Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 31 of 332
Found at i:9492982 original size:21 final size:21
Alignment explanation
Indices: 9492958--9492999 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9492948 TATTTTTTTA
*
9492958 TTTTTA-TATGATTTTTAAAAT
1 TTTTTATTAT-ATTTTAAAAAT
9492979 TTTTTATTATATTTTAAAAAT
1 TTTTTATTATATTTTAAAAAT
9493000 ATTTATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATTATATTTTAAAAAT
Found at i:9497699 original size:20 final size:21
Alignment explanation
Indices: 9497660--9497716 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
9497650 AATTGTGAAA
*
9497660 AAAACAATAAGAAAATAACAAG
1 AAAACAGTAA-AAAATAACAAG
9497682 AAAACAGTAAAAAA-AACAAG
1 AAAACAGTAAAAAATAACAAG
*
9497702 AAAATAGTAGAAAAA
1 AAAACAGTA-AAAAA
9497717 GTAGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 14 0.44
21 9 0.28
22 9 0.28
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAACAGTAAAAAATAACAAG
Found at i:9500276 original size:43 final size:43
Alignment explanation
Indices: 9500173--9500325 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
9500163 GTAAAAAAAT
* * ** *
9500173 GCCGCTAAAGAACACGACTTTTAGCGGCTTTTTTGAA-A-AAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTT-AACACAAAC
* ** *
9500215 GCCACTAAAGAATGTGACCTTTAGCGGCACTTTTCACACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAACACAAAC
* * *
9500258 TCCGCTAAAGAACATGACCTTTAGCGACGCTTTTAACACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAACACAAAC
* * *
9500301 GCTGTTAAAGAACATGAGCTTTAGC
1 GCCGCTAAAGAACATGACCTTTAGC
9500326 AATGCTTTTA
Statistics
Matches: 89, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 60 0.67
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAACACAAAC
Found at i:9500333 original size:43 final size:42
Alignment explanation
Indices: 9500214--9500351 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 42
9500204 TTTGAAAAAG
* ** ** *
9500214 CGCCACTAAAGAATGTGACCTTTAGCGGCACTTTTCACACAAA
1 CGCCGCTAAAGAACATGACCTTTAGCAACGCTTTT-ACACAAA
* *
9500257 CTCCGCTAAAGAACATGACCTTTAGCGACGCTTTTAACACAAA
1 CGCCGCTAAAGAACATGACCTTTAGCAACGCTTTT-ACACAAA
* * * * *
9500300 CGCTGTTAAAGAACATGAGCTTTAGCAATGCTTTTACAAAAA
1 CGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTACACAAA
*
9500342 CGCCACTAAA
1 CGCCGCTAAA
9500352 AGTCATGTTC
Statistics
Matches: 78, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 13 0.17
43 65 0.83
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTACACAAA
Found at i:9501194 original size:13 final size:14
Alignment explanation
Indices: 9501154--9501196 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
9501144 ACTAACGACG
*
9501154 AATTAAACCAATAT
1 AATTAAACCATTAT
9501168 AATTAAACCATTAT
1 AATTAAACCATTAT
9501182 AATTAAA-CATTAT
1 AATTAAACCATTAT
9501195 AA
1 AA
9501197 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 8 0.29
14 20 0.71
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:9504534 original size:9 final size:9
Alignment explanation
Indices: 9504519--9504685 Score: 199
Period size: 9 Copynumber: 18.1 Consensus size: 9
9504509 TATGTATTAC
9504519 GTAAGTTAT
1 GTAAGTTAT
*
9504528 ATAAGTTAT
1 GTAAGTTAT
*
9504537 GATATATATTTAT
1 G-TA-A-GT-TAT
9504550 GTAAGTTAT
1 GTAAGTTAT
9504559 GTAAGTTAT
1 GTAAGTTAT
*
9504568 GTAAGCTAT
1 GTAAGTTAT
9504577 GTAAGTTAT
1 GTAAGTTAT
*
9504586 GTAAGTTCT
1 GTAAGTTAT
*
9504595 ATAAGTTAT
1 GTAAGTTAT
9504604 GTAAGTTAT
1 GTAAGTTAT
*
9504613 GTAAGCTAT
1 GTAAGTTAT
*
9504622 GTAATTTAT
1 GTAAGTTAT
9504631 GTAAGTTAT
1 GTAAGTTAT
*
9504640 ATAAGTTAT
1 GTAAGTTAT
* *
9504649 ATAAGCTAT
1 GTAAGTTAT
*
9504658 GAAAGTTAT
1 GTAAGTTAT
9504667 GTAAGTTAT
1 GTAAGTTAT
9504676 GTAAGTTAT
1 GTAAGTTAT
9504685 G
1 G
9504686 GTTAGGTTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
9 122 0.91
10 3 0.02
11 2 0.01
12 3 0.02
13 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9505055 original size:36 final size:36
Alignment explanation
Indices: 9505014--9505085 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
9505004 AAATATTTAA
9505014 AGAATAATATCAATAAAAGTAAATATGTAATCAGTC
1 AGAATAATATCAATAAAAGTAAATATGTAATCAGTC
9505050 AGAATAATATCAATAAAAGTAAATATGTAATCAGTC
1 AGAATAATATCAATAAAAGTAAATATGTAATCAGTC
9505086 TCTATATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (36 bp):
AGAATAATATCAATAAAAGTAAATATGTAATCAGTC
Found at i:9505082 original size:21 final size:21
Alignment explanation
Indices: 9505022--9505082 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
9505012 AAAGAATAAT
9505022 ATCAATAAAAGTAAATATGTA
1 ATCAATAAAAGTAAATATGTA
* * *
9505043 ATCAGT--CAG--AATA-AT-
1 ATCAATAAAAGTAAATATGTA
9505058 ATCAATAAAAGTAAATATGTA
1 ATCAATAAAAGTAAATATGTA
9505079 ATCA
1 ATCA
9505083 GTCTCTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 6 0.21
19 6 0.21
20 1 0.04
21 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (21 bp):
ATCAATAAAAGTAAATATGTA
Found at i:9505281 original size:6 final size:6
Alignment explanation
Indices: 9505272--9505300 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9505262 TATGATATTT
9505272 ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATA
9505301 TTTTACTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:9507199 original size:7 final size:7
Alignment explanation
Indices: 9507189--9507274 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
9507179 CCTTACACCT
9507189 TAAACTC
1 TAAACTC
9507196 TAAACTC
1 TAAACTC
*
9507203 TAAACCC
1 TAAACTC
9507210 TAAACTC
1 TAAACTC
* * *
9507217 CAACCAC
1 TAAACTC
*
9507224 TAATC-C
1 TAAACTC
*
9507230 TAAACTT
1 TAAACTC
*
9507237 TAAACCC
1 TAAACTC
9507244 TAAA-TAC
1 TAAACT-C
*
9507251 TAAACAC
1 TAAACTC
9507258 TGAAAC-C
1 T-AAACTC
9507265 ATAAACTC
1 -TAAACTC
9507273 TA
1 TA
9507275 TACAACAAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
6 5 0.08
7 49 0.82
8 6 0.10
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACTC
Found at i:9509817 original size:29 final size:29
Alignment explanation
Indices: 9509775--9509834 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
9509765 AAAAAGATTA
9509775 AATTTTGGATTTTTCAGGTATAAAACTTG
1 AATTTTGGATTTTTCAGGTATAAAACTTG
9509804 AATTTTGGATTTTTCAGGTATAAAACTTG
1 AATTTTGGATTTTTCAGGTATAAAACTTG
9509833 AA
1 AA
9509835 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (29 bp):
AATTTTGGATTTTTCAGGTATAAAACTTG
Found at i:9510211 original size:5 final size:5
Alignment explanation
Indices: 9510201--9510240 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
9510191 TGCAGTCTTA
**
9510201 GATAT GATAT GATAT CTTA- GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
9510241 CAATCTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 2 0.07
5 28 0.93
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:9510211 original size:19 final size:19
Alignment explanation
Indices: 9510196--9510234 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9510186 GGATATGCAG
9510196 TCTTAGATATGATATGATA
1 TCTTAGATATGATATGATA
9510215 TCTTAGATATGATATGATA
1 TCTTAGATATGATATGATA
9510234 T
1 T
9510235 GATATGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TCTTAGATATGATATGATA
Found at i:9510246 original size:29 final size:30
Alignment explanation
Indices: 9510201--9510258 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 30
9510191 TGCAGTCTTA
9510201 GATATGATATGATATCTT-AGATATGATAT
1 GATATGATATGATATCTTAAGATATGATAT
9510230 GATATGATATGCA-ATCTTGAAGATATGAT
1 GATATGATATG-ATATCTT-AAGATATGAT
9510259 TTTGTAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 16 0.62
30 1 0.04
31 9 0.35
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (30 bp):
GATATGATATGATATCTTAAGATATGATAT
Found at i:9518566 original size:19 final size:20
Alignment explanation
Indices: 9518542--9518579 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
9518532 ACATATTACA
9518542 TGGTGAAATTGTG-AAATTG
1 TGGTGAAATTGTGTAAATTG
9518561 TGGTGAAATTGTGTAAATT
1 TGGTGAAATTGTGTAAATT
9518580 TCCAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
TGGTGAAATTGTGTAAATTG
Found at i:9519006 original size:25 final size:25
Alignment explanation
Indices: 9518972--9519046 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
9518962 GTCATTAGGG
*
9518972 TTACCGATTCTCAGCTCGT-ATGAGC
1 TTACTGATTCTCAGCTCGTGA-GAGC
9518997 TTACTGATTCTCAGCTCGTGAGAGC
1 TTACTGATTCTCAGCTCGTGAGAGC
9519022 TTACTGATTCTCAGCTCGTGAGAGC
1 TTACTGATTCTCAGCTCGTGAGAGC
9519047 ATACCAATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
TTACTGATTCTCAGCTCGTGAGAGC
Found at i:9519056 original size:25 final size:25
Alignment explanation
Indices: 9518972--9519056 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
9518962 GTCATTAGGG
9518972 TTACCGATTCTCAGCTCGT-ATGAGC
1 TTACCGATTCTCAGCTCGTGA-GAGC
*
9518997 TTACTGATTCTCAGCTCGTGAGAGC
1 TTACCGATTCTCAGCTCGTGAGAGC
*
9519022 TTACTGATTCTCAGCTCGTGAGAGC
1 TTACCGATTCTCAGCTCGTGAGAGC
* *
9519047 ATACCAATTC
1 TTACCGATTC
