Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 218 of 427
Found at i:61495494 original size:46 final size:46
Alignment explanation
Indices: 61495436--61495603 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
61495426 TTTGAGCATT
* *
61495436 CGAACTCGTTGAGTTGAGTCAGAGTTCATTTATGGATGCAAACGTC
1 CGAAATCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACGTC
* * * *
61495482 CGAAATCGTTGAGTTGAGTCCGAGTTC-GTTA--GATGTAACTAGGCATC
1 CGAAATCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAA--A--CGTC
** * * * *
61495529 CGAGCTCGTTGACTTGAGTCTGAGTTCACTTATGGATGCGAACGTT
1 CGAAATCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACGTC
*
61495575 C-AAACTCATTGAGTTGAGTCTGAGTTCAT
1 CGAAA-TCGTTGAGTTGAGTCTGAGTTCAT
61495604 GAAATGTAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 49 0.52
47 26 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (46 bp):
CGAAATCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACGTC
Found at i:61495600 original size:93 final size:93
Alignment explanation
Indices: 61495431--61495695 Score: 343
Period size: 93 Copynumber: 2.8 Consensus size: 93
61495421 AGATATTTGA
* * * *
61495431 GCATTCGAACTCGTTGAGTTGAGTCAGAGTTCATTTATGGATGCAAACGTCCGAAA-TCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGTCC-AAACTCATTGAG
* * *
61495495 TTGAGTCCGAGTTCGTTAGATGTAACTAG
65 TTGAGTCTGAGTTCGTGAAATGTAACTAG
* * * *
61495524 GCATCCGAGCTCGTTGACTTGAGTCTGAGTTCACTTATGGATGCGAACGTTCAAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGTCCAAACTCATTGAGT
*
61495589 TGAGTCTGAGTTCATGAAATGTAACTAG
66 TGAGTCTGAGTTCGTGAAATGTAACTAG
* * *** * *
61495617 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATACCCAAGCTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGTCCAAACTCATTGAGT
61495682 TGAGTCTGAGTTCG
66 TGAGTCTGAGTTCG
61495696 CTTATGGGCG
Statistics
Matches: 148, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
92 3 0.02
93 145 0.98
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGTCCAAACTCATTGAGT
TGAGTCTGAGTTCGTGAAATGTAACTAG
Found at i:61495639 original size:47 final size:46
Alignment explanation
Indices: 61495431--61495641 Score: 140
Period size: 46 Copynumber: 4.5 Consensus size: 46
61495421 AGATATTTGA
* * ** * * *
61495431 GCATTCGAACTCGTTGAGTTGAGTCAGAGTTCATTTATGGATGC-AA
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATAAATGTA-ACTAG
* * * * * *
61495477 ACGTCCGAAATCGTTGAGTTGAGTCCGAGTTCGTTAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC-ATAAATGTAACTAG
* * * * * *
61495524 GCATCCGAGCTCGTTGACTTGAGTCTGAGTTCACT-TATGGATGCGA-
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCA-TAAATGTA-ACTAG
* * * * *
61495570 ACGTTCAAACTCATTGAGTTGAGTCTGAGTTCATGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCAT-AAATGTAACTAG
61495617 GCATCCGAACTCGTTGAGTTGAGTC
1 GCATCCGAACTCGTTGAGTTGAGTC
61495642 CGATTTCACT
Statistics
Matches: 120, Mismatches: 38, Indels: 13
0.70 0.22 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.50
47 59 0.49
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATAAATGTAACTAG
Found at i:61497707 original size:3 final size:3
Alignment explanation
Indices: 61497699--61497764 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
61497689 GTATAATAGG
* * * * *
61497699 ATA ATA ATA ATA ACA ATGA A-A ATG ATA ATA GTA ACA ATA ACA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
61497744 ATA CTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
61497765 TCTAAATTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:61497727 original size:21 final size:21
Alignment explanation
Indices: 61497699--61497764 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
61497689 GTATAATAGG
61497699 ATAATAATAATAACAATGAA-A
1 ATAATAATAATAACAAT-AACA
* *
61497720 ATGATAATAGTAACAATAACA
1 ATAATAATAATAACAATAACA
* * *
61497741 ATAATACTAATAATAATAATA
1 ATAATAATAATAACAATAACA
61497762 ATA
1 ATA
61497765 TCTAAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAATAATAATAACAATAACA
Found at i:61497852 original size:27 final size:28
Alignment explanation
Indices: 61497799--61497870 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
61497789 GTAGCAAATA
61497799 AATAAAAG--AATAAAT--AAAAGGCAC
1 AATAAAAGAAAATAAATAAAAAAGGCAC
61497823 AATAAAAGAAAATAAATAAAAAAGGC-C
1 AATAAAAGAAAATAAATAAAAAAGGCAC
* *
61497850 AATTATA-AAAATAAAATAAAA
1 AATAAAAGAAAAT-AAATAAAA
61497871 TAAATATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.20
26 12 0.29
27 14 0.34
28 7 0.17
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (28 bp):
AATAAAAGAAAATAAATAAAAAAGGCAC
Found at i:61499209 original size:19 final size:19
Alignment explanation
Indices: 61499187--61499225 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61499177 ATGGAATTTA
*
61499187 TATT-TTTTGTTTTGGTTTT
1 TATTATTTT-TTTGGGTTTT
61499206 TATTATTTTTTTGGGTTTT
1 TATTATTTTTTTGGGTTTT
61499225 T
1 T
61499226 GGGTTTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (19 bp):
TATTATTTTTTTGGGTTTT
Found at i:61500184 original size:23 final size:22
Alignment explanation
Indices: 61500150--61500235 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 22
61500140 GATGCACCAT
* *
61500150 AGCTCGTAGGAGCTTACTATTTC
1 AGCTCATA-GAGCTTACTAATTC
*
61500173 AGCTCATTGGAGCTTACTAATTC
1 AGCTCA-TAGAGCTTACTAATTC
* *
61500196 AGCTCGAAAGAGCTTACT-GTTC
1 AGCTC-ATAGAGCTTACTAATTC
61500218 AGCTCAATAGAGCTTACT
1 AGCTC-ATAGAGCTTACT
61500236 GTTTATCAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 19 0.36
23 32 0.60
24 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (22 bp):
AGCTCATAGAGCTTACTAATTC
Found at i:61500221 original size:22 final size:22
Alignment explanation
Indices: 61500159--61500238 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 22
61500149 TAGCTCGTAG
* * *
61500159 GAGCTTACTATTTCAGCTCATTG
1 GAGCTTACT-GTTCAGCTCAATA
*
61500182 GAGCTTACTAATTCAGCTCGAA-A
1 GAGCTTACT-GTTCAGCTC-AATA
61500205 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
61500227 GAGCTTACTGTT
1 GAGCTTACTGTT
61500239 TATCAGCTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
21 2 0.04
22 21 0.41
23 27 0.53
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:61505200 original size:19 final size:19
Alignment explanation
Indices: 61505176--61505213 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
61505166 GAAATGAATA
61505176 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
61505195 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
61505214 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:61506061 original size:19 final size:20
Alignment explanation
Indices: 61506028--61506067 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
61506018 ATATATATAT
61506028 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
61506047 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
61506067 A
1 A
61506068 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:61506692 original size:44 final size:44
Alignment explanation
Indices: 61506626--61507740 Score: 1552
Period size: 44 Copynumber: 25.6 Consensus size: 44
61506616 CCCCGTCTAA
*
61506626 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61506670 TACAGATACACCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
61506714 TACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * **
61506758 TATAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTTCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
61506802 TACAAAGATGCCAAATC----ATCTTCTATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61506842 TACAGAGACGCCAAATATGTTATCTTTGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
61506886 TACAGAGACGCAAAATCTGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61506930 TACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
61506974 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507018 TACAAAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507062 TACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
61507106 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
61507150 TACAGAGACACCAAATTTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507194 TACAAAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507238 TATAGAGACGCCAAATCTGTTATCTTCGATTTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507282 TACAGAAATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
61507326 TACAAAGATGCCAAATC----ATCTTCGATCTACTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * *
61507366 TACAAAGACACCAAATTTGTTATCTTTGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
61507410 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
61507454 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
61507498 TACAGAGACGCCAAATCTGCTATCTTCGGTCTACTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
61507542 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
61507586 TATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
61507630 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
61507674 TACAGAGATGCCAAATC----ATCTTCGATCTGCTTTCCCCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
61507714 TACAGAGATGCCAAATCTGTTATCTTC
1 TACAGAGACGCCAAATCTGTTATCTTC
61507741 AGCTTGTTGC
Statistics
Matches: 947, Mismatches: 112, Indels: 24
0.87 0.10 0.02
Matches are distributed among these distances:
40 105 0.11
44 842 0.89
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:61507962 original size:61 final size:65
Alignment explanation
Indices: 61507848--61507966 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 65
61507838 GTATCCATGC
61507848 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGAT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGAT
* *
