Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 90 of 145
Found at i:30023161 original size:15 final size:15
Alignment explanation
Indices: 30023143--30023172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30023133 TTTTACCATA
30023143 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
*
30023158 TTGAATGTTTAATTT
1 TTGAATGTTGAATTT
30023173 GTATATTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
TTGAATGTTGAATTT
Found at i:30023430 original size:441 final size:442
Alignment explanation
Indices: 30022608--30023492 Score: 1754
Period size: 441 Copynumber: 2.0 Consensus size: 442
30022598 TGTATTTTGG
30022608 GCTCTGAAAGACTTTCCAAAGTTCGTTTAAGATTGATATCTATCCATGTATCAGTAGTAATGGCT
1 GCTCTGAAAGACTTTCCAAAGTTCGTTTAAGATTGATATCTATCCATGTATCAGTAGTAATGGCT
30022673 ATAGTCATTATATATATTGTTTTACCATATTGAATGTTGAATTTTTGAATGTTTAATTTGTATAT
66 ATAGTCATTATATATATTGTTTTACCATATTGAATGTTGAATTTTTGAATGTTTAATTTGTATAT
30022738 TTGGTTTTCTTTGCTAATCAATGTAATGTCCTATATCTTATTTTTATTTGGGTGAGGTATAAGGT
131 TTGGTTTTCTTTGCTAATCAATGTAATGTCCTATATCTTATTTTTATTTGGGTGAGGTATAAGGT
30022803 GCTACATTGACCACCATTGATGTAACTTTTTTTACTGACGTGGCTAATGGTCCAACCAAATAGTG
196 GCTACATTGACCACCATTGATGTAACTTTTTTTACTGACGTGGCTAATGGTCCAACCAAATAGTG
30022868 ATAGGTGGAATGCCATAGGGATCTCATGCTAAATATTAAATTTTTAAAAAAAAATTCTAAAATAA
261 ATAGGTGGAATGCCATAGGGATCTCATGCTAAATATTAAATTTTTAAAAAAAAATTCTAAAATAA
30022933 ATAAAATTTCAAATAATGGTTGAAAATAACATGTCTAAGTTGTCCAAATTCATTTTGAATCTGGA
326 ATAAAATTTCAAATAATGGTTGAAAATAACATGTCTAAGTTGTCCAAATTCATTTTGAATCTGGA
30022998 TAACCAATTATTTAGGTTCATCTTGGACAAGGTTATTTAG-AACTACTAAAA
391 TAACCAATTATTTAGGTTCATCTTGGACAAGGTTATTTAGAAACTACTAAAA
30023049 GCTCTGAAAGACTTTCCAAAGTTCGTTTAAGATTGATATCTATCCATGTATCAGTAGTAATGGCT
1 GCTCTGAAAGACTTTCCAAAGTTCGTTTAAGATTGATATCTATCCATGTATCAGTAGTAATGGCT
30023114 ATAGTCATTATATATATTGTTTTACCATATTGAATGTTGAATTTTTGAATGTTTAATTTGTATAT
66 ATAGTCATTATATATATTGTTTTACCATATTGAATGTTGAATTTTTGAATGTTTAATTTGTATAT
30023179 TTGGTTTTCTTTGCTAATCAATGTAATGTCCTATATCTTATTTTTATTTGGGTGAGGTATAAGGT
131 TTGGTTTTCTTTGCTAATCAATGTAATGTCCTATATCTTATTTTTATTTGGGTGAGGTATAAGGT
30023244 GCTACATTGACCACCATTGATGTAACTTTTTTTACTGACGTGGCTAATGGTCCAACCAAATAGTG
196 GCTACATTGACCACCATTGATGTAACTTTTTTTACTGACGTGGCTAATGGTCCAACCAAATAGTG
30023309 ATAGGTGGAATGCCATAGGGATCTCATGCTAAATATTAAATTTTTAAAAAAAAATTCTAAAATAA
261 ATAGGTGGAATGCCATAGGGATCTCATGCTAAATATTAAATTTTTAAAAAAAAATTCTAAAATAA
30023374 ATAAAATTTCAAATAATGGTTGAAAATAACATGTCTAAGTTGTCCAAATTCATTTTGAATCTGGA
326 ATAAAATTTCAAATAATGGTTGAAAATAACATGTCTAAGTTGTCCAAATTCATTTTGAATCTGGA
30023439 TAACCAATTATTTAGGTTCATCTTGGACAAGGTTATTTAGATAACTACTAAAA
391 TAACCAATTATTTAGGTTCATCTTGGACAAGGTTATTTAGA-AACTACTAAAA
30023492 G
1 G
30023493 ATTAATAAAA
Statistics
Matches: 442, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
441 430 0.97
443 12 0.03
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (442 bp):
GCTCTGAAAGACTTTCCAAAGTTCGTTTAAGATTGATATCTATCCATGTATCAGTAGTAATGGCT
ATAGTCATTATATATATTGTTTTACCATATTGAATGTTGAATTTTTGAATGTTTAATTTGTATAT
TTGGTTTTCTTTGCTAATCAATGTAATGTCCTATATCTTATTTTTATTTGGGTGAGGTATAAGGT
GCTACATTGACCACCATTGATGTAACTTTTTTTACTGACGTGGCTAATGGTCCAACCAAATAGTG
ATAGGTGGAATGCCATAGGGATCTCATGCTAAATATTAAATTTTTAAAAAAAAATTCTAAAATAA
ATAAAATTTCAAATAATGGTTGAAAATAACATGTCTAAGTTGTCCAAATTCATTTTGAATCTGGA
TAACCAATTATTTAGGTTCATCTTGGACAAGGTTATTTAGAAACTACTAAAA
Found at i:30023557 original size:30 final size:27
Alignment explanation
Indices: 30023522--30023597 Score: 66
Period size: 31 Copynumber: 2.7 Consensus size: 27
30023512 AAAAATATTT
30023522 AAAAATATTTAATAATTACAAGAAATTATA-
1 AAAAATATTTAATAATTA-AAG-AA-TA-AC
* *
30023552 AAAAATTATTAAATTTATTAAAGAATAAC
1 AAAAA-TATTTAA-TAATTAAAGAATAAC
30023581 AAAAATATTTAA-AATTA
1 AAAAATATTTAATAATTA
30023598 TTAAAAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
26 4 0.10
28 7 0.18
29 7 0.18
30 7 0.18
31 9 0.23
32 5 0.13
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAATATTTAATAATTAAAGAATAAC
Found at i:30023564 original size:40 final size:39
Alignment explanation
Indices: 30023496--30023605 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 39
30023486 CTAAAAGATT
* * * *
30023496 AATAA-AAAACTTATAAAAAAATATTTAAAAATATTTAAT
1 AATAACAAAAATTATAAAAAATTA-TTAAAAATATTAAAG
* **
30023535 AATTACAAGAAATTATAAAAAATTATTAAATTTATTAAAG
1 AATAACAA-AAATTATAAAAAATTATTAAAAATATTAAAG
**
30023575 AATAACAAAAA-TATTTAAAATTATTAAAAAT
1 AATAACAAAAATTATAAAAAATTATTAAAAAT
30023606 CACGTCTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
38 16 0.28
39 7 0.12
40 20 0.35
41 14 0.25
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (39 bp):
AATAACAAAAATTATAAAAAATTATTAAAAATATTAAAG
Found at i:30023599 original size:10 final size:10
Alignment explanation
Indices: 30023500--30023605 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 10
30023490 AAGATTAATA
*
30023500 AAAAACTTATA
1 AAAAA-TTATT
*
30023511 AAAAAATATTT
1 AAAAATTA-TT
30023522 AAAAA-TATTT
1 AAAAATTA-TT
* *
30023532 AATAATTA-C
1 AAAAATTATT
*
30023541 AAGAAATTATA
1 AA-AAATTATT
30023552 AAAAATTATT
1 AAAAATTATT
*
30023562 -AAATTTATT
1 AAAAATTATT
**
30023571 AAAGAA-TAAC
1 AAA-AATTATT
30023581 AAAAA-TATT
1 AAAAATTATT
*
30023590 TAAAATTATT
1 AAAAATTATT
30023600 AAAAAT
1 AAAAAT
30023606 CACGTCTAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
9 18 0.25
10 39 0.53
11 16 0.22
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATT
Found at i:30027155 original size:46 final size:46
Alignment explanation
Indices: 30027079--30027174 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
30027069 TTATAAGATG
30027079 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
1 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
* *
30027125 TTCAAACAACTTGGTCTTGGGAAACCCAAACCCACTAGGATGAGTA
1 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
30027171 TTCA
1 TTCA
30027175 GTTAGCGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (46 bp):
TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
Found at i:30029054 original size:10 final size:10
Alignment explanation
Indices: 30029031--30029067 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
30029021 TTATTTTACT
30029031 TATTATT-T-
1 TATTATTATA
30029039 TATTATTATA
1 TATTATTATA
30029049 TATTATTATA
1 TATTATTATA
30029059 TATTATTAT
1 TATTATTAT
30029068 TACTGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 7 0.26
9 1 0.04
10 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTATTATA
Found at i:30029056 original size:13 final size:13
Alignment explanation
Indices: 30029016--30029069 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
30029006 TCCTCCTCTC
* *
30029016 TTATTTTATTTTA
1 TTATTATATATTA
30029029 CTTATTAT-T-TTA
1 -TTATTATATATTA
30029041 TTATTATATATTA
1 TTATTATATATTA
30029054 TTA-TATATTATTA
1 TTATTATA-TATTA
30029067 TTA
1 TTA
30029070 CTGTTATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 7 0.19
12 8 0.22
13 15 0.42
14 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATATATTA
Found at i:30029119 original size:3 final size:3
Alignment explanation
Indices: 30029016--30029099 Score: 66
Period size: 3 Copynumber: 27.7 Consensus size: 3
30029006 TCCTCCTCTC
30029016 TTA TT- TTA TT- TTA CTTA TTA TT- TTA TTA TTA TATA TTA TTA TATA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA
* * * * *
30029061 TTA TTA TTA CTG TTA TTG TTA GTTT TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
30029100 CTTCTTAGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 6 0.09
3 47 0.73
4 11 0.17
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30032387 original size:19 final size:20
Alignment explanation
Indices: 30032360--30032400 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30032350 CTCTGGACAT
30032360 GCAAAAAAATGTAATTTTTA
1 GCAAAAAAATGTAATTTTTA
30032380 GCAAAAAAATGTAATTTTTA
1 GCAAAAAAATGTAATTTTTA
30032400 G
1 G
30032401 GTTTTTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (20 bp):
GCAAAAAAATGTAATTTTTA
Found at i:30034532 original size:13 final size:13
Alignment explanation
Indices: 30034499--30034525 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30034489 CAAATTCAAT
30034499 ACATAATAGATTG
1 ACATAATAGATTG
30034512 ACATAATAGATTG
1 ACATAATAGATTG
30034525 A
1 A
30034526 ATCAATAACA
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:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACATAATAGATTG
Found at i:30042854 original size:25 final size:25
Alignment explanation
Indices: 30042824--30042967 Score: 135
Period size: 25 Copynumber: 5.8 Consensus size: 25
30042814 CGGATACTCC
**
30042824 ACAGCTCGTGTGAGCATACAAATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * *
30042849 ATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * *
30042874 ACAACTCATATGAGCATTCCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * * *
30042899 ATAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
30042924 ACCGCTCGTGTGAGCATACCGATTC
1 ACAGCTCGTGTGAGCATACCGATTT
*
30042949 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
30042968 ATGCACAGGA
Statistics
Matches: 89, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:30042938 original size:50 final size:50
Alignment explanation
Indices: 30042824--30042967 Score: 155
Period size: 50 Copynumber: 2.9 Consensus size: 50
30042814 CGGATACTCC
**
30042824 ACAGCTCGTGTGAGCATACAAATTTATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
* * * * * * * *
30042874 ACAACTCATATGAGCATTCCGATTTATAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
* * *
30042924 ACCGCTCGTGTGAGCATACCGATTCACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGA-GAGCATAC
30042968 ATGCACAGGA
Statistics
Matches: 73, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (50 bp):
ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
Found at i:30056854 original size:30 final size:30
Alignment explanation
Indices: 30056809--30056895 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
30056799 GCTGCAGGGG
*
30056809 TCACACGGCCATGTGGCCAGGTCGTGTGAC
