Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 86 of 213
Found at i:23603947 original size:29 final size:28
Alignment explanation
Indices: 23603892--23603947 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
23603882 AATTTTAAGA
* *
23603892 TTTGATTTAAATATTTTTTTATTTAGTC
1 TTTGATTTAAATATTTTTTAATATAGTC
* *
23603920 TTTGTTTTCAATATTTTTTAAATATAGT
1 TTTGATTTAAATATTTTTT-AATATAGT
23603948 TTACATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTGATTTAAATATTTTTTAATATAGTC
Found at i:23604562 original size:35 final size:32
Alignment explanation
Indices: 23604510--23604584 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
23604500 TAAACAATAA
* * *
23604510 TTTTCTTTTAATTTTTAAAAAATATATTTATATT
1 TTTTATTTTAATATTTAAAAAAT-T-TATATATT
*
23604544 GTTTTATTTTAATATTTAATAAATTTATATATT
1 -TTTTATTTTAATATTTAAAAAATTTATATATT
23604577 TTTTATTT
1 TTTTATTT
23604585 ATTGAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.22
33 7 0.19
34 1 0.03
35 20 0.56
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTATTTTAATATTTAAAAAATTTATATATT
Found at i:23612179 original size:87 final size:86
Alignment explanation
Indices: 23612024--23612185 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 86
23612014 TGTGTAAGGA
* * * **
23612024 TGAGTTTTTACTCTTAATGAATTCATAGCCCATAATTTGGGTGGTCCTATTGAGATGGGCTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGAACTTAAT
23612089 GAATTCACATGATTGAGAGGT
66 GAATTCACATGATTGAGAGGT
* * ** **
23612110 TGAGTTTATTACTCTTAATGAGTTCATAACCTAAAATTTGGGTGGTTTTATTGAGACGAACTTGG
1 TGAGTTT-TTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGAACTTAA
23612175 TGAATTCACAT
65 TGAATTCACAT
23612186 AACTTAAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
86 7 0.11
87 57 0.89
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGAACTTAAT
GAATTCACATGATTGAGAGGT
Found at i:23615505 original size:16 final size:16
Alignment explanation
Indices: 23615480--23615513 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23615470 TATGTTTTGC
* *
23615480 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
23615496 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
23615512 TT
1 TT
23615514 CATCCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:23626611 original size:132 final size:132
Alignment explanation
Indices: 23626126--23626593 Score: 722
Period size: 132 Copynumber: 3.5 Consensus size: 132
23626116 AGAATAAACC
* * ***
23626126 GTTGAAGATTACAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
* * *
23626191 CTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAATCCTATCTCCCTGAACAGCAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
23626256 AG
131 AG
* *
23626258 GTTGAAGATTGCAGATTCTGTCTCCCTAAACAGTAGTGGAGCAGATCGAAAATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
* * *
23626323 CTTCCCAAGATAGTGGAGAAGCATATTTAAGCCATTAGTCTTATCTCTCTGAGCAGCAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
23626388 AG
131 AG
* ** *
23626390 GTTTAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATAAAAAATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
* *
23626455 CTTCCCAAGATAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCTCCCTGAGCAACAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
23626520 AG
131 AG
* * *
23626522 GTTGAAGATTGCAGA-TCTTGTCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGTGAATCTTA
1 GTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTA
23626586 TCTTCCCA
65 TCTTCCCA
23626594 TCGTAGTAGG
Statistics
Matches: 306, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
131 2 0.01
132 304 0.99
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
AG
Found at i:23630132 original size:20 final size:19
Alignment explanation
Indices: 23630073--23630134 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
23630063 ATTGTAAATG
23630073 ATTTATCAATATTTATAAGA
1 ATTTATCAATATTTAT-AGA
*
23630093 ATTTA-C---ATTTATAAA
1 ATTTATCAATATTTATAGA
23630108 GATTTATCAATATTTATATGA
1 -ATTTATCAATATTTATA-GA
23630129 ATTTAT
1 ATTTAT
23630135 TAAAATTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 2 0.06
16 11 0.32
17 1 0.03
19 1 0.03
20 18 0.53
21 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (19 bp):
ATTTATCAATATTTATAGA
Found at i:23638005 original size:8 final size:8
Alignment explanation
Indices: 23637992--23638023 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
23637982 TTATATACTA
23637992 AATAAAAT
1 AATAAAAT
23638000 AATAAAAT
1 AATAAAAT
23638008 AAT-AAA-
1 AATAAAAT
23638014 AATAAAAT
1 AATAAAAT
23638022 AA
1 AA
23638024 AAATAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.14
7 6 0.27
8 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AATAAAAT
Found at i:23638017 original size:17 final size:17
Alignment explanation
Indices: 23637991--23638031 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23637981 CTTATATACT
23637991 AAAT-AAAATAATAA-AA
1 AAATAAAAATAA-AATAA
*
23638007 TAATAAAAATAAAATAA
1 AAATAAAAATAAAATAA
23638024 AAATAAAA
1 AAATAAAA
23638032 TATCTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:23638022 original size:11 final size:11
Alignment explanation
Indices: 23637991--23638033 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
23637981 CTTATATACT
23637991 AAATAAAATAA
1 AAATAAAATAA
*
23638002 TAAA-ATAATAA
1 -AAATAAAATAA
23638013 AAATAAAATAA
1 AAATAAAATAA
23638024 AAATAAAATA
1 AAATAAAATA
23638034 TCTCATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.11
11 22 0.79
12 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:23638056 original size:11 final size:11
Alignment explanation
Indices: 23637992--23638060 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
23637982 TTATATACTA
23637992 AATAAAATAAT
1 AATAAAATAAT
*
23638003 AA-AATAATAAA
1 AATAA-AATAAT
*
23638014 AATAAAATAAA
1 AATAAAATAAT
*
23638025 AATAAAATATCT
1 AATAAAATA-AT
* *
23638037 CATTAAAATATT
1 -AATAAAATAAT
23638049 AATAAAATAAT
1 AATAAAATAAT
23638060 A
1 A
23638061 TTTATCTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 2 0.04
11 34 0.72
12 3 0.06
13 8 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:23640277 original size:51 final size:51
Alignment explanation
Indices: 23640212--23640309 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
23640202 TACCATCCAT
* *
23640212 AAACACACCTAGGCACTGAGTG-TCAAGCCCGCAGGCTTCACATCCCTATAG
1 AAACAAACCTAGGCACTGAGTGCT-AAGCCCGCAGGCTACACATCCCTATAG
* *
23640263 AAACAAACCTAGGCACTGAGTGCTAAGCCTGTAGGCTACACATCCCT
1 AAACAAACCTAGGCACTGAGTGCTAAGCCCGCAGGCTACACATCCCT
23640310 CCAGAACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (51 bp):
AAACAAACCTAGGCACTGAGTGCTAAGCCCGCAGGCTACACATCCCTATAG
Found at i:23650087 original size:23 final size:23
Alignment explanation
Indices: 23650061--23650136 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
23650051 ATAAGTGCAA
23650061 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23650084 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23650107 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23650130 CACTGAT
1 CACTGAT
23650137 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23650382 original size:17 final size:18
Alignment explanation
Indices: 23650360--23650396 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
23650350 CAATTTTCCT
23650360 TTCACAT-T-AAATATTAA
1 TTCACATATCAAATA-TAA
23650377 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
23650395 TT
1 TT
23650397 AACAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:23650789 original size:18 final size:17
Alignment explanation
Indices: 23650747--23650789 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23650737 TAACTTTATG
*
23650747 CACATTTTACCATTTTT
1 CACATTTAACCATTTTT
*
23650764 CACAATTTAACCCTTTTT
1 CAC-ATTTAACCATTTTT
23650782 CAACATTT
1 C-ACATTT
23650790 TCATTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 17 0.77
19 2 0.09
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (17 bp):
CACATTTAACCATTTTT
Found at i:23662686 original size:35 final size:35
Alignment explanation
Indices: 23662646--23662714 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
23662636 AAAAGAAGTG
23662646 GAAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAAAT
1 GAAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAAAT
23662681 GAAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAAA
1 GAAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAAA
23662715 CGTAAAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (35 bp):
GAAAAAGAAAAGGGAAGGGGAAGAAGAAGAAAAAT
Found at i:23662695 original size:29 final size:28
Alignment explanation
Indices: 23662646--23662714 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
23662636 AAAAGAAGTG
* * *
23662646 GAAAAAGAAAAGGGAAGGGGAAGAAGAA
1 GAAAAAGAAAAAGAAAAGGGAAGAAGAA
**
23662674 GAAAAATGAAAAAGAAAAGGGAAGGGGAA
1 GAAAAA-GAAAAAGAAAAGGGAAGAAGAA
*
23662703 GAAGAAGAAAAA
1 GAAAAAGAAAAA
23662715 CGTAAAGAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (28 bp):
GAAAAAGAAAAAGAAAAGGGAAGAAGAA
Found at i:23674850 original size:9 final size:9
Alignment explanation
Indices: 23674825--23674867 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
23674815 GTTTCCTTAA
23674825 AAATAGAAAT
1 AAATA-AAAT
23674835 AAAATAAAAT
1 -AAATAAAAT
*
23674845 AAATAAAAC
1 AAATAAAAT
23674854 AAATAAAAAT
1 AAAT-AAAAT
23674864 AAAT
1 AAAT
23674868 GTCTAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 12 0.41
10 12 0.41
11 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:23674850 original size:14 final size:15
Alignment explanation
Indices: 23674825--23674866 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
23674815 GTTTCCTTAA
* *
23674825 AAATAGAAATAAAAT
1 AAATAAAAATAAAAC
*
23674840 AAA-ATAAATAAAAC
1 AAATAAAAATAAAAC
23674854 AAATAAAAATAAA
1 AAATAAAAATAAA
