Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 221 of 356
Found at i:72380357 original size:30 final size:30
Alignment explanation
Indices: 72380323--72380400 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
72380313 TCGATCTTTT
72380323 TTTCTTTTTCCTTCTCTTTTTCTTTTTCAC-
1 TTTCTTTTTCCTT-TCTTTTTCTTTTTCACA
** *
72380353 TTTCTTTTTCAATT-TTTTTCTTTTTCTCA
1 TTTCTTTTTCCTTTCTTTTTCTTTTTCACA
*
72380382 TTCTCTTTTTGCTTTCTTT
1 TT-TCTTTTTCCTTTCTTT
72380401 CACACTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.33
29 3 0.08
30 20 0.51
31 3 0.08
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (30 bp):
TTTCTTTTTCCTTTCTTTTTCTTTTTCACA
Found at i:72380426 original size:15 final size:15
Alignment explanation
Indices: 72380406--72380436 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
72380396 TCTTTCACAC
72380406 TCTTTTTCTGTCATT
1 TCTTTTTCTGTCATT
*
72380421 TCTTTTTCTTTCATT
1 TCTTTTTCTGTCATT
72380436 T
1 T
72380437 TTTCATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (15 bp):
TCTTTTTCTGTCATT
Found at i:72383448 original size:52 final size:52
Alignment explanation
Indices: 72383370--72383470 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
72383360 GTAGAGGACA
*
72383370 AAACAGAAGATGCTTGGGAAGCCATTGAATGTAACAGTCCGGTTTAGACACG
1 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGACACG
72383422 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGAC
1 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGAC
72383471 CCTAGTCGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (52 bp):
AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGACACG
Found at i:72384770 original size:42 final size:42
Alignment explanation
Indices: 72384654--72384773 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
72384644 GTCTGAGACA
* * * *
72384654 TCGTATAAGACCGTGTCTGCGACACAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
*** * *
72384696 TACGTATAAGACCATGTCTGGGACATTCGCATCGTTTCTGATT
1 T-CGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
* * *
72384739 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGAT
72384774 ATTGAATTAC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
Found at i:72388509 original size:7 final size:7
Alignment explanation
Indices: 72388497--72388530 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
72388487 AAATTTTGTG
72388497 TGTTTAC
1 TGTTTAC
72388504 TGTTTAC
1 TGTTTAC
72388511 TGTTTAC
1 TGTTTAC
72388518 TGTTTAC
1 TGTTTAC
72388525 TGTTTA
1 TGTTTA
72388531 GGGATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (7 bp):
TGTTTAC
Found at i:72394826 original size:39 final size:39
Alignment explanation
Indices: 72394783--72394882 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 39
72394773 AATATAAATC
*
72394783 AACAATAATAA-TAACTAACAATAATTAGGGTTTTTTACT
1 AACAATAATAACTAAC-AACAATAATAAGGGTTTTTTACT
* *
72394822 AACAATAACTAACTAACAATAATAATAAGGTTTTTTTACT
1 AACAATAA-TAACTAACAACAATAATAAGGGTTTTTTACT
72394862 AACAATAATAACTAACAACAA
1 AACAATAATAACTAACAACAA
72394883 AAAAACAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 20 0.36
40 31 0.56
41 4 0.07
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (39 bp):
AACAATAATAACTAACAACAATAATAAGGGTTTTTTACT
Found at i:72395030 original size:23 final size:23
Alignment explanation
Indices: 72394966--72395035 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
72394956 AAAATTATAC
*
72394966 CTTCT-CTTTTCTATTTTTTTTC-
1 CTTCTCCTTTTCT-TTCTTTTTCT
*
72394988 CTTCTCC--TT-TTTCTTCTTCT
1 CTTCTCCTTTTCTTTCTTTTTCT
72395008 CTTCTCCTTTTCTTTCTTTTTCT
1 CTTCTCCTTTTCTTTCTTTTTCT
72395031 CTTCT
1 CTTCT
72395036 TCTCCTTGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.17
20 8 0.20
21 2 0.05
22 7 0.17
23 16 0.40
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (23 bp):
CTTCTCCTTTTCTTTCTTTTTCT
Found at i:72398670 original size:25 final size:25
Alignment explanation
Indices: 72398641--72398696 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
72398631 AGATTAATTT
* *
72398641 ATATTTTATGTATCATTATATTTAA
1 ATATTTTATGTAGCATTATATTCAA
*
72398666 ATATTTTCTGTAGCATTATATTCAA
1 ATATTTTATGTAGCATTATATTCAA
*
72398691 TTATTT
1 ATATTT
72398697 AAATATCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
ATATTTTATGTAGCATTATATTCAA
Found at i:72400853 original size:34 final size:34
Alignment explanation
Indices: 72400792--72400859 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
72400782 GCATATCTGA
*
72400792 TACTAAAACTGAAAAGGGCTAAAGCCCAGATTGC
1 TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
* * * *
72400826 TACTGAAACTGAAATGGACTTAGGCCCAGATTGC
1 TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
72400860 ATTTGGCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (34 bp):
TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
Found at i:72413167 original size:27 final size:27
Alignment explanation
Indices: 72413133--72413353 Score: 248
Period size: 27 Copynumber: 8.2 Consensus size: 27
72413123 GGTATCACGC
*
72413133 CATTTTACCCTACAGGGACATTACGGT
1 CATTTTACCCTACAGGGGCATTACGGT
* * *
72413160 TATTTTACCCTACAAGGGTATTACGGT
1 CATTTTACCCTACAGGGGCATTACGGT
*
72413187 CATTTTA-CCTGCCAGGGGCATTACGGT
1 CATTTTACCCT-ACAGGGGCATTACGGT
* **
72413214 CATTTCACCCTACAGGGGCATTACAAT
1 CATTTTACCCTACAGGGGCATTACGGT
* *
72413241 CATTTTACTCTACATGGGCATTACGGT
1 CATTTTACCCTACAGGGGCATTACGGT
**
72413268 CATTTTACCCTACAGGGGCATTATAGT
1 CATTTTACCCTACAGGGGCATTACGGT
* * *
72413295 GATTTTACTCTAAAGGGGCATTAC-GT
1 CATTTTACCCTACAGGGGCATTACGGT
* * *
72413321 CTATTTTGCTCTACAGGGGCATTACGAT
1 C-ATTTTACCCTACAGGGGCATTACGGT
72413349 CATTT
1 CATTT
72413354 AATGATCTCT
Statistics
Matches: 161, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.03
27 151 0.94
28 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
CATTTTACCCTACAGGGGCATTACGGT
Found at i:72418024 original size:16 final size:16
Alignment explanation
Indices: 72418003--72418036 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
72417993 GTTTGTTGGG
72418003 GTATGCCATTTACGAT
1 GTATGCCATTTACGAT
72418019 GTATGCCATTTACGAT
1 GTATGCCATTTACGAT
72418035 GT
1 GT
72418037 GTTGACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (16 bp):
GTATGCCATTTACGAT
Found at i:72424282 original size:46 final size:46
Alignment explanation
Indices: 72424215--72424477 Score: 184
Period size: 46 Copynumber: 5.7 Consensus size: 46
72424205 TGTAACCCAC
*
72424215 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCAT
* *
72424261 CCATAAGCGAATTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG-T--C--GTTCGCAT
* * * *
72424311 --TTCA-CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCAT
* * * * * *
72424354 CCATAAGTGAACTCGAACTCAACTCAATGAATTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG-T--C--GTTCGCAT
* * * * *
72424404 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTAGAT-GTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGTCGTTCGCAT
* *
72424447 CCATAAGTGAACTTGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
72424478 CTCGCATGCC
Statistics
Matches: 168, Mismatches: 30, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
42 6 0.04
43 6 0.04
44 1 0.01
45 4 0.02
46 81 0.48
47 49 0.29
48 7 0.04
49 2 0.01
50 6 0.04
51 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCAT
Found at i:72424331 original size:93 final size:93
Alignment explanation
Indices: 72424222--72424487 Score: 374
Period size: 93 Copynumber: 2.9 Consensus size: 93
72424212 CACCCATAAG
* *
72424222 CGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCATAAGCGAATTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCATCCATAAGTGAATTCGGACTCAACTCA
72424287 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
72424315 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCATCCATAAGTGAATTCGGACTCAACTCA
* * *
72424380 ATGAATTTGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
72424408 CGAACTCGGACTCAACTCAACGAGTTTAGAT-GTTTGCATCCATAAGTGAACTT-GGACTCAACT
1 CGAACTCGGACTCAACTCAACGAG-TTCGGTCGTTCGCATCCATAAGTGAA-TTCGGACTCAACT
* *
72424471 CAACGAGCTCGCATGCC
64 CAACGAGTTCGGATGCC
72424488 CAAATATTCT
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
93 146 0.97
94 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGTCGTTCGCATCCATAAGTGAATTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:72424342 original size:47 final size:47
Alignment explanation
Indices: 72424268--72424433 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 47
72424258 CATCCATAAG
*
72424268 CGAATTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
* * * * * * *
72424315 CGAACTCGGACTCAACTCAATGAGTTCGGACG-TTCGCATCCA--TAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA
* * * * *
72424360 GTGAACTCGAACTCAACTCAATGAATTTGGATGCCTAGTTACATTTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
72424408 CGAACTCGGACTCAACTCAACGAGTT
1 CGAACTCGGACTCAACTCAACGAGTT
72424434 TAGATGTTTG
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.02
46 32 0.35
47 56 0.61
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:72428019 original size:93 final size:93
Alignment explanation
Indices: 72427913--72428084 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
72427903 GCCCATAAGT
* *
72427913 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTTGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTTGCATCCATAAGTGAACTCAGACTCAAATCAA
72427978 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* ** *
