Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 236 of 250
Found at i:72975167 original size:36 final size:36
Alignment explanation
Indices: 72975119--72975189 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
72975109 TTGATTTTTG
72975119 AAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGT
1 AAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGT
*
72975155 AAAAACAGAAATTAAAAGGCTCAACTCACCTCTCG
1 AAAAACAAAAATTAAAAGGCTCAACTCACCTCTCG
72975190 CAATATGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.18
Consensus pattern (36 bp):
AAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGT
Found at i:72975200 original size:90 final size:89
Alignment explanation
Indices: 72975081--72975245 Score: 285
Period size: 89 Copynumber: 1.8 Consensus size: 89
72975071 ATGTGACCCG
72975081 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTCAACTC
72975146 ACCTCTCGTAAAAACAGAAATTAAA
65 ACCTCTCGTAAAAACAGAAATTAAA
* * *
72975171 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAATAGAAATTAAAAGGCTCAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCA
*
72975236 CCTCTTGTAA
66 CCTCTCGTAA
72975246 TATGAGTTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 39 0.55
90 32 0.45
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCA
CCTCTCGTAAAAACAGAAATTAAA
Found at i:72975576 original size:75 final size:75
Alignment explanation
Indices: 72975450--72975697 Score: 241
Period size: 75 Copynumber: 3.2 Consensus size: 75
72975440 AAAAACAGAA
* * *
72975450 TTTGAAAGACAAAATTTGAAAAT-CCTCGGCATGTGATCCTGAGGCTCAACTCATCTCTCGCAAT
1 TTTGAAAAACAGAATTTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCATCTCTCGCAAT
72975514 ATGAGTTGATTTT
63 ATGAGTTGATTTT
* * *
72975527 TTTGAAAAGCAGATTTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATA
1 TTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
72975592 AGTTGATTTT
66 AGTTGATTTT
** * * * * * *
72975602 GAAAACATGAATTAAAACAGAAATTGGAAATACCTCAGCATGGCC-AAGGCTCAACTCACCTCTC
1 -----TTTG-A--AAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTC
72975666 GCAATATGAGTTGA-TTT
58 GCAATATGAGTTGATTTT
72975683 TTTGAAAAAACAGAA
1 TTTG-AAAAACAGAA
72975698 ACTGAAAACA
Statistics
Matches: 143, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
74 9 0.06
75 40 0.28
76 7 0.05
77 19 0.13
78 6 0.04
80 2 0.01
81 4 0.03
82 30 0.21
83 26 0.18
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (75 bp):
TTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
AGTTGATTTT
Found at i:72975707 original size:13 final size:13
Alignment explanation
Indices: 72975689--72975718 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
72975679 ATTTTTTGAA
72975689 AAAACAGAAACTG
1 AAAACAGAAACTG
*
72975702 AAAACAGAAATTG
1 AAAACAGAAACTG
72975715 AAAA
1 AAAA
72975719 TACCTCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:72975775 original size:87 final size:84
Alignment explanation
Indices: 72975542--72975790 Score: 324
Period size: 87 Copynumber: 2.9 Consensus size: 84
72975532 AAAGCAGATT
* * *
72975542 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATAAGTTGA-TTTTG-AA
1 TTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
72975605 AACATG-AATTAAAACAGAAA
65 AACA-GAAATGAAAACAGAAA
* * * *
72975625 TTGGAAATACCTCAGCATGGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AA
72975690 AAACAGAAACTGAAAACAGAAA
64 AAACAGAAA-TGAAAACAGAAA
* *
72975712 TTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
72975777 AACAGAAATTGAAA
65 AACAGAAA-TGAAA
72975791 GTACCTCAGC
Statistics
Matches: 144, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
82 31 0.22
83 17 0.12
84 5 0.03
85 1 0.01
86 24 0.17
87 33 0.23
88 33 0.23
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (84 bp):
TTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
ACAGAAATGAAAACAGAAA
Found at i:72975813 original size:243 final size:252
Alignment explanation
Indices: 72975388--72975863 Score: 625
Period size: 243 Copynumber: 1.9 Consensus size: 252
72975378 ACAGAAAAAA
**
72975388 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGAAATTAAAAACAGAATTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT----A-TAG-AA-TAAAAACAGAAACT
* * * *
72975453 GAAAGACAAAATTTGAAAATCCTCGGCATGTGATCCTGAGGCTCAACTCATCTCTCGCAATATGA
59 GAAAGACAAAATTTGAAAATCCTCAG-ATGTGACCCCGAGGCTCAACTCACCTCTCGCAATATGA
* ** * *
72975518 GTTGATTTTTTTGAAAAGCAGATTTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCT
123 GTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCT
72975583 CGCAATATAAGTTGA-TTTTG-AAAACATG-AATTAAAACAGAAATTGGAAATACCTCAGCATGG
187 CGCAATATAAGTTGATTTTTGAAAAACA-GAAATTAAAACAGAAATTGGAAATACCTCAGCATGG
72975645 CC
251 CC
72975647 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-T-G-A-AAAAACAGAAACTGAAA-AC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAGAATAAAAACAGAAACTGAAAGAC
*
72975707 AGAAA-TTGAAAATACCTCAG-TGTG-CCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-
66 A-AAATTTGAAAAT-CCTCAGATGTGACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
72975768 TTTTTGAAAAACAGAAATTGAAAGTACCTCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATA
129 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATA
*
72975833 TGAGTTGATTTTTGAAAAACAGAAATTAAAA
194 TAAGTTGATTTTTGAAAAACAGAAATTAAAA
72975864 GGCTCAACTC
Statistics
Matches: 197, Mismatches: 15, Indels: 24
0.83 0.06 0.10
Matches are distributed among these distances:
243 65 0.33
244 6 0.03
245 47 0.24
246 4 0.02
247 11 0.06
248 23 0.12
250 1 0.01
252 1 0.01
253 1 0.01
259 38 0.19
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (252 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATAGAATAAAAACAGAAACTGAAAGAC
AAAATTTGAAAATCCTCAGATGTGACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATA
AGTTGATTTTTGAAAAACAGAAATTAAAACAGAAATTGGAAATACCTCAGCATGGCC
Found at i:72975821 original size:73 final size:73
Alignment explanation
Indices: 72975702--72975864 Score: 254
Period size: 73 Copynumber: 2.2 Consensus size: 73
72975692 ACAGAAACTG
* * * *
72975702 AAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 AAAACAGAAATTGAAAGTACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
72975767 ATTTTTGA
66 ATTTTTGA
* **
72975775 AAAACAGAAATTGAAAGTACCTCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAGTACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
72975840 ATTTTTGA
66 ATTTTTGA
*
72975848 AAAACAGAAATTAAAAG
1 AAAACAGAAATTGAAAG
72975865 GCTCAACTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 82 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (73 bp):
AAAACAGAAATTGAAAGTACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGA
Found at i:72975872 original size:54 final size:54
Alignment explanation
Indices: 72975809--72975918 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
72975799 GCGTGTATTG
72975809 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
72975863 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
72975917 AG
1 AG
72975919 TACCTTAGCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:72975986 original size:127 final size:127
Alignment explanation
Indices: 72975736--72975977 Score: 448
Period size: 127 Copynumber: 1.9 Consensus size: 127
72975726 GTGTGCCCCG
72975736 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAGTACCTCAGC
1 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAGTACCTCAGC
*
72975801 GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
66 GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAACAGAAATTAAA
*
72975863 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAGTACCTTAGC
1 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAGTACCTCAGC
**
72975928 GTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGGAAAA
66 GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAA
72975978 GTATAAATTG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 111 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (127 bp):
AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAGTACCTCAGC
GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAACAGAAATTAAA
Found at i:72976044 original size:87 final size:87
Alignment explanation
Indices: 72975898--72976057 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
72975888 GAGTTGATTT
* * * ** *
