Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 274 of 318
Found at i:86836084 original size:69 final size:69
Alignment explanation
Indices: 86836008--86836146 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
86835998 TTAGAATTTT
*
86836008 ATTCTTAAATGTTGTTATATTAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
1 ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
86836073 AAGA
66 AAGA
* **
86836077 ATTCTTAAATGTTGTTATATCAAAATGTTACAAAATCAAAGTTAATGATTTGGAATTGAAAATAA
1 ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
86836142 AAGA
66 AAGA
86836146 A
1 A
86836147 AGAAAAAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (69 bp):
ATTCTTAAATGTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCAAAAATAA
AAGA
Found at i:86836603 original size:25 final size:25
Alignment explanation
Indices: 86836575--86836646 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 25
86836565 ATAAAATTAT
86836575 TAAATTGAGTAAAAGTTTAAATGTA
1 TAAATTGAGTAAAAGTTTAAATGTA
*
86836600 TAAA-TGAATAAAA--TT--A--T-
1 TAAATTGAGTAAAAGTTTAAATGTA
*
86836617 TAAATTGAGTGAAAGTTTAAATGTA
1 TAAATTGAGTAAAAGTTTAAATGTA
86836642 TAAAT
1 TAAAT
86836647 GAACATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 16
0.65 0.05 0.29
Matches are distributed among these distances:
17 4 0.11
18 8 0.22
20 3 0.08
22 3 0.08
24 9 0.25
25 9 0.25
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (25 bp):
TAAATTGAGTAAAAGTTTAAATGTA
Found at i:86836624 original size:42 final size:42
Alignment explanation
Indices: 86836565--86836649 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
86836555 TTTTAAAGAG
86836565 ATAAAATTATTAAATTGAGTAAAAGTTTAAATGTATAAATGA
1 ATAAAATTATTAAATTGAGTAAAAGTTTAAATGTATAAATGA
*
86836607 ATAAAATTATTAAATTGAGTGAAAGTTTAAATGTATAAATGA
1 ATAAAATTATTAAATTGAGTAAAAGTTTAAATGTATAAATGA
86836649 A
1 A
86836650 CATTTCAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (42 bp):
ATAAAATTATTAAATTGAGTAAAAGTTTAAATGTATAAATGA
Found at i:86849927 original size:2 final size:2
Alignment explanation
Indices: 86849920--86849956 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
86849910 ATTCCTGGTT
86849920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86849957 TATTTAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86851547 original size:11 final size:11
Alignment explanation
Indices: 86851525--86851561 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
86851515 TGGTAAACTG
86851525 ATTTTT-CACC
1 ATTTTTACACC
86851535 ATTTTTA-AGCC
1 ATTTTTACA-CC
86851546 ATTTTTACACC
1 ATTTTTACACC
86851557 ATTTT
1 ATTTT
86851562 GACATACGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.29
11 16 0.67
12 1 0.04
ACGTcount: A:0.24, C:0.22, G:0.03, T:0.51
Consensus pattern (11 bp):
ATTTTTACACC
Found at i:86853460 original size:16 final size:17
Alignment explanation
Indices: 86853441--86853479 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
86853431 CTTTATTTAC
86853441 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
86853457 TTAATATAATTATAATA
1 TTAATATAATTATAATA
86853474 -TAATAT
1 TTAATAT
86853480 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:86860303 original size:15 final size:15
Alignment explanation
Indices: 86860285--86860313 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86860275 TATTATTAAA
86860285 AATACATATATTTGT
1 AATACATATATTTGT
86860300 AATACATATATTTG
1 AATACATATATTTG
86860314 ATATTAAATA
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:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
AATACATATATTTGT
Found at i:86860400 original size:16 final size:15
Alignment explanation
Indices: 86860358--86860401 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
86860348 ATTTATTAAT
*
86860358 TAAATAATTATATTA
1 TAAATAATTATATGA
*
86860373 TAAGATATTTATATGA
1 TAA-ATAATTATATGA
86860389 TAAATAAATTATA
1 TAAAT-AATTATA
86860402 GAAATACAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (15 bp):
TAAATAATTATATGA
Found at i:86861774 original size:18 final size:18
Alignment explanation
Indices: 86861751--86861828 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
86861741 TAAATAAAGG
*
86861751 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGT
*
86861769 TACTGAATAATTAACTGT
1 TACTGAATAATTGACTGT
*
86861787 TACTGAATAAATGACTGT
1 TACTGAATAATTGACTGT
* * *
86861805 TACTGAATAAATGATTAT
1 TACTGAATAATTGACTGT
86861823 TACTGA
1 TACTGA
86861829 TTAACTGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:86861837 original size:18 final size:18
Alignment explanation
Indices: 86861786--86861845 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
86861776 TAATTAACTG
* *
86861786 TTACTGAATAAATGACTG
1 TTACTGAATAAATGATTA
86861804 TTACTGAATAAATGATTA
1 TTACTGAATAAATGATTA
* *
86861822 TTACTGATTAACTGATTA
1 TTACTGAATAAATGATTA
86861840 TTACTG
1 TTACTG
86861846 TTGACTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (18 bp):
TTACTGAATAAATGATTA
Found at i:86861909 original size:18 final size:17
Alignment explanation
Indices: 86861886--86861934 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
86861876 AACTGATTGT
*
86861886 TACTGAATATTGGACTAC
1 TACTGAATATTGGA-TAA
*
86861904 TACTGAATGTTTGGATAA
1 TACTGAAT-ATTGGATAA
86861922 TACTGAATATTGG
1 TACTGAATATTGG
86861935 TTATTACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 18 0.67
19 5 0.19
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (17 bp):
TACTGAATATTGGATAA
Found at i:86864178 original size:16 final size:17
Alignment explanation
Indices: 86864159--86864197 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
86864149 CTTTATTTAC
86864159 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
86864175 TTAATATAATTATAATA
1 TTAATATAATTATAATA
86864192 -TAATAT
1 TTAATAT
86864198 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:86867829 original size:132 final size:132
Alignment explanation
Indices: 86867652--86868260 Score: 576
Period size: 132 Copynumber: 4.6 Consensus size: 132
86867642 TATTTGAGTT
* * ** * * * *
86867652 AGATCGCAACTCTGAATAGCTTGTTGATTTAAGATCGCAACTGATATTGTCAAGGTTTGCTGATT
1 AGATTGCAACTCTGAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGATT
* *
86867717 TAAGATCGTAACCTAAGTTCATTCGATTT-AGAATCATGAACAAATTTTATTTGAGTTAGCTAAT
66 TAAGATCGCAACCTAAGTTCATTCGATTTAAG-ATCATGAACAAATTTTATTTGAGTTAGCTGAT
86867781 CTC
130 CTC
* * * * * ** * *
86867784 AAATTGCAACTCTGAACAACTAATTGATTTAATATCGCAGTTGATATTGTTAAACTTCACT-AGT
1 AGATTGCAACTCTGAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGA-T
* * *
86867848 TTAAGATCGCAACCTAAGTTCATTTGGTTTAAGATCGTGAACAAATTTTATTTGAGTTAGCTGAT
65 TTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGAT
86867913 CTC
130 CTC
* ** ** * ** * * *
86867916 ATATCACAACTCCAAATAGCTCGCTGATTTAAGATTGCAAATGATATTGTTAACGTTCACTGATT
1 AGATTGCAACTCTGAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGATT
* * * * * *
86867981 TAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAAAAAATTTTATTTGAGTTAGCTGATC
66 TAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGATC
86868046 TC
131 TC
* * * * * * * * *
86868048 GGATAGCAACT-TCAAACAGCTCACTGATTTAAGATTGCAATTGATATTATTAAGGCTCGTTGAT
1 AGATTGCAACTCT-GAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGAT
* * * ** * *
86868112 TTAAGACCGTAACCTAATTTCATTTTATTTAATATCATGAATAAATTTTATTTGAGTTAGCTGAT
65 TTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGAT
86868177 CTC
130 CTC
* * ** * * * * * *
86868180 AGATTGCAACTATGAACAACTGTTTGGTTTAAAATTACAGCTGATATTGTTAAAGTTAGCTAATT
1 AGATTGCAACTCTGAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGATT
*
86868245 TAAGGTCGCAACCTAA
66 TAAGATCGCAACCTAA
86868261 CTCTAGTTAA
Statistics
Matches: 386, Mismatches: 86, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
131 1 0.00
132 381 0.99
133 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (132 bp):
AGATTGCAACTCTGAACAGCTCATTGATTTAAGATTGCAACTGATATTGTTAAAGTTCGCTGATT
TAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGATC
TC
Found at i:86868136 original size:264 final size:264
Alignment explanation
Indices: 86867666--86868180 Score: 640
Period size: 264 Copynumber: 2.0 Consensus size: 264
86867656 CGCAACTCTG
* * * * ** * *
86867666 AATAGCTTGTTGATTTAAGATCGCAACTGATATTGTCAAGGTTTGCTGATTTAAGATCGTAACCT
1 AATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAACGTTCACTGATTTAAGATAGCAACCT
* * * *
86867731 AAGTTCATTCGATTTAGAATCATGAACAAATTTTATTTGAGTTAGCTAATCTCAAATTGCAACTC
66 AAGTTCATTCAATTTAAAATCATGAAAAAATTTTATTTGAGTTAGCTAATCTCAAATAGCAACTC
* * * * * *
86867796 TGAACAACTAATTGATTTAATATCGCAGTTGATATTGTTAAACTTCACTAGTTTAAGATCGCAAC
131 TAAACAACTAACTGATTTAAGATCGCAATTGATATTATTAAACTTCACTAGTTTAAGACCGCAAC
* *