72428006 GAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTTGCATCCATAAGTGAACTCAGACTCAAATCAA
*
72428071 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
72428085 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTTGCATCCATAAGTGAACTCAGACTCAAATCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:72428075 original size:46 final size:46
Alignment explanation
Indices: 72427905--72428079 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
72427895 TGTAACCTGC
* *
72427905 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
72427951 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * *
72428001 CTC-T---CGAACTCGGACTCAACTCAACGAGTTTGGGCATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
72428044 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
72428080 ATGCCCAAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 1 0.01
46 60 0.57
47 25 0.24
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:72431896 original size:39 final size:40
Alignment explanation
Indices: 72431771--72431952 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
72431761 GCTACTCGTT
*
72431771 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
72431811 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
72431851 TC-AATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
72431890 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
72431931 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
72431953 AGACATCATT
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.03
39 29 0.25
40 72 0.61
41 14 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:72431916 original size:79 final size:80
Alignment explanation
Indices: 72431748--72431902 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
72431738 CCTTTGGAAT
* *
72431748 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 TTAACCCGGATTTAG-TAACTCGTTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCA
72431811 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* * *
72431827 TTAACCCGGATTTAGTAACTCGTATC-AATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGC
1 TTAACCCGGATTTAGTAACTCGT-TCAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGC
72431889 ACAAATGCCTTCGG
64 ACAAATGCCTTCGG
72431903 ATCTTAGTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
78 1 0.01
79 38 0.57
80 26 0.39
81 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
TTAACCCGGATTTAGTAACTCGTTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
AAATGCCTTCGGGAC
Found at i:72431939 original size:79 final size:80
Alignment explanation
Indices: 72431770--72431952 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 80
72431760 AGCTACTCGT
* *
72431770 TCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 TCAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
72431834 GGATTTAGTAACTCGTA
64 GGATATAGTAACTAGCA
* * * **
72431851 TCAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 TCAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
72431914 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
72431931 -CAAAGCCTTCGGGACTTAGCCC
1 TCAAAGCCTTCGGGACTTAGCCC
72431953 AGACATCATT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.68
80 20 0.24
81 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
TCAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:72433149 original size:56 final size:56
Alignment explanation
Indices: 72433082--72433257 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
72433072 TATTAGTTTA
* *
72433082 TTGCCCATGCTTCCTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
72433138 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
72433194 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
72433250 TTGCCCAT
1 TTGCCCAT
72433258 CATCCCTTGT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:72440296 original size:16 final size:16
Alignment explanation
Indices: 72440261--72440303 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
72440251 GTAGATCGGC
**
72440261 AAAAGCCGAAATGCTG
1 AAAAGCCGAAATGCCA
*
72440277 AAAAGCCGGAATGCCA
1 AAAAGCCGAAATGCCA
*
72440293 AAAAGCTGAAA
1 AAAAGCCGAAA
72440304 GTGTGGCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:72440590 original size:29 final size:28
Alignment explanation
Indices: 72440522--72440657 Score: 102
Period size: 29 Copynumber: 4.8 Consensus size: 28
72440512 TCAATATAAT
* * *
72440522 GTGATTTGGGCC-AGATGGGCTATGTGAA
1 GTGAATTGGGCCTAG-TGGGCCATATGAA
72440550 -TGAGA-TGGGCCTAGTGGGCCATATGAA
1 GTGA-ATTGGGCCTAGTGGGCCATATGAA
* * *
72440577 TGTGAATTTGGCCTAATGGGTCATATGAA
1 -GTGAATTGGGCCTAGTGGGCCATATGAA
*
72440606 CGTAAATTGGGCC-AGATGGGCCATAT-AA
1 -GTGAATTGGGCCTAG-TGGGCCATATGAA
* *
72440634 ATGATACTGGGCCTAGTGGGCCAT
1 GTGA-ATTGGGCCTAGTGGGCCAT
72440658 GTGCATGTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
27 22 0.26
28 21 0.24
29 43 0.50
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (28 bp):
GTGAATTGGGCCTAGTGGGCCATATGAA
Found at i:72445137 original size:56 final size:56
Alignment explanation
Indices: 72445011--72445139 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 56
72445001 CCAGACAGGG
* ** * *
72445011 ACTTACACACATATATCGGAGTCACATATTGATGCCAACGTATAAAACGTGGTCTT
1 ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAACATGGTCTT
* *
72445067 ACTTGCATATATATATCCAAGTCACATATCGATGCCAACGTATAAAACATGGTCTT
1 ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAACATGGTCTT
72445123 ACTCT-CACACATATATC
1 ACT-TGCACACATATATC
72445140 AATGCCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 62 0.98
57 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (56 bp):
ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAACATGGTCTT
Found at i:72450007 original size:44 final size:42
Alignment explanation
Indices: 72449959--72450041 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 42
72449949 TAACACCACA
*
72449959 TCTAGGACATTAGCATCGACT-TATGATTTACATGTAAGACCCTG
1 TCTAGGACATCAGCATC-A-TATATGATTT-CATGTAAGACCCTG
* *
72450003 TCTAGGACATCGGCATCATATTTGATTTCATGTAAGACC
1 TCTAGGACATCAGCATCATATATGATTTCATGTAAGACC
72450042 GTATTTGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.34
43 8 0.23
44 15 0.43
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (42 bp):
TCTAGGACATCAGCATCATATATGATTTCATGTAAGACCCTG
Found at i:72450053 original size:42 final size:43
Alignment explanation
Indices: 72449958--72450083 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
72449948 GTAACACCAC
* * *
72449958 ATCTAGGACATTAGCATCGACT-TATGATTTACATGTAAGACCCT
1 ATCTAGGACAGTGGCATCGA-TATTTGATTT-CATGTAAGACCCT
* *
72450002 GTCTAGGACA-TCGGCATC-ATATTTGATTTCATGTAAGACCGT
1 ATCTAGGACAGT-GGCATCGATATTTGATTTCATGTAAGACCCT
* * * *
72450044 ATTTGGGACAGTGGCATCGATATTTGATTACATATAAGAC
1 ATCTAGGACAGTGGCATCGATATTTGATTTCATGTAAGAC
72450084 TAGGCCTGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 26 0.38
43 29 0.42
44 14 0.20
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
ATCTAGGACAGTGGCATCGATATTTGATTTCATGTAAGACCCT
Found at i:72453472 original size:27 final size:28
Alignment explanation
Indices: 72453412--72453516 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
72453402 GAAGTAGTTG
*
72453412 GGCCTAATGGGCCATATGAATGTGATTA
1 GGCCTGATGGGCCATATGAATGTGATTA
*
72453440 GGCCTGATGGGCCATA-AAATGTGATT-
1 GGCCTGATGGGCCATATGAATGTGATTA
72453466 GGACCTGATGGGCCATATGAATGTGATTA
1 GG-CCTGATGGGCCATATGAATGTGATTA
* *
72453495 GGCTTGATGGGCCATGTGAATG
1 GGCCTGATGGGCCATATGAATG
72453517 AGACTGGGCC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.03
27 23 0.33
28 42 0.61
29 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTA
Found at i:72453882 original size:27 final size:27
Alignment explanation
Indices: 72453844--72454290 Score: 381
Period size: 27 Copynumber: 16.7 Consensus size: 27
72453834 TAACAAAGAG
* ** *
72453844 AAATTATTGAAATGTCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
72453871 AAATTATCGAAATACCCCCAATTTCTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
72453898 ACATTATCGAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
72453924 GAATCATTGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
72453951 AAATTATCAAAATACCCTCGATTTCTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
72453978 AAATTA-CAGAAATACCCTC-AATTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
72454004 AAATTA-CTAAAATACCCTCGATTTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
72454031 AAATTATCGAAATACCCTTGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * * *
72454058 AAATTACCAAAACACCCTTGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
72454085 AAATTATCGAAACACCCTCGATTT-TCA
1 AAATTATCGAAATACCCTCGATTTGT-A
* * *
72454112 AAATTACCAAAATACACTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
72454139 TAATTACCGAAACACGCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
72454166 AAATTA-CTGAAACACCCT-TATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
72454192 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
72454219 AAATTATTGAAACAACCC-CGATTTGTA
1 AAATTATCGAAA-TACCCTCGATTTGTA
* * * * *
72454246 AAATTACCAAAATACCAT-TATAGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
*
72454273 AAATTACCGAAATACCCT
1 AAATTATCGAAATACCCT
72454291 TATAGTGTAA
Statistics
Matches: 344, Mismatches: 64, Indels: 24
0.80 0.15 0.06
Matches are distributed among these distances:
26 71 0.21
27 267 0.78
28 6 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:72454252 original size:80 final size:81
