Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 208 of 255
Found at i:69593990 original size:27 final size:26
Alignment explanation
Indices: 69593934--69594032 Score: 146
Period size: 26 Copynumber: 3.8 Consensus size: 26
69593924 GAGGAAGTGC
*
69593934 AAAAAGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
69593960 AAAAGGGCTTATGCCCCCGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
69593986 AAAAAGGGCTTATGCCCCAGTTTACCG
1 -AAAAGGGCTTATGCCCCAGTTTATCG
69594013 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
69594033 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.15
26 33 0.50
27 23 0.35
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:69594236 original size:42 final size:42
Alignment explanation
Indices: 69594177--69594268 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
69594167 TAGTCTCCCC
** * *
69594177 AAATGGGCTTGCATACATTC-ATTGGTATTTCATGTGATGTTG
1 AAATGGGCTTGCATACA-TCAATTGACATTACATGTGATATTG
69594219 AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
69594261 AAATGGGC
1 AAATGGGC
69594269 CTATAGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.04
42 43 0.96
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
Found at i:69594367 original size:31 final size:31
Alignment explanation
Indices: 69594292--69594399 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
69594282 CGTTTACAGT
* * *
69594292 AAAGGTTTCAGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
69594323 AAAGGC-TCTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GGCCCAGTGAAATGATTTATGA
* * *
69594354 AAAGGCTTCGGCCCAGT-AACTG-TTAAACG-
1 AAAGGCTTCGGCCCAGTGAAATGATT-TATGA
69594383 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
69594400 ATATGTCAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.29
30 7 0.11
31 38 0.58
32 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:69596625 original size:27 final size:28
Alignment explanation
Indices: 69596595--69596694 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
69596585 TTTAGTTTAC
69596595 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* *
69596622 TAAAAATACTGAAATACCC-TAGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
69596649 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
69596676 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
69596695 CCAATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 8 0.13
27 53 0.84
28 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:69596844 original size:81 final size:81
Alignment explanation
Indices: 69596700--69596899 Score: 249
Period size: 81 Copynumber: 2.5 Consensus size: 81
69596690 TACCCCCAAT
* * * *
69596700 TTACATAATTACCGTTTTACCC-CAATTTACATAATTACCATTTCACCCCCGATTTACATAATTA
1 TTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTCACCCCCGATTTACAGAATTA
*
69596764 CTATTTTACCCTCGAT
66 CTATTTTACCCTCGAC
* * * * * * * *
69596780 TTATAGAGTTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTA
1 TTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTCACCCCCGATTTACAGAATTA
*
69596845 CTATTTTACCCTTGAC
66 CTATTTTACCCTCGAC
**
69596861 TTACAAAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAC
69596900 TAAAATACCC
Statistics
Matches: 101, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 19 0.19
81 82 0.81
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
TTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTCACCCCCGATTTACAGAATTA
CTATTTTACCCTCGAC
Found at i:69596856 original size:27 final size:27
Alignment explanation
Indices: 69596698--69596901 Score: 221
Period size: 27 Copynumber: 7.6 Consensus size: 27
69596688 AGTACCCCCA
* ** *
69596698 ATTTACATAATTACCGTTTTACCC-CA
1 ATTTACAGAATTACTATTTTACCCTCG
* * * *
69596724 ATTTACATAATTACCATTTCACCCCCG
1 ATTTACAGAATTACTATTTTACCCTCG
*
69596751 ATTTACATAATTACTATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
* * **
69596778 ATTTATAGAGTTACCGTTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
**
69596805 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
* *
69596832 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTATTTTACCCTCG
* *
69596859 ACTTACAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
*
69596886 ATTTACAAAATTACTA
1 ATTTACAGAATTACTA
69596902 AAATACCCTT
Statistics
Matches: 155, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.14
27 133 0.86
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACTATTTTACCCTCG
Found at i:69596908 original size:27 final size:27
Alignment explanation
Indices: 69596797--69597045 Score: 133
Period size: 27 Copynumber: 9.2 Consensus size: 27
69596787 GTTACCGTTT
* ****
69596797 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
69596824 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
69596851 TACCCTTGACTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
69596878 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
69596905 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
69596932 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** *
69596959 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
69596986 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
69597013 CACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
69597040 TACCCT
1 TACCCT
69597046 TGACTTTTTA
Statistics
Matches: 181, Mismatches: 37, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 180 0.99
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:69596923 original size:54 final size:54
Alignment explanation
Indices: 69596813--69597017 Score: 162
Period size: 54 Copynumber: 3.8 Consensus size: 54
69596803 CGATTTACAG
* * *** ** **
69596813 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGACTTACAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
* *
69596867 AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
*** * * * *
69596921 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCATTTTACCCTCGA-TTTATAAAATTACTAAAATACCCTTGGTTTGTAA
** * * * *
69596975 AATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAACACCC
1 AATTACC-ATTTTACCCTCGATTTATAAAATTACTAAAATACCC
69597018 CTGATTTACA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 121 0.96
55 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
Found at i:69596925 original size:81 final size:81
Alignment explanation
Indices: 69596700--69596926 Score: 197
Period size: 81 Copynumber: 2.8 Consensus size: 81
69596690 TACCCCCAAT
* * * * ** * * *
69596700 TTACATAATTACCGTTTTACCC-CAATTTACATAATTACC-ATTTCACCCCCGATTTACATAATT
1 TTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAAT-ACCCTCGATTTATAAAATT
*
69596763 ACTATTTTACCCTCGAT
65 ACTATTTTACCCTCGAC
* * * * * **** *
69596780 TTATAGAGTTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTA
1 TTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTA
*
69596845 CTATTTTACCCTTGAC
66 CTATTTTACCCTCGAC
* * * * *
69596861 TTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTA
1 TTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTA
69596926 C
66 C
69596927 CAAAATACCC
Statistics
Matches: 119, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
80 19 0.16
81 97 0.82
82 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTA
CTATTTTACCCTCGAC
Found at i:69596963 original size:81 final size:79
Alignment explanation
Indices: 69596878--69597120 Score: 202
Period size: 81 Copynumber: 3.0 Consensus size: 79
69596868 ATTACTATTT
* *
69596878 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTTA-AAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GTT
69596943 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** * *** * *
69596959 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATT
1 TACCCTTGATTT-AAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTT
*
69597024 -TACAAAGTTACAAAAA
65 GTA-AAA-TTACCAAAA
* ** ** *
69597040 TACCCTTGACTTTTTAAAAATTA-TGGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 TACCCTTGA---TTTAAAAATTACT-GAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-
* *
69597104 GTTTGTAGATTTACCAA
61 GTTTGTAAAATTACCAA
69597121 GACACCTTGG
Statistics
Matches: 123, Mismatches: 30, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
79 2 0.02
80 6 0.05
81 66 0.54
83 40 0.33
84 7 0.06
85 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (79 bp):
TACCCTTGATTTAAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTTG
TAAAATTACCAAAA
Found at i:69597041 original size:54 final size:53
Alignment explanation
Indices: 69596878--69597101 Score: 173
Period size: 54 Copynumber: 4.1 Consensus size: 53
69596868 ATTACTATTT
* ** *
69596878 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGG-TT-TACAAATTACCAAAA
* ** *
69596932 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACCAAAA
* * * *
69596986 TACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTACAAAGTTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACCAAAA
* * * *** * **
69597040 TACCCTTGACTTTTTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCAAAATACCCTTGGTTTAC-AAATTACCAAAA
69597096 TACCCT
1 TACCCT
69597102 TGGTTTGTAG
Statistics