1 TCACACAGCCATGTGGCCAGGTCGTGTGAC
* *
30056839 TCACATAGCCGTGTGGCCAGGTCGTGTGAC
1 TCACACAGCCATGTGGCCAGGTCGTGTGAC
*
30056869 TCACACAGCCATGTGGTCAGGTCGTGT
1 TCACACAGCCATGTGGCCAGGTCGTGT
30056896 CTTAGGCTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (30 bp):
TCACACAGCCATGTGGCCAGGTCGTGTGAC
Found at i:30072002 original size:66 final size:66
Alignment explanation
Indices: 30071921--30072052 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
30071911 TTAAAGAGTC
** * * * * *
30071921 TTGAAAGCAAAGTATAGAGACTGGAATTATGAATAAACCTTAGCTATAGTGATAAATAACTTAAC
1 TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
30071986 T
66 T
* * *
30071987 TTGAAAGTAAGGTATAGAGAAAGGAAATGTAAATAAACCTTAGCTACAATGATAAATAACATAAC
1 TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
30072052 T
66 T
30072053 AATACTAAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (66 bp):
TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
T
Found at i:30074248 original size:16 final size:16
Alignment explanation
Indices: 30074235--30074269 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
30074225 ACATACAAAT
30074235 AAACATAAAAACAAGA
1 AAACATAAAAACAAGA
30074251 AAACATAAAAACATAGA
1 AAACATAAAAACA-AGA
30074268 AA
1 AA
30074270 GCTTATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (16 bp):
AAACATAAAAACAAGA
Found at i:30079412 original size:16 final size:16
Alignment explanation
Indices: 30079399--30079433 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
30079389 ACATACAAAT
30079399 AAACATAAAAACAAGA
1 AAACATAAAAACAAGA
30079415 AAACATAAAAACATAGA
1 AAACATAAAAACA-AGA
30079432 AA
1 AA
30079434 GCTTATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (16 bp):
AAACATAAAAACAAGA
Found at i:30094083 original size:11 final size:11
Alignment explanation
Indices: 30094069--30094118 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
30094059 GTGGTGATAC
30094069 GGTGGTTGTAT
1 GGTGGTTGTAT
* *
30094080 GGTGGTAGTGT
1 GGTGGTTGTAT
*
30094091 AGTGG-TGCTAT
1 GGTGGTTG-TAT
30094102 GGTGGTTGTAT
1 GGTGGTTGTAT
30094113 GGTGGT
1 GGTGGT
30094119 GTTTAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.90
12 2 0.06
ACGTcount: A:0.10, C:0.02, G:0.48, T:0.40
Consensus pattern (11 bp):
GGTGGTTGTAT
Found at i:30094117 original size:22 final size:22
Alignment explanation
Indices: 30094047--30094119 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
30094037 CTGTTTTCGA
* * *
30094047 GGTGGTGCAAGGGTGG-TGATAC
1 GGTGGTGCTATGGTGGTTG-TAT
* *
30094069 GGTGGTTG-TATGGTGGTAGTGT
1 GGTGG-TGCTATGGTGGTTGTAT
*
30094091 AGTGGTGCTATGGTGGTTGTAT
1 GGTGGTGCTATGGTGGTTGTAT
30094113 GGTGGTG
1 GGTGGTG
30094120 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.05
22 34 0.87
23 3 0.08
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.34
Consensus pattern (22 bp):
GGTGGTGCTATGGTGGTTGTAT
Found at i:30105659 original size:18 final size:18
Alignment explanation
Indices: 30105636--30105671 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30105626 TCAAATAATT
30105636 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
30105654 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
30105672 AAGTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (18 bp):
TTACCAGAAAAACTAAAC
Found at i:30116135 original size:246 final size:247
Alignment explanation
Indices: 30115701--30116193 Score: 979
Period size: 246 Copynumber: 2.0 Consensus size: 247
30115691 ATAATAAATC
30115701 GTAAGAAACCCCTAATTAATATGTGCTTAAAAACGTCAATAGCGGAGAAAATAATCCTATAAATA
1 GTAAGAAACCCCTAATTAATATGTGCTTAAAAACGTCAATAGCGGAGAAAATAATCCTATAAATA
30115766 CCCTAATCAACATACAAATAAAAACGTCTATCATTGGGAATGAAAAGTTGAAAATACTACAAGTT
66 CCCTAATCAACATACAAATAAAAACGTCTATCATTGGGAATGAAAAGTTGAAAATACTACAAGTT
30115831 TGAAAATTTAATAAATGAACAGCTTTAAATCTCACATTCGGTTTGGTGTTCTGAAAGTAATATTT
131 TGAAAATTTAATAAATGAACAGCTTTAAATCTCACATTCGGTTTGGTGTTCTGAAAGTAATATTT
30115896 TTGTCTTTGTACACTTTTATTTTTTAAATAAATTGGTTTAA-AAAAATATTT
196 TTGTCTTTGTACACTTTTATTTTTTAAATAAATTGGTTTAATAAAAATATTT
30115947 GTAAGAAACCCCTAATTAATATGTGCTTAAAAACGTCAATAGCGGAGAAAATAATCCTATAAATA
1 GTAAGAAACCCCTAATTAATATGTGCTTAAAAACGTCAATAGCGGAGAAAATAATCCTATAAATA
30116012 CCCTAATCAACATACAAATAAAAACGTCTATCATTGGGAATGAAAAGTTGAAAATACTACAAGTT
66 CCCTAATCAACATACAAATAAAAACGTCTATCATTGGGAATGAAAAGTTGAAAATACTACAAGTT
30116077 TGAAAATTTAATAAATGAACAGCTTTAAATCTCACATTCGGTTTGGTGTTCTGAAAGTAATATTT
131 TGAAAATTTAATAAATGAACAGCTTTAAATCTCACATTCGGTTTGGTGTTCTGAAAGTAATATTT
30116142 TTGTCTTTGTACACTTTTATTTTTTAAATAAATTGGTTTAATAAAAATATTT
196 TTGTCTTTGTACACTTTTATTTTTTAAATAAATTGGTTTAATAAAAATATTT
30116194 ATAAATTATA
Statistics
Matches: 246, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
246 236 0.96
247 10 0.04
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (247 bp):
GTAAGAAACCCCTAATTAATATGTGCTTAAAAACGTCAATAGCGGAGAAAATAATCCTATAAATA
CCCTAATCAACATACAAATAAAAACGTCTATCATTGGGAATGAAAAGTTGAAAATACTACAAGTT
TGAAAATTTAATAAATGAACAGCTTTAAATCTCACATTCGGTTTGGTGTTCTGAAAGTAATATTT
TTGTCTTTGTACACTTTTATTTTTTAAATAAATTGGTTTAATAAAAATATTT
Found at i:30117496 original size:16 final size:18
Alignment explanation
Indices: 30117470--30117503 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30117460 TTAAAATTGG
30117470 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
30117487 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
30117504 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:30121452 original size:28 final size:28
Alignment explanation
Indices: 30121373--30121452 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
30121363 CTCAAGGAAT
* * *
30121373 GAAGAGTCTTACTTCAACTAGGACTATT
1 GAAGAATCCTACTTCAACTAGGACTATA
* * *
30121401 GAA-AATCCAACTTCAAGTAAGACTCA-A
1 GAAGAATCCTACTTCAACTAGGACT-ATA
30121428 GAAGAATCCTACTTCAACTAGGACT
1 GAAGAATCCTACTTCAACTAGGACT
30121453 TTTATCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (28 bp):
GAAGAATCCTACTTCAACTAGGACTATA
Found at i:30123917 original size:19 final size:19
Alignment explanation
Indices: 30123893--30123932 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30123883 ATTAATTTTG
30123893 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
30123912 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
30123931 AT
1 AT
30123933 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:30139203 original size:12 final size:12
Alignment explanation
Indices: 30139186--30139215 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30139176 TCAGGCTGTT
30139186 ACACGGCCTAGC
1 ACACGGCCTAGC
*
30139198 ACACGGCCTGGC
1 ACACGGCCTAGC
30139210 ACACGG
1 ACACGG
30139216 GTACGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:30153426 original size:42 final size:42
Alignment explanation
Indices: 30153367--30153535 Score: 338
Period size: 42 Copynumber: 4.0 Consensus size: 42
30153357 TTACCTCACT
30153367 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
30153409 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
30153451 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
30153493 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
30153535 G
1 G
30153536 TATAAGTTTC
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
Found at i:30155530 original size:23 final size:23
Alignment explanation
Indices: 30155504--30155571 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 23
30155494 AGTTGTAGTG
30155504 CAATGTGGATAAACCGCCAGAAA
1 CAATGTGGATAAACCGCCAGAAA
* * *
30155527 CAATTTGCAGTTAAATCGCCAGAAA
1 CAATGTG--GATAAACCGCCAGAAA
*
30155552 CAATGTGGATAAACCACCAG
1 CAATGTGGATAAACCGCCAG
30155572 TACTCCAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (23 bp):
CAATGTGGATAAACCGCCAGAAA
Found at i:30162192 original size:25 final size:22
Alignment explanation
Indices: 30162140--30162192 Score: 52
Period size: 25 Copynumber: 2.2 Consensus size: 22
30162130 TCGGTTGGGA
*
30162140 AGAAAAAGAAAAAAAATAAAAG
1 AGAAAAAGAAAAAAAACAAAAG
*
30162162 ATGAAAACAGAGAAAAAACCAAAAG
1 A-GAAAA-AGA-AAAAAAACAAAAG
30162187 CAGAAA
1 -AGAAA
30162193 CGACAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 5 0.20
24 3 0.12
25 15 0.60
26 1 0.04
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAAAAAAACAAAAG
Found at i:30178764 original size:10 final size:10
Alignment explanation
Indices: 30178730--30178772 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
30178720 GGCCCAAATC
30178730 AAATAAATAAA
1 AAAT-AATAAA
*
30178741 CAA-AATATAA
1 AAATAATA-AA
30178751 AAATAATAAA
1 AAATAATAAA
30178761 AAATAATAAA
1 AAATAATAAA
30178771 AA
1 AA
30178773 CAAAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 18 0.64
11 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAATAAA
Found at i:30184518 original size:6 final size:6
Alignment explanation
Indices: 30184509--30184542 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
30184499 AAAACAAAAA
30184509 AAAATC AAAATC AAAATC AAAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC -AAAATC AAAATC AAAA
30184543 AATGAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:30184531 original size:13 final size:13
Alignment explanation
Indices: 30184509--30184545 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
30184499 AAAACAAAAA
30184509 AAAATC-AAAATC
1 AAAATCAAAAATC
30184521 AAAATCAAAAATC
1 AAAATCAAAAATC
*
30184534 AAAATAAAAAAT
1 AAAATCAAAAAT
30184546 GAGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCAAAAATC
Found at i:30185510 original size:14 final size:14
Alignment explanation
Indices: 30185492--30185542 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
30185482 AAAAAGTGCG
30185492 AAAAATGGAAAAAT
1 AAAAATGGAAAAAT
*
30185506 GAAAATGG-AAAAT
1 AAAAATGGAAAAAT
30185519 CAAAAA-GGAAAAAGT
1 -AAAAATGGAAAAA-T
30185534 AAAAATGGA
1 AAAAATGGA
30185543 GAGGCTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 20 0.65
15 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.12
Consensus pattern (14 bp):
AAAAATGGAAAAAT
Found at i:30187203 original size:202 final size:200
Alignment explanation