86867861 CTAAGTTCATTTGGTTTAAGATCGTGAACAAATTTTATTTGAGTTAGCTGATCTCATATCACAAC
196 CTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGATCTCATATCACAAC
86867926 TCCA
261 TCCA
* * *
86867930 AATAGCTCGCTGATTTAAGATTGCAAATGATATTGTTAACGTTCACTGATTTAATATAGCAACCT
1 AATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAACGTTCACTGATTTAAGATAGCAACCT
* * **
86867995 AAGTTCATTCAATTTAAAATCGTGAAAAAATTTTATTTGAGTTAGCTGATCTCGGATAGCAACT-
66 AAGTTCATTCAATTTAAAATCATGAAAAAATTTTATTTGAGTTAGCTAATCTCAAATAGCAACTC
* * * * * * *
86868059 TCAAACAGCTCACTGATTTAAGATTGCAATTGATATTATTAAGGC-TC-GTTGATTTAAGACCGT
131 T-AAACAACTAACTGATTTAAGATCGCAATTGATATTATTAA-ACTTCACTAG-TTTAAGACCGC
* * * *
86868122 AACCTAATTTCATTTTATTTAATATCATGAATAAATTTTATTTGAGTTAGCTGATCTCA
193 AACCTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGATCTCA
86868181 GATTGCAACT
Statistics
Matches: 210, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
263 3 0.01
264 206 0.98
265 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (264 bp):
AATAGCTCGCTGATTTAAGATCGCAAATGATATTGTCAACGTTCACTGATTTAAGATAGCAACCT
AAGTTCATTCAATTTAAAATCATGAAAAAATTTTATTTGAGTTAGCTAATCTCAAATAGCAACTC
TAAACAACTAACTGATTTAAGATCGCAATTGATATTATTAAACTTCACTAGTTTAAGACCGCAAC
CTAAGTTCATTTGATTTAAGATCATGAACAAATTTTATTTGAGTTAGCTGATCTCATATCACAAC
TCCA
Found at i:86874114 original size:14 final size:14
Alignment explanation
Indices: 86874095--86874122 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
86874085 AGAGGGGTTC
86874095 GAGTTTAAGGTTTA
1 GAGTTTAAGGTTTA
86874109 GAGTTTAAGGTTTA
1 GAGTTTAAGGTTTA
86874123 AAATGTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GAGTTTAAGGTTTA
Found at i:86874624 original size:21 final size:23
Alignment explanation
Indices: 86874581--86874625 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
86874571 AATTGACATG
*
86874581 TAAATAATACATGTTAGAAATCA
1 TAAATAATACATGTCAGAAATCA
86874604 TAAA-AATACATGTCA-AAATCA
1 TAAATAATACATGTCAGAAATCA
86874625 T
1 T
86874626 GTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (23 bp):
TAAATAATACATGTCAGAAATCA
Found at i:86875691 original size:2 final size:2
Alignment explanation
Indices: 86875684--86875714 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86875674 AATTGTTTCC
86875684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86875715 TTTAAGGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86876005 original size:43 final size:43
Alignment explanation
Indices: 86875945--86876195 Score: 319
Period size: 43 Copynumber: 5.8 Consensus size: 43
86875935 TTTATTGGAA
*
86875945 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
86875988 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * * ***
86876031 AGAAGGGCCGCTAAAGGTCAAGCCTTTTAGCGGCGCTTT-TCCC
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGG
*
86876074 ACAAA-CGACGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGTGG
1 A-AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GG
* * * *
86876118 AGAAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCGCTTGTAGTG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGG
*
86876162 -AAAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
86876196 CTTTTTTTAC
Statistics
Matches: 181, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
42 3 0.02
43 138 0.76
44 39 0.22
45 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:86876179 original size:130 final size:129
Alignment explanation
Indices: 86875947--86876218 Score: 422
Period size: 130 Copynumber: 2.1 Consensus size: 129
86875937 TATTGGAAAA
86875947 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC
* * *
86876012 TTTTAGCGGCGTTTGTGGTAGAAGGGCCGCTAAAGGTCAA-GCCTTTTAGCGGCGCTTTTCCCAC
66 TTTTAGCGGCGCTTGTAGTAGAAGCGCCGCTAAAGGTCAATG-CTTTTAGCGGCGCTTTTCCCAC
* * *
86876076 AAACGACGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGTGGAGAAGCGCCGCTAAAGGTCAATG
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGGTCAAGG
***
86876141 CTTTTAGCGGCGCTTGTAGT-GAAAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCGCTTTTTTTA
65 CTTTTAGCGGCGCTTGTAGTAG-AAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCGCTTTTCCCA
86876205 C
129 C
86876206 AAACGCCGCTAAA
1 AAACGCCGCTAAA
86876219 TTTGGCATAT
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
129 39 0.30
130 90 0.69
131 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (129 bp):
AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC
TTTTAGCGGCGCTTGTAGTAGAAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCGCTTTTCCCAC
Found at i:86876611 original size:21 final size:21
Alignment explanation
Indices: 86876587--86876632 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
86876577 GCTCGTGCCT
*
86876587 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
86876608 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
86876629 CTGC
1 CTGC
86876633 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:86882299 original size:9 final size:9
Alignment explanation
Indices: 86882256--86882411 Score: 170
Period size: 9 Copynumber: 17.4 Consensus size: 9
86882246 TATTTAAGTA
*
86882256 TTATGTAAG
1 TTATATAAG
* *
86882265 TAATGTAAG
1 TTATATAAG
*
86882274 TTATAT-AT
1 TTATATAAG
*
86882282 TTATCTAAG
1 TTATATAAG
86882291 TTATATAAG
1 TTATATAAG
86882300 TTATATAAG
1 TTATATAAG
* *
86882309 TTATGTATG
1 TTATATAAG
86882318 TTATATAAG
1 TTATATAAG
*
86882327 TTATGTAAG
1 TTATATAAG
*
86882336 TTATATATG
1 TTATATAAG
86882345 TTATATAAG
1 TTATATAAG
*
86882354 TTATGTAAG
1 TTATATAAG
86882363 TTATATAAG
1 TTATATAAG
86882372 TTATATAAG
1 TTATATAAG
* *
86882381 TTATGTACG
1 TTATATAAG
* *
86882390 TTTTGTAAG
1 TTATATAAG
*
86882399 TTATATAAA
1 TTATATAAG
86882408 TTAT
1 TTAT
86882412 GATATCAAAT
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
8 6 0.05
9 116 0.95
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:86883605 original size:290 final size:290
Alignment explanation
Indices: 86882639--86883790 Score: 2288
Period size: 290 Copynumber: 4.0 Consensus size: 290
86882629 TTTACAAGTC
86882639 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
86882704 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
66 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
86882769 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
131 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
*
86882834 AGGGAGGATCCATTATATCTTGCAGCTCAATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
196 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
86882899 TTTGAATCTTTAAAATATTTAAATATTAAA
261 TTTGAATCTTTAAAATATTTAAATATTAAA
86882929 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
86882994 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
66 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
86883059 GATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
131 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
86883123 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
196 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
86883188 TTTGAATCTTTAAAATATTTAAATATTAAA
261 TTTGAATCTTTAAAATATTTAAATATTAAA
86883218 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
86883283 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
66 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
86883348 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
131 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
86883413 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
196 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
86883478 TTTGAATCTTTAAAATATTTAAATATTAAA
261 TTTGAATCTTTAAAATATTTAAATATTAAA
86883508 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
1 ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
86883573 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
66 TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
86883638 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
131 GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
86883703 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
196 AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
86883768 TTTGAATCTTTAAAATATTTAAA
261 TTTGAATCTTTAAAATATTTAAA
86883791 ACAAGGTTGG
Statistics
Matches: 860, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
289 288 0.33
290 572 0.67
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (290 bp):
ATCAAACATTATTAATATAAAGAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCGTAGT
TTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTC
GATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCT
AGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATAC
TTTGAATCTTTAAAATATTTAAATATTAAA
Found at i:86887718 original size:15 final size:15
Alignment explanation