Matches: 135, Mismatches: 27, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 85 0.63
55 8 0.06
56 32 0.24
57 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACCAAAA
Found at i:69597089 original size:27 final size:26
Alignment explanation
Indices: 69597052--69597107 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
69597042 CCCTTGACTT
69597052 TTTAAAAATTA-TGGAAATACCATTGG
1 TTTAAAAATTACT-GAAATACCATTGG
*
69597078 TTTACAAAATTACTGAAATACCCTTGG
1 TTTA-AAAATTACTGAAATACCATTGG
69597105 TTT
1 TTT
69597108 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTACTGAAATACCATTGG
Found at i:69597191 original size:27 final size:27
Alignment explanation
Indices: 69597161--69597247 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
69597151 ACCTCTATTA
*
69597161 GGTAAAGAGACTGTAAAGTCCCTGTAG
1 GGTAAAGAGACTGTAAAGCCCCTGTAG
69597188 GGTAAAGAGACTGTAAAGCCCCTGTAG
1 GGTAAAGAGACTGTAAAGCCCCTGTAG
* *
69597215 GGTAAAGTGACTGTAATA-CCCCTGTAT
1 GGTAAAGAGACTGTAA-AGCCCCTGTAG
69597242 GGTAAA
1 GGTAAA
69597248 ATGACGAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (27 bp):
GGTAAAGAGACTGTAAAGCCCCTGTAG
Found at i:69598149 original size:25 final size:26
Alignment explanation
Indices: 69598052--69598149 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
69598042 GAGGAAGTGC
69598052 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
69598078 AAAAGGGCTTATGCCCCTGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69598104 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
69598130 ACAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
69598150 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.15
26 55 0.85
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:69598359 original size:42 final size:42
Alignment explanation
Indices: 69598294--69598385 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
69598284 TAGTCTCCCC
* * ** *
69598294 AAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
69598336 AAATGGGCTTGCATACGTCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
69598378 AAATGGGC
1 AAATGGGC
69598386 CTATAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:69598454 original size:31 final size:31
Alignment explanation
Indices: 69598409--69598487 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
69598399 CGTTTACAGT
*
69598409 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
69598440 AAAGGC-TCTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GGCCCAGTGAAATGATTTATGA
69598471 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
69598488 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 2 0.05
31 40 0.91
32 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:69600252 original size:50 final size:50
Alignment explanation
Indices: 69600183--69600298 Score: 209
Period size: 50 Copynumber: 2.4 Consensus size: 50
69600173 TTTCTATATT
69600183 TTTATA-AAATTTTTA-AATATTTTTCTATATTTTTCTATTTTCTATTAA
1 TTTATATAAATTTTTATAATATTTTTCTATATTTTTCTATTTTCTATTAA
*
69600231 TTTATATAAATTTATATAATATTTTTCTATATTTTTCTATTTTCTATTAA
1 TTTATATAAATTTTTATAATATTTTTCTATATTTTTCTATTTTCTATTAA
69600281 TTTATATAAATTTTTATA
1 TTTATATAAATTTTTATA
69600299 CTCTTTATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 6 0.09
49 8 0.12
50 50 0.78
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (50 bp):
TTTATATAAATTTTTATAATATTTTTCTATATTTTTCTATTTTCTATTAA
Found at i:69600260 original size:40 final size:40
Alignment explanation
Indices: 69600209--69600295 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
69600199 ATATTTTTCT
69600209 ATATTTTTCTAT-TTTCTAT-TAATTTATATAAATTTATATA
1 ATATTTTTCTATATTT-T-TCTAATTTATATAAATTTATATA
* * *
69600249 ATATTTTTCTATATTTTTCTATTTTCTATTAATTTATATA
1 ATATTTTTCTATATTTTTCTAATTTATATAAATTTATATA
69600289 A-ATTTTT
1 ATATTTTT
69600296 ATACTCTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 7 0.17
40 32 0.76
41 3 0.07
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (40 bp):
ATATTTTTCTATATTTTTCTAATTTATATAAATTTATATA
Found at i:69600293 original size:60 final size:60
Alignment explanation
Indices: 69600180--69600298 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 60
69600170 ATGTTTCTAT
* * * *
69600180 ATTTTTATAAAATTTTTAAATATTTTTCTATATTTTTCTATTTTCTATTAATTTATATAA
1 ATTTATATAAAATTTTTAAATATTTTTCTATATTTTTCTAATTTATATAAATTTATATAA
* ** *
69600240 ATTTATATAATATTTTTCTATATTTTTCTAT-TTTCTAT-TAATTTATATAAATTTTTATA
1 ATTTATATAAAATTTTTAAATATTTTTCTATATTT-T-TCTAATTTATATAAATTTATATA
69600299 CTCTTTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
59 3 0.06
60 45 0.92
61 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (60 bp):
ATTTATATAAAATTTTTAAATATTTTTCTATATTTTTCTAATTTATATAAATTTATATAA
Found at i:69600298 original size:10 final size:10
Alignment explanation
Indices: 69600155--69600298 Score: 66
Period size: 10 Copynumber: 14.4 Consensus size: 10
69600145 TTTATTTATA
69600155 TATATAATTTT
1 TATA-AATTTT
*
69600166 TAT-AATGTT
1 TATAAATTTT
* *
69600175 TCTATATTTT
1 TATAAATTTT
69600185 TATAAAATTTT
1 TAT-AAATTTT
69600196 TA-AATATTTT
1 TATAA-ATTTT
* *
69600206 TCTATATTTT
1 TATAAATTTT
*
69600216 TCT--ATTTT
1 TATAAATTTT
* *
69600224 CTATTAATTTA
1 -TATAAATTTT
*
69600235 TATAAATTTA
1 TATAAATTTT
69600245 TATAATATTTT
1 TATAA-ATTTT
* *
69600256 TCTATATTTT
1 TATAAATTTT
*
69600266 TCT--ATTTT
1 TATAAATTTT
* *
69600274 CTATTAATTTA
1 -TATAAATTTT
69600285 TATAAATTTT
1 TATAAATTTT
69600295 TATA
1 TATA
69600299 CTCTTTATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.10
9 13 0.12
10 54 0.52
11 27 0.26
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (10 bp):
TATAAATTTT
Found at i:69603031 original size:14 final size:14
Alignment explanation
Indices: 69603012--69603042 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
69603002 CTGGATAAAA
69603012 TGTATTGAATAGGT
1 TGTATTGAATAGGT
69603026 TGTATTGAATAGGT
1 TGTATTGAATAGGT
69603040 TGT
1 TGT
69603043 TATATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TGTATTGAATAGGT
Found at i:69603396 original size:12 final size:12
Alignment explanation
Indices: 69603381--69603413 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
69603371 AGCACACGTG
69603381 CGTGTGGCAGGC
1 CGTGTGGCAGGC
69603393 CGTGTGGCAGGC
1 CGTGTGGCAGGC
69603405 CGTGTGGCA
1 CGTGTGGCA
69603414 CAAGTCTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.48, T:0.18
Consensus pattern (12 bp):
CGTGTGGCAGGC
Found at i:69609431 original size:31 final size:31
Alignment explanation
Indices: 69609388--69609451 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
69609378 CCTTTTCATA
*
69609388 TTTCATAATTCATAACACTGGGTCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
69609419 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
69609450 TT
1 TT
69609452 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:69609723 original size:46 final size:47
Alignment explanation
Indices: 69609665--69609760 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
69609655 CCTAGCCTCT
*
69609665 TTTAATAGCTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
**
69609711 TTTAATAACTGGGGCATAAGCCCTTTTAATAGTTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
69609758 TTT
1 TTT
69609761 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:69609747 original size:24 final size:24
Alignment explanation
Indices: 69609644--69609761 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
69609634 GCTTTATCAT
*
69609644 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
69609669 ATAGCTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
69609692 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
69609715 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
**
69609739 ATAGTTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
69609762 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 45 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:69609833 original size:9 final size:9
Alignment explanation
Indices: 69609819--69609875 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
69609809 ATCTCGTGTG
69609819 CATATCATA
1 CATATCATA
*
69609828 CATATCATGTG
1 CATATCA--TA
69609839 CATATCATA
1 CATATCATA
* *
69609848 CATGTCATGTG
1 CATATCA--TA
69609859 CATATCATA
1 CATATCATA
69609868 CATATCAT
1 CATATCAT
69609876 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:69609838 original size:20 final size:20
Alignment explanation
Indices: 69609815--69609877 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
69609805 GAACATCTCG
69609815 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
69609835 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
69609855 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
69609875 TGT
1 TGT
69609878 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:69614765 original size:41 final size:41
Alignment explanation
Indices: 69614708--69614789 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
69614698 ATAATAATAA
69614708 AACATAGTTTTAGACCTAATATACGACATTTGAGAAGCCTT
1 AACATAGTTTTAGACCTAATATACGACATTTGAGAAGCCTT
69614749 AACATAGTTTTAGACCTAATATACGACATTTGAGAAGCCTT
