Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 92 of 93
Found at i:36593149 original size:50 final size:49
Alignment explanation
Indices: 36593093--36593194 Score: 195
Period size: 50 Copynumber: 2.1 Consensus size: 49
36593083 AAAAAGATAA
36593093 TTATTTAATAACCATATAAGAATAAATAATTAAAAAAATTCAAAGGCGGT
1 TTATTTAATAACCATATAAGAATAAATAATT-AAAAAATTCAAAGGCGGT
36593143 TTATTTAATAACCATATAAGAATAAATAATTAAAAAATTCAAAGGCGGT
1 TTATTTAATAACCATATAAGAATAAATAATTAAAAAATTCAAAGGCGGT
36593192 TTA
1 TTA
36593195 CACCCGATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 21 0.40
50 31 0.60
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (49 bp):
TTATTTAATAACCATATAAGAATAAATAATTAAAAAATTCAAAGGCGGT
Found at i:36624710 original size:22 final size:20
Alignment explanation
Indices: 36624671--36624718 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
36624661 AAAACTTTAA
36624671 AAAACTTATTAAAATAATTATTT
1 AAAA-TTATTAAAATAA-TA-TT
* *
36624694 AAAATTATTCAAGTAATATT
1 AAAATTATTAAAATAATATT
36624714 AAAAT
1 AAAAT
36624719 AGTATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 10 0.43
23 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTATTAAAATAATATT
Found at i:36624805 original size:18 final size:18
Alignment explanation
Indices: 36624771--36624811 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36624761 CATATACACG
* *
36624771 TTTAAACACGTTTATACA
1 TTTAAACACGGTAATACA
36624789 TTTAAACACGGTAATACA
1 TTTAAACACGGTAATACA
*
36624807 ATTAA
1 TTTAA
36624812 CACTATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (18 bp):
TTTAAACACGGTAATACA
Found at i:36632430 original size:27 final size:27
Alignment explanation
Indices: 36632380--36632433 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36632370 AAACAGCAAC
* *
36632380 AAAACTAGTGACCTAATCTCTTCTTCA
1 AAAACTACTGACCTAATCTATTCTTCA
* *
36632407 AAAACTACTGACCTAGTTTATTCTTCA
1 AAAACTACTGACCTAATCTATTCTTCA
36632434 TTACGTGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (27 bp):
AAAACTACTGACCTAATCTATTCTTCA
Found at i:36632865 original size:80 final size:81
Alignment explanation
Indices: 36632717--36632876 Score: 250
Period size: 80 Copynumber: 2.0 Consensus size: 81
36632707 AGGATTGGCA
* * * *
36632717 AACTTGATCGAATATCAGCATTCTCACCATCCTTGAAGGAACAAAAATAAGTGATAGATTCACTG
1 AACTTGATCAAATATCAGCATTATCACCATCCTTGAAGGAACAAAAATAAGTGATAAATTCACGG
*
36632782 TTGGTTTGGTAGTTAT
66 TTGGTTTCGTAGTTAT
* *
36632798 AACTTGATCAAATATCAGCATTATCACCATCC-TGAAGGAACAAATATAAGTGATAAATTCAGGG
1 AACTTGATCAAATATCAGCATTATCACCATCCTTGAAGGAACAAAAATAAGTGATAAATTCACGG
36632862 TTGGTTTCGTAGTTA
66 TTGGTTTCGTAGTTA
36632877 AGGTGCAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 42 0.58
81 30 0.42
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (81 bp):
AACTTGATCAAATATCAGCATTATCACCATCCTTGAAGGAACAAAAATAAGTGATAAATTCACGG
TTGGTTTCGTAGTTAT
Found at i:36642152 original size:2 final size:2
Alignment explanation
Indices: 36642147--36642179 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36642137 TCCCCCCTCC
36642147 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
36642180 AACTTCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:36642356 original size:2 final size:2
Alignment explanation
Indices: 36642349--36642377 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36642339 CCCCTCCCTC
36642349 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
36642378 AACTTCCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:36642405 original size:198 final size:198
Alignment explanation
Indices: 36642139--36642526 Score: 760
Period size: 198 Copynumber: 2.0 Consensus size: 198
36642129 ATTTCTGCTC
36642139 CCCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACTTCCATATCCGTCTCAGCTCG
1 CCCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACTTCCATATCCGTCTCAGCTCG
36642204 TCCGTACAGCGCTGTTCATTGCACGTGACATGCACGTGATCCTCCTCCTCTGGCTTCTTTCGCTT
66 TCCGTACAGCGCTGTTCATTGCACGTGACATGCACGTGATCCTCCTCCTCTGGCTTCTTTCGCTT
36642269 AAAAGCTACATCCGTCTCTTTTGGTAATACTACTACAAGAGGAAAGAAGATGGCGTCGATNCGTC
131 AAAAGCTACATCCGTCTCTTTTGGTAATACTACTACAAGAGGAAAGAAGATGGCGTCGAT-CGTC
36642334 CCCT
195 CCCT
36642338 CCCCCTCCCTC-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACTTCCATATCCGTCTCAGCTCG
1 CCCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACTTCCATATCCGTCTCAGCTCG
36642402 TCCGTACAGCGCTGTTCATTGCACGTGACATGCACGTGATCCTCCTCCTCTGGCTTCTTTCGCTT
66 TCCGTACAGCGCTGTTCATTGCACGTGACATGCACGTGATCCTCCTCCTCTGGCTTCTTTCGCTT
36642467 AAAAGCTACATCCGTCTCTTTTGGTAATACTACTACAAGAGGAAAGAAGATGGCGTCGAT
131 AAAAGCTACATCCGTCTCTTTTGGTAATACTACTACAAGAGGAAAGAAGATGGCGTCGAT
36642527 GGCTTCACCG
Statistics
Matches: 189, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
198 178 0.94
199 11 0.06
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (198 bp):
CCCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAACTTCCATATCCGTCTCAGCTCG
TCCGTACAGCGCTGTTCATTGCACGTGACATGCACGTGATCCTCCTCCTCTGGCTTCTTTCGCTT
AAAAGCTACATCCGTCTCTTTTGGTAATACTACTACAAGAGGAAAGAAGATGGCGTCGATCGTCC
CCT
Found at i:36642631 original size:15 final size:15
Alignment explanation
Indices: 36642611--36642640 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36642601 AACGCTCGCA
36642611 TTCTTCGTCGTCGTC
1 TTCTTCGTCGTCGTC
*
36642626 TTCTTCTTCGTCGTC
1 TTCTTCGTCGTCGTC
36642641 GTCGATTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCTTCGTCGTCGTC
Found at i:36644712 original size:131 final size:130
Alignment explanation
Indices: 36644478--36644740 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 130
36644468 CTTGTTCATG
36644478 CTTTTAGGTAAGGGTAGTCGGATCTAGAAGCATAAATTTTTGTCCATCTCCTTTAAATGGGAGTC
1 CTTTTAGGTAAGGGTAGTCGGATCTAGAAGCATAAATTTTTGTCCATCTCCTTTAAATGGGAGTC
*
36644543 ATTGGTAGACAAAAGGGAATACTTGAAGCAGTAACTTTTGTAGGTTAGTTTTTTTTTTTTTTTTT
66 ATTGGTAGACAAAAGGGAATACTTGAAGCAGTAACTTTTGTAGGTTACTTTTTTTTTTTTTTTTT
36644608 NCTTTTAGGTAAGGGTAGTCGGATCTAGAAGCATAAATTTTTGTCCATCTCCTTTAAATGGGAGT
1 -CTTTTAGGTAAGGGTAGTCGGATCTAGAAGCATAAATTTTTGTCCATCTCCTTTAAATGGGAGT
*
36644673 CATTGGTAGACAAAAGGGAATACTTGAAGCAGTAACTTTTGTGGGTTACTTTTTTTTTTTTTTTT
65 CATTGGTAGACAAAAGGGAATACTTGAAGCAGTAACTTTTGTAGGTTACTTTTTTTTTTTTTTTT
36644738 T
130 T
36644739 CT
1 CT
36644741 CTTCTTGGGT
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
130 2 0.02
131 128 0.98
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.41
Consensus pattern (130 bp):
CTTTTAGGTAAGGGTAGTCGGATCTAGAAGCATAAATTTTTGTCCATCTCCTTTAAATGGGAGTC
ATTGGTAGACAAAAGGGAATACTTGAAGCAGTAACTTTTGTAGGTTACTTTTTTTTTTTTTTTTT
Found at i:36671794 original size:2 final size:2
Alignment explanation
Indices: 36671789--36671825 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36671779 CTCTCCGTAA
36671789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36671826 GAGACACTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36677579 original size:5 final size:5
Alignment explanation
Indices: 36677571--36677596 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36677561 AAAGGAAGGA
36677571 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
36677597 GTTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:36704615 original size:42 final size:42
Alignment explanation
Indices: 36704556--36704639 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
36704546 GCTCCCTAAC
36704556 ATTGTTGCAACACAGGCAAACAGCTCTAAACAGGGTTTAAGG
1 ATTGTTGCAACACAGGCAAACAGCTCTAAACAGGGTTTAAGG
36704598 ATTGTTGCAACACAGGCAAACAGCTCTAAACAGGGTTTAAGG