23674867 TGTCTAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAC
Found at i:23677819 original size:85 final size:83
Alignment explanation
Indices: 23677678--23677847 Score: 232
Period size: 85 Copynumber: 2.0 Consensus size: 83
23677668 GGCCCACATG
* * * * *
23677678 GCCTGACACACGGTCAATACATGCTCGTGTGGCCTACATGCCCAACTAGCCCAGACCGTGTGTCT
1 GCCTGACAAACGGTCAACACAAGCTCGTATGGCCTACATGCCCAACTAGCCCAGACCGTATGTCT
23677743 CACACGGTCCAACACACA
66 CACACGGTCCAACACACA
* * * *
23677761 GCCTGGCAAACGGTCACACACAAGCTCGTATGGCCTATATGACCCAACTAGCCTAGACCTTATGT
1 GCCTGACAAACGGTCA-ACACAAGCTCGTATGGCCTACATG-CCCAACTAGCCCAGACCGTATGT
*
23677826 CTCACACGGTCTAACACACA
64 CTCACACGGTCCAACACACA
23677846 GC
1 GC
23677848 TAGTCACACT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
83 14 0.19
84 20 0.27
85 41 0.55
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.19
Consensus pattern (83 bp):
GCCTGACAAACGGTCAACACAAGCTCGTATGGCCTACATGCCCAACTAGCCCAGACCGTATGTCT
CACACGGTCCAACACACA
Found at i:23678509 original size:4 final size:5
Alignment explanation
Indices: 23678474--23678515 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
23678464 AGAAGAAAAG
* *
23678474 AAATA AAACA AAATA ATATGA AAATA AAAT- AAATA AAATA AA
1 AAATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AA
23678516 GAATAAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:23678628 original size:51 final size:51
Alignment explanation
Indices: 23678569--23678672 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
23678559 AAATTAAAAA
23678569 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
1 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
23678620 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
1 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
23678671 GA
1 GA
23678673 TTTGATTCTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.59, C:0.17, G:0.09, T:0.15
Consensus pattern (51 bp):
GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
Found at i:23679875 original size:15 final size:16
Alignment explanation
Indices: 23679855--23679892 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23679845 CGTTGATTTA
23679855 TTTATTTCTA-GTTAT
1 TTTATTTCTATGTTAT
*
23679870 TTTATTT-TATTTTAT
1 TTTATTTCTATGTTAT
23679885 TTTATTTC
1 TTTATTTC
23679893 ATTTCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTCTATGTTAT
Found at i:23679904 original size:5 final size:5
Alignment explanation
Indices: 23679866--23679901 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
23679856 TTATTTCTAG
* *
23679866 TTATT TTATT TTATT TTATT TTATT TCATT TCATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
23679902 CATAATACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:23693302 original size:13 final size:12
Alignment explanation
Indices: 23693284--23693320 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
23693274 AAAAAACCAT
23693284 AAAAGTTATAAA
1 AAAAGTTATAAA
23693296 CAAAAGTTAT-AA
1 -AAAAGTTATAAA
23693308 AAAAGTTATAAA
1 AAAAGTTATAAA
23693320 A
1 A
23693321 CTTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.39
12 5 0.22
13 9 0.39
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAGTTATAAA
Found at i:23696668 original size:17 final size:19
Alignment explanation
Indices: 23696643--23696683 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
23696633 CTTTATTTCT
23696643 TTTTCTTTTA-ATAC-TTA
1 TTTTCTTTTATATACTTTA
*
23696660 TTTTGTTTTATTATACTTTA
1 TTTTCTTTTA-TATACTTTA
23696680 TTTT
1 TTTT
23696684 ATTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTCTTTTATATACTTTA
Found at i:23697127 original size:48 final size:48
Alignment explanation
Indices: 23697056--23697157 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
23697046 CAAGATGCAA
23697056 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
1 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
*
23697104 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATCTGATTATT
1 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
23697152 -ATTTTT
1 AATTTTT
23697158 CATTGTTCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 6 0.11
48 47 0.89
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (48 bp):
AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
Found at i:23703719 original size:7 final size:7
Alignment explanation
Indices: 23703707--23703750 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
23703697 GAATCAAACC
23703707 CAGCAGG
1 CAGCAGG
23703714 CAGCAGG
1 CAGCAGG
23703721 CAGCAGG
1 CAGCAGG
23703728 CAGCAGG
1 CAGCAGG
23703735 CAGCAGG
1 CAGCAGG
23703742 CAGCAGG
1 CAGCAGG
23703749 CA
1 CA
23703751 AAGATAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.41, T:0.00
Consensus pattern (7 bp):
CAGCAGG
Found at i:23711151 original size:57 final size:57
Alignment explanation
Indices: 23711088--23711249 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 57
23711078 TTTTTCAGGT
* *
23711088 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTTCAAATGATT-CAATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTT-TC
* * * * *
23711145 TATTTTCATTTTTATTTTGGTGAAAATCATAATCATTTTCAAATGATTCCAATTTTT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
* * * * * *
23711202 TATTTTTATTTTCATTTTGAAGAAAATCATAATAATTTCCAAATGATT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATT
23711250 TCTCATTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 85 0.93
58 6 0.07
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
Found at i:23716614 original size:26 final size:26
Alignment explanation
Indices: 23716564--23716647 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 26
23716554 GAGTTAATAA
23716564 AATT-CTCTTTGAGTTTTTCTTTTAAAG
1 AATTCCTC-TTGAG-TTTTCTTTTAAAG
*
23716591 AATTCCTCTTGAGTTTTCTTTTAAAA
1 AATTCCTCTTGAGTTTTCTTTTAAAG
*
23716617 AATTCCTCTTAAGTTTTCTTTTAGAAG
1 AATTCCTCTTGAGTTTTCTTTTA-AAG
23716644 AATT
1 AATT
23716648 TTAATAATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 34 0.65
27 15 0.29
28 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (26 bp):
AATTCCTCTTGAGTTTTCTTTTAAAG
Found at i:23718371 original size:208 final size:208
Alignment explanation
Indices: 23717754--23718373 Score: 983
Period size: 208 Copynumber: 3.0 Consensus size: 208
23717744 TTGTTATCAT
* *
23717754 TTTAA-TTCATTATATTATATTTCATCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
*
23717818 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTTGT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
*
23717883 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGCCTCATTTTATC
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
* *
23717948 AACAAAAACCATA
196 AACAAAAGCCACA
* * * * * *
23717961 TTTCAGTTCGTTATATTACATTTCACTATCTTAACCATTTAAGCATGATAATATATCCTAACTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
* *
23718026 CAAATTTCTAATACCCACATAAATGCTACAATTGGTCTTAATAACTTAATTTAACCCATTTTCGT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23718091 TATTTCATAAGATTAAGCCACATAGAGTAAATATGCACCTTTACTGAGTTTTGTCT-ATTTTTAT
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCA-TTTTAT
23718155 CAACAAAAGCCACA
195 CAACAAAAGCCACA
* * * *
23718169 TTTAAGTTCGTTATATTATGTTTCACCATCTTAATAATTTAAACATAATAATATATCATACCTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
* * * *
23718234 AAAATTTCTAATACCCGCATAAATGCTACATTTAGTCTTAATAACTTAATTTAACCAATTTTCCT
66 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23718299 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACATTTATTGAGTTTTGTCTCATTTTATC
131 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
23718364 AACAAAAGCC
196 AACAAAAGCC
23718374 TTATTGTTCA
Statistics
Matches: 374, Mismatches: 36, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
207 5 0.01
208 368 0.98
209 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (208 bp):
TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
AACAAAAGCCACA
Found at i:23718670 original size:84 final size:84
Alignment explanation
Indices: 23718556--23718717 Score: 297
Period size: 84 Copynumber: 1.9 Consensus size: 84
23718546 AGCTTTTAGG
* *
23718556 TTTTTCTCTTAAATATGCAATAAATATCAATAATAAATGCTCAACTTCTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23718621 CTTAAATAAATATTTCAGA
66 CTTAAATAAATATTTCAGA
*
23718640 TTTTTCTCTTAAATATACAATAAATGTCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23718705 CTTAAATAAATAT
66 CTTAAATAAATAT
23718718 GATGAGATGA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.36
Consensus pattern (84 bp):
TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
CTTAAATAAATATTTCAGA
Found at i:23719158 original size:28 final size:28
Alignment explanation
Indices: 23719126--23719182 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23719116 AAATTTGAAG
23719126 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23719154 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23719182 A
1 A
23719183 TATTGTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (28 bp):
AAAAAATCTAAAGAATATGGAATTAGTT
Found at i:23723256 original size:35 final size:35
Alignment explanation
Indices: 23723217--23723328 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
23723207 GACGTGTTTT
*
23723217 GGTTGGATTAGCTCTTGTGAGCATTGGCGTGTTAC
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
* * * * *
23723252 GGTTGGACTAGCTCTTATAAGCACTGGCATGTTTC
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
* * * *
23723287 GATTGGATTAACTCTTATGAGCATCGGCGTGTTAT
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
23723322 GGTTGGA
1 GGTTGGA
23723329 CTGACAACGT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (35 bp):
GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
Found at i:23724201 original size:12 final size:12
Alignment explanation