1 AACATAGTTTTAGACCTAATATACGACATTTGAGAAGCCTT
69614790 TATTTAAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (41 bp):
AACATAGTTTTAGACCTAATATACGACATTTGAGAAGCCTT
Found at i:69614824 original size:31 final size:31
Alignment explanation
Indices: 69614789--69614856 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
69614779 TGAGAAGCCT
* *
69614789 TTATTTAAGTACTTTCAAAAAGT-TTTGACCC
1 TTATTTAAGCACTTTCAAAAA-TATCTGACCC
* *
69614820 TTATTTGAGCACTTTCATAAATATCTGACCC
1 TTATTTAAGCACTTTCAAAAATATCTGACCC
69614851 TTATTT
1 TTATTT
69614857 GACCATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (31 bp):
TTATTTAAGCACTTTCAAAAATATCTGACCC
Found at i:69624660 original size:41 final size:41
Alignment explanation
Indices: 69624603--69624685 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
69624593 GTCTGCCAGT
69624603 ATCCTACCGCCTCTGCCGATTGGGTTTAACCCATTCCAGAA
1 ATCCTACCGCCTCTGCCGATTGGGTTTAACCCATTCCAGAA
*
69624644 ATCCTACTGCCTCTGCCGATTGGGTTTAACCCATTCCAGAA
1 ATCCTACCGCCTCTGCCGATTGGGTTTAACCCATTCCAGAA
69624685 A
1 A
69624686 CTATCTTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (41 bp):
ATCCTACCGCCTCTGCCGATTGGGTTTAACCCATTCCAGAA
Found at i:69629181 original size:6 final size:6
Alignment explanation
Indices: 69629170--69629226 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
69629160 TCACAATAAA
* * *** *
69629170 AAAATT AAAATT AAAATT AAAACT AAAGTT ATCTTT AAATTT AAAA-T
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
69629217 AAAATT AAAA
1 AAAATT AAAA
69629227 ATATATCATA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:69668254 original size:55 final size:55
Alignment explanation
Indices: 69668152--69668278 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
69668142 GTCCTTAGCT
* *
69668152 CGTGTGCAACACTGACTTCAACACAAGGCCATGGCACACATCCGTGTGAG-CTGCC
1 CGTGTACAACACTGACTTCAACACAAGGCCATGGCACACATCCGTGTG-GCCTACC
* * * * * * *
69668207 CGTGTACGATACTGACTTTAAGACACGGCCATGGCACAC-GCTTGTGTGGCCTACC
1 CGTGTACAACACTGACTTCAACACAAGGCCATGGCACACATC-CGTGTGGCCTACC
69668262 CGTGTACAACACTGACT
1 CGTGTACAACACTGACT
69668279 AAAAAGTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 2 0.03
55 57 0.97
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (55 bp):
CGTGTACAACACTGACTTCAACACAAGGCCATGGCACACATCCGTGTGGCCTACC
Found at i:69669243 original size:47 final size:47
Alignment explanation
Indices: 69669066--69669358 Score: 228
Period size: 47 Copynumber: 6.2 Consensus size: 47
69669056 AGACAAGGTT
* * *
69669066 TTACACTGGCTA-GCATCATCGAGGCCGATGCCATCTCCCAGACATAGTT
1 TTACACTGGC-ACTCATCATCGAGGCCGATG-CATGTCCCAGACAT-GTC
* * * * * * *
69669115 TTATACTAGCTCTCGTAT-ATACG-TGCTGATGGATGTCCCAGGCATGTC
1 TTACACTGGCACTC--ATCAT-CGAGGCCGATGCATGTCCCAGACATGTC
* * * * * * *
69669163 TTACACTAGCA--CAAC-TCTTA-GCTGATGCGTGTCCAAGACACGTC
1 TTACACTGGCACTCATCATC-GAGGCCGATGCATGTCCCAGACATGTC
69669207 TTACACTGGCTA-TCATCATCGAGGCCGATGCATGTCCCAGACATGTC
1 TTACACTGGC-ACTCATCATCGAGGCCGATGCATGTCCCAGACATGTC
* *
69669254 TTACACTGGCACTCATC-TCTACGCCGATGCCATGTCCCAGACATGGTC
1 TTACACTGGCACTCATCATCGAGGCCGATG-CATGTCCCAGACAT-GTC
* * *
69669302 TTATACTGGCACTCATAAT-GTGGCCGATGCATGTCCCAGACATGTC
1 TTACACTGGCACTCATCATCGAGGCCGATGCATGTCCCAGACATGTC
69669348 TTACACTGGCA
1 TTACACTGGCA
69669359 TACAAGAAAT
Statistics
Matches: 195, Mismatches: 34, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 30 0.15
45 1 0.01
46 29 0.15
47 65 0.33
48 36 0.18
49 21 0.11
50 8 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
TTACACTGGCACTCATCATCGAGGCCGATGCATGTCCCAGACATGTC
Found at i:69669334 original size:94 final size:92
Alignment explanation
Indices: 69669089--69669358 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 92
69669079 CATCATCGAG
* * * * * * *
69669089 GCCGATGCCATCTCCCAGACATAGTTTTATACTAGCTCTCGTATATACGT-GCTGATGGATGTCC
1 GCCGATGCCATGTCCCAGACATAGTCTTATACTGGCACTC--ATA-ATGTGGCCGATGCATGTCC
* *
69669153 CAGGCATGTCTTACACTAGCACAACTCTTA
63 CAGACATGTCTTACACTGGCACAACTCTTA
* * * * * * *
69669183 GCTGATG-CGTGTCCAAGACA-CGTCTTACACTGGCTA-TCATCATCGAGGCCGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATAGTCTTATACTGGC-ACTCATAAT-GTGGCCGATGCATGTCCC
*
69669245 AGACATGTCTTACACTGGCAC-TCATCTCTA
64 AGACATGTCTTACACTGGCACAAC-TCT-TA
*
69669275 CGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATAGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCA
69669340 GACATGTCTTACACTGGCA
65 GACATGTCTTACACTGGCA
69669359 TACAAGAAAT
Statistics
Matches: 143, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
89 1 0.01
90 4 0.03
91 35 0.24
92 14 0.10
93 16 0.11
94 55 0.38
95 18 0.13
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATAGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTGGCACAACTCTTA
Found at i:69675719 original size:55 final size:55
Alignment explanation
Indices: 69675639--69675759 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
69675629 AGCTCATGTG
* *
69675639 CAACACTGACTTCAACACACAGCCATGGCACATGCCCGTGTGACCTGCCCGTGTA
1 CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCGTGTA
* * * * * * * *
69675694 CGATACTGACTTTAAGACACGGCCATGGTATACGCCCGTGTGGCCTACCCGTGTA
1 CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCGTGTA
69675749 CAACACTGACT
1 CAACACTGACT
69675760 AAAAAGTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (55 bp):
CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCGTGTA
Found at i:69676772 original size:47 final size:47
Alignment explanation
Indices: 69676674--69676797 Score: 126
Period size: 47 Copynumber: 2.6 Consensus size: 47
69676664 CCGATACGTG
** * *
69676674 TCCCAAACACATCTTACACTGGCTA-TCATCATCGAGGCCGATGCATG
1 TCCCAAACATGTCTTACACTGGC-ACTCATCATCGACGCCGATGCATC
* *
69676721 TCCCAAACATGTCTTACACTGGCACTTATC-TCTACGCCGATGCCATC
1 TCCCAAACATGTCTTACACTGGCACTCATCATCGACGCCGATG-CATC
* * *
69676768 TCCCAGACATGGTCTTATACTAGCACTCAT
1 TCCCAAACAT-GTCTTACACTGGCACTCAT
69676798 AATGTGGCCG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 11 0.17
47 37 0.58
48 16 0.25
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (47 bp):
TCCCAAACATGTCTTACACTGGCACTCATCATCGACGCCGATGCATC
Found at i:69683732 original size:68 final size:68
Alignment explanation
Indices: 69683653--69683795 Score: 286
Period size: 68 Copynumber: 2.1 Consensus size: 68
69683643 CTAATAAGAT
69683653 TATGCCTATAGAAAATAGGATAAGAAATGTTTATATGGTTTATTTTGACGATTTGCATGATTCTT
1 TATGCCTATAGAAAATAGGATAAGAAATGTTTATATGGTTTATTTTGACGATTTGCATGATTCTT
69683718 TCA
66 TCA
69683721 TATGCCTATAGAAAATAGGATAAGAAATGTTTATATGGTTTATTTTGACGATTTGCATGATTCTT
1 TATGCCTATAGAAAATAGGATAAGAAATGTTTATATGGTTTATTTTGACGATTTGCATGATTCTT
69683786 TCA
66 TCA
69683789 TATGCCT
1 TATGCCT
69683796 TGTTGCTAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (68 bp):
TATGCCTATAGAAAATAGGATAAGAAATGTTTATATGGTTTATTTTGACGATTTGCATGATTCTT
TCA
Found at i:69690090 original size:20 final size:20
Alignment explanation
Indices: 69690067--69690107 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69690057 TAAGAAAATA
69690067 TTTAGATACCTTAGAAACAC
1 TTTAGATACCTTAGAAACAC
69690087 TTTAGATACCTTAGAAACAC
1 TTTAGATACCTTAGAAACAC
69690107 T
1 T
69690108 CCTAGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (20 bp):
TTTAGATACCTTAGAAACAC
Found at i:69696352 original size:27 final size:26
Alignment explanation
Indices: 69696322--69696498 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
69696312 AAATTGTGCG
*
69696322 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTA
* *
69696349 GCACTAAGTGTGCGAAATGAATATG-A
1 GCACTAAGTGTGCG-ATTGACTATGTA
* **
69696375 TGCACTAAGTGTGCGAATTGACCATGCG
1 -GCACTAAGTGTGCG-ATTGACTATGTA
69696403 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTA
* * *
69696431 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTA
* *
69696458 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTA
*
69696485 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69696499 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTA
Found at i:69696441 original size:82 final size:81
Alignment explanation
Indices: 69696318--69696477 Score: 232
Period size: 82 Copynumber: 2.0 Consensus size: 81
69696308 GATTAAATTG
* * *
69696318 TGCGGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTA
1 TGCGGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTA
69696382 AGTGTGCGAATTGACCA
65 AGTGTGCGAATTGACCA
** *
69696399 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTA
1 TGCGGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTA
*
69696464 AGTGTGCGAGTTGA
65 AGTGTGCGAATTGA
69696478 TTATATAGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
81 22 0.31
82 48 0.69
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
TGCGGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAA
GTGTGCGAATTGACCA
Found at i:69696489 original size:82 final size:81
Alignment explanation
Indices: 69696322--69696498 Score: 212
Period size: 82 Copynumber: 2.2 Consensus size: 81
69696312 AAATTGTGCG
* * *
69696322 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
* *
69696387 GCGAATTGACCATGCG
66 GCGAATTGACCATACA