Alignment explanation
Indices: 72453844--72454290 Score: 413
Period size: 80 Copynumber: 5.6 Consensus size: 81
72453834 TAACAAAGAG
* ** * * * * * *
72453844 AAATTATTGAAATGTCCTCGATTTATAAAATTATCGAAATACCCCCAATTTCTAACATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTCTAAAATTACCGAA
* *
72453909 ATACCCTCGA-TTGTG
66 ACACCCTCGATTTGTA
* * * * * *
72453924 GAATCATTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTCTAAAATTACAGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTCTAAAATTACCGAA
* * *
72453989 ATACCCTC-AATTGTG
66 ACACCCTCGATTTGTA
* * * * * *
72454004 AAATTACTAAAATACCCTCGATTTGTGAAATTATCGAAATACCCTTGATTTATAAAATTACCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTCTAAAATTACCGAA
* *
72454069 ACACCCTTGATTTTTA
66 ACACCCTCGATTTGTA
* * * * *
72454085 AAATTA-TCGAAACACCCTCGATTT-TCAAAATTACCAAAATACACTCGATTTGTATAATTACCG
1 AAATTACT-GAAATACCCTCGATTTGT-AAAATTACCGAAATACCCTCGATTTCTAAAATTACCG
*
72454148 AAACACGCTCGATTTGTA
64 AAACACCCTCGATTTGTA
* * * **
72454166 AAATTACTGAAACACCCT-TATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTCTAAAATTACCGAA
72454230 ACAACCC-CGATTTGTA
66 AC-ACCCTCGATTTGTA
** * * *
72454246 AAATTACCAAAATACCAT-TATAGTGTAAAATTACCGAAATACCCT
1 AAATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
72454291 TATAGTGTAA
Statistics
Matches: 308, Mismatches: 51, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.00
80 196 0.64
81 110 0.36
82 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTCTAAAATTACCGAA
ACACCCTCGATTTGTA
Found at i:72454303 original size:134 final size:135
Alignment explanation
Indices: 72453869--72454290 Score: 416
Period size: 134 Copynumber: 3.1 Consensus size: 135
72453859 CCTCGATTTA
* * * * * * * * ** * **
72453869 TAAAATTATCGAAATACCCCCAATTTCTAACATTATCGAAATACCCTCGA-TTGTGGAATCATTG
1 TAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTTGATTTATAAAATTACCG
* *
72453933 AAATACCCTCGATTTGTAAAATTA-TCAAA-ATACCCTCGATTTCTAAAATTA-CAGAAATACCC
66 AAATACCCTCGATTTGTAAAATTATTGAAACA-ACCCTCGATTT-TAAAATTACCA-AAATACCA
72453995 TCA-ATTG
128 TCATATTG
* ** * * *
72454002 TGAAATTACTAAAATACCCTCGATTTGTGAAATTATCGAAATACCCTTGATTTATAAAATTACCA
1 TAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTTGATTTATAAAATTACCG
* * * *
72454067 AAACACCCTTGATTTTTAAAATTATCGAAAC-ACCCTCGATTTTCAAAATTACCAAAATA-CACT
66 AAATACCCTCGATTTGTAAAATTATTGAAACAACCCTCGATTTT-AAAATTACCAAAATACCA-T
72454130 CGAT-TTG
129 C-ATATTG
* * * *
72454137 TATAATTACCGAAACACGCTCGATTTGTAAAATTA-CTGAAACACCCTT-ATTTGTAAAATTACC
1 TAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAACACCCTTGATTTATAAAATTACC
72454200 GAAATACCCTCGATTTGTAAAATTATTGAAACAACCC-CGATTTGTAAAATTACCAAAATACCAT
65 GAAATACCCTCGATTTGTAAAATTATTGAAACAACCCTCGATTT-TAAAATTACCAAAATACCAT
* *
72454264 TATAGTG
129 CATATTG
72454271 TAAAATTACCGAAATACCCT
1 TAAAATTACCGAAATACCCT
72454291 TATAGTGTAA
Statistics
Matches: 234, Mismatches: 42, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
133 44 0.19
134 136 0.58
135 54 0.23
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (135 bp):
TAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTTGATTTATAAAATTACCG
AAATACCCTCGATTTGTAAAATTATTGAAACAACCCTCGATTTTAAAATTACCAAAATACCATCA
TATTG
Found at i:72461979 original size:30 final size:30
Alignment explanation
Indices: 72461943--72462003 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
72461933 TTCCCGAGCC
72461943 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
72461973 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
72462003 T
1 T
72462004 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:72479501 original size:22 final size:22
Alignment explanation
Indices: 72479473--72479524 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
72479463 ACACTTTTAA
72479473 CGTTGATCGGCTATTGACCAAT
1 CGTTGATCGGCTATTGACCAAT
72479495 CGTTGATCGGCTATTGACCAAT
1 CGTTGATCGGCTATTGACCAAT
*
72479517 CATTGATC
1 CGTTGATC
72479525 AAGTGTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (22 bp):
CGTTGATCGGCTATTGACCAAT
Found at i:72479533 original size:22 final size:22
Alignment explanation
Indices: 72479475--72479541 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
72479465 ACTTTTAACG
* *
72479475 TTGATCGGCTATTGACCAATCG
1 TTGATCAGCTATTGACCAATCA
*
72479497 TTGATCGGCTATTGACCAATCA
1 TTGATCAGCTATTGACCAATCA
*
72479519 TTGATCAAG-TGTTGACCAATCA
1 TTGATC-AGCTATTGACCAATCA
72479541 T
1 T
72479542 GTGGCGCTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGATCAGCTATTGACCAATCA
Found at i:72479903 original size:27 final size:28
Alignment explanation
Indices: 72479873--72479925 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 28
72479863 TAATTTCTTG
72479873 AATTTCTTTTGTA-AATTT-TAT-TTTTAT
1 AATTT-TTTT-TACAATTTATATGTTTTAT
72479900 AATTTTTTTTACAATTTATATGTTTT
1 AATTTTTTTTACAATTTATATGTTTT
72479926 GTTCTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 2 0.09
26 9 0.39
27 8 0.35
28 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (28 bp):
AATTTTTTTTACAATTTATATGTTTTAT
Found at i:72479940 original size:21 final size:20
Alignment explanation
Indices: 72479914--72479957 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
72479904 TTTTTTACAA
72479914 TTTATATGT-TTTGTTCTAGAT
1 TTTATATGTATTT-TTCTAG-T
72479935 TTTATATGTATTTTTCTAGT
1 TTTATATGTATTTTTCTAGT
72479955 TTT
1 TTT
72479958 CTTTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 15 0.68
22 3 0.14
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (20 bp):
TTTATATGTATTTTTCTAGT
Found at i:72480878 original size:9 final size:11
Alignment explanation
Indices: 72480845--72480877 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
72480835 TAAATTGAAA
*
72480845 ATAA-TAATTT
1 ATAATTAATAT
72480855 ATAATTAATAT
1 ATAATTAATAT
72480866 ATAATTAATAT
1 ATAATTAATAT
72480877 A
1 A
72480878 AATATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATTAATAT
Found at i:72480881 original size:17 final size:18
Alignment explanation
Indices: 72480843--72480884 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
72480833 ATTAAATTGA
*
72480843 AAATA-ATAATTTATAAT
1 AAATATATAATTAATAAT
*
72480860 TAATATATAATTAAT-AT
1 AAATATATAATTAATAAT
72480877 AAATATAT
1 AAATATAT
72480885 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATAATTAATAAT
Found at i:72481410 original size:24 final size:24
Alignment explanation
Indices: 72481366--72481411 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
72481356 ACCCTTTAAG
* *
72481366 ATATAGTATAGGATTATATAATAT
1 ATATAGTATAGGACTAAATAATAT
72481390 ATATAGTTATA-GACTAAATAAT
1 ATATAG-TATAGGACTAAATAAT
72481412 GGATGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (24 bp):
ATATAGTATAGGACTAAATAATAT
Found at i:72481526 original size:3 final size:3
Alignment explanation
Indices: 72481520--72481571 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
72481510 CTAAAAGAAG
72481520 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
72481568 ATA A
1 ATA A
72481572 AGGAGTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:72484584 original size:29 final size:29
Alignment explanation
Indices: 72484532--72484587 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
72484522 CATGGTTGGA
*
72484532 ACACACGCCCATGGGGCAAGCCGTGTGTC
1 ACACACGCCCATGGGGCAACCCGTGTGTC
* * *
72484561 ACACACGCCCATGTGTCTACCCGTGTG
1 ACACACGCCCATGGGGCAACCCGTGTG
72484588 GACAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.18
Consensus pattern (29 bp):
ACACACGCCCATGGGGCAACCCGTGTGTC
Found at i:72486708 original size:46 final size:47
Alignment explanation
Indices: 72486619--72486742 Score: 128
Period size: 46 Copynumber: 2.6 Consensus size: 47
72486609 GGGGTCAGGT
* * *
72486619 GCCGATGCCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGAAGCCATGTCCCAGACATGTCTTACATTAGCTTACGTCTCAAG
* * * *
72486666 GTCGAAG-CATGTCCTAGACATGTCTTAC-TCTAGCATT-TGTCTCAAT
1 GCCGAAGCCATGTCCCAGACATGTCTTACAT-TAGC-TTACGTCTCAAG
*
72486712 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGAAGCCATGTCCCAGACAT-GTCTTACA
72486743 CTGGCTCTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 34 0.55
47 20 0.32
48 7 0.11
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (47 bp):
GCCGAAGCCATGTCCCAGACATGTCTTACATTAGCTTACGTCTCAAG
Found at i:72486778 original size:94 final size:93
Alignment explanation
Indices: 72486618--72486793 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 93
72486608 TGGGGTCAGG
* * * *
72486618 TGCCGATGCCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCGAGGTCGAAGCATGTCCTAG
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGAAGCATGTCCTAG
*
72486683 ACATGTCTTACTCTAGCATTTGTCTCAA
66 ACATGTCTTACACTAGCATTTGTCTCAA
* *
72486711 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGAAGCATGTCC
72486774 TAGACATGTCTTACACTAGC
63 TAGACATGTCTTACACTAGC
72486794 TCACACAAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 23 0.32
94 48 0.66
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGAAGCATGTCCTAG
ACATGTCTTACACTAGCATTTGTCTCAA
Found at i:72488210 original size:42 final size:42
Alignment explanation
Indices: 72488163--72488276 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
72488153 TACCATTCCA
* * *
72488163 ATGCCATATCCCAGATATGGCCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
72488205 ATGCCAATAGT-CCAGCTATGGTTTTACACGAAGTCTCATATTG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
72488248 ATGCCATATCCCAGATATAGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
72488277 TAATCTTAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.54
44 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:72489601 original size:42 final size:42
Alignment explanation
Indices: 72489524--72489650 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
72489514 ATATTTGATC
* * * *
72489524 CATTTTATTCGATGATGCACTTATGTTCCAGTATAATTGCTT
1 CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
*
72489566 CATTATATTCAATGATGCACTTAAGTGCCAATATAATTGCTT
1 CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
*
72489608 CGA-TATA-TCTGATGATGCACTTACA-TGCCAATATATTTGCTT
1 C-ATTATATTC-GATGATGCACTTA-AGTGCCAATATAATTGCTT
72489650 C
1 C
72489651 GGTACATCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
Found at i:72489665 original size:42 final size:42
Alignment explanation
Indices: 72489535--72489679 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
72489525 ATTTTATTCG
** * * * *
72489535 ATGATGCACTTATGTTCCAGTATAATTGCTTC-ATTATATTCA
1 ATGATGCACTTACATGCCAATATAATTGCTTCGA-TACATCCA
* **
72489577 ATGATGCACTTA-AGTGCCAATATAATTGCTTCGATATATCTG
1 ATGATGCACTTACA-TGCCAATATAATTGCTTCGATACATCCA
* *
72489619 ATGATGCACTTACATGCCAATATATTTGCTTCGGTACATCCA
1 ATGATGCACTTACATGCCAATATAATTGCTTCGATACATCCA
* * *
72489661 ATGATACATTTACTTGCCA
1 ATGATGCACTTACATGCCA
72489680 GCATGATTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 84 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (42 bp):
ATGATGCACTTACATGCCAATATAATTGCTTCGATACATCCA
Found at i:72494611 original size:42 final size:42
Alignment explanation
Indices: 72494496--72494663 Score: 158
Period size: 42 Copynumber: 3.9 Consensus size: 42
72494486 AGTAAGATGC
* * **
72494496 CAATGCGATATCCCAGATATGGTCTTACATGGGATCACATATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCAC--ATAT
* * * * ** * *
72494540 CGATGCCGATAGCCTAGCTATGGTCTTACACGATGTCTCGTAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATAT
*
72494583 -AGATGCCATGTCCCAGATATGGTCTTACACGAAATCACATAT
1 CA-ATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
* *
72494625 CAATTCCATATCCCAGATATGGTCTTACATGAAATCACA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACA
72494664 CAACCCTAGT
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 61 0.62
43 9 0.09
44 5 0.05
45 23 0.23
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
Found at i:72495236 original size:21 final size:22
Alignment explanation
Indices: 72495206--72495246 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
72495196 TAGTAAAAGT
72495206 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
72495228 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
72495247 CAAAACTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:72504560 original size:46 final size:47
Alignment explanation
Indices: 72504510--72504691 Score: 196
Period size: 46 Copynumber: 3.9 Consensus size: 47
72504500 ACACTGTCAG
72504510 ATCTCGTA-GCCGATGCATATCCCAAACATGTCTTACACTGGCT-TAC
1 ATCTCGTAGGCCGATGCATATCCCAAACATGTCTTACACTGGCTCT-C
* * *
72504556 ATCTCG-AGGCTGATGCATATCCCAGACATGTCTTACACTAGCTCTC
1 ATCTCGTAGGCCGATGCATATCCCAAACATGTCTTACACTGGCTCTC
* * * *
72504602 GTCTC-AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
1 ATCTCGTAGGCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTCTC
* * *
72504650 ATAAT-GT-GGCCGATGCATGTCCCAAATATGTCTTACACTGGC
1 AT-CTCGTAGGCCGATGCATATCCCAAACATGTCTTACACTGGC
72504692 ACACAGTTAA
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 63 0.55
47 26 0.23
48 24 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
ATCTCGTAGGCCGATGCATATCCCAAACATGTCTTACACTGGCTCTC
Found at i:72504649 original size:48 final size:47
Alignment explanation
Indices: 72504324--72504647 Score: 229
Period size: 46 Copynumber: 6.9 Consensus size: 47
72504314 CATAGGGTAT
* *
72504324 AATGCCGATGCCATGTCCCAGACATGTTCTTACACGGGC-CCATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCAT-C-TC
** * * *
72504372 AA-GATGATGACATGTCCCAGACATAGTCTTACACTAGGTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GG-CTC-CATCTC
** * * * *
72504421 TGTACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACC-TCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
* *
72504466 ATATGTACCGATGCCATGTCCCAGATATGGTCTTACACT-G-TCAGATCTC
1 A-ATG--CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
* * * *
72504515 -GTAGCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTTACATCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCCATCTC
* * * * * *
72504561 GAGGCTGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
*
72504607 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
72504648 TCATAATGTG
Statistics
Matches: 212, Mismatches: 45, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
44 10 0.05
45 13 0.06
46 58 0.27
47 42 0.20
48 54 0.25
49 4 0.02
50 28 0.13
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
Found at i:72504662 original size:48 final size:46
Alignment explanation
Indices: 72504377--72504691 Score: 175
Period size: 46 Copynumber: 6.7 Consensus size: 46
72504367 CCATCAAGAT
* * *
72504377 GATGACATGTCCCAGACATAGTCTTACACTAGG-TCTCACATATCTGTACC
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GGCTCTCATA-ATGTG-GCC
* * * *
72504427 GATGCCATGTCCCAGTCATGGTCTTACACTGACACCTC-TATATGT-ACC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-TCTCATA-ATGTGGCC
* ** * *
72504475 GATGCCATGTCCCAGATATGGTCTTACACT-G-TCAGAT-CTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-GTGGCC
* * * * *
72504521 GATGCATATCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GTGGCC
* * *
72504567 GATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAA--T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATGTGGCC
*
72504613 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTGGCC
* *
72504661 GATGCATGTCCCAAATATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
72504692 ACACAGTTAA
Statistics
Matches: 213, Mismatches: 34, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 67 0.31
47 27 0.13
48 55 0.26
49 1 0.00
50 32 0.15
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:72504665 original size:94 final size:92
Alignment explanation
Indices: 72504425--72504689 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 92
72504415 CATATCTGTA
** * * *
72504425 CCGATGCCATGTCCCAGTCATGGTCTTACACTGACACCTC-TATATGT-ACCGATGCCATGTCCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGC-TCTCATA-ATGTGGCCGATG-CATGTCCC
*
72504488 AGATATGGTCTTACACTGTCAGATCTCGTAG
63 AGATAT-GTCTTACACTGTCAGATCTCATAG
* * * * *
72504519 CCGATG-CATATCCCAAACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCTGATGCATATCCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCA
* *
72504580 GACATGTCTTACACTAGCTCTCG-TCTCA-ATG
64 GATATGTCTTACACT-G-TC-AGATCTCATA-G
*
72504611 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
72504676 TATGTCTTACACTG
66 TATGTCTTACACTG
72504690 GCACACAGTT
Statistics
Matches: 139, Mismatches: 20, Indels: 25
0.76 0.11 0.14
Matches are distributed among these distances:
90 12 0.09
91 16 0.12
92 31 0.22
93 26 0.19
94 52 0.37
95 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
TATGTCTTACACTGTCAGATCTCATAG
Found at i:72512244 original size:47 final size:47
Alignment explanation
Indices: 72512183--72512395 Score: 158
Period size: 47 Copynumber: 4.6 Consensus size: 47
72512173 CGAGGCCGAC
* *
72512183 GCCATTTCCCAGACATGGTCTTACACTGACACCTCTATAGTGCAGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACACATCTATAGTGCAGAT
*
72512230 GCCATGTCCCAGACATGGTCTTACAATGACACATCT-T-GTAGCTA-AT
1 GCCATGTCCCAGACATGGTCTTACACTGACACATCTATAGT-GC-AGAT
* * * ** *
72512276 G-CATGTCCCAAACAT-GTCTTACAGTGGCTTACATCTCGAG-GCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATAGTGCAGAT
* * * * *
72512322 G-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCGTCTCAATACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TAT-AGTGCAGAT
*
72512368 GCCATATCCCAGACATGGTCTTACACTG
1 GCCATGTCCCAGACATGGTCTTACACTG
72512396 GCTCTCATAA
Statistics
Matches: 136, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.10
45 16 0.12
46 46 0.34
47 47 0.35
48 11 0.08
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACACATCTATAGTGCAGAT
Found at i:72512367 original size:46 final size:46
Alignment explanation
Indices: 72512274--72512443 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 46
72512264 CTTGTAGCTA
* * * *
72512274 ATGCATGTCCCAAACATGTCTTACAGTGGCT-TACATCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGACCG
* * *
72512320 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATACCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGACCG
* * ** * *
72512366 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAGACCG
* *
72512414 ATGCATGTCCAATACATGTCTTACACTGGC
1 ATGCATGTCCCAGACATGTCTTACACTGGC
72512444 ACACAATTAA
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 53 0.52
47 25 0.25
48 22 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGACCG
Found at i:72514158 original size:27 final size:26
Alignment explanation
Indices: 72514113--72514223 Score: 73
Period size: 27 Copynumber: 4.1 Consensus size: 26
72514103 TGGCTGCCAA
* * *
72514113 AACAGATATTGTGATAGAGTCACCAG
1 AACAGATATTGGGACAGAGCCACCAG
*
72514139 ATACAGATATTGGGGCAGAGCCACCAG
1 A-ACAGATATTGGGACAGAGCCACCAG
* * * *
72514166 AACAAATATTTGTGG-GATAGCCACTAG
1 AACAGATA-TTG-GGACAGAGCCACCAG
*
