Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, whole genome shotgun sequence
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: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:770897 original size:24 final size:22
Alignment explanation
Indices: 770866--770914 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
770856 ATTCTCTAAC
770866 AATGATATATTCTCATTTCAAA
1 AATGATATATTCTCATTTCAAA
770888 AATGATATATTCTCATTTCAAA
1 AATGATATATTCTCATTTCAAA
770910 AATGA
1 AATGA
770915 AAGCTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (22 bp):
AATGATATATTCTCATTTCAAA
Found at i:771825 original size:42 final size:42
Alignment explanation
Indices: 771757--771838 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
771747 CCAAAATTTG
* * ** *
771757 TAAATCCTTCAGGTCATTTGTTAGTCTTTCGAGCACGATGCT
1 TAAAACCTTCAGGTCATCTGGCAGTCTTTCGAGCAAGATGCT
771799 TAAAACCTTCAGGTCATCTGGCAGTCTTTCGAGCAAGATG
1 TAAAACCTTCAGGTCATCTGGCAGTCTTTCGAGCAAGATG
771839 ATAAGTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAAACCTTCAGGTCATCTGGCAGTCTTTCGAGCAAGATGCT
Found at i:772005 original size:242 final size:243
Alignment explanation
Indices: 771444--772178 Score: 1111
Period size: 242 Copynumber: 3.0 Consensus size: 243
771434 TTTAATCTTT
771444 TTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGTAAAGTATTTCCCATAAATTT
1 TTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGTAAAGTATTTCCCA-AAATTT
* * * * *
771509 GTAAATTCTTCGGGTCATCTGTTAGTCTTTCGAGTATAATGC-TAAAACCTTCGGGTCATCTGTC
65 GTAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGGGTCATCTGGC
771573 AGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCTTTGGGTAGGATGTTCACA
130 AGTCTTTCGAGCAAGATGATAAGTCCTTAGGG-C--CCG-AAAGCCTTTGGGTAGGATGTTCACA
* * * * *
771638 TATGAATTTCGCATGACAATGAGATAGCAATTTTCAAAGATTCTCATTTAATG
191 TATGATTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAATA
* * *
771691 TTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCATACCCAATAAAGTATTTCCCAAAATTT
1 TT-TAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGTAAAGTATTTCCCAAAATTT
* * *
771756 GTAAATCCTTCAGGTCATTTGTTAGTCTTTCGAGCACGATGCTTAAAACCTTCAGGTCATCTGGC
65 GTAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGGGTCATCTGGC
771821 AGTCTTTCGAGCAAGATGATAAGTCCTTAGGG-CC-AAAGCCTTTGGGTAGGATGTTCACATATG
130 AGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCCGAAAGCCTTTGGGTAGGATGTTCACATATG
771884 ATTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAATA
195 ATTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAATA
*
771933 TTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAAAGTATTTCCCACAAATTT
1 TTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGTAAAGTATTTCCCA-AAATTT
*
771998 ATAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGGGTCATCTGTG
65 GTAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGGGTCATCTG-G
772063 -AGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCTTTGGGTA-GATGTTCAC
129 CAGTCTTTCGAGCAAGATGATAAGTCCTTAGGG-C--CCG-AAAGCCTTTGGGTAGGATGTTCAC
* * ** **
772126 TTATGATTTTCGCATGAAAATGAGAAAATGATTACCAAAGTTTCTCATTTAAT
190 ATATGATTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAAT
772179 GTTCTTGAAA
Statistics
Matches: 448, Mismatches: 30, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
241 52 0.12
242 172 0.38
243 1 0.00
244 2 0.00
246 2 0.00
247 100 0.22
248 119 0.27
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (243 bp):
TTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGTAAAGTATTTCCCAAAATTTG
TAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGGGTCATCTGGCA
GTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCCGAAAGCCTTTGGGTAGGATGTTCACATATGA
TTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAATA
Found at i:772067 original size:42 final size:42
Alignment explanation
Indices: 771999--772080 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
771989 CACAAATTTA
* * * *
771999 TAAATCCTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCT
1 TAAAACCTTCGGGTCATCTGTGAGTCTTTCGAGCAAGATGCT
772041 TAAAACCTTCGGGTCATCTGTGAGTCTTTCGAGCAAGATG
1 TAAAACCTTCGGGTCATCTGTGAGTCTTTCGAGCAAGATG
772081 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
TAAAACCTTCGGGTCATCTGTGAGTCTTTCGAGCAAGATGCT
Found at i:772285 original size:47 final size:47
Alignment explanation
Indices: 772212--772401 Score: 292
Period size: 47 Copynumber: 4.0 Consensus size: 47
772202 GGTAATTTGT
772212 AAAA-CCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCA
* * **
772258 AAAAGCCTTCGGGTCATCCATAAGACCTTTAGTGCAGTTTGTTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTG-TTTTCA
* *
772306 AAAAGCCTTCGGGTCATCCATAAGAACTTCAGTGAAAGGTGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCA
* *
772353 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCA
772400 AA
1 AA
772402 TGAGATTTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 4 0.03
47 83 0.65
48 41 0.32
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCA
Found at i:772379 original size:95 final size:94
Alignment explanation
Indices: 772212--772389 Score: 320
Period size: 95 Copynumber: 1.9 Consensus size: 94
772202 GGTAATTTGT
* *
772212 AAAACCTTCGGGTCATCCATAAGACCTTCAGTGAAGGGTGTTTTCAAAAAGCCTTCGGGTCATCC
1 AAAACCTTCGGGTCATCCATAAGAACTTCAGTGAAAGGTGTTTTCAAAAAGCCTTCGGGTCATCC
*
772277 ATAAGACCTTTAGTGCAGTTTGTTTTTCA
66 ATAAGACCTTCAGTGCAGTTTGTTTTTCA
772306 AAAAGCCTTCGGGTCATCCATAAGAACTTCAGTGAAAGGTGTTTTCAAAAAGCCTTCGGGTCATC
1 AAAA-CCTTCGGGTCATCCATAAGAACTTCAGTGAAAGGTGTTTTCAAAAAGCCTTCGGGTCATC
772371 CATAAGACCTTCAGTGCAG
65 CATAAGACCTTCAGTGCAG
772390 GATGTTTTCA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 4 0.05
95 76 0.95
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (94 bp):
AAAACCTTCGGGTCATCCATAAGAACTTCAGTGAAAGGTGTTTTCAAAAAGCCTTCGGGTCATCC
ATAAGACCTTCAGTGCAGTTTGTTTTTCA
Found at i:773886 original size:21 final size:23
Alignment explanation
Indices: 773844--773900 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
773834 TTTTGTGCCC
* *
773844 TTTTTGTTTTATTTATATTTAAG
1 TTTTTATTTTATTAATATTTAAG
773867 TTTTTATTTT-TTAATA-TTAA-
1 TTTTTATTTTATTAATATTTAAG
773887 TAATTTTATTTTAT
1 T--TTTTATTTTAT
773901 GCAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 14 0.48
23 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTATTTTATTAATATTTAAG
Found at i:775380 original size:27 final size:27
Alignment explanation
Indices: 775350--775402 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
775340 TTGACCCCTT
775350 ATAAATGGATAGTAGTGACATCACCTA
1 ATAAATGGATAGTAGTGACATCACCTA
* *
775377 ATAAATGGATAGTGGTGGCATCACCT
1 ATAAATGGATAGTAGTGACATCACCT
775403 TTATACTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (27 bp):
ATAAATGGATAGTAGTGACATCACCTA
Found at i:777097 original size:18 final size:17
Alignment explanation
Indices: 777076--777118 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
777066 TTGAAATGAC
777076 TGAAATAAAGGAAAAGAA
1 TGAAATAAAGG-AAAGAA
* *
777094 TGAATTGAATGGAAAGAA
1 TGAAAT-AAAGGAAAGAA
777112 TGAAATA
1 TGAAATA
777119 CCTTTGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (17 bp):
TGAAATAAAGGAAAGAA
Found at i:778110 original size:36 final size:37
Alignment explanation
Indices: 778070--778171 Score: 98
Period size: 39 Copynumber: 2.7 Consensus size: 37
778060 CTTCTCTAGG
* *
778070 TCATGCACAGCGT-TCCTTGTCGTATGCTCCTTTACT
1 TCATGCACAGCGTATCCTTATCGTATGCTCCTTTACA
* * * *
778106 TCATGCATAGGGTAAGTCCTTATCGTATGCTTCTTTGCA
1 TCATGCACAGCGT-A-TCCTTATCGTATGCTCCTTTACA
*
778145 TCATGCACAGGGTAAGTCCTTATCGTA
1 TCATGCACAGCGT-A-TCCTTATCGTA
778172 ATTGTTTATG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
36 11 0.20
39 45 0.80
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (37 bp):
TCATGCACAGCGTATCCTTATCGTATGCTCCTTTACA
Found at i:778133 original size:39 final size:39
Alignment explanation
Indices: 778083--778171 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
778073 TGCACAGCGT
* * *
778083 TCCTTGTCGTATGCTCCTTTACTTCATGCATAGGGTAAG
1 TCCTTATCGTATGCTCCTTTACATCATGCACAGGGTAAG
* *
778122 TCCTTATCGTATGCTTCTTTGCATCATGCACAGGGTAAG
1 TCCTTATCGTATGCTCCTTTACATCATGCACAGGGTAAG
778161 TCCTTATCGTA
1 TCCTTATCGTA
778172 ATTGTTTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (39 bp):
TCCTTATCGTATGCTCCTTTACATCATGCACAGGGTAAG
Found at i:781091 original size:20 final size:20
Alignment explanation
Indices: 781066--781105 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
781056 GGCTTGAAAT
*
781066 TACTGTAGTAGTATAGATAC
1 TACTGTAGCAGTATAGATAC
*
781086 TACTGTAGCAGTATCGATAC
1 TACTGTAGCAGTATAGATAC
781106 CCATTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
TACTGTAGCAGTATAGATAC
Found at i:781176 original size:20 final size:20
Alignment explanation
Indices: 781151--781217 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
781141 TGTTCATTAT
781151 TATTCATACAATATCGGTAC
1 TATTCATACAATATCGGTAC
781171 TATTCATACAATATCGGTAC
1 TATTCATACAATATCGGTAC
781191 TATTCATACAATATC-GTAC
1 TATTCATACAATATCGGTAC
781210 TATTCATA
1 TATTCATA
781218 AAAACTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 12 0.26
20 35 0.74
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (20 bp):
TATTCATACAATATCGGTAC
Found at i:783964 original size:20 final size:20
Alignment explanation
Indices: 783915--783965 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
783905 TACTGTTCAT
* * *
783915 TACTGTTCACACAGTATCGG
1 TACTATTCATACAATATCGG
783935 TACTATTCATACAATATCGG
1 TACTATTCATACAATATCGG
783955 TACTATTCATA
1 TACTATTCATA
783966 TAGTACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TACTATTCATACAATATCGG
Found at i:791253 original size:21 final size:21
Alignment explanation
Indices: 791229--791271 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
791219 GTGTGAGGGG
791229 TGAAAGAAAACAAGTTTATGA
1 TGAAAGAAAACAAGTTTATGA
*
791250 TGAAGGAAAACAAGTTTATGA
1 TGAAAGAAAACAAGTTTATGA
791271 T
1 T
