Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 218 of 290
Found at i:75377324 original size:27 final size:26
Alignment explanation
Indices: 75377110--75377323 Score: 266
Period size: 27 Copynumber: 7.9 Consensus size: 26
75377100 AGGAAGCGTC
* *
75377110 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
75377137 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
75377164 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
75377191 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
75377218 CTGGTGGCTCTGCCATGATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
* *
75377245 CTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
75377272 CTGGTGGTTCTTCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
75377300 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
75377324 TTCTAGCAGC
Statistics
Matches: 166, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.02
27 145 0.87
28 17 0.10
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:75378711 original size:75 final size:75
Alignment explanation
Indices: 75378615--75378772 Score: 300
Period size: 75 Copynumber: 2.1 Consensus size: 75
75378605 TGGTTTACCA
75378615 TGTG-GTTAGTTCCAAAAAGAATTATGTTTAAATGCACTAGCTTGTGGCTATAATTGAATGATAT
1 TGTGTGTTAGTTCCAAAAAGAATTATGTTTAAATGCACTAGCTTGTGGCTATAATTGAATGATAT
75378679 GCTTATGTCT
66 GCTTATGTCT
75378689 TGTGTGTTAGTTCCAAAAAGAATTATGTTTAAATGCACTAGCTTGTGGCTATAATTGAATGATAT
1 TGTGTGTTAGTTCCAAAAAGAATTATGTTTAAATGCACTAGCTTGTGGCTATAATTGAATGATAT
*
75378754 GCTTATTTCT
66 GCTTATGTCT
75378764 TGTGTGTTA
1 TGTGTGTTA
75378773 TGCATATAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
74 4 0.05
75 78 0.95
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (75 bp):
TGTGTGTTAGTTCCAAAAAGAATTATGTTTAAATGCACTAGCTTGTGGCTATAATTGAATGATAT
GCTTATGTCT
Found at i:75382457 original size:16 final size:17
Alignment explanation
Indices: 75382429--75382460 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
75382419 GAGTACGTAC
75382429 AAAACTACTTTTTTTTT
1 AAAACTACTTTTTTTTT
75382446 AAAACT-CTTTTTTTT
1 AAAACTACTTTTTTTT
75382461 AATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
AAAACTACTTTTTTTTT
Found at i:75383244 original size:10 final size:10
Alignment explanation
Indices: 75383211--75383244 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
75383201 TGAATGAGTT
75383211 GAAAATTCCA
1 GAAAATTCCA
*
75383221 GAATAATTCAA
1 GAA-AATTCCA
75383232 GAAAATTCCA
1 GAAAATTCCA
75383242 GAA
1 GAA
75383245 TCTTCTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (10 bp):
GAAAATTCCA
Found at i:75386266 original size:19 final size:19
Alignment explanation
Indices: 75386242--75386281 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
75386232 TCAGTAGTTC
75386242 ATCCATATAAACAGTATTT
1 ATCCATATAAACAGTATTT
*
75386261 ATCCATATAAATAGTATTT
1 ATCCATATAAACAGTATTT
75386280 AT
1 AT
75386282 GCCCATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (19 bp):
ATCCATATAAACAGTATTT
Found at i:75386408 original size:25 final size:25
Alignment explanation
Indices: 75386386--75386470 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 25
75386376 TTCGAGCTAT
*
75386386 GAACAGTAAGCTCCTCTTGAGCTAAA
1 GAACAGTAAGCT-CTATTGAGCTAAA
* *
75386412 GGACAGTAAGCTCTATTGAGCTGAA
1 GAACAGTAAGCTCTATTGAGCTAAA
* *
75386437 G--CGGTAAGCTCTGA-CGAGCT-AA
1 GAACAGTAAGCTCT-ATTGAGCTAAA
75386459 -AACAGTAAGCTC
1 GAACAGTAAGCTC
75386471 CAATTAGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.04
23 24 0.48
24 1 0.02
25 12 0.24
26 11 0.22
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
GAACAGTAAGCTCTATTGAGCTAAA
Found at i:75395723 original size:26 final size:25
Alignment explanation
Indices: 75395694--75395751 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
75395684 ATAAAACCTA
*
75395694 AAAATGAAATAGTA-TTAAATGAAAAT
1 AAAAT-AAAAAGTACTTAAA-GAAAAT
*
75395720 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAGTACTTAAAGAAAAT
75395745 -AAATAAA
1 AAAATAAA
75395752 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTACTTAAAGAAAAT
Found at i:75395746 original size:25 final size:25
Alignment explanation
Indices: 75395694--75395777 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
75395684 ATAAAACCTA
*
75395694 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
75395720 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
*
75395745 -AAAT--AAAG-ATAAAAGTGAAAAT
1 AAAATAAAAAGTATTAAA-TGAAAAT
75395767 AAAAATAAAAA
1 -AAAATAAAAA
75395778 ATAAAAAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 9 0.19
24 8 0.17
25 12 0.26
26 13 0.28
ACGTcount: A:0.68, C:0.01, G:0.11, T:0.20
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:75397350 original size:27 final size:27
Alignment explanation
Indices: 75397319--75397371 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
75397309 ATTATTATGA
75397319 GAGTAAGCAT-AAAAAGAGAGTAAAATG
1 GAGTAAGCATAAAAAAG-GAGTAAAATG
75397346 GAGTAAGCATAAAAAAGGAGTAAAAT
1 GAGTAAGCATAAAAAAGGAGTAAAAT
75397372 AGAAGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.57, C:0.04, G:0.25, T:0.15
Consensus pattern (27 bp):
GAGTAAGCATAAAAAAGGAGTAAAATG
Found at i:75399253 original size:39 final size:39
Alignment explanation
Indices: 75399197--75399338 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
75399187 CAGTGATGTT
*
75399197 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
75399236 TATCCGGACTTAAGGTCCGCAGGCAATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
75399275 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
75399314 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
75399339 TCGAACTGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.05
39 87 0.95
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:75399353 original size:78 final size:77
Alignment explanation
Indices: 75399196--75399358 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
75399186 TCAGTGATGT
* * * *
75399196 TTAT-CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGC
1 TTATACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
**
75399260 AATGTGCTGGAA
66 AATGAACTGGAA
* *
75399272 TTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAG
1 TTAT-ACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAG
* *
75399336 GC-TTCGAACTGGTA
64 GCAAT-GAACTGGAA
75399350 TTATACCGG
1 TTATACCGG
75399359 GTTTAAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
76 4 0.05
77 11 0.15
78 58 0.79
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (77 bp):
TTATACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
AATGAACTGGAA
Found at i:75400812 original size:55 final size:54
Alignment explanation
Indices: 75400697--75400801 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
75400687 CGGGTAGTGG
* * * *
75400697 GCACAGGCGTGTCGCACGCCCGTGTTGTTTTCTCAGTTTCAACCATGGCCTCTA
1 GCACGGGCGTGTCGCACGCCCGTGTTGTTTTCACAGATTCAACCACGGCCTCTA
* *
75400751 GACACGGGCGTGTCGCACGCCCGTGTTGTTTTGACAGATTCACCCACGGCC
1 G-CACGGGCGTGTCGCACGCCCGTGTTGTTTTCACAGATTCAACCACGGCC
75400802 ATGTTGCACG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 1 0.02
55 43 0.98
ACGTcount: A:0.15, C:0.32, G:0.27, T:0.26
Consensus pattern (54 bp):
GCACGGGCGTGTCGCACGCCCGTGTTGTTTTCACAGATTCAACCACGGCCTCTA
Found at i:75406585 original size:20 final size:19
Alignment explanation
Indices: 75406560--75406606 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
75406550 ATCTATTTGC
75406560 AAACAGTAGCTCATCCATAT
1 AAACAGTA-CTCATCCATAT
* *
75406580 AAACAGTATTTATCCATAT
1 AAACAGTACTCATCCATAT
75406599 AAACAGTA
1 AAACAGTA
75406607 TTTATGCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (19 bp):
AAACAGTACTCATCCATAT
Found at i:75406596 original size:19 final size:19
Alignment explanation
Indices: 75406572--75406611 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
75406562 ACAGTAGCTC
75406572 ATCCATATAAACAGTATTT
1 ATCCATATAAACAGTATTT
75406591 ATCCATATAAACAGTATTT
1 ATCCATATAAACAGTATTT
75406610 AT
1 AT
75406612 GCCCGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
ATCCATATAAACAGTATTT
Found at i:75406802 original size:23 final size:23
Alignment explanation
Indices: 75406739--75406818 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
75406729 GCTGAAGGAT
*
75406739 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
75406762 GGTAAGCTCTAACGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * * *
75406785 AGTAAGCTCCAATAAGCTAAAAAT
1 AGTAAGCTCTAATGAGCT-GAAAC
75406809 AGTAAGCTCT
1 AGTAAGCTCT
75406819 TACAAGCTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:75414310 original size:17 final size:18
Alignment explanation
Indices: 75414288--75414329 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
75414278 AAACTGAAAT
75414288 TAAAATT-AAAAAATATA
1 TAAAATTAAAAAAATATA
*