72514193 AAACAGATATTTGTGG-CATAGCCACCAG
1 -AACAGATA-TTG-GGACAGAGCCACCAG
72514221 AAC
1 AAC
72514224 GCTTCCTCCA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 37 0.53
28 26 0.37
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGGGACAGAGCCACCAG
Found at i:72514204 original size:28 final size:28
Alignment explanation
Indices: 72514133--72514222 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
72514123 GTGATAGAGT
* *
72514133 CACCAGATACAGATA-TTG-GGGCAGAGC
1 CACCAGAAACAGATATTTGTGGG-ATAGC
*
72514160 CACCAG-AACAAATATTTGTGGGATAGC
1 CACCAGAAACAGATATTTGTGGGATAGC
* *
72514187 CACTAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGGATAGC
72514215 CACCAGAA
1 CACCAGAA
72514223 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 6 0.11
27 18 0.34
28 29 0.55
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGGATAGC
Found at i:72515312 original size:18 final size:17
Alignment explanation
Indices: 72515272--72515304 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72515262 GGGTTCAGCT
72515272 ATGG-AGAAAAAAAAAG
1 ATGGAAGAAAAAAAAAG
*
72515288 ATGGAAGAAAAGAAAAG
1 ATGGAAGAAAAAAAAAG
72515305 GTGAGAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
ATGGAAGAAAAAAAAAG
Found at i:72516031 original size:18 final size:18
Alignment explanation
Indices: 72515997--72516032 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72515987 CTAGAATTTA
*
72515997 TTGAAAATCACAGAAATT
1 TTGAAAATCACAAAAATT
*
72516015 TTGAAAATCCCAAAAATT
1 TTGAAAATCACAAAAATT
72516033 GGGGCGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (18 bp):
TTGAAAATCACAAAAATT
Found at i:72524193 original size:18 final size:19
Alignment explanation
Indices: 72524170--72524209 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
72524160 TAAATTAAAT
72524170 AAAAAGGACAAAATCGT-A
1 AAAAAGGACAAAATCGTGA
72524188 AAAAAGGACAAAATCGTGA
1 AAAAAGGACAAAATCGTGA
72524207 AAA
1 AAA
72524210 CTGCAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.62, C:0.10, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAAAGGACAAAATCGTGA
Found at i:72528627 original size:18 final size:18
Alignment explanation
Indices: 72528585--72528627 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
72528575 GCCCATTCCG
* *
72528585 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
72528603 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
72528621 AAGTATG
1 AAGTATG
72528628 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:72529155 original size:28 final size:27
Alignment explanation
Indices: 72529098--72529250 Score: 216
Period size: 27 Copynumber: 5.6 Consensus size: 27
72529088 TAAATTGTGC
*
72529098 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
72529125 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
72529153 AGCACTAAGTGTGCAAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
72529180 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
72529208 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
72529235 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
72529251 ACTTATTATA
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 66 0.57
28 50 0.43
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:72529162 original size:55 final size:55
Alignment explanation
Indices: 72529098--72529250 Score: 227
Period size: 55 Copynumber: 2.8 Consensus size: 55
72529088 TAAATTGTGC
*
72529098 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
* *
72529153 AGCACTAAGTGTGC-AAGTTGACTATGTAGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAA-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
* * * *
72529208 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA
72529251 ACTTATTATA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.02
55 85 0.97
56 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
Found at i:72536806 original size:18 final size:18
Alignment explanation
Indices: 72536764--72536806 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
72536754 GCCCATTCCG
* *
72536764 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
72536782 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
72536800 AAGTATG
1 AAGTATG
72536807 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:72537333 original size:28 final size:27
Alignment explanation
Indices: 72537276--72537427 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
72537266 TAAATTGTGC
*
72537276 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
72537303 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
72537331 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
72537358 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
72537386 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
72537413 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
72537428 GACTTATTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:72537340 original size:55 final size:55
Alignment explanation
Indices: 72537276--72537427 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
72537266 TAAATTGTGC
* *
72537276 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
*
72537331 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
* * *
72537386 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
72537428 GACTTATTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
Found at i:72540340 original size:33 final size:32
Alignment explanation
Indices: 72540303--72540380 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
72540293 TGGCCCTACC
** * *
72540303 ATGGTCTTACATTTGTAGTACCATAACCCAGTT
1 ATGGTCTTACATCAG-AATACCATAACCCAGCT
* *
72540336 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATACCATAACCCAGCT
72540369 ATGGTCTTACAT
1 ATGGTCTTACAT
72540381 ATAAATACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 31 0.82
34 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATACCATAACCCAGCT
Found at i:72540426 original size:68 final size:66
Alignment explanation
Indices: 72540354--72540479 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
72540344 ATCATCAGAA
* * * *
72540354 TGCCATAGCCCAGCTATGGTC-TTACATATAAATACTGCCATGGTCCAACCATGGTCTTACGTCC
1 TGCCATAACCCAGCTAAGGTCTTTACAT-TAAA-A-TGCCATAGACCAACCATGGTCTTACGTCC
72540418 AAGG
63 AAGG
* * *
72540422 TGCCATAACCCAGTTAAGGTCTTTTCATTAAAATGCCATAGACCAACTATGGTCTTAC
1 TGCCATAACCCAGCTAAGGTCTTTACATTAAAATGCCATAGACCAACCATGGTCTTAC
72540480 ATATAAATAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
66 22 0.44
67 1 0.02
68 22 0.44
69 5 0.10
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (66 bp):
TGCCATAACCCAGCTAAGGTCTTTACATTAAAATGCCATAGACCAACCATGGTCTTACGTCCAAG
G
Found at i:72540428 original size:101 final size:101
Alignment explanation
Indices: 72540323--72540516 Score: 316
Period size: 101 Copynumber: 1.9 Consensus size: 101
72540313 ATTTGTAGTA
* * * *
72540323 CCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAATA
1 CCATAACCCAGTTAAGGTCTTATCATCAAAATGCCATAGACCAACTATGGTCTTACATATAAATA
72540388 CTGCCATGGTCCAACCATGGTCTTACGTCCAAGGTG
66 CTGCCATGGTCCAACCATGGTCTTACGTCCAAGGTG
* *
72540424 CCATAACCCAGTTAAGGTCTTTTCATTAAAATGCCATAGACCAACTATGGTCTTACATATAAATA
1 CCATAACCCAGTTAAGGTCTTATCATCAAAATGCCATAGACCAACTATGGTCTTACATATAAATA
* *
72540489 CTGTCATGGTCCTACCATGGTCTTACGT
66 CTGCCATGGTCCAACCATGGTCTTACGT
72540517 TCAATTCATC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 85 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (101 bp):
CCATAACCCAGTTAAGGTCTTATCATCAAAATGCCATAGACCAACTATGGTCTTACATATAAATA
CTGCCATGGTCCAACCATGGTCTTACGTCCAAGGTG
Found at i:72543910 original size:26 final size:26
Alignment explanation
Indices: 72543881--72543962 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
72543871 TGATACAAAT
72543881 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72543907 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72543933 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72543959 TGAT
1 TGAT
72543963 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72552083 original size:26 final size:26
Alignment explanation
Indices: 72552054--72552135 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
72552044 TGATATAAAT
72552054 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72552080 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72552106 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72552132 TGAT
1 TGAT
72552136 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72578120 original size:25 final size:26
Alignment explanation
Indices: 72578062--72578141 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
72578052 TGATACAAAT
72578062 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72578088 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
72578113 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72578138 TGAT
1 TGAT
72578142 GGGATTTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 15 0.28
25 15 0.28
26 23 0.43
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72591095 original size:10 final size:10
Alignment explanation
Indices: 72591072--72591123 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
72591062 ATGTGAATCT
*
72591072 ATCATAAATAA
1 ATCA-AAATTA
72591083 ATCAAAATTA
1 ATCAAAATTA
72591093 ATCAAAATTTA
1 ATCAAAA-TTA
*
72591104 ATATAAAATTA
1 AT-CAAAATTA
*
72591115 ATTAAAATT
1 ATCAAAATT
72591124 CAACATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 19 0.51
11 14 0.38