791272 ATTGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (21 bp):
TGAAAGAAAACAAGTTTATGA
Found at i:794463 original size:2 final size:2
Alignment explanation
Indices: 794456--794484 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
794446 GCTAATATTT
794456 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
794485 GTAAAGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:796411 original size:47 final size:47
Alignment explanation
Indices: 796342--796437 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
796332 GTATGAATGT
*
796342 GAGTTTCACAGGCTAAGTCGATTTGCATCGAAGTTGTTTCCAACCGA
1 GAGTTTCACAGGATAAGTCGATTTGCATCGAAGTTGTTTCCAACCGA
* *
796389 GAGTTTTACAGGATAAGTCGATTTGCATTGAAGTTGTTTCCAACCGA
1 GAGTTTCACAGGATAAGTCGATTTGCATCGAAGTTGTTTCCAACCGA
796436 GA
1 GA
796438 AAGCCATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (47 bp):
GAGTTTCACAGGATAAGTCGATTTGCATCGAAGTTGTTTCCAACCGA
Found at i:807626 original size:18 final size:18
Alignment explanation
Indices: 807603--807641 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
807593 TACACCAGAG
807603 GATATTGAGATTCAACTA
1 GATATTGAGATTCAACTA
807621 GATATTGAGATTCAACTA
1 GATATTGAGATTCAACTA
807639 GAT
1 GAT
807642 CTGAGCTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (18 bp):
GATATTGAGATTCAACTA
Found at i:810557 original size:44 final size:44
Alignment explanation
Indices: 810500--810590 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
810490 TTTATCTTGG
810500 TTAGTATTACCCAATACTACTACTATGATGGGACATATTTTATA
1 TTAGTATTACCCAATACTACTACTATGATGGGACATATTTTATA
810544 TTAGTATTACCCAATACTACTACTATGATGGGACATATTTTATA
1 TTAGTATTACCCAATACTACTACTATGATGGGACATATTTTATA
810588 TTA
1 TTA
810591 AAATATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (44 bp):
TTAGTATTACCCAATACTACTACTATGATGGGACATATTTTATA
Found at i:811158 original size:26 final size:26
Alignment explanation
Indices: 811098--811158 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
811088 ATTTTTTCTG
* *
811098 ATTTAAAAATGAGATTGATTTCTCTT
1 ATTTAAAAACGAGATTGATTTCTCTA
* *
811124 ATATAAAAACGAGATTGGTTTCTCTA
1 ATTTAAAAACGAGATTGATTTCTCTA
*
811150 ATTTTAAAA
1 ATTTAAAAA
811159 GTATGACTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (26 bp):
ATTTAAAAACGAGATTGATTTCTCTA
Found at i:811368 original size:39 final size:39
Alignment explanation
Indices: 811313--811403 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
811303 CTATGACTTG
* * * *
811313 TAAGTCCTTACAGTAGGCTCCTCTGCTTCTTGCATAGGT
1 TAAGTCCTTACCGTAGGCTCCTCTGCTTCGTGCACAGGA
811352 TAAGTCCTTACCGTAGGCTCCTCTGCTTCGTGCACAGGA
1 TAAGTCCTTACCGTAGGCTCCTCTGCTTCGTGCACAGGA
811391 TAAGTCCTTACCG
1 TAAGTCCTTACCG
811404 AGACATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.32
Consensus pattern (39 bp):
TAAGTCCTTACCGTAGGCTCCTCTGCTTCGTGCACAGGA
Found at i:814330 original size:35 final size:35
Alignment explanation
Indices: 814284--814359 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
814274 AAAACATTCC
* *
814284 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
814319 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
814354 TCAATT
1 TCAATT
814360 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:814902 original size:130 final size:128
Alignment explanation
Indices: 814756--815001 Score: 420
Period size: 130 Copynumber: 1.9 Consensus size: 128
814746 TATTTATATA
* **
814756 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
*
814821 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACA--TGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
814886 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
814951 TTAACACATGATCATGATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATGTCATTGGTGACACATGTCACCACCTAATTA
815002 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
128 31 0.28
130 79 0.72
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (128 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:815491 original size:15 final size:17
Alignment explanation
Indices: 815466--815497 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
815456 ATTTCTTATT
815466 AAAAATAAAAT-ATTCA
1 AAAAATAAAATGATTCA
815482 AAAAAT-AAATGATTCA
1 AAAAATAAAATGATTCA
815498 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATAAAATGATTCA
Found at i:815569 original size:16 final size:16
Alignment explanation
Indices: 815527--815562 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
815517 ATTTTTTATT
* *
815527 TATACATCTAAATAAA
1 TATACATTTATATAAA
815543 TATACATTTATATAAA
1 TATACATTTATATAAA
815559 TATA
1 TATA
815563 TTTTTATTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (16 bp):
TATACATTTATATAAA
Found at i:818401 original size:15 final size:15
Alignment explanation
Indices: 818381--818409 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
818371 ATTATTTAAA
818381 TCTTAAAAATAATAT
1 TCTTAAAAATAATAT
818396 TCTTAAAAATAATA
1 TCTTAAAAATAATA
818410 ATCATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TCTTAAAAATAATAT
Found at i:818420 original size:15 final size:15
Alignment explanation
Indices: 818379--818422 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
818369 ATATTATTTA
*
818379 AATCTTAAAAATAAT
1 AATCATAAAAATAAT
* *
818394 ATTCTTAAAAATAAT
1 AATCATAAAAATAAT
*
818409 AATCATAGAAATAA
1 AATCATAAAAATAA
818423 ATATAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (15 bp):
AATCATAAAAATAAT
Found at i:820855 original size:10 final size:10
Alignment explanation
Indices: 820830--820868 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
820820 ATATATTTAG
*
820830 TTTCTTATTTT
1 TTTCTT-TTGT
820841 TTTCTTTTGT
1 TTTCTTTTGT
820851 TTTCTTTTGT
1 TTTCTTTTGT
820861 TTTCTTTT
1 TTTCTTTT
820869 TTATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTCTTTTGT
Found at i:820890 original size:27 final size:27
Alignment explanation
Indices: 820838--820890 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
820828 AGTTTCTTAT
* * *
820838 TTTTTTCTTTTGTTTTCTTTTGTTTTC
1 TTTTTTATTTTATTTTCTATTGTTTTC
820865 TTTTTTATTTTATTTTCCTATT-TTTT
1 TTTTTTATTTTATTTT-CTATTGTTTT
820891 GTTACTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (27 bp):
TTTTTTATTTTATTTTCTATTGTTTTC
Found at i:820971 original size:19 final size:20
Alignment explanation
Indices: 820949--820988 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
820939 ATTTAAATAC
820949 TATATAAATATTT-TTTTTT
1 TATATAAATATTTATTTTTT
**
820968 TATATATTTATTTATTTTTT
1 TATATAAATATTTATTTTTT
820988 T
1 T
820989 TATTTTGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATATAAATATTTATTTTTT
Found at i:821693 original size:31 final size:31
Alignment explanation
Indices: 821655--821715 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
821645 CGGCTTTGCC
*
821655 AAAATAATCTTC-AACTGTTGATAATTTTACT
1 AAAATAATCTTCTAA-TGTCGATAATTTTACT
*
821686 AAAATAATCTTCTAATGTCGATGATTTTAC
1 AAAATAATCTTCTAATGTCGATAATTTTAC
821716 CAATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (31 bp):
AAAATAATCTTCTAATGTCGATAATTTTACT
Found at i:825601 original size:2 final size:2
Alignment explanation
Indices: 825596--825628 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
825586 ATATATATAT
825596 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
825629 ACCCCAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:827752 original size:29 final size:30
Alignment explanation
Indices: 827698--827836 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
827688 TAAGATTAAC
*
827698 AGAAACTT-GAGGACT-AAATAGCAAAAAT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
*
827726 AGAAACTTAAAGGACTATAATAG-AAAAAGGT
1 AGAAACTTAAAGGACTAAAATAGCAAAAA--T
*
827757 -GAAACTTAAAGGACTAAAATAGTAAAAAT
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
* *** * **
827786 GGACTTTTAAAGGACTAAAATAGTAAAAGC
1 AGAAACTTAAAGGACTAAAATAGCAAAAAT
* * *
827816 AAAAATTTAAGGGACTAAAAT
1 AGAAACTTAAAGGACTAAAAT
827837 GGTATTAACA
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
28 8 0.09
29 12 0.13
30 66 0.72
31 6 0.07
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAAACTTAAAGGACTAAAATAGCAAAAAT
Found at i:827785 original size:60 final size:58
Alignment explanation
Indices: 827699--827814 Score: 142
Period size: 60 Copynumber: 2.0 Consensus size: 58
827689 AAGATTAACA
* *
827699 GAAACTTGAGGACTAAATAGCAAAAATAGAAACTTAAAGGACTATAATAGAAAAAGGT
1 GAAACTTAAGGACTAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGAAAAAGGT
* * *** *
827757 GAAACTTAAAGGACTAAAATAGTAAAAATGGACTTTTAAAGGACTAAAATAGTAAAAG
1 GAAACTT-AAGGACT-AAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGAAAAAG
827815 CAAAAATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 7 0.15
59 6 0.12
60 35 0.73
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (58 bp):
GAAACTTAAGGACTAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGAAAAAGGT
Found at i:829327 original size:3 final size:3
Alignment explanation
Indices: 829321--829350 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
829311 ATAATAATAA
829321 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
829351 GTAGACCCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:829343 original size:14 final size:14
Alignment explanation
Indices: 829324--829350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
829314 ATAATAATAT
829324 TATTATTATTATTA
1 TATTATTATTATTA
829338 TATTATTATTATT
1 TATTATTATTATT
829351 GTAGACCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:829862 original size:130 final size:131
Alignment explanation
Indices: 829637--829871 Score: 312
Period size: 130 Copynumber: 1.8 Consensus size: 131
829627 AGAGCGATAA
* * * * *
829637 CACGGTTCCTATGTGATGAGGACGACTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGA
1 CACGGTTCCTACGCGATGAGGACGACTGGTTATCTAGAGGTGACACGGCTCCTACGCGATGAAGA
* **
829702 GGTCTACTCGAGGGATGACACGGTTCCTACGTGATGAGGATGATATACCATCTTTAGGGATGCCA
66 AGTCTACTCGAGGGATGACACAATTCCTACGTGATGAGGATGATATACCATCTTTAGGGATGCCA
