Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 98 of 318
Found at i:29836292 original size:54 final size:54
Alignment explanation
Indices: 29836222--29836325 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
29836212 ACTAAAATGG
* *
29836222 TTGTAAAATTATTGAAATACCCT-TGATTTGTGAAATTACCAAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCT-ATTTGTGAAACTACCAAAATACCCTCGAT
* * *
29836276 TTGTGAAATTACTGAAATACCCTCTATTTGTGAAACTATCGAAATACCCT
1 TTGTAAAATTACTGAAATACCCTCTATTTGTGAAACTACCAAAATACCCT
29836326 TATGGGGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCCTCTATTTGTGAAACTACCAAAATACCCTCGAT
Found at i:29836441 original size:27 final size:27
Alignment explanation
Indices: 29836315--29836431 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
29836305 GTGAAACTAT
*
29836315 CGAAATACCCTTATGGGGTAGGATTAC
1 CGAAATACCCCTATGGGGTAGGATTAC
* *
29836342 CGAAATA-CCCTGTGGGGCAGTG-TTAC
1 CGAAATACCCCTATGGGGTAG-GATTAC
* *
29836368 CGAAATACCCCTATAGAGTAGGATTAC
1 CGAAATACCCCTATGGGGTAGGATTAC
** * *
29836395 TTAAACACCCCTATGGGGTAGGATTAT
1 CGAAATACCCCTATGGGGTAGGATTAC
29836422 CGAAATACCC
1 CGAAATACCC
29836432 TTGTAGGGTA
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
26 22 0.31
27 49 0.69
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTATGGGGTAGGATTAC
Found at i:29844077 original size:3 final size:3
Alignment explanation
Indices: 29844069--29844111 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
29844059 TGTTTATGAA
*
29844069 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
29844112 GTAATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:29845358 original size:32 final size:32
Alignment explanation
Indices: 29845314--29845407 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 32
29845304 TCAAGCCCAT
*
29845314 TGGGCCTAAGCCC-ATTCAGATAACAGTGATAC
1 TGGGCC-AAGCCCTATTCAGATAACAGTGAAAC
* * *
29845346 TGGGCCAGAGCCCTTTTCAGATTACA-TTAAAC
1 TGGGCCA-AGCCCTATTCAGATAACAGTGAAAC
*
29845378 TGGGCCTTAGCCCCTTATTCAGATAACAGT
1 TGGGCC-AAG-CCC-TATTCAGATAACAGT
29845408 ATGGCCCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 1 0.02
32 23 0.47
33 13 0.27
34 11 0.22
35 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (32 bp):
TGGGCCAAGCCCTATTCAGATAACAGTGAAAC
Found at i:29847050 original size:24 final size:24
Alignment explanation
Indices: 29847011--29847116 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
29847001 GCCGGCCAAC
*
29847011 TCCTACTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
29847036 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
* *
29847060 TCCTCTCCCTTATCAGCTCATAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
29847084 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
29847108 TCTTCTCCT
1 TCCTCTCCT
29847117 GACAGCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.37
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:29849119 original size:11 final size:10
Alignment explanation
Indices: 29849087--29849141 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
29849077 CATGAGATTT
29849087 TGATAT-ACA
1 TGATATGACA
*
29849096 TGATTTGACA
1 TGATATGACA
29849106 TGATATGCACA
1 TGATATG-ACA
*
29849117 TGATATG-TA
1 TGATATGACA
29849126 TGATATGCACA
1 TGATATG-ACA
29849137 TGATA
1 TGATA
29849142 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:29849223 original size:25 final size:25
Alignment explanation
Indices: 29849189--29849255 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
29849179 GAGGAAGTGC
29849189 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
29849214 AAAAGGGCTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
29849239 AAAAGGTCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
29849256 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:29849554 original size:30 final size:31
Alignment explanation
Indices: 29849477--29849556 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
29849467 ATCGTTTACA
*
29849477 GTAAAGGCTTCAGCCCAGTGATATGAATAAT
1 GTAAAGGCTTCAGCCCAGTGACATGAATAAT
* *
29849508 GAAAAGGCTTCGGCCCAGTGACATGAATAAT
1 GTAAAGGCTTCAGCCCAGTGACATGAATAAT
29849539 GTAAA-GCTTCAGCCCAGT
1 GTAAAGGCTTCAGCCCAGT
29849557 ATATGCTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 12 0.27
31 32 0.73
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (31 bp):
GTAAAGGCTTCAGCCCAGTGACATGAATAAT
Found at i:29858856 original size:16 final size:16
Alignment explanation
Indices: 29858831--29858873 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
29858821 GTAGCCAAAC
*
29858831 TTTCGACTTTTCAGCA
1 TTTCGGCTTTTCAGCA
29858847 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
*
29858863 TTTCAGCTTTT
1 TTTCGGCTTTT
29858874 GCCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:29863775 original size:27 final size:29
Alignment explanation
Indices: 29863745--29863860 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 29
29863735 AAGGCAAGAG
*
29863745 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
29863772 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* ** * *
29863801 TATATAATTTTCAGCTCGCATAGTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
29863831 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
29863860 T
1 T
29863861 GTACAATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 6 0.08
28 3 0.04
29 41 0.53
30 27 0.35
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:29863813 original size:30 final size:29
Alignment explanation
Indices: 29863758--29863860 Score: 170
Period size: 29 Copynumber: 3.5 Consensus size: 29
29863748 ATAGTGAATC
29863758 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
29863787 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* * *
29863817 CGCATAGTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
29863846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29863861 GTACAATTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
29 41 0.60
30 27 0.40
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:29870476 original size:27 final size:29
Alignment explanation
Indices: 29870446--29870561 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
29870436 AACGCAAGAG
*
29870446 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
29870473 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
29870502 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
29870532 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
29870561 T
1 T
29870562 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:29870514 original size:30 final size:29
Alignment explanation
Indices: 29870459--29870561 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
29870449 ATAGTGAATC
29870459 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
29870488 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
29870518 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
29870547 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29870562 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:29870535 original size:59 final size:60
Alignment explanation
Indices: 29870458--29870591 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
29870448 TATAGTGAAT
* * *
29870458 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
29870517 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
29870577 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
29870592 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:29872013 original size:28 final size:28
Alignment explanation
Indices: 29871981--29872066 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
29871971 TACCTGTATT
*
29871981 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
29872009 TGGCCCATTAGGCCCAAATCACT-TGT-ATA
1 TGGCCCATTAGGCCC-AATCA-TAT-TCATA
* * *
29872038 CGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCATATTCATA
29872066 T
1 T
29872067 TCATGCTCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.02
28 22 0.46
29 23 0.48
30 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCATATTCATA
Found at i:29872147 original size:17 final size:18
Alignment explanation
Indices: 29872125--29872183 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
29872115 TGCCTATTAT
29872125 GGGCCCA-ACAGCCCATC
1 GGGCCCATACAGCCCATC
**
29872142 GGGCCCATTTAGCCCATC
1 GGGCCCATACAGCCCATC
**
29872160 GGGCCCATTTAGCCCATCC
1 GGGCCCATACAGCCCAT-C
29872179 GGGCC
1 GGGCC
29872184 ATATGGCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.18
18 25 0.66
19 6 0.16
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (18 bp):
GGGCCCATACAGCCCATC
Found at i:29872185 original size:18 final size:18
Alignment explanation
Indices: 29872134--29872183 Score: 91
Period size: 18 Copynumber: 2.7 Consensus size: 18
29872124 TGGGCCCAAC
29872134 AGCCCATCGGGCCCATTT
1 AGCCCATCGGGCCCATTT
29872152 AGCCCATCGGGCCCATTT
1 AGCCCATCGGGCCCATTT
29872170 AGCCCATCCGGGCC
1 AGCCCAT-CGGGCC
29872184 ATATGGCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (18 bp):
AGCCCATCGGGCCCATTT
Found at i:29873450 original size:16 final size:16
Alignment explanation
Indices: 29873431--29873465 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
29873421 ACTAAGAAAA
*
29873431 TTTAGATTTCGGGATT
1 TTTAGATTTCAGGATT
*
29873447 TTTAGGTTTCAGGATT
1 TTTAGATTTCAGGATT
29873463 TTT
1 TTT
29873466 TTGGGGCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.54
Consensus pattern (16 bp):
TTTAGATTTCAGGATT
Found at i:29878524 original size:23 final size:23
Alignment explanation
Indices: 29878498--29878637 Score: 79
Period size: 23 Copynumber: 6.0 Consensus size: 23
29878488 TTTCTAGTCA
*
29878498 TGAT-CAGTAAGCTCCTCTTGAGC
1 TGATACAGTAAGCT-CTATTGAGC
29878521 TGATGAACAGTAAGCTCTATTGAGC
1 TGAT--ACAGTAAGCTCTATTGAGC
* * ** *