61507913 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
61507967 AATGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 29 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGAT
Found at i:61519818 original size:19 final size:19
Alignment explanation
Indices: 61519794--61519831 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61519784 GAAATGAATA
*
61519794 ATTTCAGGTAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
61519813 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
61519832 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:61520737 original size:5 final size:5
Alignment explanation
Indices: 61520718--61520751 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
61520708 ATATTAATAT
*
61520718 ATAAA AT-AA AGAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
61520752 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:61521025 original size:17 final size:16
Alignment explanation
Indices: 61521003--61521047 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
61520993 GAGGTTAGGT
61521003 TTTTTTCATTTTCTTCA
1 TTTTTT-ATTTTCTTCA
* *
61521020 TTTTTTTATTTTTTTTA
1 -TTTTTTATTTTCTTCA
61521037 TTTTTTATTTT
1 TTTTTTATTTT
61521048 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTATTTTCTTCA
Found at i:61521032 original size:9 final size:9
Alignment explanation
Indices: 61521002--61521042 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
61520992 AGAGGTTAGG
61521002 TTTTTTTCA
1 TTTTTTTCA
*
61521011 TTTTCTTCA
1 TTTTTTTCA
61521020 TTTTTTT-A
1 TTTTTTTCA
*
61521028 TTTTTTTTA
1 TTTTTTTCA
61521037 TTTTTT
1 TTTTTT
61521043 ATTTTGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:61525443 original size:40 final size:40
Alignment explanation
Indices: 61525412--61525629 Score: 395
Period size: 40 Copynumber: 5.5 Consensus size: 40
61525402 CGCTCGAATA
*
61525412 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
61525452 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
61525492 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
61525532 CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
61525572 CCTTC-GGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
61525611 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61525630 TTATCATCCA
Statistics
Matches: 173, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
39 39 0.23
40 134 0.77
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:61527806 original size:16 final size:16
Alignment explanation
Indices: 61527785--61527818 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
61527775 AACTCCTCAG
61527785 CTCCATGTTTGCATAT
1 CTCCATGTTTGCATAT
61527801 CTCCATGTTTGCATAT
1 CTCCATGTTTGCATAT
61527817 CT
1 CT
61527819 TATCCTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (16 bp):
CTCCATGTTTGCATAT
Found at i:61530456 original size:27 final size:28
Alignment explanation
Indices: 61530425--61530492 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 28
61530415 AGTGATTCCA
61530425 CACACTTAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
61530452 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
61530480 CACACTTAGTGCT
1 CACACTTAGTGCT
61530493 GTACCAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:61539183 original size:40 final size:40
Alignment explanation
Indices: 61539137--61539380 Score: 409
Period size: 40 Copynumber: 6.1 Consensus size: 40
61539127 ACTAAGATCT
* *
61539137 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
*
61539177 GAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
*
61539217 GAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
*
61539257 GAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
61539297 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* * *
61539337 AAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
61539376 GAAGG
1 GAAGG
61539381 TACTTGGGTT
Statistics
Matches: 194, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 14 0.07
40 180 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
Found at i:61541735 original size:58 final size:57
Alignment explanation
Indices: 61541594--61541738 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 57
61541584 ACATATCATA
* * * * *
61541594 TAAT-AGGATTACTTGTCCAAGCTAAATCTTGTTTCCAACATATGCTCATAAGAGCT
1 TAATCAGGATTACCTGTCCAAGCTAAATCCTATCTACAACATATGCTCATAAGAGCT
* * * *
61541650 TAATCAGGATTACCCGTCCAGGCTAAATCCTATCTATAACATATGCTCA-AGAGGGCT
1 TAATCAGGATTACCTGTCCAAGCTAAATCCTATCTACAACATATGCTCATA-AGAGCT
61541707 TATATCAGGATTACCTGTCCAAGCTAAATCCT
1 TA-ATCAGGATTACCTGTCCAAGCTAAATCCT
61541739 TTCTGTAATG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
56 5 0.07
57 43 0.57
58 27 0.36
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (57 bp):
TAATCAGGATTACCTGTCCAAGCTAAATCCTATCTACAACATATGCTCATAAGAGCT
Found at i:61543578 original size:37 final size:37
Alignment explanation
Indices: 61543433--61543589 Score: 156
Period size: 37 Copynumber: 4.3 Consensus size: 37
61543423 AGACGTACAA
* * * *
61543433 ACTATCTA-TTGGCAATGTAAAATACGAGAAATGCTT
1 ACTATCTATTTGGCGATATAAAATACAAGAAATGCGT
* * *
61543469 ACTATCCATTTGACGATATAAAATACAAGAAATGCAT
1 ACTATCTATTTGGCGATATAAAATACAAGAAATGCGT
* * *
61543506 ACAATCTATTTGGCGATATAAAACGA-AAAAAATGCGT
1 ACTATCTATTTGGCGATATAAAA-TACAAGAAATGCGT
* * *
61543543 ACTATCTATTGGGCGATACAAAATATAAGAAATGCGT
1 ACTATCTATTTGGCGATATAAAATACAAGAAATGCGT
* *
61543580 AATGTCTATT
1 ACTATCTATT
61543590 AAGATGTGAG
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
36 8 0.08
37 90 0.91
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (37 bp):
ACTATCTATTTGGCGATATAAAATACAAGAAATGCGT
Found at i:61543913 original size:58 final size:58
Alignment explanation
Indices: 61543843--61543957 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 58
61543833 GAAGGGCTCC
*
61543843 AAGGGGCCTGAATACCAAAGATATGCCTCATCTCTAT-T-GAAAGCCCAAGGGGTTCACA
1 AAGGGGCCTGAATACCAAAGATATGCCTCA-C-CTATGTCGAAAGCCCAAAGGGTTCACA
* **** *
61543901 AAGGGGCTTGAATGTTGAATATATGCCTCACCTATGTCGAAAGCCCAAAGGGTTCAC
1 AAGGGGCCTGAATACCAAAGATATGCCTCACCTATGTCGAAAGCCCAAAGGGTTCAC
61543958 CAGGGTGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
56 4 0.08
57 2 0.04
58 42 0.88
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (58 bp):
AAGGGGCCTGAATACCAAAGATATGCCTCACCTATGTCGAAAGCCCAAAGGGTTCACA
Found at i:61546227 original size:27 final size:27
Alignment explanation
Indices: 61546188--61546239 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
61546178 ACGCTCTAAA
*
61546188 GCAATCCAGTTAGAGTATGCTACAAGG
1 GCAATCCAGTTAGAGTATGCCACAAGG
* *
61546215 GCAATTCATTTAGAGTATGCCACAA
1 GCAATCCAGTTAGAGTATGCCACAA
61546240 AGGCTGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GCAATCCAGTTAGAGTATGCCACAAGG
Found at i:61553488 original size:39 final size:40
Alignment explanation
Indices: 61553271--61553605 Score: 502
Period size: 40 Copynumber: 8.5 Consensus size: 40
61553261 TGGATGATAA
* * *
61553271 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
61553311 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61553351 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61553391 CCAGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61553431 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61553471 -CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61553510 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
61553549 CCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61553588 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61553606 TACTTGGCTT
Statistics
Matches: 274, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
38 15 0.05
39 90 0.33
40 169 0.62
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61561481 original size:40 final size:40
Alignment explanation
Indices: 61561426--61561642 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
61561416 TGGATGATAA
* * *
61561426 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
61561466 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61561506 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61561546 CC-GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
61561585 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61561625 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61561643 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 54 0.33
40 109 0.67
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61561578 original size:79 final size:79
Alignment explanation
Indices: 61561426--61561642 Score: 303
Period size: 79 Copynumber: 2.7 Consensus size: 79
61561416 TGGATGATAA
* * * *
61561426 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTA-TATCC-GGCTAAGTCCCGAAGGCATTG
61561490 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* *
61561506 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGT
61561571 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* * * *
61561585 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATATCCGGCTAAGTCCCGAAGG
61561643 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.02
79 86 0.69
80 37 0.30
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATAT
Found at i:61563466 original size:47 final size:48
Alignment explanation
Indices: 61563390--61563521 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 48
61563380 CTCAATCGAT
* *
61563390 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATC-TCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTTCG
* * * *
61563437 AAGTACCTATACTATGGCCCGTAGTCAAATCAAGGTAACTCCTCTTTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTTCG
* *
61563485 AAATACCTATACCATGGCCCGTAGCCAAATAAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