Indices: 23724184--23724213 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23724174 TCAGACAGTT
23724184 ACACGGCCTAGC
1 ACACGGCCTAGC
*
23724196 ACACGGCCTGGC
1 ACACGGCCTAGC
23724208 ACACGG
1 ACACGG
23724214 GCATGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:23725125 original size:21 final size:19
Alignment explanation
Indices: 23725101--23725160 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
23725091 AACATAAATA
*
23725101 AATTTTCTAAAAGTTTTTATG
1 AATTTTTTAAAA-TTTTT-TG
*
23725122 AATTTGTTTACAATTTTTTG
1 AATTT-TTTAAAATTTTTTG
23725142 -ATTTTTTAAAATATTTTTG
1 AATTTTTTAAAAT-TTTTTG
23725161 TGAATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.21
19 10 0.29
20 2 0.06
21 10 0.29
22 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
AATTTTTTAAAATTTTTTG
Found at i:23729100 original size:9 final size:9
Alignment explanation
Indices: 23729083--23729119 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23729073 TGAGTTTTCG
23729083 AATTCGAAT
1 AATTCGAAT
*
23729092 AACTCGAAT
1 AATTCGAAT
23729101 AATTCGAAT
1 AATTCGAAT
23729110 AATTCGAAT
1 AATTCGAAT
23729119 A
1 A
23729120 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23729364 original size:29 final size:31
Alignment explanation
Indices: 23729332--23729390 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
23729322 AAACCTTTTA
23729332 TTTTCCCCCAAAA-TTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
23729361 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
23729391 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 9 0.35
31 5 0.19
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:23730043 original size:5 final size:5
Alignment explanation
Indices: 23730033--23730063 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
23730023 GAACAAATAT
23730033 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
23730064 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:23740035 original size:45 final size:45
Alignment explanation
Indices: 23740011--23740176 Score: 289
Period size: 45 Copynumber: 3.7 Consensus size: 45
23740001 TTCGACATGA
23740011 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
*
23740056 TGCCATAGTGTCTTTCAACTATGGTTTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
* *
23740101 TGTCATATTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
*
23740146 TGCCAT-GTGTCTTTCAAATATGGTCTTATTC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTC
23740177 GTTTTTCAAG
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 23 0.20
45 91 0.80
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.45
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
Found at i:23740047 original size:21 final size:21
Alignment explanation
Indices: 23740023--23740137 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
23740013 CCATAGTGTC
23740023 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** * *
23740044 TTTCCGGTATAGTGCCATAGTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
*
23740068 TTTCAACTATGGTTTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** *
23740089 TTTCCGGTATAGTGTCATATTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
23740113 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
23740134 TTTC
1 TTTC
23740138 CGGTATAGTG
Statistics
Matches: 64, Mismatches: 20, Indels: 20
0.62 0.19 0.19
Matches are distributed among these distances:
20 4 0.06
21 20 0.31
22 10 0.16
23 10 0.16
24 16 0.25
25 4 0.06
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:23745418 original size:35 final size:35
Alignment explanation
Indices: 23745367--23745517 Score: 185
Period size: 35 Copynumber: 4.3 Consensus size: 35
23745357 TGGTGCATTT
23745367 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * *
23745402 AGGTTGTATTAACTCTTATGAGCATTGGCGTATTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * * * *
23745437 CGATTGGACTAGCTCTTATAAGCACTGACGTGTTT
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
**
23745472 CGGTTGGATTAGCTCTTATGAGCATCAGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
*
23745507 TGGTTGGATTA
1 CGGTTGGATTA
23745518 ACAATGTACT
Statistics
Matches: 93, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (35 bp):
CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
Found at i:23752868 original size:35 final size:35
Alignment explanation
Indices: 23752804--23752999 Score: 196
Period size: 35 Copynumber: 5.6 Consensus size: 35
23752794 TACTCTCTGT
* * * *
23752804 TTGGCGTGTTTCGGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23752839 TTGGTGTGTTATGATTGGACTAAG-CCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACT-AGCCCTTATGAGCA
23752874 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23752909 TTTGCATGTTACGGTTGGACTAGCCCTTATGAACA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
** * * * **
23752944 TTGGAATGTTTCGGTTAGATTAGCTGTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23752979 TCGACGTGTTATGGTTGGACT
1 TTGGCGTGTTACGGTTGGACT
23753000 GATGATGTAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
34 2 0.02
35 126 0.97
36 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.37
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
Found at i:23752989 original size:70 final size:69
Alignment explanation
Indices: 23752810--23752999 Score: 220
Period size: 70 Copynumber: 2.7 Consensus size: 69
23752800 CTGTTTGGCG
* * *
23752810 TGTTTCGGTTAGATTAGCTCTTATGAGCATTGGTGTGTTATGATTGGACTAAGCCTTATGAGCAT
1 TGTTTCGGTTAGATTAGCTCTTATGAGCATT-GCGTGTTATGGTTGGACTAAGCCTTATGAACAT
**
23752875 TGGCG
65 TGGAA
* * * * * *
23752880 TGTTACGGTTGGACTAGCCCTTATGAGCATTTGCATGTTACGGTTGGACT-AGCCCTTATGAACA
1 TGTTTCGGTTAGATTAGCTCTTATGAGCA-TTGCGTGTTATGGTTGGACTAAG-CCTTATGAACA
23752944 TTGGAA
64 TTGGAA
* *
23752950 TGTTTCGGTTAGATTAGCTGTTATGAGCATCGACGTGTTATGGTTGGACT
1 TGTTTCGGTTAGATTAGCTCTTATGAGCATTG-CGTGTTATGGTTGGACT
23753000 GATGATGTAC
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
69 4 0.04
70 92 0.94
71 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (69 bp):
TGTTTCGGTTAGATTAGCTCTTATGAGCATTGCGTGTTATGGTTGGACTAAGCCTTATGAACATT
GGAA
Found at i:23755628 original size:15 final size:15
Alignment explanation
Indices: 23755608--23755639 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23755598 CATTTCACTA
*
23755608 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
23755623 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
23755638 TT
1 TT
23755640 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:23755704 original size:17 final size:17
Alignment explanation
Indices: 23755665--23755698 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23755655 ATTATAGATA
*
23755665 AAATT-AATTTAATATT
1 AAATTAAATTTAATACT
23755681 AAATTAAATTTAATACT
1 AAATTAAATTTAATACT
23755698 A
1 A
23755699 TCTTAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTAAATTTAATACT
Found at i:23756760 original size:183 final size:183
Alignment explanation
Indices: 23756452--23756815 Score: 622
Period size: 183 Copynumber: 2.0 Consensus size: 183
23756442 AAGTAATAAG
* *
23756452 TAAGTAAAAGAGTTATCGTCTCCACAAGGATTATATTTGTTAATCACATAATTGCAAAATTATGA
1 TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
*
23756517 ATTTACAAGTTGGCAAAGAAAACAAAAATATTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
66 ATTTACAAGCTGGCAAAGAAAACAAAAATATTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
* *
23756582 ACTAGATTCAAATTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
131 ACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
* *
23756635 TAAGTAAAAGAGTTATCGTCTCCACATGGACTATATTTGTTAATCAAATAATTGCAAAATTATGG
1 TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
* * *
23756700 ATTTACAAGCTGGTAAAGAAAACACAACA-ATTTTGAATTGATAGATGTTAAAATTAAATTAATT
66 ATTTACAAGCTGGCAAAGAAAACA-AAAATATTTTGAAGTGATAGATGTTAAAATTAAATTAATT
23756764 AACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
130 AACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
23756816 GATGGTTTAG
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
183 167 0.98
184 3 0.02
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (183 bp):
TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
ATTTACAAGCTGGCAAAGAAAACAAAAATATTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
ACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
Found at i:23788447 original size:29 final size:28
Alignment explanation
Indices: 23788388--23788440 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23788378 TATGTTGGCA
23788388 ATAAATATTTTTTTAATATGAGTATATT
1 ATAAATATTTTTTTAATATGAGTATATT
*
23788416 ATAAAT-TTATTTTTTATATGA-TATA
1 ATAAATATT-TTTTTAATATGAGTATA
23788441 AATTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (28 bp):
ATAAATATTTTTTTAATATGAGTATATT
Found at i:23798736 original size:26 final size:26
Alignment explanation
Indices: 23798707--23798758 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23798697 CTTAGACACA
23798707 TAGTCTACTACAACGAATATGTACTT
1 TAGTCTACTACAACGAATATGTACTT
23798733 TAGTCTACTACAACGAATATGTACTT
1 TAGTCTACTACAACGAATATGTACTT
23798759 GTGACCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
TAGTCTACTACAACGAATATGTACTT
Found at i:23803415 original size:15 final size:16
Alignment explanation
Indices: 23803383--23803415 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23803373 AGAAAAATAA
23803383 AACAAATTGCAAAAAT
1 AACAAATTGCAAAAAT
*
23803399 AACAAATT-CACAAAT
1 AACAAATTGCAAAAAT
23803414 AA
1 AA
23803416 TGAATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.15, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATTGCAAAAAT
Found at i:23807650 original size:66 final size:66
Alignment explanation
Indices: 23807544--23807669 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
23807534 TTATTGCATT
* * ** *