75414305 TAAAATTCAAAAAAATTTA
1 TAAAATT-AAAAAAATATA
75414324 TAAAAT
1 TAAAAT
75414330 CTTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATTAAAAAAATATA
Found at i:75414481 original size:3 final size:3
Alignment explanation
Indices: 75414473--75414513 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
75414463 AACCAAACAG
75414473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75414514 GGGAATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:75415010 original size:14 final size:12
Alignment explanation
Indices: 75414990--75415035 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 12
75414980 AAATTTAATT
75414990 TTTTAATTTTATA
1 TTTTAATTTTA-A
75415003 TTTCTAATTTTAA
1 TTT-TAATTTTAA
75415016 TTTTAATTTT--
1 TTTTAATTTTAA
75415026 TTTTAATTTT
1 TTTTAATTTT
75415036 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.31
12 7 0.22
13 7 0.22
14 8 0.25
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:75415035 original size:9 final size:9
Alignment explanation
Indices: 75415016--75415046 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
75415006 CTAATTTTAA
75415016 TTTTAATTTT
1 TTTTAA-TTT
75415026 TTTTAATTT
1 TTTTAATTT
75415035 TTTTAATTT
1 TTTTAATTT
75415044 TTT
1 TTT
75415047 ACAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTAATTT
Found at i:75415044 original size:6 final size:6
Alignment explanation
Indices: 75414990--75415035 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
75414980 AAATTTAATT
75414990 TTTTAA TTTTATA TTTCTAA TTTTAA TTTTAA TTTT-- TTTTAA TTTT
1 TTTTAA TTTTA-A TTT-TAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
75415036 TTTAATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.11
6 22 0.61
7 8 0.22
8 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:75415052 original size:10 final size:10
Alignment explanation
Indices: 75415019--75415060 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
75415009 ATTTTAATTT
*
75415019 TAATTTTTTT
1 TAATTTTTTA
75415029 TAATTTTTT-
1 TAATTTTTTA
75415038 TAATTTTTTA
1 TAATTTTTTA
*
75415048 CAATTATTTTA
1 TAATT-TTTTA
75415059 TA
1 TA
75415061 CAAATAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 9 0.32
10 13 0.46
11 6 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:75415052 original size:19 final size:19
Alignment explanation
Indices: 75415015--75415058 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
75415005 TCTAATTTTA
**
75415015 ATTTTAATTTTTTTTAATT
1 ATTTTAATTTTTTACAATT
*
75415034 TTTTTAATTTTTTACAATT
1 ATTTTAATTTTTTACAATT
75415053 ATTTTA
1 ATTTTA
75415059 TACAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTAATTTTTTACAATT
Found at i:75418898 original size:25 final size:25
Alignment explanation
Indices: 75418870--75418920 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
75418860 AAATGTCGAG
75418870 TGACATAAATGTATCCTACAAGCTA
1 TGACATAAATGTATCCTACAAGCTA
75418895 TGACATAAATGTATCCTACAAGCTA
1 TGACATAAATGTATCCTACAAGCTA
75418920 T
1 T
75418921 CATACTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TGACATAAATGTATCCTACAAGCTA
Found at i:75420829 original size:39 final size:40
Alignment explanation
Indices: 75420734--75420956 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
75420724 TTGAATGATG
*
75420734 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
75420772 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
75420813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
75420852 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
75420891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
75420930 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
75420957 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:75420920 original size:79 final size:81
Alignment explanation
Indices: 75420734--75420956 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
75420724 TTGAATGATG
* * *
75420734 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
75420796 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
75420813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
75420874 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
75420891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
75420955 TG
66 TG
75420957 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:75420978 original size:79 final size:79
Alignment explanation
Indices: 75420734--75420989 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
75420724 TTGAATGATG
* * * *
75420734 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
75420795 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
75420813 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
75420877 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
75420891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
75420954 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
75420971 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
75420990 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:75423393 original size:29 final size:30
Alignment explanation
Indices: 75423361--75423418 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
75423351 ATTTTTTCGA
*
75423361 CCTAATCCCATAAATTTTCA-AAAAATCAG
1 CCTAATCCAATAAATTTTCATAAAAATCAG
*
75423390 CCTAATCCAATAAATTTTTATAAAAATCA
1 CCTAATCCAATAAATTTTCATAAAAATCA
75423419 ACATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (30 bp):
CCTAATCCAATAAATTTTCATAAAAATCAG
Found at i:75425020 original size:18 final size:18
Alignment explanation
Indices: 75424990--75425024 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
75424980 GTTCAAAAAA
75424990 ATAAAACTTATAGTAAATT
1 ATAAAACTTATAG-AAATT
75425009 ATAAAA-TTATAGAAAT
1 ATAAAACTTATAGAAAT
75425025 ATAGACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAAAACTTATAGAAATT
Found at i:75425101 original size:20 final size:20
Alignment explanation
Indices: 75425078--75425129 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
75425068 ATAATTATTT
75425078 AAAATTATAAAAAAGCA-TAA
1 AAAATTATAAAAAAG-ATTAA
* *
75425098 AAAAGTACTAAAAATGATTAA
1 AAAATTA-TAAAAAAGATTAA
75425119 AAAATTATAAA
1 AAAATTATAAA
75425130 TGTCGCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAATTATAAAAAAGATTAA
Found at i:75431334 original size:30 final size:31
Alignment explanation
Indices: 75431276--75431334 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
75431266 TCATGGTTTC
75431276 AATATTAATATAAAATTATTATAACTTAAAT
1 AATATTAATATAAAATTATTATAACTTAAAT
* *
75431307 AATATT-AT-TAATAATTTTTATAGCTTAA
1 AATATTAATATAA-AATTATTATAACTTAA
75431335 TTATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 16 0.64
31 6 0.24
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (31 bp):
AATATTAATATAAAATTATTATAACTTAAAT
Found at i:75433394 original size:27 final size:27
Alignment explanation
Indices: 75433364--75433541 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
75433354 ATATTGAGTC
* * * *
75433364 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
75433391 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75433418 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
75433446 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
75433473 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
75433500 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75433527 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75433542 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:75433503 original size:82 final size:81
Alignment explanation
Indices: 75433385--75433540 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
75433375 TGCTATATAA
* *
75433385 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
75433450 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
75433467 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
75433531 CACTTAGTGC
65 CACTTAGTGC
75433541 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:75441584 original size:27 final size:27
Alignment explanation
Indices: 75441554--75441731 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
75441544 ATATTGAGTC
* * * *
75441554 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
75441581 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75441608 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
75441636 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
75441663 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
75441690 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75441717 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75441732 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:75441693 original size:82 final size:81
Alignment explanation
Indices: 75441575--75441730 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
75441565 TGCTATATAA
* *