72975898 TTGAAAAACAGAAATTGAAAGTACCTTAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAGTACCTCAGCGTGCATCGAGGCTCAACTCACCTCCCGCAATATGA
72975963 GTTGATTTTGGAAAAGTATAAA
66 GTTGATTTTGGAAAAGTATAAA
* * * *
72975985 TTGAATAACAGAAATTGAAATTACCTCGGCGTGCCTCGAGGCTCAACTCACCTCCCGCAATATGA
1 TTGAAAAACAGAAATTGAAAGTACCTCAGCGTGCATCGAGGCTCAACTCACCTCCCGCAATATGA
72976050 GTTGATTT
66 GTTGATTT
72976058 GAAAACAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAGTACCTCAGCGTGCATCGAGGCTCAACTCACCTCCCGCAATATGA
GTTGATTTTGGAAAAGTATAAA
Found at i:72979633 original size:30 final size:29
Alignment explanation
Indices: 72979592--72979648 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
72979582 AGATGTGCTA
*
72979592 AACAGAGAGCACTTAACGTGCTAATAATAG
1 AACAGAAAGCAC-TAACGTGCTAATAATAG
*
72979622 AACAGAAAGCACTAATGTGCTAATAAT
1 AACAGAAAGCACTAACGTGCTAATAAT
72979649 CAGAGAGCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.21
Consensus pattern (29 bp):
AACAGAAAGCACTAACGTGCTAATAATAG
Found at i:72980793 original size:7 final size:7
Alignment explanation
Indices: 72980781--72980869 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
72980771 TTCTCATGTT
72980781 TTATATA
1 TTATATA
72980788 -T-TATA
1 TTATATA
72980793 TTATATA
1 TTATATA
*
72980800 TAATATA
1 TTATATA
*
72980807 ATA-ATA
1 TTATATA
*
72980813 TAATATA
1 TTATATA
72980820 TTATATA
1 TTATATA
72980827 TTA-ATA
1 TTATATA
*
72980833 CTTAAATA
1 -TTATATA
72980841 TTA-AGT-
1 TTATA-TA
*
72980847 TAATATA
1 TTATATA
*
72980854 ATATATA
1 TTATATA
*
72980861 ATATATA
1 TTATATA
72980868 TT
1 TT
72980870 TTTATATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 13 0.20
7 44 0.69
8 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:72986934 original size:4 final size:4
Alignment explanation
Indices: 72986888--72986915 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
72986878 TGGGATATGC
72986888 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
72986916 CATAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:72990814 original size:21 final size:20
Alignment explanation
Indices: 72990790--72990832 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
72990780 TAATATTGCA
72990790 TAAACATATACATATATATAT
1 TAAACATATACATATATA-AT
* *
72990811 TAAAGATATATATATATAAT
1 TAAACATATACATATATAAT
72990831 TA
1 TA
72990833 TTTACAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:72997356 original size:20 final size:20
Alignment explanation
Indices: 72997331--72997389 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
72997321 TTCAATTTTT
72997331 AATAATA-TTATTAAATATTA
1 AATAATATTTA-TAAATATTA
72997351 AATAATATTTATAAATATATA
1 AATAATATTTATAAATAT-TA
* *
72997372 GATTATAATTTATAAATA
1 AATAAT-ATTTATAAATA
72997390 CTTATTGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.41
21 9 0.26
22 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATAATATTTATAAATATTA
Found at i:72997382 original size:22 final size:21
Alignment explanation
Indices: 72997330--72997389 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
72997320 TTTCAATTTT
72997330 TAATAATATTATTAAATATTAAA
1 TAATAAT-TTA-TAAATATTAAA
*
72997353 TAAT-ATTTATAAATATATAGA
1 TAATAATTTATAAATAT-TAAA
*
72997374 TTATAATTTATAAATA
1 TAATAATTTATAAATA
72997390 CTTATTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 7 0.21
21 9 0.27
22 13 0.39
23 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATAATTTATAAATATTAAA
Found at i:72997453 original size:27 final size:27
Alignment explanation
Indices: 72997407--72997458 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
72997397 ATAATTTTTT
72997407 TATAATATAAAATATATATTTAAATAA
1 TATAATATAAAATATATATTTAAATAA
*
72997434 TATAA-ATAAAATTATTTATTTAAAT
1 TATAATATAAAA-TATATATTTAAAT
72997459 CTTATTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAATATAAAATATATATTTAAATAA
Found at i:72997918 original size:89 final size:90
Alignment explanation
Indices: 72997749--72997918 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
72997739 ACTCTTTTTC
* * * *
72997749 TTTTTCTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAAGGCTCTCAAACTTCTTAA
1 TTTTTCTACTCAATTGAGCACTAGAACTTTCAAAATGCATAAAAAAAGACCCTCAAAATTCTTAA
72997814 AAAAAACAATTAAGCCCCTGCTTAT
66 AAAAAACAATTAAGCCCCTGCTTAT
* * * * *
72997839 TTTTTCTACTCAATTGAGTACTAGAGCTTTCAAAATGCAT-CAAAAAGACCCTCAAAATTTTTCA
1 TTTTTCTACTCAATTGAGCACTAGAACTTTCAAAATGCATAAAAAAAGACCCTCAAAATTCTTAA
*
72997903 AAAAAATAATTAAGCC
66 AAAAAACAATTAAGCC
72997919 TTACTCTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
89 33 0.47
90 37 0.53
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (90 bp):
TTTTTCTACTCAATTGAGCACTAGAACTTTCAAAATGCATAAAAAAAGACCCTCAAAATTCTTAA
AAAAAACAATTAAGCCCCTGCTTAT
Found at i:72997953 original size:10 final size:9
Alignment explanation
Indices: 72997941--72997980 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
72997931 AAAATTAGAA
72997941 AAAAATTAT
1 AAAAATTAT
*
72997950 AAAAATAAT
1 AAAAATTAT
*
72997959 AAAATTTATT
1 AAAAATTA-T
72997969 AAAAATTAT
1 AAAAATTAT
72997978 AAA
1 AAA
72997981 TTTTTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:72997969 original size:21 final size:21
Alignment explanation
Indices: 72997945--72998002 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
72997935 TTAGAAAAAA
72997945 ATTATAAAAATAATAAAATTT
1 ATTATAAAAATAATAAAATTT
*
72997966 A-T-TAAAAATTAT-AAATTT
1 ATTATAAAAATAATAAAATTT
* *
72997984 TTTAATAAAAATAGTAAAA
1 ATT-ATAAAAATAATAAAA
72998003 AGTAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.21
19 10 0.34
20 1 0.03
21 9 0.31
22 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTATAAAAATAATAAAATTT
Found at i:72997988 original size:18 final size:19
Alignment explanation
Indices: 72997925--72997980 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
72997915 AGCCTTACTC
* *
72997925 TTATTAAAAATTAGAAAAAAA
1 TTATTAAAAA-TA-ATAAAAT
72997946 TTA-TAAAAATAATAAAAT
1 TTATTAAAAATAATAAAAT
*
72997964 TTATTAAAAATTATAAA
1 TTATTAAAAATAATAAA
72997981 TTTTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 8 0.26
19 14 0.45
20 6 0.19
21 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TTATTAAAAATAATAAAAT
Found at i:72998276 original size:29 final size:29
Alignment explanation
Indices: 72998225--72998292 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
72998215 TTACATTTTG
* *
72998225 TATAATTTTCTTATAACTTTATAAAATTT
1 TATAATTTTTTTATAACTCTATAAAATTT
* *
72998254 TATAATTTTTTTATATA-TCTATATATTTT
1 TATAATTTTTTTATA-ACTCTATAAAATTT
*
72998283 TATGATTTTT
1 TATAATTTTT
72998293 ATAAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (29 bp):
TATAATTTTTTTATAACTCTATAAAATTT
Found at i:72998295 original size:19 final size:19
Alignment explanation
Indices: 72998273--72998333 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
72998263 TTTATATATC
*
72998273 TATATATTTTTATGATTTT
1 TATATATTTTTACGATTTT
* * *
72998292 TATAAAATTTTACAATTTT
1 TATATATTTTTACGATTTT
72998311 T-TATATTCTTTTACGATTTT
1 TATATA-T-TTTTACGATTTT
72998331 TAT
1 TAT
72998334 TTTTTTTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 12 0.38
21 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATATTTTTACGATTTT
Found at i:72998340 original size:48 final size:48
Alignment explanation
Indices: 72998242--72998333 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
72998232 TTCTTATAAC
* *
72998242 TTTATAAAATTTTATAATTTTTTTATATATCTATATATTTTTATGATT
1 TTTATAAAATTTTACAATTTTTTTATATATCTATAGATTTTTATGATT
*
72998290 TTTATAAAATTTTACAA-TTTTTTATAT-TCTTTTACGATTTTTAT
1 TTTATAAAATTTTACAATTTTTTTATATATC-TATA-GATTTTTAT
72998334 TTTTTTTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 2 0.05
47 13 0.33
48 24 0.62
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (48 bp):
TTTATAAAATTTTACAATTTTTTTATATATCTATAGATTTTTATGATT
Found at i:72999753 original size:31 final size:32
Alignment explanation
Indices: 72999716--72999775 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
72999706 TTCAAATCTA
*
72999716 AAAAATTACCTAAAAAT-ATATATA-AAATTTT
1 AAAAATT-CCAAAAAATAATATATATAAATTTT
*
72999747 AAAAATTTCAAAAAATAATATATATAAAT
1 AAAAATTCCAAAAAATAATATATATAAAT
72999776 AGATTGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 14 0.56
32 4 0.16
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAAATTCCAAAAAATAATATATATAAATTTT