Indices: 86887698--86887729 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86887688 AAATAATATT
*
86887698 TTATATATATTTATC
1 TTATATACATTTATC
86887713 TTATATACATTTATC
1 TTATATACATTTATC
86887728 TT
1 TT
86887730 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:86888799 original size:41 final size:40
Alignment explanation
Indices: 86888742--86888878 Score: 168
Period size: 41 Copynumber: 3.4 Consensus size: 40
86888732 GTTATGAGAT
*
86888742 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GC
*
86888783 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGC
* * * ** *
86888823 TTTTAGCGGCATTTTAGTAAAAAAG-GCCGCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTA--CAGAAAGCGCCGCTAATGCTCTGC
86888864 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
86888879 GTTTAGAACA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 16 0.19
41 65 0.76
42 5 0.06
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGC
Found at i:86888947 original size:12 final size:12
Alignment explanation
Indices: 86888932--86888958 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
86888922 CATTTTTTTA
86888932 AAAAACGCCGCT
1 AAAAACGCCGCT
86888944 AAAAACGCCGCT
1 AAAAACGCCGCT
86888956 AAA
1 AAA
86888959 GCCCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:86892315 original size:6 final size:6
Alignment explanation
Indices: 86892304--86892343 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
86892294 ATCTCAGGTA
* *
86892304 ACACCG ACACCG ACACCG ACACCA ACACCA ACACC- ACACC
1 ACACCG ACACCG ACACCG ACACCG ACACCG ACACCG ACACC
86892344 AAAACAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.40, C:0.53, G:0.07, T:0.00
Consensus pattern (6 bp):
ACACCG
Found at i:86895661 original size:23 final size:21
Alignment explanation
Indices: 86895635--86895678 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
86895625 TTCTTGTTCA
*
86895635 TTTTACTTTTATTATTATTATTT
1 TTTTACTCTTATT-TTA-TATTT
86895658 TTTTACTCTTATTTTATATTT
1 TTTTACTCTTATTTTATATTT
86895679 ATATACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTACTCTTATTTTATATTT
Found at i:86896151 original size:39 final size:39
Alignment explanation
Indices: 86896098--86896172 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
86896088 AAATATGGTT
*
86896098 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGTGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGTGA
86896137 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTG
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTG
86896173 GGATCAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGTGA
Found at i:86896705 original size:24 final size:26
Alignment explanation
Indices: 86896678--86896726 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
86896668 TGTATATACC
*
86896678 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
86896702 ATGTATACATTTTATATATATATAT
1 ATGTAAACATTTTATATATATATAT
86896727 ATCTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:86901381 original size:18 final size:18
Alignment explanation
Indices: 86901358--86901393 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
86901348 CTTAATTCTA
* *
86901358 AAAAATTTAAAGAAATAT
1 AAAAATATAAAAAAATAT
86901376 AAAAATATAAAAAAATAT
1 AAAAATATAAAAAAATAT
86901394 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAAAATAT
Found at i:86901926 original size:12 final size:12
Alignment explanation
Indices: 86901911--86901936 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
86901901 AATGATTAAA
86901911 AAAATAAAAAAT
1 AAAATAAAAAAT
86901923 AAAATAAAAAAT
1 AAAATAAAAAAT
86901935 AA
1 AA
86901937 TTTTCTCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:86904838 original size:2 final size:2
Alignment explanation
Indices: 86904831--86904888 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
86904821 AAAAATAAAG
86904831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86904873 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
86904889 AAAGGAGGAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86906629 original size:28 final size:28
Alignment explanation
Indices: 86906596--86906651 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
86906586 TTTTTTTAGG
86906596 AATGAGCACCATCGAATTGACCTTCAAT
1 AATGAGCACCATCGAATTGACCTTCAAT
*
86906624 AATGAGCACCATTGAATTGACCTTCAAT
1 AATGAGCACCATCGAATTGACCTTCAAT
86906652 GTCTTTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (28 bp):
AATGAGCACCATCGAATTGACCTTCAAT
Found at i:86915948 original size:46 final size:46
Alignment explanation
Indices: 86915881--86916009 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
86915871 TGTAACCCGC
* * * * *
86915881 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
86915927 CCATAATTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
86915973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86916010 TGCTCAATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:86918212 original size:32 final size:32
Alignment explanation
Indices: 86918167--86918231 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
86918157 CAAACACTAC
*
86918167 TTTATTATGTTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
86918199 TTTATTATATTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
86918231 T
1 T
86918232 GAAAAATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTATTATATTTGTTTTACTAAAAATAACTTT
Found at i:86919458 original size:29 final size:30
Alignment explanation
Indices: 86919425--86919490 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
86919415 AATTGAACCA
*
86919425 TCCATCAAAATATAAACATCAA-TAAAGTT-
1 TCCATCAAAATACAAACATCAATTAAA-TTG
*
86919454 TCCATCAAAATACAACCATCAATTAAATTG
1 TCCATCAAAATACAAACATCAATTAAATTG
86919484 TCCATCA
1 TCCATCA
86919491 TTGAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (30 bp):
TCCATCAAAATACAAACATCAATTAAATTG
Found at i:86920318 original size:23 final size:24
Alignment explanation
Indices: 86920280--86920327 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
86920270 TTTTCCGTAG
86920280 AATAGGAGGGTCAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
86920304 AATAGGA-GGTCAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
86920327 A
1 A
86920328 TCAATTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (24 bp):
AATAGGAGGGTCAATTGTTCCCAT
Found at i:86931551 original size:46 final size:47
Alignment explanation
Indices: 86931472--86931591 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 47
86931462 TAGCCATCGT
* * * * *
86931472 ATGTCCTAGACATGTCTTATACTGGCTTACGTCTCGAGGCCAATG-C
1 ATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCAATGCC
* *
86931518 ATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGCCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAGGCCAATGCC
**
86931565 ACATCCCAGACATAGTCTTACACTAGC
1 ATGTCCCAGACAT-GTCTTACACTAGC
86931592 TCTCACAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 36 0.58
47 13 0.21
48 13 0.21
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCAATGCC
Found at i:86931936 original size:45 final size:45
Alignment explanation
Indices: 86931872--86931963 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
86931862 TTCTTGATCT
*
86931872 ATAATAGAAAAATACACTTATTTAATCACTAAATGAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
*
86931917 ATAATGGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
86931962 AT
1 AT
86931964 TGAAAATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (45 bp):
ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
Found at i:86936733 original size:13 final size:13
Alignment explanation
Indices: 86936715--86936746 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
86936705 CTGTGCATTC
86936715 TTAGTTTAAATAA
1 TTAGTTTAAATAA
86936728 TTAGTTTAAATAA
1 TTAGTTTAAATAA
86936741 TTAGTT
1 TTAGTT
86936747 AATTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TTAGTTTAAATAA
Found at i:86942118 original size:46 final size:47
Alignment explanation
Indices: 86942068--86942190 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 47
86942058 TGTAGTCAAC
*
86942068 GCATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-TACTCGTCTCAAGGCTGAT
* *
86942114 GCATGCCCCAGACATGTCTTACACTAGC-ACTCGTCTCAAGGTTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
* *
86942160 GCCACGTCCCAGACATTATCTTACACTAGCT
1 G-CATGTCCCAGACA-TGTCTTACACTAGCT
86942191 CTCACAAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 40 0.61
47 11 0.17
48 13 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
Found at i:86944762 original size:27 final size:27
Alignment explanation
Indices: 86944729--86944810 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