1 ATTGTTGCAACACAGGCAAACAGCTCTAAACAGGGTTTAAGG
36704640 TTCGTTGGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (42 bp):
ATTGTTGCAACACAGGCAAACAGCTCTAAACAGGGTTTAAGG
Found at i:36726615 original size:26 final size:26
Alignment explanation
Indices: 36726586--36726660 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
36726576 TCATATATTT
36726586 TATTTTTATTTTTTATTATAATCTTA
1 TATTTTTATTTTTTATTATAATCTTA
* * *
36726612 TATTTTT-TATTTTTAATATAATTTTT
1 TATTTTTAT-TTTTTATTATAATCTTA
* * *
36726638 TATATTATATGTTTTATTTTAAT
1 TAT-TTTTATTTTTTATTATAAT
36726661 TTCTTTTACC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 24 0.62
27 13 0.33
28 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (26 bp):
TATTTTTATTTTTTATTATAATCTTA
Found at i:36726706 original size:20 final size:20
Alignment explanation
Indices: 36726683--36726761 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
36726673 TATTATATAA
36726683 ATTTTAAT-TTCTTATATTTT
1 ATTTTAATATT-TTATATTTT
* *
36726703 ATTTT-A-ATTTAATTTTTT
1 ATTTTAATATTTTATATTTT
* *
36726721 ATTTTTATATTATATATTTT
1 ATTTTAATATTTTATATTTT
*
36726741 ATTTTAATATTTTTTATTTT
1 ATTTTAATATTTTATATTTT
36726761 A
1 A
36726762 ATTATAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.25
19 4 0.08
20 32 0.67
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTAATATTTTATATTTT
Found at i:36726739 original size:33 final size:34
Alignment explanation
Indices: 36726683--36726767 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
36726673 TATTATATAA
*
36726683 ATTTTAATTTCTTATATT-T-TATTTTAATTTAAT
1 ATTTTTATTT-TTATATTATATATTTTAATTTAAT
*
36726716 -TTTTTATTTTTATATTATATATTTTATTTTAAT
1 ATTTTTATTTTTATATTATATATTTTAATTTAAT
36726749 ATTTTT-TATTTTA-ATTATA
1 ATTTTTAT-TTTTATATTATA
36726768 ACATTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
31 7 0.15
32 9 0.20
33 20 0.43
34 10 0.22
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (34 bp):
ATTTTTATTTTTATATTATATATTTTAATTTAAT
Found at i:36726759 original size:15 final size:15
Alignment explanation
Indices: 36726722--36726763 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
36726712 TAATTTTTTA
*
36726722 TTTTTATATT-ATAT
1 TTTTTATTTTAATAT
*
36726736 ATTTTATTTTAATAT
1 TTTTTATTTTAATAT
36726751 TTTTTATTTTAAT
1 TTTTTATTTTAAT
36726764 TATAACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTATTTTAATAT
Found at i:36726767 original size:38 final size:37
Alignment explanation
Indices: 36726695--36726767 Score: 109
Period size: 38 Copynumber: 2.1 Consensus size: 37
36726685 TTTAATTTCT
36726695 TATATTTTATTTTAATTTAATTTTTTATTTTTATATTA
1 TATATTTTATTTTAA-TTAATTTTTTATTTTTATATTA
36726733 TATATTTTATTTTAA-T-ATTTTTTA-TTTTA-ATTA
1 TATATTTTATTTTAATTAATTTTTTATTTTTATATTA
36726766 TA
1 TA
36726768 ACATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 6 0.17
34 5 0.14
35 8 0.23
36 1 0.03
38 15 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (37 bp):
TATATTTTATTTTAATTAATTTTTTATTTTTATATTA
Found at i:36741240 original size:52 final size:52
Alignment explanation
Indices: 36741162--36741270 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
36741152 TGTAATTATT
* * *
36741162 CCTATTACTATGTTTATCTCTATAATTATCTCTGTAAATGGTTATGTGTATC
1 CCTATTACTATGTTTATCCCTATAATTATCTCTGTAAATAGTTATGTATATC
36741214 CCTATTACTATGTTTATCCCTATAATTATCTCTGTAAATAGTTATGTATATC
1 CCTATTACTATGTTTATCCCTATAATTATCTCTGTAAATAGTTATGTATATC
36741266 CCTAT
1 CCTAT
36741271 AGATATCCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (52 bp):
CCTATTACTATGTTTATCCCTATAATTATCTCTGTAAATAGTTATGTATATC
Found at i:36760318 original size:8 final size:8
Alignment explanation
Indices: 36760305--36760365 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
36760295 CACTATGATA
36760305 TAATATAT
1 TAATATAT
36760313 TAATATAT
1 TAATATAT
36760321 T-ATA-AT
1 TAATATAT
36760327 TAATAATAAT
1 TAAT-AT-AT
36760337 ATAATATAT
1 -TAATATAT
36760346 T-A-AT-T
1 TAATATAT
*
36760351 TAATATAA
1 TAATATAT
36760359 TAATATA
1 TAATATA
36760366 ATTATGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
5 2 0.05
6 6 0.14
7 8 0.18
8 18 0.41
9 2 0.05
10 4 0.09
11 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAATATAT
Found at i:36760324 original size:18 final size:17
Alignment explanation
Indices: 36760302--36760360 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
36760292 ATTCACTATG
36760302 ATATAATATATTAATAT
1 ATATAATATATTAATAT
*
36760319 ATTATAAT-TAATAATA-
1 A-TATAATATATTAATAT
*
36760335 ATATAATATATTAATTT
1 ATATAATATATTAATAT
36760352 AATATAATA
1 -ATATAATA
36760361 ATATAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 6 0.17
16 7 0.20
17 8 0.23
18 14 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATATATTAATAT
Found at i:36760326 original size:33 final size:33
Alignment explanation
Indices: 36760302--36760367 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
36760292 ATTCACTATG
36760302 ATATAATATATTAATATATTATAATTAATAATA
1 ATATAATATATTAATATATTATAATTAATAATA
* *
36760335 ATATAATATATTAATTTAATATAA-TAAT-ATA
1 ATATAATATATTAATATATTATAATTAATAATA
36760366 AT
1 AT
36760368 TATGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 5 0.16
32 4 0.13
33 22 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATAATATATTAATATATTATAATTAATAATA
Found at i:36760362 original size:13 final size:13
Alignment explanation
Indices: 36760302--36760367 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
36760292 ATTCACTATG
*
36760302 ATATAATATATTA
1 ATATAATATAATA
36760315 ATAT-AT-T-ATA
1 ATATAATATAATA
36760325 AT-T-A-ATAATA
1 ATATAATATAATA
*
36760335 ATATAATATATTA
1 ATATAATATAATA
*
36760348 ATTTAATATAATA
1 ATATAATATAATA
36760361 ATATAAT
1 ATATAAT
36760368 TATGATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.07
10 9 0.21
11 2 0.05
12 3 0.07
13 26 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:36760367 original size:5 final size:5
Alignment explanation
Indices: 36760302--36760360 Score: 56
Period size: 5 Copynumber: 12.6 Consensus size: 5
36760292 ATTCACTATG
*
36760302 ATATA ATAT- AT-TA ATATA TTATA AT-TA ATAATA ATATA ATAT- AT-TA
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
*
36760348 ATTTA ATATA ATA
1 ATATA ATATA ATA
36760361 ATATAATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
3 2 0.04
4 12 0.27
5 27 0.60
6 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
ATATA
Found at i:36760857 original size:19 final size:19
Alignment explanation
Indices: 36760822--36760860 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36760812 TTTATTTATC
36760822 TCTTTAATAAATATATATT
1 TCTTTAATAAATATATATT
*
36760841 TCTTATAATGAAT-TATATT
1 TCTT-TAATAAATATATATT
36760860 T
1 T
36760861 AAATATCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TCTTTAATAAATATATATT
Found at i:36761473 original size:5 final size:5
Alignment explanation
Indices: 36761463--36761518 Score: 67
Period size: 5 Copynumber: 11.2 Consensus size: 5
36761453 TATTGATAAT
* * * * *
36761463 TTATA TTATA TTATA TGATA TGATA TTATA TTCTA TTTTA TTTTA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
36761513 TTATA T
1 TTATA T
36761519 ATGTATAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:36761586 original size:20 final size:19
Alignment explanation
Indices: 36761550--36761589 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36761540 ATAATAATTA
*
36761550 AAAAAATTAAATTATTTTT
1 AAAAAATTAAATAATTTTT
*
36761569 AAAAATTTAAATAAATTTTT
1 AAAAAATTAAAT-AATTTTT
36761589 A
1 A
36761590 TTTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAAAATTAAATAATTTTT
Found at i:36761624 original size:30 final size:30
Alignment explanation
Indices: 36761577--36761675 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
36761567 TTAAAAATTT
36761577 AAATAAA-TTTT-TATTTTTTATTATGTTC
1 AAATAAATTTTTATATTTTTTATTATGTTC
* * **
36761605 AACTAAATTTTTATATTTTTATTTTAAATT-
1 AAATAAATTTTTATATTTTT-TATTATGTTC
** *
36761635 ATTTAAATTTTTATA-TTTTTATTTTGATTC
1 AAATAAATTTTTATATTTTTTATTATG-TTC
36761665 AAATAAATTTT
1 AAATAAATTTT
36761676 CATAACTAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 9 0.17
29 10 0.19
30 29 0.54
31 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
AAATAAATTTTTATATTTTTTATTATGTTC
Found at i:36761644 original size:22 final size:21
Alignment explanation
Indices: 36761608--36761648 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36761598 TATGTTCAAC
*
36761608 TAAATTTTTATATTTTTATTT
1 TAAATTTTTAAATTTTTATTT
36761629 TAAATTATTTAAATTTTTAT
1 TAAATT-TTTAAATTTTTAT
36761649 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAAATTTTTAAATTTTTATTT
Found at i:36761984 original size:18 final size:18
Alignment explanation
Indices: 36761969--36762012 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36761959 TAAATAATAT
36761969 TTTAATTAATAATAATTA
1 TTTAATTAATAATAATTA
* *
36761987 ATTAATTATTAATAATTTA
1 TTTAATTAATAATAA-TTA
36762006 TTTAATT
1 TTTAATT
36762013 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATTAATAATAATTA
Found at i:36763172 original size:39 final size:37
Alignment explanation
Indices: 36763102--36763175 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
36763092 TATGTCTATG
* ** *
36763102 TAATACTTTTTATTTTTTATATTTTATACATTTATTT
1 TAATACTTTTTATTTTTTACATTAAAAACATTTATTT
36763139 TAATGACTTTTTATATTTTTACATTAAAAACATTTAT
1 TAAT-ACTTTTTAT-TTTTTACATTAAAAACATTTAT
36763176 CACCTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 4 0.13
38 9 0.29
39 18 0.58
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (37 bp):
TAATACTTTTTATTTTTTACATTAAAAACATTTATTT
Found at i:36763204 original size:21 final size:22
Alignment explanation
Indices: 36763161--36763204 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36763151 ATATTTTTAC
* *
36763161 ATTAAAAACATTTATCACCTTT
1 ATTAAAAAAATTCATCACCTTT
*
36763183 ATTAAAAAAATTCA-CACTTTT
1 ATTAAAAAAATTCATCACCTTT
36763204 A
1 A
36763205 CTATAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTAAAAAAATTCATCACCTTT
Found at i:36764354 original size:28 final size:27
Alignment explanation
Indices: 36764322--36764377 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
36764312 TAAAAAGATA
36764322 TAAGAAA-TTGATAAATTTTTTGTGTTTG
1 TAAGAAACTTG-T-AATTTTTTGTGTTTG
36764350 TAAGAAACTTTGTAATTTTTTGTGTTTG
1 TAAGAAAC-TTGTAATTTTTTGTGTTTG
36764378 ATGAATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 22 0.85
29 1 0.04
30 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.52
Consensus pattern (27 bp):
TAAGAAACTTGTAATTTTTTGTGTTTG
Found at i:36773846 original size:8 final size:8
Alignment explanation
Indices: 36773835--36773894 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
36773825 GATTAAAATA
36773835 TTAATATT
1 TTAATATT
36773843 TTAATATT
1 TTAATATT
*
36773851 TTAATGTT
1 TTAATATT
36773859 TT-AT-TT
1 TTAATATT
36773865 ATTAA-ATT
1 -TTAATATT
*
36773873 ATTAATATA
1 -TTAATATT
*
36773882 TTAAAATT
1 TTAATATT
36773890 TTAAT
1 TTAAT
36773895 GAGTATAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.05
7 4 0.09
8 35 0.81
9 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TTAATATT
Found at i:36773892 original size:31 final size:31
Alignment explanation
Indices: 36773833--36773892 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
36773823 ATGATTAAAA
* **
36773833 TATTAATATTTTAATATTTTAATGTTTTATT
1 TATTAATATTTTAATATATTAAAATTTTATT
36773864 TATTAA-ATTATTAATATATTAAAATTTTA
1 TATTAATATT-TTAATATATTAAAATTTTA
36773893 ATGAGTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TATTAATATTTTAATATATTAAAATTTTATT
Found at i:36774269 original size:15 final size:15
Alignment explanation
Indices: 36774241--36774279 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
36774231 ATATTAAATT
*
36774241 ATAAATAAAATATTA
1 ATAATTAAAATATTA
* *
36774256 ATATTTAAACTATTA
1 ATAATTAAAATATTA
36774271 ATAATTAAA
1 ATAATTAAA
36774280 TTATACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTAAAATATTA
Found at i:36774273 original size:40 final size:39
Alignment explanation
Indices: 36774229--36774327 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 39
36774219 TTAATCATAA
36774229 TAATATTAAATTATAAATAAAATATTAATATTTAAACT-AT
1 TAATATTAAATTAT-AATAAAATATTAATATTTAAA-TGAT
*
36774269 TAATAATTAAATTATACTAAAATATTAATATTTAAATGAT
1 TAAT-ATTAAATTATAATAAAATATTAATATTTAAATGAT
*
36774309 TAATTATTAATATTTTAAT
1 TAA-TATTAA-ATTATAAT
36774328 TAGATTATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.02
40 34 0.65
41 17 0.33
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (39 bp):
TAATATTAAATTATAATAAAATATTAATATTTAAATGAT
Found at i:36774318 original size:15 final size:14
Alignment explanation
Indices: 36774248--36774312 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 14
36774238 ATTATAAATA
36774248 AAATATTAATATTT
1 AAATATTAATATTT
*
36774262 AAACTATTAATAATT
1 AAA-TATTAATATTT
* *
36774277 -AA-ATT-ATACTA
1 AAATATTAATATTT
36774288 AAATATTAATATTT
1 AAATATTAATATTT
36774302 AAATGATTAAT
1 AAAT-ATTAAT
36774313 TATTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.10
12 5 0.12
13 3 0.07
14 13 0.32
15 16 0.39
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (14 bp):
AAATATTAATATTT
Found at i:36791966 original size:23 final size:23
Alignment explanation
Indices: 36791892--36791968 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
36791882 ATAAGCATTA
* * *
36791892 TGTGACTTATTAGTAAGGTATTA
1 TGTGACTTGTTAGTAAAGTATTG
* * *
36791915 CGTTACTTGTTAGTAAGACT-TTG
1 TGTGACTTGTTAGTAA-AGTATTG
36791938 CT-TGACTTGTTAGTAAAGTATTG
1 -TGTGACTTGTTAGTAAAGTATTG
36791961 TGTGACTT
1 TGTGACTT
36791969 AGGTATTATT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
22 3 0.07
23 37 0.90
24 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (23 bp):
TGTGACTTGTTAGTAAAGTATTG
Found at i:36792635 original size:19 final size:20
Alignment explanation
Indices: 36792601--36792638 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
36792591 AGTCATGTCA
*
36792601 AAAATTGATTAAAAATAATT
1 AAAATTGATAAAAAATAATT
36792621 AAAATT-ATAAAAAATAAT
1 AAAATTGATAAAAAATAAT
36792639 ATTTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATTGATAAAAAATAATT
Found at i:36795609 original size:16 final size:16
Alignment explanation
Indices: 36795588--36795618 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36795578 CACTGGGCTT
36795588 AGTAAAAACCCGTACA
1 AGTAAAAACCCGTACA
36795604 AGTAAAAACCCGTAC
1 AGTAAAAACCCGTAC
36795619 GCTTACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
AGTAAAAACCCGTACA
Found at i:36808196 original size:21 final size:21
Alignment explanation
Indices: 36808171--36808210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36808161 TTGCACCAAC
36808171 AATTAATTTAATCATTACAAT
1 AATTAATTTAATCATTACAAT
* *
36808192 AATTAATTTGATTATTACA
1 AATTAATTTAATCATTACA
36808211 GTATGTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (21 bp):
AATTAATTTAATCATTACAAT
Found at i:36816962 original size:24 final size:23
Alignment explanation
Indices: 36816924--36816970 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
36816914 AGAGGGGACT