9519057 GTAGCTTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (25 bp):
TTACCGATTCTCAGCTCGTGAGAGC
Found at i:9523443 original size:35 final size:35
Alignment explanation
Indices: 9523404--9523475 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
9523394 CATCTCCGAA
*
9523404 GCTTGG-AAACTATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAA-TATGGAAAGGAATCTTCAAAGATAT
* *
9523439 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
9523474 GC
1 GC
9523476 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:9531046 original size:3 final size:3
Alignment explanation
Indices: 9531038--9531062 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9531028 GTAATAAAGT
9531038 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9531063 AGTATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9531436 original size:17 final size:17
Alignment explanation
Indices: 9531414--9531449 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9531404 TGCGAAAGGG
9531414 CCTACATGGCAAATAGA
1 CCTACATGGCAAATAGA
9531431 CCTACATGGCAAATAGA
1 CCTACATGGCAAATAGA
9531448 CC
1 CC
9531450 ATCTGGTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (17 bp):
CCTACATGGCAAATAGA
Found at i:9532825 original size:44 final size:43
Alignment explanation
Indices: 9532756--9532929 Score: 187
Period size: 44 Copynumber: 4.0 Consensus size: 43
9532746 TAACTTCAAC
* *
9532756 CTGCTCCACTGCAACTTCA-AGGAGATAAGGTTTATAGCTTTAAT
1 CTGCTCTACTGCAACTTCAGA-GAGATAAGATTTA-AGCTTTAAT
* *
9532800 CTGCTCTACTGCAACTTTAGAGAGATAAGATCTAA-CTTTAAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTAAGCTTTAAT
* *
9532842 CTGCT-TCACTACAACTTCATG-GAGATAAGATTTGCAGCTTTAAT
1 CTGCTCT-ACTGCAACTTCA-GAGAGATAAGATTT-AAGCTTTAAT
* * *
9532886 CTGCTCTATTGCAACTTCAGAGAGATAAGATCTAA-CTTCAAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTAAGCTTTAAT
9532928 CT
1 CT
9532930 ACTTGTGACA
Statistics
Matches: 110, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 41 0.37
43 5 0.05
44 61 0.55
45 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (43 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGATTTAAGCTTTAAT
Found at i:9532859 original size:86 final size:86
Alignment explanation
Indices: 9532746--9532929 Score: 278
Period size: 86 Copynumber: 2.1 Consensus size: 86
9532736 AGACTTGTTG
* * * *
9532746 TAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTG
1 TAACTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACAGCTTTAATCTGCTCTACTG
*
9532811 CAACTTTAGAGAGATAAGATC
66 CAACTTCAGAGAGATAAGATC
* * * * *
9532832 TAACTTTAATCTGCTTCACTACAACTTCATGGAGATAAGATTTGCAGCTTTAATCTGCTCTATTG
1 TAACTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACAGCTTTAATCTGCTCTACTG
9532897 CAACTTCAGAGAGATAAGATC
66 CAACTTCAGAGAGATAAGATC
9532918 TAACTTCAATCT
1 TAACTTCAATCT
9532930 ACTTGTGACA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (86 bp):
TAACTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTTACAGCTTTAATCTGCTCTACTG
CAACTTCAGAGAGATAAGATC
Found at i:9534548 original size:40 final size:40
Alignment explanation
Indices: 9534464--9534647 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
9534454 TTGAATGCTG
* * * *
9534464 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
9534503 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
9534544 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
9534584 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
9534624 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
9534648 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:9534601 original size:80 final size:81
Alignment explanation
Indices: 9534464--9534644 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
9534454 TTGAATGCTG
* * *
9534464 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
9534528 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
9534544 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
9534605 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
9534624 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
9534645 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:9534668 original size:39 final size:38
Alignment explanation
Indices: 9534545--9534694 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
9534535 GTTATTAATT
* ** * *
9534545 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
9534585 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
9534624 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
9534664 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
9534695 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:9534702 original size:40 final size:39
Alignment explanation
Indices: 9534585--9534707 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
9534575 GATACTAATT
* ** ** *
9534585 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
9534624 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
9534664 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
9534704 CCGG
1 CCGG
9534708 TTAAATTCTG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:9536301 original size:42 final size:41
Alignment explanation
Indices: 9536095--9536580 Score: 141
Period size: 45 Copynumber: 10.8 Consensus size: 41
9536085 TTGTAGCTTT
* * *
9536095 AATCTGTTCCACTGCAACTTCAGGGAAATAAGAT-TCACCACCTTC
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGATCT-A--A-CTTC
* ** *
9536140 AATCTGCTCCACTACAAATTCTTGGAGATAAGACTTGTTGTAACTTC
1 AATCTGCTCCACT-GAAATTCAGGGAGATAAGA-----TCTAACTTC
* * * * *
9536187 AACCTACTCCACT-ACAACTTCAGGGAGATAAGGTTTATAGCTTT
1 AATCTGCTCCACTGA-AA-TTCAGGGAGATAAGATCTA-A-CTTC
* * * *
9536231 AATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTAACTTC
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGATCTAACTTC
* *
9536273 AATCTGCTCCACTGAAATGTCAGGGAGATAAGATTTGTAATTTGTAGCTTT
1 AATCTGCTCCACTGAAAT-TCAGGGAGATAAGA--TCT-A-----A-CTTC
* * * * *
9536324 AATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGTCATCTTC
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGA-TC-T-AACTTC
* * * * *
9536369 AGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTTATAACTTT
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGA-----TCTAACTTC
* * * * * *
9536416 AACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTT
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGATCTA-A-CTTC
* * * * * *
9536460 AATCTACTCTACTGCAACTTCAGAGAGATAGGAT-TTACTATCTC
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGATCTAAC--T-TC
* * *
9536504 TGATCTACTCCACTGTAACTTCAGGGAGATAAGATCTAACTTC
1 -AATCTGCTCCACTG-AAATTCAGGGAGATAAGATCTAACTTC
*
9536547 AATCTGCTCCAATGCAAATTCAGGGAGATAAGAT
1 AATCTGCTCCACTG-AAATTCAGGGAGATAAGAT
9536581 TTGTAATTTG
Statistics
Matches: 333, Mismatches: 72, Indels: 75
0.69 0.15 0.16
Matches are distributed among these distances:
41 4 0.01
42 64 0.19
43 7 0.02
44 63 0.19
45 88 0.26
46 6 0.02
47 58 0.17
48 2 0.01
49 2 0.01
50 5 0.02
51 31 0.09
52 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
AATCTGCTCCACTGAAATTCAGGGAGATAAGATCTAACTTC
Found at i:9536451 original size:229 final size:229
Alignment explanation
Indices: 9536065--9536489 Score: 688
Period size: 229 Copynumber: 1.9 Consensus size: 229
9536055 CTGCAACTTT
9536065 AGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 AGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
* ** *
9536130 CACCACCTTCAATCTGCTCCACTACAAATTCTTGGAGATAAGACTTGTTGTAACTTCAACCTACT
66 CACCACCTTCAATCTACTCCACTACAAATTCAGGGAGATAAGACTTGTTATAACTTCAACCTACT
* *
9536195 CCACTACAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCTCTACTGCAACTTCAGAGAGAT
131 CCACTACAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGAT
9536260 AAGATCTAACTTCAATCTGCTCCACTGAAATGTC
196 AAGATCTAACTTCAATCTGCTCCACTGAAATGTC
*
9536294 AGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATT
1 AGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
** * * ** * * *
9536359 CGTCATCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTTATAACTTTAACCTGCT
66 CACCACCTTCAATCTACTCCACTACAAATTCAGGGAGATAAGACTTGTTATAACTTCAACCTACT
* *
9536424 CCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGAT
131 CCACTACAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGAT
9536489 A
196 A
9536490 GGATTTACTA
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
229 178 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (229 bp):
AGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
CACCACCTTCAATCTACTCCACTACAAATTCAGGGAGATAAGACTTGTTATAACTTCAACCTACT
CCACTACAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGAT
AAGATCTAACTTCAATCTGCTCCACTGAAATGTC
Found at i:9536623 original size:229 final size:224
Alignment explanation
Indices: 9536088--9536587 Score: 553
Period size: 229 Copynumber: 2.2 Consensus size: 224
9536078 TTGTAATTTG
* * * * *** * * *
9536088 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACCACCTTCAATCTGCTCCACT
1 TAGCTTCAATCTGCTCCAATGCAAATTCAGGGAAATAAGATTCGTAATCTTCAGTCTACTCCACT
* * ** *
9536153 ACAAATTCTTGGAGATAAGACTTGTTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAA
66 GCAACTTCAGGGAGATAAGACTTGTTATAACTTCAACCTACTCCACTACAACTTCAGGGAGATAA
* * *
9536218 GGTTTATAGCTTTAATTTGCTCTACTGCAACTTCAGAGAGATAAGATCTAACTTCAATCTGCTCC
131 GGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAACTTCAATCTACTCC
*
9536283 ACTGAAATGTCAGGGAGATAAGATTTGTAA
196 ACTGAAATGTCAGGGAGATAAGA-TTCTAA
* * * * *
9536313 TTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGTCATCTTCAGTCTACTC
1 ----TAGCTTCAATCTGCTCCAATGCAAATTCAGGGAAATAAGATTCGTAATCTTCAGTCTACTC
* * * * *
9536378 CACTGTAACTTCAGGGAGATAAGACTTGTTATAACTTTAACCTGCTCCACTGCAACTTTAGGGAG
62 CACTGCAACTTCAGGGAGATAAGACTTGTTATAACTTCAACCTACTCCACTACAACTTCAGGGAG
* * *
9536443 ATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAGGAT-TTACTATCTCTGA
127 ATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAAC--T-TC-AA
*
9536507 TCTACTCCACTGTAACT-TCAGGGAGATAAGA-TCT-A
188 TCTACTCCACTG-AAATGTCAGGGAGATAAGATTCTAA
* *
9536542 -A-CTTCAATCTGCTCCAATGCAAATTCAGGGAGATAAGATTTGTAAT
1 TAGCTTCAATCTGCTCCAATGCAAATTCAGGGAAATAAGATTCGTAAT
9536588 TTGTAGCTTT
Statistics
Matches: 235, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
223 38 0.16
224 1 0.00
228 3 0.01
229 159 0.68
230 3 0.01
231 2 0.01
232 26 0.11
233 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (224 bp):
TAGCTTCAATCTGCTCCAATGCAAATTCAGGGAAATAAGATTCGTAATCTTCAGTCTACTCCACT
GCAACTTCAGGGAGATAAGACTTGTTATAACTTCAACCTACTCCACTACAACTTCAGGGAGATAA
GGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAACTTCAATCTACTCC
ACTGAAATGTCAGGGAGATAAGATTCTAA
Found at i:9536653 original size:138 final size:138
Alignment explanation
Indices: 9536102--9536674 Score: 512
Period size: 138 Copynumber: 4.2 Consensus size: 138
9536092 TTTAATCTGT
* * **
9536102 TCCACTGCAACTTCAGGGAAATAAGAT-TCACCACCTTCAATCTGCTCCACTACAAATTCTTGGA
1 TCCACTGCAACTTCAGGGAGATAAGATCT-A--A-CTTCAATCTGCTCCACTGCAAATTCAGGGA
* * * * ** * * * * *
9536166 GATAAGACTTG----TTGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTA-TA
62 GATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACTA
* * * * *
9536226 GCTTTAATTTGC
127 TCTTCAGTCTAC
* *
9536238 TCTACTGCAACTTCAGAGAGATAAGATCTAACTTCAATCTGCTCCACTG-AAATGTCAGGGAGAT
1 TCCACTGCAACTTCAGGGAGATAAGATCTAACTTCAATCTGCTCCACTGCAAAT-TCAGGGAGAT
*
9536302 AAGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTC-GTCATC
65 AAGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACT-ATC
9536366 TTCAGTCTAC
129 TTCAGTCTAC
* * * * * *
9536376 TCCACTGTAACTTCAGGGAGATAAGACTTGTTATAACTTTAACCTGCTCCACTGCAACTTTAGGG
1 TCCACTGCAACTTCAGGGAGATAAGA-----TCTAACTTCAATCTGCTCCACTGCAAATTCAGGG
* ** * * * * * *
9536441 AGATAAG----G---TTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAGGATTTACT
61 AGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACT
*
9536499 ATC-TCTGATCTAC
126 ATCTTCAG-TCTAC
* *
9536512 TCCACTGTAACTTCAGGGAGATAAGATCTAACTTCAATCTGCTCCAATGCAAATTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATAAGATCTAACTTCAATCTGCTCCACTGCAAATTCAGGGAGATA
*
9536577 AGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATCCACTATCTT
66 AGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACTATCTT
* *
9536642 CAGTTTGC
131 CAGTCTAC
* *
9536650 TCCACTACAACTTTAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
9536675 GTTCACCATG
Statistics
Matches: 350, Mismatches: 63, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
131 35 0.10
132 4 0.01
133 32 0.09
134 1 0.00
135 4 0.01
136 97 0.28
137 39 0.11
138 99 0.28
139 4 0.01
143 32 0.09
144 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (138 bp):
TCCACTGCAACTTCAGGGAGATAAGATCTAACTTCAATCTGCTCCACTGCAAATTCAGGGAGATA
AGATTTGTAATTTGTAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACTATCTT
CAGTCTAC
Found at i:9537627 original size:7 final size:7
Alignment explanation
Indices: 9537563--9537630 Score: 61
Period size: 7 Copynumber: 10.1 Consensus size: 7
9537553 CCTTGGCCTC
9537563 TCCTTTT
1 TCCTTTT
9537570 T-CTTTT
1 TCCTTTT
9537576 T-CTTTT
1 TCCTTTT
*
9537582 CCCTTTT
1 TCCTTTT
*
9537589 CCCTTTT
1 TCCTTTT
*
9537596 CCCTTTT
1 TCCTTTT
* *
9537603 TTCTTCT
1 TCCTTTT
*
9537610 T-CTTCT
1 TCCTTTT
9537616 TCCTTTT
1 TCCTTTT
9537623 TCCTTTT
1 TCCTTTT
9537630 T
1 T
9537631 ATTTATTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
6 17 0.31
7 37 0.69
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
TCCTTTT
Found at i:9542613 original size:3 final size:3
Alignment explanation
Indices: 9542605--9542652 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
9542595 AAATGAGAGT
* *
9542605 ATA ATA ATA A-A GT- ATA ACA ATA ATA ATAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
9542649 ATA A
1 ATA A
9542653 AGTATAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9542620 original size:13 final size:13
Alignment explanation
Indices: 9542602--9542659 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
9542592 TGTAAATGAG
9542602 AGTATAATAATAA
1 AGTATAATAATAA
*
9542615 AGTATAACAATAA
1 AGTATAATAATAA
*
9542628 TAATA-AATAAT-A
1 -AGTATAATAATAA
9542640 A-TAATAATAATAA
1 AGT-ATAATAATAA
9542653 AGTATAA
1 AGTATAA
9542660 CATGAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
10 1 0.03
11 2 0.05
12 7 0.19
13 23 0.62
14 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (13 bp):
AGTATAATAATAA
Found at i:9542629 original size:19 final size:19
Alignment explanation
Indices: 9542605--9542661 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
9542595 AAATGAGAGT
9542605 ATAATAATAAAGTATAACA
1 ATAATAATAAAGTATAACA
*
9542624 ATAATAATAAA-TAATAATA
1 ATAATAATAAAGT-ATAACA
9542643 ATAATAATAAAGTATAACA
1 ATAATAATAAAGTATAACA
9542662 TGAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAATAATAAAGTATAACA
Found at i:9542637 original size:16 final size:16
Alignment explanation
Indices: 9542618--9542649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9542608 ATAATAAAGT
9542618 ATAACAATAATAATAA
1 ATAACAATAATAATAA
*
9542634 ATAATAATAATAATAA
1 ATAACAATAATAATAA
9542650 TAAAGTATAA
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:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAACAATAATAATAA
Found at i:9542981 original size:31 final size:25
Alignment explanation
Indices: 9542922--9542970 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9542912 GGATCAAATC
9542922 GAAATTGAAATAAACTCTGAGGTAA
1 GAAATTGAAATAAACTCTGAGGTAA
9542947 GAAATTGAAATAAACTCTGAGGTA
1 GAAATTGAAATAAACTCTGAGGTA
9542971 TAAATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.24
Consensus pattern (25 bp):
GAAATTGAAATAAACTCTGAGGTAA
Found at i:9543604 original size:18 final size:18
Alignment explanation
Indices: 9543583--9543634 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
9543573 AAATAATAAT
* *
9543583 AAAATCAAAAGAAACAAG
1 AAAATCAAAAGAAAAAAA
*
9543601 AAAATGAAAAGAAAAAAA
1 AAAATCAAAAGAAAAAAA
*
9543619 AAAGATCAAAACAAAA
1 AAA-ATCAAAAGAAAA
9543635 CCTTTTCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.06
Consensus pattern (18 bp):
AAAATCAAAAGAAAAAAA
Found at i:9544978 original size:56 final size:56
Alignment explanation
Indices: 9544892--9545011 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
9544882 ACAAGGGATG
*
9544892 ATGGGCAAAACATGTCATGAAACGTGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
9544948 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
9545004 ATGGGCAA
1 ATGGGCAA
9545012 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:9546330 original size:40 final size:40
Alignment explanation
Indices: 9546139--9546323 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
9546129 TCGAATGATG
* * * * *
9546139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
9546179 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* *
9546219 TCTGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
* *
9546258 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9546299 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
9546324 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9546345 original size:79 final size:79
Alignment explanation
Indices: 9546192--9546356 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
9546182 GGACTAAGAT
* * **
9546192 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
9546257 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
9546271 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
9546334 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
9546350 CCGAAGG
1 CCGAAGG
9546357 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:9547957 original size:19 final size:19
Alignment explanation
Indices: 9547933--9548011 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
9547923 AATCTTTAAG