61563522 TCATTCCCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 39 0.53
48 35 0.47
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTTCG
Found at i:61572229 original size:24 final size:24
Alignment explanation
Indices: 61572197--61572244 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61572187 ATTGAAGGAT
61572197 TGCTTAGCTTCCCCATCACGGCTA
1 TGCTTAGCTTCCCCATCACGGCTA
61572221 TGCTTAGCTTCCCCATCACGGCTA
1 TGCTTAGCTTCCCCATCACGGCTA
61572245 CCCATAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.38, G:0.17, T:0.29
Consensus pattern (24 bp):
TGCTTAGCTTCCCCATCACGGCTA
Found at i:61572252 original size:24 final size:24
Alignment explanation
Indices: 61572201--61572252 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61572191 AAGGATTGCT
** *
61572201 TAGCTTCCCCATCACGGCTATGCT
1 TAGCTTCCCCATCACGGCTACCCA
61572225 TAGCTTCCCCATCACGGCTACCCA
1 TAGCTTCCCCATCACGGCTACCCA
61572249 TAGC
1 TAGC
61572253 AGATCAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.15, T:0.25
Consensus pattern (24 bp):
TAGCTTCCCCATCACGGCTACCCA
Found at i:61579981 original size:21 final size:21
Alignment explanation
Indices: 61579957--61580003 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
61579947 CAAAAAATGC
61579957 ATTACTAATATA-AAAATATAT
1 ATTA-TAATATATAAAATATAT
* *
61579978 ATTATATTATATATAATATAT
1 ATTATAATATATAAAATATAT
61579999 ATTAT
1 ATTAT
61580004 TTTTTGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATAATATATAAAATATAT
Found at i:61591908 original size:27 final size:28
Alignment explanation
Indices: 61591859--61591916 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
61591849 TTAAGATATC
*
61591859 ATATATATTGAATATATGAATATCATGT
1 ATATATATTGAATAAATGAATATCATGT
61591887 ATATAT-TTGAATAAATTG-ATATCATGT
1 ATATATATTGAATAAA-TGAATATCATGT
61591914 ATA
1 ATA
61591917 AATGCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (28 bp):
ATATATATTGAATAAATGAATATCATGT
Found at i:61592365 original size:2 final size:2
Alignment explanation
Indices: 61592360--61592394 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
61592350 TTTTTTCAGT
61592360 TA TA TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
61592395 AATACACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:61593311 original size:14 final size:16
Alignment explanation
Indices: 61593286--61593327 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
61593276 TTTTATGTTT
*
61593286 TATATATATTTTA-TG
1 TATATTTATTTTATTG
61593301 T-TATTTATTTTATTG
1 TATATTTATTTTATTG
*
61593316 TATTTTTATTTT
1 TATATTTATTTT
61593328 TGGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (16 bp):
TATATTTATTTTATTG
Found at i:61596384 original size:48 final size:47
Alignment explanation
Indices: 61596282--61596649 Score: 236
Period size: 48 Copynumber: 7.8 Consensus size: 47
61596272 TTGGATGTGT
* * ** *
61596282 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CATTATGAGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGG-CATTAAGATGAGA
* *
61596328 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGCATTAAGATGAGA
* * *
61596376 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCTAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAT-TA-AGATG-AGA
** * * *
61596424 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAAC-TTGACATGTG-
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGAGA
* ** *
61596469 TC-AGTGTAAGACCTGTCTGGGACATGG-ATCTAAACCAATAA-ATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATC---GGCATTAAGATGAGA
* * * * * * *
61596516 GTTAGTGTAAGACCTATCTAGGACATGTCATCGGCATCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAT-TA-AGATGAGA
* * *
61596565 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-TTAGACATGTGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTA-AGATGAGA
* * * * *
61596612 GCCAATGTAAGACCACGTTTGGAACATGGCATCGGCAT
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGCAT
61596650 CGTACCATAT
Statistics
Matches: 252, Mismatches: 48, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.01
44 25 0.10
45 1 0.00
46 33 0.13
47 49 0.19
48 96 0.38
49 45 0.18
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGAGA
Found at i:61596590 original size:141 final size:141
Alignment explanation
Indices: 61596330--61596644 Score: 370
Period size: 141 Copynumber: 2.2 Consensus size: 141
61596320 TTATGAGTGC
** * *
61596330 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCACCAATAAGACGAGAGCTAGTGTAAGACATATCT
* * * *
61596395 GGGACATGCATCGGCCTCTAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACT
66 AGGACATGCATCGGCATCGAGATATGAAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACT
61596460 T-GACATGTGT
131 TAGACATGTGT
* * *
61596470 CAGTGTAAGACC-TGTCTGGGACATGG-ATCTAAACCAATAA-ATGAGAGTTAGTGTAAGACCTA
1 CAGTGTAAGACCATGTCTGGGACATGGCATC---ACCAATAAGACGAGAGCTAGTGTAAGACATA
*
61596532 TCTAGGACATGTCATCGGCATCGATATATGAAAG-TCAGTGTAAGACCTGTCTGGGACATGGCAT
63 TCTAGGACATG-CATCGGCATCGAGATATGAAAGCT-AGTGTAAGACCTGTCTGGGACATGGCAT
* *
61596596 CGACTTAGACATGTGAGC
126 CAACTTAGACATGT--GT
* * * *
61596614 CAATGTAAGACCACGTTTGGAACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
61596645 GGCATCGTAC
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
138 3 0.02
139 14 0.10
140 41 0.28
141 56 0.38
142 7 0.05
144 12 0.08
145 11 0.07
146 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (141 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCACCAATAAGACGAGAGCTAGTGTAAGACATATCT
AGGACATGCATCGGCATCGAGATATGAAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACT
TAGACATGTGT
Found at i:61608294 original size:48 final size:49
Alignment explanation
Indices: 61608242--61608415 Score: 171
Period size: 48 Copynumber: 3.6 Consensus size: 49
61608232 TATGAGTGCC
*
61608242 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGA-G-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGA-GATGAAGCT
* * * *
61608290 AGTGTAAGA-CATGTCTAGGACAT-GTATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAGATG-AAGCT
* * * * * **
61608338 AGTGTAAGACC-TGTCTGGGACATGGCATCAGCCTCGATATATGAAATT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAGATGAAGCT
*
61608386 AGTGTAAGACC-TGCCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
61608416 ACTTAGACAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 13 0.12
47 13 0.12
48 64 0.60
49 16 0.15
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAGATGAAGCT
Found at i:61614213 original size:13 final size:13
Alignment explanation
Indices: 61614195--61614234 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
61614185 CATGCAAATT
61614195 AAGAAAGAAAAGA
1 AAGAAAGAAAAGA
61614208 AAGAAAGAAAAGA
1 AAGAAAGAAAAGA
**
61614221 AAGGGAGAAAAGA
1 AAGAAAGAAAAGA
61614234 A
1 A
61614235 GTCACGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAGA
Found at i:61617563 original size:2 final size:2
Alignment explanation
Indices: 61617556--61617580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61617546 TCAATGGATA
61617556 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
61617581 AGACACGAGA
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:61619557 original size:24 final size:24
Alignment explanation
Indices: 61619530--61619764 Score: 425
Period size: 24 Copynumber: 9.8 Consensus size: 24
61619520 GCTGGAAATA
*
61619530 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
61619554 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61619578 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61619602 TATGGCACTATGTGTGAGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61619626 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
61619650 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61619674 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61619698 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
61619722 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
61619746 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
61619765 ACATAATAAG
Statistics
Matches: 204, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 204 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:61627432 original size:24 final size:24
Alignment explanation
Indices: 61627405--61627615 Score: 377
Period size: 24 Copynumber: 8.8 Consensus size: 24
61627395 GCTGGAAATA
*
61627405 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
61627429 TATGGCACTATGTGTGCAATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61627453 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61627477 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
61627501 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61627525 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61627549 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
61627573 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
61627597 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
61627616 ACATAATAAG
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 180 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:61629369 original size:30 final size:30
Alignment explanation
Indices: 61629328--61629395 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
61629318 ACATGGATAG
* *
61629328 ACACACAGGTATATGTCTAGGCTGTGTGTA
1 ACACACGGGTATATGTCTAGGCCGTGTGTA
* *
61629358 ACACACGGGTATGTGTCTAGGCCGTGTGTG
1 ACACACGGGTATATGTCTAGGCCGTGTGTA
61629388 ACACACGG
1 ACACACGG
61629396 TGTAACACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (30 bp):
ACACACGGGTATATGTCTAGGCCGTGTGTA
Found at i:61631011 original size:24 final size:24
Alignment explanation
Indices: 61630984--61631031 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61630974 TATGATGCAT
*