86944719 ATCTATTCCA
86944729 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
* * * * *
86944756 CATTTAAATAATG-GTACTATCTATTCCA-
1 CATTTAATTCATGAATA-TAT-AACT-CAT
86944784 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
86944811 GTATTCAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
26 4 0.10
27 16 0.40
28 16 0.40
29 4 0.10
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (27 bp):
CATTTAATTCATGAATATATAACTCAT
Found at i:86944783 original size:55 final size:55
Alignment explanation
Indices: 86944699--86944810 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
86944689 TTATTCACGT
86944699 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
86944754 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
86944809 AT
1 AT
86944811 GTATTCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (55 bp):
ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
Found at i:86946162 original size:2 final size:2
Alignment explanation
Indices: 86946155--86946182 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86946145 TTTCATTCAC
86946155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86946183 CCAATGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86953704 original size:2 final size:2
Alignment explanation
Indices: 86953697--86953722 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86953687 TTTCATTCAC
86953697 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
86953723 CCAATGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86955410 original size:24 final size:22
Alignment explanation
Indices: 86955359--86955423 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
86955349 GCACTAATGA
86955359 ACAGAGAGCACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
86955381 ACAGAGAGCACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
86955403 ACAGAGAGCACT-AATGTGCTA
1 ACAGAGAGCACTGAA-GTGCTA
86955424 GTAATCGGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 2 0.05
22 40 0.95
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (22 bp):
ACAGAGAGCACTGAAGTGCTAT
Found at i:86956340 original size:21 final size:23
Alignment explanation
Indices: 86956314--86956357 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 23
86956304 AAACCCCAAA
*
86956314 TTTTTCCTTT-TCCT-T-TTTCT
1 TTTTTTCTTTCTCCTCTGTTTCT
86956334 TTTTTTCTTTCTCCTCTGTTTCT
1 TTTTTTCTTTCTCCTCTGTTTCT
86956357 T
1 T
86956358 CTCTGTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 1 0.05
23 6 0.30
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTCTTTCTCCTCTGTTTCT
Found at i:86956418 original size:5 final size:5
Alignment explanation
Indices: 86956408--86956441 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
86956398 TTACCTATTT
86956408 ATATA ATATA ATATA ATATA ATAT- ATAATA ATAT
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATAT
86956442 TCTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:86964075 original size:53 final size:54
Alignment explanation
Indices: 86963880--86964113 Score: 250
Period size: 55 Copynumber: 4.4 Consensus size: 54
86963870 ATTAGGGTTT
*
86963880 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * * *
86963935 AAGGATATCATGTAAGACCATGTCAAGACATGGCGTTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
86963990 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * *
86964043 AAGGATACCATGTAAGACCTTGTCGAGACATGGCAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
*
86964092 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
86964114 AAAAGTCATG
Statistics
Matches: 151, Mismatches: 23, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
49 20 0.13
52 6 0.04
53 42 0.28
54 12 0.08
55 67 0.44
56 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:86964086 original size:108 final size:110
Alignment explanation
Indices: 86963887--86964089 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
86963877 TTTAAGGATA
*
86963887 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
**
86963952 CCATGTCAAGACATGGCGTTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
86963997 CCATGTAATACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
86964059 ACCTTGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
86964090 AAAAGGATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:86968447 original size:47 final size:47
Alignment explanation
Indices: 86968384--86968913 Score: 853
Period size: 47 Copynumber: 11.3 Consensus size: 47
86968374 CCCTTCGGGA
* *
86968384 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
86968431 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86968478 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* **
86968525 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86968572 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
86968619 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86968666 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
86968713 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86968760 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
86968807 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
86968854 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
86968901 CTTATCACATATA
1 CTTATCACATATA
86968914 CATATCTTGT
Statistics
Matches: 440, Mismatches: 43, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 440 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:86968547 original size:94 final size:94
Alignment explanation
Indices: 86968386--86968913 Score: 1020
Period size: 94 Copynumber: 5.6 Consensus size: 94
86968376 CTTCGGGACT
* * *
86968386 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
86968451 TCACATTCATCACATTGGCCGCTCGGCCC
66 TCACATTCATCACATTGGCCGCTCGGCCC
86968480 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
*
86968545 TCACATTCATCACGTTGGCCGCTCGGCCC
66 TCACATTCATCACATTGGCCGCTCGGCCC
86968574 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
86968639 TCACATTCATCACATTGGCCGCTCGGCCC
66 TCACATTCATCACATTGGCCGCTCGGCCC
86968668 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
86968733 TCACATTCATCACATTGGCCGCTCGGCCC
66 TCACATTCATCACATTGGCCGCTCGGCCC
86968762 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
86968827 TCACATTCATCACATTGGCCGCTCGGCCC
66 TCACATTCATCACATTGGCCGCTCGGCCC
86968856 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
86968914 CATATCTTGT
Statistics
Matches: 429, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 429 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
TCACATTCATCACATTGGCCGCTCGGCCC
Found at i:86978229 original size:16 final size:16
Alignment explanation
Indices: 86978210--86978240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86978200 CTTCTTCACT
86978210 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
86978226 TACTTACTTACTTAA
1 TACTCACTTACTTAA
86978241 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:86978246 original size:20 final size:20
Alignment explanation
Indices: 86978207--86978246 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
86978197 AAACTTCTTC
* *
86978207 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
86978227 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
86978247 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:86982392 original size:4 final size:4
Alignment explanation
Indices: 86982370--86982403 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
86982360 ACAATGCTAA
*
86982370 ACAT AACAT ACAT ATAT ACAT ACAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
86982404 AACATTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:86982456 original size:31 final size:30
Alignment explanation
Indices: 86982420--86982515 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
86982410 AGTAAACAAT
86982420 CATACACAACAATAATATACCACATAATATA
1 CATACACAACAATAATATA-CACATAATATA
* * *
86982451 CATACATTAAC-ATGACAT--ACATAATATA
1 CATACA-CAACAATAATATACACATAATATA
* * * * *
86982479 CAAACACAACAGTAATTTAACACATAACAAA
1 CATACACAACAATAATAT-ACACATAATATA
86982510 CATACA
1 CATACA
86982516 AATATACATA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 3 0.06
28 18 0.38
31 24 0.50
32 3 0.06
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (30 bp):
CATACACAACAATAATATACACATAATATA
Found at i:86982503 original size:59 final size:56
Alignment explanation
Indices: 86982423--86982536 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 56
86982413 AAACAATCAT
* * *
86982423 ACACAACAATAATATACCACATAATATACATACATTAACATGACATACATAATATACAA
1 ACACAACAATAATATAACACATAACAAACATACA--AACAT-ACATACATAATATACAA
* * *
86982482 ACACAACAGTAATTTAACACATAACAAACATACAAATATACATACATAATATACA
1 ACACAACAATAATATAACACATAACAAACATACAAACATACATACATAATATACA