23807544 AATGTCGCTGCATGAGTTAGTTCCAGATTGCGTCCAGAATTGTCGCCACACCTGACAGCTGCCTG
1 AATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCTGCCTG
23807609 C
66 C
* * * *
23807610 AATGTCGCTCCAAGAGTTAACTCCAGATTTCATCTAGAATTGTCGCCTCACCTGATAGCT
1 AATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCT
23807670 TTCCGGATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (66 bp):
AATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCTGCCTG
C
Found at i:23808896 original size:255 final size:255
Alignment explanation
Indices: 23808445--23808954 Score: 939
Period size: 255 Copynumber: 2.0 Consensus size: 255
23808435 TATCATTATC
*
23808445 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAATTTATCTCATTTAT
1 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
* *
23808510 ATATAGTTATTGCACTGACATTAATAGACAAAAGACTATCATCCCTATGGGATCGATTTTCGACA
66 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
* * *
23808575 GACTCACATCTGTCTACTATACTTGCATCGATAGTGTACGCTTGCACATTATTGCTGTGACGTTA
131 AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
*
23808640 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATATAGGCCTTGTACCA
196 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
23808700 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
1 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
23808765 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
66 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
*
23808830 AACTCACATCTGTCTACTATACTTGCATTGATAGTATACGCTTGCACATTATTGCTATGACGTTA
131 AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
*
23808895 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTGGCCCTCAGATACAGGCCTTGTACCA
196 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
23808955 CTCGTTACTA
Statistics
Matches: 246, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
255 246 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (255 bp):
ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
Found at i:23810796 original size:23 final size:24
Alignment explanation
Indices: 23810770--23810835 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
23810760 CCGTCAAATC
*
23810770 CTGTACAT-GTATGCTCTCACGAG
1 CTGTAAATCGTATGCTCTCACGAG
*
23810793 CTGTAAATCGGTATGCTTTCACGAG
1 CTGTAAATC-GTATGCTCTCACGAG
*
23810818 CTGTAAATTGGTATGCTC
1 CTGTAAA-TCGTATGCTC
23810836 ACATAAGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.19
25 28 0.78
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (24 bp):
CTGTAAATCGTATGCTCTCACGAG
Found at i:23810807 original size:25 final size:25
Alignment explanation
Indices: 23810778--23810835 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
23810768 TCCTGTACAT
23810778 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
* *
23810803 GTATGCTTTCACGAGCTGTAAATTG
1 GTATGCTCTCACGAGCTGTAAATCG
23810828 GTATGCTC
1 GTATGCTC
23810836 ACATAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:23810844 original size:25 final size:25
Alignment explanation
Indices: 23810778--23810844 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
23810768 TCCTGTACAT
* *
23810778 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCACACAAGCTGTAAATCG
** * *
23810803 GTATGCTTTCACGAGCTGTAAATTG
1 GTATGCTCACACAAGCTGTAAATCG
*
23810828 GTATGCTCACATAAGCT
1 GTATGCTCACACAAGCT
23810845 ATGGGTCGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTAAATCG
Found at i:23813601 original size:3 final size:3
Alignment explanation
Indices: 23813593--23813661 Score: 59
Period size: 3 Copynumber: 23.3 Consensus size: 3
23813583 ATTAGTTTAA
* * * *
23813593 TAT TAT TAT TAA T-T TAT TGT TAT TAT TAT TAT TAA TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
23813640 AAT TTT TAC TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
23813662 TTTTTTCTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23813604 original size:12 final size:12
Alignment explanation
Indices: 23813589--23813638 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
23813579 ACTAATTAGT
23813589 TTAATATTATTA
1 TTAATATTATTA
*
23813601 TTAAT-TTATTG
1 TTAATATTATTA
*
23813612 TTATTATTATTA
1 TTAATATTATTA
*
23813624 TTAATACTATTA
1 TTAATATTATTA
23813636 TTA
1 TTA
23813639 TAATTTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:23813662 original size:18 final size:18
Alignment explanation
Indices: 23813588--23813664 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
23813578 TACTAATTAG
*
23813588 TTTAATATTATTATTAATT
1 TTTACTATTATTATT-ATT
**
23813607 TATTGTTATTATTATTATT
1 T-TTACTATTATTATTATT
** *
23813626 AATACTATTATTATAATT
1 TTTACTATTATTATTATT
*
23813644 TTTACTATTATTTTTATT
1 TTTACTATTATTATTATT
23813662 TTT
1 TTT
23813665 TTTCTTATCA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
18 30 0.65
19 4 0.09
20 12 0.26
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTACTATTATTATTATT
Found at i:23815702 original size:47 final size:47
Alignment explanation
Indices: 23815623--23815714 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
23815613 TATAGAGATC
* * *
23815623 AAATTTAGAATTCTAATTCTAATAGACGTCAAAATGCTAAAACTATA
1 AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTATA
*
23815670 AAATATAGAATTCTAATTCTAATAGGCATCAAAATACTAAAACTA
1 AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTA
23815715 GAATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (47 bp):
AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTATA
Found at i:23828240 original size:21 final size:21
Alignment explanation
Indices: 23828216--23828256 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23828206 TAAGTAATTG
23828216 AAATTCACATTT-AGGTCTTTT
1 AAATTCA-ATTTAAGGTCTTTT
*
23828237 AAATTTAATTTAAGGTCTTT
1 AAATTCAATTTAAGGTCTTT
23828257 AAGTGTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (21 bp):
AAATTCAATTTAAGGTCTTTT
Found at i:23829512 original size:10 final size:9
Alignment explanation
Indices: 23829488--23829557 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 9
23829478 AATAAACTAT
*
23829488 TTTTTATTA
1 TTTTTATAA
23829497 TTTTTATAA
1 TTTTTATAA
23829506 TTCTTTATAAAA
1 TT-TTTAT--AA
*
23829518 TTTTAATAA
1 TTTTTATAA
*
23829527 TTTTACTATAG
1 TTTT--TATAA
*
23829538 TTTTCTAAAA
1 TTTT-TATAA
23829548 TTTTTATAA
1 TTTTTATAA
23829557 T
1 T
23829558 ACTGTGTAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
9 21 0.43
10 13 0.27
11 11 0.22
12 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23831909 original size:70 final size:69
Alignment explanation
Indices: 23831796--23831930 Score: 252
Period size: 70 Copynumber: 1.9 Consensus size: 69
23831786 CTGACATGAT
23831796 ATTATATGATAATATGTTAAAATTTGGAAAGTACATTGGACAAAAAAAGACCCAAAAAAAAGTAC
1 ATTATATGATAATATGTTAAAATTTGGAAAGTACATTGGACAAAAAAAGACCC-AAAAAAAGTAC
23831861 ACGGA
65 ACGGA
*
23831866 ATTATATGATAATATGTTAAAATTTGGAAAGTACATTGGACAAAAAAAGACCCAAAAGAAGTACA
1 ATTATATGATAATATGTTAAAATTTGGAAAGTACATTGGACAAAAAAAGACCCAAAAAAAGTACA
23831931 GGGATTAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
69 11 0.17
70 53 0.83
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.24
Consensus pattern (69 bp):
ATTATATGATAATATGTTAAAATTTGGAAAGTACATTGGACAAAAAAAGACCCAAAAAAAGTACA
CGGA
Found at i:23833254 original size:42 final size:42
Alignment explanation
Indices: 23833207--23833369 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
23833197 TAACTGGTGC
* *
23833207 TTTATCACAGACGCCAGTAAAGAACATGACCTTTACTGGTGC-
1 TTTATCACAAACGCCAGTAAAGAACATGACCTTTAC-GGCGCT
* *
23833249 TTTATCACAAACG-CTGCTAAAAAACATGACCTTTAACGGCGCT
1 TTTATCACAAACGCCAG-TAAAGAACATGACCTTT-ACGGCGCT
* **
23833292 TTTATCACAAACGCCGGTAAAGAGTATGACCTTTAGCGGCGCT
1 TTTATCACAAACGCCAGTAAAGAACATGACCTTTA-CGGCGCT
* * * *
23833335 TTTATCACAAACGCCACTATAGAAAATGACTTTTA
1 TTTATCACAAACGCCAGTAAAGAACATGACCTTTA
23833370 GCGATTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 33 0.32
43 65 0.64
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
TTTATCACAAACGCCAGTAAAGAACATGACCTTTACGGCGCT
Found at i:23833321 original size:43 final size:43
Alignment explanation
Indices: 23833194--23833349 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
23833184 GTGAATCCTA
* * *
23833194 CTTTAACTGGTGCTTTATCACAGACGCCAGTAAAGAACATGAC
1 CTTTAACTGGCGCTTTATCACAAACGCCGGTAAAGAACATGAC
* * * *
23833237 CTTT-ACTGGTGCTTTATCACAAACGCTGCTAAAAAACATGAC
1 CTTTAACTGGCGCTTTATCACAAACGCCGGTAAAGAACATGAC
**
23833279 CTTTAAC-GGCGCTTTTATCACAAACGCCGGTAAAGAGTATGAC
1 CTTTAACTGGCGC-TTTATCACAAACGCCGGTAAAGAACATGAC
*
23833322 CTTTAGC-GGCGCTTTTATCACAAACGCC
1 CTTTAACTGGCGC-TTTATCACAAACGCC
23833350 ACTATAGAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 41 0.41
43 58 0.59
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
CTTTAACTGGCGCTTTATCACAAACGCCGGTAAAGAACATGAC
Found at i:23835546 original size:19 final size:20
Alignment explanation
Indices: 23835508--23835548 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23835498 TTGAATGTCC
*
23835508 AAAAAAGACAATAACTATGT
1 AAAAAAGACAATAACGATGT
*
23835528 AAAAAAGACAA-AAGGATGT
1 AAAAAAGACAATAACGATGT
23835547 AA
1 AA
23835549 CATGTAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAAGACAATAACGATGT
Found at i:23836497 original size:22 final size:23
Alignment explanation
Indices: 23836471--23836513 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23836461 TTTTTTAGTT
* *
23836471 AAATTTGACC-TCAATCTTTTTC
1 AAATTTAACCATCAACCTTTTTC
23836493 AAATTTAACCATCAACCTTTT
1 AAATTTAACCATCAACCTTTT
23836514 GAAAAAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTTAACCATCAACCTTTTTC
Found at i:23837228 original size:7 final size:7
Alignment explanation
Indices: 23837164--23837381 Score: 89
Period size: 7 Copynumber: 31.1 Consensus size: 7
23837154 TTAAAATCAG
23837164 ACCCTAA
1 ACCCTAA
*
23837171 ACACTAA
1 ACCCTAA
*
23837178 ACCATAA
1 ACCCTAA
23837185 ACCCTAA