** *
69696403 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** *
69696467 GTGCGAGTTGATTATATA
64 GTGCGAATTGACCATACA
*
69696485 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69696499 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATACA
Found at i:69704532 original size:27 final size:26
Alignment explanation
Indices: 69704502--69704678 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
69704492 AAATTGTGCG
*
69704502 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTA
* *
69704529 GCACTAAGTGTGCGAAATGAATATG-A
1 GCACTAAGTGTGCG-ATTGACTATGTA
* **
69704555 TGCACTAAGTGTGCGAATTGACCATGCG
1 -GCACTAAGTGTGCG-ATTGACTATGTA
69704583 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTA
* * *
69704611 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTA
* *
69704638 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTA
*
69704665 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69704679 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTA
Found at i:69704621 original size:82 final size:81
Alignment explanation
Indices: 69704498--69704657 Score: 232
Period size: 82 Copynumber: 2.0 Consensus size: 81
69704488 GATTAAATTG
* * *
69704498 TGCGGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTA
1 TGCGGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTA
69704562 AGTGTGCGAATTGACCA
65 AGTGTGCGAATTGACCA
** *
69704579 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTA
1 TGCGGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTA
*
69704644 AGTGTGCGAGTTGA
65 AGTGTGCGAATTGA
69704658 TTATATAGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
81 22 0.31
82 48 0.69
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
TGCGGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAA
GTGTGCGAATTGACCA
Found at i:69704669 original size:82 final size:81
Alignment explanation
Indices: 69704502--69704678 Score: 212
Period size: 82 Copynumber: 2.2 Consensus size: 81
69704492 AAATTGTGCG
* * *
69704502 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
* *
69704567 GCGAATTGACCATGCG
66 GCGAATTGACCATACA
** *
69704583 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** *
69704647 GTGCGAGTTGATTATATA
64 GTGCGAATTGACCATACA
*
69704665 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69704679 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATACA
Found at i:69719673 original size:16 final size:16
Alignment explanation
Indices: 69719652--69719683 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69719642 CTGATTTTGG
69719652 GGTTAGTCAAAACAGT
1 GGTTAGTCAAAACAGT
69719668 GGTTAGTCAAAACAGT
1 GGTTAGTCAAAACAGT
69719684 AGTTTTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
GGTTAGTCAAAACAGT
Found at i:69729010 original size:21 final size:21
Alignment explanation
Indices: 69728986--69729043 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
69728976 TGATGCTGGG
69728986 AGGATGTCATTTGATGCACCA
1 AGGATGTCATTTGATGCACCA
* *
69729007 AGGATGTCTTTTGATGCAGCA
1 AGGATGTCATTTGATGCACCA
* *
69729028 AGAATGTCATGTGATG
1 AGGATGTCATTTGATG
69729044 ATCCCAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AGGATGTCATTTGATGCACCA
Found at i:69732145 original size:11 final size:11
Alignment explanation
Indices: 69732129--69732154 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69732119 AAAAAAAAAG
69732129 AATAATAATAA
1 AATAATAATAA
69732140 AATAATAATAA
1 AATAATAATAA
69732151 AATA
1 AATA
69732155 GGAGTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:69732306 original size:10 final size:9
Alignment explanation
Indices: 69732256--69732336 Score: 67
Period size: 9 Copynumber: 8.8 Consensus size: 9
69732246 TGTGTATATA
69732256 TATAATTTT
1 TATAATTTT
*
69732265 TATAATTTG
1 TATAATTTT
* *
69732274 TACAACTTT
1 TATAATTTT
*
69732283 T-TGATTATT
1 TATAATT-TT
69732292 TATAATTTCT
1 TATAATTT-T
69732302 TATAATTTT
1 TATAATTTT
*
69732311 TAGTAATTAT
1 TA-TAATTTT
69732321 TAT-ATTTT
1 TATAATTTT
69732329 TAATAATT
1 T-ATAATT
69732337 ATCTAAGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
8 7 0.12
9 25 0.45
10 24 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:69733906 original size:15 final size:15
Alignment explanation
Indices: 69733888--69733969 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 15
69733878 TTTTAAAGTT
69733888 TATAATTTTAAATAA
1 TATAATTTTAAATAA
*
69733903 TAT-A-TTCAAATAA
1 TATAATTTTAAATAA
69733916 TTATAATTAAATTAAAATAA
1 -TATAATT---TT-AAATAA
*
69733936 -ATAATTTTTAAAGT-T
1 TATAA-TTTTAAA-TAA
69733951 TATAATTTTAAATAA
1 TATAATTTTAAATAA
69733966 TATA
1 TATA
69733970 TATTCGAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 22
0.67 0.05 0.28
Matches are distributed among these distances:
13 8 0.15
14 5 0.10
15 18 0.35
16 8 0.15
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
TATAATTTTAAATAA
Found at i:69733944 original size:63 final size:65
Alignment explanation
Indices: 69733876--69734003 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
69733866 ATGATTAATT
*
69733876 ATTTTTAAAGTTTATAATTTTAAAT-A-ATATATTCAAATAATTATAATTAAATTAAAATAAATA
1 ATTTTTAAAGTTTATAATTTTAAATAATATATATTCAAATAATTATAATTAAAATAAAATAAATA
*
69733939 ATTTTTAAAGTTTATAATTTTAAATAATATATATTCGAATAATTATAATTAAAATAAAATAAATA
1 ATTTTTAAAGTTTATAATTTTAAATAATATATATTCAAATAATTATAATTAAAATAAAATAAATA
69734004 TAAAATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 25 0.41
64 1 0.02
65 35 0.57
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (65 bp):
ATTTTTAAAGTTTATAATTTTAAATAATATATATTCAAATAATTATAATTAAAATAAAATAAATA
Found at i:69734027 original size:33 final size:32
Alignment explanation
Indices: 69733988--69734067 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
69733978 TAATTATAAT
*
69733988 TAAAATAAAATAAATATAAAATATAAA-TAGAT
1 TAAAATAAAATAAATATAAAAT-TAAATTAGAA
* *
69734020 TGAAAATAAAATAATATCTAAACTTAAATTAGAA
1 T-AAAATAAAATAA-ATATAAAATTAAATTAGAA
*
69734054 TAAACTAAAATAAA
1 TAAAATAAAATAAA
69734068 GCTTAAAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 27 0.66
34 12 0.29
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (32 bp):
TAAAATAAAATAAATATAAAATTAAATTAGAA
Found at i:69735035 original size:60 final size:60
Alignment explanation
Indices: 69734930--69735045 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
69734920 TAACACATGT
* ** * *
69734930 TTATACGATGTGGGTTCACCTTTATGACGGTGTGAACCAACATTGTGTGGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGACGGAATAAACCAACATTGTGTAGTCTCATAGAA
* * * *
69734990 TTATACGATGTGGGTTCGCCTATATGATGGAATAAACCTATATTGTGTAGTCTCAT
1 TTATACGATGTGGGTTCACCTATATGACGGAATAAACCAACATTGTGTAGTCTCAT
69735046 CGAAGGGTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (60 bp):
TTATACGATGTGGGTTCACCTATATGACGGAATAAACCAACATTGTGTAGTCTCATAGAA
Found at i:69735784 original size:66 final size:66
Alignment explanation
Indices: 69735638--69735785 Score: 260
Period size: 66 Copynumber: 2.2 Consensus size: 66
69735628 CCAAGCCGTA
* * *
69735638 TGCTAGGCCATGTAAAAACTGGAGGGTATACTGACTTGTGCCACATGGCCAAGCCACACGCCCAT
1 TGCTAGGCCATGTGAAAACTAGAGGGTATACTGACTTGTGCCACACGGCCAAGCCACACGCCCAT
69735703 G
66 G
*
69735704 TGCTAGGCCGTGTGAAAACTAGAGGGTATACTGACTTGTGCCACACGGCCAAGCCACACGCCCAT
1 TGCTAGGCCATGTGAAAACTAGAGGGTATACTGACTTGTGCCACACGGCCAAGCCACACGCCCAT
69735769 G
66 G
69735770 TGCTAGGCCATGTGAA
1 TGCTAGGCCATGTGAA
69735786 GCTACTGACT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (66 bp):
TGCTAGGCCATGTGAAAACTAGAGGGTATACTGACTTGTGCCACACGGCCAAGCCACACGCCCAT
G
Found at i:69752205 original size:13 final size:13
Alignment explanation
Indices: 69752183--69752215 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69752173 AAGGGTTTGT
69752183 TTAT-TAAACTAA
1 TTATCTAAACTAA
69752195 TTATCTAAACTAA
1 TTATCTAAACTAA
*
69752208 TTAACTAA
1 TTATCTAA
69752216 TTTACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:69762754 original size:119 final size:119
Alignment explanation
Indices: 69762543--69762782 Score: 399
Period size: 119 Copynumber: 2.0 Consensus size: 119
69762533 AAGGTAACAG
* * *
69762543 TCGAGCTTAGACTATAAACAAGCGCTTCTCAGGAGGCAACTCGAGTACTAACAATTTTAAATTAT
1 TCGAGCTTAGACTATAAACAAGCACTTCTCAGGAGACAACCCGAGTACTAACAATTTTAAATTAT
*
69762608 TTAAGTTTCAATTTTTAAACATCTAGGTCACTAACAGAGTCTTTGAGCACAAGT
66 TTAAATTTCAATTTTTAAACATCTAGGTCACTAACAGAGTCTTTGAGCACAAGT
* **
69762662 TCGAGCTTAGACTATAAACAAGCACTTCTCGGGAGACAACCCGAGTACTAACGGTTTTAAATTAT
1 TCGAGCTTAGACTATAAACAAGCACTTCTCAGGAGACAACCCGAGTACTAACAATTTTAAATTAT
* *
69762727 TTAAATTTCAATTTTTAAACATCTAGGTCACTAACAGAGTCTTTGATCACAGGT
66 TTAAATTTCAATTTTTAAACATCTAGGTCACTAACAGAGTCTTTGAGCACAAGT
69762781 TC
1 TC
69762783 CCAACTCCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 112 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (119 bp):
TCGAGCTTAGACTATAAACAAGCACTTCTCAGGAGACAACCCGAGTACTAACAATTTTAAATTAT
TTAAATTTCAATTTTTAAACATCTAGGTCACTAACAGAGTCTTTGAGCACAAGT
Found at i:69767263 original size:22 final size:23
Alignment explanation
Indices: 69767201--69767281 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
69767191 TAGCTCGTAT
* *
69767201 GAGCTTACCGTTTTAGCTCTTTG