86982537 TAATAGTACC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
56 16 0.33
57 4 0.08
59 29 0.59
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (56 bp):
ACACAACAATAATATAACACATAACAAACATACAAACATACATACATAATATACAA
Found at i:86982526 original size:12 final size:12
Alignment explanation
Indices: 86982509--86982572 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
86982499 CACATAACAA
86982509 ACATACAAATAT
1 ACATACAAATAT
86982521 ACATACATAATAT
1 ACATACA-AATAT
86982534 ACAT---AATAGT
1 ACATACAAATA-T
* *
86982544 ACCTAACATAACAT
1 ACAT-ACA-AATAT
86982558 ACATACAAATAT
1 ACATACAAATAT
86982570 ACA
1 ACA
86982573 AACATAACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
12 14 0.34
13 12 0.29
14 4 0.10
15 3 0.07
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.25
Consensus pattern (12 bp):
ACATACAAATAT
Found at i:86982630 original size:65 final size:66
Alignment explanation
Indices: 86982521--86982662 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 66
86982511 ATACAAATAT
*
86982521 ACATACATAATATACATAATAGTACCTAACATAACATACATACAAATATACAAACATAACAGTAA
1 ACATACATAATATACATAATAG---CTAACATAACATAAATACAAATATACAAA-ATAACAGTAA
86982586 ACATA
62 ACATA
*
86982591 ACATGCATAATATACATAATAG-T-ACATAACATAAATACAAATATACAAAATAACAGTAAACAT
1 ACATACATAATATACATAATAGCTAACATAACATAAATACAAATATACAAAATAACAGTAAACAT
86982654 A
66 A
86982655 ACATACAT
1 ACATACAT
86982663 GTATAACACT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
64 22 0.32
65 25 0.36
66 1 0.01
70 21 0.30
ACGTcount: A:0.56, C:0.17, G:0.04, T:0.23
Consensus pattern (66 bp):
ACATACATAATATACATAATAGCTAACATAACATAAATACAAATATACAAAATAACAGTAAACAT
A
Found at i:86982678 original size:23 final size:22
Alignment explanation
Indices: 86982370--86982728 Score: 120
Period size: 24 Copynumber: 15.9 Consensus size: 22
86982360 ACAATGCTAA
*
86982370 ACATAACATACAT-ATATACAT
1 ACATAACATACATAACATACAT
* *
86982391 ACAT-ACATACATAAACATTAGTAA
1 ACATAACATACAT-AACA-TA-CAT
* *
86982415 ACA-ATCATACACAACAATA-AT
1 ACATAACATACATAAC-ATACAT
* **
86982436 ATACCACATA-ATATACATACATT
1 ACATAACATACATA-ACATACA-T
* * *
86982459 AACATGACATACATAATATACAA
1 -ACATAACATACATAACATACAT
*
86982482 ACACAACAGTA-ATTTAAC--ACAT
1 ACATAACA-TACA--TAACATACAT
*
86982504 AACA-AACATACA-AATATACAT
1 -ACATAACATACATAACATACAT
* * *
86982525 ACATAATATACATAATAGTACCT
1 ACATAACATACATAACA-TACAT
* *
86982548 AACATAACATACAT-ACAAATAT
1 -ACATAACATACATAACATACAT
86982570 ACA-AACATAACAGTAAACATAACAT
1 ACATAACAT-ACA-T-AACAT-ACAT
* * *
86982595 GCATAATATACATAATAGTACAT
1 ACATAACATACATAACA-TACAT
*
86982618 AACATAA-ATACA-AATATACA-
1 -ACATAACATACATAACATACAT
*
86982638 AAATAACAGTAAACATAACATACAT
1 ACATAACA-T--ACATAACATACAT
**
86982663 GTATAACACTACATAACATACAT
1 ACATAACA-TACATAACATACAT
* * *
86982686 ACATAATATACATAACAGTTTAAAA
1 ACATAACATACATAACA---TACAT
86982711 ACATAACATACAT-ACATA
1 ACATAACATACATAACATA
86982729 AACAGTAAAG
Statistics
Matches: 254, Mismatches: 44, Indels: 80
0.67 0.12 0.21
Matches are distributed among these distances:
19 7 0.03
20 17 0.07
21 38 0.15
22 44 0.17
23 52 0.20
24 59 0.23
25 33 0.13
26 4 0.02
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (22 bp):
ACATAACATACATAACATACAT
Found at i:86982682 original size:64 final size:63
Alignment explanation
Indices: 86982547--86982702 Score: 194
Period size: 65 Copynumber: 2.5 Consensus size: 63
86982537 TAATAGTACC
* *
86982547 TAACATAACATACATACAAATATACAAACATAACAGTAAACATAACATGCATAATATACATAA
1 TAACATAACATAAATACAAATATACAAACATAACAGTAAACATAACATACATAATATACATAA
* * *
86982610 TAGTACATAACATAAATACAAATATACAAA-ATAACAGTAAACATAACATACAT-GTATA-ACAC
1 TA--ACATAACATAAATACAAATATACAAACATAACAGTAAACATAACATACATAATATACATAA
*
86982672 T-ACATAACATACATACATAATATACATAACA
1 TAACATAACATAAATACA-AATATACA-AACA
86982703 GTTTAAAAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
59 15 0.18
60 8 0.10
61 2 0.02
62 4 0.05
63 6 0.07
64 22 0.27
65 25 0.30
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.23
Consensus pattern (63 bp):
TAACATAACATAAATACAAATATACAAACATAACAGTAAACATAACATACATAATATACATAA
Found at i:86982686 original size:9 final size:9
Alignment explanation
Indices: 86982500--86982699 Score: 64
Period size: 9 Copynumber: 22.1 Consensus size: 9
86982490 GTAATTTAAC
*
86982500 ACATAACAA
1 ACATAACAT
86982509 ACAT-ACA-
1 ACATAACAT
86982516 A-ATATACAT
1 ACATA-ACAT
*
86982525 ACATAATAT
1 ACATAACAT
*
86982534 ACATAATAGT
1 ACATAACA-T
*
86982544 ACCTAACAT
1 ACATAACAT
86982553 AACAT-ACAT
1 -ACATAACAT
*
86982562 ACA-AATAT
1 ACATAACAT
86982570 ACA-AACAT
1 ACATAACAT
86982578 AACAGT-A-A-
1 -ACA-TAACAT
86982586 ACATAACAT
1 ACATAACAT
* *
86982595 GCATAATAT
1 ACATAACAT
*
86982604 ACATAATAGT
1 ACATAACA-T
86982614 ACATAACAT
1 ACATAACAT
* *
86982623 AAATACAAAT
1 ACATA-ACAT
* * *
86982633 ATACAAAAT
1 ACATAACAT
86982642 AACAGTAAACAT
1 -ACA-T-AACAT
86982654 AACAT-ACAT
1 -ACATAACAT
**
86982663 GTATAACACT
1 ACATAACA-T
86982673 ACATAACAT
1 ACATAACAT
86982682 ACAT-ACAT
1 ACATAACAT
86982690 A-ATATACAT
1 ACATA-ACAT
86982699 A
1 A
86982700 ACAGTTTAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
6 3 0.02
7 7 0.05
8 27 0.18
9 65 0.44
10 37 0.25
11 1 0.01
12 8 0.05
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.23
Consensus pattern (9 bp):
ACATAACAT
Found at i:86982743 original size:30 final size:30
Alignment explanation
Indices: 86982682--86982758 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
86982672 TACATAACAT
* *
86982682 ACATACATAATATACAT-AACAGTTTAAAA
1 ACATACATAACATACATAAACAGTTAAAAA
86982711 ACATAACAT-ACATACATAAACAG-TAAAGAA
1 ACAT-ACATAACATACATAAACAGTTAAA-AA
*
86982741 ACATACATAACAGACATA
1 ACATACATAACATACATA
86982759 CCTTTCACCC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 18 0.44
30 23 0.56
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (30 bp):
ACATACATAACATACATAAACAGTTAAAAA
Found at i:86991171 original size:45 final size:45
Alignment explanation
Indices: 86991107--86991213 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
86991097 GTAGCAGTAC
* *
86991107 CAGTAATAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAATGGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
* *
86991152 CAGTAATGGTAATAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAATGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
*
86991197 CAGTAACGGTAACAGTA
1 CAGTAATGGTAACAGTA
86991214 AAAGTAGTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (45 bp):
CAGTAATGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:86991203 original size:51 final size:50
Alignment explanation
Indices: 86991095--86991219 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 50
86991085 TAATCAGTAA
*
86991095 CGGTAGCAGTACCAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CGGTA-CAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT
* * *
86991146 C--T---GTAACAGTAATGGTAATAGTATTCGACACACAAAGTG-TCGAAT
1 CGGTACAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCT-GAAT
* * *
86991191 CGGTAACAGTAACGGTAACAGTAAAAGTA
1 CGGT-ACAGTAACAGTAATAGTAACAGTA
86991220 GTCGGCACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
44 1 0.02
45 38 0.64
47 1 0.02
49 1 0.02
51 18 0.31
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (50 bp):
CGGTACAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT
Found at i:86992323 original size:3 final size:3
Alignment explanation
Indices: 86992315--86992368 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
86992305 TATTAACTTT
86992315 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
86992363 ATA ATA
1 ATA ATA
86992369 TAAATATCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:86992623 original size:3 final size:3
Alignment explanation
Indices: 86992615--86992687 Score: 64
Period size: 3 Copynumber: 25.0 Consensus size: 3
86992605 AATTTATTTT
* *
86992615 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA T-A TAAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
86992659 TAA T-T TAA T-A GAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
86992688 ATATCTATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
2 5 0.09
3 46 0.82
4 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:86992649 original size:20 final size:20
Alignment explanation
Indices: 86992615--86992680 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
86992605 AATTTATTTT
86992615 TAATAATAA--TAATAATAA
1 TAATAATAATTTAATAATAA
86992633 TAATAATAATTTAATAAT-A
1 TAATAATAATTTAATAATAA
* *
86992652 TAAATTATAATTTAAT-AGAA
1 T-AATAATAATTTAATAATAA
86992672 TAATAATAA
1 TAATAATAA
86992681 ATAATAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.22
19 10 0.24
20 22 0.54