61630984 TGCATCGGGGTAGGTTTGATGAAG
1 TGCATCGGGGTAGGTTTAATGAAG
61631008 TGCATCGGGGTAGGTTTAATGAAG
1 TGCATCGGGGTAGGTTTAATGAAG
61631032 AGAATGGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.40, T:0.29
Consensus pattern (24 bp):
TGCATCGGGGTAGGTTTAATGAAG
Found at i:61633933 original size:13 final size:13
Alignment explanation
Indices: 61633915--61633945 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
61633905 CAGAGAAGCT
61633915 TGTGAAGAAGGGA
1 TGTGAAGAAGGGA
61633928 TGTGAAGAAGGGA
1 TGTGAAGAAGGGA
61633941 TGTGA
1 TGTGA
61633946 GGCACACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.45, T:0.19
Consensus pattern (13 bp):
TGTGAAGAAGGGA
Found at i:61638379 original size:45 final size:46
Alignment explanation
Indices: 61638278--61638450 Score: 198
Period size: 45 Copynumber: 3.9 Consensus size: 46
61638268 TTTTCTCAAA
* * * * *
61638278 TCACCGGCATT-TCGCCTGCTAGGATCG--AGGCCAGATTA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGT-ATC
*
61638321 TCATCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
* * *
61638366 TCACCGGCATTATAGCCTGCTAAGC-CCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
*
61638411 TCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATA
61638451 TAATACCAGC
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
43 10 0.09
44 18 0.16
45 81 0.72
46 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAGTATC
Found at i:61638491 original size:38 final size:38
Alignment explanation
Indices: 61638443--61638716 Score: 352
Period size: 38 Copynumber: 7.2 Consensus size: 38
61638433 GGCTCAAAGG
* * *
61638443 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
61638481 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
61638519 CCCGGATATATTACCAGCGCGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
61638557 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * * *
61638595 CCTGGATATATTACCAGCACGAAACCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
61638633 CCCGGATATATTACTAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * **
61638671 CCCGGATATAATTCCAGCA-TATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAA
*
61638709 GCCGGATA
1 CCCGGATA
61638717 CAAATATCAT
Statistics
Matches: 205, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
37 1 0.00
38 204 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:61639094 original size:43 final size:44
Alignment explanation
Indices: 61638986--61639121 Score: 186
Period size: 43 Copynumber: 3.1 Consensus size: 44
61638976 ATATAACATT
*
61638986 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
61639032 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
61639074 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
61639118 TCAT
1 TCAT
61639122 ATTTCGATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.44
44 11 0.14
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:61643722 original size:39 final size:39
Alignment explanation
Indices: 61643668--61643891 Score: 349
Period size: 39 Copynumber: 5.7 Consensus size: 39
61643658 TGTGTGAGAT
* *
61643668 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
61643707 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
61643746 TTTTATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
61643785 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
61643824 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGTTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
61643863 TTATATCTGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
61643892 TGGGTTGGAA
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 170 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:61651986 original size:24 final size:24
Alignment explanation
Indices: 61651742--61651984 Score: 441
Period size: 24 Copynumber: 10.1 Consensus size: 24
61651732 GCAAAGACCA
61651742 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61651766 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61651790 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61651814 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
61651838 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
61651862 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
61651886 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61651910 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61651934 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
61651958 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
61651982 TAT
1 TAT
61651985 AGTCACATTC
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 215 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:61659996 original size:24 final size:24
Alignment explanation
Indices: 61659752--61659994 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
61659742 GCAAAGACCA
61659752 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61659776 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61659800 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61659824 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
61659848 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
61659872 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
61659896 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
61659920 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
61659944 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
61659968 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
61659992 TAT
1 TAT
61659995 AGTCACATTC
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 215 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:61668419 original size:42 final size:42
Alignment explanation
Indices: 61668373--61668460 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
61668363 CAATATGTAC
*
61668373 GAAGGGGTTACATTCAAATACTATAGTTTCAGATTGCATATT
1 GAAGGGGTTACATTCAAATACCATAGTTTCAGATTGCATATT
61668415 GAAGGGGTTACATTCAAATACCATAGTTTCAGATTGCATATT
1 GAAGGGGTTACATTCAAATACCATAGTTTCAGATTGCATATT
61668457 GAAG
1 GAAG
61668461 TGTGTTTGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (42 bp):
GAAGGGGTTACATTCAAATACCATAGTTTCAGATTGCATATT
Found at i:61673558 original size:11 final size:11
Alignment explanation
Indices: 61673544--61673593 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
61673534 TTTCAATATT
61673544 CTCTCAAATTC
1 CTCTCAAATTC
61673555 CTCTCAAA-T-
1 CTCTCAAATTC
*
61673564 CTCTCAAATTT
1 CTCTCAAATTC
*
61673575 CTCTTAAATTC
1 CTCTCAAATTC
61673586 CTCTCAAA
1 CTCTCAAA
61673594 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:61673568 original size:20 final size:21
Alignment explanation
Indices: 61673536--61673593 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
61673526 CTTCAATCTT
61673536 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
61673558 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
61673578 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
61673594 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:61674771 original size:7 final size:7
Alignment explanation
Indices: 61674759--61674791 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
61674749 AGTGGATTCA
61674759 TATTTAG
1 TATTTAG
61674766 TATTTAG
1 TATTTAG
61674773 TATTTAG
1 TATTTAG
61674780 TATTTAG
1 TATTTAG
61674787 TATTT
1 TATTT
61674792 TTTATTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (7 bp):
TATTTAG
Found at i:61675434 original size:18 final size:18
Alignment explanation
Indices: 61675408--61675450 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
61675398 TGTCAGGTAC
*
61675408 GTATTCTAGCCCTTT-TAT
1 GTATCCTAG-CCTTTATAT
61675426 GTATCCTAGCCTTTATAT
1 GTATCCTAGCCTTTATAT
*
61675444 GTTTCCT
1 GTATCCT
61675451 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.16, C:0.23, G:0.12, T:0.49
Consensus pattern (18 bp):
GTATCCTAGCCTTTATAT
Found at i:61676390 original size:49 final size:49
Alignment explanation
Indices: 61676337--61676506 Score: 128
Period size: 54 Copynumber: 3.1 Consensus size: 49
61676327 ATGTGATAAT
61676337 ATAAAAGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTA
1 ATAAAAGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTA
* * *
61676386 ATAAAATGAAAATTATTTTAAATAAAGCAATATTTTGAATATT--TTTATATTATTTCATGTGAT
1 ATAAAA-G----TTGTTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TA-TT--T-T--T
61676449 AA
49 -A
61676451 TATAAAAGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTA
1 -ATAAAAGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTA
61676501 ATAAAA
1 ATAAAA
61676507 TGAAAATTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 42
0.66 0.04 0.30
Matches are distributed among these distances:
49 12 0.13
50 2 0.02
51 1 0.01
53 1 0.01
54 15 0.16
55 1 0.01
56 9 0.10
57 9 0.10
58 9 0.10
59 9 0.10
60 1 0.01
61 15 0.16
62 1 0.01
64 1 0.01
65 2 0.02
66 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (49 bp):
ATAAAAGTTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTA
Found at i:61676430 original size:115 final size:116
Alignment explanation
Indices: 61675835--61676563 Score: 1255
Period size: 116 Copynumber: 6.3 Consensus size: 116
61675825 TATTTGTACA
*
61675835 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
61675900 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATCTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
61675951 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
61676016 TATAATTTATTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
61676067 AATATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTCTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
61676132 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