1 ACCCTAA
* * *
23837192 GCCTTTAG
1 ACC-CTAA
23837200 ACCCTAA
1 ACCCTAA
**
23837207 ACTATAA
1 ACCCTAA
**
23837214 ACTTTAA
1 ACCCTAA
23837221 ACCCTAA
1 ACCCTAA
*
23837228 AACCTAA
1 ACCCTAA
**
23837235 ATTCTAA
1 ACCCTAA
23837242 ACCCTAA
1 ACCCTAA
*
23837249 ACCATAA
1 ACCCTAA
**
23837256 ACAATAA
1 ACCCTAA
***
23837263 AGATTAA
1 ACCCTAA
*
23837270 ACCATAA
1 ACCCTAA
*
23837277 A-CCTAC
1 ACCCTAA
*
23837283 ACCATAAA
1 ACCCT-AA
**
23837291 ACTATAA
1 ACCCTAA
*
23837298 ACGCTAA
1 ACCCTAA
* *
23837305 ACTCTTA
1 ACCCTAA
*
23837312 ACACTAA
1 ACCCTAA
* *
23837319 ATCATAA
1 ACCCTAA
*
23837326 ACCTTAA
1 ACCCTAA
*
23837333 ACCTTAA
1 ACCCTAA
23837340 ACCCTAA
1 ACCCTAA
* *
23837347 ATCATAA
1 ACCCTAA
*
23837354 A-CCTAT
1 ACCCTAA
23837360 ACCCTAA
1 ACCCTAA
*
23837367 ACCTTAA
1 ACCCTAA
23837374 ACCCTAA
1 ACCCTAA
23837381 A
1 A
23837382 TATATATTAC
Statistics
Matches: 156, Mismatches: 51, Indels: 8
0.73 0.24 0.04
Matches are distributed among these distances:
6 8 0.05
7 139 0.89
8 9 0.06
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:23837325 original size:28 final size:28
Alignment explanation
Indices: 23837168--23837357 Score: 108
Period size: 28 Copynumber: 6.8 Consensus size: 28
23837158 AATCAGACCC
* * *
23837168 TAAACACTAAACCATAAACCCTAAGCCTT
1 TAAACACTAAATCATAAACCTTAAACC-T
* * * *
23837197 TAGACCCTAAA-CTATAAACTTTAAACCC
1 TAAACACTAAATC-ATAAACCTTAAACCT
* *
23837225 TAAA-ACCTAAATTC-TAAACCCTAAACCA
1 TAAACA-CTAAA-TCATAAACCTTAAACCT
* * *
23837253 TAAACAATAAA-GATTAAACCATAAACC-
1 TAAACACTAAATCA-TAAACCTTAAACCT
* *
23837280 TACAC-CATAAAACTATAAACGC-TAAACTCT
1 TAAACAC-TAAATC-ATAAAC-CTTAAAC-CT
23837310 T-AACACTAAATCATAAACCTTAAACCT
1 TAAACACTAAATCATAAACCTTAAACCT
*
23837337 TAAACCCTAAATCATAAACCT
1 TAAACACTAAATCATAAACCT
23837358 ATACCCTAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
27 12 0.10
28 79 0.63
29 31 0.25
30 3 0.02
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (28 bp):
TAAACACTAAATCATAAACCTTAAACCT
Found at i:23837564 original size:7 final size:7
Alignment explanation
Indices: 23837554--23837585 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23837544 AATAAACCCC
*
23837554 AAACCAT
1 AAACTAT
23837561 AAACTAT
1 AAACTAT
23837568 AAACTAT
1 AAACTAT
23837575 AAACTAT
1 AAACTAT
23837582 AAAC
1 AAAC
23837586 CCTAAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACTAT
Found at i:23837571 original size:14 final size:14
Alignment explanation
Indices: 23837554--23837593 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
23837544 AATAAACCCC
23837554 AAACCATAAACTAT
1 AAACCATAAACTAT
*
23837568 AAACTATAAACTAT
1 AAACCATAAACTAT
*
23837582 AAACCCTAAACT
1 AAACCATAAACT
23837594 CAAAACTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACTAT
Found at i:23838040 original size:40 final size:41
Alignment explanation
Indices: 23837935--23838043 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 41
23837925 CTTTTTTATG
** * *
23837935 GCGTTTTTCCAAAAAGCACCGCTAATGCTCTATCTATAGCA
1 GCGTTTTTTGAAAAAGCGCCGCTAATGCTCGATCTATAGCA
* * * *
23837976 GCGTTTTTTGACAAAGCGCCGCTAATTCTCGATCTATTGCG
1 GCGTTTTTTGAAAAAGCGCCGCTAATGCTCGATCTATAGCA
* *
23838017 GTGTTTTTT-AAAAAGCGCTGCTAATGC
1 GCGTTTTTTGAAAAAGCGCCGCTAATGC
23838044 CACTAAAGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 15 0.27
41 41 0.73
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (41 bp):
GCGTTTTTTGAAAAAGCGCCGCTAATGCTCGATCTATAGCA
Found at i:23838062 original size:157 final size:154
Alignment explanation
Indices: 23837714--23838156 Score: 570
Period size: 157 Copynumber: 2.8 Consensus size: 154
23837704 CATTTATACC
*
23837714 AAAAA-CGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTT-CTCAACTTTTTTGA
1 AAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTT-A
* * * * * * * * *
23837777 GGCATTTTGCGAAAAGCGCCGCTAATGCTCGATCTATAGCAG-TTTTTTTCCACAAGTGTCACTA
65 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTTACA-AAGCGCCGCTA
23837841 ATTCTCGATCTATTGCGGCATTTTTTT
129 ATTCTCGATCTATTGCGG-ATTTTTTT
* *
23837868 ATAAAAGTGCTGCTAATGCCACTAAAGCTCAACAACAAACGACGTTGTTTTGCTCAACTTTTTTA
1 A-AAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTA
* *
23837933 TGGCGTTTTTCCAAAAAGCACCGCTAATGCTCTATCTATAGCAGCGTTTTTTGACAAAGCGCCGC
65 -GGCGTTTTT-CAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTT-ACAAAGCGCCGC
23837998 TAATTCTCGATCTATTGCGG-TGTTTTTT
127 TAATTCTCGATCTATTGCGGAT-TTTTTT
* *
23838026 AAAAAGCGCTGCTAATGCCACTAAAGCTCAATAACAAACGACGTCGTTTTGCTCAACTTTTTTGC
1 AAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTT-A
* * * ** * *
23838091 GGCGTTTTTCAAAAATCGTCGCTAATGCTCAATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAA
65 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTTACAAAGCGCCGCTAA
23838156 T
130 T
23838157 GTCACTAAAG
Statistics
Matches: 254, Mismatches: 26, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
154 1 0.00
155 19 0.07
156 75 0.30
157 88 0.35
158 37 0.15
159 32 0.13
160 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (154 bp):
AAAAAGCGCTGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTAG
GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTTACAAAGCGCCGCTAAT
TCTCGATCTATTGCGGATTTTTTT
Found at i:23838214 original size:115 final size:115
Alignment explanation
Indices: 23837995--23838213 Score: 332
Period size: 115 Copynumber: 1.9 Consensus size: 115
23837985 GACAAAGCGC
* * ** * *
23837995 CGCTAATTCTCGATCTATTGCGGTGTTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAATAA
1 CGCTAATGCTCAATCTATTGCGGCATTTTTTAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAA
23838060 CAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTTCAAAAATCGT
66 CAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTTCAAAAATCGT
* *
23838110 CGCTAATGCTCAATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGTCACTAAAGCTCAACAA
1 CGCTAATGCTCAATCTATTGCGGCATTTTTTAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAA
* * *
23838175 CAAACGTCGT-GTTTTGCTCAACTTTTTTGTGGCATTTTT
66 CAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTT
23838214 TGAAAAGCCC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 27 0.29
115 66 0.71
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (115 bp):
CGCTAATGCTCAATCTATTGCGGCATTTTTTAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAA
CAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTTCAAAAATCGT
Found at i:23838247 original size:40 final size:40
Alignment explanation
Indices: 23838205--23838350 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
23838195 ACTTTTTTGT
** * * * *
23838205 GGCATTTTTTGAAAAGCCCCATTAATGCTCGATCTATAGT
1 GGCATTTTTCAAAAAGCACCACTAATGCTTGATCTATAGC
* * *
23838245 GGCATTTTTCGAGAAGCACCGCTAATGCTTGATCTATAGC
1 GGCATTTTTCAAAAAGCACCACTAATGCTTGATCTATAGC
* * *
23838285 AGCGTTTTTCAAAAAGCATCACTAATGCTTGATCTATAGC
1 GGCATTTTTCAAAAAGCACCACTAATGCTTGATCTATAGC
* * * *
23838325 GGCGTTTTTTAAAAAGCGCCGCTAAT
1 GGCATTTTTCAAAAAGCACCACTAAT
23838351 ACTCGACCTA
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (40 bp):
GGCATTTTTCAAAAAGCACCACTAATGCTTGATCTATAGC
Found at i:23838247 original size:114 final size:115
Alignment explanation
Indices: 23837979--23838272 Score: 365
Period size: 114 Copynumber: 2.6 Consensus size: 115
23837969 TATAGCAGCG
* * ** *
23837979 TTTTTTGACAAAGCGCCGCTAATTCTCGATCTATTGCGGTGTTTTTTAAAAAGCGCTGCTAATGC
1 TTTTTTGA-AAAGCGCCGCTAATGCTCGATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGC
* *
23838044 CACTAAAGCTCAATAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCG
65 CACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCA
** * * * *
23838095 TTTTTCAAAAATCGTCGCTAATGCTCAATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGTC
1 TTTTTTGAAAAGCGCCGCTAATGCTCGATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGCC
* *
23838160 ACTAAAGCTCAACAACAAACGTCGT-GTTTTGCTCAACTTTTTTGTGGCA
66 ACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCA
* ** * ** * *
23838209 TTTTTTGAAAAGCCCCATTAATGCTCGATCTATAGTGGCATTTTTCGAGAAGCACCGCTAATGC
1 TTTTTTGAAAAGCGCCGCTAATGCTCGATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGC
23838273 TTGATCTATA
Statistics
Matches: 149, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
114 72 0.48
115 71 0.48
116 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (115 bp):
TTTTTTGAAAAGCGCCGCTAATGCTCGATCTATTGTGGCATTTTTTAAAAAGCGCCGCTAATGCC
ACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCA
Found at i:23838863 original size:110 final size:109
Alignment explanation
Indices: 23838665--23838889 Score: 414
Period size: 110 Copynumber: 2.1 Consensus size: 109
23838655 CGAGACATAC
23838665 CATGGGTGTCTAGAGACATACAGGGTAAAGTCTTAAGACATGACCCTAGTGACCAGGGACATGGA
1 CATGGGTGTCTAGAGACATACAGGGTAAAGTCTTAAGACATGACCCTAGTGACCAGGGACATGGA
*
23838730 AGTCAGTAGCCAAAATTTGGTTTTAGAGGTCTCGAGTCTCAAGA
66 AGTCAGTAGCCAAAACTTGGTTTTAGAGGTCTCGAGTCTCAAGA
* *
23838774 CATGGAGTGTCTAGAGACATACAGGGTAAAGTCTTAAGACATGGCCCTAGTGACTAGGGACATGG
1 CATGG-GTGTCTAGAGACATACAGGGTAAAGTCTTAAGACATGACCCTAGTGACCAGGGACATGG
23838839 AAGTCAGTAGCCAAAACTTGGTTTTAGAGGTCTCGAGTCTCAAGA
65 AAGTCAGTAGCCAAAACTTGGTTTTAGAGGTCTCGAGTCTCAAGA
23838884 CATGGG
1 CATGGG
23838890 CTCCATGTCT
Statistics
Matches: 112, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
109 6 0.05
110 106 0.95
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (109 bp):
CATGGGTGTCTAGAGACATACAGGGTAAAGTCTTAAGACATGACCCTAGTGACCAGGGACATGGA
AGTCAGTAGCCAAAACTTGGTTTTAGAGGTCTCGAGTCTCAAGA
Found at i:23838908 original size:28 final size:28
Alignment explanation
Indices: 23838868--23838927 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
23838858 GGTTTTAGAG
23838868 GTCTCGAGTCTCAAGACATGGGCTCCAT
1 GTCTCGAGTCTCAAGACATGGGCTCCAT
23838896 GTCTCGAGTCTCAAGACATGGGCTCCAT
1 GTCTCGAGTCTCAAGACATGGGCTCCAT
23838924 GTCT