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATAATAATTTAATAATAA
Found at i:86993668 original size:21 final size:21
Alignment explanation
Indices: 86993620--86993669 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
86993610 TAAAAGAAAA
* *
86993620 GAAAAGATTTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
86993641 GAAAAGGTCTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
86993662 GAAAAGGT
1 GAAAAGGT
86993670 TTAGAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (21 bp):
GAAAAGGTCTTTTGGAGAGTT
Found at i:86997626 original size:2 final size:2
Alignment explanation
Indices: 86997619--86997658 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
86997609 CATATTGTAA
*
86997619 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86997659 CAAAAGAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87001017 original size:70 final size:72
Alignment explanation
Indices: 87000941--87001085 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 72
87000931 AAAAAAGTAT
*
87000941 TTCTATTGTATTTTACATCAATAATAT-ACTTATTTACAATCTACGAAAAAATTTAAAA-T-TTT
1 TTCTATTGTATTTTACATCAATAATATAACTTATTTACAATCTACGAAAAAA-CTAAAATTGTTT
87001003 TTATTGTA
65 TTATTGTA
*
87001011 TTCTATTGTATTTTATATCAATAATATAAACTTATTTACAATCTACGAAAAAACTAAAATTGTTT
1 TTCTATTGTATTTTACATCAATAATAT-AACTTATTTACAATCTACGAAAAAACTAAAATTGTTT
87001076 TTATTGTA
65 TTATTGTA
87001084 TT
1 TT
87001086 GTATACTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
70 26 0.38
71 5 0.07
72 25 0.36
73 13 0.19
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (72 bp):
TTCTATTGTATTTTACATCAATAATATAACTTATTTACAATCTACGAAAAAACTAAAATTGTTTT
TATTGTA
Found at i:87001091 original size:122 final size:124
Alignment explanation
Indices: 87000965--87001187 Score: 342
Period size: 124 Copynumber: 1.8 Consensus size: 124
87000955 ACATCAATAA
** * ** *
87000965 TATACTTATTTACAATCTACGAAAAAATTTAAAATT-TTT-TATTGTATTCTATTGTATTTTATA
1 TATACTTATTTACAATCTACGAAAAAATGAAAAATTGTTTACATTGTATTCTACGGTATTTTACA
*
87001028 TCAATAATATAAACTTATTTACAATCTACGAAAAAACTAAAATTGTTTTTATTGTATTG
66 TCAATAATATAAACTTATTTACAATCTACCAAAAAACTAAAATTGTTTTTATTGTATTG
*
87001087 TATACTTATTTACAATCTACGAAAAAATGAAAAATTGTTTACATTGTTTTCTACGGTATTTTACA
1 TATACTTATTTACAATCTACGAAAAAATGAAAAATTGTTTACATTGTATTCTACGGTATTTTACA
* *
87001152 TCAATAATATATACTTATTTACAATTTACCAAAAAA
66 TCAATAATATAAACTTATTTACAATCTACCAAAAAA
87001188 TGAGAAGTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
122 34 0.38
123 3 0.03
124 52 0.58
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (124 bp):
TATACTTATTTACAATCTACGAAAAAATGAAAAATTGTTTACATTGTATTCTACGGTATTTTACA
TCAATAATATAAACTTATTTACAATCTACCAAAAAACTAAAATTGTTTTTATTGTATTG
Found at i:87006758 original size:10 final size:10
Alignment explanation
Indices: 87006743--87006790 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
87006733 TAACGTGTTG
87006743 AATTTTAATT
1 AATTTTAATT
*
87006753 AATTTTGTAATA
1 AA-TTT-TAATT
87006765 AATTTTAATT
1 AATTTTAATT
*
87006775 AATTTTGATT
1 AATTTTAATT
*
87006785 TATTTT
1 AATTTT
87006791 CGACAGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:87038849 original size:33 final size:33
Alignment explanation
Indices: 87038807--87038903 Score: 176
Period size: 33 Copynumber: 2.9 Consensus size: 33
87038797 TATCGTACCC
87038807 AAGGAAACCAAAAGTACTAGTAATAACTATCCCA
1 AAGG-AACCAAAAGTACTAGTAATAACTATCCCA
87038841 AAGGAACCAAAAGTACTAGTAATAACTATCCCA
1 AAGGAACCAAAAGTACTAGTAATAACTATCCCA
*
87038874 AGGGAACCAAAAGTACTAGTAATAACTATC
1 AAGGAACCAAAAGTACTAGTAATAACTATC
87038904 TTTTTATTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 58 0.94
34 4 0.06
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (33 bp):
AAGGAACCAAAAGTACTAGTAATAACTATCCCA
Found at i:87041860 original size:6 final size:6
Alignment explanation
Indices: 87041831--87041907 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
87041821 TGTGTCTCTC
* * * *
87041831 AAAAT- AAAATAA TAAAATA GAAATG AAAATA AAAATC AAAAGA AAAAT-
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
87041879 AAAATA AAAATA AAAATA ATAA-A AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
87041908 GGAGGATTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
5 14 0.25
6 37 0.65
7 1 0.02
8 5 0.09
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:87041886 original size:23 final size:24
Alignment explanation
Indices: 87041851--87041907 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
87041841 AATAAAATAG
*
87041851 AAATGAAAATAAAAATCAAAAGAA-
1 AAAT-AAAATAAAAATAAAAAGAAT
*
87041875 AAATAAAATAAAAATAAAAATAAT
1 AAATAAAATAAAAATAAAAAGAAT
87041899 AAA-AAAATA
1 AAATAAAATA
87041908 GGAGGATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAATAAAAATAAAAAGAAT
Found at i:87041904 original size:17 final size:17
Alignment explanation
Indices: 87041831--87041907 Score: 75
Period size: 17 Copynumber: 4.4 Consensus size: 17
87041821 TGTGTCTCTC
87041831 AAAATAAAATAATAAAATA
1 AAAAT-AAA-AATAAAATA
* * *
87041850 GAAATGAAAATAAAAATC
1 AAAATAAAAAT-AAAATA
*
87041868 AAAAGAAAAATAAAATA
1 AAAATAAAAATAAAATA
87041885 AAAATAAAAATAATAA-A
1 AAAATAAAAATAA-AATA
87041902 AAAATA
1 AAAATA
87041908 GGAGGATTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 27 0.56
18 17 0.35
19 4 0.08
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:87052301 original size:14 final size:15
Alignment explanation
Indices: 87052279--87052308 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
87052269 GAATATCAAA
87052279 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
87052294 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
87052308 A
1 A
87052309 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:87057268 original size:21 final size:21
Alignment explanation
Indices: 87057238--87057278 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
87057228 ATGTGGAGTT
*
87057238 AAATGTAGTTTGCTCAGCCAA
1 AAATGCAGTTTGCTCAGCCAA
87057259 AAATGCAGTTTGCTCAGCCA
1 AAATGCAGTTTGCTCAGCCA
87057279 TACTACAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
AAATGCAGTTTGCTCAGCCAA
Found at i:87061080 original size:46 final size:46
Alignment explanation
Indices: 87061030--87061205 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
87061020 TGGTTGAGCA
*
87061030 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
87061076 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87061121 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87061169 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87061206 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87061186 original size:93 final size:93
Alignment explanation
Indices: 87061027--87061198 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
87061017 GGATGGTTGA
*
87061027 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
87061092 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
87061120 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
87061185 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87061199 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:87065320 original size:65 final size:65
Alignment explanation
Indices: 87065215--87065343 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
87065205 ACCATAATTT
87065215 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAAATGATTTATCCTTAGATTTGGTGAATTCG
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAAATGATTTATCCTTAGATTTGGTGAATTCG
*
87065280 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAATTC
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAAATGATTTATCCTTAGATTTGGTGAATTC
87065344 TATACTCCTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (65 bp):
ATAAATATTTTTACCCCATGCGTAGCACATTTTTAAATGATTTATCCTTAGATTTGGTGAATTCG
Found at i:87065603 original size:13 final size:13
Alignment explanation
Indices: 87065585--87065611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87065575 GGAGAAATCA
87065585 CACACGGGCGTGT
1 CACACGGGCGTGT
87065598 CACACGGGCGTGT
1 CACACGGGCGTGT
87065611 C
1 C
87065612 CTTGTCGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:87067970 original size:46 final size:46
Alignment explanation
Indices: 87067920--87068095 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
87067910 TGGTTGAGCA
87067920 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87067966 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
87068011 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87068059 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87068096 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87068076 original size:93 final size:93
Alignment explanation
Indices: 87067917--87068088 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