9547933 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9547952 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9547971 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9547988 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
9548009 GAT
1 GAT
9548012 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9547963 original size:36 final size:36
Alignment explanation
Indices: 9547923--9548010 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
9547913 ATGGAAATAT
9547923 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
9547959 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
9547995 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
9548011 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:9556224 original size:43 final size:43
Alignment explanation
Indices: 9556176--9556263 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
9556166 TTCCCACAAG
*
9556176 ATTACTTCAGCCTATTTCAATTCCTGAGTGGAAATGGGAACGC
1 ATTACTTCAGCCTATTTCAATTCCTGAGTGGAAATAGGAACGC
*
9556219 ATTACTTCAGCCTATTTCAATTCTTGAGTGGAAATAGGAACGC
1 ATTACTTCAGCCTATTTCAATTCCTGAGTGGAAATAGGAACGC
9556262 AT
1 AT
9556264 AACGATGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (43 bp):
ATTACTTCAGCCTATTTCAATTCCTGAGTGGAAATAGGAACGC
Found at i:9557675 original size:35 final size:35
Alignment explanation
Indices: 9557635--9557703 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
9557625 GATAAATTAA
*
9557635 TATATATATTTTATAATAAAT-AAATAAAATGAAAT
1 TATATATATTATATAAT-AATGAAATAAAATGAAAT
*
9557670 TATATATATTATATAATAATGAATTAAAATGAAA
1 TATATATATTATATAATAATGAAATAAAATGAAA
9557704 ACAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 3 0.10
35 28 0.90
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (35 bp):
TATATATATTATATAATAATGAAATAAAATGAAAT
Found at i:9557797 original size:12 final size:12
Alignment explanation
Indices: 9557761--9557794 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
9557751 ATGCAAAATT
9557761 GAAAGAAAAGAAA
1 GAAAGAAAAG-AA
9557774 GAAAGAAAAGAA
1 GAAAGAAAAGAA
9557786 GAACAGAAA
1 GAA-AGAAA
9557795 GAACGCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAGAA
Found at i:9558956 original size:20 final size:19
Alignment explanation
Indices: 9558931--9558975 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
9558921 TATGATATGG
9558931 GAAATGGAATATGAAATAAT
1 GAAATGGAATATG-AATAAT
* *
9558951 GAAATGGGATATGAATATT
1 GAAATGGAATATGAATAAT
9558970 GAAATG
1 GAAATG
9558976 AATTCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (19 bp):
GAAATGGAATATGAATAAT
Found at i:9558957 original size:27 final size:27
Alignment explanation
Indices: 9558922--9558974 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9558912 AGAAACGAAT
*
9558922 ATGATATGGGAAATGGAATA-TGAAATA
1 ATGAAATGGGAAAT-GAATATTGAAATA
*
9558949 ATGAAATGGGATATGAATATTGAAAT
1 ATGAAATGGGAAATGAATATTGAAAT
9558975 GAATTCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATA
Found at i:9570475 original size:29 final size:28
Alignment explanation
Indices: 9570432--9570541 Score: 141
Period size: 29 Copynumber: 3.9 Consensus size: 28
9570422 CATGAGTATG
*
9570432 AATGTGACTGGGCCTAATGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
9570460 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
9570489 CAGATG-GTTTGGGCCTAATGGGCCATATG
1 -A-ATGTGATTGGGCCTAATGGGCCATATA
* *
9570518 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
9570542 GATACAGGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.03
28 25 0.35
29 40 0.56
30 2 0.03
31 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:9570508 original size:58 final size:57
Alignment explanation
Indices: 9570440--9570548 Score: 173
Period size: 58 Copynumber: 1.9 Consensus size: 57
9570430 TGAATGTGAC
* *
9570440 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGATGGTT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGATGGTT
* *
9570498 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAG
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAG
9570549 GTATGTGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGATGGTT
Found at i:9574264 original size:16 final size:16
Alignment explanation
Indices: 9574243--9574279 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
9574233 CACTTAAGAT
9574243 GTACATTGCCCTCAAG
1 GTACATTGCCCTCAAG
*
9574259 GTACATTGCCCTCAAT
1 GTACATTGCCCTCAAG
9574275 GTACA
1 GTACA
9574280 AAGAAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (16 bp):
GTACATTGCCCTCAAG
Found at i:9576600 original size:33 final size:33
Alignment explanation
Indices: 9576562--9576629 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
9576552 ATATAGTAAA
9576562 AAATTGTTCTTCAGGGAATGAATCATTTATTTC
1 AAATTGTTCTTCAGGGAATGAATCATTTATTTC
9576595 AAATTGTTCTTCAGGGAATGAATCATTTATTTC
1 AAATTGTTCTTCAGGGAATGAATCATTTATTTC
9576628 AA
1 AA
9576630 TGTCATCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (33 bp):
AAATTGTTCTTCAGGGAATGAATCATTTATTTC
Found at i:9579379 original size:19 final size:19
Alignment explanation
Indices: 9579342--9579379 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9579332 ACCTGTCAGA
*
9579342 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
9579361 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
9579380 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:9582157 original size:48 final size:47
Alignment explanation
Indices: 9582100--9582285 Score: 157
Period size: 48 Copynumber: 4.0 Consensus size: 47
9582090 GAAGTCTCGA
* * * * *
9582100 ATCGGTGCCAACGCCATGTCCCGGACATGGTCTTATACGGGACCTCAT
1 ATCGATGCCAA-GCCATATCCCAGACATGGTCTTACACGGGATCTCAT
* * ** * *
9582148 ATCGAT-----GCCATACCCCAGACATGGTCTTATACGAAATCACTT
1 ATCGATGCCAAGCCATATCCCAGACATGGTCTTACACGGGATCTCAT
* * *
9582190 ATCGATGCTGAAGCCATATCCCTGATATGGTCTTACACGGGATCTCAT
1 ATCGATGC-CAAGCCATATCCCAGACATGGTCTTACACGGGATCTCAT
* * *
9582238 ATCGATGCTGATGCCATACCCCAGACATGGTCTTACACGGGATCTCAT
1 ATCGATGC-CAAGCCATATCCCAGACATGGTCTTACACGGGATCTCAT
9582286 TAATCATGGT
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
42 34 0.31
48 77 0.69
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
ATCGATGCCAAGCCATATCCCAGACATGGTCTTACACGGGATCTCAT
Found at i:9582172 original size:90 final size:89
Alignment explanation
Indices: 9582013--9582245 Score: 223
Period size: 90 Copynumber: 2.6 Consensus size: 89
9582003 TACCAAATAG
* * * ** * * * * *
9582013 GGTGCCAAAGCCATGTCCCAGAGATGGTCTTACATGGAACGACACATTGATGCCATATCCTAAAT
1 GGTGCC-AAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCATACCCCAAAC
* * *
9582078 ATGGTTTTATACGAAGTCTCGAATC
65 ATGGTCTTATACGAAATCACGAATC
* * *
9582103 GGTGCCAACGCCATGTCCCGGACATGGTCTTATACGGGACCTCATATCGATGCCATACCCCAGAC
1 GGTGCCAA-GCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCATACCCCAAAC
**
9582168 ATGGTCTTATACGAAATCACTTATC
65 ATGGTCTTATACGAAATCACGAATC
* * * * * *
9582193 GATGCTGAAGCCATATCCCTGATATGGTCTTACACGGGATCTCATATCGATGC
1 GGTGC-CAAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGC
9582246 TGATGCCATA
Statistics
Matches: 116, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
89 2 0.02
90 112 0.97
91 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (89 bp):
GGTGCCAAGCCATGTCCCAGACATGGTCTTACACGGGACCTCATATCGATGCCATACCCCAAACA
TGGTCTTATACGAAATCACGAATC
Found at i:9583302 original size:35 final size:35
Alignment explanation
Indices: 9583240--9583325 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
9583230 TTTTATTTGT
*
9583240 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
9583273 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
9583309 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
9583326 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:9583311 original size:25 final size:23
Alignment explanation
Indices: 9583267--9583327 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
9583257 TGATATTTAA
*
9583267 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
9583291 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
9583316 ATATTATTAAAT
1 ATATAATTAAAT
9583328 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:9583555 original size:20 final size:20
Alignment explanation
Indices: 9583530--9583582 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
9583520 GGTACAAATG
9583530 TATTAATTATACTTTATAAT
1 TATTAATTATACTTTATAAT
*
9583550 TATTAATTATATTTTATAAT
1 TATTAATTATACTTTATAAT
9583570 TATTAATTA-ACTT
1 TATTAATTATACTT
9583583 AAATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATTATACTTTATAAT
Found at i:9584007 original size:40 final size:40
Alignment explanation
Indices: 9583954--9584040 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
9583944 AATTATGGAA
* *
9583954 TACTGAATATTGTTTTGAATACTGAATTGAATTGT-AAAGT
1 TACTGAATATTGTTATGAATACTGAATTGAACTGTGAAA-T
** *
9583994 TACTGAATATTGTTATGCGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAATACTGAATTGAACTGTGAAAT
9584034 TACTGAA
1 TACTGAA
9584041 GTAATGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (40 bp):