12 4 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:72596955 original size:25 final size:25
Alignment explanation
Indices: 72596912--72597009 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
72596902 GTACATGTAT
* **
72596912 GCTCATATGAGCT-ATGAATCAATAA
1 GCTCATACGAGCTGA-GAATCGGTAA
*
72596937 GCTCATACGAGTTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
*
72596962 GCTC-TCACAAGCTGA-AATCGGTAA
1 GCTCAT-ACGAGCTGAGAATCGGTAA
*
72596986 GCTCATACGAGCTGA-AATTGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
72597010 TCCCTAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 30 0.48
25 31 0.50
26 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:72596983 original size:24 final size:24
Alignment explanation
Indices: 72596934--72597009 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
72596924 TATGAATCAA
* *
72596934 TAAGCTCATACGAGTTGAGAATCGG
1 TAAGCTCATACAAGCTGA-AATCGG
72596959 TAAGCTC-TCACAAGCTGAAATCGG
1 TAAGCTCAT-ACAAGCTGAAATCGG
* *
72596983 TAAGCTCATACGAGCTGAAATTGG
1 TAAGCTCATACAAGCTGAAATCGG
72597007 TAA
1 TAA
72597010 TCCCTAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
24 30 0.67
25 15 0.33
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
TAAGCTCATACAAGCTGAAATCGG
Found at i:72600708 original size:102 final size:104
Alignment explanation
Indices: 72600531--72600732 Score: 293
Period size: 102 Copynumber: 2.0 Consensus size: 104
72600521 ATATCGATAC
* * * *
72600531 AACTTCCCAAACTTGTATAAAACAAGTTTAAAACACTTAAAGACATTTTTGATTGACTCAAAAAT
1 AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGACATTTTGGATTGACACAAAAAT
*
72600596 GTTTAGATAAATTAAAATACATTTAAAATA-AGTTATAT
66 ATTTAGATAAATTAAAATACATTTAAAATATAGTTATAT
** *
72600634 AACTTCCCAAACTTGAATAAAATGAGTTTAAAACAC-CAAA-ATCATTTTGGATTGGCACAAAAA
1 AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGA-CATTTTGGATTGACACAAAAA
*
72600697 TATTTAGATAAATTAAAATACATTTAGAATATAGTT
65 TATTTAGATAAATTAAAATACATTTAAAATATAGTT
72600733 TTGAGTACTT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 1 0.01
102 50 0.57
103 37 0.42
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (104 bp):
AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGACATTTTGGATTGACACAAAAAT
ATTTAGATAAATTAAAATACATTTAAAATATAGTTATAT
Found at i:72615100 original size:23 final size:24
Alignment explanation
Indices: 72615050--72615102 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
72615040 TTGTTTTATT
* *
72615050 TTTATTTTTATTTTTTTGCCCTTA
1 TTTATTTTTATTTTATTGCCATTA
72615074 -TTATTTTTATTTTATT-CCATTA
1 TTTATTTTTATTTTATTGCCATTA
72615096 TTTATTT
1 TTTATTT
72615103 ATTCATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTTTTATTTTATTGCCATTA
Found at i:72615105 original size:16 final size:16
Alignment explanation
Indices: 72615071--72615110 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
72615061 TTTTTTGCCC
72615071 TTATT-ATT-TTTATT
1 TTATTCATTATTTATT
72615085 TTATTCCATTATTTA-T
1 TTATT-CATTATTTATT
72615101 TTATTCATTA
1 TTATTCATTA
72615111 CTTTTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 9 0.39
17 4 0.17
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTCATTATTTATT
Found at i:72620364 original size:13 final size:13
Alignment explanation
Indices: 72620346--72620388 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
72620336 TAGATTTTTC
72620346 CTAAATATTATTA
1 CTAAATATTATTA
72620359 CTAAATA--ATT-
1 CTAAATATTATTA
*
72620369 CTAAATATTATCA
1 CTAAATATTATTA
72620382 CTAAATA
1 CTAAATA
72620389 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:72620376 original size:23 final size:23
Alignment explanation
Indices: 72620346--72620397 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
72620336 TAGATTTTTC
*
72620346 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
72620369 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
72620392 CAAAAT
1 CTAAAT
72620398 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:72622564 original size:11 final size:11
Alignment explanation
Indices: 72622533--72622574 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
72622523 AAGCATAGCT
72622533 TTAATTAAGTG
1 TTAATTAAGTG
72622544 ATTCAATTAAGTG
1 -TT-AATTAAGTG
72622557 TTAATTAA-TG
1 TTAATTAAGTG
72622567 TTATATTA
1 TTA-ATTA
72622575 TATCTGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.18
11 10 0.36
12 4 0.14
13 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (11 bp):
TTAATTAAGTG
Found at i:72640416 original size:40 final size:37
Alignment explanation
Indices: 72640361--72640527 Score: 166
Period size: 35 Copynumber: 4.6 Consensus size: 37
72640351 CATGGCAAAG
*
72640361 TGTGAAATGTAGGTATGGTATCATC-T-ATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCATACTGAGT
* *
72640396 TGTGAAAAGTAGGTATGGTATTATC--CATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCATCATACTGAGT
72640431 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATC--AT-CATACTGAGT
** * * *
72640471 TAAGAAATGTAGGTATGGCATT-TC-CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCATACTGAGT
** *
72640506 TGAAAAATATAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
72640528 TCAATGAGGA
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
35 82 0.73
39 2 0.02
40 28 0.25
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTATCATCATACTGAGT
Found at i:72640499 original size:75 final size:75
Alignment explanation
Indices: 72640361--72640531 Score: 194
Period size: 75 Copynumber: 2.4 Consensus size: 75
72640351 CATGGCAAAG
* ** *
72640361 TGTGAAATGTAGGTATGG---TATC--ATCTATACTGAGTTGTGAAAAGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTATC
*
72640421 CATACTGAGC
66 CATACCGAGC
*
72640431 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTAT-
*
72640495 CCATACCGAGT
65 CCATACCGAGC
** *
72640506 TGAAAAATATAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
72640532 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 58 0.68
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTATC
CATACCGAGC
Found at i:72645691 original size:23 final size:23
Alignment explanation
Indices: 72645665--72645710 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
72645655 AGATTTTTCT
* *
72645665 TAAATATTATTATTAAATAATTC
1 TAAATATTATCACTAAATAATTC
72645688 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
72645711 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:72646698 original size:19 final size:18
Alignment explanation
Indices: 72646665--72646701 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
72646655 AAAATATATT
*
72646665 TTTAATTTTGATAATTTA
1 TTTAATTTAGATAATTTA
72646683 TTTAACTTTAGATAATTTA
1 TTTAA-TTTAGATAATTTA
72646702 AAACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTAATTTAGATAATTTA
Found at i:72658939 original size:25 final size:25
Alignment explanation
Indices: 72658911--72658988 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
72658901 CTCGGCTCTG
72658911 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
** * * *
72658936 TCACAT-T-GGC-CATTCGGC-CTCA
1 TCACATATATACACTTTC-ACATTCA
72658958 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
72658983 TCACAT
1 TCACAT
72658989 CGGCTATTAG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.34
23 3 0.08
24 3 0.08
25 19 0.50
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:72659081 original size:49 final size:47
Alignment explanation
Indices: 72658860--72659218 Score: 531
Period size: 47 Copynumber: 7.6 Consensus size: 47
72658850 CCCTTCGGGA
* * * * * *
72658860 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
72658906 CTCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72658954 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72659001 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72659048 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72659097 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72659146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72659193 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
72659219 CACAATTATC
Statistics
Matches: 291, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72659254 original size:96 final size:95
Alignment explanation
Indices: 72658860--72659218 Score: 519
Period size: 96 Copynumber: 3.8 Consensus size: 95
72658850 CCCTTCGGGA
* * * * * * * *
72658860 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
*
72658924 CTTTCACATTCATCACATTGGCCATT-CGGC
65 CATTCACATTCATCACATTGGCCATTACGGC
* * *
72658954 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
72659019 TTTCACATTCATCACATCGGCCATTA-GGC
66 ATTCACATTCATCACATTGGCCATTACGGC
72659048 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
72659113 ACACTTTCACATTCATCACATTGGCCATT-CGGC
64 ACA--TTCACATTCATCACATTGGCCATTACGGC
72659146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
72659211 ATTCACAT
66 ATTCACAT
72659219 CACAATTATC
Statistics
Matches: 243, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
94 94 0.39
95 2 0.01
96 113 0.47
98 34 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATTGGCCATTACGGC
Found at i:72665541 original size:25 final size:25
Alignment explanation
Indices: 72665508--72665590 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
72665498 AGTAAGTTGC
*
72665508 ATATGAATAAATATACAACAACAAT
1 ATATCAATAAATATACAACAACAAT
**
72665533 ATATCAAT--A-AT-CAACATA-GTT
1 ATATCAATAAATATACAACA-ACAAT
*
72665554 GCATATGAATAAATATACAACAACAAT
1 --ATATCAATAAATATACAACAACAAT