75441575 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
75441640 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
75441657 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
75441721 CACTTAGTGC
65 CACTTAGTGC
75441731 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:75442232 original size:12 final size:12
Alignment explanation
Indices: 75442215--75442241 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75442205 ATGGCATACT
75442215 TATGTATATATA
1 TATGTATATATA
75442227 TATGTATATATA
1 TATGTATATATA
75442239 TAT
1 TAT
75442242 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:75444150 original size:33 final size:33
Alignment explanation
Indices: 75444113--75444184 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
75444103 CTATATCAAT
*
75444113 ATCTTTTATCAAAGCTTAATTTAACTCAATATA
1 ATCTTTTATCAAAGCTTAATTTAACACAATATA
* *
75444146 ATCTTTTATCAAATCTTAATTTAACACAATGTA
1 ATCTTTTATCAAAGCTTAATTTAACACAATATA
75444179 ATCTTT
1 ATCTTT
75444185 GACTACTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (33 bp):
ATCTTTTATCAAAGCTTAATTTAACACAATATA
Found at i:75445263 original size:13 final size:13
Alignment explanation
Indices: 75445245--75445276 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
75445235 ATTTCAATCT
75445245 TATTCAAATATAA
1 TATTCAAATATAA
75445258 TATTCAAATATAA
1 TATTCAAATATAA
75445271 T-TTCAA
1 TATTCAA
75445277 GTGTTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTCAAATATAA
Found at i:75448739 original size:28 final size:28
Alignment explanation
Indices: 75448698--75448828 Score: 167
Period size: 28 Copynumber: 4.7 Consensus size: 28
75448688 ACACGACATT
* * *
75448698 AAAAAAATATCCTTTGTGGTGAACTATG
1 AAAAGAATAGCCTTTGTGGTGAACTTTG
*
75448726 AAAAGAATAGCCTTTGTGGTGAACTTTA
1 AAAAGAATAGCCTTTGTGGTGAACTTTG
*
75448754 AAAAGAATAGCTTTTGTGGTGAACTCTT-
1 AAAAGAATAGCCTTTGTGGTGAACT-TTG
*
75448782 AAAAGAATAGCCTTTGTGGCGAACTTTG
1 AAAAGAATAGCCTTTGTGGTGAACTTTG
*
75448810 AAAAGGGAT-GCCTTTGTGG
1 AAAA-GAATAGCCTTTGTGG
75448829 CAAATTCTGA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
27 2 0.02
28 85 0.92
29 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (28 bp):
AAAAGAATAGCCTTTGTGGTGAACTTTG
Found at i:75450767 original size:47 final size:45
Alignment explanation
Indices: 75450710--75450815 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 45
75450700 AGTGTTTTAT
* * *
75450710 CCACATATGTGTTTCAACAGCTTGTTTACAATTTTGGTGGC-TTGA
1 CCACATATGTGTTT-AACAGCTAGTCTACAAATTTGGTGGCTTTGA
** *
75450755 CCACAATTATGTGTATTGGCAGCTAGTCTACAAATTTGGTGGCTTTGT
1 CCAC-A-TATGTGT-TTAACAGCTAGTCTACAAATTTGGTGGCTTTGA
75450803 CCACATATGTGTT
1 CCACATATGTGTT
75450816 GGTGTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
45 5 0.10
46 8 0.16
47 29 0.57
48 9 0.18
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (45 bp):
CCACATATGTGTTTAACAGCTAGTCTACAAATTTGGTGGCTTTGA
Found at i:75458868 original size:68 final size:68
Alignment explanation
Indices: 75458718--75458875 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
75458708 CTAGCCAATT
* * *
75458718 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
75458783 TTTA
65 CATA
* * *
75458787 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
75458849 CTACATA
63 C-ACATA
*
75458856 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
75458876 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:75469011 original size:68 final size:68
Alignment explanation
Indices: 75468861--75469014 Score: 161
Period size: 68 Copynumber: 2.2 Consensus size: 68
75468851 CTAGCCAATT
* * *
75468861 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
75468926 TTTA
65 CATA
* * *
75468930 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
75468992 CTACATA
63 C-ACATA
75468999 GTATCTCGTAGCTCTC
1 -TATCTCGTAGCTCTC
75469015 AGGCCGTAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
68 32 0.45
69 7 0.10
70 6 0.08
71 26 0.37
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:75470984 original size:41 final size:40
Alignment explanation
Indices: 75470886--75471033 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
75470876 TTTTATCAAA
* *
75470886 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAA-TCAT
*** * * *
75470926 TCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAA-TCAT
* *
75470967 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGA-ATCA-T
75471009 TCACCGGCATTATAGCCTGCTAGGC
1 TCACCGGCATT-TAGCCTGCTAGGC
75471034 CCGAAGCCCG
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
40 31 0.36
41 30 0.35
42 13 0.15
43 12 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAATCAT
Found at i:75471040 original size:43 final size:45
Alignment explanation
Indices: 75470965--75471094 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
75470955 GTCTGAACTC
* *
75470965 ATTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCA-T
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
*
75471008 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT-ATCATT
* * * *
75471052 ATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
75471095 CCATTATAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 12 0.16
43 23 0.32
44 27 0.37
45 11 0.15
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
ATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
Found at i:75474737 original size:139 final size:139
Alignment explanation
Indices: 75474487--75474773 Score: 542
Period size: 139 Copynumber: 2.1 Consensus size: 139
75474477 CTCGGCCAAA
75474487 ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
1 ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
75474552 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
66 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
75474617 TAATTAATT
131 TAATTAATT
75474626 ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
1 ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
* *
75474691 ATTCAATGCATCGGTGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
66 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
75474756 TAATTAATT
131 TAATTAATT
75474765 -CTAG-CCATC
1 ACTAGACCATC
75474774 TCCTTTGTCT
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
137 5 0.03
138 4 0.03
139 137 0.94
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (139 bp):
ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
TAATTAATT
Found at i:75486944 original size:79 final size:81
Alignment explanation
Indices: 75486808--75486992 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
75486798 TTGAATGATG
*
75486808 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
75486872 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
75486887 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
75486949 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
75486967 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
75486993 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:75487006 original size:40 final size:40
Alignment explanation
Indices: 75486809--75486992 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
75486799 TGAATGATGT
* * * *
75486809 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
75486849 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
75486889 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
75486927 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
75486968 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
75486993 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:75487014 original size:79 final size:79
Alignment explanation
Indices: 75486809--75487025 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
75486799 TGAATGATGT
** * * * **
75486809 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
75486872 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
75486889 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
75486954 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
75486968 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
75487026 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:75496691 original size:79 final size:81
Alignment explanation
Indices: 75496582--75496764 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
75496572 TACTCGTTCA
* *
75496582 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
75496645 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
75496662 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
75496725 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
75496741 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
75496765 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:75496764 original size:40 final size:40
Alignment explanation
Indices: 75496561--75496764 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