1 GTCT
23838928 TGAGATAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (28 bp):
GTCTCGAGTCTCAAGACATGGGCTCCAT
Found at i:23839928 original size:15 final size:15
Alignment explanation
Indices: 23839907--23839949 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
23839897 TTTTTTAAAA
23839907 AATATTTATATTATT
1 AATATTTATATTATT
*
23839922 TATATTTAATATTTATT
1 AATATTT-ATA-TTATT
23839939 AAT-TTTATATT
1 AATATTTATATT
23839950 CTATTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 6 0.25
17 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATATTTATATTATT
Found at i:23839945 original size:22 final size:22
Alignment explanation
Indices: 23839907--23839949 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23839897 TTTTTTAAAA
*
23839907 AATATTTATATTATTTATATTT
1 AATATTTATAATATTTATATTT
23839929 AATATTTATTAAT-TTTATATT
1 AATATTTA-TAATATTTATATT
23839950 CTATTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATATTTATAATATTTATATTT
Found at i:23840266 original size:31 final size:28
Alignment explanation
Indices: 23840245--23840352 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 28
23840235 CTATTACTCC
*
23840245 TTTTCTTTTTTGGTCACCCAACTA-CCA
1 TTTTCTTTTTTGGTCACCCAACTATACA
* * *
23840272 --AT-TTTTTTGGTCACTCAACTATTGCTCA
1 TTTTCTTTTTTGGTCACCCAACTA-T--ACA
**
23840300 TTTTCCGTTTTGGTCACCCAACTATA-A
1 TTTTCTTTTTTGGTCACCCAACTATACA
23840327 TTTTCTTTAATTTGGTCACCCAACTA
1 TTTTCTTT--TTTGGTCACCCAACTA
23840353 ATCGAGATTG
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
24 18 0.29
25 1 0.02
27 7 0.11
28 2 0.03
29 16 0.26
30 2 0.03
31 16 0.26
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.44
Consensus pattern (28 bp):
TTTTCTTTTTTGGTCACCCAACTATACA
Found at i:23840329 original size:27 final size:28
Alignment explanation
Indices: 23840299--23840352 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
23840289 ACTATTGCTC
23840299 ATTTTCCGT-TTTGGTCACCCAACTATA
1 ATTTTCCGTATTTGGTCACCCAACTATA
**
23840326 ATTTTCTTTAATTTGGTCACCCAACTA
1 ATTTTCCGT-ATTTGGTCACCCAACTA
23840353 ATCGAGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
29 16 0.70
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (28 bp):
ATTTTCCGTATTTGGTCACCCAACTATA
Found at i:23863318 original size:24 final size:24
Alignment explanation
Indices: 23863291--23863338 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23863281 ATGCGAGCTT
*
23863291 ATAA-CAGGTAGCTCTGAATAGCCA
1 ATAATCAGG-AGCTCCGAATAGCCA
*
23863315 ATAATCAGGAGCTCCGGATAGCCA
1 ATAATCAGGAGCTCCGAATAGCCA
23863339 TATATCGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (24 bp):
ATAATCAGGAGCTCCGAATAGCCA
Found at i:23865287 original size:268 final size:267
Alignment explanation
Indices: 23864799--23865396 Score: 697
Period size: 268 Copynumber: 2.2 Consensus size: 267
23864789 GGCTGTTACA
* * * * * ** *
23864799 AGTTGTGATTATAAATCAGTGAACTGTTTGAATAAAGTTTTGATTATAAATCGGTGAACTTTAAG
1 AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGTGATTGTAAATTAGTGAACTCTAAG
* * * * * *
23864864 TGAAAGTTTATGATCATAAATTAATGAACTTAAGCTATGATCGTAAATCAACGAGTTTTAATAAT
66 TGAAAGTTCATGATCATAAATCAATGAACTTAACCTATGAACATAAATCAACGAGCTTTAATAAT
** * * *
23864929 ATCAGTTGTAATTGTAAATCAATGAACTGTTTGAACGAAGTTGCAAACGTAAATCAGTAAACTCT
131 ATCAACTGTAATCGTAAATCAATGAAATGTTTGAAAGAAGTTGCAAACGTAAATCAGTAAACTCT
* * *
23864994 AAGTGAACCATTCATGATCGTAAATCAATGAA-CTTAAGCTGTG-ATCGTAAATAAACAAGCTTT
196 AAGTGAACCATTCATGATAGTAAATCAATGAATC-TAAGCTATGAAT-ATAAATAAACAAGCTTT
23865057 AATAATATC
259 AATAATATC
* * *
23865066 AGTTGTGATCGTAAATAAGCGAACTGTTTGAATGGAGTTGTGATTGTAAATTAGT-AACCTCTAA
1 AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGTGATTGTAAATTAGTGAA-CTCTAA
* *
23865130 GTGAACCA-TTCATGATCATAAATCAATGAACTTAACCTGTGAACATAAATCAATGAGCTTTAAT
65 GTGAA--AGTTCATGATCATAAATCAATGAACTTAACCTATGAACATAAATCAACGAGCTTTAAT
* * * ** *
23865194 AATATCAACTGTGATCGTAAATTAGTGAAATGTTTGAATAG-AGTTGCAATTGTAAAT-AGGTGA
128 AATATCAACTGTAATCGTAAATCAATGAAATGTTTGAA-AGAAGTTGCAAACGTAAATCA-GTAA
* * * * **
23865257 ACTCTAAGTGAATCGTTTATGATAGTAAATCAATGAATCTAAGCTATGAATATAAATCAATGAGC
191 ACTCTAAGTGAACCATTCATGATAGTAAATCAATGAATCTAAGCTATGAATATAAATAAACAAGC
*
23865322 TTTGATAATATC
256 TTTAATAATATC
* *
23865334 AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGCGATCGTAAATT-GATGAACTCTA
1 AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGTGATTGTAAATTAG-TGAACTCTA
23865397 TAACTTATCC
Statistics
Matches: 277, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
266 2 0.01
267 57 0.21
268 211 0.76
269 7 0.03
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (267 bp):
AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGTGATTGTAAATTAGTGAACTCTAAG
TGAAAGTTCATGATCATAAATCAATGAACTTAACCTATGAACATAAATCAACGAGCTTTAATAAT
ATCAACTGTAATCGTAAATCAATGAAATGTTTGAAAGAAGTTGCAAACGTAAATCAGTAAACTCT
AAGTGAACCATTCATGATAGTAAATCAATGAATCTAAGCTATGAATATAAATAAACAAGCTTTAA
TAATATC
Found at i:23865392 original size:134 final size:134
Alignment explanation
Indices: 23864799--23865396 Score: 620
Period size: 134 Copynumber: 4.5 Consensus size: 134
23864789 GGCTGTTACA
* * ** * * * *
23864799 AGTTGTGATTATAAATCAGTGAACTGTTTGAATAAAGTTTTGATTATAAATCGGTGAACTTTAAG
1 AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAGAGTTGCGATTGTAAATTGATGAACTCTAAG
* * * *
23864864 TGAA--AGTTTATGATCATAAATTAATGAACTTAAGCTATGATCGTAAATCAACGAGTTTTAATA
66 TGAACCA-TTCATGATCATAAATCAATGAACTTAAGCTATGATCATAAATCAACGAGCTTTAATA
23864927 ATATC
130 ATATC
* * * * ** * *
23864932 AGTTGTAATTGTAAATCAATGAACTGTTTGAA-CGAAGTTGCAAACGTAAA-TCAGTAAACTCTA
1 AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAG-AGTTGCGATTGTAAATTGA-TGAACTCTA
* * * * *
23864995 AGTGAACCATTCATGATCGTAAATCAATGAACTTAAGCTGTGATCGTAAATAAACAAGCTTTAAT
64 AGTGAACCATTCATGATCATAAATCAATGAACTTAAGCTATGATCATAAATCAACGAGCTTTAAT
23865060 AATATC
129 AATATC
* * * * *
23865066 AGTTGTGATCGTAAATAAGCGAACTGTTTGAATGGAGTTGTGATTGTAAATT-A-GTAACCTCTA
1 AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAGAGTTGCGATTGTAAATTGATG-AA-CTCTA
* * * *
23865129 AGTGAACCATTCATGATCATAAATCAATGAACTTAACCTGTGAACATAAATCAATGAGCTTTAAT
64 AGTGAACCATTCATGATCATAAATCAATGAACTTAAGCTATGATCATAAATCAACGAGCTTTAAT
23865194 AATATC
129 AATATC
** * * * * * *
23865200 AACTGTGATCGTAAATTAGTGAAATGTTTGAATAGAGTTGCAATTGTAAATAGGTGAACTCTAAG
1 AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAGAGTTGCGATTGTAAATTGATGAACTCTAAG
* * * * *
23865265 TGAATCGTTTATGAT-AGTAAATCAATGAA-TCTAAGCTATGAAT-ATAAATCAATGAGCTTTGA
66 TGAACCATTCATGATCA-TAAATCAATGAACT-TAAGCTATG-ATCATAAATCAACGAGCTTTAA
23865327 TAATATC
128 TAATATC
* *
23865334 AGTTGTGATTGTAAATCAGCGAACTGTTTGAATAGAGTTGCGATCGTAAATTGATGAACTCTA
1 AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAGAGTTGCGATTGTAAATTGATGAACTCTA
23865397 TAACTTATCC
Statistics
Matches: 384, Mismatches: 68, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
133 55 0.14
134 322 0.84
135 6 0.02
136 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (134 bp):
AGTTGTGATTGTAAATCAGTGAACTGTTTGAATAGAGTTGCGATTGTAAATTGATGAACTCTAAG
TGAACCATTCATGATCATAAATCAATGAACTTAAGCTATGATCATAAATCAACGAGCTTTAATAA
TATC
Found at i:23867793 original size:27 final size:27
Alignment explanation
Indices: 23867721--23867793 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
23867711 ACATGCCAGA
* * *
23867721 AAATGAAAACCTTTGTGGAAATCTATG
1 AAATGGAAGCCTTTGTGGTAATCTATG
*
23867748 AAATGGAAGCCTTTGTGGTAATCTGTG
1 AAATGGAAGCCTTTGTGGTAATCTATG
*
23867775 AAATGGGAGCCTTTGTGGT
1 AAATGGAAGCCTTTGTGGT
23867794 GATCATAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGTAATCTATG
Found at i:23867804 original size:27 final size:26
Alignment explanation
Indices: 23867721--23867804 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
23867711 ACATGCCAGA
* * *
23867721 AAATGAAAACCTTTGTGGAAATCTATG
1 AAATGGAAGCCTTTGTGGTAATCTA-G
*
23867748 AAATGGAAGCCTTTGTGGTAATCTGTG
1 AAATGGAAGCCTTTGTGGTAATCT-AG
* *
23867775 AAATGGGAGCCTTTGTGGTGATCATAG
1 AAATGGAAGCCTTTGTGGTAATC-TAG
23867802 AAA
1 AAA
23867805 AAAATGCCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGTAATCTAG
Found at i:23867996 original size:27 final size:27
Alignment explanation
Indices: 23867901--23867996 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
23867891 AAATGGTAAG
*
23867901 TATGGCGAACACTGAAA-GAATAGTACG
1 TATGGCGAACACT-AAAGGAATAGTACA
23867928 TATGGCGAACAC-AGAAGGAATAGTACA
1 TATGGCGAACACTA-AAGGAATAGTACA
* * *
23867955 TATGGCGAACTCTAAAGGAATAGAACT
1 TATGGCGAACACTAAAGGAATAGTACA
*
23867982 TATGGTGAACACTAA
1 TATGGCGAACACTAA
23867997 GAGAAATAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
25 1 0.02
26 2 0.03
27 56 0.93
28 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (27 bp):
TATGGCGAACACTAAAGGAATAGTACA
Found at i:23869229 original size:24 final size:23
Alignment explanation
Indices: 23869202--23869246 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
23869192 AGATGTTGCG
*
23869202 CTATAGATGACTTGCCAAGAATTA
1 CTATACATGACTTG-CAAGAATTA
* *
23869226 CTATTCATGATTTGCAAGAAT
1 CTATACATGACTTGCAAGAAT
23869247 AATGTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (23 bp):
CTATACATGACTTGCAAGAATTA
Found at i:23879388 original size:19 final size:19
Alignment explanation
Indices: 23879366--23879404 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23879356 AGTAAAAAAG
23879366 TGGGAG-AAAGTAAAAATTT
1 TGGGAGCAAA-TAAAAATTT
*
23879385 TGGGGGCAAATAAAAATTT
1 TGGGAGCAAATAAAAATTT
23879404 T
1 T
23879405 TGAGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.28
Consensus pattern (19 bp):
TGGGAGCAAATAAAAATTT
Found at i:23879867 original size:20 final size:21
Alignment explanation
Indices: 23879832--23879871 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23879822 GTGTTTTATT
23879832 TAATTTATAAAAATAAAAATC
1 TAATTTATAAAAATAAAAATC
*