TACTGAATATTGTTATGAATACTGAATTGAACTGTGAAAT
Found at i:9584345 original size:6 final size:6
Alignment explanation
Indices: 9584334--9584361 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9584324 GTATGTTGAA
9584334 TACTGT TACTGT TACTGT TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACT
9584362 ACTACCGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:9586884 original size:28 final size:27
Alignment explanation
Indices: 9586852--9586933 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
9586842 GTCACTAGAT
* *
9586852 ACAGATATTTTGTGGTAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGGGCCACCAGA
**
9586880 ACAGATATACGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGGGCCACCAGA
**
9586907 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGAT-ATTTGTGGCAGGGCCACCAG
9586934 GACGCTTCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGGGCCACCAGA
Found at i:9587086 original size:28 final size:28
Alignment explanation
Indices: 9587039--9587130 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
9587029 AAGTTAACCC
*
9587039 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
*
9587067 TAAGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
9587095 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
9587123 TAGGGGTA
1 TAGGGGTA
9587131 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:9593583 original size:55 final size:56
Alignment explanation
Indices: 9593518--9593632 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
9593508 AGCATGGCTG
* * *
9593518 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
9593574 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
9593629 CCAG
1 CCAG
9593633 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:9593629 original size:28 final size:27
Alignment explanation
Indices: 9593543--9593632 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
9593533 GTGACAGAGT
*
9593543 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
9593572 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
9593599 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
9593627 CACCAG
1 CACCAG
9593633 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:9593791 original size:28 final size:27
Alignment explanation
Indices: 9593738--9593801 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 27
9593728 AAATTAACCC
*
9593738 TAGGGGTATAAGGTCATTTTGCATACA
1 TAGGGGTATAAGGTAATTTTGCATACA
9593765 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAA-GGTAATTTTGCATACA
9593793 TAGGGGTAT
1 TAGGGGTAT
9593802 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 11 0.31
28 24 0.69
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAAGGTAATTTTGCATACA
Found at i:9600202 original size:28 final size:29
Alignment explanation
Indices: 9600119--9600206 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
9600109 AGCATGGCTG
* * * *
9600119 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
* *
9600146 CCAGATACAGATATTTTGTGGTAGTGCCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
9600175 CCAGA-ACAGATAATTTGTGGCA-TAGCCA
1 CCAGATACAGATAATTTGTGGCAGT-GCCA
9600203 CCAG
1 CCAG
9600207 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 12 0.24
28 24 0.48
29 14 0.28
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCAGTGCCA
Found at i:9600359 original size:28 final size:28
Alignment explanation
Indices: 9600312--9600403 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
9600302 AAGTTAACCC
*
9600312 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
9600340 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
**
9600368 TAGGGGTATAATGGTAATTTTTTATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
9600396 TAGGGGTA
1 TAGGGGTA
9600404 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:9611557 original size:11 final size:11
Alignment explanation
Indices: 9611538--9611579 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9611528 ATACAGCACA
*
9611538 TTTCCTTTTTT
1 TTTCTTTTTTT
9611549 TTTCTTTTTTCT
1 TTTCTTTTTT-T
9611561 TTT-TTTTTTT
1 TTTCTTTTTTT
*
9611571 ATTCTTTTT
1 TTTCTTTTT
9611580 AATGCCTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.11
11 20 0.74
12 4 0.15
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:9611558 original size:7 final size:7
Alignment explanation
Indices: 9611546--9611579 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
9611536 CATTTCCTTT
9611546 TTTTTTC
1 TTTTTTC
9611553 TTTTTTC
1 TTTTTTC
*
9611560 TTTTTTT
1 TTTTTTC
9611567 TTTTATTC
1 TTTT-TTC
9611575 TTTTT
1 TTTTT
9611580 AATGCCTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:9611565 original size:15 final size:15
Alignment explanation
Indices: 9611544--9611579 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
9611534 CACATTTCCT
*
9611544 TTTTTTTTCTTTTTTC
1 TTTTTTTT-TTTATTC
9611560 TTTTTTTTTTTATTC
1 TTTTTTTTTTTATTC
9611575 TTTTT
1 TTTTT
9611580 AATGCCTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTTATTC
Found at i:9613175 original size:27 final size:27
Alignment explanation
Indices: 9613145--9613199 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9613135 ACAACTCCCT
9613145 CAGCTACAACAACAACAACAGCAGCAG
1 CAGCTACAACAACAACAACAGCAGCAG
* * **
9613172 CAGCTACCACAGCTGCAACAGCAGCAG
1 CAGCTACAACAACAACAACAGCAGCAG
9613199 C
1 C
9613200 TTTCCCAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.36, G:0.18, T:0.05
Consensus pattern (27 bp):
CAGCTACAACAACAACAACAGCAGCAG
Found at i:9613193 original size:24 final size:24
Alignment explanation
Indices: 9613163--9613247 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
9613153 ACAACAACAA
9613163 CAGCAGCAGCAGCTACCACAGCTG
1 CAGCAGCAGCAGCTACCACAGCTG
* *
9613187 CAACAGCAGCAGCTTTCC-CAGCTG
1 CAGCAGCAGCAGC-TACCACAGCTG
* * * * *
9613211 CAGCAGCAACAACAACAACAGCAG
1 CAGCAGCAGCAGCTACCACAGCTG
9613235 CAGCAGCAGCAGC
1 CAGCAGCAGCAGC
9613248 AGCAGCAACA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 44 0.92
25 3 0.06
ACGTcount: A:0.34, C:0.36, G:0.22, T:0.07
Consensus pattern (24 bp):
CAGCAGCAGCAGCTACCACAGCTG
Found at i:9613216 original size:3 final size:3
Alignment explanation
Indices: 9613205--9613254 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
9613195 GCAGCTTTCC
* * * * *
9613205 CAG CTG CAG CAG CAA CAA CAA CAA CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
9613253 CA
1 CA
9613255 ACAGTCGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.40, C:0.34, G:0.24, T:0.02
Consensus pattern (3 bp):
CAG
Found at i:9614808 original size:12 final size:12
Alignment explanation
Indices: 9614791--9614815 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9614781 CCAAAGCTGT
9614791 CACTTCTCATTC
1 CACTTCTCATTC
9614803 CACTTCTCATTC
1 CACTTCTCATTC
9614815 C
1 C
9614816 TTGGGTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (12 bp):
CACTTCTCATTC
Found at i:9621480 original size:20 final size:20
Alignment explanation
Indices: 9621457--9621527 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
9621447 GAATCAAGTT
*
9621457 AAACAACAAAGAATTGATTC
1 AAACAACAAAGAATCGATTC
* *
9621477 AAACAATAATGAATCGATTC
1 AAACAACAAAGAATCGATTC
* * * *
9621497 AAATAGCAAAAGAATCAAGTC
1 AAACAAC-AAAGAATCGATTC
*
9621518 AATCAACAAA
1 AAACAACAAA
9621528 ACAATATATT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 24 0.63
21 14 0.37
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.18
Consensus pattern (20 bp):
AAACAACAAAGAATCGATTC
Found at i:9624714 original size:18 final size:18
Alignment explanation
Indices: 9624671--9624716 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
9624661 TAAGGTCACG
* *
9624671 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
9624689 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
9624707 ATCAATATCG
1 ATCAATATCG
9624717 ACATCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:9625582 original size:18 final size:17
Alignment explanation
Indices: 9625525--9625583 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
9625515 TTCTTTTAGT
* *
9625525 AATTTTATATATTTTTA
1 AATTTTATAAATTATTA
* *
9625542 ATTTTTCATAAATTATCA
1 AATTTT-ATAAATTATTA
9625560 TAATTTTATAACATTATTA
1 -AATTTTATAA-ATTATTA
9625579 AATTT
1 AATTT
9625584 AAAATACATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.15
18 17 0.52
19 11 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTATAAATTATTA
Found at i:9625974 original size:13 final size:13
Alignment explanation
Indices: 9625958--9625984 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9625948 AAAAAGATAT
9625958 ATGAAAAATAAAA
1 ATGAAAAATAAAA
9625971 ATGAAAAATAAAA
1 ATGAAAAATAAAA
9625984 A
1 A
9625985 AATTTAGGCA
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:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
ATGAAAAATAAAA
Found at i:9626243 original size:10 final size:11
Alignment explanation