29878546 TAAAATGGTAAGCTCTATTTAGC
1 TGATACAGTAAGCTCTATTGAGC
* ** * *
29878569 TGAAATGGTAAGCGCTATCGAGC
1 TGATACAGTAAGCTCTATTGAGC
*
29878592 TGA-ACAGTAAGCTC-ATACGAGC
1 TGATACAGTAAGCTCTAT-TGAGC
* * * *
29878614 TAAAACAGTAAGCTCCAATGAGC
1 TGATACAGTAAGCTCTATTGAGC
29878637 T
1 T
29878638 AAAAATAGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.02
22 15 0.16
23 58 0.61
24 1 0.01
25 10 0.11
26 9 0.09
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
TGATACAGTAAGCTCTATTGAGC
Found at i:29878659 original size:23 final size:24
Alignment explanation
Indices: 29878594--29878662 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 24
29878584 TATCGAGCTG
29878594 AACAGTAAGCTCATACGAGCT-AA
1 AACAGTAAGCTCATACGAGCTAAA
*
29878617 AACAGTAAGCTCCA-ATGAGCTAAA
1 AACAGTAAGCT-CATACGAGCTAAA
* *
29878641 AATAGTAAGCTCTTA-GAGCTAA
1 AACAGTAAGCTCATACGAGCTAA
29878663 TATATCGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (24 bp):
AACAGTAAGCTCATACGAGCTAAA
Found at i:29878660 original size:68 final size:68
Alignment explanation
Indices: 29878524--29878660 Score: 152
Period size: 68 Copynumber: 2.0 Consensus size: 68
29878514 CTTGAGCTGA
* ** * * * * * *
29878524 TGAACAGTAAGCTCTATTGAGCTAAAATGGTAAGCTCTATTTAGCTGAAATGGTAAGCGCTATCG
1 TGAACAGTAAGCTCTATCGAGCTAAAACAGTAAGCTCCAATGAGCTAAAATAGTAAGCGCTATAG
29878589 AGC
66 AGC
*
29878592 TGAACAGTAAGCTC-ATACGAGCTAAAACAGTAAGCTCCAATGAGCTAAAAATAGTAAGCTCT-T
1 TGAACAGTAAGCTCTAT-CGAGCTAAAACAGTAAGCTCCAATGAGCT-AAAATAGTAAGCGCTAT
29878655 AGAGC
64 AGAGC
29878660 T
1 T
29878661 AATATATCGG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
67 2 0.04
68 43 0.75
69 12 0.21
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (68 bp):
TGAACAGTAAGCTCTATCGAGCTAAAACAGTAAGCTCCAATGAGCTAAAATAGTAAGCGCTATAG
AGC
Found at i:29882172 original size:43 final size:43
Alignment explanation
Indices: 29882124--29882327 Score: 279
Period size: 43 Copynumber: 4.7 Consensus size: 43
29882114 GGTTAAAAAC
* * *
29882124 ATATGTGGTTACGTGTAAGACCTCGTTTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * *
29882167 ATATGTGATTATGTGTAAGACCATGTTTTGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
29882210 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
29882253 ATATGTGATTACATGTAAGACC-CTGTCTGGGACAG-TGACATCG
1 ATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
29882296 ATATGTGATTA-GTTGTAAGACCACGTCTGGGA
1 ATATGTGATTACG-TGTAAGACCACGTCTGGGA
29882328 TGTAACACCT
Statistics
Matches: 145, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 142 0.98
44 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:29883008 original size:33 final size:35
Alignment explanation
Indices: 29882970--29883050 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 35
29882960 GCCTAAGCCC
*
29882970 ATTCAGATAACAGTGATACTGGGCCAGAG-CCCTT
1 ATTCAGATAACAGTGAAACTGGGCCAGAGCCCCTT
* * **
29883004 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTGGGCCAGAGCCCCTT
29883037 ATTCAGATAACAGT
1 ATTCAGATAACAGT
29883051 ATGACCCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 12 0.32
33 15 0.39
34 10 0.26
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (35 bp):
ATTCAGATAACAGTGAAACTGGGCCAGAGCCCCTT
Found at i:29884694 original size:24 final size:24
Alignment explanation
Indices: 29884655--29884760 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
29884645 GCCGGCCAAC
*
29884655 TCCTACTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
29884680 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
29884704 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
29884728 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
29884752 TCTTCTCCT
1 TCCTCTCCT
29884761 GACAGCCTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 72 0.96
25 3 0.04
ACGTcount: A:0.20, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:29886760 original size:11 final size:10
Alignment explanation
Indices: 29886728--29886782 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
29886718 CATGAGATTT
29886728 TGATAT-ACA
1 TGATATGACA
*
29886737 TGATTTGACA
1 TGATATGACA
29886747 TGATATGCACA
1 TGATATG-ACA
*
29886758 TGATATG-TA
1 TGATATGACA
29886767 TGATATGCACA
1 TGATATG-ACA
29886778 TGATA
1 TGATA
29886783 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:29886864 original size:25 final size:25
Alignment explanation
Indices: 29886830--29886899 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
29886820 GAGGAAGTGC
29886830 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
29886855 AAAAGGGCTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
29886880 AAAAGGTCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
29886900 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:29887097 original size:31 final size:31
Alignment explanation
Indices: 29887059--29887142 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
29887049 CGTTTACAGT
29887059 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* * *
29887090 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
29887121 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
29887143 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:29889201 original size:39 final size:39
Alignment explanation
Indices: 29889112--29889274 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
29889102 TATGGTAACC
* *
29889112 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
29889152 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29889191 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29889230 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
29889269 CGCACA
1 CGCACA
29889275 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29897121 original size:40 final size:39
Alignment explanation
Indices: 29897057--29897251 Score: 232
Period size: 39 Copynumber: 5.0 Consensus size: 39
29897047 GCTACTCGTT
* * * ** *
29897057 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
29897097 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
29897137 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* *
29897176 CAATTGCCTTCGGGCTTAGCCCGGATATCACAA-TCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* *
29897214 CAATTGCCTTCGGGCTTAGCCCGGATATCACAA-TCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
29897252 TTCATACACA
Statistics
Matches: 141, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 43 0.30
39 53 0.38
40 45 0.32
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:29897222 original size:38 final size:38
Alignment explanation
Indices: 29897093--29897251 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 38
29897083 TATGGTAACC
* *
29897093 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAA-T
* *
29897133 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-AT
29897172 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
29897210 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
29897248 CGCA
1 CGCA
29897252 TTCATACACA
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 43 0.38
39 52 0.46
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
Found at i:29897233 original size:77 final size:79
Alignment explanation
Indices: 29897093--29897243 Score: 270
Period size: 77 Copynumber: 1.9 Consensus size: 79
29897083 TATGGTAACC
29897093 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
29897158 CGGATATCATAGCT
66 CGGATATCATAGCT
* *
29897172 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAA-TCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
29897235 CGGATATCA
66 CGGATATCA
29897244 CAATCGCATT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 35 0.50
78 18 0.26
79 17 0.24
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:29903473 original size:69 final size:69
Alignment explanation
Indices: 29903372--29903526 Score: 292
Period size: 69 Copynumber: 2.2 Consensus size: 69
29903362 GAGATGTATC
29903372 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGAC-A-AGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29903437 AGGACA
64 AGGACA
29903443 CCATGTAGACAAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
1 CCATGTAGACAAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
29903508 GACA
66 GACA
29903512 CCATGTAGACAAGAG
1 CCATGTAGACAAGAG
29903527 AGCTACGAGA
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 73 0.87
70 1 0.01
71 10 0.12
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (69 bp):
CCATGTAGACAAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAG
GACA
Found at i:29911015 original size:41 final size:41
Alignment explanation
Indices: 29910970--29911087 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
29910960 TGAAAGATAA
29910970 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
29911011 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29911041 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29911082 ATGTAG
1 ATGTAG
29911088 ACAGAGAGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:29911026 original size:71 final size:71
Alignment explanation
Indices: 29910938--29911100 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
29910928 GAGATGTATC
29910938 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29911003 AGGACA
66 AGGACA
29911009 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29911074 AGGACA
66 AGGACA
29911080 CCATGTAGAC-AGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29911101 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 11 0.12
71 81 0.88
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29911137 original size:65 final size:68
Alignment explanation
Indices: 29910938--29911123 Score: 254
Period size: 71 Copynumber: 2.7 Consensus size: 68
29910928 GAGATGTATC
*
