
62 GTTGCAGTGGAGCAGACAAAAGA
30357664 TAGCAAATTT
Statistics
Matches: 657, Mismatches: 168, Indels: 69
0.73 0.19 0.08
Matches are distributed among these distances:
124 1 0.00
125 7 0.01
126 79 0.12
127 3 0.00
128 17 0.03
129 354 0.54
130 123 0.19
131 5 0.01
132 61 0.09
133 5 0.01
134 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (129 bp):
ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
Found at i:30357143 original size:214 final size:213
Alignment explanation
Indices: 30356766--30357263 Score: 674
Period size: 214 Copynumber: 2.3 Consensus size: 213
30356756 AAACCAATCT
* * * * * *
30356766 TATCTCCTTGAAGTTGCAGTGGAGAAGACACAAGTAATTAGTCCTATCTCCTTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
* * *
30356831 GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACAAAAGAAATCAATCCT
66 GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCAT
* * *
30356896 ATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTATAAAGTTGTAATAG
131 ATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATAG
30356961 AGAAGATCGCATCCAGACC
196 AGAAGATCGCATCCAG-CC
*
30356980 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
** * *
30357045 GAGTGGATTAAAACCAA-TCTTATCTCCCTAAAGTTGCAGCGGAGCAAACAAAAGAAATCAATTA
66 GAGCAGATTAAAA-CAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCA
* * * * * *
30357109 TATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTCATCTCTCTGAAGTTGTAGTA
130 TATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATA
** * *
30357174 GAGCGGATCGCATCTAGTC
195 GAGAAGATCGCATCCAGCC
* * * * *
30357193 TCATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGT
1 T-ATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGT
30357258 GGAGCA
65 GGAGCA
30357264 AAAAAAAGAA
Statistics
Matches: 248, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
213 2 0.01
214 243 0.98
215 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (213 bp):
TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCAT
ATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATAG
AGAAGATCGCATCCAGCC
Found at i:30357247 original size:44 final size:44
Alignment explanation
Indices: 30357195--30357663 Score: 318
Period size: 44 Copynumber: 10.8 Consensus size: 44
30357185 ATCTAGTCTC
* *
30357195 ATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * *
30357239 ATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * ** *
30357283 ATCTCCCTGAAGTTGCAGTGAAACAGATTAAAA-CCA-CGGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
* * * *
30357327 ATCCCCCTGAAGTTGCAGTGGAGCGGAC--TA-AAACCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * * *
30357368 ATATCCCTTAAAGTTGTAATGGAGCAGACAAAAGAAATCAATCAT
1 ATCTCCC-TGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * ** ** *
30357413 ATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAA-CCA-CAGATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGC-AGACAAAAGAAATCA-ATCTT
* * * * * *
30357457 ATCTCTCTGAAGTTGCAGTAGAGCGGATC----G-CATCTAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
*
30357498 ATCTCCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * *
30357542 ATCTCCCTGAAGTTGTAGGGGAGCAGACAAAAGAAATCAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * * ** * *
30357586 ATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAA-CCA-CGGATGTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
* *
30357630 ATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGA
30357664 TAGCAAATTT
Statistics
Matches: 322, Mismatches: 82, Indels: 42
0.72 0.18 0.09
Matches are distributed among these distances:
40 3 0.01
41 40 0.12
42 19 0.06
43 9 0.03
44 221 0.69
45 30 0.09
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
Found at i:30357316 original size:173 final size:170
Alignment explanation
Indices: 30357025--30357353 Score: 399
Period size: 173 Copynumber: 1.9 Consensus size: 170
30357015 AATCAGTCCT
* **
30357025 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
1 ATCTCCCTGAAGTTGCAGTGGAGTGCAAAAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
* * * *** *
30357090 AAACAAAAGAAATCAATTATATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTCA
66 AAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAGAACAGATTAAAACCACAAATCTCA
* * *
30357155 TCTCTCTGAAGTTGTAGTAGAGCGGATCGCATCTAGTCTC
131 TCCCCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTC
* * * * *
30357195 ATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGT-G-CAAAA-AAACCAATCTTATCTCCCTAAAGTTGCAGCGG
* * **
30357260 AGCAAAAAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGT-GAAACAGATTAAAACCACGGAT
63 AGCAAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAG-AACAGATTAAAACCACAAAT
* *
30357324 CTTATCCCCCTGAAGTTGCAGTGGAGCGGA
127 CTCATCCCCCTGAAGTTGCAGTAGAGCGGA
30357354 CTAAAACCAA
Statistics
Matches: 131, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
170 23 0.18
171 1 0.01
172 3 0.02
173 104 0.79
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (170 bp):
ATCTCCCTGAAGTTGCAGTGGAGTGCAAAAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
AAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAGAACAGATTAAAACCACAAATCTCA
TCCCCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTC
Found at i:30357462 original size:303 final size:302
Alignment explanation
Indices: 30357024--30357661 Score: 1017
Period size: 303 Copynumber: 2.1 Consensus size: 302
30357014 AAATCAGTCC
* * * * *
30357024 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAG
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTAAAGTTGCAACGGAG
* *
30357089 CAAACAAAAGAAATCAATTATATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTC
66 CAAACAAAAGAAATCAATCATATATCTCTGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATCTC
* * *
30357154 ATCTCTCTGAAGTTGTAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGTAGT
131 ATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGC
* *
30357219 AGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCTA
196 AAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCCTA
30357284 TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
261 TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
* *
30357326 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTTAAAGTTGTAATGGA
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCC-TAAAGTTGCAACGGA
* * * * *
30357391 GCAGACAAAAGAAATCAATCATATCTC-CTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATC
65 GCAAACAAAAGAAATCAATCATATATCTC-TGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATC
30357455 TCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGA
129 TCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGA
* *
30357520 GCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAGACAAAAGAAATCAATCC
194 GCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCC
* * * *
30357585 TATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGT
259 TATCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
*
30357629 TATCCCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAA
30357662 GATAGCAAAT
Statistics
Matches: 308, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
302 46 0.15
303 262 0.85
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (302 bp):
TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTAAAGTTGCAACGGAG
CAAACAAAAGAAATCAATCATATATCTCTGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATCTC
ATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGC
AAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCCTA
TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
Found at i:30357592 original size:173 final size:171
Alignment explanation
Indices: 30357331--30357653 Score: 450
Period size: 173 Copynumber: 1.9 Consensus size: 171
30357321 GATCTTATCC
** * *
30357331 CCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTTAAAGTTGTAATGGAGCAGA
1 CCCTGAAGTTGCAGTGGAGCAAACAAAAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGCAGA
* * * *
30357396 CAAAAGAAATCAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATCTCATCT
66 CAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCATCC
*
30357461 CTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
131 CCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
* * * *
30357502 CCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAATCTTATCTCCC-TGAAGTTGTAGGGGAGC
1 CCCTGAAGTTGCAGTGGAGCAAAC--AA-AAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGC
* * * *
30357566 AGACAAAAGAAATCAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTA
63 AGACAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCA
*
30357631 TCCCCCTGAAGTTGCAGTGGAGC
128 TCCCCCTGAAGTTGCAGTAGAGC
30357654 AGACTAAAGA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
171 22 0.17
173 93 0.71
174 16 0.12
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (171 bp):
CCCTGAAGTTGCAGTGGAGCAAACAAAAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGCAGA
CAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCATCC
CCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
Done.