36816924 CAAAATCAGAGTCAAAAGCTAGCA
1 CAAAATCAGAGTCAAAAGC-AGCA
* *
36816948 CAAAATCTGATTCAAAAGCAGCA
1 CAAAATCAGAGTCAAAAGCAGCA
36816971 TGAGTATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (23 bp):
CAAAATCAGAGTCAAAAGCAGCA
Found at i:36821575 original size:14 final size:15
Alignment explanation
Indices: 36821538--36821575 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
36821528 CCAATAGAAG
36821538 AAAACAAAAAAAGCA
1 AAAACAAAAAAAGCA
36821553 AAAA-AAAAAAAG-A
1 AAAACAAAAAAAGCA
36821566 AAAACTAAAA
1 AAAAC-AAAA
36821576 TTAATTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (15 bp):
AAAACAAAAAAAGCA
Found at i:36845527 original size:5 final size:5
Alignment explanation
Indices: 36845517--36845548 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
36845507 ATTACGTGAG
36845517 AATAA AATAA AATAAA AATAA AATAA AATAA A
1 AATAA AATAA AAT-AA AATAA AATAA AATAA A
36845549 TATTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:36845558 original size:16 final size:16
Alignment explanation
Indices: 36845517--36845548 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36845507 ATTACGTGAG
36845517 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
36845533 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
36845549 TATTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:36845607 original size:54 final size:54
Alignment explanation
Indices: 36845479--36845591 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
36845469 TTTATTCACG
* *
36845479 AAAT-AAATAAAAATAAA-ATAAAATAATTATTACGTGAGAATAAAATAAAATAA
1 AAATAAAAT-AAAATAAATATTATATAATTATTACGTGAGAATAAAATAAAATAA
* *
36845532 AAATAAAATAAAATAAATATTATATAATT-TTATGTGATGAATGAAATAAAATAA
1 AAATAAAATAAAATAAATATTATATAATTATTACGTGA-GAATAAAATAAAATAA
36845586 AAATAA
1 AAATAA
36845592 TTATTATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
53 19 0.36
54 34 0.64
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (54 bp):
AAATAAAATAAAATAAATATTATATAATTATTACGTGAGAATAAAATAAAATAA
Found at i:36845867 original size:16 final size:15
Alignment explanation
Indices: 36845842--36845875 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
36845832 ATTTAATAAA
36845842 TAAAACATTAATAGTT
1 TAAAACATTAATA-TT
*
36845858 TAAAATATTAATATT
1 TAAAACATTAATATT
36845873 TAA
1 TAA
36845876 TATTTTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAACATTAATATT
Found at i:36845875 original size:23 final size:23
Alignment explanation
Indices: 36845823--36845900 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
36845813 AAAATTAAAT
* *
36845823 ATATTAATAATTTAATAA-ATAAA
1 ATATTAATAGTTTAATAATAT-TA
*
36845846 ACATTAATAGTTTAA-AATATTA
1 ATATTAATAGTTTAATAATATTA
* * *
36845868 ATATTTAATATTTTAATCATGTTA
1 ATA-TTAATAGTTTAATAATATTA
36845892 ATATTAATA
1 ATATTAATA
36845901 ATGTTTCAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 5 0.11
23 32 0.71
24 8 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (23 bp):
ATATTAATAGTTTAATAATATTA
Found at i:36845883 original size:15 final size:15
Alignment explanation
Indices: 36845849--36845896 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
36845839 AAATAAAACA
* *
36845849 TTAATAGTTTAAAATA
1 TTAATA-TTTAATATT
36845865 TTAATATTTAATATT
1 TTAATATTTAATATT
36845880 TTAATCATGTTAATATT
1 TTAAT-AT-TTAATATT
36845897 AATAATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 8 0.29
17 8 0.29
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (15 bp):
TTAATATTTAATATT
Found at i:36860593 original size:2 final size:2
Alignment explanation
Indices: 36860586--36860622 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36860576 GAAGATAGGA
36860586 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
36860623 ACTCAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:36863946 original size:2 final size:2
Alignment explanation
Indices: 36863939--36863977 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
36863929 CTTTTCTCCC
36863939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36863978 ATTCTACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36869951 original size:21 final size:20
Alignment explanation
Indices: 36869908--36869952 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
36869898 TTATATAGGC
**
36869908 TTTTTTTTTCCTTTTTTTAT
1 TTTTTTTTTCCTTAATTTAT
*
36869928 TTTTTTATTTCCTTAATTTCT
1 TTTTTT-TTTCCTTAATTTAT
36869949 TTTT
1 TTTT
36869953 AAAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTCCTTAATTTAT
Found at i:36871551 original size:23 final size:24
Alignment explanation
Indices: 36871525--36871569 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36871515 GTTTTTCTAT
*
36871525 TTATAATTAA-AATAAAAAATACA
1 TTATAATTAATAAAAAAAAATACA
*
36871548 TTATACTTAATAAAAAAAAATA
1 TTATAATTAATAAAAAAAAATA
36871570 TATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TTATAATTAATAAAAAAAAATACA
Found at i:36883690 original size:5 final size:5
Alignment explanation
Indices: 36883682--36883721 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
36883672 TTTCATTTCC
*
36883682 CTTTT CTTTT CCTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
36883722 GAAGGTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:36883699 original size:10 final size:10
Alignment explanation
Indices: 36883669--36883721 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
36883659 AGCAAATCCA
36883669 TCCTTTCATTT
1 TCCTTTC-TTT
*
36883680 CCCTTTTCTTT
1 TCC-TTTCTTT
36883691 TCCTTTCTTT
1 TCCTTTCTTT
*
36883701 TCTTTTCTTT
1 TCCTTTCTTT
*
36883711 TCTTTTCTTT
1 TCCTTTCTTT
36883721 T
1 T
36883722 GAAGGTAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 27 0.71
11 7 0.18
12 4 0.11
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (10 bp):
TCCTTTCTTT
Found at i:36892590 original size:26 final size:26
Alignment explanation
Indices: 36892561--36892611 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
36892551 CTATTTTTTT
* *
36892561 TTTTACATTTCTAATTATATTAATAG
1 TTTTACATCTCTAATTATATCAATAG
36892587 TTTTACATCTCTAATTATATCAATA
1 TTTTACATCTCTAATTATATCAATA
36892612 TTACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTTACATCTCTAATTATATCAATAG
Found at i:36898326 original size:2 final size:2
Alignment explanation
Indices: 36898319--36898345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36898309 TACTTGAACA
36898319 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36898346 GTTTTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36899130 original size:34 final size:34
Alignment explanation
Indices: 36899087--36899160 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
36899077 TTTTTCTTTT
*
36899087 CTTTT-TTTTTCTCCTTTATATGT-ATACTAAACC
1 CTTTTATTTTT-TCCTTTATATCTCATACTAAACC
* * *
36899120 CTTTTATTTTTTCTTTTTTTTCTCATACTAAACC
1 CTTTTATTTTTTCCTTTATATCTCATACTAAACC
36899154 CTTTTAT
1 CTTTTAT
36899161 CCTTTTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 13 0.37
34 22 0.63
ACGTcount: A:0.19, C:0.20, G:0.01, T:0.59
Consensus pattern (34 bp):
CTTTTATTTTTTCCTTTATATCTCATACTAAACC
Found at i:36899173 original size:34 final size:34
Alignment explanation
Indices: 36899110--36899174 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
36899100 CTTTATATGT
* **
36899110 ATACTAAACCCTTTTATTTTTTCTTTTTTTTCTC
1 ATACTAAACCCTTTTATCTTTTCAATTTTTTCTC
36899144 ATACTAAACCCTTTTATCCTTTT-AATTTTTT
1 ATACTAAACCCTTTTAT-CTTTTCAATTTTTT
36899175 TAGTTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (34 bp):
ATACTAAACCCTTTTATCTTTTCAATTTTTTCTC