Found at i:73002695 original size:4 final size:4
Alignment explanation
Indices: 73002688--73002721 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
73002678 TTATATTAAT
73002688 TAAA TAAA GTAAA TAAA TAAA TAAAA TAAA TAAA
1 TAAA TAAA -TAAA TAAA TAAA T-AAA TAAA TAAA
73002722 GACAAATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:73002702 original size:9 final size:9
Alignment explanation
Indices: 73002688--73002722 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
73002678 TTATATTAAT
73002688 TAAATAAAG
1 TAAATAAAG
73002697 TAAATAAA-
1 TAAATAAAG
*
73002705 TAAATAAAA
1 TAAATAAAG
73002714 TAAATAAAG
1 TAAATAAAG
73002723 ACAAATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (9 bp):
TAAATAAAG
Found at i:73002704 original size:13 final size:14
Alignment explanation
Indices: 73002688--73002722 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
73002678 TTATATTAAT
73002688 TAAATAAAGT-AAA
1 TAAATAAAGTAAAA
73002701 TAAATAAA-TAAAA
1 TAAATAAAGTAAAA
73002714 TAAATAAAG
1 TAAATAAAG
73002723 ACAAATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
TAAATAAAGTAAAA
Found at i:73002866 original size:16 final size:16
Alignment explanation
Indices: 73002818--73002871 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
73002808 ATTTACTATT
73002818 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
73002833 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
73002848 TATTATAAGATATTTA
1 TATAATAAGATATTTA
73002864 TATAATAA
1 TATAATAA
73002872 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:73004577 original size:45 final size:45
Alignment explanation
Indices: 73004507--73004723 Score: 335
Period size: 45 Copynumber: 4.8 Consensus size: 45
73004497 ATTCAAGGTT
* * * * *
73004507 CTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATG
1 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
*
73004552 CTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
1 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
73004597 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
1 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
73004642 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
1 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
* * * **
73004687 CTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
73004724 TCCACCTCTT
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (45 bp):
CTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATG
Found at i:73006609 original size:29 final size:30
Alignment explanation
Indices: 73006550--73006607 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
73006540 TCCGAGCCTT
*
73006550 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
73006580 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
73006608 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:73006837 original size:13 final size:13
Alignment explanation
Indices: 73006819--73006850 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73006809 TTTCCAGCAA
73006819 TTATGAATTTATT
1 TTATGAATTTATT
73006832 TTATGAATTTATT
1 TTATGAATTTATT
*
73006845 TGATGA
1 TTATGA
73006851 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:73007058 original size:50 final size:50
Alignment explanation
Indices: 73006945--73007186 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
73006935 ATTTGGGTAA
* * *
73006945 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
73007001 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73007051 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73007101 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
73007151 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
73007187 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:73007134 original size:100 final size:103
Alignment explanation
Indices: 73006945--73007194 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
73006935 ATTTGGGTAA
73006945 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
73007010 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
73007051 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
73007113 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
73007151 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
73007195 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:73013380 original size:35 final size:33
Alignment explanation
Indices: 73013329--73013399 Score: 124
Period size: 35 Copynumber: 2.1 Consensus size: 33
73013319 TTGTAATGGC
73013329 CCAAATTTGGTTATCGGAACAGTGGTTTCGGAA
1 CCAAATTTGGTTATCGGAACAGTGGTTTCGGAA
73013362 CCAAATTTGAGGTTATCGGAACAGTGGTTTCGGAA
1 CCAAATTT--GGTTATCGGAACAGTGGTTTCGGAA
73013397 CCA
1 CCA
73013400 CAAATCCGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 8 0.22
35 28 0.78
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (33 bp):
CCAAATTTGGTTATCGGAACAGTGGTTTCGGAA
Found at i:73014226 original size:29 final size:30
Alignment explanation
Indices: 73014167--73014224 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
73014157 TCCGAGCCTT
*
73014167 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
73014197 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
73014225 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:73014454 original size:13 final size:13
Alignment explanation
Indices: 73014436--73014467 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73014426 TTTCCAGCAA
73014436 TTATGAATTTATT
1 TTATGAATTTATT
73014449 TTATGAATTTATT
1 TTATGAATTTATT
*
73014462 TGATGA
1 TTATGA
73014468 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:73014675 original size:50 final size:49
Alignment explanation
Indices: 73014562--73014753 Score: 240
Period size: 50 Copynumber: 3.7 Consensus size: 49
73014552 ATTTGGGTAA
*
73014562 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC---AGA-C--G
* *
73014618 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-AGACG
* *
73014668 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCA-GACG
*
73014718 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
73014754 TTTGGCATGT
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.01
50 49 0.39
51 31 0.25
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (49 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAGACG
Found at i:73014705 original size:26 final size:26
Alignment explanation
Indices: 73014676--73014753 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
73014666 CGAGAGGTCC
73014676 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
73014702 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
73014727 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
73014753 C
1 C
73014754 TTTGGCATGT
Statistics
Matches: 35, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
24 2 0.06
25 15 0.43
26 16 0.46
27 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (26 bp):
CATGTAAGACCATGTCTGGGACATGG
Found at i:73020734 original size:45 final size:45
Alignment explanation
Indices: 73020666--73020907 Score: 412
Period size: 45 Copynumber: 5.4 Consensus size: 45
73020656 TTGTTCCTTA
* *
73020666 AATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
73020711 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
*
73020756 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
73020801 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
* * * **
73020846 AATTATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCACA
1 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
73020891 AATTATGCATGATGTTG
1 AATTATGCATGATGTTG
73020908 TCCACCTCTT
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 188 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (45 bp):
AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
Found at i:73021894 original size:18 final size:18
Alignment explanation
Indices: 73021838--73021953 Score: 108
Period size: 18 Copynumber: 6.4 Consensus size: 18
73021828 TAAATAAAGG
* * *
73021838 TACTAAATACATGACTGC
1 TACTGAATAAATGACTGT
* * * *
73021856 TATTGAATAATTAACTAT
1 TACTGAATAAATGACTGT
*
73021874 TACTAAATAAATGACTGT
1 TACTGAATAAATGACTGT
73021892 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* *
73021910 TATTGAATAACTGACTGT
1 TACTGAATAAATGACTGT
* *
73021928 TACTGAACAATTGA-TCGT
1 TACTGAATAAATGACT-GT