Indices: 30186853--30187335 Score: 754
Period size: 202 Copynumber: 2.4 Consensus size: 200
30186843 CAAGAGTAAG
* * *
30186853 GGAACAGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
* *
30186918 TACAGCAGCGAATCTTACCTCCTAGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCT
* *
30186983 TGCCTCCCTGATATTGCGGTTAAAAAGATTAAAGATACAGCAGCGAATCTTAAC-TCCCAGGCGG
131 TGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTT-ACTTCCCAGGCGG
30187047 TGCAGT
195 TGCAGT
* *
30187053 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAAAGATTAAA
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTT--AAAAAGATTAAA
*
30187118 GCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAAT
64 GCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAAT
* * * * *
30187183 CTTGCCTCCTTGACATTGCGGTTAAAAATATTAAAGCTACAACAGTGATTCTTACTTCCCAGGCG
129 CTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTTACTTCCCAGGCG
30187248 GTGCAGT
194 GTGCAGT
* * *
30187255 GGAACAGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
30187320 TA-AGCGGCGAATCTTA
66 TACAGCAGCGAATCTTA
30187336 TCTTCCCCAG
Statistics
Matches: 258, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
199 12 0.05
200 62 0.24
201 2 0.01
202 182 0.71
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (200 bp):
GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCT
TGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTTACTTCCCAGGCGGT
GCAGT
Found at i:30187303 original size:50 final size:50
Alignment explanation
Indices: 30186858--30187334 Score: 328
Period size: 50 Copynumber: 9.5 Consensus size: 50
30186848 GTAAGGGAAC
* * * * *
30186858 AGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * * * ** * *
30186908 AGATTAAAGCTACAGCAGCGAATCTTACCT-CCTAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCT-GACATTGCAGTGAAAA
* * * *
30186958 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGATATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
** * * ** * * ** * *
30187008 AGATTAAAGATACAGCAGCGAATCTTAACTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * *
30187058 AGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAG-T-GAAAA
* * * * * ** * *
30187110 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * *
30187160 AGATTAAAGCCACAACGGTGAATCTTGCCTCCTTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * * * * * * * ** * *
30187210 ATATTAAAGCTACAACAGTGATTCTTACTTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * *
30187260 AGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* *
30187310 AGATTAAAGCTA-AGCGGCGAATCTT
1 AGATTAAAGCCACAGCGGTGAATCTT
30187335 ATCTTCCCCA
Statistics
Matches: 306, Mismatches: 117, Indels: 9
0.71 0.27 0.02
Matches are distributed among these distances:
49 14 0.05
50 251 0.82
51 5 0.02
52 36 0.12
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
Found at i:30187342 original size:100 final size:100
Alignment explanation
Indices: 30186853--30187335 Score: 743
Period size: 100 Copynumber: 4.8 Consensus size: 100
30186843 CAAGAGTAAG
* * * *
30186853 GGAACAGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
30186918 TACAGCAGCGAATCTTACCTCCTAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
* * *
30186953 GGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGATATTGCGGTTAAAAAGATTAAAGA
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
30187018 TACAGCAGCGAATCTTAACTCCCAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
*
30187053 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAAAGATTAAA
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTT--AAAAAGATTAAA
*
30187118 GCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGT
64 GCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
* *
30187155 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCTTGACATTGCGGTTAAAAATATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
* * * *
30187220 TACAACAGTGATTCTTACTTCCCAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
** * *
30187255 GGAACAGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
30187320 TA-AGCGGCGAATCTTA
66 TACAGCAGCGAATCTTA
30187336 TCTTCCCCAG
Statistics
Matches: 350, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
99 10 0.03
100 245 0.70
102 95 0.27
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (100 bp):
GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
Found at i:30187452 original size:44 final size:45
Alignment explanation
Indices: 30187404--30187498 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
30187394 GTGGGATGGG
* * *
30187404 TTGAAGATT-ACAGATCTTATCTCCCT-AAGCAATAGTGGAGCAGA
1 TTGAAG-TTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
**
30187448 TTGAAGTTGACAAATCTTATCTCACTGAAGTTACAGTGGAGCAGA
1 TTGAAGTTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
30187493 TTGAAG
1 TTGAAG
30187499 CCGATAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 2 0.05
44 21 0.48
45 21 0.48
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
TTGAAGTTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
Found at i:30187513 original size:44 final size:45
Alignment explanation
Indices: 30187437--30187526 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
30187427 CCTAAGCAAT
** *
30187437 AGTGGAGCAGATTGAAGTTGACAAATCTTATCTCAC-TGAAGTTAC
1 AGTGGAGCAGATTGAAGCCGACAAATCCTATCTC-CTTGAAGTTAC
*
30187482 AGTGGAGCAGATTGAAGCCGA-TAATCCTATCTCCTTGAAGTTAC
1 AGTGGAGCAGATTGAAGCCGACAAATCCTATCTCCTTGAAGTTAC
30187526 A
1 A
30187527 ATAGAGCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 20 0.50
45 19 0.47
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
AGTGGAGCAGATTGAAGCCGACAAATCCTATCTCCTTGAAGTTAC
Found at i:30187746 original size:44 final size:44
Alignment explanation
Indices: 30187648--30187732 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
30187638 GAAAATGGTG
*
30187648 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
*
30187692 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCC
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCC
30187733 TATAATCCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:30187808 original size:44 final size:44
Alignment explanation
Indices: 30187693--30187942 Score: 118
Period size: 44 Copynumber: 5.8 Consensus size: 44
30187683 GAAGCCAGAA
* * * ** *
30187693 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCTATA--
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATT-AA-AATAAAGG
* * ** * *
30187737 ATCCTATCTCTTTGAAGCTACAATAGAGCGGATTAAAATAAAGG
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
* *** *
30187781 ATCTTATCTCTCTGAAATTACAGTAGAGTAGA-TCGTAT-TAGG
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
* * **** **
30187823 -TCTTATCTCCCT-AAGATTACAGTGGAGCAGATTAAAGCCGATA
1 ATCTTATCTCTCTGAA-ATTACAGTAGAGCAGATTAAAATAAAGG
* * * *
30187866 ATCATATCTC-CTTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCTC-TGAAATTACAGTAGAGCAGATTAAAATAAAGG
* * * *
30187910 ATGTTATCTCTCTAAAATTATAGTAGAGTAGAT
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGAT
30187943 CGCATCAGGT
Statistics
Matches: 146, Mismatches: 51, Indels: 18
0.68 0.24 0.08
Matches are distributed among these distances:
40 2 0.01
41 25 0.17
42 7 0.05
43 7 0.05
44 102 0.70
45 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
Found at i:30187826 original size:232 final size:232
Alignment explanation
Indices: 30187417--30187848 Score: 706
Period size: 232 Copynumber: 1.9 Consensus size: 232
30187407 AAGATTACAG
* **
30187417 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGTTGACAAATCTTATCTCACTGAAGTTAC
1 ATCTTATCTCCCTAAGCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAGTTAC
*
30187482 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGTTACAATAGAGCGGATTAAAATAAA
66 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATAAA
*
30187547 GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACA
131 GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
30187612 ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
196 ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
** * *
30187649 ATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAG-CCAGAAATCTTATCTCCCTG-AGATT
1 ATCTTATCTCCCTAA-GCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAG-TT
* *
30187712 ACAGTGGAGCAGATTGAAGCCTATAATCCTATCTCTTTGAAGCTACAATAGAGCGGATTAAAATA
64 ACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATA
* *
30187777 AAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTATTAGGTCTTATCTCCCTAAGATTA
129 AAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTA
*
30187842 CAGTGGA
194 CAATGGA
30187849 GCAGATTAAA
Statistics
Matches: 184, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
231 2 0.01
232 163 0.89
233 19 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (232 bp):
ATCTTATCTCCCTAAGCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAGTTAC
AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATAAA
GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
Found at i:30187874 original size:129 final size:129
Alignment explanation
Indices: 30187694--30187977 Score: 442
Period size: 129 Copynumber: 2.2 Consensus size: 129
30187684 AAGCCAGAAA
* * * *
30187694 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCTATAATCCTATCTCTTTGAAGCTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
* * *
30187759 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTATTAGG
66 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
* *
30187823 TCTTATCTCCCTAAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
* * * *
30187888 GTGGAGCGGATTAAAATAAAGGATGTTATCTCTCTAAAATTATAGTAGAGTAGATCGCATCAGG
66 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
*
30187952 TCTTATCTCCCTGAGAATACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
30187978 ATAGACCGAA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 140 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
Found at i:30188498 original size:18 final size:18