72665581 ATATCAATAA
1 ATATCAATAA
72665591 TCAACATACT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 8 0.19
25 17 0.40
26 3 0.07
27 6 0.14
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (25 bp):
ATATCAATAAATATACAACAACAAT
Found at i:72665573 original size:48 final size:48
Alignment explanation
Indices: 72665502--72665598 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
72665492 AAGCTTAGTA
72665502 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
72665550 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
72665598 A
1 A
72665599 CTCATAATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (48 bp):
AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
Found at i:72665949 original size:46 final size:45
Alignment explanation
Indices: 72665853--72666069 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 45
72665843 CATCTTAAGT
* *
72665853 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATTATCTAGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CT-TCATCTCG-AGGC
72665901 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGC
* * * * * * *
72665947 CGATGCATATCCCAGAAAAGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTCATCTCGAGGC
* * *
72665993 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCAT-CTCGAGGC
* *
72666041 CGATGCATATCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
72666070 GGCCCACATC
Statistics
Matches: 140, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 71 0.51
47 39 0.28
48 27 0.19
49 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAGGC
Found at i:72666043 original size:94 final size:92
Alignment explanation
Indices: 72665899--72666069 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 92
72665889 TTATCTAGTA
*
72665899 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATATCCCAGAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCA-AA
72665964 -AAGTCTTACACTAGCACTCGTCTCAAT
65 CAAGTCTTACACTAGCACTCGTCTCAAT
* *
72665991 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATATCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATATCCC
*
72666054 AAACATGTCTTACACT
62 AAACAAGTCTTACACT
72666070 GGCCCACATC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
92 7 0.10
93 16 0.23
94 45 0.64
95 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCAAAC
AAGTCTTACACTAGCACTCGTCTCAAT
Found at i:72672784 original size:22 final size:20
Alignment explanation
Indices: 72672748--72672794 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
72672738 ATGGGGCAAA
72672748 CGTGTGTATAGACACACGCC
1 CGTGTGTATAGACACACGCC
72672768 CGTGTGTATAGACACACGCC
1 CGTGTGTATAGACACACGCC
72672788 CGTGTGT
1 CGTGTGT
72672795 CTACCCGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (20 bp):
CGTGTGTATAGACACACGCC
Found at i:72673974 original size:7 final size:7
Alignment explanation
Indices: 72673962--72673987 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
72673952 ATAACTTATT
72673962 ACCCTAA
1 ACCCTAA
72673969 ACCCTAA
1 ACCCTAA
72673976 ACCCTAA
1 ACCCTAA
72673983 ACCCT
1 ACCCT
72673988 TTAATTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:72674863 original size:46 final size:46
Alignment explanation
Indices: 72674742--72674863 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
72674732 GCCCATAAAC
** *
72674742 GAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCATGCATAAGT
1 GAACTCAGACTCAACTCAACGAG-TTCGGATGTTCGCATCCATAAGT
*
72674788 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
72674834 GAACTCAGACTCAACTCAACGAGTTCGGAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAT
72674864 ACCTAGTTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
Found at i:72676399 original size:47 final size:47
Alignment explanation
Indices: 72676326--72676602 Score: 219
Period size: 47 Copynumber: 5.9 Consensus size: 47
72676316 TGGGTAAGGT
* *
72676326 GCCGATGCCATGTCTCAGACACGGTCTTACACTGGCTCACATCTCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-A
* * *
72676374 -TCGATGCCATGTCCCAGACATGGTCTTATACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCA-A
* *
72676421 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* ** * * *
72676466 GGCCGATG-CATATCCCAGACAT-GTCTTACACTAACACTCATCTGAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * * ***
72676512 TGCCGATGCCATATCCCAAACATGGTCTTATACTGGCTCTCATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAA
* * * *
72676561 GCCAATG-CATATCCCAAACAT-GTCTTACACTGGCCCACATCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCT
72676603 TAAGTGACCC
Statistics
Matches: 190, Mismatches: 32, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 79 0.42
47 81 0.43
48 26 0.14
49 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:72676453 original size:93 final size:92
Alignment explanation
Indices: 72676325--72676591 Score: 254
Period size: 94 Copynumber: 2.8 Consensus size: 92
72676315 ATGGGTAAGG
* * * *
72676325 TGCCGATGCCATGTCTCAGACACGGTCTTACACTGGCTCACATCTCACA-TCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCA-AGCCGATG-CATATCCC
* *
72676389 AGACATGGTCTTATACTGACTA-TCATCTC-A
63 AGACAT-GTCTTACACTAAC-ACTCATCTCAA
* *
72676419 TAGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCCGATGCATATCCCA
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GCCGATGCATATCCCA
*
72676483 GACATGTCTTACACTAACACTCATCTGAA
64 GACATGTCTTACACTAACACTCATCTCAA
* * * * * *** *
72676512 TGCCGATGCCATATCCCAAACATGGTCTTATACTGGCTCTCATAATGTGGCCAATGCATATCCCA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCAAGCCGATGCATATCCCA
*
72676577 AACATGTCTTACACT
64 GACATGTCTTACACT
72676592 GGCCCACATC
Statistics
Matches: 144, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
91 1 0.01
92 25 0.17
93 48 0.33
94 62 0.43
95 8 0.06
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGCCGATGCATATCCCAGA
CATGTCTTACACTAACACTCATCTCAA
Found at i:72676593 original size:46 final size:46
Alignment explanation
Indices: 72676421--72676594 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 46
72676411 TCATCTCATA
* *
72676421 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTC-TCAA---G
1 GCCGATGCATATCCCAAACATGTCTTACACTGGC-T-C-TCAT-AATGTG
* ** * *
72676467 GCCGATGCATATCCCAGACATGTCTTACACTAACACTCAT-CTGAAT-
1 GCCGATGCATATCCCAAACATGTCTTACACTGGCTCTCATAATG--TG
*
72676513 GCCGATGCCATATCCCAAACATGGTCTTATACTGGCTCTCATAATGTG
1 GCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTCTCATAATGTG
*
72676561 GCCAATGCATATCCCAAACATGTCTTACACTGGC
1 GCCGATGCATATCCCAAACATGTCTTACACTGGC
72676595 CCACATCTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
46 50 0.48
47 28 0.27
48 21 0.20
49 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCGATGCATATCCCAAACATGTCTTACACTGGCTCTCATAATGTG
Found at i:72679729 original size:11 final size:11
Alignment explanation
Indices: 72679713--72679738 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72679703 TATTAATATA
72679713 TATTTATTTTT
1 TATTTATTTTT
72679724 TATTTATTTTT
1 TATTTATTTTT
72679735 TATT
1 TATT
72679739 AGTGATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:72685169 original size:3 final size:3
Alignment explanation
Indices: 72685161--72685192 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
72685151 GGTACGGTTA
*
72685161 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72685193 AGAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:72687886 original size:25 final size:27
Alignment explanation
Indices: 72687843--72687914 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 27
72687833 CAACTATCAC
* *
72687843 TTCTCGCTGAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
72687869 -TCTTGCTAAGCTTGCAGC-TTGCACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
* *
72687894 TTTTTGCTGAGCTTGCAGCTT
1 TTCTTGCTAAGCTTGCAGCTT
72687915 ACACATTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 3 0.08
25 19 0.49
26 16 0.41
27 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
TTCTTGCTAAGCTTGCAGCTTTGCACA
Found at i:72687907 original size:26 final size:26
Alignment explanation
Indices: 72687843--72687921 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
72687833 CAACTATCAC
*
72687843 TTCTCGCTGAGCTTGCAGCTTTG-ACA
1 TTCTTGCTGAGCTTGCAGC-TTGCACA
*
72687869 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTGAGCTTGCAGCTTGCACA
* *
72687894 TTTTTGCTGAGCTTGCAGCTTACACA
1 TTCTTGCTGAGCTTGCAGCTTGCACA
72687920 TT
1 TT
72687922 AGAAAGCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 3 0.07
25 19 0.41
26 24 0.52
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTTGCTGAGCTTGCAGCTTGCACA
Found at i:72688423 original size:25 final size:25
Alignment explanation
Indices: 72688395--72688451 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
72688385 TCAGTTTATT
72688395 TTGAACTAA-AAAACTAAACTAGT-GC
1 TTGAACTAACAAAA-TAAAC-AGTAGC
* *
72688420 TTGAAGTAACAAAATGAACAGTAGC
1 TTGAACTAACAAAATAAACAGTAGC
72688445 TTGAACT
1 TTGAACT
72688452 TTAGCCAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (25 bp):
TTGAACTAACAAAATAAACAGTAGC
Found at i:72693043 original size:16 final size:16
Alignment explanation
Indices: 72693022--72693052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72693012 TTTCCCAAAG
*
72693022 CAAAGGAAGAGAAAAA
1 CAAAGGAAAAGAAAAA
72693038 CAAAGGAAAAGAAAA
1 CAAAGGAAAAGAAAA
72693053 CCCCCAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (16 bp):
CAAAGGAAAAGAAAAA
Found at i:72697601 original size:22 final size:22