Indices: 9626225--9626258 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9626215 AAAAAAATCA
9626225 AAATAATTTTT
1 AAATAATTTTT
9626236 AAAT-A-TTTT
1 AAATAATTTTT
9626245 AAATAATTTTT
1 AAATAATTTTT
9626256 AAA
1 AAA
9626259 ATCTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.38
10 2 0.10
11 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:9626453 original size:18 final size:18
Alignment explanation
Indices: 9626420--9626454 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9626410 TTTAGCCACC
* *
9626420 AAAAAAAATATTGAAAAT
1 AAAAAAAAAATCGAAAAT
9626438 AAAAAAAAAATCGAAAA
1 AAAAAAAAAATCGAAAA
9626455 CTGAAAGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAAAAAAAATCGAAAAT
Found at i:9630278 original size:3 final size:3
Alignment explanation
Indices: 9630270--9632004 Score: 2499
Period size: 3 Copynumber: 579.7 Consensus size: 3
9630260 GTTGGGTCAG
* *
9630270 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
9630318 TAG TAA TAG TAA TAG TAA TAG TAA TAG TAA TAG TAA TAG TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630366 TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
9630414 TAG TAG TAA TAA TAA TAA CAG TAA TAA TAA TAC TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630462 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630510 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630558 TAA TAA TAG TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630606 TAG TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630654 TAA TAG TAA TAA TAA TAG TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630702 TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630750 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630798 TAG TAA TAA TAA TAA TAA TAA TAA TAA -AA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9630845 TAA TAA TAG TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630893 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9630941 TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9630989 TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAG TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631037 TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631085 -AA TAG TAA TAA TAA TAA TAA TAA TAA T-A TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9631131 TAA TAA TAA TAA TAA TAG TAG TAA TAA TAA TAG TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631179 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9631227 TAA TAG TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631275 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9631323 TAA TAG TAA TAA TAA TAG TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9631371 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631419 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631467 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA -AA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9631514 TAA TAA TAA TAG TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631562 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631610 TAA TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9631658 TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAG TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631706 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9631754 TAA TAA -AA TAG TAA TAA TAA TAA TAA TAA TAAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * *
9631799 TAA TAA TAA TAA TAA TAA TAA TAG TAG TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9631847 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9631895 TAA TAG TAG TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9631943 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAG TAG TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9631991 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
9632005 GTAGGAAAGT
Statistics
Matches: 1534, Mismatches: 192, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
2 10 0.01
3 1521 0.99
4 3 0.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9633116 original size:22 final size:22
Alignment explanation
Indices: 9633090--9633131 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9633080 AATAGTAGGG
9633090 AAAGAAAGAAGAAAA-AAAAACA
1 AAAGAAA-AAGAAAAGAAAAACA
*
9633112 AAAGAAAAGGAAAAGAAAAA
1 AAAGAAAAAGAAAAGAAAAA
9633132 TTTAGGGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAAAGAAAAACA
Found at i:9633119 original size:11 final size:11
Alignment explanation
Indices: 9633090--9633131 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9633080 AATAGTAGGG
9633090 AAAGAAAGAAGA
1 AAAGAAA-AAGA
*
9633102 AAA-AAAAACA
1 AAAGAAAAAGA
*
9633112 AAAGAAAAGGA
1 AAAGAAAAAGA
9633123 AAAGAAAAA
1 AAAGAAAAA
9633132 TTTAGGGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 6 0.24
11 16 0.64
12 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:9634837 original size:17 final size:17
Alignment explanation
Indices: 9634815--9634867 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
9634805 CCACGACGTG
9634815 GCCCCACGGCCATGGGA
1 GCCCCACGGCCATGGGA
* *
9634832 GCCCCATGGGC-T---A
1 GCCCCACGGCCATGGGA
*
9634845 GCCACACGGCCATGGGA
1 GCCCCACGGCCATGGGA
9634862 GCCCCA
1 GCCCCA
9634868 TGGGCTAGCC
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
16 1 0.04
17 15 0.58
ACGTcount: A:0.19, C:0.42, G:0.32, T:0.08
Consensus pattern (17 bp):
GCCCCACGGCCATGGGA
Found at i:9634853 original size:30 final size:30
Alignment explanation
Indices: 9634819--9634888 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
9634809 GACGTGGCCC
9634819 CACGGCCATGGGAGCCCCATGGGCTAGCCA
1 CACGGCCATGGGAGCCCCATGGGCTAGCCA
9634849 CACGGCCATGGGAGCCCCATGGGCTAGCCA
1 CACGGCCATGGGAGCCCCATGGGCTAGCCA
9634879 CACGGCCATG
1 CACGGCCATG
9634889 TCCCAGGCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.37, G:0.33, T:0.10
Consensus pattern (30 bp):
CACGGCCATGGGAGCCCCATGGGCTAGCCA
Found at i:9635683 original size:18 final size:18
Alignment explanation
Indices: 9635660--9635711 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
9635650 ATGGAAAAGT
*
9635660 TGAGAAATGAATATGAGA
1 TGAGAAATGAATATGAAA
9635678 TGAGAAATGAAATATGAAA
1 TGAGAAATG-AATATGAAA
9635697 TGATGAAATG-ATATG
1 TGA-GAAATGAATATG
9635712 TGAATCTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 14 0.45
19 11 0.35
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
TGAGAAATGAATATGAAA
Found at i:9635693 original size:19 final size:19
Alignment explanation
Indices: 9635660--9635707 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
9635650 ATGGAAAAGT
*
9635660 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
9635678 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
9635697 TGATGAAATGA
1 TGA-GAAATGA
9635708 TATGTGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:9642914 original size:46 final size:47
Alignment explanation
Indices: 9642841--9642935 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
9642831 TCCTATGCTC
*
9642841 ATAGTAGCCCATACTTTTCATTATTTCACACATTTACCACACAATTT
1 ATAGGAGCCCATACTTTTCATTATTTCACACATTTACCACACAATTT
*
9642888 ATAGGAGCCCATA-TTTTCATTATTTCACACATTTATCACACAATTT
1 ATAGGAGCCCATACTTTTCATTATTTCACACATTTACCACACAATTT
9642934 AT
1 AT
9642936 TACATTTTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 34 0.74
47 12 0.26
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (47 bp):
ATAGGAGCCCATACTTTTCATTATTTCACACATTTACCACACAATTT
Found at i:9643761 original size:34 final size:34
Alignment explanation
Indices: 9643718--9643787 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
9643708 AAAAAAATCA
*
9643718 TATGAATTAAATACTAACATTTAATAACTTATTT
1 TATGAATTAAATACTAACATTTAATAACTTAGTT
9643752 TATGAATTAAATACTAACATTTAATAACTTAGTT
1 TATGAATTAAATACTAACATTTAATAACTTAGTT
9643786 TA
1 TA
9643788 AATATAGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (34 bp):
TATGAATTAAATACTAACATTTAATAACTTAGTT
Found at i:9645258 original size:19 final size:19
Alignment explanation
Indices: 9645234--9645275 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9645224 GGATCAATTT
*
9645234 GAAAAAATAGAAAGTTTTG
1 GAAAAAATAGAAAATTTTG
* *
9645253 GAAAAACTTGAAAATTTTG
1 GAAAAAATAGAAAATTTTG
9645272 GAAA
1 GAAA
9645276 CAGGGGTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.26
Consensus pattern (19 bp):
GAAAAAATAGAAAATTTTG
Found at i:9646478 original size:22 final size:22
Alignment explanation
Indices: 9646436--9646498 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
9646426 TCATCCTTTT
*
9646436 CATTTCAAATGAACATAACAATTC
1 CATTTCACAT-AACA-AACAATTC
*
9646460 CATTTTACATAACAAACAATTC
1 CATTTCACATAACAAACAATTC
9646482 CATTTCACATAACAAAC
1 CATTTCACATAACAAAC
9646499 TTTTACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 24 0.67
23 4 0.11
24 8 0.22
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (22 bp):
CATTTCACATAACAAACAATTC