Alignment explanation
Indices: 30188477--30188514 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30188467 CAAATCAAAT
30188477 AAATAAACAAAAT-ATAAA
1 AAAT-AACAAAATAATAAA
*
30188495 AAATAACTAAATAATAAA
1 AAATAACAAAATAATAAA
30188513 AA
1 AA
30188515 CAAAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAACAAAATAATAAA
Found at i:30194156 original size:36 final size:36
Alignment explanation
Indices: 30194087--30194157 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
30194077 GAGTTACCAA
* *
30194087 TATTCTAATTCGCATATTAAATATGTTAATATTTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTTT
* * * *
30194123 TATTCTAATTCGTATGTTAAGCATGGTATTATTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTT
30194158 GATTTTGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (36 bp):
TATTCTAATTCGCATATTAAACATGGTAATATTTTT
Found at i:30194215 original size:36 final size:35
Alignment explanation
Indices: 30194136--30194225 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 35
30194126 TCTAATTCGT
* *
30194136 ATGTTAAGCATGGT-ATTATTTTGATTTTGACTCAC
1 ATGTTAAGCAT-GTCATTATTTTAATTCTGACTCAC
* *
30194171 ATGCTAAGCATGTCATTATTTCTAATTCTGATTCAC
1 ATGTTAAGCATGTCATTATTT-TAATTCTGACTCAC
*
30194207 ATGTTAAGCATGCCATTAT
1 ATGTTAAGCATGTCATTAT
30194226 GTGTAATGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.04
35 17 0.36
36 28 0.60
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (35 bp):
ATGTTAAGCATGTCATTATTTTAATTCTGACTCAC
Found at i:30197062 original size:22 final size:20
Alignment explanation
Indices: 30197015--30197062 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
30197005 CAATTTAACT
*
30197015 ACAATTATGTAGTCGTTATC
1 ACAATTATGTAGTAGTTATC
*
30197035 AGCAATTATGTGGTAGTTTATCC
1 A-CAATTATGTAGTAG-TTAT-C
30197058 ACAAT
1 ACAAT
30197063 GTGCTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 8 0.35
23 2 0.09
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ACAATTATGTAGTAGTTATC
Found at i:30197137 original size:48 final size:48
Alignment explanation
Indices: 30197044--30197149 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
30197034 CAGCAATTAT
*
30197044 GTGGTAGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
1 GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
** ** * * * *
30197092 GTGGTGGTTTATCCATGATGTGCTATGTGATTATTCATTGGTATCTAT
1 GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
30197140 GTGGTGGTTT
1 GTGGTGGTTT
30197150 GTACACAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (48 bp):
GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
Found at i:30198788 original size:11 final size:11
Alignment explanation
Indices: 30198772--30198798 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30198762 TGTGGGATTA
30198772 CTTTCTAGAGG
1 CTTTCTAGAGG
30198783 CTTTCTAGAGG
1 CTTTCTAGAGG
30198794 CTTTC
1 CTTTC
30198799 CAGAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (11 bp):
CTTTCTAGAGG
Found at i:30205882 original size:20 final size:19
Alignment explanation
Indices: 30205857--30205906 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
30205847 AAAAGCTTAT
30205857 TTATTCAAAAACATTAAAAA
1 TTATTCAAAAACA-TAAAAA
30205877 TTATTCAAATTAACATAAAAA
1 TTATTCAAA--AACATAAAAA
30205898 -TATT-AAAAA
1 TTATTCAAAAA
30205907 TAACCTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.07
19 3 0.11
20 13 0.46
21 6 0.21
22 4 0.14
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
TTATTCAAAAACATAAAAA
Found at i:30205910 original size:20 final size:21
Alignment explanation
Indices: 30205866--30205916 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
30205856 TTTATTCAAA
* *
30205866 AACATTAAAAATTATTCAAATT
1 AACA-TAAAAATTATTAAAAAT
30205888 AACATAAAAA-TATTAAAAAT
1 AACATAAAAATTATTAAAAAT
*
30205908 AACCTAAAA
1 AACATAAAA
30205917 CTCATATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
AACATAAAAATTATTAAAAAT
Found at i:30210904 original size:27 final size:27
Alignment explanation
Indices: 30210850--30210904 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
30210840 ATACATGAAT
**
30210850 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCCAACTCA
*
30210877 TCATTTC-ATATTCCATTTCCCAACTCA
1 TCATTTCAATATT-CATATCCCAACTCA
30210904 T
1 T
30210905 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCAACTCA
Found at i:30223146 original size:25 final size:25
Alignment explanation
Indices: 30223112--30223164 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
30223102 ACTTATTGTC
30223112 ACAAAATAATTTGAATGGTTTTTCT
1 ACAAAATAATTTGAATGGTTTTTCT
30223137 ACAAAATAATTTGAATGGTTTTTCT
1 ACAAAATAATTTGAATGGTTTTTCT
30223162 ACA
1 ACA
30223165 TTTTCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (25 bp):
ACAAAATAATTTGAATGGTTTTTCT
Found at i:30229170 original size:13 final size:14
Alignment explanation
Indices: 30229151--30229184 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30229141 AAACATACAT
30229151 AATATTTTA-AATA
1 AATATTTTATAATA
*
30229164 TATATTTTATAATA
1 AATATTTTATAATA
30229178 AATATTT
1 AATATTT
30229185 ATTATTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTTTATAATA
Found at i:30230055 original size:111 final size:110
Alignment explanation
Indices: 30229708--30230118 Score: 574
Period size: 109 Copynumber: 3.7 Consensus size: 110
30229698 TTGTTTAAAT
* * * * * ** * **
30229708 GAGAAAAATCGACACACAGCGCATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAATATTATC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
* * * * *
30229773 TTACTTCG-AAATTTTTAAAAGGATATTTAGTCATTTGGTTGAAT
66 TTATTTTGAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
* * *
30229817 GAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTTCAAACGCAAAACATCGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
30229882 TTATTTT-AAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
66 TTATTTTGAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
*
30229926 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTTGAATTTCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
*
30229991 TTATTTTGAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
66 TTATTTTGAAAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
* * * **
30230037 AAGAAAAATCGACACCCAGCACCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATTGTT
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
30230102 TTATTTTGAAAATTTTT
66 TTATTTTGAAAATTTTT
30230119 CTTTTTTTGA
Statistics
Matches: 270, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
109 158 0.59
110 9 0.03
111 103 0.38
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (110 bp):
GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTGAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAAC
Found at i:30230090 original size:220 final size:219
Alignment explanation
Indices: 30229708--30230118 Score: 590
Period size: 220 Copynumber: 1.9 Consensus size: 219
30229698 TTGTTTAAAT
* * *
30229708 GAGAAAAATCGACACACAGCGCATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAATATTATC
1 GAGAAAAATCGACACACAGCACATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAACATTACC
* * **
30229773 TTACTTCGAAATTTTTAAAAGGATATTTAGTCATTTGGTTGAATGAGAAAAATCGACACCCAACA
66 TTACTTCGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACAAGAAAAATCGACACCCAACA
* * *
30229838 CCTTAGGGCATGTTTTCTCGAATTTTCAAACGCAAAACATCGCCTTATTTT-AAAATTTTTAAAA
131 CCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATCGCCTTATTTTGAAAATTTTTAAAA
30229902 GGATATTAAGCCATTTGGTTGAAC
196 GGATATTAAGCCATTTGGTTGAAC
* * * * * *
30229926 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTTGAATTTCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACACAGCACATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAACATTACC
* * * *
30229991 TTATTTTGAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTGAACAAGAAAAATCGACACCCAG
66 TTACTTCG-AAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAACAAGAAAAATCGACACCCAA
* **
30230056 CACCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATTGTTTTATTTTGAAAATTTTT
129 CACCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATCGCCTTATTTTGAAAATTTTT
30230119 CTTTTTTTGA
Statistics
Matches: 167, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
218 62 0.37
219 3 0.02
220 93 0.56
221 9 0.05
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (219 bp):
GAGAAAAATCGACACACAGCACATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAACATTACC
TTACTTCGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACAAGAAAAATCGACACCCAACA
CCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATCGCCTTATTTTGAAAATTTTTAAAA
GGATATTAAGCCATTTGGTTGAAC
Found at i:30230256 original size:4 final size:4
Alignment explanation
Indices: 30230247--30230367 Score: 81
Period size: 4 Copynumber: 29.8 Consensus size: 4
30230237 ATGCAACAAC
* * ** * *
30230247 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
30230295 AAAT AAAT GAACAT AAAGT --AT AAAT AAAT AAAT AAAT AAACG AACAT
1 AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA-T AA-AT
30230342 AAAGT --AT AAAT AAAT AAAT AAAT AAA
1 AAA-T AAAT AAAT AAAT AAAT AAAT AAA
30230368 ATAACAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.02
3 4 0.04
4 69 0.75
5 14 0.15
6 3 0.03
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:30230317 original size:25 final size:23
Alignment explanation
Indices: 30230247--30230334 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 23
30230237 ATGCAACAAC
*
30230247 AAATAAATAAATAAATAAA--CT
1 AAATAAATAAATAAATAAAGTAT
* * *
30230268 AAA-ACATAAAAAAATGGACA-TAT
1 AAATAAATAAATAAAT--AAAGTAT
30230291 AAATAAATAAATGAACATAAAGTAT
1 AAATAAATAAAT-AA-ATAAAGTAT
30230316 AAATAAATAAATAAATAAA
1 AAATAAATAAATAAATAAA
30230335 CGAACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
20 10 0.19
21 3 0.06
22 2 0.04
23 9 0.17
24 10 0.19
25 17 0.32
26 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATAAATAAATAAATAAAGTAT
Found at i:30230331 original size:33 final size:32