29910938 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACG-G-AAGACAAATG-AGCTAGGTCGCATGCGTGATTCCAAGTGA
29911003 AGGACA
63 AGGACA
*
29911009 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACG-G-AAGACAAATG-AGCTAGGTCGCATGCGTGATTCCAAGTGA
29911074 AGGACA
63 AGGACA
*
29911080 CCATGTAGAC-AGAGAGCTAC-G-AGACAAATCG-GTTAGGTCGCATG
1 CCATGTAGACAAGAGAGCTACGGAAGACAAAT-GAGCTAGGTCGCATG
29911124 AGTGGTACTA
Statistics
Matches: 112, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
65 12 0.11
66 7 0.06
67 1 0.01
68 1 0.01
70 10 0.09
71 81 0.72
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAAGACAAATGAGCTAGGTCGCATGCGTGATTCCAAGTGAAGG
ACA
Found at i:29912802 original size:42 final size:42
Alignment explanation
Indices: 29912753--29912864 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
29912743 TGAGAGTACG
**
29912753 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCCCA
* * * *
29912795 TGTAAGACCACAGCT-GGACTATTAGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGA-TA-TGGCATCAATATGAGATCCCA
29912838 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
29912865 TGGTATAGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 3 0.05
42 20 0.34
43 32 0.55
44 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCCCA
Found at i:29914817 original size:51 final size:53
Alignment explanation
Indices: 29914686--29914817 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 53
29914676 TAGTTTACAT
* * *
29914686 ATTGACTACAGCTCGCATATGGGCACAACACGCATAATAGCATAGCTCGCATAT
1 ATTGACTACAACTCGCATATGGGCACAACACGCACAATAGCATAGCTCGCA-AG
** * *** * * *
29914740 ATTGACTACAACTCATAGAAAAGCACAA-ATGCACATTAGCATAGCTTGC-AG
1 ATTGACTACAACTCGCATATGGGCACAACACGCACAATAGCATAGCTCGCAAG
29914791 ATTGACTACAACTCGCATATGGGCACA
1 ATTGACTACAACTCGCATATGGGCACA
29914818 TCTACTGTTG
Statistics
Matches: 60, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
51 22 0.37
53 17 0.28
54 21 0.35
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (53 bp):
ATTGACTACAACTCGCATATGGGCACAACACGCACAATAGCATAGCTCGCAAG
Found at i:29917928 original size:24 final size:24
Alignment explanation
Indices: 29917896--29917956 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
29917886 AAAATCCAAT
* * *
29917896 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTATAAT-TA
29917920 GCACTATGTGTGCGAGTATAATTA
1 GCACTATGTGTGCGAGTATAATTA
29917944 GCACTATGTGTGC
1 GCACTATGTGTGC
29917957 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTATAATTA
Found at i:29919966 original size:35 final size:35
Alignment explanation
Indices: 29919920--29919990 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
29919910 ATTATGTTCA
*
29919920 TACTACTTGAATTTTGAATGAATGGTGAGCTTTAC
1 TACTACTTGAATTATGAATGAATGGTGAGCTTTAC
29919955 TACTACTTGAATTATGAATGAATGGTGAGCTTTAC
1 TACTACTTGAATTATGAATGAATGGTGAGCTTTAC
29919990 T
1 T
29919991 TATTAACTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (35 bp):
TACTACTTGAATTATGAATGAATGGTGAGCTTTAC
Found at i:29924910 original size:16 final size:17
Alignment explanation
Indices: 29924875--29924917 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
29924865 ATAACACGTC
* *
29924875 AAATATAATATACTTTT
1 AAATATAATACACATTT
29924892 AAATATAA-ACACATTT
1 AAATATAATACACATTT
29924908 AAATA-AATAC
1 AAATATAATAC
29924918 TTATAATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATAATACACATTT
Found at i:29926908 original size:55 final size:57
Alignment explanation
Indices: 29926812--29926920 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 57
29926802 TTACATGTAA
* * *
29926812 TCACATATCGATGCCACTGTCCCAAACAGGGTCTTAGTCGCACA-CATATATCAGAG
1 TCACATATCGATGCCACTGTCACAAACAGGGTCTTACTCGCACATCACATATCAGAG
* *
29926868 TCACATATCGATGCCAAC-GT-ATAAACATGGTCTTACTCGCACATCACATATCA
1 TCACATATCGATGCC-ACTGTCACAAACAGGGTCTTACTCGCACATCACATATCA
29926921 AAATCGGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 19 0.41
56 25 0.54
57 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (57 bp):
TCACATATCGATGCCACTGTCACAAACAGGGTCTTACTCGCACATCACATATCAGAG
Found at i:29933201 original size:17 final size:17
Alignment explanation
Indices: 29933179--29933220 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
29933169 CACATGTCAG
* *
29933179 ATATAATATACTTTTAA
1 ATATAATACACATTTAA
29933196 ATATAA-ACACATTTAA
1 ATATAATACACATTTAA
29933212 ATA-AATACA
1 ATATAATACA
29933221 TATAATAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATACACATTTAA
Found at i:29933942 original size:2 final size:2
Alignment explanation
Indices: 29933935--29933977 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
29933925 ATATACCTAG
29933935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29933977 A
1 A
29933978 CAAGCAATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29935952 original size:25 final size:25
Alignment explanation
Indices: 29935905--29935952 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
29935895 TATAAAACAC
* *
29935905 AAATATTCATCAATGACATAATTAA
1 AAATATTCATCAATAACAAAATTAA
29935930 AAATATTCATCAA-AATCAAAATT
1 AAATATTCATCAATAA-CAAAATT
29935953 CTTGCATGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATATTCATCAATAACAAAATTAA
Found at i:29937831 original size:28 final size:29
Alignment explanation
Indices: 29937726--29937851 Score: 156
Period size: 28 Copynumber: 4.6 Consensus size: 29
29937716 GTGACGAGAT
29937726 TGGCACTAAGTGT--GTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
29937753 TGG--CTAAGTGTGCGTGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
29937779 TGGCACTAAGTGTGCGTGCTGGAAATAT-
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
29937807 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
29937836 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
29937852 AGTCGGAGGG
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.09
26 9 0.10
27 10 0.12
28 42 0.49
29 17 0.20
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:29945650 original size:16 final size:17
Alignment explanation
Indices: 29945629--29945663 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
29945619 GCACTAAGTG
29945629 TGCGTGCTGGAAA-ATA
1 TGCGTGCTGGAAATATA
29945645 TGCGTGCTGGAAATATA
1 TGCGTGCTGGAAATATA
29945662 TG
1 TG
29945664 GCACTAAGTG
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:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (17 bp):
TGCGTGCTGGAAATATA
Found at i:29945687 original size:29 final size:28
Alignment explanation
Indices: 29945645--29945723 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 28
29945635 CTGGAAAATA
29945645 TGCGTGCTGGAAATATATGGCACTAAGTG
1 TGCGTGCTGGAAA-ATATGGCACTAAGTG
29945674 TGCGTGCTGG-AAATAT-GCACTAAGTG
1 TGCGTGCTGGAAAATATGGCACTAAGTG
** *
29945700 TGCAAGCTGGAAAAATACGGCACT
1 TGCGTGCTGG-AAAATATGGCACT
29945724 GGGGTGTGCG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.41
27 4 0.09
28 7 0.16
29 15 0.34
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
TGCGTGCTGGAAAATATGGCACTAAGTG
Found at i:29947460 original size:40 final size:40
Alignment explanation
Indices: 29947354--29947502 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
29947344 ATCACGATTT
* * * *
29947354 GCACAAATGCCTTCGGGTCTTAGCCC-GATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
29947393 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
29947433 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* *
29947472 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
29947503 CATTCAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 13 0.14
39 41 0.43
40 42 0.44
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:29955497 original size:39 final size:40
Alignment explanation
Indices: 29955319--29955501 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
29955309 CCGCACCAAG
* * * * * * * *
29955319 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
29955359 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
29955399 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
29955439 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
29955478 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
29955502 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:29962474 original size:29 final size:28
Alignment explanation
Indices: 29962440--29962542 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
29962430 TACTCAATCA
*
29962440 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
29962469 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
29962498 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
29962527 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
29962543 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:29969446 original size:29 final size:28
Alignment explanation
Indices: 29969412--29969514 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
29969402 TACTCAATCA
*
29969412 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
29969441 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
29969470 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
29969499 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
29969515 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:29973629 original size:49 final size:49
Alignment explanation
Indices: 29973557--29973652 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
29973547 TTACTGGGCT
29973557 GAAGCCTTTTCATAAATCATATCACTGGGCTGAAGCCTTTTCATAAACC
1 GAAGCCTTTTCATAAATCATATCACTGGGCTGAAGCCTTTTCATAAACC
*
29973606 GAAGCCTTTTCATAAATCATATCACTGGGCTGGAGCCTTTTCATAAA
1 GAAGCCTTTTCATAAATCATATCACTGGGCTGAAGCCTTTTCATAAA
29973653 TCATTTCACT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (49 bp):
GAAGCCTTTTCATAAATCATATCACTGGGCTGAAGCCTTTTCATAAACC
Found at i:29973646 original size:31 final size:31
Alignment explanation