Found at i:9654732 original size:50 final size:48
Alignment explanation
Indices: 9654665--9654844 Score: 177
Period size: 49 Copynumber: 3.7 Consensus size: 48
9654655 TACGAGATGT
9654665 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGAATATGTAAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACG-AT-TGTAAGA
* * * *
9654715 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGA-CACGATTGTAAGA
* * ** *
9654764 GTCAGTGTAAGACCATGCCTAGGACATGGCATCGACTTGATGGCT--GA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATTG-TAAGA
* * * *
9654811 GCCAGTGTAAGGCCATGTTTGGGACCTGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
9654845 GTATTATACC
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
47 29 0.26
48 5 0.05
49 37 0.34
50 36 0.33
51 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATTGTAAGA
Found at i:9654790 original size:49 final size:49
Alignment explanation
Indices: 9654615--9654799 Score: 186
Period size: 50 Copynumber: 3.9 Consensus size: 49
9654605 TGTAATAAAA
* * *** *
9654615 ATGTAAGCCACTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACG-AG
1 ATGTAAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAAT
9654661 ATGT--GTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CACGAAT
1 ATGTAAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAAT
* * *
9654707 ATGTAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATT
1 ATGTAAG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAAT
* * *
9654758 TTG-ATAGTCAGTGTAAGACCATGCCTAGGACATGGCATCGAC
1 ATGTA-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
9654800 TTGATGGCTG
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
44 10 0.08
45 17 0.14
46 15 0.13
48 1 0.01
49 32 0.27
50 34 0.29
51 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
ATGTAAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAAT
Found at i:9654841 original size:47 final size:47
Alignment explanation
Indices: 9654620--9654844 Score: 167
Period size: 49 Copynumber: 4.7 Consensus size: 47
9654610 TAAAAATGTA
* ** *
9654620 AGCCACTGTAAGA-CATGTCTGGGACAT-GCATCG-GTTACGA-GATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-CGATGCTG
* * *
9654664 TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CACGAATATG-TAAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCG---ATGCT--G
* **
9654714 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGCTG
* * * *
9654761 ATAGTCAGTGTAAGACCATGCCTAGGACATGGCATCGA-CTTGATGGCTG
1 --AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAT-GCTG
* * *
9654810 AGCCAGTGTAAGGCCATGTTTGGGACCTGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
9654845 GTATTATACC
Statistics
Matches: 144, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 6 0.04
47 30 0.21
48 9 0.06
49 36 0.25
50 34 0.24
51 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGCTG
Found at i:9671754 original size:46 final size:47
Alignment explanation
Indices: 9671593--9671955 Score: 201
Period size: 46 Copynumber: 7.7 Consensus size: 47
9671583 TTATTTGTGT
* *
9671593 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGTAGA
* * ** * * *
9671639 GCCAATGTAAGACCATGTCTGGGACATGGAATTGGCATTGAGACG-AGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTAGA
**
9671687 GGTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAGA
* * * *
9671733 GCCAGTCTAAGACATGTCTGGGACATGCAT-TGGCTACAAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTAGA
* * * * *
9671777 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGT-AGA
* * * * * ** ** *
9671827 GCTAGTGTAAGACTATGTCAGGGACATGGAGTCGGCCTTGATTTCAATA
1 GCCAGTGTAAGAC-ATGTCTGGGACATGCA-TCAGCCTCGAGATGTAGA
* * * *
9671876 GTCAGTGTAAGACCATG-CTTGGGACATGGCATC-GACT--TGATGGATGA
1 GCCAGTGTAAGA-CATGTC-TGGGACAT-GCATCAGCCTCGAGATGTA-GA
9671923 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
9671956 GGCATTATAC
Statistics
Matches: 244, Mismatches: 54, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 68 0.28
47 62 0.25
48 24 0.10
49 28 0.11
50 35 0.14
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAGA
Found at i:9674475 original size:42 final size:41
Alignment explanation
Indices: 9674397--9674479 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
9674387 TGCCGACACC
* *
9674397 ATGTCCCAGACATGGTCTTATACGAAACCTAATATCGATGCT
1 ATGTCCCAAACATAGTCTTATACGAAACCT-ATATCGATGCT
9674439 ATGTCCCAAACATAGTCTTATACGAAATCACT-TATCGATGC
1 ATGTCCCAAACATAGTCTTATACGAAA-C-CTATATCGATGC
9674480 CGAAGCCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 34 0.92
43 1 0.03
44 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (41 bp):
ATGTCCCAAACATAGTCTTATACGAAACCTATATCGATGCT
Found at i:9674550 original size:48 final size:48
Alignment explanation
Indices: 9674376--9674565 Score: 142
Period size: 48 Copynumber: 4.1 Consensus size: 48
9674366 CTAAACGAAG
* * ** *
9674376 TCTCGAATCGGTGCCGACACCATGTCCCAGACATGGTCTTATACGA-A
1 TCTCGTATCGATGCCGATGCCATGTCCCAGACATGGTCTTACACGAGA
* * * * * *
9674423 AC-C-TAAT--AT--CGATGCTATGTCCCAAACATAGTCTTATACGAAA
1 TCTCGT-ATCGATGCCGATGCCATGTCCCAGACATGGTCTTACACGAGA
* * * * * * *
9674466 TCACTTATCGATGCCGAAGCCATATCCCTGATATGGTATTACACGAGA
1 TCTCGTATCGATGCCGATGCCATGTCCCAGACATGGTCTTACACGAGA
* *
9674514 TCTCGTATCGATGCTGATGCCATGTCCCAGACATGGTCTTACACGGGA
1 TCTCGTATCGATGCCGATGCCATGTCCCAGACATGGTCTTACACGAGA
9674562 TCTC
1 TCTC
9674566 ATCAATCATG
Statistics
Matches: 107, Mismatches: 28, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
42 27 0.25
43 2 0.02
44 4 0.04
45 1 0.01
46 5 0.05
47 1 0.01
48 67 0.63
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
TCTCGTATCGATGCCGATGCCATGTCCCAGACATGGTCTTACACGAGA
Found at i:9678650 original size:48 final size:48
Alignment explanation
Indices: 9678533--9678744 Score: 249
Period size: 48 Copynumber: 4.5 Consensus size: 48
9678523 ATCCCATGTA
* * **
9678533 ATGTCTGGGACATGGCTTTGGCATCGATATGTAAT-ATAGTGTAAGACC
1 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCA-TGTAAGACC
*
9678581 ATAG-CT-GGAC-T---ATTGGCATCGATGTGTGATCCCATGTAAGACC
1 AT-GTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
** **
9678624 ATGTCTGGGACATGGCATTGGCATCGACCTACGATCCCATGTAAGACC
1 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
9678672 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
1 ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
* * *
9678720 ATATCCGGGATATGGCATTGGCATC
1 ATGTCTGGGACATGGCATTGGCATC
9678745 CTACTATGTG
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 5 0.04
45 1 0.01
46 1 0.01
47 4 0.03
48 98 0.70
49 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
ATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACC
Found at i:9681988 original size:16 final size:17
Alignment explanation
Indices: 9681969--9682007 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9681959 TGTTTTATTT
9681969 TAATAATGTAAT-ATAA
1 TAATAATGTAATAATAA
*
9681985 TAATAATTTAATAATAA
1 TAATAATGTAATAATAA
9682002 -AATAAT
1 TAATAAT
9682008 ATTTCACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATGTAATAATAA
Found at i:9686764 original size:40 final size:40
Alignment explanation
Indices: 9686720--9686800 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
9686710 AATTTTCATT
9686720 ATACAAACTAGTCATTTTTCATATCTAAGCATCAAATCTA
1 ATACAAACTAGTCATTTTTCATATCTAAGCATCAAATCTA
9686760 ATACAAACTAGTCATTTTTCATATCTAAGCATCAAATCTA
1 ATACAAACTAGTCATTTTTCATATCTAAGCATCAAATCTA
9686800 A
1 A
9686801 CCAGATAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.35
Consensus pattern (40 bp):
ATACAAACTAGTCATTTTTCATATCTAAGCATCAAATCTA
Found at i:9687724 original size:13 final size:13
Alignment explanation
Indices: 9687706--9687739 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
9687696 TATTTTATTA
9687706 ATATTTTAATAAG
1 ATATTTTAATAAG
9687719 ATATTTTAATAAG
1 ATATTTTAATAAG
9687732 ATATTTTA
1 ATATTTTA
9687740 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:9693660 original size:22 final size:22
Alignment explanation
Indices: 9693634--9693680 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9693624 CCAAAATTTA
*
9693634 TTAAAA-TGAAGTTGGCAATCAT
1 TTAAAATTAAAGTTGG-AATCAT
*
9693656 TTAAAATTAAAGTTGGGATCAT
1 TTAAAATTAAAGTTGGAATCAT
9693678 TTA
1 TTA
9693681 GTTTTAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (22 bp):
TTAAAATTAAAGTTGGAATCAT
Found at i:9705878 original size:19 final size:18
Alignment explanation
Indices: 9705836--9705879 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
9705826 TCAAACACCA
9705836 AAAAAATAAATCATTTTC
1 AAAAAATAAATCATTTTC
9705854 AGAAAAATAAATCATTTTC
1 A-AAAAATAAATCATTTTC
*
9705873 TAAAAAT
1 AAAAAAT
9705880 TATTTTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAAATAAATCATTTTC
Found at i:9705884 original size:14 final size:15
Alignment explanation
Indices: 9705862--9705899 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
9705852 TCAGAAAAAT
*