61676183 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
61676248 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
61676299 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAA-GTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
61676363 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
61676414 AATATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAA-GTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* **
61676478 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAAC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
61676529 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
61676564 AAAATATAAA
Statistics
Matches: 594, Mismatches: 19, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
115 215 0.36
116 379 0.64
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:61680117 original size:126 final size:126
Alignment explanation
Indices: 61679571--61680109 Score: 819
Period size: 126 Copynumber: 4.3 Consensus size: 126
61679561 GCCCAAGTTA
* *
61679571 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* ** *
61679636 TGCATCCTACTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
61679697 TTTCAGAGACCACTGTAGCAAAAGAGCATCCAAGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
61679762 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTTTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
61679823 TTTCAGAGACTATTATAGAAAAAGAGCATCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * *
61679888 TGCATCCTGCTTGAAGCATTTTTTACACTATTTGCACAGACACGTCTTCTAAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
61679949 TTTCAGATACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGATAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
61680014 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
61680075 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
61680110 AGAAGCTTTT
Statistics
Matches: 374, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 1 0.00
126 372 0.99
127 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:61680374 original size:96 final size:98
Alignment explanation
Indices: 61680226--61680402 Score: 245
Period size: 96 Copynumber: 1.8 Consensus size: 98
61680216 CCTAAAATCC
* ** *
61680226 TAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTG
1 TAATCTAA-TTTTTTTAAAATTTATAATTAATTTAATCAACAAACCCTAAACCCTAATTTATTTA
61680291 A-TTTTTTCCTTAAAAACCATAAACACTAAACCA
65 ATTTTTTTCCTTAAAAACCATAAACACTAAACCA
* *
61680324 TAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACAAACACC-AAACCTTAATTTATTT
1 TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACAAAC-CCTAAACCCTAATTTATTT
61680386 AATTTTTTTCCTTAAAA
64 AATTTTTTTCCTTAAAA
61680403 CCCTAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
95 3 0.04
96 43 0.61
97 16 0.23
98 8 0.11
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (98 bp):
TAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAACCCTAAACCCTAATTTATTTAA
TTTTTTTCCTTAAAAACCATAAACACTAAACCA
Found at i:61680420 original size:16 final size:17
Alignment explanation
Indices: 61680399--61680440 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
61680389 TTTTTTCCTT
61680399 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
61680415 AAAA-CCTAAAATTCTC
1 AAAACCCTAAAATTCTA
61680431 AAAACCCTAA
1 AAAACCCTAA
61680441 CCTTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:61684251 original size:43 final size:43
Alignment explanation
Indices: 61684198--61684382 Score: 262
Period size: 43 Copynumber: 4.3 Consensus size: 43
61684188 TTTTCGAAAA
* * **
61684198 AAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
* *
61684241 AAACGCCGCTAAAGACCATGACCTTTAGAGGCACTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
* **
61684284 AAACGCTGCTAAAGACCATGACCTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
* * *
61684327 AAACGCTGCTAAAGATCATGACCTTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
61684370 AAACGCCGCTAAA
1 AAACGCCGCTAAA
61684383 AATAATGATC
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 128 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
Found at i:61684733 original size:17 final size:18
Alignment explanation
Indices: 61684706--61684739 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61684696 ATGCCAAAAT
61684706 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
61684724 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
61684740 CCCACAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:61688958 original size:18 final size:19
Alignment explanation
Indices: 61688935--61688981 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
61688925 CTTAGGGATT
* *
61688935 TTAGGGGAAATTTAG-GGA
1 TTAGGGGAAATGTAGAGAA
61688953 TTAGGGGAAATGTAGAGAA
1 TTAGGGGAAATGTAGAGAA
61688972 TT-GGGGAAAT
1 TTAGGGGAAAT
61688982 CAATTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (19 bp):
TTAGGGGAAATGTAGAGAA
Found at i:61689267 original size:74 final size:74
Alignment explanation
Indices: 61689111--61689328 Score: 351
Period size: 74 Copynumber: 3.0 Consensus size: 74
61689101 TGTCGTTTTC
*
61689111 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGTGTTTTTT-AAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
61689176 A-----T-T-
65 ATTTGTTATA
*
61689179 ATAGTGTTTTTTGTGGTGTTTTTTAAAAAACGCCACTAATCTTTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGTGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
61689244 TTTGTTATA
66 TTTGTTATA
*
61689253 ATAGTGTTTTTTGTGGTGTTTTTTTAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGTGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
61689318 TTTGTTATA
66 TTTGTTATA
61689327 AT
1 AT
61689329 TTGGAAGCCA
Statistics
Matches: 139, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
67 40 0.29
68 23 0.17
72 1 0.01
73 1 0.01
74 74 0.53
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.54
Consensus pattern (74 bp):
ATAGTGTTTTTTGTGGTGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
TTTGTTATA
Found at i:61689557 original size:14 final size:14
Alignment explanation
Indices: 61689537--61689571 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
61689527 TAACCTTTAC
*
61689537 CCCTAAATCTTAAA
1 CCCTAAATCCTAAA
*
61689551 TCCTAAATCCTAAA
1 CCCTAAATCCTAAA
61689565 CCCTAAA
1 CCCTAAA
61689572 CTCATAACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAAATCCTAAA
Found at i:61689618 original size:15 final size:15
Alignment explanation
Indices: 61689598--61689647 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
61689588 CATATCCCTT
61689598 AACCCTTAAAACCTA
1 AACCCTTAAAACCTA
* *
61689613 AACCCTTAACACAT-
1 AACCCTTAAAACCTA
*
61689627 AACCCAT-AAACCTTA
1 AACCCTTAAAACC-TA
61689642 AACCCT
1 AACCCT
61689648 AACACATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 17 0.63
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (15 bp):
AACCCTTAAAACCTA
Found at i:61689641 original size:43 final size:44
Alignment explanation
Indices: 61689561--61689647 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 44
61689551 TCCTAAATCC
* * * * **
61689561 TAAACCCTAAACTCATAACCCATATCCCATATCCCTT-AACCCT
1 TAAAACCTAAACCCATAACACATAACCCATAAACCTTAAACCCT
*
61689604 TAAAACCTAAACCCTTAACACATAACCCATAAACCTTAAACCCT
1 TAAAACCTAAACCCATAACACATAACCCATAAACCTTAAACCCT
61689648 AACACATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 30 0.83
44 6 0.17
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (44 bp):
TAAAACCTAAACCCATAACACATAACCCATAAACCTTAAACCCT
Found at i:61689650 original size:21 final size:21
Alignment explanation
Indices: 61689626--61689666 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61689616 CCTTAACACA
* *
61689626 TAACCCATAAACCTTAAACCC
1 TAACACATAAACCATAAACCC
*
61689647 TAACACATAATCCATAAACC
1 TAACACATAAACCATAAACC
61689667 TTAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACACATAAACCATAAACCC
Found at i:61689650 original size:28 final size:29
Alignment explanation
Indices: 61689597--61689695 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
61689587 CCATATCCCT
*
61689597 TAACCCTTAAAACC-TAAACCCTTAACACA
1 TAACCCAT-AAACCTTAAACCCTTAACACA
61689626 TAACCCATAAACCTTAAACCC-TAACACA
1 TAACCCATAAACCTTAAACCCTTAACACA
* *** *
61689654 TAATCCATAAACCTTAAAATATTAACTCA
1 TAACCCATAAACCTTAAACCCTTAACACA
*
61689683 TAAACCATAAACC
1 TAACCCATAAACC
61689696 CCTAACCCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 29 0.48
29 32 0.52
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
TAACCCATAAACCTTAAACCCTTAACACA
Found at i:61689721 original size:22 final size:22
Alignment explanation
Indices: 61689696--61689759 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
61689686 ACCATAAACC
61689696 CCTAACCCATATCCCCTTAACG
1 CCTAACCCATATCCCCTTAACG
*
61689718 CCTAACCCTTATCCCCTTAACG
1 CCTAACCCATATCCCCTTAACG
* *
61689740 CCTAACCCCTATCCTCTTAA
1 CCTAACCCATATCCCCTTAA
61689760 AACTTGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.45, G:0.03, T:0.27
Consensus pattern (22 bp):
CCTAACCCATATCCCCTTAACG
Found at i:61689932 original size:21 final size:20
Alignment explanation
Indices: 61689887--61689950 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
61689877 CTAAACTCTA
* *
61689887 AACCCTTAACCCTTAACCCCA
1 AACCCTTAA-CCTTAAACCCT
*
61689908 AACCCTTACACCTTAAACTCT
1 AACCCTTA-ACCTTAAACCCT
61689929 AACCC-TAACCATTAAACCCT
1 AACCCTTAACC-TTAAACCCT
61689949 AA
1 AA
61689951 TTAATCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.08
20 12 0.32
21 21 0.57
22 1 0.03
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAACCTTAAACCCT
Found at i:61690021 original size:7 final size:7
Alignment explanation
Indices: 61690009--61690106 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