Alignment explanation
Indices: 30230247--30230392 Score: 145
Period size: 33 Copynumber: 4.3 Consensus size: 32
30230237 ATGCAACAAC
*
30230247 AAATAAATAAATAAATAAACTAAAACATAAA--A
1 AAATAAATAAATAAATAAA-T-GAACATAAAGTA
30230279 AAATGGACATATAAATAAATAAATGAACATAAAGTA
1 AAAT--A-A-ATAAATAAATAAATGAACATAAAGTA
*
30230315 TAAATAAATAAATAAATAAACGAACATAAAGTA
1 -AAATAAATAAATAAATAAATGAACATAAAGTA
*
30230348 TAAATAAATAAATAAATAAAAT-AACAATAAAGGA
1 -AAATAAATAAATAAAT-AAATGAAC-ATAAAGTA
*
30230382 AAATAGATAAA
1 AAATAAATAAA
30230393 AATCGTAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
32 4 0.04
33 55 0.55
34 20 0.20
35 3 0.03
36 14 0.14
37 4 0.04
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (32 bp):
AAATAAATAAATAAATAAATGAACATAAAGTA
Found at i:30232305 original size:43 final size:43
Alignment explanation
Indices: 30232258--30232493 Score: 176
Period size: 43 Copynumber: 5.4 Consensus size: 43
30232248 TCTTGCTCTG
* *
30232258 CTGTAACTTCAGAGAGACAAGATCCTTTATTTAATCTGCTCCA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
* ** * * *
30232301 CTGTAACTTCAGGGAGAT-AGAATTATGTCTTTGATCTGCTCCG
1 CTGTAACTTCAGAGAGATAAG-ATCCTTTATTTGATCTGCTCCA
* * * * *
30232344 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCA
1 CTGTAACT-TCAGAGAGATAAGATCCT----TTATTTGATCTGCTCCA
* * * ** * *
30232390 CTGTAACCTCAGGGAGATAAGA-CC-TGATGCGATCTACTCTA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
* *
30232431 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGAGAGATAAGATCCTTTA-TTTGATCTGCTCCA
30232475 CTGTAACTTCAGAGAGATA
1 CTGTAACTTCAGAGAGATA
30232494 GGATTAGTAG
Statistics
Matches: 152, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
41 32 0.21
42 6 0.04
43 52 0.34
44 29 0.19
46 33 0.22
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
Found at i:30232401 original size:46 final size:46
Alignment explanation
Indices: 30232291--30232766 Score: 220
Period size: 44 Copynumber: 10.8 Consensus size: 46
30232281 CCTTTATTTA
*
30232291 ATCTGCTCCACTGTAA-CTTCAGGGAGAT-AGAAT-T---ATGTCTTTG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAG-ATCTGAAAT-TCTTCG
*
30232334 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * *
30232380 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * ** *
30232421 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCG
* * * * ** *
30232465 ATCCGCTCCACTGTAA-CTTCAGAGAGATAGGAT-TAGTAGCT-TTAG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCT-GAAATTCTTCG
* * * *
30232510 -TTTGCTCCGCTGTAATCTCAGGAAGATAAGGTCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * *
30232555 GTCTGTTCCACTGTAATCTCAAGGAGATAAGACCTG--A---TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * * ** *
30232596 ATCTACTCTACTATAA-CTTTAGAGAGATAAGATCCT-TTATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCG
* ** * *
30232640 ATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TGCTA-GCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* *
30232684 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * ** *
30232730 GTCTGTTCCACTGTAATCTCAGAAAGATAAGACCTGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
30232767 TGCGATCTAC
Statistics
Matches: 328, Mismatches: 74, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 55 0.17
42 6 0.02
43 33 0.10
44 122 0.37
45 10 0.03
46 98 0.30
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
Found at i:30232567 original size:175 final size:175
Alignment explanation
Indices: 30232206--30232846 Score: 877
Period size: 175 Copynumber: 3.7 Consensus size: 175
30232196 TGTAATTTTA
* * * * *
30232206 GTCTGCTCCACTG-ATATGTCAGGGAGATAAGA-CTCGATGCGGTCTTGCTCTGCTGTAACTTCA
1 GTCTGTTCCACTGTA-ATCTCAGGGAGATAAGACCT-GATGCGATC-TACTCTACTGTAACTTCA
* * *
30232269 GAGAGACAAGATCCTTTA-TTTAATCTGCTCCACTGTAACTTCAGGGAGATAGAATTA-T-GTCT
63 GAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAG-CT
30232331 TT-GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
127 TTAG-TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
** *
30232380 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
*
30232445 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTAGTAGCTTTAG
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTTAG
* * *
30232510 TTTGCTCCGCTGTAATCTCAGGAAGATAAGGTCTGAAATTCTTCG
131 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * *
30232555 GTCTGTTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTACTATAACTTTAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* *
30232620 AGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA-TCTCAGGGAGATAGGATT-GCTAGCTTC
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTAG-TAGCTTT
* *
30232683 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCG
129 AGTCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
** *
30232730 GTCTGTTCCACTGTAATCTCAGAAAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* * * * *
30232795 GGATAAGATCCTTTATTTTAATTCGTTCCACTGCAA-TCTCAGGGAAATAGGA
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA
30232847 ATGCTGGCTC
Statistics
Matches: 420, Mismatches: 39, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
173 33 0.08
174 73 0.17
175 312 0.74
176 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (175 bp):
GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTTAG
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
Found at i:30232944 original size:50 final size:50
Alignment explanation
Indices: 30232885--30233047 Score: 173
Period size: 50 Copynumber: 3.3 Consensus size: 50
30232875 GATTCGCCAT
* *
30232885 TGTGGCTTTAATCTTTTTAACTGCACCGCCTGAGAAGTAGGATTCACCGC
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
** * * ** * *
30232935 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
* * ** * * *
30232985 TGTGACTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCCAC
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
30233035 TGTGGCTTTAATC
1 TGTGGCTTTAATC
30233048 AAGATTCACC
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
Found at i:30233083 original size:125 final size:124
Alignment explanation
Indices: 30232925--30233297 Score: 566
Period size: 125 Copynumber: 3.0 Consensus size: 124
30232915 TGAGAAGTAG
*
30232925 GATTCACCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGA
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTG-
* * * * * ** *
30232990 CTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCCACTGTGGCTTTAATCAA
65 CTTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
* *
30233050 GATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAACAAGATTCACCGATGTGG
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGT-G
* *
30233115 CTTTAATCTGTTCCATTGCACCGCCTGAGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
65 CTTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
* *
30233175 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGC
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGC
* *
30233240 TTTTAATTTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATC
66 -TTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATC
30233298 TTTTTAATCG
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 2 0.01
125 222 0.99
126 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (124 bp):
GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGC
TTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
Found at i:30233095 original size:75 final size:75
Alignment explanation
Indices: 30232972--30233122 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
30232962 GTCGGGGAAA
* ** * *
30232972 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCC-ACT
1 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGA-T
30233036 GTGGCTTTAAT
65 GTGGCTTTAAT
* * ** * * *
30233047 CAAGATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAACAAGATTCACCGATG
1 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGATG
30233112 TGGCTTTAAT
66 TGGCTTTAAT
30233122 C
1 C
30233123 TGTTCCATTG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
75 62 0.98
76 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGATG
TGGCTTTAAT
Found at i:30233154 original size:50 final size:50
Alignment explanation
Indices: 30233047--30233144 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 50
30233037 TGGCTTTAAT
* ** * *
30233047 CAAGATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAA
1 CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGAAA
* * *
30233097 CAAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCACCGCCTGAGA
1 CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGA
30233145 GGTAAGATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGAAA
Found at i:30233226 original size:50 final size:50
Alignment explanation
Indices: 30233172--30233347 Score: 144
Period size: 50 Copynumber: 3.5 Consensus size: 50
30233162 TAGCTTTAAT
30233172 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
** ** * *
30233222 CAAGATTCACCGATGT-GCTTTTAAT-TTGTTCCACTGCACCGCT-TGGGAGG
1 CAAGATTCACCGATGTGGC-TTTAATCTT-TTTAACTGCAATG-TAGGGGAAG
* * * * * * *
30233272 TAAGATTCGCTGCTGTAGCTTTAATCTTTTTAA-TCGTAATGTCAGGGAAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACT-GCAATGT-AGGGGAAG
* *
30233323 CTAGATTCACCGTTGTGGCTTTAAT
1 CAAGATTCACCGATGTGGCTTTAAT
30233348 ATGCTCCACT
Statistics
Matches: 94, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
49 6 0.06
50 60 0.64
51 28 0.30
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (50 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
Found at i:30233376 original size:101 final size:100
Alignment explanation
Indices: 30233189--30233376 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 100
30233179 CACCGATGTG
* * *
30233189 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGCTTTTAATTTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTAGGGAAAGCAAGATTCACCGATGTGCTTTTAATATGCTCC
* *
30233254 ACTGCACCGCTTGGGAGGTAAGATTCGCTGCTGTA
66 ACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTA
* * *
30233289 GCTTTAATCTTTTTAA-TCGTAATGTCAGGGAAAGCTAGATTCACCGTTGTGGC-TTTAATATGC
1 GCTTTAATCTTTTTAACT-GCAATGT-AGGGAAAGCAAGATTCACCGATGT-GCTTTTAATATGC
*
30233352 TCCACTGCACTGCCTGGGAAGTAAG
63 TCCACTGCACCGCCTGGGAAGTAAG
30233377 GCTTTGTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
99 1 0.01
100 22 0.29
101 51 0.67
102 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACTGCAATGTAGGGAAAGCAAGATTCACCGATGTGCTTTTAATATGCTCC
ACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTA
Found at i:30234684 original size:7 final size:7
Alignment explanation
Indices: 30234669--30234727 Score: 95
Period size: 7 Copynumber: 8.7 Consensus size: 7
30234659 TTAGCCTCTC
30234669 CATTTTT
1 CATTTTT
*
30234676 CACTTTT
1 CATTTTT
30234683 CATTTTT
1 CATTTTT
30234690 CA-TTTT
1 CATTTTT
30234696 CATTTTT
1 CATTTTT
30234703 CATTTTT
1 CATTTTT
30234710 CA-TTTT
1 CATTTTT
30234716 CATTTTT
1 CATTTTT
30234723 CATTT
1 CATTT
30234728 ATTTTTTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 12 0.25
7 36 0.75
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:30234695 original size:13 final size:14
Alignment explanation
Indices: 30234669--30234727 Score: 95
Period size: 13 Copynumber: 4.4 Consensus size: 14
30234659 TTAGCCTCTC
*
30234669 CATTTTTCACTTTT
1 CATTTTTCATTTTT
30234683 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
30234696 CATTTTTCATTTTT
1 CATTTTTCATTTTT
30234710 CA-TTTTCATTTTT
1 CATTTTTCATTTTT
30234723 CATTT
1 CATTT
30234728 ATTTTTTTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
13 26 0.60
14 17 0.40
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:30234735 original size:20 final size:20
Alignment explanation
Indices: 30234672--30234727 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
30234662 GCCTCTCCAT
*
30234672 TTTTCACTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
30234692 TTTTCATTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
30234712 TTTTCATTTTTCATTT
1 TTTTCATTTTTCATTT
30234728 ATTTTTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:30235692 original size:50 final size:52
Alignment explanation
Indices: 30235638--30235745 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 52
30235628 TAAATTTCTC
30235638 TTTTTCATTC-TTCTTTCTTTTTCTCATTTTCATTTTGA-TCTTGA-TTTTGAT
1 TTTTTC-TTCTTTC-TTCTTTTTCTCATTTTCATTTTGATTCTTGATTTTTGAT
* ** * *
30235689 TTTTTCTTCTTTCTTCTTTTTGTTTTTTTTATTTTGATTTTTGATTTTTGAT
1 TTTTTCTTCTTTCTTCTTTTTCTCATTTTCATTTTGATTCTTGATTTTTGAT
30235741 TTTTT
1 TTTTT
30235746 ATTTTCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
50 23 0.47
51 14 0.29
52 12 0.24
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.73
Consensus pattern (52 bp):
TTTTTCTTCTTTCTTCTTTTTCTCATTTTCATTTTGATTCTTGATTTTTGAT
Found at i:30235729 original size:14 final size:14
Alignment explanation
Indices: 30235706--30235776 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
30235696 TCTTTCTTCT
*
30235706 TTTTGTTTTTTTTA
1 TTTTGATTTTTTTA
*
30235720 TTTTGA-TTTTTGA
1 TTTTGATTTTTTTA
30235733 TTTTTGA-TTTTTTA
1 -TTTTGATTTTTTTA
*
30235747 TTTTCATTTTGACTTTGA
1 TTTTGATTTT---TTT-A
30235765 TTTTGATTTTTT
1 TTTTGATTTTTT
30235777 CTTTTTCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
13 11 0.24
14 20 0.43
15 2 0.04
17 3 0.07
18 10 0.22
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.75
Consensus pattern (14 bp):
TTTTGATTTTTTTA
Found at i:30235735 original size:13 final size:13
Alignment explanation
Indices: 30235713--30235774 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
30235703 TCTTTTTGTT
*
30235713 TTTTTTATTTTGA
1 TTTTTGATTTTGA
30235726 TTTTTGATTTTTGA
1 TTTTTGA-TTTTGA
* *
30235740 TTTTTTATTTTCA
1 TTTTTGATTTTGA
*
30235753 -TTTTGACTTTGA
1 TTTTTGATTTTGA
30235765 -TTTTGATTTT
1 TTTTTGATTTT
30235775 TTCTTTTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.44
13 11 0.27
14 12 0.29
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTTTGATTTTGA
Found at i:30235766 original size:32 final size:30
Alignment explanation
Indices: 30235711--30235781 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
30235701 CTTCTTTTTG
*
30235711 TTTTTTTTATTTTGATTTTTGATTTTTGATT
1 TTTTTTTTATTTTGATCTTTGA-TTTTGATT
30235742 TTTTATTTTCATTTTGA-CTTTGATTTTGATT
1 TTTT-TTTT-ATTTTGATCTTTGATTTTGATT
30235773 TTTTCTTTT
1 TTTT-TTTT
30235782 TCTTCCCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 20 0.56
32 9 0.25
33 7 0.19
ACGTcount: A:0.13, C:0.04, G:0.08, T:0.75
Consensus pattern (30 bp):
TTTTTTTTATTTTGATCTTTGATTTTGATT
Found at i:30239354 original size:111 final size:111
Alignment explanation
Indices: 30239118--30239421 Score: 432
Period size: 111 Copynumber: 2.8 Consensus size: 111
30239108 TTGTTTAAAT
** * * * ** * * * *
30239118 GAGAAAAATCGACACCCAGCGCATTAGGGCACGTTTCCTTAAATTTCCAGACGCAAAATATTATC
1 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTACC
* * * * *
30239183 TTACTTCGAAA--TTTTTAAAAGGATATTTAGCCATTTGGTTGAAT
66 TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
30239227 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTACC
1 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTACC
*
30239292 TTATTTTGAAATTTTTTTTAAAGGATATTAAGTCATTTGGTTGAAC
66 TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
*
30239338 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTACC
30239403 TTATTTTGAAATTTTTTTT
66 TTATTTTGAAATTTTTTTT
30239422 TTTGAAAATG
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
109 63 0.36
111 112 0.64
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (111 bp):
GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTACC
TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
Found at i:30239553 original size:4 final size:4
Alignment explanation
Indices: 30239544--30239664 Score: 81
Period size: 4 Copynumber: 29.8 Consensus size: 4
30239534 ATGCAACAAC
* * ** * *
30239544 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
30239592 AAAT AAAT GAACAT AAAGT --AT AAAT AAAT AAAT AAAT AAACG AACAT
1 AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA-T AA-AT
30239639 AAAGT --AT AAAT AAAT AAAT AAAT AAA
1 AAA-T AAAT AAAT AAAT AAAT AAAT AAA
30239665 ATAACAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.02
3 4 0.04
4 69 0.75
5 14 0.15
6 3 0.03
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:30239614 original size:25 final size:23
Alignment explanation
Indices: 30239544--30239631 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 23
30239534 ATGCAACAAC
*
30239544 AAATAAATAAATAAATAAA--CT
1 AAATAAATAAATAAATAAAGTAT
* * *
30239565 AAA-ACATAAAAAAATGGACA-TAT
1 AAATAAATAAATAAAT--AAAGTAT
30239588 AAATAAATAAATGAACATAAAGTAT
1 AAATAAATAAAT-AA-ATAAAGTAT
30239613 AAATAAATAAATAAATAAA
1 AAATAAATAAATAAATAAA
30239632 CGAACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
20 10 0.19
21 3 0.06
22 2 0.04
23 9 0.17
24 10 0.19
25 17 0.32
26 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATAAATAAATAAATAAAGTAT
Found at i:30239628 original size:33 final size:32
Alignment explanation
Indices: 30239544--30239689 Score: 145
Period size: 33 Copynumber: 4.3 Consensus size: 32
30239534 ATGCAACAAC
*
30239544 AAATAAATAAATAAATAAACTAAAACATAAA--A
1 AAATAAATAAATAAATAAA-T-GAACATAAAGTA
30239576 AAATGGACATATAAATAAATAAATGAACATAAAGTA
1 AAAT--A-A-ATAAATAAATAAATGAACATAAAGTA
*
30239612 TAAATAAATAAATAAATAAACGAACATAAAGTA
1 -AAATAAATAAATAAATAAATGAACATAAAGTA
*
30239645 TAAATAAATAAATAAATAAAAT-AACAATAAAGGA
1 -AAATAAATAAATAAAT-AAATGAAC-ATAAAGTA
*
30239679 AAATAGATAAA
1 AAATAAATAAA
30239690 AATCGTAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
32 4 0.04
33 55 0.55
34 20 0.20
35 3 0.03
36 14 0.14
37 4 0.04
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (32 bp):
AAATAAATAAATAAATAAATGAACATAAAGTA
Found at i:30240033 original size:3 final size:3
Alignment explanation
Indices: 30240025--30240059 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
30240015 AAAATAAAAC
* *
30240025 TAA TAA TAA TAA TAG TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30240060 TGAAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30240043 original size:12 final size:12
Alignment explanation
Indices: 30240028--30240059 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
30240018 ATAAAACTAA
30240028 TAATAATAATAG
1 TAATAATAATAG
30240040 TAATAATAATAG
1 TAATAATAATAG
30240052 TAATAATA
1 TAATAATA
30240060 TGAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:30241177 original size:3 final size:3
Alignment explanation
Indices: 30241169--30241225 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
30241159 TTAAAAGAGT
*
30241169 ATA ATA ATA ACA 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
30241217 ATA ATA ATA
1 ATA ATA ATA
30241226 TGAAATTTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30241785 original size:6 final size:6
Alignment explanation
Indices: 30241774--30241801 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30241764 AAGGAAGGAA
30241774 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
30241802 GGAATTAGAT
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:30242912 original size:20 final size:20
Alignment explanation
Indices: 30242887--30242926 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30242877 CGTAAAATAA
*
30242887 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
30242907 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
30242927 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:30242916 original size:34 final size:35
Alignment explanation
Indices: 30242872--30242938 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30242862 CAGTAAAATA
*
30242872 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
30242906 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
30242939 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:30247435 original size:12 final size:12
Alignment explanation
Indices: 30247414--30247453 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30247404 AGAATCAGCG