1 GAGCTTACCGTTTCAGCTCTTCG
* *
69767224 GGGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTTCG
*
69767247 GAGCTTACCG-TTCAGCTCTTCA
1 GAGCTTACCGTTTCAGCTCTTCG
69767269 GAGCTTACCGTTT
1 GAGCTTACCGTTT
69767282 ATCAGCTCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.40
23 30 0.60
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTTCG
Found at i:69767470 original size:9 final size:9
Alignment explanation
Indices: 69767458--69767532 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 9
69767448 TAAGAGCTAT
*
69767458 ATGATTTAC
1 ATGAATTAC
69767467 ATGAATT--
1 ATGAATTAC
69767474 AT-AAGTTAC
1 ATGAA-TTAC
69767483 ATGAATTAC
1 ATGAATTAC
69767492 ATGAATTAC
1 ATGAATTAC
* *
69767501 ATGGATT-T
1 ATGAATTAC
*
69767509 ATG-A-TAT
1 ATGAATTAC
69767516 ATGAATTAC
1 ATGAATTAC
*
69767525 ATAAATTA
1 ATGAATTA
69767533 TGTGAGTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
6 3 0.06
7 9 0.17
8 4 0.07
9 36 0.67
10 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (9 bp):
ATGAATTAC
Found at i:69772584 original size:22 final size:22
Alignment explanation
Indices: 69772559--69772604 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
69772549 TTTTAATGAG
69772559 ATTAATAGTAGGAATGAGGAGT
1 ATTAATAGTAGGAATGAGGAGT
69772581 ATTAATAGTAGGAATGAGGAGT
1 ATTAATAGTAGGAATGAGGAGT
69772603 AT
1 AT
69772605 AAACTCCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.28
Consensus pattern (22 bp):
ATTAATAGTAGGAATGAGGAGT
Found at i:69791403 original size:9 final size:9
Alignment explanation
Indices: 69791389--69791414 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
69791379 GAGCAAGGAC
69791389 TGAATTGTA
1 TGAATTGTA
69791398 TGAATTGTA
1 TGAATTGTA
69791407 TGAATTGT
1 TGAATTGT
69791415 GAAATTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TGAATTGTA
Found at i:69792510 original size:50 final size:51
Alignment explanation
Indices: 69792434--69792555 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 51
69792424 TGGACCATTG
* *
69792434 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-AAGTG
1 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTA
* *
69792484 GTAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGACAAGTA
1 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTA
* *
69792535 AAAAGTGGTAGCTTCGGCTAC
1 ATAAGTGATAGCTTCGGCTAC
69792556 CTGATCAGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 42 0.66
51 22 0.34
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTA
Found at i:69792573 original size:31 final size:31
Alignment explanation
Indices: 69792535--69792648 Score: 192
Period size: 31 Copynumber: 3.7 Consensus size: 31
69792525 ATGACAAGTA
69792535 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
*
69792566 AAAAGTGGTAGCTTCTGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* *
69792597 AAAAATGGTAGCTCCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
*
69792628 AATAGTGGTAGCTTCGGCTAC
1 AAAAGTGGTAGCTTCGGCTAC
69792649 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
Found at i:69792659 original size:7 final size:7
Alignment explanation
Indices: 69792647--69792675 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
69792637 AGCTTCGGCT
69792647 ACAAGTG
1 ACAAGTG
69792654 ACAAGTG
1 ACAAGTG
69792661 ACAAGTG
1 ACAAGTG
69792668 ACAAGTG
1 ACAAGTG
69792675 A
1 A
69792676 TTTTCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:69792787 original size:49 final size:48
Alignment explanation
Indices: 69792682--69792821 Score: 158
Period size: 49 Copynumber: 2.9 Consensus size: 48
69792672 GTGATTTTCA
* ** * *
69792682 TATAAGACCATATCTGGGATATGGCATC-GGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGCTATGGCATCATATATGATATGTGCTACTG
*
69792729 TATAAGACCATATCTGGGCTATGGCATCAATATATGATATGTGATTAC-G
1 TATAAGACCATATCTGGGCTATGGCATC-ATATATGATATGTG-CTACTG
* *
69792778 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TATAAGACCATATCTGGGCTATGGCATC-ATATATG-ATATGTG
69792822 TAAGACTATA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 27 0.34
49 43 0.54
50 10 0.12
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (48 bp):
TATAAGACCATATCTGGGCTATGGCATCATATATGATATGTGCTACTG
Found at i:69792823 original size:42 final size:43
Alignment explanation
Indices: 69792777--69792891 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
69792767 ATGTGATTAC
*
69792777 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
69792819 GTGTAAGACTATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
69792861 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
69792892 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:69794736 original size:11 final size:11
Alignment explanation
Indices: 69794720--69794745 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69794710 ATCCACTTAT
69794720 ACTAGTGTAAA
1 ACTAGTGTAAA
69794731 ACTAGTGTAAA
1 ACTAGTGTAAA
69794742 ACTA
1 ACTA
69794746 AATTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (11 bp):
ACTAGTGTAAA
Found at i:69795254 original size:17 final size:18
Alignment explanation
Indices: 69795232--69795268 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
69795222 AAGTTCTTAA
69795232 ATATATTACTTA-TACTT
1 ATATATTACTTATTACTT
69795249 ATATATTACTTATTACTT
1 ATATATTACTTATTACTT
69795267 AT
1 AT
69795269 TTAGGTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATTACTTATTACTT
Found at i:69795888 original size:21 final size:21
Alignment explanation
Indices: 69795843--69795888 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
69795833 ATATTTGATA
* *
69795843 AATTATAATAATTACATTGTC
1 AATTAGAATAATTAAATTGTC
69795864 AATTAGAATAATTAAATCTGT-
1 AATTAGAATAATTAAAT-TGTC
69795885 AATT
1 AATT
69795889 GTTTAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (21 bp):
AATTAGAATAATTAAATTGTC
Found at i:69797341 original size:116 final size:118
Alignment explanation
Indices: 69797129--69797361 Score: 416
Period size: 116 Copynumber: 2.0 Consensus size: 118
69797119 TCTCATGGCC
**
69797129 AAATTGGGTAAGTTTCCTTGGCCCTTTTTAGTAATTTTGATATTTTTGAAATTGGGATAGCTTAA
1 AAATTGGGTAAGTTTCCTTGGCCCTTTTTAGTAATTTTGATATTTTTGAAACCGGGATAGCTTAA
69797194 CCTATCTATTTAGGGGATCAATTTGAGAAGTTATCAAAGTATTGAAAATGGGA
66 CCTATCTATTTAGGGGATCAATTTGAGAAGTTATCAAAGTATTGAAAATGGGA
69797247 AAATTGGGTAAGTTTCCTTGGCCCTTTTTAGTAA-TTTGATATTTTTG-AACCGGGATAGCTTAA
1 AAATTGGGTAAGTTTCCTTGGCCCTTTTTAGTAATTTTGATATTTTTGAAACCGGGATAGCTTAA
* *
69797310 TCTATCTATTTGGGGGATCAATTTGAGAAGTTATCAAAGTATTGAAAATGGG
66 CCTATCTATTTAGGGGATCAATTTGAGAAGTTATCAAAGTATTGAAAATGGG
69797362 TCATGGATGT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
116 64 0.58
117 13 0.12
118 34 0.31
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (118 bp):
AAATTGGGTAAGTTTCCTTGGCCCTTTTTAGTAATTTTGATATTTTTGAAACCGGGATAGCTTAA
CCTATCTATTTAGGGGATCAATTTGAGAAGTTATCAAAGTATTGAAAATGGGA
Found at i:69802689 original size:46 final size:44
Alignment explanation
Indices: 69802558--69802775 Score: 118
Period size: 46 Copynumber: 4.7 Consensus size: 44
69802548 ATATCTGTGC
* * **
69802558 CGATGCCATGTCCCAGACATAGTCTTACACTAACACATC-TC-GTGCC
1 CGATG-CATGTCCCAGACATA-TCTTACACTAGC-C-TCGTCTGAGGT
* ** * * *
69802604 CGATGCACGTCTTAGACATGTCTTACACTGGCTTACGTCTGGAGGT
1 CGATGCATGTCCCAGACATATCTTACACTAGCCT-CGTCT-GAGGT
* * *
69802650 CGAAGCATGTCCCAGACATATCTTACACTAGCACTCGTCTCA-AT
1 CGATGCATGTCCCAGACATATCTTACACTAGC-CTCGTCTGAGGT
* * * * *
69802694 GCCAGTGCCATGTCCCAGACATACTCTTACACTGGCTCTCATAATGTGGT
1 -CGA-TG-CATGTCCCAGACATA-TCTTACACTAGC-CTCGT-CTGAGGT
* *
69802744 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATATCTTACACTAGC
69802776 TCACACAAGT
Statistics
Matches: 129, Mismatches: 32, Indels: 22
0.70 0.17 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.10
45 14 0.11
46 50 0.39
47 30 0.23
48 17 0.13
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATATCTTACACTAGCCTCGTCTGAGGT
Found at i:69818058 original size:30 final size:30
Alignment explanation
Indices: 69818022--69818086 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
69818012 CAAGTAGCTG
** *
69818022 AAGCTAGTTTAAATCGCGTACTTAATGCCA
1 AAGCTAGTTTAAATCGCACACTCAATGCCA
*
69818052 AAGCTAGTTTAAATCGCACACTCAGTGCCA
1 AAGCTAGTTTAAATCGCACACTCAATGCCA
69818082 AAGCT
1 AAGCT
69818087 TTCGATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTCAATGCCA
Found at i:69818618 original size:17 final size:17
Alignment explanation
Indices: 69818596--69818630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
69818586 TCCATAATTT
69818596 ACCATTTAACAACACAA
1 ACCATTTAACAACACAA
*
69818613 ACCATTTAACAATACAA
1 ACCATTTAACAACACAA
69818630 A
1 A
69818631 ACTCATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (17 bp):
ACCATTTAACAACACAA
Found at i:69822741 original size:46 final size:46
Alignment explanation
Indices: 69822633--69822799 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 46
69822623 CAAGCGACGC
* * * * *
69822633 CATGTCTCAGACAGGTCTTACACTAGCT-TGTATATATCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-AAAGCTGATG
* * *
69822681 CATATCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-AAAGCTGATG