Indices: 29973604--29973707 Score: 181
Period size: 31 Copynumber: 3.4 Consensus size: 31
29973594 TTTTCATAAA
*
29973604 CCGAAGCCTTTTCATAAATCATATCACTGGG
1 CCGAAGCCTTTTCATAAATCATTTCACTGGG
* *
29973635 CTGGAGCCTTTTCATAAATCATTTCACTGGG
1 CCGAAGCCTTTTCATAAATCATTTCACTGGG
29973666 CCGAAGCCTTTTCATAAATCATTTCACTGGG
1 CCGAAGCCTTTTCATAAATCATTTCACTGGG
29973697 CCGAAGCCTTT
1 CCGAAGCCTTT
29973708 ACTATAAACG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CCGAAGCCTTTTCATAAATCATTTCACTGGG
Found at i:29973790 original size:42 final size:42
Alignment explanation
Indices: 29973731--29973822 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
29973721 TAGCCCATAG
* ** * *
29973731 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTACGCAA
29973773 GCCCATTTCAATATCACATGAAATACCAATGAATGTACGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTACGCAA
29973815 GCCCATTT
1 GCCCATTT
29973823 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTACGCAA
Found at i:29974001 original size:25 final size:26
Alignment explanation
Indices: 29973968--29974116 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
29973958 CTCTTTTAAT
*
29973968 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
29973993 AACTGGGGCA-AAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
29974018 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
***
29974044 AACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
29974070 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
29974096 AACTGAGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
29974117 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 31 0.29
26 76 0.71
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:29974081 original size:52 final size:52
Alignment explanation
Indices: 29973961--29974116 Score: 248
Period size: 52 Copynumber: 3.1 Consensus size: 52
29973951 GCCTAACCTC
*
29973961 TTTTAAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAG-CCT
1 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
29974009 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
1 TTTT-AATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
* *
29974062 TTTTAATAAACTGGGGCATAAGCCATTTTCGGTAAACTGAGGCATAAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
29974114 TTT
1 TTT
29974117 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
48 4 0.04
49 3 0.03
50 9 0.09
51 25 0.25
52 52 0.52
53 7 0.07
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
TTTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
Found at i:29974979 original size:27 final size:27
Alignment explanation
Indices: 29974918--29974981 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
29974908 GGCATATTCA
29974918 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
29974945 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
29974972 TCTTTTTACC
1 TCATTTTACC
29974982 TATTAGGAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:29975042 original size:27 final size:27
Alignment explanation
Indices: 29975012--29975165 Score: 141
Period size: 27 Copynumber: 5.7 Consensus size: 27
29975002 TTTCATCCTA
* * *
29975012 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
29975039 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
29975066 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * *
29975093 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
29975119 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* *
29975146 CTAGGGGTGTTTTGGTAATT
1 C-AAGGGTATTTTGGTAATT
29975166 CTACCCTATA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 100 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:29975109 original size:81 final size:81
Alignment explanation
Indices: 29975014--29975165 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
29975004 TCATCCTACA
* * * ** *
29975014 AGGGTGTTTTGGTAAATCT-ACAAATCAAG-GGTATTTTTGTAATTTTGTAAATTAGGGGTATTT
1 AGGGTATTTCGGT-AATCTCACAAA-CAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
29975077 TGGTAATTTTACAAATTG
64 TGGTAATTTTACAAATTG
* * *
29975095 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTG
1 AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
29975160 GTAATT
66 GTAATT
29975166 CTACCCTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 7 0.12
81 53 0.88
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
GTAATTTTACAAATTG
Found at i:29975181 original size:81 final size:81
Alignment explanation
Indices: 29975043--29975198 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
29975033 ACAAATCAAG
* ** * * * *
29975043 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
29975108 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* ** *
29975124 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTTAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
29975188 TAATTTCACAA
65 TAATTTCACAA
29975199 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 59 0.94
82 4 0.06
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:29975182 original size:54 final size:54
Alignment explanation
Indices: 29975015--29975207 Score: 144
Period size: 54 Copynumber: 3.6 Consensus size: 54
29975005 CATCCTACAA
* * * ** *** *
29975015 GGGTGTTTTGGTAAATCTACAAATCA-AGGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAAT-AGAGGGTATTTCGGTAATTTCACAAACTAG
* *
29975069 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAG
* * * **
29975123 TGGTATTTTGGTAATTTTACAAACTAG-GGGTGTTTTGGTAA-TTCTACCCTA-TAG
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-CAAACTAG
* * *
29975177 GGGTATTTTAGTAATTTCAC-AATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTA
29975208 AAACGATAAT
Statistics
Matches: 111, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
52 2 0.02
53 9 0.08
54 96 0.86
55 4 0.04
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAG
Found at i:29975205 original size:27 final size:27
Alignment explanation
Indices: 29975067--29975205 Score: 113
Period size: 27 Copynumber: 5.1 Consensus size: 27
29975057 TTTGTAAATT
* *
29975067 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTCAC-AATCG
* * *
29975095 A-GGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTCACAATCG
* * * *
29975121 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTCACAATCG
* * *
29975148 AGGGGTGTTTTGGTAATTCTACCCTAT--
1 AGGGGTATTTTGGTAATT-T-CACAATCG
*
29975175 AGGGGTATTTTAGTAATTTCACAATCG
1 AGGGGTATTTTGGTAATTTCACAATCG
29975202 AGGG
1 AGGG
29975206 TAAAACGATA
Statistics
Matches: 87, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 75 0.86
28 2 0.02
29 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTCACAATCG
Found at i:29975355 original size:27 final size:27
Alignment explanation
Indices: 29975196--29975345 Score: 183
Period size: 27 Copynumber: 5.6 Consensus size: 27
29975186 AGTAATTTCA
* *
29975196 CAATCGAGGGTAAAACGATAATTTTGT
1 CAATCGAGGGTAAAACAATAATTCTGT
* *
29975223 AAATCAAGGGTAAAACAATAATTCTGT
1 CAATCGAGGGTAAAACAATAATTCTGT
* *
29975250 AAATCGAGGGTAAAACAGTAATTCTGT
1 CAATCGAGGGTAAAACAATAATTCTGT
*
29975277 CAATCGAGGGTAAAACAATAATCCTGT
1 CAATCGAGGGTAAAACAATAATTCTGT
******
29975304 CAATCGAGGGTACTTTGGTAATTCTGT
1 CAATCGAGGGTAAAACAATAATTCTGT
29975331 CAATCGAGGGTAAAA
1 CAATCGAGGGTAAAA
29975346 TGGTAATTCT
Statistics
Matches: 104, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (27 bp):
CAATCGAGGGTAAAACAATAATTCTGT
Found at i:29975454 original size:82 final size:81
Alignment explanation
Indices: 29975368--29975611 Score: 249
Period size: 82 Copynumber: 3.0 Consensus size: 81
29975358 CTTACAAGAG
* ** * *
29975368 TATTTCAGTAATTTTACAAAATCAAGGGTAATTCAGTAATTTTTCAAACTGAGGGTGTTTCAGTA
1 TATTTCAGTAATTTTAC-AAATCAGGGGTAATTTGGTAATTTTTCAAACTAAGGGTATTTCAGTA
29975433 ATTTTACAAATCGAGGA
65 ATTTTACAAATCGAGGA
** * ** * * *
29975450 TATTTGGGTAATTTTATAAATTGGGGGTACTTTGGTAATTTTAC-AAGTCAAGGGTATTTCAGTA
1 TATTTCAGTAATTTTACAAATCAGGGGTAATTTGGTAATTTTTCAAACT-AAGGGTATTTCAGTA
* *
29975514 ATTTTACAAATCAGGGGG
65 ATTTTACAAATC-GAGGA
* * * *
29975532 TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGT-AAACCAAGGGTATTTCAGTA
1 TATTTCAGTAATTTTACAAATCAGGGGTAATTTGGTAATTTT-TCAAACTAAGGGTATTTCAGTA
* *
29975596 ATTTTATAAATTGAGG
65 ATTTTACAAATCGAGG
29975612 GTAAAATGGT
Statistics
Matches: 130, Mismatches: 28, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
80 3 0.02
81 48 0.37
82 77 0.59
83 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
TATTTCAGTAATTTTACAAATCAGGGGTAATTTGGTAATTTTTCAAACTAAGGGTATTTCAGTAA
TTTTACAAATCGAGGA
Found at i:29975478 original size:136 final size:135
Alignment explanation
Indices: 29975336--29975627 Score: 320
Period size: 136 Copynumber: 2.1 Consensus size: 135
29975326 TCTGTCAATC
*
29975336 GAGGGTAAAATGGTAATTCTATCTTA-CAAGAGTATTTCAGTAATTTTACAAAATCA-AGGGTAA
1 GAGGGTAAAATGGTAATTCTA-C-AAGCAAGAGTATTTCAGTAATTTTAC-AAATCAGAGGGTAA
* * * * * **
29975399 TTCAGTAATTTTTCAAA-CTGAGGGTGTTTCAGTAATTTTACAAATCGAGGATATTTGGGTAATT
63 TTCAGTAATTTTACAAACCAG-GGGTATTTCAGTAATTTTACAAACCAAGGATATTTCAGTAATT
29975463 TTATAAATT
127 TTATAAATT
* *** * * * *
29975472 GGGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTTACAAATCAGGGGGTATTT
1 GAGGGTAAAATGGTAATTCTACAAG-CAAGAGTATTTCAGTAATTTTACAAATCAGAGGGTAATT
* ** ** *
29975537 TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTA
65 CAGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTACAAACCAAGGATATTTCAGTAATTTTA
29975602 TAAATT
130 TAAATT
29975608 GAGGGTAAAATGGTAATTCT
1 GAGGGTAAAATGGTAATTCT
29975628 GTAAATCGAA
Statistics
Matches: 125, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
134 1 0.01
135 7 0.06
136 115 0.92
137 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (135 bp):
GAGGGTAAAATGGTAATTCTACAAGCAAGAGTATTTCAGTAATTTTACAAATCAGAGGGTAATTC
AGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTACAAACCAAGGATATTTCAGTAATTTTAT
AAATT
Found at i:29975605 original size:27 final size:27
Alignment explanation
Indices: 29975362--29975606 Score: 215
Period size: 27 Copynumber: 9.0 Consensus size: 27
29975352 TTCTATCTTA
*
29975362 CAAGAGTATTTCAGTAATTTTACAAAAT
1 CAAGGGTATTTCAGTAATTTTAC-AAAT
* *
29975390 CAAGGGTAATTCAGTAATTTTTCAAA-
1 CAAGGGTATTTCAGTAATTTTACAAAT
* *
29975416 CTGAGGGTGTTTCAGTAATTTTACAAAT
1 C-AAGGGTATTTCAGTAATTTTACAAAT
* * ** *
29975444 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTACAAAT
*** * *
29975471 TGGGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCAGTAATTTTACAAAT
29975498 CAAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAAT
* * *
29975525 CAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTCAGTAATTTTACAAAT
* ** ** *
29975553 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTACAAAT
*
29975580 CAAGGGTATTTCAGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTACAAAT
29975607 TGAGGGTAAA
Statistics
Matches: 179, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 127 0.71
28 48 0.27
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTACAAAT
Found at i:29975622 original size:54 final size:54
Alignment explanation
Indices: 29975564--29975735 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 54
29975554 AGGGGTATTT
* ** * *
29975564 TGGTAATTTTGTAAA-CCAAGGGTATTTCAGTAATTTTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCCAA-GGTAAGTCAGTAATTCTATAAATCGAGGGTAAAA
* *
29975618 TGGTAATTCTGTAAATCGAAGGTAAGTCGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCCAAGGTAAGTCAGTAATTCTATAAATCGAGGGTAAAA
* * * ** * *
29975672 TAGTAATTCTATAAAT-CGAGGTTAAAAC-GATAATTCTGTCAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCCAAGG-TAAGTCAG-TAATTCTATAAATCGAGGGTAAAA
29975726 TGGTAATTCT
1 TGGTAATTCT
29975736 ATCTTACAGG
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 4 0.04
54 92 0.93
55 3 0.03
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCCAAGGTAAGTCAGTAATTCTATAAATCGAGGGTAAAA
Found at i:29975623 original size:27 final size:27
Alignment explanation
Indices: 29975593--29975737 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
29975583 GGGTATTTCA
* *
29975593 GTAATTTTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
29975620 GTAATTCTGTAAATCGAAGGT-AAGTCG
1 GTAATTCTATAAATCGAGGGTAAAAT-G
*
29975647 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
29975674 GTAATTCTATAAATCGAGGTTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
29975701 ATAATTCTGTCAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
29975728 GTAATTCTAT
1 GTAATTCTAT
29975738 CTTACAGGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.94
28 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:29977559 original size:78 final size:78
Alignment explanation
Indices: 29977430--29977586 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
29977420 AAGAACATTA
* * *
29977430 AAAACGGACATAGAAATCACTTATAATCAAGGCTTAAAAGTGTTGAAACCCTAGCTATGGTGGAG
1 AAAACGAACATAGAAATCACTTACAATCAAGGCTTAAAAGTGTTGAAACCCTAGCTATGGTAGAG
29977495 AGCAAAATTCAGC
66 AGCAAAATTCAGC
29977508 AAAACGAACATAGAAATCACTTACAATCAAGGCTTAAAAGTGTTGAAACCCTAGCTATGGTAGAG
1 AAAACGAACATAGAAATCACTTACAATCAAGGCTTAAAAGTGTTGAAACCCTAGCTATGGTAGAG
29977573 AGCAAAATTCAGC
66 AGCAAAATTCAGC
29977586 A
1 A
29977587 GCAACTTATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (78 bp):
AAAACGAACATAGAAATCACTTACAATCAAGGCTTAAAAGTGTTGAAACCCTAGCTATGGTAGAG
AGCAAAATTCAGC
Found at i:29981650 original size:15 final size:15
Alignment explanation
Indices: 29981630--29981664 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
29981620 TTCTAATACT
29981630 ATTATTATTTATCTA
1 ATTATTATTTATCTA
29981645 ATTATTATTTATCTA
1 ATTATTATTTATCTA
*
29981660 TTTAT
1 ATTAT
29981665 ATACTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:29982078 original size:3 final size:3
Alignment explanation
Indices: 29982057--29982117 Score: 97
Period size: 3 Copynumber: 20.0 Consensus size: 3
29982047 TAAGCTTTAG
29982057 ATT ACTT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
29982103 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
29982118 TAGACTATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:29987303 original size:11 final size:11
Alignment explanation
Indices: 29987277--29987359 Score: 67
Period size: 11 Copynumber: 7.5 Consensus size: 11
29987267 TAAACTGAAA
29987277 CACCACCATAC
1 CACCACCATAC
* * *
29987288 AACCACAATAT
1 CACCACCATAC
29987299 CACCACCATAC
1 CACCACCATAC
*
29987310 CACCACCATAG
1 CACCACCATAC
* *
29987321 CACCATCGTAC
1 CACCACCATAC
* * **
29987332 CGCCACCCTTG
1 CACCACCATAC
*
29987343 CACCACCATAG
1 CACCACCATAC
29987354 CACCAC
1 CACCAC
29987360 AAAGTTGGTC
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.34, C:0.48, G:0.06, T:0.12
Consensus pattern (11 bp):
CACCACCATAC
Found at i:29987332 original size:22 final size:22
Alignment explanation
Indices: 29987277--29987359 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
29987267 TAAACTGAAA
* * *
29987277 CACCACCATACAACCACAATAT
1 CACCACCATACCACCACCATAG
29987299 CACCACCATACCACCACCATAG
1 CACCACCATACCACCACCATAG
* * * * *
29987321 CACCATCGTACCGCCACCCTTG
1 CACCACCATACCACCACCATAG
*
29987343 CACCACCATAGCACCAC
1 CACCACCATACCACCAC
29987360 AAAGTTGGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.48, G:0.06, T:0.12
Consensus pattern (22 bp):
CACCACCATACCACCACCATAG
Found at i:29987525 original size:43 final size:43
Alignment explanation
Indices: 29987467--29987552 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
29987457 AGGCAACTCA
29987467 TTTTCCTGAGTGCCTTGTTTGATGAGTTTGACCTTGTGACCAT
1 TTTTCCTGAGTGCCTTGTTTGATGAGTTTGACCTTGTGACCAT
29987510 TTTTCCTGAGTGCCTTGTTTGATGAGTTTGACCTTGTGACCAT
1 TTTTCCTGAGTGCCTTGTTTGATGAGTTTGACCTTGTGACCAT
29987553 CCGTGTAACG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (43 bp):
TTTTCCTGAGTGCCTTGTTTGATGAGTTTGACCTTGTGACCAT
Found at i:29988975 original size:93 final size:93
Alignment explanation
Indices: 29988863--29989035 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
29988853 CGCCCATAAG
* *
29988863 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29988928 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29988956 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29989021 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
29989036 CAAACATTCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29989031 original size:46 final size:46
Alignment explanation
Indices: 29988856--29989031 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29988846 TGTAACTCGC
* * *
29988856 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
29988902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
29988952 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
29988995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29989032 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29989050 original size:46 final size:45
Alignment explanation
Indices: 29988864--29989050 Score: 164
Period size: 46 Copynumber: 4.0 Consensus size: 45
29988854 GCCCATAAGC
* * * * * *
29988864 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCTAGT
* *
29988910 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT-AGT
* * * *
29988957 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCTAGT
*
29989003 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATTCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACA-TCTAGT
29989049 GA
1 GA
29989051 CATGTCACTT
Statistics
Matches: 113, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.09
45 4 0.04
46 62 0.55
47 32 0.28
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCTAGT
Found at i:29990503 original size:11 final size:11
Alignment explanation
Indices: 29990477--29990525 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
29990467 TAAACTGAAA
29990477 CACCACCATAC
1 CACCACCATAC
* * *
29990488 AACCACAATAT
1 CACCACCATAC
29990499 CACCACCATAC
1 CACCACCATAC
*
29990510 CACCACCATAG
1 CACCACCATAC
29990521 CACCA
1 CACCA
29990526 TCGTACCGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (11 bp):
CACCACCATAC
Found at i:29990532 original size:22 final size:22
Alignment explanation
Indices: 29990477--29990525 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
29990467 TAAACTGAAA
* * *
29990477 CACCACCATACAACCACAATAT
1 CACCACCATACCACCACCATAG
29990499 CACCACCATACCACCACCATAG
1 CACCACCATACCACCACCATAG
29990521 CACCA
1 CACCA
29990526 TCGTACCGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (22 bp):
CACCACCATACCACCACCATAG
Found at i:30006871 original size:49 final size:49
Alignment explanation
Indices: 30006792--30006920 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
30006782 TTGTAGATAA
* **
30006792 ACTACCACTAATAACACTTTTGTGGACAAGCCACCACTAATATGCAGGTAT
1 ACTACCACTGATAA-A-TTTTGTGGACAAGCCACCACTAATATGCAAATAT
* * * * *
30006843 ATTGCCACTGATAAATTTTGTAGACAAGCCACCACTGATTTGCAAATAT
1 ACTACCACTGATAAATTTTGTGGACAAGCCACCACTAATATGCAAATAT
*
30006892 ACTACCATTGATAAATTTTGTGGACAAGC
1 ACTACCACTGATAAATTTTGTGGACAAGC
30006921 TACCTGTAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 54 0.82
50 1 0.02
51 11 0.17
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (49 bp):
ACTACCACTGATAAATTTTGTGGACAAGCCACCACTAATATGCAAATAT
Found at i:30007808 original size:39 final size:39
Alignment explanation
Indices: 30007765--30007896 Score: 228
Period size: 39 Copynumber: 3.4 Consensus size: 39
30007755 GGTCTTTAAC
* ** *
30007765 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
30007804 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
30007843 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