61689999 AGTTAACTCC
*
61690009 TAAACCT
1 TAAACCA
*
61690016 TAAACCC
1 TAAACCA
61690023 TAAACCA
1 TAAACCA
* * *
61690030 TATATCT
1 TAAACCA
61690037 TAAACCA
1 TAAACCA
61690044 TAGTTAACTCA
1 TA---AAC-CA
*
61690055 TAAACCT
1 TAAACCA
*
61690062 TAAACCC
1 TAAACCA
61690069 TAAACCA
1 TAAACCA
* * *
61690076 TATATCT
1 TAAACCA
61690083 TAAACCA
1 TAAACCA
61690090 TAAACCA
1 TAAACCA
*
61690097 TAAACTA
1 TAAACCA
61690104 TAA
1 TAA
61690107 TGATAATTAA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCA
Found at i:61690040 original size:21 final size:21
Alignment explanation
Indices: 61690014--61690098 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
61690004 ACTCCTAAAC
*
61690014 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
61690035 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
61690060 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
61690081 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
61690099 AACTATAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:61690051 original size:46 final size:46
Alignment explanation
Indices: 61689998--61690091 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
61689988 CTTCAAATAC
*
61689998 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
61690044 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
61690090 TA
1 TA
61690092 AACCATAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:61690063 original size:25 final size:25
Alignment explanation
Indices: 61689935--61690067 Score: 82
Period size: 25 Copynumber: 5.4 Consensus size: 25
61689925 CTCTAACCCT
*
61689935 AACCATTAAACCCTAATTAA-TCATA
1 AACC-TTAAACCATAATTAACTCATA
* * *
61689960 ATCCCTAAACCCATAATTCA-TCATA
1 AACCTTAAA-CCATAATTAACTCATA
* * *
61689985 AACCTTCAAA-TACTAGTTAACTCCTA
1 AACCTT-AAACCA-TAATTAACTCATA
*
61690011 AACCTTAAACCCT-A--AAC-CATA
1 AACCTTAAACCATAATTAACTCATA
* * *
61690032 TATCTTAAACCATAGTTAACTCATA
1 AACCTTAAACCATAATTAACTCATA
61690057 AACCTTAAACC
1 AACCTTAAACC
61690068 CTAAACCATA
Statistics
Matches: 79, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
21 13 0.16
22 3 0.04
24 8 0.10
25 42 0.53
26 13 0.16
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.28
Consensus pattern (25 bp):
AACCTTAAACCATAATTAACTCATA
Found at i:61690358 original size:41 final size:41
Alignment explanation
Indices: 61690263--61690359 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
61690253 GTTATATGAC
*
61690263 TTTTAGCGGTG-TTTTTCCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGTGTTTTTTCCAAAAGCGCCGCTAATGCTCTAG
* * * * *
61690303 TTTTCGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGG
1 TTTTAGCGGTGTTTTTT-CCAAAAGCGCCGCTAATGCTCTAG
*
61690344 TTTTAGTGGTGTTTTT
1 TTTTAGCGGTGTTTTT
61690360 GGTAAAACAC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 9 0.20
41 32 0.70
42 5 0.11
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (41 bp):
TTTTAGCGGTGTTTTTTCCAAAAGCGCCGCTAATGCTCTAG
Found at i:61690428 original size:12 final size:12
Alignment explanation
Indices: 61690413--61690438 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61690403 GTTTTTTGAT
61690413 AAAACGCCGCTA
1 AAAACGCCGCTA
61690425 AAAACGCCGCTA
1 AAAACGCCGCTA
61690437 AA
1 AA
61690439 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:61693045 original size:6 final size:6
Alignment explanation
Indices: 61693034--61693069 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
61693024 GACACATACT
61693034 AAATTA AAATTA AAATTTTA AAATTA AAATTA AAAT
1 AAATTA AAATTA AAA--TTA AAATTA AAATTA AAAT
61693070 ATGTGGAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATTA
Found at i:61693056 original size:14 final size:14
Alignment explanation
Indices: 61693037--61693064 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61693027 ACATACTAAA
61693037 TTAAAATTAAAATT
1 TTAAAATTAAAATT
61693051 TTAAAATTAAAATT
1 TTAAAATTAAAATT
61693065 AAAATATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAATTAAAATT
Found at i:61695167 original size:48 final size:48
Alignment explanation
Indices: 61695103--61695272 Score: 175
Period size: 48 Copynumber: 3.6 Consensus size: 48
61695093 ACATTATGAG
* * * * *
61695103 AGCCAATGTAAAACATGTCTCGGACATGTATCGGCTTTGAGAGACACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGACACA
* *
61695151 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCATT--GAGACGA-G
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGAC-ACA
* * * * *
61695197 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGACACA
* * *
61695245 AGCTAGTGTAACACTTGTCTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
61695273 GAATAGACAC
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 39 0.38
47 2 0.02
48 61 0.60
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGACACA
Found at i:61695210 original size:46 final size:45
Alignment explanation
Indices: 61695061--61695231 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
61695051 TATGTGTGCT
* *
61695061 AGTGTAAGACATGTCGGGGACATGCATCGGCCACATT-A-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAGAGAGAGCC
* * * * * *
61695107 AATGTAAAACATGTCTCGGACATGTATCGGCTTTGAGAGACACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAG--A-GAGCC
* *
61695155 AGTGTAAGACATGTCTGGGACATACATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-GAGAGCC
61695201 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
61695232 CTCGAGATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 1 0.01
46 58 0.57
47 2 0.02
48 36 0.35
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGAGAGCC
Found at i:61695222 original size:94 final size:92
Alignment explanation
Indices: 61695061--61695271 Score: 235
Period size: 94 Copynumber: 2.2 Consensus size: 92
61695051 TATGTGTGCT
* * *
61695061 AGTGTAAGACATGTCGGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAAACATGTCTCGG
1 AGTGTAAGACATGTCTGGGACATACATCGG-C-CATTACGAGAGCCAATGTAAAACATGTCTCGG
* * *
61695126 ACATGTATCGGCTTTGAGAGACACAAGCC
64 ACATGCATCGGCCTCGAGAGACACAAGCC
* * * *
61695155 AGTGTAAGACATGTCTGGGACATACATCGG-CATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCATT---ACGAGAGCCAATGTAAAACATGTCTCG
* * *
61695219 GACATGCATCGGCCTCGAGATATACAAGCT
63 GACATGCATCGGCCTCGAGAGACACAAGCC
* *
61695249 AGTGTAACACTTGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
61695272 GGAATAGACA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
91 4 0.04
94 95 0.96
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCATTACGAGAGCCAATGTAAAACATGTCTCGGAC
ATGCATCGGCCTCGAGAGACACAAGCC
Found at i:61695362 original size:98 final size:97
Alignment explanation
Indices: 61695098--61695371 Score: 236
Period size: 94 Copynumber: 2.8 Consensus size: 97
61695088 CGGCCACATT
* * * * ** * * * *
61695098 ATGAGAGCCAATGTAAAACATGTCTCGGACATGTATCGGCTTTGAGAGACACAAGCCAGTGTAAG
1 ATGAGAGCCAATGTAAAACATGTCTGGGACAGGCATCGGCCTCAAGATATACAAGCTAGTGTAAC
* * * **
61695163 ACATGTCTGGGACAT--ACATCGGCATTG--AG
66 ACATGTCTAGGACATGGA-ATAGACACCGATAG
* * * * * *
61695192 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAC
1 ATGAGAGCCAATGTAAAACATGTCTGGGACAGGCATCGGCCTCAAGATATACAAGCTAGTGTAAC
* *
61695257 ACTTGTCTGGGACATGGAATAGACACCGATAG
66 ACATGTCTAGGACATGGAATAGACACCGATAG
* *
61695289 ATGAGAGCCAATGTAAAACCTGTCTGGGACACGGCATCGGCCTCAATATATGA-AAG-TCAGTGT
1 ATGAGAGCCAATGTAAAACATGTCTGGGACA-GGCATCGGCCTCAAGATAT-ACAAGCT-AGTGT
*
61695352 AAGACATGTCTAGGACATGG
63 AACACATGTCTAGGACATGG
61695372 CATCAACTTT
Statistics
Matches: 145, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
94 67 0.46
95 6 0.04
96 1 0.01
97 29 0.20
98 41 0.28
99 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (97 bp):
ATGAGAGCCAATGTAAAACATGTCTGGGACAGGCATCGGCCTCAAGATATACAAGCTAGTGTAAC
ACATGTCTAGGACATGGAATAGACACCGATAG
Found at i:61703639 original size:30 final size:30
Alignment explanation
Indices: 61703604--61703660 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61703594 TTTACGAGTC
*
61703604 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAAATATAATTTTGACAAAGTT
* *
61703634 TAGGGGCAAAATTATAATTTTGCCAAA
1 TAGGGGCAAAAATATAATTTTGACAAA
61703661 ATATGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTTTGACAAAGTT
Found at i:61708217 original size:26 final size:26
Alignment explanation
Indices: 61708178--61708261 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
61708168 AGTAGTTCCA
**
61708178 AGTGAAACAAGGTGTATAGAAGCTTT
1 AGTGAAACGGGGTGTATAGAAGCTTT
* * *
61708204 AGTGAAACGGGGTGTTTTG-A-TTTT
1 AGTGAAACGGGGTGTATAGAAGCTTT
* **
61708228 AGTGAAA-TGGGCATATAGAAGCTTT
1 AGTGAAACGGGGTGTATAGAAGCTTT
61708253 AGTGAAACG
1 AGTGAAACG
61708262 AAGCATTTTG
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
23 6 0.14
24 11 0.26
25 11 0.26
26 15 0.35
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (26 bp):
AGTGAAACGGGGTGTATAGAAGCTTT
Found at i:61709555 original size:28 final size:27
Alignment explanation
Indices: 61709497--61709557 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
61709487 AAAAATATTT
*
61709497 AAAAATTTAAAAATTCTAAAACAATATAA
1 AAAAATTTAAAAAGTCTAAAA-AA-ATAA
* *
61709526 AAATATATAAAAAGT-TAAAAAAATAA
1 AAAAATTTAAAAAGTCTAAAAAAATAA
61709552 AAAAAT
1 AAAAAT
61709558 CAAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 5 0.18
29 12 0.43
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAATTTAAAAAGTCTAAAAAAATAA
Found at i:61709689 original size:15 final size:16
Alignment explanation
Indices: 61709660--61709689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61709650 TTGAAAAAGT
61709660 TTTCAAATATATTTGG
1 TTTCAAATATATTTGG
61709676 TTTCAAAT-TATTTG
1 TTTCAAATATATTTG
61709690 CTCTATCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (16 bp):