73021946 TACTGAAT
1 TACTGAAT
73021954 GATATTGATA
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
17 1 0.01
18 77 0.99
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:73021931 original size:54 final size:54
Alignment explanation
Indices: 73021838--73021953 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
73021828 TAAATAAAGG
* * * *
73021838 TACTAAATACATGACTGCTATTGAATAATTAACTATTACTAAATAAATGA-CTGT
1 TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATC-GT
* * * * *
73021892 TACTGAATAAATGACTGTTATTGAATAACTGACTGTTACTGAACAATTGATCGT
1 TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATCGT
73021946 TACTGAAT
1 TACTGAAT
73021954 GATATTGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (54 bp):
TACTGAATAAATGACTGCTATTGAATAACTAACTATTACTAAACAAATGATCGT
Found at i:73029713 original size:16 final size:16
Alignment explanation
Indices: 73029692--73029725 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
73029682 AATATATTGT
*
73029692 AAAATGTATTTTTAAC
1 AAAATGTACTTTTAAC
73029708 AAAATGTACTTTTAAC
1 AAAATGTACTTTTAAC
73029724 AA
1 AA
73029726 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
AAAATGTACTTTTAAC
Found at i:73030444 original size:115 final size:115
Alignment explanation
Indices: 73030210--73030490 Score: 314
Period size: 115 Copynumber: 2.4 Consensus size: 115
73030200 GGCGTTTTTA
* * * *
73030210 AAAAAGCGCCGCAATAGGTCGACCTTTAGCGGCG-TTTTTTTAAAAACGCCGCTAAAAGGTTAAG
1 AAAAA-CGCCGCAATAGATCGAACTTTAGCGGCGTTTTTTTTAAAAACGCCGATAAAACGTTAAG
* * * * ** * *
73030274 CAAAACGACATCATTTTACATGAGCTTCATTGGCAGTAGCGGCGTTTTCCC
65 CAAAACGACATCACTTTAAATGAACTTCAATGAAAGTAGCGGCGCTTTACC
* *
73030325 AAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTTTTCTAAAACGCCGAT-AAACGTTAAG
1 AAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTTTT-AAAAACGCCGATAAAACGTTAAG
* * * * *
73030389 CAAAACTACGTCGCTTTAAATGAACTTCAATGAAATTAGCGGCGCTTTACT
65 CAAAACGACATCACTTTAAATGAACTTCAATGAAAGTAGCGGCGCTTTACC
* * * * *
73030440 AAAAACGCCACAATAGCTCGCACTTTAGCGGCATTTTTGTTAAAAACGCCG
1 AAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTTTTAAAAACGCCG
73030491 CTATAGGTTG
Statistics
Matches: 138, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
114 34 0.25
115 94 0.68
116 10 0.07
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (115 bp):
AAAAACGCCGCAATAGATCGAACTTTAGCGGCGTTTTTTTTAAAAACGCCGATAAAACGTTAAGC
AAAACGACATCACTTTAAATGAACTTCAATGAAAGTAGCGGCGCTTTACC
Found at i:73030487 original size:41 final size:41
Alignment explanation
Indices: 73030439--73030529 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
73030429 GGCGCTTTAC
*
73030439 TAAAAACGCCACAATAGCTCGC-ACTTTAGCGGCATTTTTG
1 TAAAAACGCCACAATAGCTCGCTACATTAGCGGCATTTTTG
* * * * * *
73030479 TTAAAAACGCCGCTATAGGTTGCTCCATTAGCGGCGTTTTTG
1 -TAAAAACGCCACAATAGCTCGCTACATTAGCGGCATTTTTG
73030521 TAAAAACGC
1 TAAAAACGC
73030530 AGCTAAAAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 27 0.64
42 15 0.36
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
TAAAAACGCCACAATAGCTCGCTACATTAGCGGCATTTTTG
Found at i:73030718 original size:271 final size:269
Alignment explanation
Indices: 73030193--73030719 Score: 632
Period size: 271 Copynumber: 2.0 Consensus size: 269
73030183 ATAGATGGAG
* *
73030193 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCAATAGGTCGACCTTTAGCGGCGTTTTTTTAAAAACG
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCAATAGGTCGACCATTAGCGGCGTTTTTGTAAAAACG
* * * * *
73030258 CCGCTAAAAGGTTAAGCAAAACGACATCATTTTACATGAGCTTCATTGGCAGTAGCGGCGTTTTC
66 CAGCTAAAAGGTTAAGCAAAACGACATCATTTTAAATGAGCTTCAATGGCAGTAGCGGCGCTTTA
* * ** *
73030323 CCAAAAACGCCGCAATAGATCAAACTTTAGCGGCGTTTTTTTTCTAAAACGCCGATAAACGTTAA
131 CCAAAAACGCCGCAATAGATCAAACTTTAACGGCGTTTTTTGTAAAAAACGCCGATAAACATTAA
*
73030388 GCAAAACTACGTCGCTTTAAATGAACTTCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAA
196 GCAAAACGACGTCGCTTTAAATGAACTTCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAA
73030453 TAGCTCGCA
261 TAGCTCGCA
* * * * *
73030462 CTTTAGCGGCATTTTTGTTAAAAA-CGCCGCTATAGGTTGCTCCATTAGCGGCGTTTTTGTAAAA
1 CTTTAGCGGC-GTTTT-TAAAAAAGCGCCGCAATAGGTCG-ACCATTAGCGGCGTTTTTGTAAAA
** * * * *
73030526 ACGCAGCTAAAAGGTTAAGCAGCACGTCGTCATTTTAAATTAGCTTCAATGGCATTAGCGGCGCT
63 ACGCAGCTAAAAGGTTAAGCAAAACGACATCATTTTAAATGAGCTTCAATGGCAGTAGCGGCGCT
* * * *
73030591 TTACTAAAAACGCCGCAATATATCAATCTTTAACGGCGTTTTTTGTAAAAACAC-CGCGA-AAAT
128 TTACCAAAAACGCCGCAATAGATCAAACTTTAACGGCGTTTTTTGTAAAAA-ACGC-CGATAAAC
* * * *** **
73030654 ATTAAGCAGATCGACGTCGTTTTGTTTGAACTTCAATGGCATTAGCGGCG-TTT-CTTGAAAAAC
191 ATTAAGCAAAACGACGTCGCTTTAAATGAACTTCAATGAAATTAGCGGCGCTTTAC-T-AAAAAC
73030717 GCC
254 GCC
73030720 GCTACAGTTT
Statistics
Matches: 215, Mismatches: 36, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
269 11 0.05
270 21 0.10
271 178 0.83
272 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (269 bp):
CTTTAGCGGCGTTTTTAAAAAAGCGCCGCAATAGGTCGACCATTAGCGGCGTTTTTGTAAAAACG
CAGCTAAAAGGTTAAGCAAAACGACATCATTTTAAATGAGCTTCAATGGCAGTAGCGGCGCTTTA
CCAAAAACGCCGCAATAGATCAAACTTTAACGGCGTTTTTTGTAAAAAACGCCGATAAACATTAA
GCAAAACGACGTCGCTTTAAATGAACTTCAATGAAATTAGCGGCGCTTTACTAAAAACGCCACAA
TAGCTCGCA
Found at i:73031327 original size:14 final size:14
Alignment explanation
Indices: 73031301--73031344 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
73031291 TTTAAGGGTT
73031301 ATGATTTAGGTTTG
1 ATGATTTAGGTTTG
* *
73031315 ATGATTTATGTTTT
1 ATGATTTAGGTTTG
*
73031329 ATGATTGAGGGTTTG
1 ATGATTTA-GGTTTG
73031344 A
1 A
73031345 GGTTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
ATGATTTAGGTTTG
Found at i:73031393 original size:7 final size:7
Alignment explanation
Indices: 73031383--73031422 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
73031373 AGGGTTGAAG
73031383 GGTTAGT
1 GGTTAGT
73031390 GGTTAGT
1 GGTTAGT
73031397 GGTTAGT
1 GGTTAGT
73031404 GG-TAGT
1 GGTTAGT
73031410 GGTTAGT
1 GGTTAGT
73031417 GGTTAG
1 GGTTAG
73031423 GATTAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (7 bp):
GGTTAGT
Found at i:73031411 original size:13 final size:13
Alignment explanation
Indices: 73031383--73031419 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
73031373 AGGGTTGAAG
73031383 GGTTAGTGGTTAGT
1 GGTTAGTGG-TAGT
73031397 GGTTAGTGGTAGT
1 GGTTAGTGGTAGT
73031410 GGTTAGTGGT
1 GGTTAGTGGT
73031420 TAGGATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.41
Consensus pattern (13 bp):
GGTTAGTGGTAGT
Found at i:73036818 original size:15 final size:15
Alignment explanation
Indices: 73036798--73036826 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73036788 GGAGTAGACC
73036798 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
73036813 AGGTACGTTTTATT
1 AGGTACGTTTTATT
73036827 TCAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:73037580 original size:53 final size:49
Alignment explanation
Indices: 73037491--73037595 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 49
73037481 GAAGGGCCAC
** *
73037491 TTATAAATAATTTTATCAATATAATAATATTGATCATTGTTTAAATATA
1 TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
* *
73037540 TTATAACTAATTTTTATCAAAATAGTATTAATATTGATCATTACTTAAATAAA
1 TTATAAATAA-TTTTATC--AATA-TAATAATATTGATCATTACTTAAATAAA
73037593 TTA
1 TTA
73037596 CATAACTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 9 0.19
50 7 0.15
52 4 0.09
53 27 0.57
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (49 bp):
TTATAAATAATTTTATCAATATAATAATATTGATCATTACTTAAATAAA
Found at i:73042072 original size:44 final size:42
Alignment explanation
Indices: 73041927--73042156 Score: 221
Period size: 42 Copynumber: 5.3 Consensus size: 42
73041917 TTTATAAAAC
* * * * * *
73041927 AAGCGCCGCTAAAGGTTCTGTTCTTTAACAGTGTTTTTCT-AA
1 AAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTT-TAAA
* * *
73041969 AAGCCCCGCTAAAAGTTCTGTTCTTTAGCGGCGTTTTTCT-AA
1 AAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTT-TAAA
* * *
73042011 AAGCGCCGTTAAAAGTCCTCGTCTTTAGCGGCATTTTTTAAA
1 AAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAA
73042053 GACAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTGTTTAAAAA
1 -A-AGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTT-TTT--AAA
* *
73042100 AAACGCCGCTAAAAGTCCTGGTCTTCAGCGGCGCTTTTTTCAAA
1 AAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCG-TTTTTT-AAA