87067907 GGATGGTTGA
* * *
87067917 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87067982 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
87068010 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87068075 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87068089 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87070563 original size:68 final size:68
Alignment explanation
Indices: 87070446--87070582 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
87070436 TCGACAGGGA
* *
87070446 CATGCCCGTGTGACACGTTCGTGTGCAATTACTTTAGGCTGTGGTCAAGCCTGTTAAATAGGCAT
1 CATGCCCGTGTGACACGTCCGTGTGCAATTACTTTAGGCTGTGGACAAGCCTGTTAAATAGGCAT
87070511 GGG
66 GGG
* * *
87070514 CATGTCCGTGTGAGACGTCCGTGTGCGATTACTTTAGGCTGTGGACAAGCCTGTTAAATAGGCAT
1 CATGCCCGTGTGACACGTCCGTGTGCAATTACTTTAGGCTGTGGACAAGCCTGTTAAATAGGCAT
87070579 GGG
66 GGG
87070582 C
1 C
87070583 GTGTTGTCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (68 bp):
CATGCCCGTGTGACACGTCCGTGTGCAATTACTTTAGGCTGTGGACAAGCCTGTTAAATAGGCAT
GGG
Found at i:87074165 original size:14 final size:14
Alignment explanation
Indices: 87074146--87074178 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
87074136 CTTGTCCCAA
87074146 CAATGGGCAGTCCG
1 CAATGGGCAGTCCG
87074160 CAATGGGCAGTCCG
1 CAATGGGCAGTCCG
87074174 CAATG
1 CAATG
87074179 AACTCTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.15
Consensus pattern (14 bp):
CAATGGGCAGTCCG
Found at i:87075588 original size:2 final size:2
Alignment explanation
Indices: 87075575--87075622 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
87075565 AATAACCTTT
*
87075575 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
87075617 CA CA CA
1 CA CA CA
87075623 TATATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:87077502 original size:30 final size:30
Alignment explanation
Indices: 87077444--87077502 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
87077434 ATTTTTGGGC
* **
87077444 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
87077474 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
87077503 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:87078045 original size:46 final size:44
Alignment explanation
Indices: 87077832--87078047 Score: 172
Period size: 46 Copynumber: 4.7 Consensus size: 44
87077822 TACTGTGAGC
* *
87077832 CAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-A--AGT
1 CAGTGTAAGACATGTTTGGGACATGCATC-G--AC--TATGAGACGTGT
* *
87077878 CAGTGTAAGACCATGTTTGGGACATGACATCGGC-ATTGAGACGAGT
1 CAGTGTAAGA-CATGTTTGGGACATG-CATCGACTA-TGAGACGTGT
* * * *
87077924 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGACGTAAGT
1 -C-AGTGTAAGACATGTTTGGGACATGCATC-GACTATGAGACGT--GT
*
87077972 CAGTGTAAGACATGTTTGGGACATGCATCGACTATGAGATGTGT
1 CAGTGTAAGACATGTTTGGGACATGCATCGACTATGAGACGTGT
*
87078016 CAGTGCAAGACCATGTTTGGGACATTGCATCG
1 CAGTGTAAGA-CATGTTTGGGACA-TGCATCG
87078048 GCACCTTACC
Statistics
Matches: 142, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 12 0.08
45 17 0.12
46 62 0.44
47 32 0.23
48 15 0.11
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
CAGTGTAAGACATGTTTGGGACATGCATCGACTATGAGACGTGT
Found at i:87079918 original size:2 final size:2
Alignment explanation
Indices: 87079911--87079938 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87079901 TTTTAGAAAA
87079911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87079939 TTTTGTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87089639 original size:48 final size:48
Alignment explanation
Indices: 87089579--87089675 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
87089569 AGCGAAGAAG
87089579 GGTCAGAACTGTCGACAGCAGAACAGGGGTGACTTTAAAGAATAAAAT
1 GGTCAGAACTGTCGACAGCAGAACAGGGGTGACTTTAAAGAATAAAAT
87089627 GGTCAGAACTGTCGACAGCAGAACAGGGGTGACTTTAAAGAATAAAAT
1 GGTCAGAACTGTCGACAGCAGAACAGGGGTGACTTTAAAGAATAAAAT
87089675 G
1 G
87089676 TACTTTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (48 bp):
GGTCAGAACTGTCGACAGCAGAACAGGGGTGACTTTAAAGAATAAAAT
Found at i:87098983 original size:2 final size:2
Alignment explanation
Indices: 87098976--87099006 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87098966 CCACATCCTT
87098976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87099007 GAATCTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87116297 original size:17 final size:17
Alignment explanation
Indices: 87116275--87116307 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87116265 GACAAGTAAA
87116275 TGTCGAGTTATCGTACT
1 TGTCGAGTTATCGTACT
87116292 TGTCGAGTTATCGTAC
1 TGTCGAGTTATCGTAC
87116308 CCACAGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (17 bp):
TGTCGAGTTATCGTACT
Found at i:87121815 original size:29 final size:29
Alignment explanation
Indices: 87121760--87121816 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
87121750 CTTTAAAAAA
* *
87121760 TATTTACAAAAAGAGGCATCTAGTTTTAT
1 TATTTACAAAAAGAGGCATCAAATTTTAT
*
87121789 TATTTACGAAAAGA-GCAATCAAATTTTA
1 TATTTACAAAAAGAGGC-ATCAAATTTTA
87121817 AAAATAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (29 bp):
TATTTACAAAAAGAGGCATCAAATTTTAT
Found at i:87136628 original size:46 final size:45
Alignment explanation
Indices: 87136578--87136753 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
87136568 TGGTTGAGCA
87136578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATG
*** * * * *
87136624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGATG
87136669 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAT-G
* * * *
87136717 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87136754 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.64
47 36 0.34
48 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATG
Found at i:87136734 original size:93 final size:93
Alignment explanation
Indices: 87136575--87136746 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
87136565 GGATGGTTGA
*
87136575 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
87136640 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
87136668 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATCGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT-GCCCGAACTCGTTGAG
*
87136732 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
87136747 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:87145715 original size:2 final size:2
Alignment explanation
Indices: 87145708--87145753 Score: 51
Period size: 2 Copynumber: 23.0 Consensus size: 2
87145698 TTCAGCATGC
*
87145708 AT AT AT AT A- AT GAT AT AT AT AT AT AT AT -T AT CAT AT GT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
87145750 AT AT
1 AT AT
87145754 TATCATATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 2 0.05
2 32 0.84
3 4 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87145731 original size:18 final size:19
Alignment explanation
Indices: 87145708--87145761 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
87145698 TTCAGCATGC
87145708 ATATATATAATGAT-ATAT
1 ATATATATAATGATCATAT
*
87145726 ATATATAT-ATTATCATAT
1 ATATATATAATGATCATAT
* *
87145744 GTATATAT-ATTATCATAT
1 ATATATATAATGATCATAT
87145762 CTTTGCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.12
18 29 0.88
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (19 bp):
ATATATATAATGATCATAT
Found at i:87145733 original size:20 final size:20
Alignment explanation
Indices: 87145708--87145761 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
87145698 TTCAGCATGC
*
87145708 ATATATATAATGATATATAT
1 ATATATATAATCATATATAT
* *
87145728 ATATATATTATCATATGTAT
1 ATATATATAATCATATATAT
87145748 ATATAT-T-ATCATAT
1 ATATATATAATCATAT
87145762 CTTTGCAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 23 0.74
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
ATATATATAATCATATATAT
Found at i:87148542 original size:2 final size:2
Alignment explanation
Indices: 87148535--87148573 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87148525 GTGCAATTGT
87148535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87148574 GAGTCTTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87150586 original size:69 final size:69
Alignment explanation
Indices: 87150475--87150739 Score: 293
Period size: 69 Copynumber: 3.8 Consensus size: 69
87150465 AAGAGGTTCT
* * ** *
87150475 AGGTGTAA-AGCCATAGCTTGACTATGGTAACCAATAGAGTCCATCAGGACAGTGAACACGAGGA
1 AGGTGTAAGA-CCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGA
87150539 TTTCA
65 TTTCA
* * *
87150544 AGGTGTAAGACCATAGTTCGGCTATGACAACCAATAGAGTCCACCAGGACAGTAAACACGAAGAT
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
87150609 TTCA
66 TTCA
** * * * *
87150613 AGGTGTAATTCCATAGCTCGGCTATGGA-AACCAATAAAGTTCATC-GAGACAATAAACACGGGG