75496551 CGGAATTTAA
** *
75496561 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
75496601 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75496641 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75496680 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
75496720 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
75496760 CCGGA
1 CCGGA
75496765 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:75502005 original size:28 final size:28
Alignment explanation
Indices: 75501965--75502019 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
75501955 GTTACACTGT
* *
75501965 ACTGATATTGTATTAGGCTTAGGCTCAC
1 ACTGATATTGTATAAGGCTAAGGCTCAC
*
75501993 ACTGTTATTGTATAAGGCTAAGGCTCA
1 ACTGATATTGTATAAGGCTAAGGCTCA
75502020 GATTGTACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (28 bp):
ACTGATATTGTATAAGGCTAAGGCTCAC
Found at i:75505745 original size:27 final size:27
Alignment explanation
Indices: 75505711--75505801 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
75505701 AACCCCAAAA
*
75505711 TAGG-TAAAATAACCGTAATACCCTTG
1 TAGGATAAAATAACCGTAATACCCCTG
* * *
75505737 TAGGATAAAATGACTGTAATGCCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
75505764 TAGGGTAAAATAACCGTAATACCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
75505791 TACGATAAAAT
1 TAGGATAAAAT
75505802 GACGATTATG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
TAGGATAAAATAACCGTAATACCCCTG
Found at i:75506195 original size:28 final size:28
Alignment explanation
Indices: 75506155--75506209 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
75506145 GTTACACTGT
* *
75506155 ACTGATATTGTATTAGGCTTAGGCTCAC
1 ACTGATATTGTATAAGGCTAAGGCTCAC
*
75506183 ACTGTTATTGTATAAGGCTAAGGCTCA
1 ACTGATATTGTATAAGGCTAAGGCTCA
75506210 GATTGTACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (28 bp):
ACTGATATTGTATAAGGCTAAGGCTCAC
Found at i:75508804 original size:20 final size:20
Alignment explanation
Indices: 75508781--75508859 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
75508771 TACATTTAGG
75508781 GGCACTAAAGTGCAAACAGA
1 GGCACTAAAGTGCAAACAGA
* **
75508801 GGCA-TAGATGTGCATTCAGA
1 GGCACTA-AAGTGCAAACAGA
* **
75508821 GGTACCGAAGTGCAAACAGA
1 GGCACTAAAGTGCAAACAGA
*
75508841 GGCACTGATA-TGCAAACAG
1 GGCACT-AAAGTGCAAACAG
75508860 GGGTACCGAA
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.05
20 40 0.93
21 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (20 bp):
GGCACTAAAGTGCAAACAGA
Found at i:75508832 original size:40 final size:40
Alignment explanation
Indices: 75508788--75508876 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
75508778 AGGGGCACTA
* **
75508788 AAGTGCAAACAGAGGCA-TAGATGTGCATTCAGAGGTACCG
1 AAGTGCAAACAGAGGCACT-GATATGCAAACAGAGGTACCG
*
75508828 AAGTGCAAACAGAGGCACTGATATGCAAACAGGGGTACCG
1 AAGTGCAAACAGAGGCACTGATATGCAAACAGAGGTACCG
*
75508868 AAGTACAAA
1 AAGTGCAAA
75508877 TAGGGATGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (40 bp):
AAGTGCAAACAGAGGCACTGATATGCAAACAGAGGTACCG
Found at i:75508876 original size:20 final size:20
Alignment explanation
Indices: 75508821--75508881 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
75508811 TGCATTCAGA
*
75508821 GGTACCGAAGTGCAAACAGA
1 GGTACCGAAGTGCAAACAGG
* *
75508841 GGCACTGATA-TGCAAACAGG
1 GGTACCGA-AGTGCAAACAGG
* *
75508861 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTGCAAACAGG
75508881 G
1 G
75508882 ATGTTGATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (20 bp):
GGTACCGAAGTGCAAACAGG
Found at i:75509461 original size:18 final size:18
Alignment explanation
Indices: 75509438--75509475 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
75509428 TCAAATCACT
75509438 TAACAA-AATACTTTTAAA
1 TAACAACAATAC-TTTAAA
75509456 TAACAACTAATACTTTAAA
1 TAACAAC-AATACTTTAAA
75509475 T
1 T
75509476 TCACCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (18 bp):
TAACAACAATACTTTAAA
Found at i:75510195 original size:17 final size:18
Alignment explanation
Indices: 75510124--75510195 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 18
75510114 ATCCATGGAA
75510124 AATAAAATAAAGA-AAAT
1 AATAAAATAAAGATAAAT
*
75510141 GATAAAATTGGAAAGATGAAA-
1 AATAAAA-T--AAAGAT-AAAT
*
75510162 AAT-AAAT-ATGATAAAT
1 AATAAAATAAAGATAAAT
75510178 AATAAAATAAAGA-AAAT
1 AATAAAATAAAGATAAAT
75510195 A
1 A
75510196 TCAGCATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
15 3 0.07
16 7 0.16
17 15 0.35
18 4 0.09
19 1 0.02
20 8 0.19
21 2 0.05
22 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (18 bp):
AATAAAATAAAGATAAAT
Found at i:75510881 original size:23 final size:24
Alignment explanation
Indices: 75510836--75510881 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
75510826 CCTGTTACAT
*
75510836 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTCGTGAGCATTCTTGATA
75510860 GGCTCTTCGTGAGC-TTCTTGAT
1 GGCTCTTCGTGAGCATTCTTGAT
75510882 TAAAAGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (24 bp):
GGCTCTTCGTGAGCATTCTTGATA
Found at i:75511024 original size:27 final size:26
Alignment explanation
Indices: 75510973--75511036 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
75510963 CCTATGAGCA
75510973 TTCCTGATATATGTCTCGAGAGAGTAC
1 TTCCTGAT-TATGTCTCGAGAGAGTAC
*
75511000 TTCCTGATTATGTACTCTA-ATGAGTAC
1 TTCCTGATTATGT-CTCGAGA-GAGTAC
75511027 --CCTGATTATG
1 TTCCTGATTATG
75511037 AATTGATGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 10 0.29
26 6 0.18
27 18 0.53
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TTCCTGATTATGTCTCGAGAGAGTAC
Found at i:75515350 original size:13 final size:13
Alignment explanation
Indices: 75515324--75515358 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
75515314 CCAAAACAAC
*
75515324 TTAATAAGCTTAA
1 TTAATAAACTTAA
*
75515337 TTATTAAACTTAA
1 TTAATAAACTTAA
75515350 TTAATAAAC
1 TTAATAAAC
75515359 ACACTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (13 bp):
TTAATAAACTTAA
Found at i:75515696 original size:39 final size:39
Alignment explanation
Indices: 75515637--75515713 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
75515627 ATGAAGAACA
*
75515637 CATATTAATGATGTGGAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
*
75515676 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGAC
75515714 ATAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
Found at i:75515731 original size:9 final size:9
Alignment explanation
Indices: 75515717--75515742 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
75515707 TAAAGACATA
75515717 AACTAAAAT
1 AACTAAAAT
75515726 AACTAAAAT
1 AACTAAAAT
75515735 AACTAAAA
1 AACTAAAA
75515743 ATAAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:75525460 original size:24 final size:24
Alignment explanation
Indices: 75525410--75525463 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
75525400 AACCGAATTT
* * *
75525410 GCACACATAGTGCTAATTATACTC
1 GCACACATAGTGCCAAGTAAACTC
75525434 GCACACATAGTGCCATAGTAAAC-C
1 GCACACATAGTGCCA-AGTAAACTC
75525458 GCACAC
1 GCACAC
75525464 CAAAAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCAAGTAAACTC
Found at i:75529677 original size:43 final size:42
Alignment explanation
Indices: 75529572--75529686 Score: 108
Period size: 43 Copynumber: 2.6 Consensus size: 42
75529562 ATTTGATTCG
* * * *
75529572 TGTAAGACCACGTCTGGGATGTTGGCATTGATTTGTGATTTACG
1 TGTAAGACC-CGTCTGGGACG-TGGCATCGATTAGTGATTTACA
*
75529616 TGTAAGACCCTGTTTGGGACAGTGGCATCGA-TAGTCGA-TTACA
1 TGTAAGACCC-GTCTGGGAC-GTGGCATCGATTAGT-GATTTACA
75529659 TGTAAGACCTCGTCTGGGACGTAGGCAT
1 TGTAAGACC-CGTCTGGGACGT-GGCAT
75529687 TGTATGAGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 30 0.50
44 27 0.45
45 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGGACGTGGCATCGATTAGTGATTTACA
Found at i:75538123 original size:46 final size:46
Alignment explanation
Indices: 75538051--75538308 Score: 376
Period size: 46 Copynumber: 5.6 Consensus size: 46
75538041 GACTGTAATA
* * * * *
75538051 TAGCCGAAGCTATCACT-ATAACGTAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGA-GATGTAGCCAAAGCTACCACTATATTG
* *
75538097 TAGCCGAAGCTACCACTGAGATGTAGCAAAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTG
*
75538143 TAGCCGAAGCTACCACTGAGATGTAGCAAAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTG
*
75538189 TAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTATCACTATATTG
1 TAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTG
* *
75538235 TAGCCGAAGCTACCACTGAGATGTAGCCGAAA-CTATCACTATGTTG
1 TAGCCGAAGCTACCACTGAGATGTAGCC-AAAGCTACCACTATATTG
*
75538281 TAGCCGAAGCTACGACTGAGATGTAGCC
1 TAGCCGAAGCTACCACTGAGATGTAGCC
75538309 TATAGATTCC
Statistics
Matches: 200, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 196 0.98
47 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTG
Found at i:75538305 original size:23 final size:23