TTTCAAATATATTTGG
Found at i:61709971 original size:13 final size:13
Alignment explanation
Indices: 61709953--61709977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61709943 CTTTTTTTTT
61709953 TAAATTAAATTTC
1 TAAATTAAATTTC
61709966 TAAATTAAATTT
1 TAAATTAAATTT
61709978 AATTTCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTAAATTTC
Found at i:61710741 original size:3 final size:3
Alignment explanation
Indices: 61710733--61710796 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
61710723 GGTGGAAATG
61710733 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61710781 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
61710797 TGCATTTTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61712074 original size:13 final size:14
Alignment explanation
Indices: 61712039--61712076 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
61712029 AACCTTAAAC
61712039 TTCAAGGTTTAAGA
1 TTCAAGGTTTAAGA
*
61712053 TTCAAGGTTTGAG-
1 TTCAAGGTTTAAGA
*
61712066 TTTAAGGTTTA
1 TTCAAGGTTTA
61712077 GGGTTTAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (14 bp):
TTCAAGGTTTAAGA
Found at i:61714602 original size:2 final size:2
Alignment explanation
Indices: 61714595--61714629 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
61714585 GTCATGCACT
61714595 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 T
61714630 CATTGCCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61715682 original size:24 final size:24
Alignment explanation
Indices: 61715648--61715739 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
61715638 ATTGACATTT
*
61715648 AAATCCGCACACATAGTGCTATAC
1 AAATTCGCACACATAGTGCTATAC
* * * *
61715672 AAGTCCTCACACATAGTGCCATAC
1 AAATTCGCACACATAGTGCTATAC
* *
61715696 AATTTCGCACACATAGTGCTATTC
1 AAATTCGCACACATAGTGCTATAC
61715720 AAATTCGCACACATAGTGCT
1 AAATTCGCACACATAGTGCT
61715740 GAAGTCAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (24 bp):
AAATTCGCACACATAGTGCTATAC
Found at i:61715747 original size:26 final size:23
Alignment explanation
Indices: 61715653--61715751 Score: 85
Period size: 24 Copynumber: 4.1 Consensus size: 23
61715643 CATTTAAATC
*
61715653 CGCACACATAGTGCTA-TACAAGTC
1 CGCACACATAGTGCTAGT-CAA-TT
* *
61715677 CTCACACATAGTGCCA-TACAATTT
1 CGCACACATAGTGCTAGT-CAA-TT
*
61715701 CGCACACATAGTGCTATTCAAATT
1 CGCACACATAGTGCTAGTC-AATT
61715725 CGCACACATAGTGCTGAAGTCAATT
1 CGCACACATAGTGCT--AGTCAATT
61715750 CG
1 CG
61715752 TTTTTAACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
24 52 0.81
25 9 0.14
26 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (23 bp):
CGCACACATAGTGCTAGTCAATT
Found at i:61729682 original size:68 final size:70
Alignment explanation
Indices: 61729610--61729807 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
61729600 ACACCCTGTA
* * * *
61729610 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
61729672 ATAAAT
65 ATAAAT
*
61729678 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
61729743 ATAAAT
65 ATAAAT
*
61729749 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
61729808 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:61729721 original size:41 final size:41
Alignment explanation
Indices: 61729676--61729793 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61729666 TGAAAGATAA
61729676 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61729717 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61729747 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61729788 ATGTAG
1 ATGTAG
61729794 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61729733 original size:71 final size:71
Alignment explanation
Indices: 61729644--61729807 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61729634 GAGATGTATC
61729644 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61729709 AGGACA
66 AGGACA
61729715 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61729780 AGGACA
66 AGGACA
61729786 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61729808 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61737250 original size:68 final size:70
Alignment explanation
Indices: 61737178--61737375 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
61737168 ACACCCTGTA
* * * *
61737178 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
61737240 ATAAAT
65 ATAAAT
*
61737246 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
61737311 ATAAAT
65 ATAAAT
*
61737317 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
61737376 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:61737289 original size:41 final size:41
Alignment explanation
Indices: 61737244--61737361 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61737234 TGAAAGATAA
61737244 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61737285 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61737315 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61737356 ATGTAG
1 ATGTAG
61737362 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61737301 original size:71 final size:71
Alignment explanation
Indices: 61737212--61737375 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61737202 GAGATGTATC
61737212 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61737277 AGGACA
66 AGGACA
61737283 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61737348 AGGACA
66 AGGACA
61737354 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61737376 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61742335 original size:49 final size:49
Alignment explanation
Indices: 61742260--61742447 Score: 164
Period size: 50 Copynumber: 3.8 Consensus size: 49
61742250 AGCCGAAGCT
* *
61742260 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TGCAAC-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACTG-AACTCAAC
* * *
61742308 AGTCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC-TGAACTCAAC
** * * * **
61742359 ATCTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC-TGAACTCA-AC
* * * * *
61742410 TTCGGGTACGCATAGTAGCCTGTACTTAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
61742448 TGCGACCTCA
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 34 0.30
50 43 0.38
51 36 0.32
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACTGAACTCAAC
Found at i:61742386 original size:50 final size:50
Alignment explanation
Indices: 61742272--61742401 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
61742262 CTGGTACGCA
**
61742272 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTG-AACCAACAGTCTAATACACG
* * * *
61742321 TAGTAGCCTACACTTAGTACTACACACGTGACCTCACCA-TCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAAC-CAACAGTCTAATACACG
61742371 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
61742402 TCACAGTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 25 0.35
50 40 0.56
51 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACCAACAGTCTAATACACG
Found at i:61742445 original size:101 final size:99
Alignment explanation
Indices: 61742272--61742458 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 99
61742262 CTGGTACGCA
* * *
61742272 TAGTAGCCTGCACTTAGTACTACACATGCAACCAACAGTCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCAACAGTCGGGTACACATAGTAGCCTACACTTA
*
61742337 GTACTACACACGTGACCTCACCATCTAATACATG
66 GTACTACACACGCGACCTCACCATCTAATACATG
** * * **
61742371 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGTAC
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCAACAG---TCGGGTACACATAGTAGCCTACAC
*
61742435 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
61742459 AATAGATCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 41 0.55
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCAACCAACAGTCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTCACCATCTAATACATG
Found at i:61757964 original size:78 final size:80
Alignment explanation
Indices: 61757869--61758019 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
61757859 GGTTATAGCG
* * * * *
61757869 ACTCGCACGAATTCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
61757931 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
61757947 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
61758012 AGCCCGGA
66 AGCCCGGA
61758020 CATCATTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.05
78 33 0.53
79 15 0.24
80 11 0.18
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:61758019 original size:40 final size:39
Alignment explanation
Indices: 61757838--61758019 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
61757828 GACTCGCTCA
** ** *
61757838 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCAC
* * *
61757877 GAATTCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* *
61757917 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* * * *
61757955 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCAC
*
61757996 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61758020 CATCATTCGA
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.21
39 20 0.17
40 62 0.54
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
Found at i:61765988 original size:39 final size:39
Alignment explanation
Indices: 61765857--61766047 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
61765847 GGATATAACG
* ** **
61765857 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
61765897 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
61765937 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
61765975 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
61766015 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
61766048 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:61765992 original size:78 final size:80