1 AGGTGTAAGACCATAGCTCGGCTAT-GACAACCAATAGAGTCCATCAG-GACAGTAAACACGAGG
87150676 ATTTCA
64 ATTTCA
* * * * ** *
87150682 ATGCGTAAGACCATGGCTCAGCTATGACAACCAATAGAGTCTGTCAGGACATTAAACA
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACA
87150740 TTGGTTCATA
Statistics
Matches: 163, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
68 3 0.02
69 156 0.96
70 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (69 bp):
AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
TTCA
Found at i:87156513 original size:18 final size:16
Alignment explanation
Indices: 87156490--87156533 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
87156480 TTGAGGTGTG
87156490 AATATTTTAGTAGTTTCA
1 AATATTTTA-TA-TTTCA
*
87156508 AATATTTTATATTTTA
1 AATATTTTATATTTCA
87156524 AATTATTTTA
1 AA-TATTTTA
87156534 AACTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (16 bp):
AATATTTTATATTTCA
Found at i:87156532 original size:17 final size:17
Alignment explanation
Indices: 87156492--87156547 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
87156482 GAGGTGTGAA
*
87156492 TATTTTAGTAGTTTCAAA-
1 TATTTTA-TA-TTTTAAAT
87156510 TATTTTATATTTTAAAT
1 TATTTTATATTTTAAAT
**
87156527 TATTTTA-AACTTAAAT
1 TATTTTATATTTTAAAT
87156543 TATTT
1 TATTT
87156548 CAAATTTCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 18 0.53
17 9 0.26
18 7 0.21
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (17 bp):
TATTTTATATTTTAAAT
Found at i:87160107 original size:56 final size:56
Alignment explanation
Indices: 87160021--87160132 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
87160011 CAAGAAGCTG
87160021 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
87160077 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
87160133 CATCCATCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
Found at i:87164365 original size:3 final size:3
Alignment explanation
Indices: 87164357--87164388 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
87164347 GTAAGAGAAG
87164357 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
87164389 AAACAACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:87164413 original size:18 final size:18
Alignment explanation
Indices: 87164390--87164428 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
87164380 CAGCAGCAGA
87164390 AACAACAACACCAACACC
1 AACAACAACACCAACACC
* *
87164408 AACAACACCACCAACATC
1 AACAACAACACCAACACC
87164426 AAC
1 AAC
87164429 CACCACCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.44, G:0.00, T:0.03
Consensus pattern (18 bp):
AACAACAACACCAACACC
Found at i:87167781 original size:24 final size:22
Alignment explanation
Indices: 87167728--87167781 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 22
87167718 CTAACTTTAT
87167728 TTTTTTTCCTTTCATTTTTCAA
1 TTTTTTTCCTTTCATTTTTCAA
87167750 TGTGTTTTT-CTTTCGATTTTTTCAA
1 T-T-TTTTTCCTTTC-A-TTTTTCAA
*
87167775 CTTTTTT
1 TTTTTTT
87167782 ACCAAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 1 0.04
23 11 0.41
24 7 0.26
25 8 0.30
ACGTcount: A:0.11, C:0.15, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTTTTCCTTTCATTTTTCAA
Found at i:87169863 original size:2 final size:2
Alignment explanation
Indices: 87169856--87169889 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
87169846 ATACAGAAAA
87169856 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
87169890 GGTTGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:87173229 original size:34 final size:34
Alignment explanation
Indices: 87173186--87173251 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
87173176 CAAATTTAGA
87173186 TTCTTTAAGAAAAATCTTAACTCAATCTATCAAC
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCAAC
*
87173220 TTCTTTAAGAAAACTCTTAACTCAATCTATCA
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCA
87173252 GCAATCATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.36
Consensus pattern (34 bp):
TTCTTTAAGAAAAATCTTAACTCAATCTATCAAC
Found at i:87183791 original size:20 final size:20
Alignment explanation
Indices: 87183768--87183805 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87183758 TATCAATACC
*
87183768 TTTTATTTGGTATCGATAAA
1 TTTTATTTGGCATCGATAAA
*
87183788 TTTTCTTTGGCATCGATA
1 TTTTATTTGGCATCGATA
87183806 TCTCTAGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTTATTTGGCATCGATAAA
Found at i:87184637 original size:17 final size:17
Alignment explanation
Indices: 87184615--87184649 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87184605 CTATCTTCAA
87184615 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
87184632 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
87184649 G
1 G
87184650 TGCAAACTAT
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:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (17 bp):
GCCTCCTTATTTCAATG
Found at i:87185288 original size:21 final size:21
Alignment explanation
Indices: 87185262--87185306 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
87185252 AATATTTTTA
87185262 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
87185283 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
87185304 TAA
1 TAA
87185307 GGTGGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAAATATTTAAGGAATGTCAT
Found at i:87186842 original size:32 final size:32
Alignment explanation
Indices: 87186806--87186870 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
87186796 TGTATGCATT
87186806 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
87186838 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
87186870 T
1 T
87186871 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:87188382 original size:26 final size:26
Alignment explanation
Indices: 87188353--87188405 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87188343 TTTACAGTTT
*
87188353 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
87188379 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
87188405 T
1 T
87188406 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:87193635 original size:17 final size:17
Alignment explanation
Indices: 87193615--87193649 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
87193605 TATATTACTT
87193615 TTATTTTAATATAAATA
1 TTATTTTAATATAAATA
* *
87193632 TTATTTTTATATACATA
1 TTATTTTAATATAAATA
87193649 T
1 T
87193650 AAACCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTAATATAAATA
Found at i:87193649 original size:23 final size:22
Alignment explanation
Indices: 87193601--87193667 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
87193591 TTAAAAAATT
* * *
87193601 TATATATATTACTTTTATTTTAA
1 TATAAATATTATTTTTA-TATAA
87193624 TATAAATATTATTTTTATATACA
1 TATAAATATTATTTTTATATA-A
**
87193647 TATAAACCTTATTTATTATAT
1 TATAAATATTATTT-TTATAT
87193668 TATTATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.08
23 28 0.76
24 6 0.16
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAATATTATTTTTATATAA
Found at i:87193672 original size:8 final size:8
Alignment explanation
Indices: 87193655--87193732 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
87193645 CATATAAACC
87193655 TTAT-TTA
1 TTATATTA
87193662 TTATATTA
1 TTATATTA
* *
87193670 TTATTTTC
1 TTATATTA
*
87193678 CTATATTA
1 TTATATTA
87193686 TTTTATATTTA
1 --TTATA-TTA
87193697 TATATATTA
1 T-TATATTA
87193706 TTATATTA
1 TTATATTA
87193714 TT-TATT-
1 TTATATTA
*
87193720 TTAAATTA
1 TTATATTA
87193728 CTTAT
1 -TTAT
87193733 TATATAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
6 2 0.04
7 11 0.20
8 23 0.42
9 8 0.15
10 8 0.15
11 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATATTA
Found at i:87193688 original size:28 final size:30
Alignment explanation
Indices: 87193655--87193719 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
87193645 CATATAAACC
* *
87193655 TTATTTATTATA-TTAT-TATTTTCCTATA
1 TTATTTATTATATTTATATATATTACTATA
*
87193683 TTA-TT-TTATATTTATATATATTATTATA
1 TTATTTATTATATTTATATATATTACTATA
87193711 TTATTTATT
1 TTATTTATT
87193720 TTAAATTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.17
27 6 0.20
28 15 0.50
29 2 0.07
30 2 0.07
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTATTTATTATATTTATATATATTACTATA
Found at i:87193732 original size:26 final size:27
Alignment explanation
Indices: 87193679--87193742 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
87193669 ATTATTTTCC
*
87193679 TATATTATTTTATATTTATATATATTAT
1 TATATTA-TTTATATTTAAATATATTAT
87193707 TATATTATTTAT-TTTAAAT-TACTTAT
1 TATATTATTTATATTTAAATATA-TTAT
*
87193733 TATATAATTT
1 TATATTATTT
87193743 TTAAAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 5 0.15
28 7 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTATTTATATTTAAATATATTAT
Done.