* * * *** *
69822727 CATGTCCCATACATGTCTTACATTAACTCTCATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAAGCTGATG
69822773 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
69822800 ACACATATCA
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 68 0.71
47 1 0.01
48 26 0.27
49 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAAGCTGATG
Found at i:69826299 original size:40 final size:40
Alignment explanation
Indices: 69826244--69826516 Score: 281
Period size: 40 Copynumber: 6.9 Consensus size: 40
69826234 GCCTTCAGTA
* *
69826244 GTACCAAAGTACAAATAAGGGCACGTATGTGCATTTAGGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTTAGGG
* ** *
69826284 GTACCGTAGTACAAATAGGGGCACAAATGTGCACTTTA-GA
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCA-TTTAGGG
* * * **
69826324 GCACTGAAGTACAAATAGGGGCACGTATGTGCATTCAATG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTTAGGG
*
69826364 GTACC-ACAGTACGAAA-A-GGGCATGTATGTGCATTTAGGG
1 GTACCGA-AGTAC-AAATAGGGGCACGTATGTGCATTTAGGG
* * * * *
69826403 GTA-CTAAGTACAAA-CGGTGGCACGTATATGCATTCAAGG
1 GTACCGAAGTACAAATAGG-GGCACGTATGTGCATTTAGGG
* *
69826442 GTACTGAAGTACAAACAGGGGCACGTATGTGC-TTTCAGGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTT-AGGG
69826482 GTACCGAAGTACAAATAGGGGCACGTATGTGCATT
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATT
69826517 CATACAATAA
Statistics
Matches: 189, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
37 3 0.02
38 7 0.04
39 48 0.25
40 120 0.63
41 11 0.06
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (40 bp):
GTACCGAAGTACAAATAGGGGCACGTATGTGCATTTAGGG
Found at i:69832870 original size:16 final size:16
Alignment explanation
Indices: 69832849--69832880 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69832839 CATTAGTTAA
69832849 TATGAAAAGTTATTAC
1 TATGAAAAGTTATTAC
69832865 TATGAAAAGTTATTAC
1 TATGAAAAGTTATTAC
69832881 CATAGGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
TATGAAAAGTTATTAC
Found at i:69840400 original size:17 final size:18
Alignment explanation
Indices: 69840367--69840400 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
69840357 ATGTGGCCTA
*
69840367 CCCGTGTGGGCCTACACG
1 CCCGTGTGGGCCCACACG
69840385 CCCGTGT-GGCCCACAC
1 CCCGTGTGGGCCCACAC
69840401 AGCCTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.44, G:0.29, T:0.15
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:69849487 original size:13 final size:12
Alignment explanation
Indices: 69849453--69849490 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
69849443 TTAATTTAGG
69849453 TTTA-GTTTTC-
1 TTTAGGTTTTCT
69849463 TTTAGGTTTTCT
1 TTTAGGTTTTCT
69849475 TTTAGGTTTTTCT
1 TTTAGG-TTTTCT
69849488 TTT
1 TTT
69849491 TCCATTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 6 0.24
12 6 0.24
13 9 0.36
ACGTcount: A:0.08, C:0.08, G:0.13, T:0.71
Consensus pattern (12 bp):
TTTAGGTTTTCT
Found at i:69850395 original size:20 final size:20
Alignment explanation
Indices: 69850372--69850431 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
69850362 TGGACAAGCC
*
69850372 ACCAGTATTGTAAATAAACT
1 ACCAGTATTGTAGATAAACT
* * * * *
69850392 ACCAGTACTATAGACAAGCC
1 ACCAGTATTGTAGATAAACT
69850412 ACCAGTATTGTAGATAAACT
1 ACCAGTATTGTAGATAAACT
69850432 TCAAGTAATG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (20 bp):
ACCAGTATTGTAGATAAACT
Found at i:69850448 original size:40 final size:40
Alignment explanation
Indices: 69850360--69850503 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
69850350 CACACTAGTT
* *
69850360 TGTGGACAAGCCACCAGTATTGTAAATAAACTACCAGTAC
1 TGTGGACAAGCCACCAGTATTGTAAATAAACTACAAGTAA
* * * *
69850400 TATAGACAAGCCACCAGTATTGTAGATAAACTTCAAGTAA
1 TGTGGACAAGCCACCAGTATTGTAAATAAACTACAAGTAA
* * * * * * *
69850440 TGTGGACAAGCTACCAGTGTTGCAAACAAGCTGC-AGTAT
1 TGTGGACAAGCCACCAGTATTGTAAATAAACTACAAGTAA
* *
69850479 TGTGGATAAGCCACCAATATT-TAAA
1 TGTGGACAAGCCACCAGTATTGTAAA
69850504 ACAAACTTCT
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
38 3 0.04
39 21 0.25
40 59 0.71
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
TGTGGACAAGCCACCAGTATTGTAAATAAACTACAAGTAA
Found at i:69855900 original size:40 final size:40
Alignment explanation
Indices: 69855843--69855932 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
69855833 TTTATATGCT
* * *
69855843 TTCAGAGGTACCGAAGTACAAAAAGGGGCATGTATGTGCA
1 TTCAGGGGTACCAAAGTACAAAAAGGGGCACGTATGTGCA
*
69855883 TTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
1 TTCAGGGGTACCAAAGTACAAAAAGGGGCACGTATGTGCA
69855923 TTCAGGGGTA
1 TTCAGGGGTA
69855933 TCGAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (40 bp):
TTCAGGGGTACCAAAGTACAAAAAGGGGCACGTATGTGCA
Found at i:69855928 original size:20 final size:20
Alignment explanation
Indices: 69855866--69855930 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
69855856 AAGTACAAAA
*
69855866 AGGGGCATGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
* ** * * **
69855886 AGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCATTC
69855906 AGGGGCACGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
69855926 AGGGG
1 AGGGG
69855931 TATCGAAATA
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (20 bp):
AGGGGCACGTATGTGCATTC
Found at i:69856715 original size:22 final size:21
Alignment explanation
Indices: 69856686--69856727 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
69856676 GATGACAAAG
* *
69856686 TTTATTTTGTTATTATTTTAC
1 TTTATTTTATTATTAATTTAC
69856707 TTTACTTTTATTATTAATTTA
1 TTTA-TTTTATTATTAATTTA
69856728 TAATTATACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATTTTATTATTAATTTAC
Found at i:69863140 original size:40 final size:40
Alignment explanation
Indices: 69863057--69863242 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
69863047 TTGAATGATG
* * * *
69863057 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
69863097 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69863137 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69863177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69863218 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69863243 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69863249 original size:80 final size:79
Alignment explanation
Indices: 69863110--69863275 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
69863100 GGACTAAGAT
* **
69863110 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
69863174 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
69863190 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
69863254 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
69863269 CCGAAGG
1 CCGAAGG
69863276 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:69868649 original size:46 final size:46
Alignment explanation
Indices: 69868597--69868772 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
69868587 TATTTGGACA
69868597 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
69868643 TCCGAACTCGTTGAGTTGAGTCCGGGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
69868688 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
69868736 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69868773 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:69868704 original size:93 final size:93
Alignment explanation
Indices: 69868595--69868765 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
69868585 GATATTTGGA
*
69868595 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
69868660 GAGTCCGGGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * *
69868688 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
69868753 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
69868766 CTTATGGGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:69871477 original size:30 final size:29
Alignment explanation
Indices: 69871443--69871499 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
69871433 ATAGTATCGT
69871443 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
69871473 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
69871500 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:69877072 original size:30 final size:29
Alignment explanation
Indices: 69877038--69877094 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
69877028 ATAGTATCGT
69877038 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
69877068 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
69877095 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:69881023 original size:40 final size:40
Alignment explanation
Indices: 69880966--69881183 Score: 304
Period size: 40 Copynumber: 5.5 Consensus size: 40
69880956 ACTCACTCAT
* *
69880966 TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
69881006 TGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
69881046 TGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
69881086 TGCCTTCGGGGC-TA---AGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
69881122 TGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAA
69881163 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
69881184 TTATCATCCA