Found at i:36899221 original size:19 final size:19
Alignment explanation
Indices: 36899178--36899219 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
36899168 ATTTTTTTAG
*
36899178 TTTTTCTCTTTTTTCTTTT
1 TTTTTCTCTTTTTCCTTTT
*
36899197 GTTTTC-CTTTTTCCTTTT
1 TTTTTCTCTTTTTCCTTTT
36899215 TTTTT
1 TTTTT
36899220 TCTCCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTCTCTTTTTCCTTTT
Found at i:36899436 original size:143 final size:144
Alignment explanation
Indices: 36899161--36899435 Score: 339
Period size: 143 Copynumber: 1.9 Consensus size: 144
36899151 ACCCTTTTAT
* * **
36899161 CCTTTTAATTTTTTTAGTTTTTCTCTTTTTTCTTTTGTTTTCCTTTTTCCTTTTTTTTTTCTCCT
1 CCTTTTAATTTTTTAAGTTTTTCTCTTTTTTCCTTCATTTTCCTTTTTCC-TTTTTTTTTCTCCT
* * *
36899226 TTATAAGTATACTAAACACTTTTATTCTTTATTCTTTTATTTTTTTCTTTTTTACCCTGTTATTT
65 TTACAAGTATACTAAACACTTTTATTCTTTATTCTTTTATTTTTTTCCTTCTTA-CCTGTTATTT
36899291 TTTTCTCATACTAAAC
129 TTTTCTCATACTAAAC
*
36899307 CCTTTT-ATTTTTTAATTTTTTCTCTTTTTTTCCTTCATTTTCCTTTTT-C-TTTTTTTTCTCCT
1 CCTTTTAATTTTTTAAGTTTTTCTC-TTTTTTCCTTCATTTTCCTTTTTCCTTTTTTTTTCTCCT
* * * *
36899369 TTACATGTATACTAAAC-CTTTTTATT-TTT-TTATTTTTCTTTTTTTCCTTCTT-CCTTTTATT
65 TTACAAGTATACTAAACAC-TTTTATTCTTTATT-CTTTTATTTTTTTCCTTCTTACCTGTTATT
36899430 CTTTTT
128 -TTTTT
36899436 TATTTTAGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
140 8 0.07
141 7 0.06
142 20 0.18
143 35 0.31
145 17 0.15
146 26 0.23
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (144 bp):
CCTTTTAATTTTTTAAGTTTTTCTCTTTTTTCCTTCATTTTCCTTTTTCCTTTTTTTTTCTCCTT
TACAAGTATACTAAACACTTTTATTCTTTATTCTTTTATTTTTTTCCTTCTTACCTGTTATTTTT
TTCTCATACTAAAC
Found at i:36900206 original size:429 final size:429
Alignment explanation
Indices: 36899517--36900320 Score: 1239
Period size: 429 Copynumber: 1.9 Consensus size: 429
36899507 ATTCTTTTTT
* *
36899517 ATTTTGAACTTTTTTCCTTCTTTTTTTTTTCTTTTTTATAATATACTAAACCTTTTTGTTCTTTA
1 ATTTTGAAATTTTTTCCTTATTTTTTTTTTCTTTTTTATAATATACTAAACCTTTTTGTTCTTTA
* * *
36899582 TTCTTTTTATCTATGACTTTATATAATTATTCTTTAATCAACAACCACTCTTCATATAAAATCTT
66 TTCTTTTTATCTATGACTTTATATAATTACTCTTTAACCAACAACCACTCTTCATATAAAATCCT
**
36899647 GTATCTGCCACTCAGAAGTAATGTCCAAAGAAAAAAGGCTACACATCTATATGATAGCATGTGAT
131 GTATCTGCCACTCAGAAGTAACATCCAAAGAAAAAAGGCTA-ACATC----T-ATAGC----GAT
36899712 GAAACCTTTAAAAGTTAGAATGCTTGCCCACCATGCCTAATTCATAAATAGCTGTTATTTATTGT
186 GAAACCTTTAAAAGTTAGAATGCTTGCCCACCATGCCTAATTCATAAATAGCTGTTATTTATTGT
36899777 TTTTGCTATCATTATTAACTATCTTCTCATCTTAAAATGATTGTTTAGGTAAAAGCT-AATTTTT
251 TTTTGCTATCATTATTAACTATCTTCTCATCTTAAAATGATTGTTTAGGTAAAAGCTAAATTTTT
36899841 TTGTACTAAGTTCTTTAATAGAAATAAATATAGTTT-TTTTTTTATAATTAAGGGAGAGAGAATT
316 TTGTACTAAGTTCTTTAATAGAAATAAATATAGTTTGTTTTTTTATAATTAAGGGAGAGAGAATT
36899905 CGAACCCTACTCTTTAAATAAGGAGATAATACACTAACCAATGAGCTTA
381 CGAACCCTACTCTTTAAATAAGGAGATAATACACTAACCAATGAGCTTA
36899954 ATTTTGAAATTTTTTCCTTATTTTTTTTTTC-TTTTTATAAGTATACTAAACCTTTTTGTTATTT
1 ATTTTGAAATTTTTTCCTTATTTTTTTTTTCTTTTTTATAA-TATACTAAACCTTTTTG------
* * * *
36900018 ATTCTTTTATTCTTTTTATCTATGACTTTATATAATTACTCTTTAACCAGCAATCACTTTTTATA
59 -TTC-TTTATTCTTTTTATCTATGACTTTATATAATTACTCTTTAACCAACAACCACTCTTCATA
36900083 TAAAATCCTGTATCTGCCACTCAGAAGTAACATCCAAAGAAAAAAGGCT-ACA-C-A-A-C-ATG
122 TAAAATCCTGTATCTGCCACTCAGAAGTAACATCCAAAGAAAAAAGGCTAACATCTATAGCGATG
*
36900142 ACACCTTTAAAAGTTAGAATGCTTGCCCACCATGCCTAATTCATAAATAGCTGTTATTTATTGTT
187 AAACCTTTAAAAGTTAGAATGCTTGCCCACCATGCCTAATTCATAAATAGCTGTTATTTATTGTT
* *
36900207 TTTGCTATCATTATTAACTATCTTCTCATCTTAAAATGATTGTTTAGGTAACAGTTAAATTTTTT
252 TTTGCTATCATTATTAACTATCTTCTCATCTTAAAATGATTGTTTAGGTAAAAGCTAAATTTTTT
*
36900272 TGTACTAAGTTCTTTAATAGAAATAAATGTAGTTTGTTTTTTTATAATT
317 TGTACTAAGTTCTTTAATAGAAATAAATATAGTTTGTTTTTTTATAATT
36900321 GGGAGAAGAA
Statistics
Matches: 341, Mismatches: 15, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
429 121 0.35
430 42 0.12
431 13 0.04
434 1 0.00
435 1 0.00
436 10 0.03
437 46 0.13
442 1 0.00
443 3 0.01
444 3 0.01
445 100 0.29
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (429 bp):
ATTTTGAAATTTTTTCCTTATTTTTTTTTTCTTTTTTATAATATACTAAACCTTTTTGTTCTTTA
TTCTTTTTATCTATGACTTTATATAATTACTCTTTAACCAACAACCACTCTTCATATAAAATCCT
GTATCTGCCACTCAGAAGTAACATCCAAAGAAAAAAGGCTAACATCTATAGCGATGAAACCTTTA
AAAGTTAGAATGCTTGCCCACCATGCCTAATTCATAAATAGCTGTTATTTATTGTTTTTGCTATC
ATTATTAACTATCTTCTCATCTTAAAATGATTGTTTAGGTAAAAGCTAAATTTTTTTGTACTAAG
TTCTTTAATAGAAATAAATATAGTTTGTTTTTTTATAATTAAGGGAGAGAGAATTCGAACCCTAC
TCTTTAAATAAGGAGATAATACACTAACCAATGAGCTTA
Found at i:36901145 original size:23 final size:23
Alignment explanation
Indices: 36901107--36901156 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
36901097 AATAAAAAAA
36901107 TAAAAATATTTTTTAT-TAATTT
1 TAAAAATATTTTTTATATAATTT
*
36901129 TAAAAA-ATTATTATTATATATTTT
1 TAAAAATATT-TT-TTATATAATTT
36901153 TAAA
1 TAAA
36901157 GACGAGTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.12
22 8 0.33
23 4 0.17
24 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAAAATATTTTTTATATAATTT
Found at i:36901634 original size:34 final size:34
Alignment explanation
Indices: 36901569--36901634 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
36901559 AAAAATATAT
* * *
36901569 TAAAATATATAATATAAGAAATTATATTAAAAAA
1 TAAAATATATAATATAAGAAAATAAAATAAAAAA
*
36901603 TAAAATAT-TAATTATAATAAAATAAAATAAAA
1 TAAAATATATAA-TATAAGAAAATAAAATAAAA
36901635 TATATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (34 bp):
TAAAATATATAATATAAGAAAATAAAATAAAAAA
Found at i:36901640 original size:22 final size:23
Alignment explanation
Indices: 36901591--36901649 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
36901581 TATAAGAAAT
*
36901591 TATATTAA-AAAATAAAATATTAA
1 TATA-TAATAAAATAAAATATAAA
36901614 T-TATAATAAAATAAAATA-AAA
1 TATATAATAAAATAAAATATAAA
* *
36901635 TATATATTTAAATAA
1 TATATAATAAAATAA
36901650 TGATATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.19
22 24 0.77
23 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TATATAATAAAATAAAATATAAA
Found at i:36913998 original size:69 final size:70
Alignment explanation
Indices: 36913886--36914020 Score: 245
Period size: 69 Copynumber: 1.9 Consensus size: 70
36913876 TGACCTGTCC
* *
36913886 ACTTGGTAAAAAAATCCTGTTAATTGCCTCATACGTCTTTTGCATCCATATGGGTGTGGACCAAT
1 ACTTGGTAAAAAAATCCTGTTAACTGCCTCATACCTCTTTTGCATCCATATGGGTGTGGACCAAT
36913951 TTTCA
66 TTTCA
36913956 ACTTGG-AAAAAAATCCTGTTAACTGCCTCATACCTCTTTTGCATCCATATGGGTGTGGACCAAT
1 ACTTGGTAAAAAAATCCTGTTAACTGCCTCATACCTCTTTTGCATCCATATGGGTGTGGACCAAT
36914020 T
66 T
36914021 ATCTCCTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 57 0.90
70 6 0.10
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (70 bp):
ACTTGGTAAAAAAATCCTGTTAACTGCCTCATACCTCTTTTGCATCCATATGGGTGTGGACCAAT
TTTCA
Found at i:36914464 original size:25 final size:25
Alignment explanation
Indices: 36914422--36914475 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
36914412 TTTCATTAAA
* * *
36914422 AAATATTTTTAATTTTAATAGTATT
1 AAATAATTTAAATATTAATAGTATT
* *
36914447 AAATAATTTAAATATTAATATTTTT
1 AAATAATTTAAATATTAATAGTATT
36914472 AAAT
1 AAAT
36914476 TAAAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AAATAATTTAAATATTAATAGTATT
Found at i:36927416 original size:23 final size:23
Alignment explanation
Indices: 36927394--36927436 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
36927384 TTGTGCTTCT
*
36927394 TTTGAATTTATT-TTTTGTTTTC
1 TTTGAATTGATTATTTTGTTTTC
*
36927416 TTTGACTTGATTATTTTGTTT
1 TTTGAATTGATTATTTTGTTT