23879853 TAATTT-TATAAATAAAAAT
1 TAATTTATAAAAATAAAAAT
23879872 TCATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTTATAAAAATAAAAATC
Found at i:23883385 original size:34 final size:34
Alignment explanation
Indices: 23883339--23883438 Score: 146
Period size: 34 Copynumber: 2.9 Consensus size: 34
23883329 AATATTCACC
* * *
23883339 AAAATGAGACAAAAATGATAAGGCTTAAAACTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
* *
23883373 AAAATGAAACAAATATAATAAGACTTAAAACTAC
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
*
23883407 AAAATGAAACAAAAATAATAAAACTTAAAACT
1 AAAATGAAACAAAAATAATAAGACTTAAAACT
23883439 CTAATAGCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.19
Consensus pattern (34 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTAA
Found at i:23883547 original size:40 final size:40
Alignment explanation
Indices: 23883488--23883574 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
23883478 AAATGGAAAT
* * *
23883488 AAAAATTATAAGACCTATAATTAATAATATAAAAGATTCAC
1 AAAAA-TATAAAACCTATAATTAACAATACAAAAGATTCAC
* * * *
23883529 AAAAATATAAAACTTATAATTAACACTACAAAATATTTAC
1 AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
23883569 AAAAAT
1 AAAAAT
23883575 TCAGATAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (40 bp):
AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
Found at i:23890476 original size:27 final size:27
Alignment explanation
Indices: 23890438--23890497 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
23890428 TCTTTGCCTC
23890438 GATCTAACTCCGTACGAGGTCTGACTG
1 GATCTAACTCCGTACGAGGTCTGACTG
* **
23890465 GATCTTACTCCGTACGAGGTCTGGTTG
1 GATCTAACTCCGTACGAGGTCTGACTG
23890492 GATCTA
1 GATCTA
23890498 CACAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (27 bp):
GATCTAACTCCGTACGAGGTCTGACTG
Found at i:23893769 original size:40 final size:40
Alignment explanation
Indices: 23893421--23893769 Score: 608
Period size: 40 Copynumber: 8.7 Consensus size: 40
23893411 GCAAACACCT
* * * *
23893421 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
23893461 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
23893501 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
23893541 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
23893581 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
23893621 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
23893661 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
23893701 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
23893741 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
23893770 TCAAATGCTC
Statistics
Matches: 295, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 295 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:23895980 original size:4 final size:4
Alignment explanation
Indices: 23895964--23896031 Score: 50
Period size: 4 Copynumber: 16.0 Consensus size: 4
23895954 CATTCCTTCC
* *
23895964 CTTT -TTT CTTTT CTTT CTTT CTTT CTTT -TTCT TTTT GTTT CGTTT CGTTT
1 CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTT-T CTTT CTTT C-TTT C-TTT
23896014 CGTTT CGTTT CTTT CTTT
1 C-TTT C-TTT CTTT CTTT
23896032 TTATTTATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
3 5 0.09
4 27 0.47
5 25 0.44
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:23895996 original size:10 final size:9
Alignment explanation
Indices: 23895968--23896032 Score: 60
Period size: 10 Copynumber: 6.9 Consensus size: 9
23895958 CCTTCCCTTT
23895968 TTTCTTTTC
1 TTTCTTTTC
23895977 TTTC-TTTC
1 TTTCTTTTC
23895985 TTTCTTTTTC
1 TTTC-TTTTC
*
23895995 TTTTTGTTTC
1 TTTCT-TTTC
*
23896005 GTTTCGTTTC
1 -TTTCTTTTC
*
23896015 GTTTCGTTTC
1 -TTTCTTTTC
23896025 TTTCTTTT
1 TTTCTTTT
23896033 TATTTATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 8 0.17
9 12 0.25
10 25 0.52
11 3 0.06
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:23896018 original size:15 final size:14
Alignment explanation
Indices: 23895968--23896028 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
23895958 CCTTCCCTTT
*
23895968 TTTCTTTTC-TTTC
1 TTTCGTTTCGTTTC
*
23895981 TTTC-TTTCTTTTTC
1 TTTCGTTTC-GTTTC
*
23895995 TTTTTGTTTCGTTTC
1 -TTTCGTTTCGTTTC
23896010 GTTTCGTTTCGTTTC
1 -TTTCGTTTCGTTTC
23896025 TTTC
1 TTTC
23896029 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 4 0.10
13 4 0.10
14 8 0.20
15 20 0.50
16 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTCGTTTCGTTTC
Found at i:23901935 original size:124 final size:124
Alignment explanation
Indices: 23901706--23902034 Score: 365
Period size: 124 Copynumber: 2.7 Consensus size: 124
23901696 CTTTGTATTA
** ** *
23901706 TATAAAGGTTTGTCGATTTATGATCGTAACCTTTAAAAACAGCTAGCAGACCTAAACTCCCAGCT
1 TATAAAGGTTTACCGATTTATGATCGTAACCTCCAAAAACAACTAGCAGACCTAAACTCCCAGCT
* * *
23901771 AATATTCTAAAAGCTTGTATCTCCAACACAACTAGCGGACCTATGTTCCCAGCTGATGT
66 AATATTCTAAAAGCTTGCAGCTCCAACACAACTAGCGGACCTAGGTTCCCAGCTGATGT
* * * * **
23901830 TATAAAGGTTTACCGGTTTATGGTCGTAGCCTCCAAAAACAACTAGCGGACCTATGCTCCCAGCT
1 TATAAAGGTTTACCGATTTATGATCGTAACCTCCAAAAACAACTAGCAGACCTAAACTCCCAGCT
* * ** *
23901895 AATATTTTAAGAGCTTGCAGCTCCAACACAGTTAGTGGACCTAGGTTCCCAGCTGATGT
66 AATATTCTAAAAGCTTGCAGCTCCAACACAACTAGCGGACCTAGGTTCCCAGCTGATGT
* * * * ** * *
23901954 TATAAAGGTTTA-CTAGTTCATGATCGCAACCTCCAAAAATAGTTAGC-GAACCTACACTCCCAA
1 TATAAAGGTTTACCGA-TTTATGATCGTAACCTCCAAAAACAACTAGCAG-ACCTAAACTCCCAG
* *
23902017 TTGATATTCTAAAAGCTT
64 CTAATATTCTAAAAGCTT
23902035 ACAGGGTCAA
Statistics
Matches: 168, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
123 2 0.01
124 166 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (124 bp):
TATAAAGGTTTACCGATTTATGATCGTAACCTCCAAAAACAACTAGCAGACCTAAACTCCCAGCT
AATATTCTAAAAGCTTGCAGCTCCAACACAACTAGCGGACCTAGGTTCCCAGCTGATGT
Found at i:23902229 original size:17 final size:17
Alignment explanation
Indices: 23902207--23902288 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
23902197 ATTAAGAATT
23902207 TGCTTAAGTTCAAAATA
1 TGCTTAAGTTCAAAATA
23902224 TGCTTAAGTTCAAAA-A
1 TGCTTAAGTTCAAAATA
**
23902240 TTCGCTTAAGCCCAAAAT-
1 -T-GCTTAAGTTCAAAATA
* * *
23902258 TTCTTAAAGTTTAAAACA
1 TGCTT-AAGTTCAAAATA
*
23902276 TGATTAAGTTCAA
1 TGCTTAAGTTCAA
23902289 GGTTTGATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
16 4 0.08
17 31 0.62
18 15 0.30
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (17 bp):
TGCTTAAGTTCAAAATA
Found at i:23907004 original size:15 final size:15
Alignment explanation
Indices: 23906984--23907013 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23906974 TCCGCCGATC
23906984 TTAGTGAAAATAGAG
1 TTAGTGAAAATAGAG
23906999 TTAGTGAAAATAGAG
1 TTAGTGAAAATAGAG
23907014 GTACATCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (15 bp):
TTAGTGAAAATAGAG
Found at i:23911227 original size:46 final size:47
Alignment explanation
Indices: 23911169--23911274 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 47
23911159 TTGATATATG
* * * *
23911169 TTAGGATTAGAATAATA-AAATTCTAGTTTTAGTATTTTGATGCCTA
1 TTAGAATTAGAATAATATAAATTATAGTTTTAGCATTTTGACGCCTA
** ** *
23911215 TTAGAATTAGAATTCTATATTTTATAGTTTTAGCATTTTGACGTCTA
1 TTAGAATTAGAATAATATAAATTATAGTTTTAGCATTTTGACGCCTA
23911262 TTAGAATTAGAAT
1 TTAGAATTAGAAT
23911275 TCTAAATTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 14 0.28
47 36 0.72
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (47 bp):
TTAGAATTAGAATAATATAAATTATAGTTTTAGCATTTTGACGCCTA
Found at i:23911253 original size:47 final size:47
Alignment explanation
Indices: 23911192--23911283 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
23911182 AATAAAATTC
* * *
23911192 TAGTTTTAGTATTTTGATGCCTATTAGAATTAGAATTCTATATTTTA
1 TAGTTTTAGCATTTTGACGCCTATTAGAATTAGAATTCTAAATTTTA
*
23911239 TAGTTTTAGCATTTTGACGTCTATTAGAATTAGAATTCTAAATTT
1 TAGTTTTAGCATTTTGACGCCTATTAGAATTAGAATTCTAAATTT
23911284 GATCTCTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (47 bp):
TAGTTTTAGCATTTTGACGCCTATTAGAATTAGAATTCTAAATTTTA
Found at i:23913075 original size:22 final size:20
Alignment explanation
Indices: 23913033--23913080 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
23913023 TATTAAAACA
* *
23913033 TAAAATATATTTAAATGAAT
1 TAAAATATATATAAATAAAT
23913053 TAAAATATATATAATATAAAAT
1 TAAAATATATATAA-AT-AAAT
23913075 TAAAAT
1 TAAAAT
23913081 CATTAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATATATATAAATAAAT
Found at i:23913257 original size:3 final size:3
Alignment explanation
Indices: 23913245--23913313 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
23913235 TAAGAAAAAA
* * * * *
23913245 AAT AAA AAT AAT AGT AAA AAT TAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
23913293 AAC AAT AA- ATT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
23913314 TTAAACTAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 1 0.02
3 50 0.98
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:23913263 original size:18 final size:18
Alignment explanation
Indices: 23913242--23913318 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
23913232 TGATAAGAAA
*
23913242 AAAAATAAAAATAATAGT
1 AAAAATAATAATAATAGT
*
23913260 AAAAATTATAATAATAGT
1 AAAAATAATAATAATAGT
* **
23913278 AATAATAATAATAATAAC
1 AAAAATAATAATAATAGT
*
23913296 AATAAATTAATAATAATATT
1 AA-AAA-TAATAATAATAGT
23913316 AAA
1 AAA
23913319 CTAATTAGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 32 0.67
19 3 0.06
20 13 0.27
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATAATAATAATAGT
Found at i:23914309 original size:18 final size:17
Alignment explanation
Indices: 23914286--23914319 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23914276 TATTTCGATA
23914286 TTTTAATAAAATGTAATC
1 TTTTAA-AAAATGTAATC
*
23914304 TTTTAAATAATGTAAT
1 TTTTAAAAAATGTAAT
23914320 ATGATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTAAAAAATGTAATC
Found at i:23914399 original size:11 final size:11
Alignment explanation
Indices: 23914381--23914413 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
23914371 TACACGAATG
23914381 AATAACAAACA
1 AATAACAAACA
*
23914392 ATTAACAAACA
1 AATAACAAACA
23914403 AAT-ACAAACA
1 AATAACAAACA
23914413 A
1 A
23914414 GCATAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:23914999 original size:16 final size:16
Alignment explanation
Indices: 23914978--23915010 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23914968 TTTGCTGTAT
23914978 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23914994 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23915010 T
1 T
23915011 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:23915054 original size:45 final size:44
Alignment explanation
Indices: 23914990--23915086 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
23914980 GAATAGAGGC
23914990 GTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* *
23915035 GTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
*
23915079 GGAATGGA
1 GTAATGGA
23915087 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 2 0.04
44 23 0.48
45 23 0.48
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:23915238 original size:16 final size:16
Alignment explanation
Indices: 23915217--23915265 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
23915207 TTCGCTGTAT
23915217 TGGAATAGAAGCGTAA
1 TGGAATAGAAGCGTAA
23915233 TGGAATA-AAGGCGTAA
1 TGGAATAGAA-GCGTAA
23915249 TGGAATAGAAGCGTAA
1 TGGAATAGAAGCGTAA
23915265 T
1 T
23915266 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.06
16 27 0.87
17 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (16 bp):
TGGAATAGAAGCGTAA
Found at i:23915429 original size:255 final size:255
Alignment explanation
Indices: 23914978--23915449 Score: 874
Period size: 255 Copynumber: 1.9 Consensus size: 255
23914968 TTTGCTGTAT
* *
23914978 TGGAATAGAGGCGTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGA
1 TGGAATAAAGGCGTAATGGAATAGAAGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGA
* *
23915043 ATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGGAATGGAGGTGTAATAGCATAAGGAAAA
66 ATAGAGGCATAATAGTATTCATGTGTTTGGTTAAATGGAATGGAGGTGTAATAGCATAAGGAAAA
23915108 AAACTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAGATAAATGATTATTGTTATTGTTA
131 AAACTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAGATAAATGATTATTGTTATTGTTA
*
23915173 TTAAATTTTAATAAGATTATTAGGGCACGTTTGGTTCGCTGTATTGGAATAGAAGCGTAA
196 TTAAATTTTAATAAGATAATTAGGGCACGTTTGGTTCGCTGTATTGGAATAGAAGCGTAA
23915233 TGGAATAAAGGCGTAATGGAATAGAAGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGA
1 TGGAATAAAGGCGTAATGGAATAGAAGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGA
*
23915298 ATAGAGGCATAATAGTATTCTTGTGTTTGGTTAAATGGAATGGAGGTGT-ATAGCATAAGGGAAA
66 ATAGAGGCATAATAGTATTCATGTGTTTGGTTAAATGGAATGGAGGTGTAATAGCATAA-GGAAA
23915362 AAAACTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAGATAAATGATTATTGTTATTGTT
130 AAAACTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAGATAAATGATTATTGTTATTGTT
23915427 ATTAAATTTTAATAAGATAATTA
195 ATTAAATTTTAATAAGATAATTA
23915450 ATATCAGTAA
Statistics
Matches: 210, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
254 9 0.04
255 201 0.96
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (255 bp):
TGGAATAAAGGCGTAATGGAATAGAAGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGA
ATAGAGGCATAATAGTATTCATGTGTTTGGTTAAATGGAATGGAGGTGTAATAGCATAAGGAAAA
AAACTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAGATAAATGATTATTGTTATTGTTA
TTAAATTTTAATAAGATAATTAGGGCACGTTTGGTTCGCTGTATTGGAATAGAAGCGTAA
Found at i:23915519 original size:18 final size:17
Alignment explanation
Indices: 23915498--23915532 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23915488 TTATTATTAA
*
23915498 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23915516 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23915533 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23915639 original size:18 final size:17
Alignment explanation
Indices: 23915618--23915652 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23915608 TTATTATTAA
*
23915618 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23915636 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23915653 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23915759 original size:18 final size:17
Alignment explanation
Indices: 23915736--23915772 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23915726 AATTATTATT
23915736 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23915752 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23915769 AAAT
1 AAAT
23915773 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23915879 original size:18 final size:17
Alignment explanation
Indices: 23915856--23915892 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23915846 AATTATTATT
23915856 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23915872 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23915889 AAAT
1 AAAT
23915893 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23915999 original size:18 final size:17
Alignment explanation
Indices: 23915976--23916012 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23915966 AATTATTATT
23915976 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23915992 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23916009 AAAT
1 AAAT
23916013 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23916022 original size:120 final size:121
Alignment explanation
Indices: 23915476--23916013 Score: 949
Period size: 120 Copynumber: 4.5 Consensus size: 121
23915466 ATTTAATCAT
* *
23915476 ATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
* *
23915541 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATATTATAAAATAT-
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* *
23915596 ATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
*
23915661 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
*
23915717 ATTT-AAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
*
23915781 ATCAATATTCTTATCTGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
23915837 ATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
* *
23915901 ATCAATATTCTTATCTGAATTTACTAAAATCATAATATATGATAGTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
23915957 ATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
23916014 TAAAATAATT
Statistics
Matches: 410, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
120 404 0.99
121 6 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:23916086 original size:25 final size:25
Alignment explanation
Indices: 23915950--23916089 Score: 83
Period size: 25 Copynumber: 5.6 Consensus size: 25
23915940 TGATAGTATA
*
23915950 AAATATAATTTGAAATAATTATTATT
1 AAATATAATTT-AATTAATTATTATT
* *
23915976 AAATATATTTTAATTAAAATATATGATT
1 AAATATAATTTAATT--AAT-TATTATT
* * * *
23916004 TAATAAAATTTAAAATAATTATTAGT
1 AAATATAATTT-AATTAATTATTATT
** *
23916030 -AATA-AATTTTCTT-A-TATGAATT
1 AAATATAATTTAATTAATTAT-TATT
**
23916052 -TGTATAATTTAATTAATTATTATT
1 AAATATAATTTAATTAATTATTATT
23916076 AAATATAATTTAAT
1 AAATATAATTTAAT
23916090 AATAATATAT
Statistics
Matches: 84, Mismatches: 21, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
21 3 0.04
22 5 0.06
23 8 0.10
24 9 0.11
25 21 0.25
26 15 0.18
27 6 0.07
28 14 0.17
29 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (25 bp):
AAATATAATTTAATTAATTATTATT
Found at i:23916123 original size:77 final size:78
Alignment explanation
Indices: 23916033--23916189 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 78
23916023 TATTAGTAAT
* * *
23916033 AAATTTTCTTATATGAATTTGTATAATTT-AATTAATTATTATTAAATATAATTTAATAATAATA
1 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
23916097 TATAATTTCATAA
66 TATAATTTCATAA
*
23916110 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
23916175 TATAATTTCATAA
66 TATAATTTCATAA
23916188 AA
1 AA
23916190 TTCTTGATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 28 0.37
78 47 0.63
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (78 bp):
AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
TATAATTTCATAA
Found at i:23916147 original size:44 final size:43
Alignment explanation
Indices: 23916098--23916238 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 43
23916088 ATAATAATAT
23916098 ATAATTTCATAAAAATTTTCTTATATGAATTTATATAATTTAAA
1 ATAATTT-ATAAAAATTTTCTTATATGAATTTATATAATTTAAA
* ** *
23916142 ATAATTAATATTAAATATAAT-TTA-AT-AATGATATATAATTTCATAA
1 ATAATT--TA-TAAAAATTTTCTTATATGAAT-TTATATAATTT-A-AA
*
23916188 A-ATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAA
1 ATAAT-TT-ATAA-AAATTTTCTTATATGAATTTATATAATTTAAA
23916233 ATAATT
1 ATAATT
23916239 AATATTAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
43 3 0.04
44 22 0.30
45 16 0.22
46 18 0.24
47 12 0.16
48 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (43 bp):
ATAATTTATAAAAATTTTCTTATATGAATTTATATAATTTAAA
Found at i:23916204 original size:47 final size:47
Alignment explanation
Indices: 23916146--23916297 Score: 172
Period size: 47 Copynumber: 3.3 Consensus size: 47
23916136 TTTAAAATAA
*
23916146 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
* * * **
23916193 TTGATAATAAAT-T-TTCTTATATGAAT-TTATATAA-TT--TAAAATAA
1 TTAATAATAAATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTC
*
23916237 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
23916284 TTAATAATAAATAT
1 TTAATAATAAATAT
23916298 TCTTATATGA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.04
44 25 0.30
45 7 0.08
46 7 0.08
47 38 0.46
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (47 bp):
TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
Done.