Alignment explanation
Indices: 75538051--75538308 Score: 267
Period size: 23 Copynumber: 11.2 Consensus size: 23
75538041 GACTGTAATA
* * *
75538051 TAGCCGAAGCTATCACT-ATAACG
1 TAGCCGAAGCTACCACTGA-GATG
*
75538074 TAGCCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCACTG-AGATG
75538097 TAGCCGAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
** *
75538120 TAGCAAAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCACTG-AGATG
75538143 TAGCCGAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
** *
75538166 TAGCAAAAGCTACCACT-ATATTG
1 TAGCCGAAGCTACCACTGAGA-TG
75538189 TAGCCGAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* * *
75538212 TAGCCAAAGCTATCACT-ATATTG
1 TAGCCGAAGCTACCACTGAGA-TG
75538235 TAGCCGAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
* * *
75538258 TAGCCGAAACTATCACT-ATGTTG
1 TAGCCGAAGCTACCACTGA-GATG
*
75538281 TAGCCGAAGCTACGACTGAGATG
1 TAGCCGAAGCTACCACTGAGATG
75538304 TAGCC
1 TAGCC
75538309 TATAGATTCC
Statistics
Matches: 195, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.04
23 181 0.93
24 6 0.03
25 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGAGATG
Found at i:75540398 original size:20 final size:20
Alignment explanation
Indices: 75540350--75540400 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
75540340 ATCCATTTGC
**
75540350 AAACAGTAGCTCATCCATAT
1 AAACAGTATTTCATCCATAT
*
75540370 AAACAGTATTTCATCTATAT
1 AAACAGTATTTCATCCATAT
*
75540390 AAATAGTATTT
1 AAACAGTATTT
75540401 ATGCCCGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (20 bp):
AAACAGTATTTCATCCATAT
Found at i:75547664 original size:43 final size:42
Alignment explanation
Indices: 75547611--75547714 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 42
75547601 TTTAATGTAT
* *
75547611 TGGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAA
1 TGGCACTAAGTATGCGATACAATTATAGCCTCAGCTAATTAA
**
75547653 CTGGCACTAAGTATGCGATACAATTATAGTTTCAGCTAATTAA
1 -TGGCACTAAGTATGCGATACAATTATAGCCTCAGCTAATTAA
75547696 TCGGCACTAAGTATGCGAT
1 T-GGCACTAAGTATGCGAT
75547715 TTCGTTGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (42 bp):
TGGCACTAAGTATGCGATACAATTATAGCCTCAGCTAATTAA
Found at i:75553570 original size:20 final size:19
Alignment explanation
Indices: 75553547--75553611 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
75553537 AAGCTCAAAC
75553547 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
75553567 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
75553587 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
75553607 GAGCT
1 GAGCT
75553612 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:75555520 original size:29 final size:27
Alignment explanation
Indices: 75555479--75555544 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 27
75555469 TTTTTGGCTT
75555479 TTTCTTTTTCAATTTT-TTTTCATTCTCAA
1 TTTCTTTTTCAATTTTCTTTTC--T-TCAA
*
75555508 TTTCTTTTTCAATTTTCTTTTCTTCAT
1 TTTCTTTTTCAATTTTCTTTTCTTCAA
75555535 TTTCTTTTTC
1 TTTCTTTTTC
75555545 TCTCACTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 13 0.37
28 1 0.03
29 16 0.46
30 5 0.14
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTCTTTTTCAATTTTCTTTTCTTCAA
Found at i:75555571 original size:18 final size:18
Alignment explanation
Indices: 75555550--75555600 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
75555540 TTTTCTCTCA
75555550 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
75555568 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
75555586 CTTTTT-GTTTTCTTT
1 CTTTTTCGATTTCTTT
75555601 CAATTTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:75555581 original size:69 final size:68
Alignment explanation
Indices: 75555482--75555613 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 68
75555472 TTGGCTTTTT
*
75555482 CTTTTTCAATTTTTTTTCATTCTCAATTTCTTTTTCAATTTTCTTTTC-TTCATTTTCTTTTTCT
1 CTTTTTCAATTTTTTTTCATTCTCAATTTCTTTTTC-ATTTTCTTTTCTTTCAATTTCTTTTTCT
75555546 CTCA
65 CTCA
* * * *
75555550 CTTTTTCGATTTCTTTTTC-TTTTGCAATTTCTTTTTCTTTTTGTTTTCTTTCAATTTCTTTTTC
1 CTTTTTCAATTT-TTTTTCATTCT-CAATTTCTTTTTCATTTTCTTTTCTTTCAATTTCTTTTTC
75555614 AATCTCTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
68 23 0.41
69 33 0.59
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (68 bp):
CTTTTTCAATTTTTTTTCATTCTCAATTTCTTTTTCATTTTCTTTTCTTTCAATTTCTTTTTCTC
TCA
Found at i:75555613 original size:6 final size:6
Alignment explanation
Indices: 75555476--75555600 Score: 56
Period size: 6 Copynumber: 20.7 Consensus size: 6
75555466 TCTTTTTTGG
** * * ** *
75555476 CTTTTT CTTTTT CAATTT -TTTTT CATTCT CAATTT CTTTTT CAATTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT
* * ** ** *
75555524 CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT CGATTT CTTTTT CTTTTG
1 C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
** *
75555574 CAATTT CTTTTT CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTT
75555601 CAATTTCTTT
Statistics
Matches: 82, Mismatches: 33, Indels: 8
0.67 0.27 0.07
Matches are distributed among these distances:
5 7 0.09
6 63 0.77
7 9 0.11
8 3 0.04
ACGTcount: A:0.10, C:0.18, G:0.02, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:75556691 original size:27 final size:28
Alignment explanation
Indices: 75556616--75556693 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 28
75556606 GCAAGACTTT
*
75556616 TCAC-TTTTTTTAACTTGATTTTTTTTGC
1 TCACTTTTTTTTCACTT-ATTTTTTTTGC
* * *
75556644 TCACTTTCTTTTC-TTTCTTTTTTTTGC
1 TCACTTTTTTTTCACTTATTTTTTTTGC
75556671 TCGA-TTTTTTTTCACTT-TTTTTT
1 TC-ACTTTTTTTTCACTTATTTTTT
75556694 GAATTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 26 0.63
28 9 0.22
29 6 0.15
ACGTcount: A:0.09, C:0.17, G:0.05, T:0.69
Consensus pattern (28 bp):
TCACTTTTTTTTCACTTATTTTTTTTGC
Found at i:75556701 original size:12 final size:12
Alignment explanation
Indices: 75556686--75556711 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75556676 TTTTTTTCAC
75556686 TTTTTTTTGAAT
1 TTTTTTTTGAAT
75556698 TTTTTTTTGAAT
1 TTTTTTTTGAAT
75556710 TT
1 TT
75556712 CGATTTTTTT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:75558867 original size:29 final size:28
Alignment explanation
Indices: 75558832--75558907 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
75558822 ATGAGATTGG
75558832 CACTAAGTGTGCGGGTTTAAATTGTACA-A
1 CACTAAGTGTGCGGGTTTAAA--GTACAGA
* * *
75558861 CACTAAGTGTGTGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGGGTTTAAAGTACA-GA
75558890 CACTAAGTGTGCGCGGTT
1 CACTAAGTGTGCG-GGTT
75558908 GATTATTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.13
29 31 0.79
30 3 0.08
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGGGTTTAAAGTACAGA
Found at i:75559127 original size:145 final size:145
Alignment explanation
Indices: 75558885--75559190 Score: 603
Period size: 145 Copynumber: 2.1 Consensus size: 145
75558875 GTTTAAAGTA
75558885 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
75558950 ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
75559015 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
*
75559030 CATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
75559095 ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
75559160 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
75559175 CATGGCACTAAGTGTG
1 CATGGCACTAAGTGTG
75559191 TGAGTTTAAA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 160 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:75559299 original size:174 final size:174
Alignment explanation
Indices: 75559028--75559506 Score: 913
Period size: 174 Copynumber: 2.8 Consensus size: 174
75559018 GAACTTGAAA
75559028 TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
1 TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
75559093 CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
66 CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
75559158 TGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAG
131 TGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAG
75559202 TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
1 TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
75559267 CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
66 CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
75559332 TGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAG
131 TGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAG
* *
75559376 TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATATATATTTT
1 TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
* * *
75559441 CTATAAATTATTTACATGAAGGGTACGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAG
66 CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
75559506 T
131 T
75559507 ACCTTGAGTT
Statistics