*
30247414 GCAGCAGCGGCA
1 GCAGCGGCGGCA
30247426 GCAGCGGCGGCA
1 GCAGCGGCGGCA
* *
30247438 GCGGCGGCGGAA
1 GCAGCGGCGGCA
30247450 GCAG
1 GCAG
30247454 TAGATTGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.50, T:0.00
Consensus pattern (12 bp):
GCAGCGGCGGCA
Found at i:30247445 original size:9 final size:9
Alignment explanation
Indices: 30247409--30247442 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
30247399 AAACAAGAAT
30247409 CAGCGGCAG
1 CAGCGGCAG
30247418 CAGCGGCAG
1 CAGCGGCAG
*
30247427 CAGCGGCGG
1 CAGCGGCAG
30247436 CAGCGGC
1 CAGCGGC
30247443 GGCGGAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.35, G:0.47, T:0.00
Consensus pattern (9 bp):
CAGCGGCAG
Found at i:30250627 original size:23 final size:23
Alignment explanation
Indices: 30250591--30250634 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30250581 TTACTTGGTA
30250591 GTAATGTAACTAAATGTAACATT
1 GTAATGTAACTAAATGTAACATT
*
30250614 GTAAT-TAACATAAATTTAACA
1 GTAATGTAAC-TAAATGTAACA
30250635 AAATAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
GTAATGTAACTAAATGTAACATT
Found at i:30250813 original size:21 final size:20
Alignment explanation
Indices: 30250778--30250823 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
30250768 ACTTAATATA
30250778 ATAAATAATTTAAAATGATTAT
1 ATAAATAATTTAAAAT-ATT-T
*
30250800 ATAACTAA-TTAAAATATTT
1 ATAAATAATTTAAAATATTT
30250819 ATAAA
1 ATAAA
30250824 ATATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 7 0.32
22 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAAATAATTTAAAATATTT
Found at i:30260988 original size:41 final size:41
Alignment explanation
Indices: 30260942--30261061 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
30260932 TCTTAACATG
* * * *
30260942 ATACACTGGCATGAAGCCTACTAGGCTTAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
* * * * *
30260983 GTACACCGGCATTAAGCCTGCTAAGCGTAAAGCCTGAAATA
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
* *
30261024 ATTCACCGGCATAAAGCCTGCTAGGCTGAAAGCCTGAT
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGAT
30261062 TATCACTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
Found at i:30268682 original size:101 final size:102
Alignment explanation
Indices: 30268550--30268733 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
30268540 AAAGTGATGG
* *
30268550 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
*
30268613 ACTATGTGCAGGGTACTATTCGTACCGGATAGTTTTGA
65 ACTATGTGCAGGCTACTATTCGTACCGGATAGTTTTGA
* * *
30268651 TCACGTATGTAGTATTATGTGCAGGAC-ACTACGTGTATCGAATGGTAATGGTCACATGTGTAGT
1 TCACGTATGTAGTACTAAGTGCAGG-CTACTACGTGTATCGAATGATAATGGTCACATGTGTAGT
30268715 ACTATGTGCAGGCTACTAT
65 ACTATGTGCAGGCTACTAT
30268734 GTGAAACGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 6 0.08
101 35 0.47
102 33 0.45
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATTCGTACCGGATAGTTTTGA
Found at i:30268713 original size:51 final size:49
Alignment explanation
Indices: 30268546--30268732 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 49
30268536 AGTGAAAGTG
* * *
30268546 ATGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTACGTGTATC-GAATGGT
* * * * * *
30268597 A-GGTCGCATGTGTAGTACTATGTGCAGGGTACTA-TTCGTACCGGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCA-GGCACTACGT-GTATCGAAT-GGT
* * * * *
30268647 TTGATCACGTATGTAGTATTATGTGCAGGACACTACGTGTATCGAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGG-CACTACGTGTATCGAATGGT
30268697 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTA
30268733 TGTGAAACGA
Statistics
Matches: 104, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.36
51 62 0.60
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCACTACGTGTATCGAATGGT
Found at i:30268753 original size:102 final size:101
Alignment explanation
Indices: 30268550--30268753 Score: 236
Period size: 102 Copynumber: 2.0 Consensus size: 101
30268540 AAAGTGATGG
* *
30268550 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCACATGTGTAGTAC
* * * * * *
30268615 TATGTGCAGGGTACTATTCGTACCGGATAGTTTTGA
66 TATGTGCAGGCTACTATTCGAAACGAACAGTATTGA
* * *
30268651 TCACGTATGTAGTATTATGTGCAGGAC-ACTACGTGTATC-GAATGGTAATGGTCACATGTGTAG
1 TCACGTATGTAGTACTAAGTGCAGG-CTACTACGTGTATCGGAATGAT-A-GGTCACATGTGTAG
30268714 TACTATGTGCAGGCTACTATGT-GAAACGAACA-TCATTGA
63 TACTATGTGCAGGCTACTAT-TCGAAACGAACAGT-ATTGA
30268753 T
1 T
30268754 TAGTAAGGTG
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
100 6 0.07
101 36 0.41
102 44 0.51
103 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATTCGAAACGAACAGTATTGA
Found at i:30286599 original size:3 final size:3
Alignment explanation
Indices: 30286591--30286671 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
30286581 GATAAATTCG
*
30286591 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30286639 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30286672 GGATTAAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30286716 original size:5 final size:6
Alignment explanation
Indices: 30286697--30286754 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
30286687 TTTGGAATTC
* * *
30286697 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAT AAATGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAAT-AA AAATAA
*
30286748 AGATAA A
1 AAATAA A
30286755 CTAAATTGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 33 0.75
7 7 0.16
8 4 0.09
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:30288429 original size:27 final size:27
Alignment explanation
Indices: 30288388--30288450 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
30288378 ACACTCCGGA
* * * *
30288388 GAAATGAAAGTCTTTGTGGCAATTTAT
1 GAAATGGAAGCCTTTATGGCAATCTAT
*
30288415 GAAATGGAAGCCTTTATGGCGATCTAT
1 GAAATGGAAGCCTTTATGGCAATCTAT
*
30288442 GAAAAGGAA
1 GAAATGGAA
30288451 TGTCTTCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (27 bp):
GAAATGGAAGCCTTTATGGCAATCTAT
Found at i:30288693 original size:10 final size:10
Alignment explanation
Indices: 30288658--30288704 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
30288648 TATAAAAATA
30288658 TTTTTATTATAT
1 TTTTTA-TA-AT
*
30288670 TTTTTGTAA-
1 TTTTTATAAT
*
30288679 GTTTTATAAT
1 TTTTTATAAT
30288689 TTTTTATAAT
1 TTTTTATAAT
30288699 TTTTTA
1 TTTTTA
30288705 CATGATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 2 0.07
12 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:30288701 original size:18 final size:18
Alignment explanation
Indices: 30288664--30288701 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30288654 AATATTTTTA
*
30288664 TTATATTTTTTGTAAGTT
1 TTATATTTTTTATAAGTT
30288682 TTATAATTTTTTATAA-TT
1 TTAT-ATTTTTTATAAGTT
30288700 TT
1 TT
30288702 TTACATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATATTTTTTATAAGTT
Found at i:30289301 original size:12 final size:12
Alignment explanation
Indices: 30289284--30289317 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30289274 TGTAATCTTC
30289284 TCTTTTTTTTCT
1 TCTTTTTTTTCT
30289296 TCTTTTTTTTCT
1 TCTTTTTTTTCT
**
30289308 GGTTTTTTTT
1 TCTTTTTTTT
30289318 TTTTTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTTCT
Found at i:30290308 original size:29 final size:29
Alignment explanation
Indices: 30290259--30290332 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
30290249 AAAAACATGT
* * *
30290259 TGACGTGGACGCACTTT-AGTAAAGAGCGC
1 TGACGAGGACGC-GTTTCAGTAAAAAGCGC
*
30290288 TGACGAGGGCGCGTTTCAGTAAAAAGCGC
1 TGACGAGGACGCGTTTCAGTAAAAAGCGC
30290317 TGACGAGGACGCGTTT
1 TGACGAGGACGCGTTT
30290333 TTCCCCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (29 bp):
TGACGAGGACGCGTTTCAGTAAAAAGCGC
Found at i:30290458 original size:27 final size:28
Alignment explanation
Indices: 30290403--30290458 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
30290393 AGGGTTTTGG
*
30290403 AAAAAAATAAATTAAGGTTTAGGATTTT
1 AAAAAAATAAATTAAGGTTTAGGAGTTT
*
30290431 AAAAAATTAAATT-AGTGTTTAGG-GTTT
1 AAAAAAATAAATTAAG-GTTTAGGAGTTT
30290458 A
1 A
30290459 TGGTCTAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (28 bp):
AAAAAAATAAATTAAGGTTTAGGAGTTT
Found at i:30290760 original size:86 final size:85
Alignment explanation
Indices: 30290662--30290829 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 85
30290652 TGTACCGTTG
* *
30290662 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACATAT-CTCGGAATCCTCAAGAAATCT
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAA-AAATCCT-GGAATCCACAAGAAATCT
30290726 GATAGTTGGGGTTAAAAAAATA
64 GATAGTTGGGGTTAAAAAAATA
* * * * * * *
30290748 ATTCTGAAAAAATAATTTTTAGAAGATGGTTTTGAAAAAAATCCTGGGATTCACGAGAAATCTGA
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAAATCCTGGAATCCACAAGAAATCTGA
*
30290813 TAGTTGGGGTTGAAAAA
66 TAGTTGGGGTTAAAAAA
30290830 CGCTTCAAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
85 35 0.49
86 36 0.51
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (85 bp):
ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAAATCCTGGAATCCACAAGAAATCTGA
TAGTTGGGGTTAAAAAAATA
Found at i:30290829 original size:85 final size:86
Alignment explanation
Indices: 30290662--30290829 Score: 223
Period size: 85 Copynumber: 2.0 Consensus size: 86
30290652 TGTACCGTTG
* *
30290662 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACATATCTCGGAATCCTCAAGAAATCTG
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTCGGAATCCACAAGAAATCTG
30290727 ATAGTTGGGGTTAAAAAAATA
66 ATAGTTGGGGTTAAAAAAATA
* * * * * * *
30290748 ATTCTGAAAAAATAATTTTTAGAAGATGGTTTTGAAAA-AAATC-CTGGGATTCACGAGAAATCT
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTC-GGAATCCACAAGAAATCT
*
30290811 GATAGTTGGGGTTGAAAAA
65 GATAGTTGGGGTTAAAAAA
30290830 CGCTTCAAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 36 0.51
86 34 0.48
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (86 bp):
ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTCGGAATCCACAAGAAATCTG
ATAGTTGGGGTTAAAAAAATA
Found at i:30294097 original size:59 final size:58