*
73042144 CAAACGCCGCTAA
1 -AAGCGCCGCTAA
73042157 TTTTACCGGT
Statistics
Matches: 163, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 71 0.44
43 1 0.01
44 35 0.21
45 48 0.29
46 4 0.02
47 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAA
Found at i:73042111 original size:45 final size:44
Alignment explanation
Indices: 73041974--73042156 Score: 210
Period size: 45 Copynumber: 4.2 Consensus size: 44
73041964 TCTAAAAGCC
* * *
73041974 CCGCTAAAAGTTCTGTTCTTTAGCGGCGTTTTTCT---AAAAGCG
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTT-TAAAAAAAACG
* * * * * *
73042016 CCGTTAAAAGTCCTCGTCTTTAGCGGCATTTTTTAAAGACAGCG
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAAACG
73042060 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTGTTTAAAAAAAACG
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTT-TTTAAAAAAAACG
* * *
73042105 CCGCTAAAAGTCCTGGTCTTCAGCGGCGCTTTTTTCAAACAAACG
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCG-TTTTTTAAAAAAAACG
73042150 CCGCTAA
1 CCGCTAA
73042157 TTTTACCGGT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 28 0.23
44 33 0.28
45 55 0.46
46 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTAAAAAAAACG
Found at i:73042138 original size:89 final size:86
Alignment explanation
Indices: 73041974--73042138 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 86
73041964 TCTAAAAGCC
* * * * *
73041974 CCGCTAAAAGTTCTGTTCTTTAGCGGCGTTTTTCTAAAAGCGCCGTTAAAAGTCCTCGTCTTTAG
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCTAAAAACGCCGCTAAAAGTCCTCGTCTTCAG
*
73042039 CGGCATTTTTTAAAGACAGCG
66 CGGCACTTTTTAAAGACAGCG
*
73042060 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTGTT-TAAAAAAAACGCCGCTAAAAGTCCTGGTCT
1 CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTT-TTCT---AAAAACGCCGCTAAAAGTCCTCGTCT
*
73042124 TCAGCGGCGCTTTTT
62 TCAGCGGCACTTTTT
73042139 TCAAACAAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 30 0.45
87 2 0.03
89 35 0.52
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (86 bp):
CCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTCTAAAAACGCCGCTAAAAGTCCTCGTCTTCAG
CGGCACTTTTTAAAGACAGCG
Found at i:73044033 original size:104 final size:104
Alignment explanation
Indices: 73043911--73044134 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
73043901 AATGGATATC
73043911 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
73043976 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
73044015 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
73044080 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
73044119 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
73044135 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:73044496 original size:29 final size:29
Alignment explanation
Indices: 73044463--73044526 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
73044453 TAATCCACCA
73044463 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
73044492 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
73044522 CCCAA
1 CCCAA
73044527 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:73044500 original size:30 final size:30
Alignment explanation
Indices: 73044470--73044526 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
73044460 CCACCCAACT
73044470 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
73044499 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
73044527 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:73050502 original size:21 final size:21
Alignment explanation
Indices: 73050476--73050519 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
73050466 AATTAAGCAT
*
73050476 TTGGTCTAAGTAAACTTTGAA
1 TTGGTCTAAGTAAACTTCGAA
*
73050497 TTGGTCTAAGTCAACTTCGAA
1 TTGGTCTAAGTAAACTTCGAA
73050518 TT
1 TT
73050520 TAACCAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (21 bp):
TTGGTCTAAGTAAACTTCGAA
Found at i:73052296 original size:23 final size:22
Alignment explanation
Indices: 73052247--73052305 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
73052237 GCATGGTTAA
*
73052247 ATTTTTTTTTATTAGTCTTTGT
1 ATTTTTTTTTATTAATCTTTGT
73052269 ATTTTTATTTTATTAAT-TTTAGT
1 ATTTTT-TTTTATTAATCTTT-GT
*
73052292 -TTTTTTTTTTTTAA
1 ATTTTTTTTTATTAA
73052306 ATTTCTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 8 0.24
22 14 0.42
23 11 0.33
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.75
Consensus pattern (22 bp):
ATTTTTTTTTATTAATCTTTGT
Found at i:73052509 original size:21 final size:19
Alignment explanation
Indices: 73052484--73052524 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
73052474 TTTAGAATTT
73052484 TAAAAATAAAAAATAATTAAA
1 TAAAAAT-AAAAA-AATTAAA
*
73052505 TAAAAGTAAAAAAATTAAA
1 TAAAAATAAAAAAATTAAA
73052524 T
1 T
73052525 TCATAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAAAATAAAAAAATTAAA
Found at i:73053686 original size:9 final size:9
Alignment explanation
Indices: 73053656--73053691 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
73053646 CACCTATTTG
73053656 TTATTTGAA
1 TTATTTGAA
*
73053665 TTATTAGAA
1 TTATTTGAA
*
73053674 TTATTTGAG
1 TTATTTGAA
73053683 TTATTTGAA
1 TTATTTGAA
73053692 AATTTAACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (9 bp):
TTATTTGAA
Found at i:73056490 original size:5 final size:5
Alignment explanation
Indices: 73056480--73056510 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
73056470 GCATGCATGC
73056480 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG A
1 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG A
73056511 AGCCGCTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
ATGGG
Found at i:73059650 original size:21 final size:21
Alignment explanation
Indices: 73059624--73059664 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73059614 ATCTGCTCAA
* *
73059624 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
73059645 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
73059665 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:73073893 original size:44 final size:44
Alignment explanation
Indices: 73073843--73073930 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
73073833 TTACAATTAA
73073843 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
1 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
73073887 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
1 CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
73073931 GGTTTAGCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (44 bp):
CTCGTTACTTACATGGGTAAACAATGAGAATATTATTAGTTATT
Found at i:73075844 original size:25 final size:23
Alignment explanation
Indices: 73075816--73075880 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
73075806 AATAAAAAAC
*
73075816 TTTAAAATATAATAAACCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
73075841 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
73075862 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
73075881 AATAATAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:73075879 original size:19 final size:20
Alignment explanation
Indices: 73075842--73075880 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
73075832 CCAAATACAT
73075842 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
73075862 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
73075881 AATAATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:73078391 original size:20 final size:20
Alignment explanation
Indices: 73078366--73078405 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
73078356 TATACTTAGA
73078366 AAAACAACTAAATTATCATT
1 AAAACAACTAAATTATCATT
73078386 AAAACAACTAAATTATCATT
1 AAAACAACTAAATTATCATT
73078406 CCAACTCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAACAACTAAATTATCATT
Found at i:73079866 original size:15 final size:16
Alignment explanation
Indices: 73079848--73079878 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
73079838 GTATAATTGA
73079848 AAATTAAATTT-AAAT
1 AAATTAAATTTGAAAT
73079863 AAATTAAATTTGAAAT
1 AAATTAAATTTGAAAT
73079879 TTAACTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATTAAATTTGAAAT
Found at i:73080339 original size:45 final size:45
Alignment explanation
Indices: 73080284--73080376 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