Matches: 300, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 300 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
TGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTT
CTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAG
TGTGCGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAG
Found at i:75562180 original size:47 final size:48
Alignment explanation
Indices: 75562111--75562239 Score: 188
Period size: 47 Copynumber: 2.7 Consensus size: 48
75562101 TGTAATACCA
*
75562111 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCAT-CATGTTG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATACATGCTG
* * * * *
75562158 ATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGTGCTG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATACATGCTG
*
75562206 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTC
75562240 TCATAATGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 36 0.50
48 36 0.50
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATACATGCTG
Found at i:75566810 original size:66 final size:68
Alignment explanation
Indices: 75566681--75566810 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 68
75566671 GGGATGTATC
* * * * *
75566681 CCATGTAGAGAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCTAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATGCAGCTAGGTCGCATGAGTGATACTAAGTGA
75566746 AGGACA
63 AGGACA
*
75566752 CCATGTAGACAAGAGAGCTAC-GAGACAAAT-CAGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGACAAATGCAGCTAGGTCGCATGAGTGATACTAAGTG
75566811 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 25 0.47
67 8 0.15
71 20 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGACAAATGCAGCTAGGTCGCATGAGTGATACTAAGTGAAGG
ACA
Found at i:75568191 original size:47 final size:48
Alignment explanation
Indices: 75568130--75568297 Score: 183
Period size: 47 Copynumber: 3.6 Consensus size: 48
75568120 TGAGAGCCAT
75568130 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAG
*
75568178 TGTAAGA-CATGTCTGGGACATGTG--TTGGC-TACGAGATGA-TAG-TCAG
1 TGTAAGACCATGTCTGGGACATG-GCATCGGCAT-CGAGATGAGT-GCT-AG
* * *
75568224 TGTAAGACCATGTCTGGGACATGACA-CTGACAT-GAGAT-ATGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GGCATCGAGATGA-GTGCTAG
75568271 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
75568298 GGACACCTTA
Statistics
Matches: 101, Mismatches: 6, Indels: 26
0.76 0.05 0.20
Matches are distributed among these distances:
45 3 0.03
46 23 0.23
47 63 0.62
48 11 0.11
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAG
Found at i:75571719 original size:85 final size:85
Alignment explanation
Indices: 75571564--75571721 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
75571554 CATAACCAAG
* * * * * *
75571564 TACAATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCTCAGACA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGAAA
*
75571629 GGGTCTTACACAAAATCAGA
66 CGGTCTTACACAAAATCAGA
* * *
75571649 TACAATGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCAAT-T-GAGGCCTGTGTCCCAGA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTGTCCCAGA
75571712 AACGGTCTTA
64 AACGGTCTTA
75571722 TACGATGTCT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
85 52 0.85
86 4 0.07
87 5 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (85 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGAAA
CGGTCTTACACAAAATCAGA
Found at i:75579456 original size:59 final size:59
Alignment explanation
Indices: 75579379--75579496 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
75579369 AATTTAATCC
* *
75579379 ATATACACATATTCAGGGCACTTTACATTTTAGCCCTTGCATTTTCACACTTTGACAAT
1 ATATACAAATATTCAGGGCACTTTACATTTTAGCCCTTACATTTTCACACTTTGACAAT
* *
75579438 ATATACAAATATTTAGGGCACTTTACATTTTGGCCCTTACATTTTCACACTTTGACAAT
1 ATATACAAATATTCAGGGCACTTTACATTTTAGCCCTTACATTTTCACACTTTGACAAT
75579497 TTAGTCCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (59 bp):
ATATACAAATATTCAGGGCACTTTACATTTTAGCCCTTACATTTTCACACTTTGACAAT
Found at i:75580279 original size:137 final size:137
Alignment explanation
Indices: 75580108--75580378 Score: 515
Period size: 137 Copynumber: 2.0 Consensus size: 137
75580098 AAGCCATGCC
75580108 AATTAAACACATTGAATATCTGACATACAGATTTTATCATTTACGTGATTAAATCCTTTTTGTAA
1 AATTAAACACATTGAATATCTGACATACAGATTTTATCATTTACGTGATTAAATCCTTTTTGTAA
* *
75580173 AATCGAGCATAGAAACAGACAAATTAAATCACAGAAATTTCACATATACAAATTCATATATCACA
66 AATCGAGCATAGAAACAGACAAATTAAATCACAGAAATTTCAAAGATACAAATTCATATATCACA
75580238 GACAGCT
131 GACAGCT
75580245 AATTAAACACATTGAATATCTGACATACAGATTTTATCATTTACGTGATTAAATCCTTTTTGTAA
1 AATTAAACACATTGAATATCTGACATACAGATTTTATCATTTACGTGATTAAATCCTTTTTGTAA
*
75580310 AATCGAGCATAGAAACAGACAAATTAAATCATAGAAATTTCAAAGATACAAATTCATATATCACA
66 AATCGAGCATAGAAACAGACAAATTAAATCACAGAAATTTCAAAGATACAAATTCATATATCACA
75580375 GACA
131 GACA
75580379 CAGAAATTAA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (137 bp):
AATTAAACACATTGAATATCTGACATACAGATTTTATCATTTACGTGATTAAATCCTTTTTGTAA
AATCGAGCATAGAAACAGACAAATTAAATCACAGAAATTTCAAAGATACAAATTCATATATCACA
GACAGCT
Found at i:75581881 original size:38 final size:38
Alignment explanation
Indices: 75581802--75581996 Score: 203
Period size: 38 Copynumber: 5.0 Consensus size: 38
75581792 AAACCCAAAC
* * * * *
75581802 ATAACACCAGCATGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* * * *
75581842 ATAATACCAACACTAGGCCTGTGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
75581880 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
75581918 ATATTACTAGCACGAAGCCTGCGAGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
75581956 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
75581996 A
1 A
75581997 CACATCAAAT
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 94 0.72
39 8 0.06
40 27 0.21
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:75587973 original size:20 final size:21
Alignment explanation
Indices: 75587948--75587987 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75587938 CACTTGAAAT
75587948 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
75587968 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
75587988 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:75589242 original size:48 final size:49
Alignment explanation
Indices: 75589119--75589291 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 49
75589109 TAGGGTGTAA
*
75589119 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATCCATCAAG
* * *
75589168 T--CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCCATCAAG
* *
75589214 TGCCAATGCCATGTCCCAGGCATGGTCTTACACTGACACAT-C-TC--G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCCATCAAG
* *
75589259 TAGCCGATG-CATGTCGCAGACAT-GTCATACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
75589292 ACCTTACATC
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
44 9 0.08
45 14 0.13
46 10 0.09
47 37 0.35
48 36 0.34
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCCATCAAG
Found at i:75594471 original size:17 final size:19
Alignment explanation
Indices: 75594449--75594484 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
75594439 AATTGAGTTG
75594449 TGTGGGCC-C-CACGGGTA
1 TGTGGGCCTCACACGGGTA
75594466 TGTGGGCCTCACACGGGTA
1 TGTGGGCCTCACACGGGTA
75594485 AACCAAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (19 bp):
TGTGGGCCTCACACGGGTA
Found at i:75594611 original size:27 final size:27
Alignment explanation
Indices: 75594575--75594661 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
75594565 CCATATTGAT
*
75594575 AAATGATTGTTTTGCCCTCATGAAGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
* *
75594602 AAATGATTGTTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
* *
75594629 AAATGACTATTTTGCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
75594656 AAATGA
1 AAATGA
75594662 CTGTGTAACA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTCATGAGGTA
Found at i:75601218 original size:39 final size:39
Alignment explanation
Indices: 75601164--75601241 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
75601154 GTCTCTGAGA
75601164 AAGTGGTCAAGAGAACCACATCTAAAACATGCACCGCTC
1 AAGTGGTCAAGAGAACCACATCTAAAACATGCACCGCTC
*
75601203 AAGTGGTCAAGAGAACCACATCTAAAACATGCCCCGCTC
1 AAGTGGTCAAGAGAACCACATCTAAAACATGCACCGCTC
75601242 TTCATTCGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.15
Consensus pattern (39 bp):
AAGTGGTCAAGAGAACCACATCTAAAACATGCACCGCTC
Found at i:75605261 original size:27 final size:27
Alignment explanation
Indices: 75605212--75605522 Score: 374
Period size: 27 Copynumber: 11.5 Consensus size: 27
75605202 GGATGTTACA
*
75605212 GACTGTTTTGCCCTTA-CATGGTAAAAT
1 GACTGTTTTGCCCTTATGA-GGTAAAAT
* *
75605239 GATTGTTTTGCCCTCATGAGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605266 GACTATTTTGCCCTTATGTGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605293 GATTGTTTTGCTCTTATGAGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* * *