Statistics
Matches: 160, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
36 32 0.20
37 2 0.01
39 3 0.02
40 95 0.59
41 24 0.15
42 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:69881137 original size:76 final size:78
Alignment explanation
Indices: 69880966--69881177 Score: 288
Period size: 76 Copynumber: 2.7 Consensus size: 78
69880956 ACTCACTCAT
* * * *
69880966 TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGAGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA--CAGGATAT
69881031 AGTAACTCGCACAAA
64 AGTAACTCGCACAAA
* *
69881046 TGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGGC-TA-AGGATATAG
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTACAGGATATAG
69881109 TAACTCGCACAAA
66 TAACTCGCACAAA
*
69881122 TGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTA
69881178 GCCCGGTTAT
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
75 1 0.01
76 49 0.41
77 14 0.12
78 6 0.05
79 2 0.02
80 47 0.39
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTACAGGATATAG
TAACTCGCACAAA
Found at i:69883245 original size:46 final size:46
Alignment explanation
Indices: 69883192--69883367 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 46
69883182 TATTTGGGCA
**
69883192 TCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
69883238 TCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
69883283 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
69883331 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGA-TTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
69883368 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:69883299 original size:93 final size:93
Alignment explanation
Indices: 69883188--69883360 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
69883178 CAGATATTTG
*
69883188 GGCATCCGAACTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-TCCGAACTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT-CGAACTCGTTGA
69883252 GTTGAGTCCGAATTCGTGAGATGTAACTA
65 GTTGAGTCCGAATTCGTGAGATGTAACTA
* * * *
69883281 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAG
*
69883346 TTGAGTCCGAGTTCG
66 TTGAGTCCGAATTCG
69883361 ATTATGGGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAG
TTGAGTCCGAATTCGTGAGATGTAACTA
Found at i:69888699 original size:14 final size:14
Alignment explanation
Indices: 69888680--69888727 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
69888670 AATCTATGCC
*
69888680 AATAAATACTAGAA
1 AATAAATACTAAAA
69888694 AATAAATCAC-AAAA
1 AATAAAT-ACTAAAA
* *
69888708 AATAAAGAATAAAA
1 AATAAATACTAAAA
69888722 AATAAA
1 AATAAA
69888728 AAATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 26 0.90
15 2 0.07
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (14 bp):
AATAAATACTAAAA
Found at i:69888720 original size:7 final size:7
Alignment explanation
Indices: 69888704--69888755 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
69888694 AATAAATCAC
69888704 AAAAAAT
1 AAAAAAT
*
69888711 AAAGAAT
1 AAAAAAT
69888718 AAAAAAT
1 AAAAAAT
69888725 AAAAAATT
1 AAAAAA-T
*
69888733 AATTAAAT
1 AA-AAAAT
69888741 -AAAAAT
1 AAAAAAT
69888747 -AAAAAT
1 AAAAAAT
69888753 AAA
1 AAA
69888756 TAAACCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 10 0.26
7 21 0.55
8 4 0.11
9 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:69891741 original size:28 final size:28
Alignment explanation
Indices: 69891676--69891826 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
69891666 GAGATTGGCG
* * * *
69891676 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
69891705 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69891733 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
69891761 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
69891789 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
69891816 CTGAGTGTGCG
1 CTAAGTGTGCG
69891827 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:69898713 original size:26 final size:26
Alignment explanation
Indices: 69898677--69898729 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
69898667 TTTAGCGGCG
*
69898677 CTTTCCCCACAAACGCCACTAAAAGT
1 CTTTACCCACAAACGCCACTAAAAGT
*
69898703 CTTTACCCACAAACGCCGCTAAAAGT
1 CTTTACCCACAAACGCCACTAAAAGT
69898729 C
1 C
69898730 ATGACCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.38, G:0.09, T:0.19
Consensus pattern (26 bp):
CTTTACCCACAAACGCCACTAAAAGT
Found at i:69898778 original size:43 final size:43
Alignment explanation
Indices: 69898703--69898819 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
69898693 CACTAAAAGT
* *
69898703 CTTTACCCACAAACGCCGCTAAAAGTCATGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCG
* *
69898746 CTTTTCCCACAAACGCCGCTTAAGGTCTTGACCTTTAGCGGCG
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCG
* * *
69898789 CTTTTCCCAAAAACGCCACTAAAGGTAATGA
1 CTTTTCCCACAAACGCCGCTAAAGGTCATGA
69898820 AATTTTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCG
Found at i:69898979 original size:14 final size:13
Alignment explanation
Indices: 69898951--69899004 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
69898941 ATTTTCTATT
*
69898951 AAAATTTAAACTA
1 AAAATTTAAAATA
69898964 AAAATATTAAAATA
1 AAAAT-TTAAAATA
* *
69898978 AAAATTTAGAATC
1 AAAATTTAAAATA
*
69898991 AAAA-CTAAAATA
1 AAAATTTAAAATA
69899003 AA
1 AA
69899005 CAATAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 15 0.44
14 12 0.35
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAATTTAAAATA
Found at i:69900456 original size:138 final size:137
Alignment explanation
Indices: 69900287--69900537 Score: 450
Period size: 138 Copynumber: 1.8 Consensus size: 137
69900277 TTTTAAAATT
69900287 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAA-TATAAAACCTAAAAACAA
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATG-TAATTATAAAACCTAAAAACAA
* *
69900351 TTTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTAAAAGC
65 TTTAATGCCAA-TTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGC
69900416 ATCCAGACG
129 ATCCAGACG
69900425 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
*
69900490 TTAATGCCAATTTTAAAGAGATTACATATGATTCTAAAATTCAAAACA
66 TTAATGCCAATTTTAAAGAAATTACATATGATTCTAAAATTCAAAACA
69900538 GGGACTCCAC
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
137 38 0.35
138 71 0.65
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.27
Consensus pattern (137 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTAATTATAAAACCTAAAAACAAT
TTAATGCCAATTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGTACTCCTAAAAGCAT
CCAGACG
Found at i:69902331 original size:19 final size:19
Alignment explanation
Indices: 69902307--69902346 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
69902297 AACGCCGTTA
69902307 TTGTTTATCTTTTGCGGCG
1 TTGTTTATCTTTTGCGGCG
69902326 TTGTTTATCTTTTGCGGCG
1 TTGTTTATCTTTTGCGGCG
69902345 TT
1 TT
69902347 TTTTCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.05, C:0.15, G:0.25, T:0.55
Consensus pattern (19 bp):
TTGTTTATCTTTTGCGGCG
Found at i:69902429 original size:27 final size:27
Alignment explanation
Indices: 69902399--69902473 Score: 64
Period size: 29 Copynumber: 2.7 Consensus size: 27
69902389 ATCCATTATT
*
69902399 TTATTTTAATATATATAAACTTTA-TCA
1 TTATTTTAATATAT-TAAACTATATTCA
*
69902426 TTATCTCTTAA-ATAATTTAAACTATATTGA
1 TTAT-T-TTAATAT-A-TTAAACTATATTCA
*
69902456 TAATTTTAATATATTAAA
1 TTATTTTAATATATTAAA
69902474 ACAATTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
27 9 0.23
28 8 0.21
29 16 0.41
30 6 0.15
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (27 bp):
TTATTTTAATATATTAAACTATATTCA
Found at i:69902470 original size:17 final size:18
Alignment explanation
Indices: 69902437--69902470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69902427 TATCTCTTAA
69902437 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
69902455 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
69902471 AAAACAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:69902690 original size:7 final size:7
Alignment explanation
Indices: 69902678--69902728 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
69902668 TTTCCAATAG
69902678 TAAACCC
1 TAAACCC
69902685 TAAA-CC
1 TAAACCC
69902691 TAAACCC
1 TAAACCC
**
69902698 TAAACTA
1 TAAACCC
69902705 TAAA-CC
1 TAAACCC
* *
69902711 TATATCC
1 TAAACCC
69902718 TAAACCC
1 TAAACCC
69902725 TAAA
1 TAAA
69902729 TATATATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:69902696 original size:13 final size:13
Alignment explanation
Indices: 69902678--69902728 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
69902668 TTTCCAATAG
69902678 TAAACCCTAAACC
1 TAAACCCTAAACC
69902691 TAAACCCTAAA-C
1 TAAACCCTAAACC
* *
69902703 TATAAACCTATATCC
1 TA-AACCCTA-AACC
69902718 TAAACCCTAAA
1 TAAACCCTAAA
69902729 TATATATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 18 0.58
14 7 0.23
15 3 0.10
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:69902728 original size:20 final size:20
Alignment explanation
Indices: 69902678--69902728 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