36927437 CAGGGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (23 bp):
TTTGAATTGATTATTTTGTTTTC
Found at i:36927531 original size:15 final size:15
Alignment explanation
Indices: 36927511--36927540 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36927501 CTCAAGCTGA
36927511 TCACGAGGAACTCAC
1 TCACGAGGAACTCAC
36927526 TCACGAGGAACTCAC
1 TCACGAGGAACTCAC
36927541 CCCATATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
TCACGAGGAACTCAC
Found at i:36928918 original size:37 final size:37
Alignment explanation
Indices: 36928877--36928948 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
36928867 TTGGATAAAA
* *
36928877 CCTAATCATTATCCTGCGAATCGGGTCCTTGGTATTT
1 CCTAATCATTATCCTACGAATCAGGTCCTTGGTATTT
* *
36928914 CCTAATCATTATCCTATGAATCAGGTCTTTGGTAT
1 CCTAATCATTATCCTACGAATCAGGTCCTTGGTAT
36928949 ATCCCTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (37 bp):
CCTAATCATTATCCTACGAATCAGGTCCTTGGTATTT
Found at i:36930565 original size:45 final size:45
Alignment explanation
Indices: 36930501--36930592 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
36930491 GCGTAATGGG
* * *
36930501 AGCAGTAAAAGACACGTGTTATGGCATAGTTGGGTATCACATACA
1 AGCAATAAAAGACAAGTGTTATCGCATAGTTGGGTATCACATACA
* *
36930546 AGCAATAAAAGTCAAGTGTTATCGCATAGTTTGGTATCACATACA
1 AGCAATAAAAGACAAGTGTTATCGCATAGTTGGGTATCACATACA
36930591 AG
1 AG
36930593 GTTATAGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (45 bp):
AGCAATAAAAGACAAGTGTTATCGCATAGTTGGGTATCACATACA
Found at i:36936344 original size:30 final size:30
Alignment explanation
Indices: 36936255--36936347 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
36936245 AATTAAATCT
*
36936255 TTATAATTTTATTTTGAGTCAAATAA-ATC
1 TTATAATTTTATTTTGAGTCAAATAAGCTC
* * *
36936284 TTATACTTTTATTTTGAGTTAAATATGCTC
1 TTATAATTTTATTTTGAGTCAAATAAGCTC
* *
36936314 TTATATTTTTATTTCGAGTCAAATAAGCTC
1 TTATAATTTTATTTTGAGTCAAATAAGCTC
36936344 TTAT
1 TTAT
36936348 GATTAATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 23 0.42
30 32 0.58
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.51
Consensus pattern (30 bp):
TTATAATTTTATTTTGAGTCAAATAAGCTC
Found at i:36940281 original size:2 final size:2
Alignment explanation
Indices: 36940276--36940300 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36940266 TAAAAAATTA
36940276 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36940301 CATCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36979090 original size:2 final size:2
Alignment explanation
Indices: 36979083--36979127 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
36979073 GAACTACACC
* * * *
36979083 TA TA TA TA TA TA TA TA TA TA GA TA TA GA TA TA GA TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36979125 TA T
1 TA T
36979128 CTTAATTATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (2 bp):
TA
Found at i:36979094 original size:6 final size:6
Alignment explanation
Indices: 36979086--36979126 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
36979076 CTACACCTAT
* *
36979086 ATATAT ATATAT ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
36979127 TCTTAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (6 bp):
ATATAG
Found at i:36995697 original size:33 final size:33
Alignment explanation
Indices: 36995660--36995725 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
36995650 AAATGCTTGT
36995660 AATAAGGGTATAACTCCACGCACCGAGAAGATA
1 AATAAGGGTATAACTCCACGCACCGAGAAGATA
* *
36995693 AATAAGGGTATAACTCCACGTACGGAGAAGATA
1 AATAAGGGTATAACTCCACGCACCGAGAAGATA
36995726 CTGTCAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (33 bp):
AATAAGGGTATAACTCCACGCACCGAGAAGATA
Found at i:36996955 original size:2 final size:2
Alignment explanation
Indices: 36996948--36996984 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36996938 AGAAAAGCTT
36996948 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
36996985 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:37021552 original size:2 final size:2
Alignment explanation
Indices: 37021547--37021573 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37021537 CTACACACAC
37021547 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
37021574 ATTAATACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37023703 original size:8 final size:8
Alignment explanation
Indices: 37023685--37023720 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
37023675 TTTCCTTTGC
*
37023685 TTTTTCTT
1 TTTTTCAT
*
37023693 TTTTTTAT
1 TTTTTCAT
37023701 TTTTTCAT
1 TTTTTCAT
37023709 TTTTTCAT
1 TTTTTCAT
37023717 TTTT
1 TTTT
37023721 AAGCGTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCAT
Found at i:37034078 original size:2 final size:2
Alignment explanation
Indices: 37034073--37034098 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37034063 ACCGACTGAA
37034073 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37034099 TTATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37037488 original size:2 final size:2
Alignment explanation
Indices: 37037481--37037517 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37037471 TGTTGACAGC
37037481 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37037518 TCTGATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37038404 original size:2 final size:2
Alignment explanation
Indices: 37038397--37038481 Score: 127
Period size: 2 Copynumber: 41.5 Consensus size: 2
37038387 TAGAAGGGAC
37038397 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA
*
37038441 NA T- TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37038482 TACGGATCCT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
1 1 0.01
2 70 0.90
3 7 0.09
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37040207 original size:28 final size:28
Alignment explanation
Indices: 37040175--37040232 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
37040165 TCCAAGAAGA
37040175 CATGTTTGGAAAGGATATATAGGCAAAG
1 CATGTTTGGAAAGGATATATAGGCAAAG
37040203 CATGTTTGGAAAGGATATATAGGCAAAG
1 CATGTTTGGAAAGGATATATAGGCAAAG
37040231 CA
1 CA
37040233 AAAGGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.24
Consensus pattern (28 bp):
CATGTTTGGAAAGGATATATAGGCAAAG
Found at i:37040239 original size:26 final size:27
Alignment explanation
Indices: 37040182--37040240 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
37040172 AGACATGTTT
***
37040182 GGAAAGGATATATAGGCAAAGCATGTTT
1 GGAAAGGATATATAGGCAAAGCA-GAAA
37040210 GGAAAGGATATATAGGCAAAGCA-AAA
1 GGAAAGGATATATAGGCAAAGCAGAAA
37040236 GGAAA
1 GGAAA
37040241 TATATGTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
28 23 0.82
ACGTcount: A:0.47, C:0.07, G:0.29, T:0.17
Consensus pattern (27 bp):
GGAAAGGATATATAGGCAAAGCAGAAA
Found at i:37049236 original size:2 final size:2
Alignment explanation
Indices: 37049229--37049260 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
37049219 CCTATGCCCT
*
37049229 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
37049261 CCTGCAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37051225 original size:27 final size:27
Alignment explanation
Indices: 37051187--37051243 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
37051177 TCCTCTTTGA
37051187 TCTCAAATCTTGTTGCTTCTAAATTCC
1 TCTCAAATCTTGTTGCTTCTAAATTCC
37051214 TCTCAAATCTTGTTGCTTCTAAATTCC
1 TCTCAAATCTTGTTGCTTCTAAATTCC
37051241 TCT
1 TCT
37051244 TAGGATTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.46
Consensus pattern (27 bp):
TCTCAAATCTTGTTGCTTCTAAATTCC