75605320 GATTGTTTTACCCTTATGAGGCAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605347 GACTATTTTGCCCTTATGTGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605374 AACTGTTTTGCCCTTTTGAGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* * *
75605401 GACTATTTTTCCCTTATGTGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* * *
75605428 AACTGTTTTACCCTCATGAGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605455 GATTGTTTTGCCCTTATGTGGTAAAAT
1 GACTGTTTTGCCCTTATGAGGTAAAAT
* *
75605482 GACTGTTTTGCCTTTAT-ATGGTAAGAT
1 GACTGTTTTGCCCTTATGA-GGTAAAAT
75605509 GACTGTTTTGCCCT
1 GACTGTTTTGCCCT
75605523 ATGTGATGTA
Statistics
Matches: 239, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
27 238 1.00
28 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
GACTGTTTTGCCCTTATGAGGTAAAAT
Found at i:75605894 original size:36 final size:36
Alignment explanation
Indices: 75605846--75605923 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
75605836 TTGTATACTG
* *
75605846 ACTGCACTGATTACTATTGCTACACTGATGATTGTT
1 ACTGCACAGATTACTATTACTACACTGATGATTGTT
* * * *
75605882 ACTGCACAGATTACTGTTACTGCACTGTTTATTGTT
1 ACTGCACAGATTACTATTACTACACTGATGATTGTT
75605918 ACTGCA
1 ACTGCA
75605924 ATGGGCCAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (36 bp):
ACTGCACAGATTACTATTACTACACTGATGATTGTT
Found at i:75605901 original size:18 final size:18
Alignment explanation
Indices: 75605846--75605923 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
75605836 TTGTATACTG
*
75605846 ACTGCACTGATTACTATT
1 ACTGCACTGATTACTGTT
* * * *
75605864 GCTACACTGATGATTGTT
1 ACTGCACTGATTACTGTT
*
75605882 ACTGCACAGATTACTGTT
1 ACTGCACTGATTACTGTT
* *
75605900 ACTGCACTGTTTATTGTT
1 ACTGCACTGATTACTGTT
75605918 ACTGCA
1 ACTGCA
75605924 ATGGGCCAAG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (18 bp):
ACTGCACTGATTACTGTT
Found at i:75608772 original size:40 final size:40
Alignment explanation
Indices: 75608713--75609140 Score: 712
Period size: 40 Copynumber: 10.7 Consensus size: 40
75608703 GAGCATTGGA
*
75608713 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
75608753 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
75608793 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
75608833 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
75608873 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
75608913 ATATATCCGGGCTAAGACCCGAAAGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
75608953 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
75608993 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
75609033 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
75609073 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
75609113 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
75609141 ATGTGTTTGC
Statistics
Matches: 371, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 371 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:75616904 original size:40 final size:40
Alignment explanation
Indices: 75616874--75617123 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
75616864 GGACTAAGAT
* * * *
75616874 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
75616914 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
75616954 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
75616994 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
75617034 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
75617074 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
75617113 CCGAAGGCATT
1 CCGAAGGCATT
75617124 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:75616958 original size:80 final size:80
Alignment explanation
Indices: 75616821--75617123 Score: 387
Period size: 80 Copynumber: 3.8 Consensus size: 80
75616811 TTGAATGCTG
* * * * * * * *
75616821 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * *
75616884 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
75616901 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
75616966 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
75616981 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
75617046 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
75617061 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
75617124 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 34 0.17
80 160 0.80
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:75617034 original size:120 final size:119
Alignment explanation
Indices: 75616821--75617123 Score: 401
Period size: 120 Copynumber: 2.5 Consensus size: 119
75616811 TTGAATGCTG
* * * * * * *
75616821 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
75616885 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
75616941 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* ** *
75617006 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
75617061 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
75617124 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
119 35 0.22
120 122 0.76
121 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:75619089 original size:26 final size:26
Alignment explanation
Indices: 75619048--75619109 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
75619038 GGCACATTCC
* * *
75619048 ATCATAATATCACACCAAAGTGTGTA
1 ATCACAATATCACACCAAAGTATGCA
* *
75619074 ATCTCAATATCACACCGAAGTATGCA
1 ATCACAATATCACACCAAAGTATGCA
75619100 ATCACAATAT
1 ATCACAATAT
75619110 TACATCGGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (26 bp):
ATCACAATATCACACCAAAGTATGCA
Found at i:75619849 original size:37 final size:37
Alignment explanation
Indices: 75619794--75619872 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
75619784 TAGGATTAGT
* *
75619794 AAACCTGGACTCTGTTACTACTAAATGTAATACCCCC
1 AAACCTGGACTCTGTTACTACAAAATGTAACACCCCC
*
75619831 AAACTTGGACTCTGTTACTACAAAATGTAACACCCCC
1 AAACCTGGACTCTGTTACTACAAAATGTAACACCCCC
75619868 AAACC
1 AAACC
75619873 AGACCCGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.24
Consensus pattern (37 bp):
AAACCTGGACTCTGTTACTACAAAATGTAACACCCCC
Found at i:75625113 original size:19 final size:20
Alignment explanation
Indices: 75625082--75625122 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
75625072 CTAAACTGAT
75625082 AACTTATGAATTTTTTACAA
1 AACTTATGAATTTTTTACAA
*
75625102 AACTTA-GAATTTTTTTCAA
1 AACTTATGAATTTTTTACAA
75625121 AA
1 AA
75625123 TACAGGGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
AACTTATGAATTTTTTACAA
Found at i:75626894 original size:48 final size:48
Alignment explanation
Indices: 75626823--75626919 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
75626813 CGAATTAAGT
* *
75626823 CGATTAATCTGAAACCTTATTCTTTCCCCTATCTAAATCCGTATTTCG
1 CGATTAATCTCAAACCTTATTCTTTCCCCTATCTAAATCCATATTTCG
*
75626871 CGATTAATCTCAAACCTTGTTCTTTCCCCTATCTAAATCCATATTTCG
1 CGATTAATCTCAAACCTTATTCTTTCCCCTATCTAAATCCATATTTCG
75626919 C
1 C
75626920 TTTTCTTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (48 bp):
CGATTAATCTCAAACCTTATTCTTTCCCCTATCTAAATCCATATTTCG
Found at i:75633412 original size:21 final size:21
Alignment explanation
Indices: 75633386--75633434 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
75633376 TCTATTTGTT
75633386 AACTCTTG-AAGCTGGGCTTTC
1 AACTCTTGCAA-CTGGGCTTTC
75633407 AACTCTTGCAACTGGGCTTTC
1 AACTCTTGCAACTGGGCTTTC
75633428 AACTCTT
1 AACTCTT
75633435 TCAATTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (21 bp):
AACTCTTGCAACTGGGCTTTC
Found at i:75640054 original size:32 final size:32
Alignment explanation
Indices: 75640014--75640081 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
75640004 ATTGTAAATG
*
75640014 AATGCATGATGGAATGAAGAAGAAGA-TAAAGA
1 AATGCATGATGGAAGGAAGAAGAA-ATTAAAGA
*
75640046 AATGCATGATGGAGGGAAGAAGAAATTAAAGA
1 AATGCATGATGGAAGGAAGAAGAAATTAAAGA
75640078 AATG
1 AATG
75640082 TAAATAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.51, C:0.03, G:0.29, T:0.16
Consensus pattern (32 bp):
AATGCATGATGGAAGGAAGAAGAAATTAAAGA
Found at i:75640271 original size:15 final size:16
Alignment explanation
Indices: 75640246--75640275 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75640236 GAAATAATAA
75640246 AAAAAAGCTTTAGGGG
1 AAAAAAGCTTTAGGGG
75640262 AAAAAA-CTTTAGGG
1 AAAAAAGCTTTAGGG
75640276 TAAAGTATAC
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:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (16 bp):
AAAAAAGCTTTAGGGG
Found at i:75640487 original size:22 final size:22
Alignment explanation
Indices: 75640462--75640516 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
75640452 CCATCTTTCT
* *
75640462 TCCCCCTCCCTTCTCGTCTCCC-
1 TCCCCCTCCCTGCGC-TCTCCCA
*