Alignment explanation
Indices: 30294018--30294193 Score: 208
Period size: 59 Copynumber: 3.0 Consensus size: 58
30294008 ATATCGAAAT
* * * * *
30294018 AACTCCTAATTTATTAAATGAAACAATGAAAAAATAATTTGTACGAACATATTTAAAAG
1 AACTTCTATTTTATTAAATGAAACAAT-AAAAAATAATTTGTACAAAAATATTCAAAAG
* *
30294077 AACTTCTATTTTATTAAATGAAACAATTTAAAAATAATTTATACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAA-TAAAAAATAATTTGTACAAAAATATTCAAAAG
* * * * * *
30294136 AACTTCTGTTTCATCAAATGAAACAATATAAAAACAGTTTGTACAAATATATTCAAAA
1 AACTTCTATTTTATTAAATGAAACAATA-AAAAATAATTTGTACAAAAATATTCAAAA
30294194 ATAAATCAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.01
59 98 0.98
60 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (58 bp):
AACTTCTATTTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAAG
Found at i:30294580 original size:18 final size:18
Alignment explanation
Indices: 30294554--30294589 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30294544 GAGTGGAAAA
30294554 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGTT
*
30294572 AGGATACATATAAGGGTT
1 AGGAAACATATAAGGGTT
30294590 CAGATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGAAACATATAAGGGTT
Found at i:30301772 original size:11 final size:11
Alignment explanation
Indices: 30301756--30301790 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
30301746 GAGAAATCTC
30301756 ATGAAAAAAGA
1 ATGAAAAAAGA
*
30301767 ATGAAAAATGA
1 ATGAAAAAAGA
30301778 ATGAAAGAAAGA
1 ATGAAA-AAAGA
30301790 A
1 A
30301791 ACCTTCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (11 bp):
ATGAAAAAAGA
Found at i:30307326 original size:11 final size:11
Alignment explanation
Indices: 30307310--30307338 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30307300 ATCGTCGTCT
30307310 CTGTCGGTCGA
1 CTGTCGGTCGA
30307321 CTGTCGGTCGA
1 CTGTCGGTCGA
30307332 CTGTCGG
1 CTGTCGG
30307339 CCTTGCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.28, G:0.38, T:0.28
Consensus pattern (11 bp):
CTGTCGGTCGA
Found at i:30309274 original size:5 final size:5
Alignment explanation
Indices: 30309258--30309303 Score: 83
Period size: 5 Copynumber: 9.0 Consensus size: 5
30309248 GAAAGGACCA
30309258 TATAT ATATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
30309304 ATTATTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:30312212 original size:87 final size:87
Alignment explanation
Indices: 30312065--30312239 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
30312055 TTTAGAGTGC
30312065 TAGAAGATCGATCCCTTCTTCATCGTTTGTCAAGGGCATTATTGCCAATGCAGGAGAACGTGAGT
1 TAGAAGATCGATCCCTTCTTCATCGTTTGTCAAGGGCATTATTGCCAATGCAGGAGAACGTGAGT
30312130 TTGAGTATGCTGAAGCACATTA
66 TTGAGTATGCTGAAGCACATTA
* *
30312152 TAGAAGATCGATCCCTTCTTCATCGTTTGTCAATGGCATTATTGCCAATGCAGGATAACGTGAGT
1 TAGAAGATCGATCCCTTCTTCATCGTTTGTCAAGGGCATTATTGCCAATGCAGGAGAACGTGAGT
*
30312217 TTGAGTATGCTGAAGCATATTA
66 TTGAGTATGCTGAAGCACATTA
30312239 T
1 T
30312240 CCTCCTATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (87 bp):
TAGAAGATCGATCCCTTCTTCATCGTTTGTCAAGGGCATTATTGCCAATGCAGGAGAACGTGAGT
TTGAGTATGCTGAAGCACATTA
Found at i:30318711 original size:14 final size:14
Alignment explanation
Indices: 30318691--30318722 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
30318681 TTATGAGTTA
30318691 AAAAAAAAGATAAAG
1 AAAAAAAAGA-AAAG
30318706 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
30318720 AAA
1 AAA
30318723 GTGAGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:30319905 original size:13 final size:13
Alignment explanation
Indices: 30319887--30319911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30319877 TGTATTTTGA
30319887 ACAAAATATTTAC
1 ACAAAATATTTAC
30319900 ACAAAATATTTA
1 ACAAAATATTTA
30319912 AATTTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
ACAAAATATTTAC
Found at i:30322600 original size:14 final size:14
Alignment explanation
Indices: 30322581--30322657 Score: 90
Period size: 14 Copynumber: 5.8 Consensus size: 14
30322571 TCTTCGTTGC
*
30322581 TTTTGAAAAGTACT
1 TTTTGAAAAGTGCT
30322595 TTTTGAAAAGTGCT
1 TTTTGAAAAGTGCT
30322609 TTTTGAAAAGTGC-
1 TTTTGAAAAGTGCT
* *
30322622 TGTGGAAAAGTGC-
1 TTTTGAAAAGTGCT
*
30322635 TTTTGAGAAGT--T
1 TTTTGAAAAGTGCT
30322647 TTTTGAAAAGT
1 TTTTGAAAAGT
30322658 TTGGTTTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.18
13 19 0.35
14 26 0.47
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.40
Consensus pattern (14 bp):
TTTTGAAAAGTGCT
Found at i:30322629 original size:27 final size:28
Alignment explanation
Indices: 30322581--30322638 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
30322571 TCTTCGTTGC
* *
30322581 TTTTGAAAAGTACTTTTTGAAAAGTGCT
1 TTTTGAAAAGTACTTGTGGAAAAGTGCT
*
30322609 TTTTGAAAAGTGC-TGTGGAAAAGTGCT
1 TTTTGAAAAGTACTTGTGGAAAAGTGCT
30322636 TTT
1 TTT
30322639 GAGAAGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (28 bp):
TTTTGAAAAGTACTTGTGGAAAAGTGCT
Found at i:30323689 original size:11 final size:11
Alignment explanation
Indices: 30323673--30323697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30323663 ACGCATATCT
30323673 GAAAATTAAAA
1 GAAAATTAAAA
30323684 GAAAATTAAAA
1 GAAAATTAAAA
30323695 GAA
1 GAA
30323698 CAAAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (11 bp):
GAAAATTAAAA
Found at i:30323719 original size:18 final size:18
Alignment explanation
Indices: 30323698--30323732 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30323688 ATTAAAAGAA
30323698 CAAAATCAAATAAAAACC
1 CAAAATCAAATAAAAACC
30323716 CAAAATCAAATAAAAAC
1 CAAAATCAAATAAAAAC
30323733 AAATAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.11
Consensus pattern (18 bp):
CAAAATCAAATAAAAACC
Found at i:30350508 original size:21 final size:21
Alignment explanation
Indices: 30350484--30350523 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30350474 AGGATTCAAG
**
30350484 AGTAAGGATGTGAGACATCTA
1 AGTAAGGAAATGAGACATCTA
30350505 AGTAAGGAAATGAGACATC
1 AGTAAGGAAATGAGACATC
30350524 ATGAAGAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.20
Consensus pattern (21 bp):
AGTAAGGAAATGAGACATCTA
Found at i:30352957 original size:84 final size:84
Alignment explanation
Indices: 30352816--30352989 Score: 348
Period size: 84 Copynumber: 2.1 Consensus size: 84
30352806 CTTCACCGAA
30352816 TTTTCTTGTACCTATCTTGGATTTGGTAGGAAAATCAGGGGGACCGAAAGTATATTTATGGGAAG
1 TTTTCTTGTACCTATCTTGGATTTGGTAGGAAAATCAGGGGGACCGAAAGTATATTTATGGGAAG
30352881 GGGACATTTTAGATGGTTT
66 GGGACATTTTAGATGGTTT
30352900 TTTTCTTGTACCTATCTTGGATTTGGTAGGAAAATCAGGGGGACCGAAAGTATATTTATGGGAAG
1 TTTTCTTGTACCTATCTTGGATTTGGTAGGAAAATCAGGGGGACCGAAAGTATATTTATGGGAAG
30352965 GGGACATTTTAGATGGTTT
66 GGGACATTTTAGATGGTTT
30352984 TTTTCT
1 TTTTCT
30352990 ATCTGTTTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.37
Consensus pattern (84 bp):
TTTTCTTGTACCTATCTTGGATTTGGTAGGAAAATCAGGGGGACCGAAAGTATATTTATGGGAAG
GGGACATTTTAGATGGTTT
Found at i:30353851 original size:25 final size:25
Alignment explanation
Indices: 30353818--30353971 Score: 132
Period size: 25 Copynumber: 6.2 Consensus size: 25
30353808 GTTTACCTGA
* *
30353818 AAAGTCTTTGTGGCATATTATTTGG
1 AAAGCCTTTGTGGCGTATTATTTGG
* *
30353843 AAAGCCTTTGTGGCGTATTATCTAG
1 AAAGCCTTTGTGGCGTATTATTTGG
* * * * *
30353868 AAGGCCTTTGTGTC-TAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATT-TGG
*
30353893 AAAGCCTTTGAGGCGTATTATTTGG
1 AAAGCCTTTGTGGCGTATTATTTGG
* * * *
30353918 AACGCCTTTGTGGC-TAGTCTTATGA
1 AAAGCCTTTGTGGCGTATTATT-TGG
* *
30353943 AAAGCCTTTGTGGCGTATTGTATGG
1 AAAGCCTTTGTGGCGTATTATTTGG
30353968 AAAG
1 AAAG
30353972 ACTATTTGAC
Statistics
Matches: 98, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
24 9 0.09
25 80 0.82
26 9 0.09
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGTATTATTTGG
Found at i:30353900 original size:50 final size:50
Alignment explanation
Indices: 30353843--30353961 Score: 184
Period size: 50 Copynumber: 2.4 Consensus size: 50
30353833 TATTATTTGG
* *
30353843 AAAGCCTTTGTGGCGTATTATCTAGAAGGCCTTTGTGTCTAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
* * * *
30353893 AAAGCCTTTGAGGCGTATTATTTGGAACGCCTTTGTGGCTAGTCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
30353943 AAAGCCTTTGTGGCGTATT
1 AAAGCCTTTGTGGCGTATT
30353962 GTATGGAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
Found at i:30353950 original size:75 final size:75
Alignment explanation
Indices: 30353815--30353954 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
30353805 ACGGTTTACC
* * * *
30353815 TGAAAAGTCTTTGTGGCATATTATTTGGAAAGCCTTTGTGGCGTATTATCTAGAAGGCCTTTGTG
1 TGAAAAGCCTTTGAGGCATATTATTTGGAAAGCCTTTGTGGCGTATTATCGAGAAAGCCTTTGTG
30353880 TCTAATCTTA
66 TCTAATCTTA
* * *
30353890 TGAAAAGCCTTTGAGGCGTATTATTTGGAACGCCTTTGTGGCTAGTCTTAT-GA-AAAGCCTTTG
1 TGAAAAGCCTTTGAGGCATATTATTTGGAAAGCCTTTGTGGC--GTATTATCGAGAAAGCCTTTG
30353953 TG
64 TG
30353955 GCGTATTGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 49 0.88
76 1 0.02
77 6 0.11
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (75 bp):
TGAAAAGCCTTTGAGGCATATTATTTGGAAAGCCTTTGTGGCGTATTATCGAGAAAGCCTTTGTG
TCTAATCTTA
Found at i:30358732 original size:26 final size:26
Alignment explanation
Indices: 30358703--30358755 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
30358693 TAGTTCTTTG
*
30358703 AAAATCCTTT-AAACTTCTAAAACTCT
1 AAAAT-CTTTAAAACCTCTAAAACTCT
* *
30358729 AAAATTTTTAAAACCTCTAAAATTCT
1 AAAATCTTTAAAACCTCTAAAACTCT
30358755 A
1 A
30358756 GACTCACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATCTTTAAAACCTCTAAAACTCT
Found at i:30361271 original size:19 final size:19
Alignment explanation
Indices: 30361218--30361275 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
30361208 AATAATGCAA
*
30361218 TGTTAGATATTTTACCGTT
1 TGTTAGATATTTTACTGTT
30361237 TGTTAGATATTTTACTGTT
1 TGTTAGATATTTTACTGTT
*
30361256 TGTTAGATATTGTACTGTT
1 TGTTAGATATTTTACTGTT
30361275 T
1 T
30361276 ATTTAAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (19 bp):
TGTTAGATATTTTACTGTT
Done.