30007882 CCGGATATATTTCCA
1 CCGGATATATTTCCA
30007897 ATCTCATATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:30016635 original size:39 final size:39
Alignment explanation
Indices: 30016588--30016770 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
30016578 AATGTTCGAG
30016588 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
30016627 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
30016666 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
30016705 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
30016745 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
30016771 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:30024123 original size:38 final size:39
Alignment explanation
Indices: 30024003--30024183 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
30023993 AATGTTCGAG
30024003 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
30024042 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
30024081 TGATATCCGGGCTAAGCCCGAA-GCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** *
30024119 TGATATCCGGG-TAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
30024158 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
30024184 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
37 4 0.03
38 29 0.23
39 78 0.63
40 13 0.10
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:30024168 original size:77 final size:77
Alignment explanation
Indices: 30024009--30024181 Score: 213
Period size: 77 Copynumber: 2.2 Consensus size: 77
30023999 CGAGTGATAT
* *
30024009 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
1 CCGGGCTAAGCCCGAA-GCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
** *
30024074 CGAGTTATGATAT
65 CGAGTTACCATAA
* ** *
30024087 CCGGGCTAAGCCCGAAGCAATTGTGCAAATTGTGATATCCGGG-TAAGTCCCGAAGGCCTTTGTG
1 CCGGGCTAAGCCCGAAGCAATTGTGCAAATTATGATATCCGGGCTAAG-CCCGAAGGCAATTGGG
*
30024151 CGGGTTACCATAA
65 CGAGTTACCATAA
*
30024164 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAG-CCCGAAG
30024182 GCGTTTGAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 4 0.05
77 55 0.67
78 23 0.28
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCAATTGGGC
GAGTTACCATAA
Found at i:30026422 original size:39 final size:39
Alignment explanation
Indices: 30026379--30026508 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
30026369 TCTTTAACCT
* * ** *
30026379 GGATATTTTTACAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
30026418 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
30026457 AGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
30026496 CGATATATTTCCA
1 GGATATATTTCCA
30026509 ATCTCATATA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (39 bp):
GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:30027180 original size:2 final size:2
Alignment explanation
Indices: 30027173--30027201 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30027163 ACAATTTAAC
30027173 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30027202 ACCGAATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:30033355 original size:29 final size:28
Alignment explanation
Indices: 30033242--30033395 Score: 163
Period size: 29 Copynumber: 5.6 Consensus size: 28
30033232 AATTTAAGCC
** ** * *
30033242 CGCACACACAGTGCCATACCTTCGAGCT
1 CGCACACTTAGTGCCATATTTTCCAGCA
* *
30033270 CGCACAC-CAGTGCCGTATTTTCCAGC-
1 CGCACACTTAGTGCCATATTTTCCAGCA
* *
30033296 TGCACACATAGT--CATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
*
30033322 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
30033351 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
30033380 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30033396 ATCTCGTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.11
26 17 0.15
27 18 0.16
28 12 0.11
29 53 0.47
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:30041035 original size:29 final size:29
Alignment explanation
Indices: 30041003--30041163 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
30040993 AATTTAAGCC
* *** *
30041003 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
30041032 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
30041061 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
30041091 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
30041119 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
30041148 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30041164 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:30042651 original size:20 final size:20
Alignment explanation
Indices: 30042626--30042670 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30042616 AGGGACCAAA
* *
30042626 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
30042646 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
30042666 ATGAA
1 ATGAA
30042671 TACACGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30049552 original size:64 final size:63
Alignment explanation
Indices: 30049471--30049654 Score: 167
Period size: 67 Copynumber: 2.8 Consensus size: 63
30049461 AGACATTATG
*
30049471 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACCG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG-AGACAAGAGAGCTA-CGAGATAA
* * * * * *
30049535 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATG-AGACAAGAGAGCTACGAGAT
30049600 AA
62 AA
* * * * *
30049602 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAG-ACAAGAGAGC
30049655 CGAACTATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 18 0.19
67 28 0.29
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAGACAAGAGAGCTACGAGATAA
Found at i:30050748 original size:2 final size:2
Alignment explanation
Indices: 30050741--30050775 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30050731 TCATGACATG
30050741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30050776 GACTAGTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30054887 original size:47 final size:47
Alignment explanation
Indices: 30054833--30055286 Score: 703
Period size: 47 Copynumber: 9.6 Consensus size: 47
30054823 TATTTGAATA
* *
30054833 AATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30054880 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
30054927 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
30054976 AATGCGAAAGTGTATATATGTGATAAGGCCTAATGGACGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30055023 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30055070 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30055119 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
30055166 GATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
30055213 AATGTGAAAGTGTATATATGTGAT-AGGGCTGAGTGGCCAACGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCAATGTGATG
* *
30055260 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30055287 TCCGGAAGGG
Statistics
Matches: 375, Mismatches: 26, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
46 4 0.01
47 279 0.74
48 2 0.01
49 90 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:30054960 original size:96 final size:94
Alignment explanation
Indices: 30054833--30055286 Score: 703
Period size: 96 Copynumber: 4.8 Consensus size: 94
30054823 TATTTGAATA
* *
30054833 AATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
30054898 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
*
30054927 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGCGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
30054992 TATGTGATAAGGCCTAATGGACGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
30055023 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
30055088 TATGTGATAAGGCCTAATGGCCAACGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
30055119 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
30055184 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * *
30055213 AATGTGAAAGTGTATATATGTGAT-AGGGCTGAGTGGCCAACGCGATGGATGTGAAAGTGTATAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTGTATAT
30055277 ATGTGATAAG
65 ATGTGATAAG
30055287 TCCGGAAGGG
Statistics
Matches: 333, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
93 5 0.02
94 152 0.46
96 176 0.53
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:30054995 original size:143 final size:143
Alignment explanation
Indices: 30054833--30055286 Score: 788
Period size: 143 Copynumber: 3.2 Consensus size: 143
30054823 TATTTGAATA
*
30054833 AATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30054898 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
30054963 GGCCAATGTGATG
131 GGCCAACGTGATG
* *
30054976 AATGCGAAAGTGTATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30055041 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
30055106 GGCCAACGTGATG
131 GGCCAACGTGATG
*
30055119 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
30055184 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGGCTGAG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AA
*
30055246 TGGCCAACGCGATG
130 TGGCCAACGTGATG
* *
30055260 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30055287 TCCGGAAGGG
Statistics
Matches: 298, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
140 5 0.02
141 51 0.17
143 242 0.81
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCAACGTGATG
Found at i:30056767 original size:40 final size:40
Alignment explanation
Indices: 30056712--30057062 Score: 515
Period size: 40 Copynumber: 8.8 Consensus size: 40
30056702 GAGAATTGAG
* * *
30056712 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
30056752 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
30056792 AGTGATGTATCTGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