829767 T
131 T
* *
829768 CACGGTTCCTGCGCGATGAGGACGACTGGTTATCTA-AGGTGACACGGTTCCTACGCGATGAAGA
1 CACGGTTCCTACGCGATGAGGACGACTGGTTATCTAGAGGTGACACGGCTCCTACGCGATGAAGA
** * * *
829832 CAGT-TGGTCGGGGGATGATACAATTTCTACGTGATGAGGA
66 -AGTCTACTCGAGGGATGACACAATTCCTACGTGATGAGGA
829872 CGGCATACAA
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
130 53 0.60
131 35 0.40
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (131 bp):
CACGGTTCCTACGCGATGAGGACGACTGGTTATCTAGAGGTGACACGGCTCCTACGCGATGAAGA
AGTCTACTCGAGGGATGACACAATTCCTACGTGATGAGGATGATATACCATCTTTAGGGATGCCA
T
Found at i:830066 original size:35 final size:35
Alignment explanation
Indices: 829964--830056 Score: 161
Period size: 35 Copynumber: 2.7 Consensus size: 35
829954 ACAAAATTCT
*
829964 TTTCAAGGGAAACGATCTCAAAGATGTTTATTTTG
1 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
829999 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
1 TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
830034 TTTCAAGGGAAACAGA-CTCAAAG
1 TTTCAAGGGAAAC-GATCTCAAAG
830057 GTAGGTGTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 54 0.96
36 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (35 bp):
TTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTG
Found at i:831390 original size:11 final size:13
Alignment explanation
Indices: 831370--831434 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
831360 TTGTCCTATA
831370 TTTT-TCTTTG-T
1 TTTTCTCTTTGCT
831381 TTTTCT-TTTGTTCT
1 TTTTCTCTTTG--CT
831395 TTTT-TCTTTGCT
1 TTTTCTCTTTGCT
*
831407 TTTTCTCTTTGTT
1 TTTTCTCTTTGCT
831420 TATATTCTCTTTGCT
1 T-T-TTCTCTTTGCT
831435 CTTTGTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
11 8 0.18
12 7 0.16
13 9 0.20
14 10 0.23
15 10 0.23
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTCTCTTTGCT
Found at i:831463 original size:15 final size:15
Alignment explanation
Indices: 831429--831476 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
831419 TTATATTCTC
831429 TTTGCTCTTTGTTTTTTT
1 TTTGCTCTTTG---TTTT
831447 TTTGCTCTTTGTTTT
1 TTTGCTCTTTGTTTT
*
831462 TTTTCTCTTTGTTTT
1 TTTGCTCTTTGTTTT
831477 GATTGGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 18 0.62
18 11 0.38
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTGCTCTTTGTTTT
Found at i:831463 original size:18 final size:18
Alignment explanation
Indices: 831374--831476 Score: 88
Period size: 18 Copynumber: 5.6 Consensus size: 18
831364 CCTATATTTT
* *
831374 TCTTTGTTTTTCTTTTGT
1 TCTTTGTTTTTTTTTTGC
*
831392 TCTTT-TTTCTTTGCTTTTTC
1 TCTTTGTTT-TTT--TTTTGC
831412 TCTTTGTTTATATTCTCTTTGC
1 TCTTTGTTT-T-TT-T-TTTGC
831434 TCTTTGTTTTTTTTTTGC
1 TCTTTGTTTTTTTTTTGC
831452 TCTTTG--TTTTTTTT-C
1 TCTTTGTTTTTTTTTTGC
831467 TCTTTGTTTT
1 TCTTTGTTTT
831477 GATTGGATCT
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
15 7 0.10
16 8 0.11
17 5 0.07
18 18 0.25
19 1 0.01
20 11 0.15
21 7 0.10
22 15 0.21
ACGTcount: A:0.02, C:0.15, G:0.09, T:0.75
Consensus pattern (18 bp):
TCTTTGTTTTTTTTTTGC
Found at i:832901 original size:24 final size:23
Alignment explanation
Indices: 832872--832922 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
832862 ACAAAAATTG
*
832872 TAATAAAATAATAATTATTATTAA
1 TAATAAAATAATAA-TAATATTAA
*
832896 TAATAAGATAATAATAATATTAA
1 TAATAAAATAATAATAATATTAA
832919 -AATA
1 TAATA
832923 TTAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 8 0.32
24 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATAAAATAATAATAATATTAA
Found at i:832927 original size:17 final size:17
Alignment explanation
Indices: 832872--832928 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
832862 ACAAAAATTG
832872 TAATAA-AATAATAATTAT
1 TAATAATAATAA-AA-TAT
* * *
832890 TATTAATAATAAGATAA
1 TAATAATAATAAAATAT
*
832907 TAATAATATTAAAATAT
1 TAATAATAATAAAATAT
832924 TAATA
1 TAATA
832929 TTTTGTAGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 20 0.65
18 6 0.19
19 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TAATAATAATAAAATAT
Found at i:833678 original size:21 final size:21
Alignment explanation
Indices: 833633--833678 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
833623 TGATCATGAT
*
833633 GAGTTGATGATTCTTGGAACT
1 GAGTTGATGATTCTTGGAACC
*
833654 GAGTTGATGACTTCTT-TAACC
1 GAGTTGATGA-TTCTTGGAACC
833675 GAGT
1 GAGT
833679 GTAACATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (21 bp):
GAGTTGATGATTCTTGGAACC
Found at i:836834 original size:62 final size:61
Alignment explanation
Indices: 836737--836856 Score: 213
Period size: 62 Copynumber: 2.0 Consensus size: 61
836727 TGACTCATGT
*
836737 CATCCCTATCTTTAATCCTACTATCCATCCACAGGATCATGGATAGAAATGACCCAATGGTC
1 CATCCCTACCTTTAATCCTACTATCCATCCACAGGATCATGGA-AGAAATGACCCAATGGTC
*
836799 CATCCCTACCTTTAATCCTACTATCCATCCACAGGATTATGGAAGAAATGACCCAATG
1 CATCCCTACCTTTAATCCTACTATCCATCCACAGGATCATGGAAGAAATGACCCAATG
836857 TCATTGAGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 15 0.27
62 41 0.73
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (61 bp):
CATCCCTACCTTTAATCCTACTATCCATCCACAGGATCATGGAAGAAATGACCCAATGGTC
Found at i:836900 original size:23 final size:23
Alignment explanation
Indices: 836874--836922 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
836864 GAATTATAAA
836874 ATTTTAAGAAATAAAATTAAATT
1 ATTTTAAGAAATAAAATTAAATT
*
836897 ATTTTAAGAAATAAAATTAAGTT
1 ATTTTAAGAAATAAAATTAAATT
836920 ATT
1 ATT
836923 AGTAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (23 bp):
ATTTTAAGAAATAAAATTAAATT
Found at i:836929 original size:23 final size:23
Alignment explanation
Indices: 836878--836930 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
836868 TATAAAATTT
*
836878 TAAGAAATAAAATTAAATTATTT
1 TAAGAAATAAAATTAAATTATTG
*
836901 TAAGAAATAAAATTAAGTTATTAG
1 TAAGAAATAAAATTAAATTATT-G
836925 T-AGAAA
1 TAAGAAA
836931 ATACAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (23 bp):
TAAGAAATAAAATTAAATTATTG
Found at i:837677 original size:30 final size:30
Alignment explanation
Indices: 837640--837727 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 30
837630 AAGATTATGA
837640 TTAATAATAAATATTAAAAAAA-TAAAACC
1 TTAATAATAAATATTAAAAAAATTAAAACC
* *
837669 TATAATAATAAGTATTAGAAAAAAATTAAATCC
1 T-TAATAATAAATATT--AAAAAAATTAAAACC
*
837702 TTAATAATACATATTAAAAATAATTA
1 TTAATAATAAATATTAAAAA-AATTA
837728 GACTTTGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.02
30 18 0.36
31 5 0.10
32 19 0.38
33 7 0.14
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (30 bp):
TTAATAATAAATATTAAAAAAATTAAAACC
Found at i:841048 original size:3 final size:3
Alignment explanation
Indices: 841033--841145 Score: 103
Period size: 3 Copynumber: 38.7 Consensus size: 3
841023 TTGTAATGTA
* *
841033 AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT TAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
841079 AAT AAAT AAT AGT AAT AAAT AA- AAT AA- AAT AA- AAT AAT -AT AAT
1 AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
841122 ATT AAT ATT AAT AAA AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AA
841146 CAAATGGATA
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
2 12 0.13
3 68 0.76
4 9 0.10
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:841963 original size:118 final size:120
Alignment explanation
Indices: 841514--842036 Score: 607
Period size: 118 Copynumber: 4.3 Consensus size: 120
841504 GCAAGGTTGA
* * *
841514 ATAAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGAT-A
1 ATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATC-ATAT-C-TCAGTGATGA
* * * * *
841578 GTGTC-ATGCAAAAGGCTGAACAGGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAA
63 AT-TCGA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * * *
841636 ATAAGTTCTTCTCATTATGAACT-TTCTATAGAAAAT-TTGATGCTGATTTATCTCTTTCTGGGA
1 ATAAGTTCTTCTCATTATGAACTCTTC--T-GGAAATGTTGATGCTGA-TCATATC--TCAGTGA
* *
841699 TAGAA-TCAAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
60 T-GAATTCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * * * *
841760 ATAAGTTATTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATC-CATC-GAGTGATGAAT
1 ATAAGTTCTTCTCATTATGAACTCT-TCTGGAAATGTTGATGCTGATCATATCTCAGTGATGAAT
*
841823 TCGAGCAAAAGGTTGATCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
65 TCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
841879 ATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCA-ATC-GAGTGATGAATT
1 ATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCATATCTCAGTGATGAATT
*
841942 CGAGCAAAAGGTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAG
66 CGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
841997 ATGAGTTATTCTCATTATGAACTCTTCCGGAAATGTTGAT
1 ATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGAT
842037 CCATTGAGTG
Statistics
Matches: 355, Mismatches: 32, Indels: 32
0.85 0.08 0.08
Matches are distributed among these distances:
118 129 0.36
119 79 0.22
121 3 0.01
122 25 0.07
123 70 0.20
124 45 0.13
125 2 0.01
126 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (120 bp):
ATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCATATCTCAGTGATGAATT
CGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
Found at i:841993 original size:237 final size:238
Alignment explanation
Indices: 841585--842036 Score: 621
Period size: 237 Copynumber: 1.9 Consensus size: 238
841575 ATAGTGTCAT
*
841585 GCAAAAGGCTGAACAGGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCA
1 GCAAAAGGCTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCA
* * *
841650 TTATGAACTTTCTATAGAAAATTTGATGCTGATTTATCTCTTTCTGGGATAGAATCAAGAAAAAG
66 TTATGAACTTTC-ATAGAAAATTTGATGCTGATTCATATC--TCAGGGATAGAATCAAGAAAAAG
*
841715 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCATTATGA
128 GTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCATTATGA
841780 ACT-TTCTCTGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTCGA
193 ACTCTTC-C-GGAAAAGTTGATGTTGATCCATCGAGTGATGAATTCGA
* * * * *
841827 GCAAAAGGTTGATCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGCTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAAATAAGTTCTTCTC
* * * * *
841892 ATTATGAACTCTTC-T-GGAAATGTTGATGCTGA-TCA-ATC-GAGTGAT-GAATTCGAGCAAAA
65 ATTATGAACT-TTCATAGAAAAT-TTGATGCTGATTCATATCTCAGGGATAGAA-TCAAGAAAAA
*
841951 GGTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATG
127 GGTTGAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCATTATG
*
842016 AACTCTTCCGGAAATGTTGAT
192 AACTCTTCCGGAAAAGTTGAT
842037 CCATTGAGTG
Statistics
Matches: 188, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
236 14 0.07
237 80 0.43
238 3 0.02
240 2 0.01
241 7 0.04
242 51 0.27
243 28 0.15
244 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (238 bp):
GCAAAAGGCTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCA
TTATGAACTTTCATAGAAAATTTGATGCTGATTCATATCTCAGGGATAGAATCAAGAAAAAGGTT
GAACAAGTTCTCCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCATTATGAACT
CTTCCGGAAAAGTTGATGTTGATCCATCGAGTGATGAATTCGA
Found at i:842274 original size:22 final size:22
Alignment explanation
Indices: 842238--842289 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
842228 ATATTTCTTA
* *
842238 TTTGAAAAGATAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
842260 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
*
842282 TTTAAAGA
1 TTTGAAGA
842290 ATGTATATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (22 bp):
TTTGAAGAGAGAATCTATCATC
Found at i:842679 original size:20 final size:20
Alignment explanation
Indices: 842632--842679 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
842622 ATTGCAACAT
*
842632 TGGTTCAGCACCATAATTAC
1 TGGTTCATCACCATAATTAC
*
842652 TGGTTCATCACCATACTTAC
1 TGGTTCATCACCATAATTAC
842672 TGGTTCAT
1 TGGTTCAT
842680 AAAACATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
TGGTTCATCACCATAATTAC
Found at i:843295 original size:21 final size:19
Alignment explanation
Indices: 843259--843298 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
843249 TCTCTCTCTT
843259 ATTTTATTTTATTTTTTTC
1 ATTTTATTTTATTTTTTTC
843278 ATTTTCATTTTCATTTTTTTC
1 ATTTT-ATTTT-ATTTTTTTC
843299 TTCTTTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTATTTTATTTTTTTC
Found at i:853075 original size:28 final size:26
Alignment explanation
Indices: 853035--853091 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
853025 AAACATTAAT
*
853035 AAAAAATAATATATATAAATATTATG
1 AAAAAATAATATATATAAAAATTATG
*
853061 AAAATAATAAGTATATATAAAAATTTTG
1 AAAA-AATAA-TATATATAAAAATTATG
853089 AAA
1 AAA
853092 GGAAAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAAAATAATATATATAAAAATTATG
Found at i:853913 original size:143 final size:134
Alignment explanation
Indices: 853613--853915 Score: 351
Period size: 134 Copynumber: 2.2 Consensus size: 134
853603 TATATTTTTT
* *
853613 ATTTTTATAAATA-AGATATTTATTTACTTAGAAATATCATAAAATGACTTCTAGGTTCTTTAAG
1 ATTTTTATAAATAGA-ATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAG
*
853677 ACAACCCATTTCTTAATATTAAAAAAATAAATGAATATTAATAAAATTTCTCTAAAATAATTAAT
65 ACAACCCATTTCTTAATATTAAAAAAATAAATAAATATTAATAAAATTTCTCTAAAATAATTAAT
*
853742 ATATA
130 ATAAA
* * * * *
853747 ATTTATAAAAATAGGATATTTATTTATTTA-AGAATATCAGAAAATGACTTCTATGTGCTTTAAG
1 ATTTTTATAAATAGAATATTTATTTACTTAGA-AATATCAGAAAATGACTTCTAGGTGCTTTAAG
* * *
853811 ACATCCCATTTCTTAATATT-AAAAAATAAATAAATATTAAAATATGATTATTTTTCTTAAAAGT
65 ACAACCCATTTCTTAATATTAAAAAAATAAATAAATATT--AATA--A-AATTTCTC-TAAAA-T
*
853875 AATTTATATAAA
123 AATTAATATAAA
*
853887 ATTAAATTTATAAATAGAATGTTTATTTA
1 ATT---TTTATAAATAGAATATTTATTTA
853916 ATATATAAAA
Statistics
Matches: 140, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
133 18 0.13
134 73 0.52
135 4 0.03
137 1 0.01
138 6 0.04
139 5 0.04
140 14 0.10
143 19 0.14
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (134 bp):
ATTTTTATAAATAGAATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAGA
CAACCCATTTCTTAATATTAAAAAAATAAATAAATATTAATAAAATTTCTCTAAAATAATTAATA
TAAA
Found at i:855388 original size:3 final size:3
Alignment explanation
Indices: 855380--855497 Score: 91
Period size: 3 Copynumber: 39.7 Consensus size: 3
855370 CTGTAATGTA
* * * *
855380 AAT AAT AAT AAT ATT TAT AAT AAG AAT AAG AAT AAAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT
* **
855427 AAT AAT -AT AAT TAT AA- AAT AAT AAT TTT AAT AAAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * *
855469 AAT AAT ATT AAT AAT ATT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
855498 ATAACAAATG
Statistics
Matches: 88, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
2 8 0.09
3 71 0.81
4 9 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:855445 original size:29 final size:28
Alignment explanation
Indices: 855396--855506 Score: 90
Period size: 26 Copynumber: 4.1 Consensus size: 28
855386 AATAATATTT
* *
855396 ATAATAAGAATA-AGAAT-AAATAATAA
1 ATAATAATAATATAAAATAAAATAATAA
*
855422 ATAATAATAATATAATTATAAAATAAT-A
1 ATAATAATAATATAA-AATAAAATAATAA
**
855450 ATTTTAATAA-ATAAAATAAAATAATATTA
1 ATAATAATAATATAAAATAAAATAATA--A
* *
855479 ATAATATTAATA-AAAAT-AAATAACAA
1 ATAATAATAATATAAAATAAAATAATAA
855505 AT
1 AT
855507 GGATAAAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
26 24 0.35
27 5 0.07
28 18 0.26
29 20 0.29
30 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAATAATAATATAAAATAAAATAATAA
Found at i:855472 original size:23 final size:21
Alignment explanation
Indices: 855383--855482 Score: 84
Period size: 23 Copynumber: 4.8 Consensus size: 21
855373 TAATGTAAAT
*
855383 AATAATAATATTTAT-AATAA
1 AATAATAATATTAATAAATAA
* *
855403 GAATAAGAATAAATAATAAAT--
1 -AATAATAAT-ATTAATAAATAA
*
855424 AATAATAATA-TAAT-TATAA
1 AATAATAATATTAATAAATAA
*
855443 AATAATAATTTTAATAAATAA
1 AATAATAATATTAATAAATAA
855464 AATAAAATAATATTAATAA
1 AAT--AATAATATTAATAA
855483 TATTAATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
17 2 0.03
18 4 0.06
19 10 0.16
20 12 0.19
21 15 0.24
22 4 0.06
23 16 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAATAATATTAATAAATAA
Found at i:855620 original size:26 final size:26
Alignment explanation
Indices: 855573--855626 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
855563 AGATACTTCC
*
855573 TTTCATTTTTTTCATATTTTTT-CTT
1 TTTCATTTTTGTCATATTTTTTACTT
855598 TTTCATTTTTGGTCAT-TTGTTTTACTT
1 TTTCATTTTT-GTCATATT-TTTTACTT
855625 TT
1 TT
855627 GACTTCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 8 0.32
27 5 0.20
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (26 bp):
TTTCATTTTTGTCATATTTTTTACTT
Found at i:857724 original size:14 final size:14
Alignment explanation
Indices: 857705--857732 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
857695 AGTGCATTTG
857705 TATCCCACGATGGA
1 TATCCCACGATGGA
857719 TATCCCACGATGGA
1 TATCCCACGATGGA
857733 GGTGCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
TATCCCACGATGGA
Found at i:862615 original size:42 final size:42
Alignment explanation
Indices: 862536--862615 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
862526 GAAAAACCAA
* *
862536 CGCTAAATATCATAACCTTTAGCTATGTTTGTTAAAAAGGGC
1 CGCTAAATATCATAACCTTTAGCTATGTTTATAAAAAAGGGC
* *
862578 CGCTAAATATCATTACCTTTAG-TGTCGTTTATAAAAAA
1 CGCTAAATATCATAACCTTTAGCTAT-GTTTATAAAAAA
862616 CACCACTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (42 bp):
CGCTAAATATCATAACCTTTAGCTATGTTTATAAAAAAGGGC
Found at i:872483 original size:131 final size:131
Alignment explanation
Indices: 872290--872633 Score: 343
Period size: 131 Copynumber: 2.6 Consensus size: 131
872280 TGGTAATATC
* * ** * * * *
872290 CTTTCATTTCGATCGGAGTAATAAATGACTACTTTAAGGTA-TAAGAGGTCATTTATTTTCGATT
1 CTTT-ATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAA-AGGTCATTTATTCTCGATT
* * * * * * * *
872354 GGAAATAATTTGATATTGCCT-TTTTCTCTCGAATTAATATAT-ATTTTTTAGACGGAATATTAA
64 GGAAATAATTAGATATT-ACTATTTTCACTCGAATCAATAT-TGAATTTTAAGACGAAATAGTAA
*
872417 TATAT
127 TACAT
* * * *
872422 CTTTATTTCAATTGGGGTAATAAATGACTGTTTTAACGCATGAAATGTCGTTTATTCTCGATTGG
1 CTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGTCATTTATTCTCGATTGG
* * * * * * *
872487 AAATCATTAGATGTTATTATTTTCACTTGAATCGATATTGAATTTTAAGATGAAATAGTAATACC
66 AAATAATTAGATATTACTATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGTAATACA
872552 T
131 T
* * * *
872553 CTTTATTTCAATTGGAGTAATGAATGACTGTTTTAATGCACGAAAGGTCAATTATTCTCGATAGG
1 CTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGTCATTTATTCTCGATTGG
872618 AAATAATTAGATATTA
66 AAATAATTAGATATTA
872634 TCGTTTTTAC
Statistics
Matches: 172, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
130 2 0.01
131 164 0.95
132 6 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (131 bp):
CTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGTCATTTATTCTCGATTGG
AAATAATTAGATATTACTATTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGTAATACA
T
Found at i:878841 original size:112 final size:112
Alignment explanation
Indices: 878643--879097 Score: 555
Period size: 112 Copynumber: 4.1 Consensus size: 112
878633 TGTAGATATG
* * * *
878643 ATATTCCCTTTAGAAGAAGAGAAACAAATCCCTCTATTCCAAGATTTGATATTCCCTGAGTGACA
1 ATATTCCCTTTAAAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
* * * *
878708 ACAGAACAAGTCTGA-CTCGATTCAATGTATCAACTCCCCCATATCTA
66 GCAGAACAAGTCT-ACCCCGATTCAATGGATCAACTCCCCCAGATCTA
*
878755 ATATTCCCTATAAAAGAAGTAG-AACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
1 ATATTCCCTTTAAAAGAAG-AGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
* * *
878819 AGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATATG
65 AGCAGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATCTA
* * * * * * * * *
878867 ATATTCCCTTTAGAAGAAGTGGAACATATTCATATC-TTCTAAGATTTTATATTCCCTGAGTAAT
1 ATATTCCCTTTAAAAGAAGAGAAACATATCCCTCTCTTTC-AAGATTTGATATTCCCTGAGTGAC
* * *
878931 AGCAGAACAAGTCTGCTCCGATTCAATGGATCAACTCCCCTAGATCTA
65 AGCAGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATCTA
* *