75640484 TCCCCCTGCCTGCGCTCTCCCA
1 TCCCCCTCCCTGCGCTCTCCCA
*
75640506 TCCCTCTCCCT
1 TCCCCCTCCCT
75640517 CTTCCCCATC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.02, C:0.62, G:0.07, T:0.29
Consensus pattern (22 bp):
TCCCCCTCCCTGCGCTCTCCCA
Found at i:75640552 original size:39 final size:39
Alignment explanation
Indices: 75640509--75640641 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 39
75640499 TCTCCCATCC
* * *
75640509 CTCTCCCTCTTCCCCATCATTCCTCCCCTTACTTCGATT
1 CTCTCCCTCTCCCCCATCATCCCTCCCCCTACTTCGATT
* * * *
75640548 CTCTCCCTTTTCCCTATCGTCCCTCCCCCTACTTC-AGTT
1 CTCTCCCTCTCCCCCATCATCCCTCCCCCTACTTCGA-TT
* **
75640587 CTCTCCCTCTCCCCCA-CTATCCCTCCCCCTACTTTGACC
1 CTCTCCCTCTCCCCCATC-ATCCCTCCCCCTACTTCGATT
75640626 CTCTCCCTCTCCCCCA
1 CTCTCCCTCTCCCCCA
75640642 CTGTCCCTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
38 2 0.03
39 76 0.96
40 1 0.01
ACGTcount: A:0.09, C:0.54, G:0.03, T:0.34
Consensus pattern (39 bp):
CTCTCCCTCTCCCCCATCATCCCTCCCCCTACTTCGATT
Found at i:75648477 original size:64 final size:64
Alignment explanation
Indices: 75648278--75648920 Score: 596
Period size: 64 Copynumber: 9.9 Consensus size: 64
75648268 CATAATTTTG
* * * * * * *
75648278 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * * * * * * ** *
75648341 GCTCTCTTGTTTACATGGTGTCCTTCATTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTGTAC-ACA--TAGTATCACCCATGTGACCTAGCTACATATATCTCG
75648406 TA
63 TA
*
75648408 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * *
75648472 GCTCTCTTGTCTGCATGGGGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * * *
75648536 GCTCTCTTGTCTGCATGGGGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTA---CAT-ATATCTC
75648601 GTA
62 GTA
* * * * * * * *
75648604 GCTCTCTTGTAC-ACATGGTGAAAACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * * * * * * * * ** *
75648667 GCTCTCTTGTTTACCTGGTCTCCTTCATTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTGTAC-ACA--TAGTATCACCCATGTGACCTAGCTACATATATCTCG
75648732 TA
63 TA
*
75648734 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * *
75648798 GCTCTCTTGTCTGCATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTA---CAT-ATATCTC
75648863 GTA
62 GTA
* ** * *
75648866 GCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTATCACCCATGTGACCTAGCTACATA
75648921 CCATCTGTAT
Statistics
Matches: 480, Mismatches: 79, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
63 42 0.09
64 225 0.47
65 4 0.01
66 44 0.09
67 66 0.14
68 96 0.20
69 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
Found at i:75649416 original size:30 final size:30
Alignment explanation
Indices: 75649382--75649442 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
75649372 TCCTTAACTC
75649382 AAACTTTTGCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* * * *
75649412 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
75649442 A
1 A
75649443 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:75650434 original size:41 final size:41
Alignment explanation
Indices: 75650379--75650460 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
75650369 AATAAACATT
* *
75650379 TCTATCTCAGATTTGTGGTTTCGCAACCACTATTCCATTTA
1 TCTATCTCAAATTTGTGGTTTCACAACCACTATTCCATTTA
75650420 TCTATCTCAAATTTGTGGTTTCACAACCACTATTCCATTTA
1 TCTATCTCAAATTTGTGGTTTCACAACCACTATTCCATTTA
75650461 GGCCCTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (41 bp):
TCTATCTCAAATTTGTGGTTTCACAACCACTATTCCATTTA
Found at i:75653441 original size:68 final size:68
Alignment explanation
Indices: 75653321--75653447 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
75653311 GCTACATTTA
* * *
75653321 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGGGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGGGACCTAGCTACCTCATA
75653386 ATG
66 ATG
* * *
75653389 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGGGACCTAGCTAC
75653448 ATACCATCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGGGACCTAGCTACCTCATA
ATG
Found at i:75653567 original size:19 final size:18
Alignment explanation
Indices: 75653538--75653583 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
75653528 GTCAATTATG
*
75653538 ATACAAAAATAAGCTACA
1 ATACAAAAATAAGCTAAA
*
75653556 ATACATAAAATATGCTAAA
1 ATACA-AAAATAAGCTAAA
*
75653575 ATATAAAAA
1 ATACAAAAA
75653584 CATAATAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.63, C:0.11, G:0.04, T:0.22
Consensus pattern (18 bp):
ATACAAAAATAAGCTAAA
Found at i:75653946 original size:30 final size:29
Alignment explanation
Indices: 75653912--75653971 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
75653902 TCCTTAACTC
75653912 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTT-CCCCT
* * *
75653942 AAACTTTTGCATATTTACACTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTCCCCT
75653971 A
1 A
75653972 TGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (29 bp):
AAACTTTTGCAAAATTACAATTTTCCCCT
Found at i:75662103 original size:27 final size:27
Alignment explanation
Indices: 75662073--75662124 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
75662063 ACCAAAATAA
75662073 CCCTAAAGGGTAAAGTGACTG-TTTTGC
1 CCCTAAAGGGT-AAGTGACTGATTTTGC
**
75662100 CCCTCGAGGGTAAGTGACTGATTTT
1 CCCTAAAGGGTAAGTGACTGATTTT
75662125 TCTGTGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (27 bp):
CCCTAAAGGGTAAGTGACTGATTTTGC
Found at i:75662439 original size:32 final size:32
Alignment explanation
Indices: 75662393--75662477 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
75662383 TGAAATTGAA
* *
75662393 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTGATTCTGAG
*
75662425 ATGGACTAGGCCCAACTGATATTGATTCTGAG
1 ATGGGCTAGGCCCAACTGATATTGATTCTGAG
75662457 ATGGGCTAGGCCCAACTGATA
1 ATGGGCTAGGCCCAACTGATA
75662478 CTATGATGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGATTCTGAG
Found at i:75667183 original size:51 final size:51
Alignment explanation
Indices: 75667100--75667257 Score: 255
Period size: 51 Copynumber: 3.1 Consensus size: 51
75667090 ACTTCTGATC
* *
75667100 AGTGACAAGTGATAAGTGGTAG-TCTCAACTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCT-TTAGCTACACTTATCTGATTAGTGACA
*
75667151 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
* *
75667202 AGTGACAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
75667253 AGTGA
1 AGTGA
75667258 TAAATGTGAT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
51 99 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
Found at i:75669898 original size:23 final size:23
Alignment explanation
Indices: 75669872--75669915 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
75669862 GCTATTATGT
* * *
75669872 GGAAGCCTTTGTTGTTGTTCTAA
1 GGAAGCCATTGTGGATGTTCTAA
75669895 GGAAGCCATTGTGGATGTTCT
1 GGAAGCCATTGTGGATGTTCT
75669916 GATATATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.39
Consensus pattern (23 bp):
GGAAGCCATTGTGGATGTTCTAA
Found at i:75670040 original size:30 final size:30
Alignment explanation
Indices: 75669975--75670041 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
75669965 ACTTCATATG
* *
75669975 TGTGAGCCCTTGTGGCAGGAACTTGTTACA
1 TGTGAGCCCTTGTGGCAGAAACTTGGTACA
* *
75670005 CGTGAGCCCTTGTGGCAGAAA-TCTGGTATA
1 TGTGAGCCCTTGTGGCAGAAACT-TGGTACA
75670035 TGTGAGC
1 TGTGAGC
75670042 GTTTGTGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (30 bp):
TGTGAGCCCTTGTGGCAGAAACTTGGTACA
Found at i:75670333 original size:15 final size:15
Alignment explanation
Indices: 75670294--75670325 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
75670284 ATTCAAAGCC
75670294 AATGCCAAAGTGGCT
1 AATGCCAAAGTGGCT
75670309 AATGCCAAAGTGGCT
1 AATGCCAAAGTGGCT
75670324 AA
1 AA
75670326 CTCTAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (15 bp):
AATGCCAAAGTGGCT
Found at i:75671148 original size:28 final size:29
Alignment explanation
Indices: 75671094--75671148 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
75671084 ACAAGGGTTT
75671094 TCACACGGCCGAGCGCACGCCCATGTCCC
1 TCACACGGCCGAGCGCACGCCCATGTCCC
*
75671123 TCACACGGCC-A-CGACACGCCCTTGTC
1 TCACACGGCCGAGCG-CACGCCCATGTC
75671149 ACAGCCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 12 0.50
29 10 0.42
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.13
Consensus pattern (29 bp):
TCACACGGCCGAGCGCACGCCCATGTCCC
Found at i:75687202 original size:19 final size:19
Alignment explanation
Indices: 75687160--75687205 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
75687150 AACAAGATTC
75687160 TTCACATATTATTGAAAATA
1 TTCA-ATATTATTGAAAATA
*
75687180 ---AATATTATTTAAAATA
1 TTCAATATTATTGAAAATA
75687196 TTCAATATTA
1 TTCAATATTA
75687206 ATATATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
19 7 0.32
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (19 bp):
TTCAATATTATTGAAAATA
Done.