30056832 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
30056872 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
30056912 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
30056952 AGCGATATATCCAGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
30056992 AGTGATGTAACCGGGCTAAG-TCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
30057031 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
30057063 ATCATGCTGG
Statistics
Matches: 288, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 36 0.12
40 252 0.88
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:30072690 original size:21 final size:21
Alignment explanation
Indices: 30072664--30072704 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
30072654 AGAGATGTGC
30072664 ATTGATGCAAGATGGTAAAGT
1 ATTGATGCAAGATGGTAAAGT
30072685 ATTGATGCAAGATGGTAAAG
1 ATTGATGCAAGATGGTAAAG
30072705 CAGTGGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (21 bp):
ATTGATGCAAGATGGTAAAGT
Found at i:30074800 original size:2 final size:2
Alignment explanation
Indices: 30074793--30074818 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30074783 ACTAGAACAG
30074793 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30074819 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30075625 original size:27 final size:27
Alignment explanation
Indices: 30075595--30075922 Score: 397
Period size: 27 Copynumber: 12.2 Consensus size: 27
30075585 AACACCCTAG
* * *
30075595 GGGTGAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
30075622 GGGTAAAACGGTAATTTTATAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
30075649 GGGTAAAGCAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** **
30075676 -GGTAAAATAGTAATTTTGTAAATTAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
30075702 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** * *
30075729 GGGTAAAACAATAATTCTGTCAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
30075756 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
30075783 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
30075810 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
30075837 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * * **
30075864 GGGTAAAACAGTAATTCTGTTAATTTA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*** *
30075891 GGGTAAAATAATAATTTTGTAATTCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
30075918 GGGTA
1 GGGTA
30075923 CTTTGATAAT
Statistics
Matches: 261, Mismatches: 39, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.08
27 239 0.92
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:30075931 original size:27 final size:26
Alignment explanation
Indices: 30075901--30076044 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 26
30075891 GGGTAAAATA
* *
30075901 ATAATTTTGTAATTCGAGGGTACTTTG
1 ATAATTTTATAAATCGAGGGTA-TTTG
* ** *
30075928 ATAATTTTACATGTCGAGGGTATTTC
1 ATAATTTTATAAATCGAGGGTATTTG
**
30075954 AGTAATTTTGCAAA-CTGAGGGTATTTTG
1 A-TAATTTTATAAATC-GAGGGTA-TTTG
* * *
30075982 GTAATTTTACAAATCGAGGATATTTGG
1 ATAATTTTATAAATCGAGGGTATTT-G
* * *
30076009 GTAATTTTATAAACCGGGGGTACTTTG
1 ATAATTTTATAAATCGAGGGTA-TTTG
*
30076036 GTAATTTTA
1 ATAATTTTA
30076045 CAACTGGTGG
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.08
27 80 0.84
28 7 0.07
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
ATAATTTTATAAATCGAGGGTATTTG
Found at i:30075960 original size:54 final size:53
Alignment explanation
Indices: 30075902--30076075 Score: 181
Period size: 54 Copynumber: 3.2 Consensus size: 53
30075892 GGTAAAATAA
* * **
30075902 TAATTTTGTAATTCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAG
1 TAATTTTGTAA-ACGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAG
* * * **
30075956 TAATTTTGCAAACTGAGGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTGTAAAC-GAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAG
* * *
30076010 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-G-GTGGTATTTCAG
1 TAATTTTGTAAA-CGAGGGTACTTTGGTAATTTTACAAATCGAG-GGTATTTCAG
*
30076063 TAATTTGGTAAAC
1 TAATTTTGTAAAC
30076076 TAAAGTATTC
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
52 2 0.02
53 19 0.19
54 76 0.78
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (53 bp):
TAATTTTGTAAACGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAG
Found at i:30076065 original size:26 final size:25
Alignment explanation
Indices: 30075945--30076068 Score: 88
Period size: 27 Copynumber: 4.7 Consensus size: 25
30075935 TACATGTCGA
* *
30075945 GGGTATTTCAGTAATTTTGCAAACTG
1 GGGTATTTCGGTAATTTTAC-AACTG
* *
30075971 AGGGTATTTTGGTAATTTTACAAATCG
1 -GGGTATTTCGGTAATTTTACAACT-G
* * * *
30075998 AGGATATTTGGGTAATTTTATAAACCGG
1 -GGGTATTTCGGTAATTTTA-CAA-CTG
30076026 GGGTACTTT-GGTAATTTTACAACTG
1 GGGTA-TTTCGGTAATTTTACAACTG
*
30076051 GTGGTATTTCAGTAATTT
1 G-GGTATTTCGGTAATTT
30076069 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
25 6 0.08
26 16 0.21
27 50 0.64
28 6 0.08
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGTATTTCGGTAATTTTACAACTG
Found at i:30078184 original size:27 final size:26
Alignment explanation
Indices: 30078136--30078266 Score: 74
Period size: 27 Copynumber: 5.0 Consensus size: 26
30078126 GCGAGGCTGC
*
30078136 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
30078163 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
30078189 CAGAGATATATATGTGGCGAAGCCA-C----
1 C--AG--ATAT-TGTGACGAAGCCACCAGAA
* *
30078215 CAGATATTGTGACAAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
** *
30078241 CAGATATATGTGGTGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
30078267 TTGCAGCGAG
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
21 10 0.13
22 5 0.06
24 2 0.03
26 10 0.13
27 34 0.43
28 2 0.03
30 5 0.06
31 11 0.14
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30079001 original size:27 final size:27
Alignment explanation
Indices: 30078966--30079269 Score: 365
Period size: 27 Copynumber: 11.2 Consensus size: 27
30078956 TTAACACCCT
* * *
30078966 AGGGATAAAATGGTAATTTTATAAATCT
1 AGGG-TAAAATAGTAATTTTGTAAATCG
* * *
30078994 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTTTGTAAATCG
*
30079021 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
30079048 AGGGTAAAATAGTAATTTTATCAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * *
30079075 AGGGTAAAACAATAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * * *
30079102 AGGGTAAAATGGTAATTCTATAAATAG
1 AGGGTAAAATAGTAATTTTGTAAATCG
*
30079129 AGGGTAAAATAGTAATTTTTTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
** * *
30079156 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTTTGTAAATCG
**
30079183 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
30079210 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
*
30079237 AGGGTAAAATAGTAATTTTGTAATTCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
30079264 AGGGTA
1 AGGGTA
30079270 CTTTGATAAT
Statistics
Matches: 238, Mismatches: 38, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
27 234 0.98
28 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTTTGTAAATCG
Found at i:30079079 original size:81 final size:81
Alignment explanation
Indices: 30078966--30079269 Score: 446
Period size: 81 Copynumber: 3.7 Consensus size: 81
30078956 TTAACACCCT
* *
30078966 AGGGATAAAATGGTAATTTTATAAATCTAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGGG-TAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
*
30079031 AGTAATTTTGTAAATCG
65 GGTAATTTTGTAAATCG
* * * *
30079048 AGGGTAAAATAGTAATTTTATCAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
* * *
30079113 GTAATTCTATAAATAG
66 GTAATTTTGTAAATCG
* *
30079129 AGGGTAAAATAGTAATTTTTTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
1 AGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
30079194 GTAATTTTGTAAATCG
66 GTAATTTTGTAAATCG
* * * * *
30079210 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAATTCGAGGGTA
1 AGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
30079270 CTTTGATAAT
Statistics
Matches: 196, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
81 192 0.98
82 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACG
GTAATTTTGTAAATCG
Found at i:30079279 original size:27 final size:26
Alignment explanation
Indices: 30079032--30079391 Score: 137
Period size: 27 Copynumber: 13.3 Consensus size: 26
30079022 GGGTAAAACA
* ** *
30079032 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGT-ATTTG
* ****
30079059 GTAATTTTATCAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGT-ATTTG
* * * **
30079086 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGT-ATTTG
* * ** *
30079113 GTAATTCTATAAATAGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGT-ATTTG
* ***
30079140 GTAATTTTTTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGT-ATTTG
* * * ***
30079167 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGT-ATTTG
* ** *
30079194 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGT-ATTTG
* ** *
30079221 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGT-ATTTG
* *
30079248 GTAATTTTGTAATTCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTA-TTTG
* * ** *
30079275 ATAATTTTACATGTCGAGGGTATTTCA
1 GTAATTTTATAAATCGAGGGTATTT-G
** *
30079302 GTAATTTTGCAAA-CTGAAGGTATTTTG
1 GTAATTTTATAAATC-GAGGGTA-TTTG
* *
30079329 GTAATTTTACAAATCGAGGATATTTAG
1 GTAATTTTATAAATCGAGGGTATTT-G
*
30079356 GTAATTTTATAAATCGGGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTA-TTTG
30079383 GTAATTTTA
1 GTAATTTTA
30079392 CAACTGGGGG
Statistics
Matches: 275, Mismatches: 51, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.03
27 260 0.95
28 7 0.03
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (26 bp):
GTAATTTTATAAATCGAGGGTATTTG