73080274 ACTATAATAA
*
73080284 AAATATAATTTTATTATTTTAATAGTTTATATTTTTATAAATTTT
1 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
73080329 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
1 AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
73080374 AAA
1 AAA
73080377 ATTTTATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (45 bp):
AAATATAATTTTATTATTTTAATAGTTTATATCTTTATAAATTTT
Found at i:73081997 original size:31 final size:30
Alignment explanation
Indices: 73081956--73082015 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
73081946 TAAAACTATC
** *
73081956 ATTAAACTATTCTAAACTATTTATTTAAGTT
1 ATTAAACTATT-TAAAAAAATTATTTAAGTT
*
73081987 ATTAAGCTATTTAAAAAAATTATTTAAGT
1 ATTAAACTATTTAAAAAAATTATTTAAGT
73082016 CATTGGACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (30 bp):
ATTAAACTATTTAAAAAAATTATTTAAGTT
Found at i:73085391 original size:10 final size:11
Alignment explanation
Indices: 73085375--73085406 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
73085365 CTTAAAAAGG
73085375 AGAAAAAAAAA
1 AGAAAAAAAAA
73085386 AGAAAAAAAAA
1 AGAAAAAAAAA
73085397 AGAAGAAAAA
1 AGAA-AAAAA
73085407 CTTAGAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:73096111 original size:16 final size:16
Alignment explanation
Indices: 73096090--73096135 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
73096080 TGCAACAACC
73096090 AAGAAATATTATAAAG
1 AAGAAATATTATAAAG
* *
73096106 AAGAAAAAGTTAAAAAG
1 AAGAAATA-TTATAAAG
*
73096123 CAGAAATATTATA
1 AAGAAATATTATA
73096136 CTAACCAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.13, T:0.22
Consensus pattern (16 bp):
AAGAAATATTATAAAG
Found at i:73100870 original size:41 final size:40
Alignment explanation
Indices: 73100764--73100873 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 40
73100754 CGGATAGTTT
* *
73100764 GAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCAAGCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGCC
** ** * * *
73100803 GAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGCC
73100841 GAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 GAAGTAATAGT-TGACACCCAGTGTCTCATCGA
73100874 CTCAAGGTCG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 10 0.19
39 5 0.09
40 3 0.06
41 17 0.31
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGCC
Found at i:73102141 original size:45 final size:44
Alignment explanation
Indices: 73102066--73102169 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 44
73102056 TTTTCTTTTC
*
73102066 TTTCTTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCTTT-CTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
73102111 TTTCTTTCTTTCTCCCTTCTCTGT-TTTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTC-CT-TCTCTGTTTCGTTTTGCTCTCTG
73102156 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
73102170 TTCTTTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 7 0.13
45 36 0.68
46 10 0.19
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (44 bp):
TTTCTTTCTTTCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:73102197 original size:5 final size:5
Alignment explanation
Indices: 73102181--73102212 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
73102171 TCTTTGTCAT
73102181 ATATA TATATA ATATA ATATA ATATA ATATA A
1 ATATA -ATATA ATATA ATATA ATATA ATATA A
73102213 AATATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:73103865 original size:12 final size:12
Alignment explanation
Indices: 73103850--73103889 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
73103840 GATATCCCAG
73103850 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
73103862 AGAATATCCCAG
1 AGAAAATCCAAA
73103874 AGAAAATCCAAA
1 AGAAAATCCAAA
73103886 AGAA
1 AGAA
73103890 GAATATCACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:73103873 original size:24 final size:24
Alignment explanation
Indices: 73103841--73103889 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
73103831 GAGATCGATG
73103841 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
73103865 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
73103889 A
1 A
73103890 GAATATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCAAAAGA
Found at i:73104200 original size:13 final size:13
Alignment explanation
Indices: 73104182--73104209 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
73104172 GATAAAAGAG
73104182 CATATAGAATACC
1 CATATAGAATACC
73104195 CATATAGAATACC
1 CATATAGAATACC
73104208 CA
1 CA
73104210 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:73107352 original size:41 final size:40
Alignment explanation
Indices: 73107245--73107355 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 40
73107235 TCGGATAGTT
* *
73107245 CGAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCAAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
** ** * * *
73107284 CGAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
73107322 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
73107356 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 10 0.18
39 6 0.11
40 3 0.05
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
Found at i:73108623 original size:45 final size:44
Alignment explanation
Indices: 73108548--73108651 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 44
73108538 TTTTCTTTTC
*
73108548 TTTCTTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCTTT-CTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
73108593 TTTCTTTCTTTCTCCCTTCTCTGT-TTTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTC-CT-TCTCTGTTTCGTTTTGCTCTCTG
73108638 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
73108652 TTCTTTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 7 0.13
45 36 0.68
46 10 0.19
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (44 bp):
TTTCTTTCTTTCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:73108679 original size:5 final size:5
Alignment explanation
Indices: 73108663--73108694 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
73108653 TCTTTGTCAT
73108663 ATATA TATATA ATATA ATATA ATATA ATATA A
1 ATATA -ATATA ATATA ATATA ATATA ATATA A
73108695 AATATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:73113546 original size:23 final size:21
Alignment explanation
Indices: 73113487--73113547 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
73113477 TTAAAAGAAA
* *
73113487 ATTAATTATTGAAAATTTTTT
1 ATTAATTATTGTAAATTGTTT
* *
73113508 TTTAATTATTATTAAATGTGTTT
1 ATTAATTATT-GTAAAT-TGTTT
73113531 ATTAATTTATTGTAAAT
1 ATTAA-TTATTGTAAAT
73113548 ATATTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 9 0.29
22 4 0.13
23 13 0.42
24 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTAATTATTGTAAATTGTTT
Found at i:73122534 original size:19 final size:19
Alignment explanation
Indices: 73122493--73122532 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
73122483 TTGTAGGTGG
73122493 AAATTTATTTATCTAAATA
1 AAATTTATTTATCTAAATA
73122512 AAATTTATATT-T-TAAATA
1 AAATTTAT-TTATCTAAATA
73122530 AAA
1 AAA
73122533 ATATTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 9 0.45
20 2 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTATTTATCTAAATA
Found at i:73137865 original size:16 final size:16
Alignment explanation
Indices: 73137826--73137867 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
73137816 ATAATAAAAA
*
73137826 TATAATTTTATTATTTT
1 TATAAGTTT-TTATTTT
*
73137843 AAT-AGTTTTTATTTT
1 TATAAGTTTTTATTTT
73137858 TATAAGTTTT
1 TATAAGTTTT
73137868 AAAGGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.43
16 10 0.48
17 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATAAGTTTTTATTTT
Found at i:73139253 original size:17 final size:16
Alignment explanation
Indices: 73139215--73139248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
73139205 AGGTTTGAAA
73139215 TTTTTAATTAATTAAAT
1 TTTTTAATTAA-TAAAT
73139232 TTTTTAATTAA-AAAT
1 TTTTTAATTAATAAAT
73139247 TT
1 TT
73139249 ATTTTCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTAATTAATAAAT
Found at i:73143249 original size:2 final size:2
Alignment explanation
Indices: 73143242--73143276 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
73143232 TCTTGTTGTT
73143242 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
73143277 GTTAAAATGA