9705862 AAATCATTTTCT-AA
1 AAATTATTTTCTGAA
9705876 AAATTATTTTCTGAA
1 AAATTATTTTCTGAA
9705891 AAA-TATTTT
1 AAATTATTTT
9705900 ACTTACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (15 bp):
AAATTATTTTCTGAA
Found at i:9711402 original size:164 final size:162
Alignment explanation
Indices: 9711133--9711432 Score: 521
Period size: 164 Copynumber: 1.8 Consensus size: 162
9711123 GCCACATTTG
* *
9711133 TTAAAGTTTCCGCATTTCAACGATACTAGCCAACGAAAGAGTAAATTGGCACCTTATTTTTTTCT
1 TTAAAGTTTCCGCATTTAAAAGATACTAGCCAACGAAAGAGTAAATTGGCACCTTATTTTTTTCT
*
9711198 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCA-TGTGAAACAAACAGCTACTAA
66 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATTG-GAAACAAACAGATACTAA
9711262 CCGGCCACATAAGGTTTGACAAACAATGATTGT
130 CCGGCCACATAAGGTTTGACAAACAATGATTGT
9711295 TTAAAGTTTCCGCATTTAAAAGATACTAGCCAACGAAAAGAGTAAATTGGCACCTTATTTTTTTT
1 TTAAAGTTTCCGCATTTAAAAGATACTAGCCAACG-AAAGAGTAAATTGGCACCTTA-TTTTTTT
* *
9711360 CTAAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATTGGAAGCCAACAGATACTA
64 CTAAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATTGGAAACAAACAGATACTA
9711425 ACCGGCCA
129 ACCGGCCA
9711433 AGTAAACTTT
Statistics
Matches: 130, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
162 33 0.25
163 21 0.16
164 74 0.57
165 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (162 bp):
TTAAAGTTTCCGCATTTAAAAGATACTAGCCAACGAAAGAGTAAATTGGCACCTTATTTTTTTCT
AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATTGGAAACAAACAGATACTAAC
CGGCCACATAAGGTTTGACAAACAATGATTGT
Found at i:9718024 original size:54 final size:54
Alignment explanation
Indices: 9717911--9718033 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
9717901 CACGGTCTGA
* * * *
9717911 GACACGGCCGTGTGTATCAAGTCAGTGAGTCATATGGTTTGGCACACGATCTAT
1 GACACGGCCGTGTGTATCAAGTCAGTGAGTCACATGATTTGGCACACGAGCTAG
* * * * * *
9717965 AACACGACCATGTGTATTAAGTCAGTGAGTTACATGATTTGAG-ACACGGGCTAG
1 GACACGGCCGTGTGTATCAAGTCAGTGAGTCACATGATTTG-GCACACGAGCTAG
9718019 GACACGGCCGTGTGT
1 GACACGGCCGTGTGT
9718034 CCCAACTTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (54 bp):
GACACGGCCGTGTGTATCAAGTCAGTGAGTCACATGATTTGGCACACGAGCTAG
Found at i:9719302 original size:19 final size:19
Alignment explanation
Indices: 9719278--9719336 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
9719268 TCTAAACAAT
9719278 TTTAAATTATTTTTAAAAA
1 TTTAAATTATTTTTAAAAA
*
9719297 TTTAAATT-TTTATAAAAA
1 TTTAAATTATTTTTAAAAA
*
9719315 TATTTAATTAGTTTTTAAAAA
1 T-TTAAATTA-TTTTTAAAAA
9719336 T
1 T
9719337 ATTTTAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.29
19 14 0.41
21 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTAAATTATTTTTAAAAA
Found at i:9719335 original size:21 final size:20
Alignment explanation
Indices: 9719282--9719340 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
9719272 AACAATTTTA
*
9719282 AATTATTTTTAAAAAT-TTA
1 AATTATTTTTAAAAATATTT
*
9719301 AATT-TTTATAAAAATATTT
1 AATTATTTTTAAAAATATTT
9719320 AATTAGTTTTTAAAAATATTT
1 AATTA-TTTTTAAAAATATTT
9719341 TAAACTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.29
19 10 0.29
21 14 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
AATTATTTTTAAAAATATTT
Found at i:9724519 original size:17 final size:19
Alignment explanation
Indices: 9724483--9724519 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9724473 AAAGGCCATA
9724483 ACACGGCCCATGTGGGCCC
1 ACACGGCCCATGTGGGCCC
*
9724502 ACAC-GCCCGTGT-GGCCC
1 ACACGGCCCATGTGGGCCC
9724519 A
1 A
9724520 ATAAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.16, C:0.43, G:0.30, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTGGGCCC
Found at i:9726080 original size:7 final size:7
Alignment explanation
Indices: 9726065--9726094 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9726055 AGGGATTCGA
9726065 ACCTCAG
1 ACCTCAG
*
9726072 ACTTCAG
1 ACCTCAG
9726079 ACCTCAG
1 ACCTCAG
9726086 ACCTCAG
1 ACCTCAG
9726093 AC
1 AC
9726095 ACTAGCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.40, G:0.13, T:0.17
Consensus pattern (7 bp):
ACCTCAG
Found at i:9728592 original size:46 final size:45
Alignment explanation
Indices: 9728542--9728717 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
9728532 TGTTTGGGCA
9728542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
9728588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
9728635 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
9728681 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9728718 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:9728697 original size:93 final size:93
Alignment explanation
Indices: 9728538--9728709 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
9728528 AGGATGTTTG
* * *
9728538 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
9728603 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
9728631 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCC-GAACTCGTTGA
9728695 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
9728710 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:9734528 original size:23 final size:23
Alignment explanation
Indices: 9734484--9734528 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9734474 TTTTATTAAT
* **
9734484 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
9734507 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
9734529 GATATAAAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:9736731 original size:51 final size:51
Alignment explanation
Indices: 9736655--9736774 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
9736645 CTTAAACTTA
* *
9736655 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* *
9736706 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* *
9736757 CTTAATGTTTCATCCGGA
1 CTTCATATTTCATCCGGA
9736775 TAACTTGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:9738044 original size:27 final size:29
Alignment explanation
Indices: 9737997--9738061 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 29
9737987 ATAATCATAA
*
9737997 AATAATATAAGATCTTATTAA-AAT-ATT
1 AATAAAATAAGATCTTATTAATAATAATT
*
9738024 AATAAAATAATAT-TTATTTAATTAATAATT
1 AATAAAATAAGATCTTA-TTAA-TAATAATT
9738054 -ATAAAATA
1 AATAAAATA
9738062 TCATCAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 15 0.47
29 11 0.34
30 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (29 bp):
AATAAAATAAGATCTTATTAATAATAATT
Found at i:9738439 original size:11 final size:10
Alignment explanation
Indices: 9738423--9738449 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9738413 AAAATCAGAA
9738423 TTTTTTTCTT
1 TTTTTTTCTT
9738433 TTTTTTTCTT
1 TTTTTTTCTT
9738443 TTTTTTT
1 TTTTTTT
9738450 GTCACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:9753321 original size:7 final size:6
Alignment explanation
Indices: 9753294--9753338 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
9753284 GGGTTTTATT
9753294 AAGAAA ATATGAAA AAGAAA AAGAAA AAGAAAA AAGAAA AA-AAA A
1 AAGAAA A-A-GAAA AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA A
9753339 CATGAAAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.11
6 19 0.53
7 8 0.22
8 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:9753327 original size:13 final size:13
Alignment explanation
Indices: 9753294--9753338 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9753284 GGGTTTTATT
*
9753294 AAGAAAATATGAAA
1 AAGAAAA-AAGAAA
9753308 AAG-AAAAAGAAA
1 AAGAAAAAAGAAA
9753320 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
9753333 AA-AAAA
1 AAGAAAA
9753339 CATGAAAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.41
13 14 0.48
14 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:9753345 original size:13 final size:13
Alignment explanation
Indices: 9753294--9753345 Score: 63
Period size: 12 Copynumber: 4.0 Consensus size: 13
9753284 GGGTTTTATT
9753294 AAGAAAATATGAAA
1 AAGAAAA-ATGAAA
9753308 AAGAAAAA-GAAA
1 AAGAAAAATGAAA
*
9753320 AAGAAAAAAGAAA
1 AAGAAAAATGAAA
9753333 AA-AAAACATGAAA
1 AAGAAAA-ATGAAA
9753346 GCCACATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
12 16 0.46
13 12 0.34
14 7 0.20
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (13 bp):
AAGAAAAATGAAA
Found at i:9754269 original size:6 final size:6
Alignment explanation
Indices: 9754258--9754287 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
9754248 TTGCCCTTTC
9754258 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
9754288 TTATAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:9761352 original size:23 final size:24
Alignment explanation
Indices: 9761316--9761363 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
9761306 TTTTAACCAC
* *
9761316 TTTTTTTTTGTTTTAGATTTTTTG
1 TTTTTCTTTGTTTTACATTTTTTG
*
9761340 TTTTTCTTT-TTTTCCATTTTTTG
1 TTTTTCTTTGTTTTACATTTTTTG
9761363 T
1 T
9761364 GGCTAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTGTTTTACATTTTTTG
Done.