Alignment explanation
Indices: 72697557--72697603 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
72697547 TATATATGAT
* *
72697557 AAATGGTAGCAACATAATAGTA
1 AAATGGTAGCAAAACAATAGTA
* *
72697579 AAATTGTAGCAAAACAATGGTA
1 AAATGGTAGCAAAACAATAGTA
72697601 AAA
1 AAA
72697604 AGTGGGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (22 bp):
AAATGGTAGCAAAACAATAGTA
Found at i:72700721 original size:12 final size:12
Alignment explanation
Indices: 72700704--72700729 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72700694 AAATAAAATT
72700704 AATTATATAATA
1 AATTATATAATA
72700716 AATTATATAATA
1 AATTATATAATA
72700728 AA
1 AA
72700730 GTAAGTAAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTATATAATA
Found at i:72710367 original size:9 final size:9
Alignment explanation
Indices: 72710344--72710436 Score: 58
Period size: 8 Copynumber: 10.9 Consensus size: 9
72710334 GAAAATAAGT
*
72710344 TAAAGAAAA
1 TAAATAAAA
72710353 TAAAATAAAA
1 T-AAATAAAA
72710363 TAAATAAAA
1 TAAATAAAA
*
72710372 -AACTAAAA
1 TAAATAAAA
*
72710380 -AAATTAAA
1 TAAATAAAA
* *
72710388 -AAAGAAGA
1 TAAATAAAA
72710396 TAAA-AAAA
1 TAAATAAAA
72710404 T-AATAAAA
1 TAAATAAAA
72710412 GTAAA-AATAA
1 -TAAATAA-AA
72710422 -AAATAAAA
1 TAAATAAAA
72710430 -AAATAAA
1 TAAATAAA
72710437 CTTAATGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
7 2 0.03
8 38 0.55
9 17 0.25
10 12 0.17
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (9 bp):
TAAATAAAA
Found at i:72710387 original size:17 final size:16
Alignment explanation
Indices: 72710354--72710436 Score: 73
Period size: 16 Copynumber: 5.1 Consensus size: 16
72710344 TAAAGAAAAT
72710354 AAAATAAAATAAATAA
1 AAAATAAAATAAATAA
72710370 AAAACTAAAA-AAATTAA
1 AAAA-TAAAATAAA-TAA
* *
72710387 AAAAGAAGATAAA-AA
1 AAAATAAAATAAATAA
*
72710402 AATAATAAAAGTAAAAATA
1 AA-AATAAAA-TAAATA-A
72710421 AAAATAAAA-AAATAA
1 AAAATAAAATAAATAA
72710436 A
1 A
72710437 CTTAATGATA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.11
16 19 0.35
17 19 0.35
18 8 0.15
19 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAATAA
Found at i:72710387 original size:21 final size:20
Alignment explanation
Indices: 72710359--72710436 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
72710349 AAAATAAAAT
72710359 AAAATAAATAAAAA-ACTAAA
1 AAAATAAATAAAAAGA-TAAA
72710379 AAAATTAAA-AAAGAAGATAAA
1 AAAA-TAAATAAA-AAGATAAA
72710400 AAAAT-AAT-AAAAG-TAAA
1 AAAATAAATAAAAAGATAAA
*
72710417 AATAA-AAATAAAAAAATAAA
1 AA-AATAAATAAAAAGATAAA
72710437 CTTAATGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
17 6 0.12
18 8 0.16
19 8 0.16
20 12 0.24
21 14 0.29
22 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAATAAATAAAAAGATAAA
Found at i:72710398 original size:29 final size:29
Alignment explanation
Indices: 72710364--72710436 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
72710354 AAAATAAAAT
* *
72710364 AAATAAAAAACTAAAAAAATTAAAAA-AGA
1 AAATAAAAAAATAAAAAAAGTAAAAATA-A
* *
72710393 AGATAAAAAAATAATAAAAGTAAAAATAA
1 AAATAAAAAAATAAAAAAAGTAAAAATAA
72710422 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
72710437 CTTAATGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (29 bp):
AAATAAAAAAATAAAAAAAGTAAAAATAA
Found at i:72710540 original size:16 final size:16
Alignment explanation
Indices: 72710507--72710554 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
72710497 TAGAAATAGC
*
72710507 AAAATAATAATA-ATA
1 AAAATTATAATATATA
72710522 AAAATTATAATATATAA
1 AAAATTATAATATAT-A
*
72710539 AAAATTA-AAAATATA
1 AAAATTATAATATATA
72710554 A
1 A
72710555 GTATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.45
16 8 0.28
17 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTATAATATATA
Found at i:72710542 original size:18 final size:19
Alignment explanation
Indices: 72710510--72710554 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
72710500 AAATAGCAAA
72710510 ATAATA-ATAATAAAAATT
1 ATAATATATAATAAAAATT
72710528 ATAATATAT-A-AAAAATT
1 ATAATATATAATAAAAATT
*
72710545 A-AAAATATAA
1 ATAATATATAA
72710555 GTATAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 7 0.29
19 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAATATATAATAAAAATT
Found at i:72710568 original size:25 final size:23
Alignment explanation
Indices: 72710520--72710605 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 23
72710510 ATAATAATAA
72710520 TAAAAATTATAATATATAAA-AAAT
1 TAAAAA-TATAATATA-AAATAAAT
72710544 TAAAAATATAAGTATAAGAATAAAT
1 TAAAAATATAA-TATAA-AATAAAT
* *
72710569 TAATTAAT-TAATTAGTAAAATAAAA
1 TAA-AAATATAA-TA-TAAAATAAAT
72710594 TAAATAATATAA
1 TAAA-AATATAA
72710606 CAATTAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.12
24 12 0.24
25 24 0.47
26 9 0.18
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
TAAAAATATAATATAAAATAAAT
Found at i:72710594 original size:5 final size:5
Alignment explanation
Indices: 72710584--72710631 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
72710574 AATTAATTAG
*
72710584 TAAAA TAAAA T-AAA TAATA TAACAA TTAATAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
72710631 T
1 T
72710632 TGGGGTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.65
6 4 0.11
7 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:72717757 original size:34 final size:34
Alignment explanation
Indices: 72717714--72717781 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
72717704 GTATTGAATG
72717714 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
1 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
72717748 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
1 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
72717782 TCTTTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (34 bp):
GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
Found at i:72721923 original size:33 final size:32
Alignment explanation
Indices: 72721871--72721936 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
72721861 AACAATCAAA
* *
72721871 TGTAGTTTGGGCCTAAGCCCATTTTAGTCTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGT-TCAG
* *
72721904 TGTAGTTCGGGCTTTAGCCCATTTCAGTTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
72721936 T
1 T
72721937 ATCAAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (32 bp):
TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
Found at i:72736233 original size:25 final size:25
Alignment explanation
Indices: 72736205--72736256 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
72736195 TTTGGCTTGA
*
72736205 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
72736230 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
72736255 CA
1 CA
72736257 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:72749809 original size:22 final size:24
Alignment explanation
Indices: 72749770--72749813 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
72749760 GTAGTTCAAA
*
72749770 ATTTTTCTATCAATTTATTAAAAG
1 ATTTTCCTATCAATTTATTAAAAG
72749794 ATTTTCCTA-CAA-TTATTAAA
1 ATTTTCCTATCAATTTATTAAA
72749814 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTCCTATCAATTTATTAAAAG
Found at i:72751589 original size:12 final size:12
Alignment explanation
Indices: 72751569--72751601 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
72751559 CGTGTTAGGG
*
72751569 CACATGGCCTAC
1 CACACGGCCTAC
72751581 CACACGGCCTAC
1 CACACGGCCTAC
72751593 CACACGGCC
1 CACACGGCC
72751602 ATATGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:72758957 original size:12 final size:12
Alignment explanation
Indices: 72758942--72758972 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
72758932 GACGCCACAC
*
72758942 GGCCGTGTTGTA
1 GGCCGTGTGGTA
72758954 GGCCGTGTGGTA
1 GGCCGTGTGGTA
72758966 GGCCGTG
1 GGCCGTG
72758973 CATAAAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.48, T:0.26
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:72763888 original size:31 final size:31
Alignment explanation
Indices: 72763853--72763914 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
72763843 TCAACTTTGC
72763853 CACATAGATGGCCGGCCAAGGGGTGGCTCTT
1 CACATAGATGGCCGGCCAAGGGGTGGCTCTT
*
72763884 CACATAGATGGCTGGCCAAGGGGTGGCTCTT
1 CACATAGATGGCCGGCCAAGGGGTGGCTCTT
72763915 TGGCTACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.21
Consensus pattern (31 bp):
CACATAGATGGCCGGCCAAGGGGTGGCTCTT
Found at i:72768192 original size:40 final size:40
Alignment explanation
Indices: 72768098--72768278 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
72768088 TATTCGAATG
*
72768098 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* *
72768139 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
72768179 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * **
72768219 ATATCCAGGCTAAGACCCGAAGGC-CTTGTG-TGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
*
72768258 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
72768279 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 14 0.12
39 15 0.12
40 62 0.51
41 29 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:72779338 original size:16 final size:16
Alignment explanation
Indices: 72779317--72779353 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
72779307 TTGGTTCGCT
*
72779317 GTAATGGAATAGAGGC
1 GTAATGGAACAGAGGC
72779333 GTAATGGAACAGAGGC
1 GTAATGGAACAGAGGC
72779349 GTAAT
1 GTAAT
72779354 AGGTAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (16 bp):
GTAATGGAACAGAGGC
Done.