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:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:73147916 original size:22 final size:21
Alignment explanation
Indices: 73147890--73147933 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
73147880 TCAAAGAAAG
73147890 AGAAAAAAAGATACCAGAAAAA
1 AGAAAAAAA-ATACCAGAAAAA
* * *
73147912 AGAAACAAATTACCAGTAAAA
1 AGAAAAAAAATACCAGAAAAA
73147933 A
1 A
73147934 TAAATGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.09
Consensus pattern (21 bp):
AGAAAAAAAATACCAGAAAAA
Found at i:73150131 original size:12 final size:13
Alignment explanation
Indices: 73150114--73150143 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
73150104 TACGAAATAA
73150114 AAATTTAAA-ATC
1 AAATTTAAATATC
73150126 AAATTTAAATATC
1 AAATTTAAATATC
73150139 AAATT
1 AAATT
73150144 ATGACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTTAAATATC
Found at i:73155636 original size:27 final size:29
Alignment explanation
Indices: 73155595--73155652 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
73155585 CAGTTTTTTT
73155595 CCCCTTATCTATTTTT-AT-TTCAGATCC
1 CCCCTTATCTATTTTTCATATTCAGATCC
* *
73155622 CCCCTTATTTCTTTTTCCATATTCAGATCC
1 CCCCTTATCTATTTTT-CATATTCAGATCC
73155652 C
1 C
73155653 AAGTCCCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 14 0.54
29 2 0.08
30 10 0.38
ACGTcount: A:0.17, C:0.33, G:0.03, T:0.47
Consensus pattern (29 bp):
CCCCTTATCTATTTTTCATATTCAGATCC
Found at i:73155964 original size:70 final size:70
Alignment explanation
Indices: 73155871--73156010 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
73155861 TTTACAATCT
* * * *
73155871 TTCAAAAATATCTTATTGGAATAATGAAAGATTAATCTTTGTTCCCTTTAACAAACACCGTCGAT
1 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCGAT
73155936 AATGA
66 AATGA
73155941 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCGAT
1 TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCGAT
73156006 AATGA
66 AATGA
73156011 ACATAACAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (70 bp):
TTCAAAAATATCCTATTAGAATAATGAAAGAGTAATCTTTGTTCCCTTTAACAAACACCATCGAT
AATGA
Found at i:73157764 original size:18 final size:17
Alignment explanation
Indices: 73157723--73157757 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
73157713 TCTTTAAGAA
73157723 GAAAAAAATACTCAAAC
1 GAAAAAAATACTCAAAC
73157740 GAAAAAAATACTCAAAC
1 GAAAAAAATACTCAAAC
73157757 G
1 G
73157758 GTAAAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.17, G:0.09, T:0.11
Consensus pattern (17 bp):
GAAAAAAATACTCAAAC
Found at i:73165346 original size:6 final size:6
Alignment explanation
Indices: 73165335--73165368 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
73165325 TTCAGAAAAC
73165335 AATAAA AATAAAA AATAAAA AATAAA AATAAA AA
1 AATAAA AAT-AAA AAT-AAA AATAAA AATAAA AA
73165369 CCAATCTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:73165350 original size:7 final size:7
Alignment explanation
Indices: 73165338--73165368 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
73165328 AGAAAACAAT
73165338 AAAAATA
1 AAAAATA
73165345 AAAAATA
1 AAAAATA
73165352 AAAAAT-
1 AAAAATA
73165358 AAAAATA
1 AAAAATA
73165365 AAAA
1 AAAA
73165369 CCAATCTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:73165353 original size:13 final size:12
Alignment explanation
Indices: 73165330--73165368 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
73165320 TCCCTTTCAG
*
73165330 AAAACAATAAAA
1 AAAAAAATAAAA
73165342 ATAAAAAATAAAA
1 A-AAAAAATAAAA
73165355 AATAAAAATAAAA
1 AA-AAAAATAAAA
73165368 A
1 A
73165369 CCAATCTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.08
13 22 0.92
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:73178214 original size:12 final size:12
Alignment explanation
Indices: 73178184--73178223 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
73178174 CAATCTAGGA
73178184 TTAGAATTT-GAT
1 TTAG-ATTTCGAT
*
73178196 TTTGATTTCGAT
1 TTAGATTTCGAT
73178208 TTAGATTTCGAT
1 TTAGATTTCGAT
73178220 TTAG
1 TTAG
73178224 GGTTATTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (12 bp):
TTAGATTTCGAT
Found at i:73178431 original size:16 final size:16
Alignment explanation
Indices: 73178406--73178442 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
73178396 ACTGATCTTT
73178406 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
73178422 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
73178438 ATTGT
1 ATTGT
73178443 ATGAATGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:73178486 original size:34 final size:34
Alignment explanation
Indices: 73178384--73178488 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
73178374 ATTCTATGAA
*
73178384 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
* * * *
73178418 TGCCATTGT----TTGTATCTGTCA-T-TGTATGA-A
1 TGCCATTATCAAACTG-ATCT-TTATTGTGTAT-ATC
73178448 TGCCATTATCAAACTGATCTTTATTGTGTATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
73178482 TGCCATT
1 TGCCATT
73178489 GTTTGTATCT
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 14 0.27
31 6 0.12
32 4 0.08
33 6 0.12
34 22 0.42
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTGTATATC
Found at i:73178612 original size:62 final size:64
Alignment explanation
Indices: 73178360--73178747 Score: 518
Period size: 62 Copynumber: 6.2 Consensus size: 64
73178350 TATTTTGATG
** * * *
73178360 TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* ** * *
73178424 TGTTTGTATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
** * *
73178488 TGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * * * *
73178552 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAATTGATATTTATTATGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* *
73178614 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * *
73178676 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGTCAT
1 TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
73178738 TGTTTGTATC
1 TGTTTGTATC
73178748 CAGGCTCCTA
Statistics
Matches: 306, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
62 164 0.54
63 2 0.01
64 140 0.46
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTAAATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
Found at i:73179042 original size:15 final size:15
Alignment explanation
Indices: 73179022--73179065 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
73179012 GAAGAAAATA
73179022 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
*
73179037 TGTCTGGTAGTGAAG
1 TGTCTGGTAGTGATG
*
73179052 TATCTGGTAGTGAT
1 TGTCTGGTAGTGAT
73179066 AGTGATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.18, C:0.07, G:0.36, T:0.39
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:73180811 original size:43 final size:43
Alignment explanation
Indices: 73180709--73180886 Score: 204
Period size: 43 Copynumber: 4.2 Consensus size: 43
73180699 TTGCTGATCA
* * * *
73180709 CATGCAGTGATTGTTGGAAAGCTATTGAGT-TTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
73180751 TATGCAGTGATTA-TTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGA-TAGTTGGAAAGCTGTTGACTATTTTTTAATATG
73180794 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * * *
73180837 CATACAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
73180877 CATGCGATGA
1 CATGCAATGA
73180887 GTTTTTTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 28 0.24
41 1 0.01
42 25 0.21
43 65 0.55
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (43 bp):
CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:73180878 original size:83 final size:84
Alignment explanation
Indices: 73180709--73180886 Score: 225
Period size: 83 Copynumber: 2.1 Consensus size: 84
73180699 TTGCTGATCA
* * * * * *
73180709 CATGCAGTGATTGTTGGAAAGCTATTGAGTTTTTTTAATATGTATGCAGTGATTATTGGAAAGTT
1 CATGCAATGATAGTTGGAAAGCTATTGACTTTTTTTAATATGCATACAATGATTATTGG-AAGTT
73180774 GTTGACTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
* * *
73180794 CATGCAATGATAGTTGGAAAGCTGTTGACTATTTTTTAATATGCATACAATGATTGTTGG-TG-T
1 CATGCAATGATAGTTGGAAAGCTATTGACT-TTTTTTAATATGCATACAATGATTATTGGAAGTT
*
73180857 GTTGCCTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
*
73180877 CATGCGATGA
1 CATGCAATGA
73180887 GTTTTTTTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
83 29 0.36