Alignment explanation
Indices: 61765897--61766047 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
61765887 GGTTATAGCG
* * * *
61765897 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
61765959 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
61765975 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
61766040 AGCCCGGA
66 AGCCCGGA
61766048 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:61768789 original size:48 final size:48
Alignment explanation
Indices: 61768715--61769004 Score: 508
Period size: 48 Copynumber: 6.0 Consensus size: 48
61768705 AAGATAATAT
* * *
61768715 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
61768763 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
61768811 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
61768859 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61768907 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
61768955 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61769003 AT
1 AT
61769005 GTGTGTATAT
Statistics
Matches: 232, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 232 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:61769195 original size:37 final size:37
Alignment explanation
Indices: 61769145--61769247 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
61769135 GGAAATATAT
*
61769145 TCCGGGTAAGACCCGATGACTACCTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61769182 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61769219 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
61769248 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61770668 original size:25 final size:22
Alignment explanation
Indices: 61770622--61770668 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
61770612 CATCTCAATT
*
61770622 CACATATTCACAAACACATAAG
1 CACATATTCACAAAAACATAAG
61770644 CACATAGTTCACAAGATAACATAAG
1 CACATA-TTCACAA-A-AACATAAG
61770669 TATGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 1 0.05
25 7 0.33
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (22 bp):
CACATATTCACAAAAACATAAG
Found at i:61771843 original size:26 final size:26
Alignment explanation
Indices: 61771807--61771856 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
61771797 ATTCAATTAC
*
61771807 TCAATTTTCCTTAAAATGTGTTTTGT
1 TCAATTTTCCTTAAAACGTGTTTTGT
61771833 TCAATTTTCCTTAAAACGTGTTTT
1 TCAATTTTCCTTAAAACGTGTTTT
61771857 ATAGCCGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (26 bp):
TCAATTTTCCTTAAAACGTGTTTTGT
Found at i:61778790 original size:56 final size:56
Alignment explanation
Indices: 61778668--61778859 Score: 273
Period size: 56 Copynumber: 3.4 Consensus size: 56
61778658 TCGTAAACAC
* *
61778668 ATATCAGAATCACATATCGATGCCAACGTA-TGAATGTGGACTTACTCCCACACAT
1 ATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
61778723 ATATC-GAAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
1 ATATCAG-AATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
* * * *
61778779 ACATCAGAATCACATATCGATGCCAGCGTATTAAACGTGGTCTTACTCGCACACAT
1 ATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
* *
61778835 ATATTA-AAGTCACATATCTATGCCA
1 ATATCAGAA-TCACATATCGATGCCA
61778860 CATATTCTTC
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
54 1 0.01
55 30 0.24
56 92 0.74
57 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (56 bp):
ATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCCCACACAT
Found at i:61786233 original size:17 final size:17
Alignment explanation
Indices: 61786213--61786246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61786203 TCTAGTGTGG
*
61786213 ATAAAGATGAAGATAAT
1 ATAAAGATGAAAATAAT
61786230 ATAAAGATGAAAATAAT
1 ATAAAGATGAAAATAAT
61786247 CAGAATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
ATAAAGATGAAAATAAT
Found at i:61794333 original size:30 final size:30
Alignment explanation
Indices: 61794297--61794456 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
61794287 GACAAGATTG
* * * * *
61794297 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
61794327 GCACTAAGTGTGCAAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
61794355 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
61794384 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
61794414 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
61794443 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61794457 GACTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 21 0.18
29 49 0.42
30 44 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:61797276 original size:22 final size:22
Alignment explanation
Indices: 61797251--61797318 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
61797241 CGCGTATTTA
*
61797251 ATATACTTATGTATT-ATATTAT
1 ATATAATT-TGTATTCATATTAT
* *
61797273 ATATAATTTTTTTTCATATTAT
1 ATATAATTTGTATTCATATTAT
* *
61797295 ATATATATGTGTTTTCAATATTAT
1 ATATA-ATTTGTATTC-ATATTAT
61797319 GTTATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 4 0.11
22 19 0.50
23 8 0.21
24 7 0.18
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATAATTTGTATTCATATTAT
Found at i:61797309 original size:24 final size:23
Alignment explanation
Indices: 61797266--61797327 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
61797256 CTTATGTATT
*
61797266 ATATTATATATA-ATTTTTTTTC-
1 ATATTATATATATA-TTGTTTTCA
61797288 ATATTATATATATATGTGTTTTCA
1 ATATTATATATATAT-TGTTTTCA
*
61797312 ATATTATGTTATATAT
1 ATATTAT-ATATATAT
61797328 ATTATGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 13 0.38
23 7 0.21
24 7 0.21
25 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
ATATTATATATATATTGTTTTCA
Found at i:61797324 original size:27 final size:25
Alignment explanation
Indices: 61797262--61797329 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 25
61797252 TATACTTATG
* *
61797262 TATTATATTATATATAATTTTTTTTCA
1 TATTAT-TTATATAT-ATGTGTTTTCA
61797289 TATTA--TATATATATGTGTTTTCAA
1 TATTATTTATATATATGTGTTTTC-A
61797313 TATTATGTTATATATAT
1 TATTAT-TTATATATAT
61797330 TATGTATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 8 0.23
24 13 0.37
27 14 0.40
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (25 bp):
TATTATTTATATATATGTGTTTTCA
Found at i:61803367 original size:21 final size:21
Alignment explanation
Indices: 61803343--61803393 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
61803333 CGACCTCGCA
61803343 ATTATCCTCCTCCGAATTTCT
1 ATTATCCTCCTCCGAATTTCT
*
61803364 ATTATCCTCCTCTGAATTTCT
1 ATTATCCTCCTCCGAATTTCT
61803385 ATTATCCTC
1 ATTATCCTC
61803394 TTCAGACCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.04, T:0.45
Consensus pattern (21 bp):
ATTATCCTCCTCCGAATTTCT
Found at i:61810542 original size:86 final size:86
Alignment explanation
Indices: 61810328--61811145 Score: 728
Period size: 89 Copynumber: 9.4 Consensus size: 86
61810318 TGATGTTTTT
* * * * *
61810328 ATTTCTGC-TTTCAGAAATCAACTCATATTGCAAGAGGTGAGTTGATCCTC-GGATCACATGCCG
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC--GCTG
**
61810391 AGGTATTTTCAA-AACTTGTTTTCA
63 AGGTATTTTCAATTTC-TGTTTTCA
* *
61810415 AGTTTCT-GTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 A-TTTCTACTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
61810479 GGTAATATCAATTTCTGTCTTT-A
64 GGTATTTTCAATTTCTGT-TTTCA
*
61810502 ATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
61810567 TAATGTCAATTTCTGTCTTT-A
66 TATTTTCAATTTCTGT-TTTCA
* * *
61810588 ATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG-CACACTGAG
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAG
*
61810652 GTATTTTCAATTTCCGTTTTCCA
65 GTATTTTCAATTTCTGTTTT-CA
* * * * * * *
61810675 ACTTATGCTTTTCAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACAC
1 ATTTCTACTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGC
* * *
61810740 TGAGGTATTGTT--AGTT-TATATT--
61 TGAGGTATT-TTCAATTTCTGTTTTCA
* **
61810762 -TTTC-A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAGCACAATGAG
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAG
61810819 GTATTTTCAATTTCTGCTTTTCA
65 GTATTTTCAATTTCTG-TTTTCA
** * *
61810842 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGGGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTACTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
61810907 GGTATTTTCAATTTCCGTTTTTCA
64 GGTATTTTCAATTTCTG-TTTTCA
* * * * *
61810931 AGTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGG
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
61810996 TATTTTCAATTTCTATTTTTTTCA
66 TATTTTCAATTTC---TGTTTTCA
* * * * *
61811020 ATTTATATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGAC-G
1 ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACG-CTG
** *
61811084 AGGTATTTTCAAAATCTACTTTTCA
63 AGGTATTTTCAATTTCT-GTTTTCA
* **
61811109 A-AT-TAAGTTTCAAAAAAATCAACTCATATTGCGAGAG
1 ATTTCTACTTTTC--AAAAATCAACTCATATTGCGAGAG
61811146 TCAATTCATG
Statistics
Matches: 617, Mismatches: 71, Indels: 84
0.80 0.09 0.11
Matches are distributed among these distances:
74 2 0.00
75 13 0.02
76 4 0.01
77 38 0.06
78 3 0.00
81 4 0.01
85 3 0.00
86 151 0.24
87 103 0.17
88 13 0.02
89 203 0.33
90 43 0.07
91 20 0.03
92 15 0.02
93 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (86 bp):
ATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCAATTTCTGTTTTCA
Found at i:61810839 original size:14 final size:14
Alignment explanation
Indices: 61810822--61810856 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
61810812 CAATGAGGTA
61810822 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
61810836 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
61810850 TTTTCAA
1 TTTTCAA
61810857 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Done.