Found at i:37072436 original size:85 final size:85
Alignment explanation
Indices: 37072293--37072449 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
37072283 CATTATATTT
** * *
37072293 CTCTAAAGTTCTCTCTTTTTCTTTTGCTTCCATTATTTTGTGGATTTTAAAACTTATTTAAGTTC
1 CTCTAAAGTTCTCTCTTTTTCTTTTGCTTCCATTATTTCATGGATTTCAAAACTTATTTAAATTC
37072358 TATTTTCCTCATTTGTAACA
66 TATTTTCCTCATTTGTAACA
* * * * * *
37072378 CTCTAAAGTTTTCTTTTTTTCTTTTGCTTTCGTTATTTCATGGGTTTCAAAGCTTATTTAAATTC
1 CTCTAAAGTTCTCTCTTTTTCTTTTGCTTCCATTATTTCATGGATTTCAAAACTTATTTAAATTC
37072443 TATTTTC
66 TATTTTC
37072450 AGAATTTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.55
Consensus pattern (85 bp):
CTCTAAAGTTCTCTCTTTTTCTTTTGCTTCCATTATTTCATGGATTTCAAAACTTATTTAAATTC
TATTTTCCTCATTTGTAACA
Found at i:37078589 original size:2 final size:2
Alignment explanation
Indices: 37078582--37078607 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37078572 GCAAGTGCAA
37078582 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
37078608 TAGGATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37085851 original size:23 final size:22
Alignment explanation
Indices: 37085825--37085874 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
37085815 TATCATTTAA
37085825 TTATAAAA-TAGTATTTTATAAAT
1 TTATAAAATTA-TATTTT-TAAAT
37085848 TTATAAAATTTATATTTTTAAAT
1 TTATAAAA-TTATATTTTTAAAT
37085871 TTAT
1 TTAT
37085875 TATATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 17 0.68
24 6 0.24
25 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATAAAATTATATTTTTAAAT
Found at i:37086294 original size:7 final size:7
Alignment explanation
Indices: 37086282--37086309 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37086272 TTCTTTCAAA
37086282 TTGAAAT
1 TTGAAAT
37086289 TTGAAAT
1 TTGAAAT
37086296 TTGAAAT
1 TTGAAAT
37086303 TTGAAAT
1 TTGAAAT
37086310 AATTTCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TTGAAAT
Found at i:37110344 original size:2 final size:2
Alignment explanation
Indices: 37110337--37110364 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37110327 TTGGTTTCTG
37110337 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37110365 GGATTCACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37121737 original size:2 final size:2
Alignment explanation
Indices: 37121730--37121757 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37121720 CTGCGGCCAC
37121730 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
37121758 GTTGTTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37146818 original size:2 final size:2
Alignment explanation
Indices: 37146813--37146853 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
37146803 ATATACACAC
37146813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37146854 CCAATATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37147756 original size:21 final size:20
Alignment explanation
Indices: 37147704--37147759 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
37147694 CTAGTTTTTA
37147704 GGCATTGCGTGACTGACTTT
1 GGCATTGCGTGACTGACTTT
* *
37147724 GGATATTACGTGACTGACTTT
1 GG-CATTGCGTGACTGACTTT
37147745 GAGCATTGCGTGACT
1 G-GCATTGCGTGACT
37147760 AATTTTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.34
Consensus pattern (20 bp):
GGCATTGCGTGACTGACTTT
Found at i:37147883 original size:26 final size:26
Alignment explanation
Indices: 37147747--37147888 Score: 132
Period size: 26 Copynumber: 5.7 Consensus size: 26
37147737 CTGACTTTGA
*
37147747 GCATTGCGTGACTAATTTTTGATAAG
1 GCATTGCGTGACTAGTTTTTGATAAG
* *
37147773 GTATTGCGTGACTAGTTTTTGATAAC
1 GCATTGCGTGACTAGTTTTTGATAAG
* * * *
37147799 GTATTGCATGACTAGTTTCTGATAAA
1 GCATTGCGTGACTAGTTTTTGATAAG
* **
37147825 GCATTACGTGACTA-ACTTTG---A-
1 GCATTGCGTGACTAGTTTTTGATAAG
*
37147846 GCATTGCGTGACTAGTTTTTGACAAG
1 GCATTGCGTGACTAGTTTTTGATAAG
* *
37147872 GCATTGCCTGACCAGTT
1 GCATTGCGTGACTAGTT
37147889 AGTAAGGCAT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
21 13 0.14
22 5 0.05
25 4 0.04
26 72 0.77
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
GCATTGCGTGACTAGTTTTTGATAAG
Found at i:37154872 original size:6 final size:6
Alignment explanation
Indices: 37154861--37154885 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37154851 GTGAGACCCT
37154861 GATCCA GATCCA GATCCA GATCCA G
1 GATCCA GATCCA GATCCA GATCCA G
37154886 TAGGCCGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (6 bp):
GATCCA
Found at i:37160419 original size:53 final size:53
Alignment explanation
Indices: 37160356--37160462 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
37160346 AAAATGAAAA
37160356 AGTATATAATGTGCACCATGACTCTATTGCAAACAAAGAATATATAGCATGAC
1 AGTATATAATGTGCACCATGACTCTATTGCAAACAAAGAATATATAGCATGAC
37160409 AGTATATAATGTGCACCATGACTCTATTGCAAACAAAGAATATATAGCATGAC
1 AGTATATAATGTGCACCATGACTCTATTGCAAACAAAGAATATATAGCATGAC
37160462 A
1 A
37160463 CACCATGACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (53 bp):
AGTATATAATGTGCACCATGACTCTATTGCAAACAAAGAATATATAGCATGAC
Found at i:37161111 original size:5 final size:5
Alignment explanation
Indices: 37161101--37161130 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
37161091 ACATGTTTGC
37161101 AAGAG AAGAG AAGAG AAGAG AAGAG -AGAG A
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG A
37161131 TATGAGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:37177088 original size:28 final size:28
Alignment explanation
Indices: 37177048--37177103 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37177038 CAATGATGAA
37177048 GTATAGACACTAGGCCTTTAATAAGTGC
1 GTATAGACACTAGGCCTTTAATAAGTGC
37177076 GTATAGACACTAGGCCTTTAATAAGTGC
1 GTATAGACACTAGGCCTTTAATAAGTGC
37177104 AAGGGTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (28 bp):
GTATAGACACTAGGCCTTTAATAAGTGC
Found at i:37180597 original size:24 final size:24
Alignment explanation
Indices: 37180570--37180618 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
37180560 TTTTGCGAGC
37180570 TACAAAATAGTAAAAAAATTTGAA
1 TACAAAATAGTAAAAAAATTTGAA
* *
37180594 TACAGAATAGTAAGAAAATTTGAA
1 TACAAAATAGTAAAAAAATTTGAA
37180618 T
1 T
37180619 TAGAGATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (24 bp):
TACAAAATAGTAAAAAAATTTGAA
Found at i:37183117 original size:6 final size:6
Alignment explanation
Indices: 37183106--37183133 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37183096 ATTGTATGTA
37183106 AACAGG AACAGG AACAGG AACAGG AACA
1 AACAGG AACAGG AACAGG AACAGG AACA
37183134 AAAGGAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.29, T:0.00
Consensus pattern (6 bp):
AACAGG
Found at i:37188599 original size:12 final size:13
Alignment explanation
Indices: 37188582--37188618 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
37188572 TTCTCTGGAG
37188582 TTTTTTTTAAACT
1 TTTTTTTTAAACT
37188595 TTTTTTTTAAA-T
1 TTTTTTTTAAACT
37188607 TTTGTTTTTAAA
1 TTT-TTTTTAAA
37188619 AAAAACTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTTTTTAAACT
Found at i:37194403 original size:20 final size:19
Alignment explanation
Indices: 37194378--37194418 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
37194368 AAATGAAGTT
*
37194378 ATAAATTAATATATATATAA
1 ATAAATAAATATATAT-TAA
*
37194398 ATAAATAAATATTTATTAA
1 ATAAATAAATATATATTAA
37194417 AT
1 AT
37194419 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATAAATATATATTAA
Found at i:37209956 original size:3 final size:3
Alignment explanation
Indices: 37209948--37209972 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37209938 CTATTAAACT