Found at i:30079292 original size:54 final size:54
Alignment explanation
Indices: 30078966--30079394 Score: 335
Period size: 54 Copynumber: 7.9 Consensus size: 54
30078956 TTAACACCCT
* * * ** * ** *
30078966 AGGGATAAAATGGTAATTTTATAAATCTAGGGTAAAACAGTAATTCTGTAAATCA
1 AGGG-TAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
* *
30079021 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATC-AATCG
1 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTA-CAAATCG
* * * * * *
30079075 AGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATAG
1 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
* * * ** *
30079129 AGGGTAAAATAGTAATTTTTTAAATCGAGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
** * * *
30079183 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
* *** * **
30079237 AGGGTAAAATAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACATGTCG
1 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
** * * ***
30079291 AGGGT-ATTTCAGTAATTTTGCAAA-CTGAAGGTATTTTGGTAATTTTACAAATCG
1 AGGGTAAAAT-AGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTTTACAAATCG
* ** * * ***
30079345 AGGAT-ATTTAGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAA
1 AGGGTAAAATA-GTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAA
30079395 CTGGGGGTAT
Statistics
Matches: 311, Mismatches: 57, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.01
54 302 0.97
55 5 0.02
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (54 bp):
AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACAAATCG
Found at i:30079412 original size:26 final size:26
Alignment explanation
Indices: 30079194--30079415 Score: 135
Period size: 27 Copynumber: 8.3 Consensus size: 26
30079184 GGGTAAAACG
** **
30079194 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTACAAATCGAGGGT-ATTTA
* * **
30079221 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTACAAATCGAGGGT-ATTTA
** *
30079248 GTAATTTTGTAATTCGAGGGTACTTT-
1 GTAATTTTACAAATCGAGGGTA-TTTA
**
30079274 GATAATTTTACATGTCGAGGGTATTTCA
1 G-TAATTTTACAAATCGAGGGTATTT-A
* * *
30079302 GTAATTTTGCAAA-CTGAAGGTATTTTG
1 GTAATTTTACAAATC-GAGGGTA-TTTA
*
30079329 GTAATTTTACAAATCGAGGATATTTA
1 GTAATTTTACAAATCGAGGGTATTTA
* * *
30079355 GGTAATTTTATAAATCGGGGGTACTTTG
1 -GTAATTTTACAAATCGAGGGTA-TTTA
* *
30079383 GTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTT-A
30079409 GTAATTT
1 GTAATTT
30079416 GGTAAACTAA
Statistics
Matches: 158, Mismatches: 27, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
25 3 0.02
26 23 0.15
27 124 0.78
28 8 0.05
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAAATCGAGGGTATTTA
Found at i:30094148 original size:44 final size:43
Alignment explanation
Indices: 30094100--30094256 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
30094090 TGTGATATCG
*
30094100 TGTAAGACCATGTCTGGGACGTTGGCATCGACT-TTTGTTTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TATTTG-TTTACA
* * *
30094144 TGTAAGACCATGTTTGGGACATTGGCATCG-TATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTG-TTTACA
* * * * *
30094186 TGTAAGACCCTGTCTGGGATAG-TGGCATCAATGTTTGATTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGTTTACA
* *
30094229 TGTAAGACCACGTCTGGAACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
30094257 TGTTTATGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 28 0.31
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGTTTACA
Found at i:30094236 original size:43 final size:41
Alignment explanation
Indices: 30094100--30094245 Score: 123
Period size: 42 Copynumber: 3.4 Consensus size: 41
30094090 TGTGATATCG
* * * *
30094100 TGTAAGACCATGTCTGGGACGTTGGCATCGACTTTTGTTTTACG
1 TGTAAGACCATGTCTGGGAAG-TGGCATC-AATTTTG-ATTACA
* * * * *
30094144 TGTAAGACCATGTTTGGGACATTGGCATC-GTATCTGATTTCA
1 TGTAAGACCATGTCTGGGA-AGTGGCATCAAT-TTTGATTACA
*
30094186 TGTAAGACCCTGTCTGGGATAGTGGCATCAATGTTTGATTACA
1 TGTAAGACCATGTCTGGGA-AGTGGCATCAAT-TTTGATTACA
*
30094229 TGTAAGACCACGTCTGG
1 TGTAAGACCATGTCTGG
30094246 AACGTTGGCA
Statistics
Matches: 81, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 29 0.36
43 27 0.33
44 25 0.31
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGAAGTGGCATCAATTTTGATTACA
Found at i:30096715 original size:66 final size:65
Alignment explanation
Indices: 30096588--30096715 Score: 152
Period size: 66 Copynumber: 1.9 Consensus size: 65
30096578 GGGATGTATC
*
30096588 CCATGTAGACAAGAAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATAGTGATTCCAAGTGAAG
1 CCATGTAGACAAGAAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATAGTGATACCAAGTGAAG
30096653 GACA
62 GACA
* *
30096657 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGA-AGCTACGGAGATAAAT-GAGCTAGGTCGCAT-AGTGATACCAAGTG
30096716 TTCACCATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
65 12 0.23
66 20 0.38
67 1 0.02
69 14 0.26
70 6 0.11
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.20
Consensus pattern (65 bp):
CCATGTAGACAAGAAGCTACGGAGATAAATGAGCTAGGTCGCATAGTGATACCAAGTGAAGGACA
Found at i:30098749 original size:44 final size:44
Alignment explanation
Indices: 30098701--30098790 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
30098691 TGGCAGAGTA
*
30098701 TGAATGCGAATTTGTAAGACTCAGCAAGTATGCCCAGGAATGTG
1 TGAATGCGAATTTGTAAGACTCAGCAAGTATGCCCAAGAATGTG
30098745 TGAATGCGAATTTGTAAGACTCAGCAAGTATGCCCAAGAATGTG
1 TGAATGCGAATTTGTAAGACTCAGCAAGTATGCCCAAGAATGTG
30098789 TG
1 TG
30098791 TCCACCGAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
TGAATGCGAATTTGTAAGACTCAGCAAGTATGCCCAAGAATGTG
Found at i:30104679 original size:40 final size:40
Alignment explanation
Indices: 30104635--30104744 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
30104625 TTCACAATTT
* *
30104635 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
30104675 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
30104715 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
30104745 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:30112253 original size:25 final size:26
Alignment explanation
Indices: 30112212--30112268 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
30112202 CCTTCATATT
* *
30112212 TTTCTTATGAGTGTTGT-TCTGGGAC
1 TTTCTTATGAGTATTGTATCTGGGAA
*
30112237 TTTCATTATGA-TATTGTATCTTGGAA
1 TTTC-TTATGAGTATTGTATCTGGGAA
30112263 TTTCTT
1 TTTCTT
30112269 TATCTTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.18, C:0.11, G:0.19, T:0.53
Consensus pattern (26 bp):
TTTCTTATGAGTATTGTATCTGGGAA
Found at i:30112274 original size:16 final size:15
Alignment explanation
Indices: 30112253--30112311 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
30112243 TATGATATTG
30112253 TATCTTGGAATTTCTT
1 TATCTTGG-ATTTCTT
*
30112269 TATCTTAGATTTCTT
1 TATCTTGGATTTCTT
* * *
30112284 TGTCCTGGACTTCTT
1 TATCTTGGATTTCTT
*
30112299 TATCTTGGTTTTC
1 TATCTTGGATTTC
30112312 ATGTCATCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
15 27 0.79
16 7 0.21
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:30113539 original size:28 final size:28
Alignment explanation
Indices: 30113508--30113567 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
30113498 ACTCAAATCT
30113508 TTTAGCTCTGCTTTATA-AGAGCTCTCTG
1 TTTAGCTCTGCTTTATACA-AGCTCTCTG
* * *
30113536 TTTAGCTTTGCTTTGTACAAGTTCTCTG
1 TTTAGCTCTGCTTTATACAAGCTCTCTG
30113564 TTTA
1 TTTA
30113568 AATCTCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (28 bp):
TTTAGCTCTGCTTTATACAAGCTCTCTG
Found at i:30118304 original size:22 final size:22
Alignment explanation
Indices: 30118276--30118319 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30118266 AAATAAATGA
30118276 AAAATGTGGGCTACTAGGGACC
1 AAAATGTGGGCTACTAGGGACC
30118298 AAAATGTGGGCTACTAGGGACC
1 AAAATGTGGGCTACTAGGGACC
30118320 TAATTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (22 bp):
AAAATGTGGGCTACTAGGGACC
Found at i:30119536 original size:13 final size:13
Alignment explanation
Indices: 30119514--30119552 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30119504 ATCCTGGAAT
*
30119514 ATTAAAAACAAGA
1 ATTAAGAACAAGA
*
30119527 ATTAAGAACACATA
1 ATTAAGAACA-AGA
30119541 ATTAAGAACAAG
1 ATTAAGAACAAG
30119553 TCAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:30123904 original size:12 final size:12
Alignment explanation
Indices: 30123887--30123912 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30123877 GGCATGTTAG
30123887 TGCACACGGCCA
1 TGCACACGGCCA
30123899 TGCACACGGCCA
1 TGCACACGGCCA
30123911 TG
1 TG
30123913 TCTTGCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (12 bp):
TGCACACGGCCA
Found at i:30127812 original size:13 final size:13
Alignment explanation
Indices: 30127790--30127828 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30127780 ATCCTGGAAT
*
30127790 ATTAAAAACAAGA
1 ATTAAGAACAAGA
*
30127803 ATTAAGAACACATA
1 ATTAAGAACA-AGA
30127817 ATTAAGAACAAG
1 ATTAAGAACAAG
30127829 TCAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:30131294 original size:48 final size:48
Alignment explanation
Indices: 30131214--30131376 Score: 191
Period size: 48 Copynumber: 3.4 Consensus size: 48
30131204 TAGCCCAGCT
* * * *
30131214 ATGGTCTTACATGATGTTCTCATATCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACAT-AGGATCACATATCGATGCCAATGCCATGTCCCAAAA
* * * *
30131263 ATGGTCTTGCATGGGATCACATAACGATGCCAATGCCATGTCCTAAAA
1 ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAAAA
* * * *
30131311 ATGGTCTTACATAGGATCAAATATCGATGCCAATGCCATATCCCAGAT
1 ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAAAA
* *
30131359 ATGGTCTTATACAGGATC
1 ATGGTCTTACATAGGATC
30131377 TCATCAACCC
Statistics
Matches: 96, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 85 0.89
49 11 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAAAA
Done.