69902668 TTTCCAATAG
69902678 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
** * *
69902698 TAAACTATAAACCTATATCC
1 TAAACCCTAAACCTAAACCC
69902718 TAAACCCTAAA
1 TAAACCCTAAA
69902729 TATATATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:69902915 original size:14 final size:14
Alignment explanation
Indices: 69902896--69902934 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
69902886 GTAAACCAAA
*
69902896 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
69902910 AAACCATAAACTCT
1 AAACCAAAAACTCT
69902924 AAACCAAAAAC
1 AAACCAAAAAC
69902935 AATAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:69902997 original size:21 final size:22
Alignment explanation
Indices: 69902947--69902997 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
69902937 TAAACATTAT
**
69902947 ATCATAAACCCTTAAATCATGG
1 ATCATAAACCCTTAAATCATAA
*
69902969 A-CATTAAA-CCTTAAATCTTAA
1 ATCA-TAAACCCTTAAATCATAA
69902990 ATCATAAA
1 ATCATAAA
69902998 TTCTAAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ATCATAAACCCTTAAATCATAA
Found at i:69903570 original size:41 final size:41
Alignment explanation
Indices: 69903512--69903644 Score: 187
Period size: 41 Copynumber: 3.3 Consensus size: 41
69903502 CCTCGACCTA
** * * *
69903512 TAGCGGCGTTT-TTCCAAAAGCGTCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
69903552 TAGCGGCGTTTGGACCAAAAACGCCGTTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
69903593 TAGCGGCGTTTGGATCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
69903634 TTGCGGCGTTT
1 TAGCGGCGTTT
69903645 TATTGCAAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 11 0.13
41 72 0.87
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:69905841 original size:16 final size:17
Alignment explanation
Indices: 69905803--69905849 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
69905793 TTTATCATAG
69905803 AAATAAATATTATTTAATTA
1 AAATAAA-ATT-TTTAA-TA
69905823 AAATAAAATTTTTAA-A
1 AAATAAAATTTTTAATA
*
69905839 AAATAATATTT
1 AAATAAAATTT
69905850 ATTTTAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 11 0.42
18 5 0.19
19 3 0.12
20 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAAATTTTTAATA
Found at i:69907211 original size:66 final size:65
Alignment explanation
Indices: 69907088--69907211 Score: 142
Period size: 66 Copynumber: 1.9 Consensus size: 65
69907078 CGAATTGCTC
* * *
69907088 AACTTAAAGCGAAGGCAACACCGAGAGAAGTAGAGGCTCAAAGAAAATATGAAGAACTTTAGCTA
1 AACTTAAAGCGAAGGCAACACCGAGAGAAGCAGAGGC-CAAAAAAAACATGAAGAACTTTAGCTA
69907153 T
65 T
* * * * *
69907154 AACTTAAAGTGAAGGCAGCAGCGAGGGAAGCAGAGG-CAAGCAAAAAACATGACGAACT
1 AACTTAAAGCGAAGGCAACACCGAGAGAAGCAGAGGCCAA--AAAAAACATGAAGAACT
69907212 CCAGTTACAG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
64 3 0.06
66 45 0.94
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (65 bp):
AACTTAAAGCGAAGGCAACACCGAGAGAAGCAGAGGCCAAAAAAAACATGAAGAACTTTAGCTAT
Found at i:69911432 original size:16 final size:16
Alignment explanation
Indices: 69911407--69911438 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69911397 CTCTTAAAAG
*
69911407 CCTTATTTTCTTCTTT
1 CCTTAATTTCTTCTTT
69911423 CCTTAATTTCTTCTTT
1 CCTTAATTTCTTCTTT
69911439 GGCTGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (16 bp):
CCTTAATTTCTTCTTT
Found at i:69913069 original size:27 final size:27
Alignment explanation
Indices: 69913028--69913123 Score: 138
Period size: 27 Copynumber: 3.5 Consensus size: 27
69913018 GATTCTCTAT
* *
69913028 TGGGCTTAGGCCCACCTGATTCTATTAA
1 TGGGCTAAGG-CCACCTGATTCTGTTAA
*
69913056 TAGGCTAAGGCCACCTGATTCTGTTAA
1 TGGGCTAAGGCCACCTGATTCTGTTAA
*
69913083 TGGGCTAAGGCCACCTAATTCTGTTAA
1 TGGGCTAAGGCCACCTGATTCTGTTAA
*
69913110 TGGGTTAAGGCCAC
1 TGGGCTAAGGCCAC
69913124 TGGTACTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 54 0.87
28 8 0.13
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (27 bp):
TGGGCTAAGGCCACCTGATTCTGTTAA
Found at i:69918053 original size:26 final size:26
Alignment explanation
Indices: 69918024--69918108 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
69918014 ACATCTAATA
69918024 TTGATTCTGTATTGGGCTTA-GCTCAC
1 TTGATTCTGTATTGGGCTTAGGC-CAC
* * * *
69918050 TTGATTTTTTATTAGGTTTAGGCCCAC
1 TTGATTCTGTATTGGGCTTAGG-CCAC
* * *
69918077 CTGATTCTGTTAATGGGCTAAGGCCAC
1 TTGATTCTG-TATTGGGCTTAGGCCAC
69918104 TTGAT
1 TTGAT
69918109 ACTATTTCTG
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 16 0.36
27 18 0.41
28 10 0.23
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (26 bp):
TTGATTCTGTATTGGGCTTAGGCCAC
Found at i:69933560 original size:3 final size:3
Alignment explanation
Indices: 69933552--69933588 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
69933542 AAATTGGATG
69933552 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69933589 TCTTAGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:69934558 original size:6 final size:7
Alignment explanation
Indices: 69934541--69934566 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69934531 TAGGATTTAT
69934541 TTTTTTC
1 TTTTTTC
69934548 TTTTTTC
1 TTTTTTC
69934555 TTTTTTC
1 TTTTTTC
69934562 TTTTT
1 TTTTT
69934567 GGGTAGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:69934619 original size:18 final size:18
Alignment explanation
Indices: 69934598--69934648 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
69934588 ACAATTCTTT
69934598 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* * *
69934616 TCTCTTCATCTATTTTTTC
1 TCTCTTCTTCT-TTTCTCC
69934635 T-TCTTCTTCTTTTC
1 TCTCTTCTTCTTTTC
69934649 CTTTATAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 3 0.11
18 18 0.67
19 6 0.22
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:69935919 original size:28 final size:28
Alignment explanation
Indices: 69935879--69935994 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
69935869 GGAGGAAGCA
69935879 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
69935907 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
69935935 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
69935963 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
69935989 TTCTGG
1 TTCTGG
69935995 CAGCCATGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 66 0.85
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:69938530 original size:48 final size:48
Alignment explanation
Indices: 69938386--69938530 Score: 200
Period size: 48 Copynumber: 3.0 Consensus size: 48
69938376 ATATATACAC
* * **
69938386 ATCTCATACATATTTCAGATTAACCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
** * *
69938434 GGCTCATACATATTTCACATTAGCCTTTTGGCTTTACCACATAAATAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
* *
69938482 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
69938530 A
1 A
69938531 ACTTGTACAT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
Found at i:69944213 original size:43 final size:43
Alignment explanation
Indices: 69944107--69944220 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
69944097 CATATCCCGA
** * * *
69944107 ATATGGTCTTACATGTTGTCACATATCAATGCTAATAACCCAG
1 ATATGGTCTTACATGTAATCACATAACGATGCCAATAACCCAG
* *** * **
69944150 CTATGGTCTTACACAAAATCAAATAACGATGCCAATGTCCCAG
1 ATATGGTCTTACATGTAATCACATAACGATGCCAATAACCCAG
69944193 ATATGGTCTTACATGTAATCACATAACG
1 ATATGGTCTTACATGTAATCACATAACG
69944221 GGAATCCTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (43 bp):
ATATGGTCTTACATGTAATCACATAACGATGCCAATAACCCAG
Found at i:69947722 original size:27 final size:27
Alignment explanation
Indices: 69947593--69947779 Score: 172
Period size: 27 Copynumber: 7.0 Consensus size: 27
69947583 ACATACATCA
* * * *
69947593 CATAGGGGCAAAACAATCATCTTAGCAT
1 CATAAGGGCAAAACAGTCATTTTA-CCT
* *
69947621 -ATAAGGGCAAAACAGTCATTCTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
*
69947647 CATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
69947674 CATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
69947701 CATAAGGG-AAAAGCAG-CTATTTTAACC-
1 CATAAGGGCAAAA-CAGTC-ATTTT-ACCT
*
69947728 CATGAGGGCAAAACTA-TCATTTTA-CT
1 CATAAGGGCAAAAC-AGTCATTTTACCT
* *
69947754 CCATAA-GGCAAAACTGTCAATTTACC
1 -CATAAGGGCAAAACAGTCATTTTACC
69947780 ATGTAGGGGC
Statistics
Matches: 132, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
25 1 0.01
26 22 0.17
27 100 0.76
28 9 0.07
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCT
Found at i:69950523 original size:29 final size:29
Alignment explanation
Indices: 69950460--69950578 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 29
69950450 TACATACATG
* *
69950460 CATATGGCCCA-CTAAGCCCAA-TCTTATT
1 CATATGGCCCATCT-GGCCCAATTCATATT
* * *
69950488 CAAATGGTCCATCTGGCCCAGTTCATATT
1 CATATGGCCCATCTGGCCCAATTCATATT
* * *
69950517 CTTATGGCCCA-CTAGGCCTAATTCACATT
1 CATATGGCCCATCT-GGCCCAATTCATATT
* *
69950546 CATATGGCCCATCAGGCCCAAATCATATT
1 CATATGGCCCATCTGGCCCAATTCATATT
69950575 -ATAT
1 CATAT
69950579 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
28 20 0.28
29 50 0.70
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATCTGGCCCAATTCATATT
Done.