878979 ATATTCCATTTAGAAA-AAGCGAAACATATCCC-C-CTTTCAAGATTTGATATTCCCTGAGTGAC
1 ATATTCCCTTTA-AAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
* *
879041 AGCAGAACAAGTCTACCCCGATTTAATGGATCAACAT-CCCCAGATCTG
65 AGCAGAACAAGTCTACCCCGATTCAATGGATCAAC-TCCCCCAGATCTA
*
879089 ATAATCCCT
1 ATATTCCCT
879098 GAGTGACAGT
Statistics
Matches: 292, Mismatches: 44, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
110 70 0.24
111 9 0.03
112 209 0.72
113 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (112 bp):
ATATTCCCTTTAAAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACA
GCAGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATCTA
Found at i:881597 original size:112 final size:111
Alignment explanation
Indices: 881451--885493 Score: 4572
Period size: 112 Copynumber: 36.1 Consensus size: 111
881441 TTTGTTGATA
* * * * * *
881451 TGATATTCCCTTTAGAAGAAGAGAAACAAATCCCTTTATTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
881516 CAACAGAACAAGTCTGACCCGATTCAATGTATAAACTCCCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * * * * *
881563 TAATATTCCCTATAGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * *
881628 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* ** * * * * * *
881675 TGATATTCCTTTTAGAAGAAATGGAACATATTCATCTCTTCTAAGATTTTATATTCCCTGAGTAA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * *
881740 TAGCAGAACAAGTCTGCCCTGGTTAAATGGATCAACTCTCCCATATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * *
881787 TGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * *
881852 CAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCTAAATA
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * * *
881899 TGATATTCCATTTAGAAGAAGCGGAATAAATCCATCTCTTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * * * *
881964 AAGTGGAACAATTCTATCCCTAATCAATGGAT-AATCTCCCCCATATA
66 CAGCGGAACAAGTCT-GCCCGATTCAATGGATCAA-CTCCCCCATATC
* ** * * *
882011 TGATATTCCCTTTAGAAAAAGCAAAATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * ** * *
882076 TAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACTCTGCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* *
882123 TGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCAAAATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
*
882188 CAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
** * * * * *
882235 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
** *
882300 CAGCATAACAAGTTTGACCCGATTCAATGTG-TCAACTCCCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATG-GATCAACTCCCCCATATC
* * * * * * *
882347 TAATATTCCCTATAGAACAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
*
882412 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCCATATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * * * ** * *
882459 TGATATTCCTTTTAGAAGAAGTGGAACATATTCATCTCTTCTGAGATTTTATATTCCCTGAGTAA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
882524 TAGCAGAACAAGTCTGCCCCGATTAAATGGATCAACTCTCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * *
882571 TGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
882636 CAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATA
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * *
882683 TGATATTCCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * * * *
882748 AAGTGGAACAATTCTGTCCCTAATCAAGGGAT-AATCTCCCCCATATA
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAA-CTCCCCCATATC
* * * * *
882795 TGATATTCCCTTTAGAAAAAGCGAAATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * ** * *
882860 TAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACTCTGCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * *
882907 TGATATTCCCTTTAGAAGAATCAGAACAGATCCCTCTCTTCCAAAATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* *
882972 CAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
** * * * * *
883019 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
** *
883084 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * * * * * *
883131 TAATATTCCCTATAGAACAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* *
883196 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * * * * * *
883243 TGATATTCCTTTTAGAAGAAGTGGAACATATTCATCTCTTCTAAGATTTTATATTCCCTGAGTAA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
883308 TAGCAGAACAAGTCTGCCCCGATTAAATGGATCAACTCTCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * *
883355 TGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
883420 CAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATA
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * *
883467 TGATATTCCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * * * * * *
883532 AAGTGGAACAATTTTGTCCCTAATCAATGGATGATCTCCCCCATATA
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * * * * *
883579 TGATATTCCCTTTAGAAAAAGCGAAATAGATCCATCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * ** * *
883644 TAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACTCTGCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* *
883691 TGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCAAAATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
*
883756 CAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
** * * * * * *
883803 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAAATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
**
883868 CAGCATAACAAGTCTGACCCGATTCAATGTG-TCAACTCCCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATG-GATCAACTCCCCCATATC
* * * * * * *
883915 TAATATTCCCTATAGAACAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
*
883980 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCCATATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * * * ** * *
884027 TGATATTCCTTTTAGAAGAAGTGGAACATATTCATCTCTTCTGAGATTTTATATTCCCTGAGTAA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
884092 TAGCAGAACAAGTCTGCCCCGATTAAATGGATCAACTCTCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * *
884139 TGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
884204 CAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATA
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * *
884251 TGATATTCCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * * *
884316 AAGTGGAACAATTCTGTCCCTAATCAATGGAT-AATCTCCCCCATATA
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAA-CTCCCCCATATC
* * * * *
884363 TGATATTCCCTTTAGAAAAAGCGAAATAGATCCGTCTCTTCCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * ** * *
884428 TAGTGGAACATGTCTGCCCTGATTCAATGGATCAACTCTGCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* *
884475 TGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCAAAATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* *
884540 CAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* ** * * * * *
884587 TGATATTCCCTTTAGAATAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
** *
884652 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * * * * ** *
884699 TAATATTCCCTATAGAACAAGTGGAACATATCCCTCTCTTTTAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* *
884764 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * * * * * *
884811 TGATATTCCTTTTAGAAGAAGTGGAACATATTCATCTCTTCTAAGATTTTATATTCCCTGAGTAA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
884876 TAGCAGAACAAGTCTGCCCCGATTAAATGGATCAACTCTCCCATATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
* * *
884923 TGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * *
884988 CAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATA
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* * * *
885035 TGATATTCCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * * * * *
885100 AAGTGGAACAATTCTGTCCCTAATCAATGGAT-AATCTCCCCCATATA
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAA-CTCCCCCATATC
* * * * * *
885147 TGATATTCCCTTTAGAAAAAGCGAAATAGATCCATCTCTTTCAAGATTTGATATTCCTTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
* * ** * *
885212 TAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACTCTGCTAGATC
66 CAGCGGAACAAGTCTGCCC-GATTCAATGGATCAACTCCCCCATATC
* *
885259 TGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCAAAATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
*
885324 CAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
66 CAGCGGAACAAGTCTG-CCCGATTCAATGGATCAACTCCCCCATATC
** * * * * *
885371 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
** * * * *
885436 CAGCATAACAAGTCTACCCCGATTCGATGGATCAACAT-CCCTAGATC
66 CAGCGGAACAAGTCT-GCCCGATTCAATGGATCAAC-TCCCCCATATC
885483 TGATATTCCCT
1 TGATATTCCCT
885494 AAGTGATAGT
Statistics
Matches: 3356, Mismatches: 533, Indels: 84
0.84 0.13 0.02
Matches are distributed among these distances:
111 52 0.02
112 3251 0.97
113 53 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (111 bp):
TGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGA
CAGCGGAACAAGTCTGCCCGATTCAATGGATCAACTCCCCCATATC
Found at i:882957 original size:784 final size:784
Alignment explanation
Indices: 881451--885494 Score: 7644
Period size: 784 Copynumber: 5.2 Consensus size: 784
881441 TTTGTTGATA
* * * * * *
881451 TGATATTCCCTTTAGAAGAAG-AGAAACAAATCCCTTTATTCCAAGATTTGATATTCCCTAAGTG
1 TGATATTCCCTTTAGAAGAAGTAG-AACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTG
* * *
881515 ACAACAGAACAAGTCTGACCCGATTCAATGTATAAACTCCCCCATATCTAATATTCCCTATAGAA
65 ACAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAA
*
881580 GAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGC
130 CAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGC
* *
881645 CCTGATTCAATGGATCAACTCCCCTAGATCTGATATTCCTTTTAGAAGAAATGGAACATATTCAT
195 CCTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCAT
* *
881710 CTCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCTGGTTAAATGGATCAA
260 CTCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAA
881775 CTCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATA
325 CTCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATA
* *
881840 TTCCTTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCTAAATATGATAT
390 TTCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATAT
*
881905 TCCATTTAGAAGAAGCGGAATAAATCCATCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGG
455 TCCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGG
* *
881970 AACAATTCTATCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCAA
520 AACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGA
882035 AATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATT
585 AATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATT
882100 CAATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCC
650 CAATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCC
882165 AAAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
715 AAAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCC
882230 AGATC
780 AGATC
882235 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
* *
882300 CAGCATAACAAGTTTGACCCGATTCAATGTGTCAACTCCCCCATATCTAATATTCCCTATAGAAC
66 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
882365 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
131 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
*
882430 CTGATTCAATGGATCAACTCCCCCATATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
196 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
*
882495 TCTTCTGAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
261 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
882560 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
326 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
882625 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
391 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
882690 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
456 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
*
882755 ACAATTCTGTCCCTAATCAAGGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
521 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
882820 ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
586 ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
*
882885 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAATCAGAACAGATCCCTCTCTTCCA
651 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
*
882950 AAATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
716 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
883015 GATC
781 GATC
883019 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
883084 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
66 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
883149 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
131 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
883214 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
196 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
883279 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
261 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
883344 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
326 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
883409 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
391 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
883474 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
456 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
* *
883539 ACAATTTTGTCCCTAATCAATGGATGATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
521 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
*
883604 ATAGATCCATCTCTTTCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
586 ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
883669 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
651 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
883734 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
716 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
883799 GATC
781 GATC
*
883803 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAAATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
*
883868 CAGCATAACAAGTCTGACCCGATTCAATGTGTCAACTCCCCCATATCTAATATTCCCTATAGAAC
66 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
883933 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
131 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
*
883998 CTGATTCAATGGATCAACTCCCCCATATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
196 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
*
884063 TCTTCTGAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
261 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
884128 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
326 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
884193 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
391 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
884258 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
456 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
884323 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
521 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
* *
884388 ATAGATCCGTCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACATGTCTGCCCTGATTC
586 ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
884453 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
651 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
*
884518 AAATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
716 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
884583 GATC
781 GATC
*
884587 TGATATTCCCTTTAGAATAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
884652 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
66 CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
*
884717 AAGTGGAACATATCCCTCTCTTTTAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
131 AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
884782 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
196 CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
884847 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
261 TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
884912 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
326 TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
884977 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
391 TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
885042 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
456 CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
885107 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
521 ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
*
885172 ATAGATCCATCTCTTTCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
586 ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
885237 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
651 AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
885302 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
716 AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
885367 GATC
781 GATC
885371 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
1 TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
* * * * *
885436 CAGCATAACAAGTCT-ACCCCGATTCGATGGATCAACAT-CCCTAGATCTGATATTCCCTA
66 CAGCATAACAAGTCTGA-CCCGATTCAATGTATCAAC-TCCCCCATATCTAATATTCCCTA
885495 AGTGATAGTG
Statistics
Matches: 3195, Mismatches: 62, Indels: 6
0.98 0.02 0.00
Matches are distributed among these distances:
783 1 0.00
784 3191 1.00
785 3 0.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (784 bp):
TGATATTCCCTTTAGAAGAAGTAGAACATATTCCTCTATTCTAAGATTTGATATTTCCTGAGTGA
CAGCATAACAAGTCTGACCCGATTCAATGTATCAACTCCCCCATATCTAATATTCCCTATAGAAC
AAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAACGGAACAAGTCTGCC
CTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCTTTTAGAAGAAGTGGAACATATTCATC
TCTTCTAAGATTTTATATTCCCTGAGTAATAGCAGAACAAGTCTGCCCCGATTAAATGGATCAAC
TCTCCCATATCTGATATTCCCTTTAGAAGAAGCGAAATAGATCCCTCTATTCCAAGATTTGATAT
TCCCTGAGTGACAGTGGAACAAGTCTGCCCTGATTCAATGGATCAACACCCCCAAATATGATATT
CCATTTAGAAGAAGCGGAATAAATCCCTCTCTTCCAAGATTTGATATTCCCTAAGTGAAAGTGGA
ACAATTCTGTCCCTAATCAATGGATAATCTCCCCCATATATGATATTCCCTTTAGAAAAAGCGAA
ATAGATCCATCTCTTCCAAGATTTGATATTCCTTGAGTGATAGTGGAACAAGTCTGCCCTGATTC
AATGGATCAACTCTGCTAGATCTGATATTCCCTTTAGAAGAAGCAGAACAGATCCCTCTCTTCCA
AAATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCA
GATC
Found at i:888627 original size:112 final size:112
Alignment explanation
Indices: 888473--889381 Score: 1097
Period size: 112 Copynumber: 8.2 Consensus size: 112
888463 GTTTAATTTG
* * * *
888473 CAGATATGATATTCCCTTTAGAA-AAA-GTGAAACATATACCTCTATTCCAAGATTTGATATTAC
1 CAGATCTGATATTCCCTTTAGAAGAAACG-G-AACATATCCCTCTCTTCCAAGATTTGATATTCC
* * *
888536 CTGACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCC
64 CTGAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
** **
888585 CAGATCTGATATTCCCTTTAGAAGAAATAGAACATATCCCTCTCTTTAAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
*
888650 GAGTGACAGCAGAATAAGTCT-ACCGCGATTCAATGGATCAACTCCCC
66 GAGTGACAGCAGAACAAGTCTGACC-CGATTCAATGGATCAACTCCCC
* * ** *
888697 CATATCTGATATTCCCTTTAGAA-AAAGCGGAACAGATCATTCTCTTTCAAGATTTGATATTCCC
1 CAGATCTGATATTCCCTTTAGAAGAAA-CGGAACATATCCCTCTCTTCCAAGATTTGATATTCCC
* * *
888761 TGAGTGATAGCGGAACAAGTCTGCCCCGA-TCAATGGATCAACTCCCC
65 TGAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
* * * *
888808 AAGATCTGATGTTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
* * * *
888873 GAGTGAGAGCAGAACAAGTTTGTCCCGATTCAATGAATCAACT-CCC
66 GAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
* * * *
888919 CAGATCTGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCAAAGATTTAATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
* * * * *
888984 AAGTGACAGCGGAACAAGTTTGCCCCGATTCAATGGATCAACTCCCA
66 GAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
* * * * * **