84 1 0.01
85 26 0.32
86 25 0.31
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (84 bp):
CATGCAATGATAGTTGGAAAGCTATTGACTTTTTTTAATATGCATACAATGATTATTGGAAGTTG
TTGACTATTTTTTAATATG
Found at i:73181572 original size:21 final size:21
Alignment explanation
Indices: 73181548--73181596 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
73181538 TGTCCGAACC
*
73181548 CAGCAAGAGGCTACCCCAAGT
1 CAGCAAGAGGCTACCCCAACT
*
73181569 CAGCAAGAGGGTACCCCAACT
1 CAGCAAGAGGCTACCCCAACT
*
73181590 CAACAAG
1 CAGCAAG
73181597 GTGCCCCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.22, T:0.08
Consensus pattern (21 bp):
CAGCAAGAGGCTACCCCAACT
Found at i:73182117 original size:56 final size:56
Alignment explanation
Indices: 73182026--73182137 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
73182016 TTATCATATT
* *
73182026 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
73182082 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
73182138 GCAATTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 49 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:73182718 original size:20 final size:23
Alignment explanation
Indices: 73182693--73182739 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
73182683 TATCCATTTT
73182693 TTCTCTT-CTCCTT-T-TTCTTC
1 TTCTCTTCCTCCTTCTCTTCTTC
*
73182713 TTCTCTTCCTGCTTCTCTTCTTC
1 TTCTCTTCCTCCTTCTCTTCTTC
73182736 TTCT
1 TTCT
73182740 TCTTTTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 5 0.22
22 1 0.04
23 10 0.43
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (23 bp):
TTCTCTTCCTCCTTCTCTTCTTC
Found at i:73182742 original size:26 final size:27
Alignment explanation
Indices: 73182697--73182747 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
73182687 CATTTTTTCT
*
73182697 CTTCTCCTTTTTCTTCTTCTCTTCCTG
1 CTTCTCCTTCTTCTTCTTCTCTTCCTG
*
73182724 CTTCT-CTTCTTCTTCTTCTTTTCC
1 CTTCTCCTTCTTCTTCTTCTCTTCC
73182748 AAACCCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (27 bp):
CTTCTCCTTCTTCTTCTTCTCTTCCTG
Found at i:73182743 original size:12 final size:11
Alignment explanation
Indices: 73182693--73182739 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
73182683 TATCCATTTT
*
73182693 TTCTCTTCTCC
1 TTCTCTTCTTC
73182704 TT-T-TTCTTC
1 TTCTCTTCTTC
*
73182713 TTCTCTTCCTGC
1 TTCTCTT-CTTC
73182725 TTCTCTTCTTC
1 TTCTCTTCTTC
73182736 TTCT
1 TTCT
73182740 TCTTTTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 7 0.23
10 2 0.07
11 11 0.37
12 10 0.33
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:73185394 original size:52 final size:51
Alignment explanation
Indices: 73185317--73185418 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
73185307 CTTCTCCTTA
* * * *
73185317 CTTATCTTACATCACTTGTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTCGTTTTGAAACA-A-AAAATTGCTGCAAAGCTAAAGC
73185369 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
73185419 TATCCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 5 0.11
51 14 0.31
52 26 0.58
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (51 bp):
CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAGC
Found at i:73185820 original size:21 final size:21
Alignment explanation
Indices: 73185794--73185835 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
73185784 AAATAACAGA
73185794 GCAGACAAGGAAACCGAGTCT
1 GCAGACAAGGAAACCGAGTCT
73185815 GCAGACAAGGAAACCGAGTCT
1 GCAGACAAGGAAACCGAGTCT
73185836 ATTACCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.10
Consensus pattern (21 bp):
GCAGACAAGGAAACCGAGTCT
Found at i:73187703 original size:13 final size:13
Alignment explanation
Indices: 73187685--73187745 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
73187675 CTTAAATTTT
73187685 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
73187698 TCAAAAGTACTTT
1 TCAAAAGCACTTC
* *
73187711 TCCATAGCACTTC
1 TCAAAAGCACTTC
* *
73187724 TCAAAAGCAATTT
1 TCAAAAGCACTTC
73187737 TCAAAAGCA
1 TCAAAAGCA
73187746 TTGCCAAACT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:73187745 original size:26 final size:26
Alignment explanation
Indices: 73187682--73187745 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
73187672 ACACTTAAAT
* *
73187682 TTTTCAAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGCAA
* *
73187708 TTTTCCATAGCACTTCTCAAAAGCAA
1 TTTTCAAAAGCACTTCTCAAAAGCAA
73187734 TTTTCAAAAGCA
1 TTTTCAAAAGCA
73187746 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAA
Found at i:73194814 original size:16 final size:18
Alignment explanation
Indices: 73194779--73194818 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
73194769 GAATACTTAT
73194779 TAAAATAAAATATAAGAG
1 TAAAATAAAATATAAGAG
73194797 TAAAATAAAATA-AA-AG
1 TAAAATAAAATATAAGAG
73194813 TAAAAT
1 TAAAAT
73194819 TCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
TAAAATAAAATATAAGAG
Found at i:73203573 original size:6 final size:6
Alignment explanation
Indices: 73203562--73203596 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
73203552 AAAGATGGTT
73203562 GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG GTGGG
1 GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG GTGGG
73203597 AGAGTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (6 bp):
GTGGGG
Found at i:73205737 original size:14 final size:15
Alignment explanation
Indices: 73205711--73205739 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
73205701 GATTTAGCAC
73205711 TTGAAGTAAACGGGA
1 TTGAAGTAAACGGGA
73205726 TTGAAG-AAACGGGA
1 TTGAAGTAAACGGGA
73205740 GGACGTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (15 bp):
TTGAAGTAAACGGGA
Found at i:73209661 original size:9 final size:9
Alignment explanation
Indices: 73209647--73209678 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
73209637 AACTTGGTGC
73209647 ATTTTGTTT
1 ATTTTGTTT
73209656 ATTTTGTTT
1 ATTTTGTTT
73209665 ATTTTGTTT
1 ATTTTGTTT
73209674 ATTTT
1 ATTTT
73209679 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:73213991 original size:28 final size:29
Alignment explanation
Indices: 73213960--73214015 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
73213950 TATTATTATT
*
73213960 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
73213988 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
73214016 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:73215812 original size:37 final size:39
Alignment explanation
Indices: 73215753--73215848 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
73215743 CGGATAGATT
* * * *
73215753 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
73215790 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
73215829 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
73215849 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:73217213 original size:9 final size:9
Alignment explanation
Indices: 73217199--73217230 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
73217189 AACTTGGTGC
73217199 ATTTTGTTT
1 ATTTTGTTT
73217208 ATTTTGTTT
1 ATTTTGTTT
73217217 ATTTTGTTT
1 ATTTTGTTT
73217226 ATTTT
1 ATTTT
73217231 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:73219907 original size:15 final size:16
Alignment explanation
Indices: 73219881--73219915 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
73219871 AAGAGAGAGA
73219881 AAAACAAACACTCAAC
1 AAAACAAACACTCAAC
73219897 AAAAC-AACACTCAAC
1 AAAACAAACACTCAAC
73219912 AAAA
1 AAAA
73219916 TTACATCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACAAACACTCAAC
Found at i:73223458 original size:21 final size:21
Alignment explanation
Indices: 73223434--73223475 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
73223424 GTTACCCTTG
*
73223434 ATTATAAGTTTTAATAATTTT
1 ATTATAAGTTCTAATAATTTT
* *
73223455 ATTATAGGTTCTAATTATTTT
1 ATTATAAGTTCTAATAATTTT
73223476 TTTTGACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTATAAGTTCTAATAATTTT
Found at i:73224591 original size:16 final size:17
Alignment explanation
Indices: 73224570--73224612 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
73224560 TTGAGACAAG
73224570 AATAAATTT-TTAATTA
1 AATAAATTTATTAATTA
73224586 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
73224604 AA-AAATTTA
1 AATAAATTTA
73224613 AATTAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Done.