37209948 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
37209973 GAGATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37211445 original size:7 final size:7
Alignment explanation
Indices: 37211435--37211464 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
37211425 CTCAGGGCTA
37211435 AGGCTCC
1 AGGCTCC
37211442 AGGCTCC
1 AGGCTCC
37211449 AGGCTCC
1 AGGCTCC
37211456 AGGCTCC
1 AGGCTCC
37211463 AG
1 AG
37211465 CTGTAAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.30, T:0.13
Consensus pattern (7 bp):
AGGCTCC
Found at i:37212103 original size:2 final size:2
Alignment explanation
Indices: 37212098--37212163 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
37212088 AAATCAGTAC
*
37212098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AN AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37212139 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
37212164 GTAAACTACT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37213348 original size:20 final size:19
Alignment explanation
Indices: 37213318--37213360 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
37213308 TTGGTGCAAG
*
37213318 TAGTTAGAAATTAATTACC
1 TAGTTAGAAATAAATTACC
37213337 TAGTTCAGAAATAAATTACC
1 TAGTT-AGAAATAAATTACC
37213357 TAGT
1 TAGT
37213361 GTTGGGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TAGTTAGAAATAAATTACC
Found at i:37223288 original size:2 final size:2
Alignment explanation
Indices: 37223283--37223331 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
37223273 CTGCACACAC
*
37223283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37223325 -T AT AT AT
1 AT AT AT AT
37223332 TTATNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:37229726 original size:61 final size:61
Alignment explanation
Indices: 37229631--37229859 Score: 341
Period size: 61 Copynumber: 3.8 Consensus size: 61
37229621 AGCTCATGTA
* *
37229631 CATCATCACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTACTTATCACGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
* *
37229692 CATCATTACCGGCATGTGCACTACCCACTCCGCACATGCACGGTTGTAATTATCACGACAT
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
* * * * * *
37229753 CATTATTACCGTCATGTGCATTGCCCACTCCGCACATGTACGATTGTAATTATCATGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
* * *
37229814 CATCATTACGGGCATGTGCACTGCCCACTCCACACATGCACAGTTG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTG
37229860 CATTTGTCAC
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 148 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
Found at i:37229901 original size:2 final size:2
Alignment explanation
Indices: 37229894--37229952 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
37229884 TATGACATAG
37229894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37229936 TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA
37229953 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37238046 original size:2 final size:2
Alignment explanation
Indices: 37238039--37238087 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
37238029 TCNTTACGTG
37238039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37238080 TA TA TA TA
1 TA TA TA TA
37238088 AGCTACTAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37243185 original size:14 final size:15
Alignment explanation
Indices: 37243166--37243196 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37243156 TAATGTTATA
37243166 ATTAAAATAAAA-AT
1 ATTAAAATAAAATAT
37243180 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
37243195 AT
1 AT
37243197 AATATAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:37243296 original size:20 final size:20
Alignment explanation
Indices: 37243271--37243337 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
37243261 AAAAGAAATT
37243271 AAAATAAAATATATAATATA
1 AAAATAAAATATATAATATA
* * *
37243291 AAAATAATAT-TAAAAAAATA
1 AAAATAAAATAT-ATAATATA
37243311 AAAATAAAATATATGACAT-TA
1 AAAATAAAATATAT-A-ATATA
37243332 AAAATA
1 AAAATA
37243338 TATTTAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.03
20 25 0.68
21 10 0.27
22 1 0.03
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (20 bp):
AAAATAAAATATATAATATA
Found at i:37243319 original size:55 final size:54
Alignment explanation
Indices: 37243209--37243319 Score: 118
Period size: 55 Copynumber: 2.0 Consensus size: 54
37243199 TATAAGAATT
* * * * **
37243209 AGAAATTAAAATAAAATAAAATATAAGAAATTTAAATTTATATAATATAGGTAAA
1 AGAAATTAAAATAAAATAAAATATAAGAAA-TTAAATTAAAAAAATAAAAATAAA
37243264 AGAAATTAAAATAAAATATATAATATAA-AAA-TAATATTAAAAAAATAAAAATAAA
1 AGAAATTAAAATAAAATA-A-AATATAAGAAATTAA-ATTAAAAAAATAAAAATAAA
37243319 A
1 A
37243320 TATATGACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
54 3 0.06
55 33 0.70
56 4 0.09
57 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (54 bp):
AGAAATTAAAATAAAATAAAATATAAGAAATTAAATTAAAAAAATAAAAATAAA
Found at i:37243334 original size:41 final size:39
Alignment explanation
Indices: 37243173--37243349 Score: 124
Period size: 40 Copynumber: 4.2 Consensus size: 39
37243163 ATAATTAAAA
* * * *
37243173 TAAAAATATTAAAATAAAATATATAATATAAGAATTAGAAAT
1 TAAAAAAATAAAAATAAAATATATAATATAA-AA--ATATAT
* * * *
37243215 TAAAATAAAATAAAATATAAGAA-ATTTAAATTTATATAATATAGG
1 T-AAA-AAAATAAAA-ATAA-AATATAT-AATATA-AAAATATA-T
*
37243260 TAAAAGAAATTAAAATAAAATATATAATATAAAAATAATAT
1 TAAAA-AAATAAAAATAAAATATATAATATAAAAAT-ATAT
37243301 TAAAAAAATAAAAATAAAATATATGACAT-TAAAAATATAT
1 TAAAAAAATAAAAATAAAATATAT-A-ATATAAAAATATAT
*
37243341 TTAAAAAAT
1 TAAAAAAAT
37243350 GATATTATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 26
0.72 0.10 0.17
Matches are distributed among these distances:
40 30 0.28
41 17 0.16
42 13 0.12
43 11 0.10
44 20 0.19
45 8 0.07
46 8 0.07
47 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
TAAAAAAATAAAAATAAAATATATAATATAAAAATATAT
Found at i:37243576 original size:15 final size:15
Alignment explanation
Indices: 37243542--37243582 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37243532 ATTTTTTCTC
*
37243542 TAATCACATTACTTG
1 TAATCACATTACTTA
*
37243557 CAATCACATTACTTA
1 TAATCACATTACTTA
*
37243572 TAATCATATTA
1 TAATCACATTA
37243583 TATTATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (15 bp):
TAATCACATTACTTA
Found at i:37262558 original size:20 final size:20
Alignment explanation
Indices: 37262533--37262578 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
37262523 TTTTGACCCC
*
37262533 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGAAGTATA
*
37262553 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
37262573 ATTTGA
1 ATTTGA
37262579 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:37262654 original size:28 final size:27
Alignment explanation
Indices: 37262623--37262675 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
37262613 TTTGGAGTAT
*
37262623 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
37262651 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
37262676 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:37262681 original size:28 final size:28
Alignment explanation
Indices: 37262623--37262681 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
37262613 TTTGGAGTAT
* *
37262623 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
37262651 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
37262679 AGG
1 AGG
37262682 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Done.