889031 CATATATGATATTCCCTTTAGAAGAAGCGGAACATATCCATATCTTTTAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
* *
889096 GACTGACAGCAGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCC
66 GAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
* * * * * * **
889143 CAGATTTGATATTCCCTTTAGATGAAGCGAAACATATTCCTCTCTTCTAAGATTTGATATTCTTT
1 CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
*
889208 GAGTGATAGCAGAACAAGTCTG-CTCCGATTCAATGGATCAACTCCCC
66 GAGTGACAGCAGAACAAGTCTGAC-CCGATTCAATGGATCAACTCCCC
* * * *
889255 TAGATCTAATATTCCATTTAGAA-AAAGTGGAACATATCCCTCT-TT-CAAGATTTGATATTCCC
1 CAGATCTGATATTCCCTTTAGAAGAAA-CGGAACATATCCCTCTCTTCCAAGATTTGATATTCCC
*
889317 TGAGTGACAACAGAACAAGTCT-ACCCCGATTCAATGGAT-ACACAT-CCC
65 TGAGTGACAGCAGAACAAGTCTGA-CCCGATTCAATGGATCA-AC-TCCCC
*
889365 CATATCTGATATTCCCT
1 CAGATCTGATATTCCCT
889382 GAGTGACAGT
Statistics
Matches: 696, Mismatches: 87, Indels: 30
0.86 0.11 0.04
Matches are distributed among these distances:
109 1 0.00
110 66 0.09
111 212 0.30
112 411 0.59
113 6 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (112 bp):
CAGATCTGATATTCCCTTTAGAAGAAACGGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
GAGTGACAGCAGAACAAGTCTGACCCGATTCAATGGATCAACTCCCC
Found at i:889094 original size:334 final size:333
Alignment explanation
Indices: 888474--889381 Score: 1279
Period size: 334 Copynumber: 2.7 Consensus size: 333
888464 TTTAATTTGC
* * * *
888474 AGATATGATATTCCCTTTAGAAAAAGTGAAACATATACCTCTATTCCAAGATTTGATATTACCTG
1 AGATATGATATTCCCTTTAGAAGAAGCGAAACATATACCTCTCTTCCAAGATTTGATATTCCCTG
* *
888539 ACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTT
66 AGTGACAGCAGAACAAGTTTG-CCCGATTCAATGGATCAACT-CCCCAGATCTGATATTCCCTTT
* * * *
888604 AGAAGAAATAGAACATATCCCTCTCTTTAAAGATTTGATATTCCCTGAGTGACAGCAGAATAAGT
129 AGAAGAAGTGGAACATATCCCTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGT
*
888669 CTACCGCGATTCAATGGATCAACTCCCCCATATCTGATATTCCCTTTAGAAAAAGCGGAACAGAT
194 CTACCCCGATTCAATGGATCAACT-CCCCATATCTGATATTCCCTTTAGAAAAAGCGGAACAGAT
* * *
888734 CATTCTCTTTCAAGATTTGATATTCCCTGAGTGATAGCGGAACAAGTCTGCCCCGA-TCAATGGA
258 CATTCTCTTTCAAGATTTGATATTCCCTGACTGACAGCAGAACAAGTCTGCCCCGATTCAATGGA
888798 TCAACTCCCCA
323 TCAACTCCCCA
* * * * *
888809 AGATCTGATGTTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTG
1 AGATATGATATTCCCTTTAGAAGAAGCGAAACATATACCTCTCTTCCAAGATTTGATATTCCCTG
* *
888874 AGTGAGAGCAGAACAAGTTTGTCCCGATTCAATGAATCAACTCCCCAGATCTGATATTCCCTTTA
66 AGTGACAGCAGAACAAGTTTG-CCCGATTCAATGGATCAACTCCCCAGATCTGATATTCCCTTTA
* * * * * *
888939 GAAGAAGCGGAACAGATCCCTCTCTTCAAAGATTTAATATTCCCTAAGTGACAGCGGAACAAGTT
130 GAAGAAGTGGAACATATCCCTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGTC
* * * *
889004 TGCCCCGATTCAATGGATCAACTCCCACATATATGATATTCCCTTTAGAAGAAGCGGAACATATC
195 TACCCCGATTCAATGGATCAACTCCC-CATATCTGATATTCCCTTTAGAAAAAGCGGAACAGAT-
889069 CATATCT-TTT-AAGATTTGATATTCCCTGACTGACAGCAGAACAAGTCTGCCCCGATTCAATGG
258 CAT-TCTCTTTCAAGATTTGATATTCCCTGACTGACAGCAGAACAAGTCTGCCCCGATTCAATGG
*
889132 ATCAACTCCCCC
322 ATCAACTCCCCA
* * * * **
889144 AGATTTGATATTCCCTTTAGATGAAGCGAAACATATTCCTCTCTTCTAAGATTTGATATTCTTTG
1 AGATATGATATTCCCTTTAGAAGAAGCGAAACATATACCTCTCTTCCAAGATTTGATATTCCCTG
* * * *
889209 AGTGATAGCAGAACAAGTCTGCTCCGATTCAATGGATCAACTCCCCTAGATCTAATATTCCATTT
66 AGTGACAGCAGAACAAGTTTGC-CCGATTCAATGGATCAACTCCCC-AGATCTGATATTCCCTTT
* *
889274 AGAAAAAGTGGAACATATCCCTCT-TTC-AAGATTTGATATTCCCTGAGTGACAACAGAACAAGT
129 AGAAGAAGTGGAACATATCCCTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGT
889337 CTACCCCGATTCAATGGAT-ACACATCCCCATATCTGATATTCCCT
194 CTACCCCGATTCAATGGATCA-AC-TCCCCATATCTGATATTCCCT
889382 GAGTGACAGT
Statistics
Matches: 508, Mismatches: 57, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
333 4 0.01
334 243 0.48
335 221 0.44
336 40 0.08
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (333 bp):
AGATATGATATTCCCTTTAGAAGAAGCGAAACATATACCTCTCTTCCAAGATTTGATATTCCCTG
AGTGACAGCAGAACAAGTTTGCCCGATTCAATGGATCAACTCCCCAGATCTGATATTCCCTTTAG
AAGAAGTGGAACATATCCCTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCAGAACAAGTCT
ACCCCGATTCAATGGATCAACTCCCCATATCTGATATTCCCTTTAGAAAAAGCGGAACAGATCAT
TCTCTTTCAAGATTTGATATTCCCTGACTGACAGCAGAACAAGTCTGCCCCGATTCAATGGATCA
ACTCCCCA
Found at i:889374 original size:446 final size:446
Alignment explanation
Indices: 888473--889381 Score: 1263
Period size: 446 Copynumber: 2.0 Consensus size: 446
888463 GTTTAATTTG
* * * * *
888473 CAGATATGATATTCCCTTTAGAAAAAGTGAAACATATACCTCTATTCCAAGATTTGATATTACCT
1 CAGATCTGATATTCCCTTTAGAAAAAGCGAAACAGATACCTCTATTCAAAGATTTAATATTACCT
* * *
888538 GACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTT
66 AACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCACAGATATGATATTCCCTT
* * * * *
888603 TAGAAGAAATAGAACATATCCCTCTCTTTAAAGATTTGATATTCCCTGAGTGACAGCAGAATAAG
131 TAGAAGAAACAGAACATATCCATATCTTTAAAGATTTGATATTCCCTGACTGACAGCAGAACAAG
* * *
888668 TCTACCGCGATTCAATGGATCAACTCCCCCATATCTGATATTCCCTTTAGAAAAAGCGGAACAGA
196 TCTACCCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTTAGAAAAAGCGGAACACA
*
888733 TCATTCTCTTTCAAGATTTGATATTCCCTGAGTGATAGCGGAACAAGTCTGCCCCGATCAATGGA
261 TCATTCTCTTTCAAGATTTGATATTCCCTGAGTGATAGCAGAACAAGTCTGCCCCGATCAATGGA
* * * *
888798 TCAACTCCCCAAGATCTGATGTTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCCAAGATTT
326 TCAACTCCCCAAGATCTAATATTCCATTTAGAAAAAGCGGAACAGATCCCTCTCTTCCAAGATTT
* * * **
888863 GATATTCCCTGAGTGAGAGCAGAACAAGTTTGTCCCGATTCAATGAATCAACTCCC
391 GATATTCCCTGAGTGACAACAGAACAAGTCTACCCCGATTCAATGAATCAACTCCC
* * * * *
888919 CAGATCTGATATTCCCTTTAGAAGAAGCGGAACAGATCCCTCTCTTCAAAGATTTAATATTCCCT
1 CAGATCTGATATTCCCTTTAGAAAAAGCGAAACAGATACCTCTATTCAAAGATTTAATATTACCT
* * * * *
888984 AAGTGACAGCGGAACAAGTTTGCCCCGATTCAATGGATCAACTCCCACATATATGATATTCCCTT
66 AACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCACAGATATGATATTCCCTT
* * *
889049 TAGAAGAAGCGGAACATATCCATATCTTTTAAGATTTGATATTCCCTGACTGACAGCAGAACAAG
131 TAGAAGAAACAGAACATATCCATATCTTTAAAGATTTGATATTCCCTGACTGACAGCAGAACAAG
* * **
889114 TCTGCCCCGATTCAATGGATCAACTCCCCCAGATTTGATATTCCCTTTAGATGAAGC-GAA-ACA
196 TCTACCCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTTAGAAAAAGCGGAACACA
** *
889177 T-ATTCCTCTCTTCTAAGATTTGATATTCTTTGAGTGATAGCAGAACAAGTCTGCTCCGATTCAA
261 TCATT-CTCT-TTC-AAGATTTGATATTCCCTGAGTGATAGCAGAACAAGTCTGCCCCGA-TCAA
* * *
889241 TGGATCAACTCCCCTAGATCTAATATTCCATTTAGAAAAAGTGGAACATATCCCTCT-TT-CAAG
322 TGGATCAACTCCCCAAGATCTAATATTCCATTTAGAAAAAGCGGAACAGATCCCTCTCTTCCAAG
*
889304 ATTTGATATTCCCTGAGTGACAACAGAACAAGTCTACCCCGATTCAATGGAT-ACACATCCC
387 ATTTGATATTCCCTGAGTGACAACAGAACAAGTCTACCCCGATTCAATGAATCA-AC-TCCC
*
889365 CATATCTGATATTCCCT
1 CAGATCTGATATTCCCT
889382 GAGTGACAGT
Statistics
Matches: 406, Mismatches: 51, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
443 3 0.01
444 8 0.02
445 58 0.14
446 283 0.70
447 54 0.13
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (446 bp):
CAGATCTGATATTCCCTTTAGAAAAAGCGAAACAGATACCTCTATTCAAAGATTTAATATTACCT
AACTGACAACAGAACAAGTTTGACCCGATTCAATGGATCAACTCCCACAGATATGATATTCCCTT
TAGAAGAAACAGAACATATCCATATCTTTAAAGATTTGATATTCCCTGACTGACAGCAGAACAAG
TCTACCCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTTAGAAAAAGCGGAACACA
TCATTCTCTTTCAAGATTTGATATTCCCTGAGTGATAGCAGAACAAGTCTGCCCCGATCAATGGA
TCAACTCCCCAAGATCTAATATTCCATTTAGAAAAAGCGGAACAGATCCCTCTCTTCCAAGATTT
GATATTCCCTGAGTGACAACAGAACAAGTCTACCCCGATTCAATGAATCAACTCCC
Found at i:891249 original size:12 final size:12
Alignment explanation
Indices: 891232--891256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
891222 AGAAAGTTAC
891232 TTTCGATAATTT
1 TTTCGATAATTT
891244 TTTCGATAATTT
1 TTTCGATAATTT
891256 T
1 T
891257 AAAATGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTCGATAATTT
Found at i:891793 original size:130 final size:131
Alignment explanation
Indices: 891633--891921 Score: 368
Period size: 131 Copynumber: 2.2 Consensus size: 131
891623 TTTTGATTGA
* * * * * * * *
891633 AAATAATTTGATATTATCGTTTTCTCTTGAATTAATATAT-ACTTTT-AGATGGAATATTAATAT
1 AAATAATTAGATATTATCATTTTCACTTGAATCAATAT-TGAATTTTAAGATGAAATAGTAATAC
* *
891696 CTTTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAATGACGTTTATTCTCGATT
65 CTTTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGACATTTATTCTCGA-T
891761 A-G
129 AGG
* * * *
891763 AAATCATTAGATGTTATTATTTTCACTTGAATCGATATTGAATTTTAAGATGAAATAGTAATACC
1 AAATAATTAGATATTATCATTTTCACTTGAATCAATATTGAATTTTAAGATGAAATAGTAATACC
* * * *
891828 TTTTTATTTCAATTGGAGTAATGAATGACTGTTTTTATGCACGAAAGGTCATTTATTCTCGATAG
66 TTTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGACATTTATTCTCGATAG
891893 G
131 G
*
891894 AAATAATTAGATATTATCATTTTAACTT
1 AAATAATTAGATATTATCATTTTCACTT
891922 TTAAAATTAT
Statistics
Matches: 134, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
129 1 0.01
130 37 0.28
131 96 0.72
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (131 bp):
AAATAATTAGATATTATCATTTTCACTTGAATCAATATTGAATTTTAAGATGAAATAGTAATACC
TTTTTATTTCAATTGGAGTAATAAATGACTGTTTTAACGCACGAAAGGACATTTATTCTCGATAG
G
Found at i:892726 original size:13 final size:13
Alignment explanation
Indices: 892708--892735 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
892698 TCGTTTATTT
892708 ATCATTATAAAAA
1 ATCATTATAAAAA
892721 ATCATTATAAAAA
1 ATCATTATAAAAA
892734 AT
1 AT
892736 ACTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCATTATAAAAA
Found at i:896068 original size:23 final size:23
Alignment explanation
Indices: 896005--896069 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 23
895995 ATTACTTTTC
896005 TTAACTTTTATAGTAATTAAAGGG
1 TTAACTTTTATAGTAATTAAA-GG
* * *
896029 TAAAATTTTA-A--AA--AAAGT
1 TTAACTTTTATAGTAATTAAAGG
896047 TTAACTTTTATAGTAATTAAAGG
1 TTAACTTTTATAGTAATTAAAGG
896070 GTAAAGTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 11
0.64 0.13 0.23
Matches are distributed among these distances:
18 9 0.30
19 4 0.13
21 4 0.13
23 5 0.17
24 8 0.27
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (23 bp):
TTAACTTTTATAGTAATTAAAGG
Found at i:896136 original size:16 final size:17
Alignment explanation
Indices: 896111--896144 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
896101 TTGATATTTA
896111 TAAAATTAAATATTATT
1 TAAAATTAAATATTATT
896128 TAAAA-TAAATATTATT
1 TAAAATTAAATATTATT
896144 T
1 T
896145 TAATTACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTAAATATTATT
Found at i:896146 original size:17 final size:18
Alignment explanation
Indices: 896105--896147 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
896095 ACTTAATTGA
896105 TATTTATAAAATTAAATAT
1 TATTT-TAAAATTAAATAT
896124 TA-TTTAAAA-TAAATAT
1 TATTTTAAAATTAAATAT
896140 TATTTTAA
1 TATTTTAA
896148 TTACTCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 2 0.09
19 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTAAAATTAAATAT
Found at i:903460 original size:27 final size:27
Alignment explanation
Indices: 903414--903476 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
903404 TTCTTTTGGT
903414 TTTAT-AATATTTTTAAAACTTTTAAC
1 TTTATAAATATTTTTAAAACTTTTAAC
* *
903440 TTTATAAATA-TTTTATTAACTTTTAAT
1 TTTATAAATATTTTTA-AAACTTTTAAC
903467 TTTATAAATA
1 TTTATAAATA
903477 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTATAAATATTTTTAAAACTTTTAAC
Found at i:908871 original size:37 final size:37
Alignment explanation
Indices: 908821--908896 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
908811 ATAGGCACAC
908821 AAGAAGTAAACCTAAGGGATCTAGCTTCCTCAAGTAA
1 AAGAAGTAAACCTAAGGGATCTAGCTTCCTCAAGTAA
908858 AAGAAGTAAACCTAAGGGATCTAGCTTCCTCAAGTAA
1 AAGAAGTAAACCTAAGGGATCTAGCTTCCTCAAGTAA
908895 AA
1 AA
908897 TATCTATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (37 bp):
AAGAAGTAAACCTAAGGGATCTAGCTTCCTCAAGTAA
Found at i:909377 original size:2 final size:2
Alignment explanation
Indices: 909370--909396 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
909360 ATTACTCACT
909370 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
909397 GTACCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:926594 original size:32 final size:33
Alignment explanation
Indices: 926558--926648 Score: 127
Period size: 32 Copynumber: 2.8 Consensus size: 33
926548 TTAGTTTGTG
926558 CAATAAAATAAAATGTTAGTAAGTT-GTAAGAA-
1 CAATAAAATAAAA-GTTAGTAAGTTAGTAAGAAC
*
926590 CAATAAAATAAAAGTTAGTATGTTAGTAAGAAC
1 CAATAAAATAAAAGTTAGTAAGTTAGTAAGAAC
926623 CAAT-AAATAAAAGTTAG-AATGTTAGT
1 CAATAAAATAAAAGTTAGTAA-GTTAGT
926649 TCGAATGATA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.20
32 39 0.72
33 4 0.07
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (33 bp):
CAATAAAATAAAAGTTAGTAAGTTAGTAAGAAC
Found at i:927965 original size:85 final size:82
Alignment explanation
Indices: 927822--927982 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 82
927812 TCGGCGTCGG
*
927822 TGATGTCTTGATGACGACGCAGTTGAAAAAGAGGATTCCTCTTGGCGGCGGCGACGGTGCAAGTT
1 TGATGGCTTGATGACGACGCAGTTGAAAAAGAGGATTCCTCTTGGCGGCGGCGACGGTGCAAGTT
927887 ATCAACTTTGGCGCCTT
66 ATCAACTTTGGCGCCTT
* *
927904 TGATGGCTTGATGATCGACGCAGTTGGAAAAAGAGGATTCCCTCTTGGCGGCGGCGGCGGTGCGA
1 TGATGGCTTGATGA-CGACGCAGTT-GAAAAAGAGGATT-CCTCTTGGCGGCGGCGACGGTGCAA
927969 GTTATCAACTTTGG
63 GTTATCAACTTTGG
927983 TGCTTCAACT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
82 13 0.18
83 10 0.14
84 13 0.18
85 37 0.51
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (82 bp):
TGATGGCTTGATGACGACGCAGTTGAAAAAGAGGATTCCTCTTGGCGGCGGCGACGGTGCAAGTT
ATCAACTTTGGCGCCTT
Found at i:929950 original size:17 final size:17
Alignment explanation
Indices: 929928--929964 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
929918 GATGACGAGG
929928 AAATGGCATTATTTGCC
1 AAATGGCATTATTTGCC
929945 AAATGGCATTATTTGCC
1 AAATGGCATTATTTGCC
929962 AAA
1 AAA
929965 CGTTCAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (17 bp):
AAATGGCATTATTTGCC
Found at i:936174 original size:17 final size:17
Alignment explanation
Indices: 936152--936185 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
936142 TTCAATATTT
*
936152 TGGATTGTTTGATTTTA
1 TGGATTGTTGGATTTTA
936169 TGGATTGTTGGATTTTA
1 TGGATTGTTGGATTTTA
936186 GATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGGATTTTA
Found at i:942409 original size:34 final size:34
Alignment explanation
Indices: 942357--942449 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
942347 TTAGGTTGTG
*
942357 CAAT-AAAATAAAATGTTAGTAAGTTAGCAAGAA
1 CAATAAAAATAAAAAGTTAGTAAGTTAGCAAGAA
* *
942390 CAATAAAAATAAAAAGTTAGTATGTTAGTAAGAA
1 CAATAAAAATAAAAAGTTAGTAAGTTAGCAAGAA
942424 -AA-AATAAAT-AAAAGTTAG-AATGTTAG
1 CAATAA-AAATAAAAAGTTAGTAA-GTTAG
942450 TTCGAATGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
31 1 0.02
32 16 0.30
33 10 0.19
34 26 0.49
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (34 bp):
CAATAAAAATAAAAAGTTAGTAAGTTAGCAAGAA
Found at i:942447 original size:32 final size:32
Alignment explanation
Indices: 942362--942485 Score: 110
Period size: 32 Copynumber: 3.8 Consensus size: 32
942352 TTGTGCAATA
*
942362 AAATAAAATGTTAGTAA-GTTAGCAAGAACAATAA-
1 AAATAAAA-GTTAG-AATGTTAGTAAGAA-AA-AAT
*
942396 AAATAAAAAGTTAGTATGTTAGTAAGAAAAAAT
1 AAAT-AAAAGTTAGAATGTTAGTAAGAAAAAAT
** **
942429 AAATAAAAGTTAGAATGTTAGTTCG-AATGAT
1 AAATAAAAGTTAGAATGTTAGTAAGAAAAAAT
*
942460 AAAATAAATGTTAGAATGTTAGTAAG
1 -AAATAAAAGTTAGAATGTTAGTAAG
942486 TTAGTGACTA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
31 4 0.05
32 42 0.55
33 7 0.09
34 19 0.25
35 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.28
Consensus pattern (32 bp):
AAATAAAAGTTAGAATGTTAGTAAGAAAAAAT
Found at i:944582 original size:19 final size:19
Alignment explanation
Indices: 944558--944594 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
944548 TATTACCTTG
* *
944558 ATTATTTAATTTTTAAAAA
1 ATTATTAAATTTATAAAAA
944577 ATTATTAAATTTATAAAA
1 ATTATTAAATTTATAAAA
944595 TTATTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATTAAATTTATAAAAA
Found at i:944601 original size:11 final size:11
Alignment explanation
Indices: 944587--944667 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
944577 ATTATTAAAT
944587 TTATAAAATTA
1 TTATAAAATTA
*
944598 TTATAAAATAA
1 TTATAAAATTA
* * *
944609 TAATTAAATTT
1 TTATAAAATTA
944620 TTATTAAAA-TA
1 TTA-TAAAATTA
* *
944631 TTACAAAATGA
1 TTATAAAATTA
*
944642 TCATTAAAA-T-
1 TTA-TAAAATTA
944652 TTATAAAATTA
1 TTATAAAATTA
*
944663 GTATA
1 TTATA
944668 GAATAATCAT
Statistics
Matches: 50, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
9 5 0.10
10 7 0.14
11 30 0.60
12 8 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TTATAAAATTA
Found at i:944618 original size:31 final size:31
Alignment explanation
Indices: 944571--944690 Score: 127
Period size: 31 Copynumber: 3.8 Consensus size: 31
944561 ATTTAATTTT
*
944571 TAAAA-AATTATTAAATTTATAAAATTATTA
1 TAAAATAATCATTAAATTTATAAAATTATTA
*
944601 TAAAATAATAATTAAATTTTTATTAAAA-TATTA
1 TAAAATAATCATTAAA--TTTA-TAAAATTATTA
* * *
944634 CAAAATGATCATTAAAATTTATAAAATTAGTA
1 TAAAATAATCATT-AAATTTATAAAATTATTA
* *
944666 TAGAATAATCATTATATTTATAAAA
1 TAAAATAATCATTAAATTTATAAAA
944691 AAAAAATTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
30 5 0.07
31 25 0.33
32 18 0.24
33 19 0.25
34 8 0.11
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
TAAAATAATCATTAAATTTATAAAATTATTA
Found at i:944639 original size:22 final size:21
Alignment explanation
Indices: 944622--944662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
944612 TTAAATTTTT
*
944622 ATTAAAATATTACAAAATGATC
1 ATTAAAAT-TTACAAAATTATC
*
944644 ATTAAAATTTATAAAATTA
1 ATTAAAATTTACAAAATTA
944663 GTATAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTAAAATTTACAAAATTATC
Found at i:944743 original size:22 final size:21
Alignment explanation
Indices: 944705--944751 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
944695 AATTATACTA
*
944705 TTATAATATTACAATAATTATT
1 TTATAATATTACAATAAAT-TT
*
944727 TTATAATAATT-CGATAAATTT
1 TTATAAT-ATTACAATAAATTT
944748 TTAT
1 TTAT
944752 TTACTCAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 13 0.59
23 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTATAATATTACAATAAATTT
Found at i:949883 original size:26 final size:29
Alignment explanation
Indices: 949851--949929 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
949841 ATTTTTTGTA
949851 TTTTCTATTTTAGTCC-TTAAATTT-T-T
1 TTTTCTATTTTAGTCCTTTAAATTTATGT
*
949877 TTTTCTAATTTAGTCCTTTAAATTTATGT
1 TTTTCTATTTTAGTCCTTTAAATTTATGT
949906 TTTTGCTATTTT-GATCCTTTAAAT
1 TTTT-CTATTTTAG-TCCTTTAAAT
949930 CGAATATGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 15 0.33
27 8 0.17
28 1 0.02
29 6 0.13
30 16 0.35
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (29 bp):
TTTTCTATTTTAGTCCTTTAAATTTATGT
Found at i:952084 original size:15 final size:15
Alignment explanation
Indices: 952064--952102 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
952054 TGTATTTGCA
952064 TTTGCATATTTGAAT
1 TTTGCATATTTGAAT
952079 TTTGCATATTTGAAT
1 TTTGCATATTTGAAT
952094 TTTGCATAT
1 TTTGCATAT
952103 GCATTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.54
Consensus pattern (15 bp):
TTTGCATATTTGAAT
Found at i:953407 original size:21 final size:21
Alignment explanation
Indices: 953377--953431 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
953367 AGATCCAATC
953377 AAAACAAAAAAAGAAAGCAAAG
1 AAAAC-AAAAAAGAAAGCAAAG
953399 AAAACAAAACAA-AAAGCAAAG
1 AAAACAAAA-AAGAAAGCAAAG
953420 AGAAA-AAAAAAG
1 A-AAACAAAAAAG
953432 CAAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.07
21 18 0.60
22 10 0.33
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAACAAAAAAGAAAGCAAAG
Found at i:953454 original size:15 final size:16
Alignment explanation
Indices: 953395--953446 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
953385 AAAAGAAAGC
*
953395 AAAG-AAAACAAAACAA
1 AAAGCAAAAGAAAA-AA
953411 AAAGCAAAGAGAAAAAA
1 AAAGCAAA-AGAAAAAA
953428 AAAGCAAAAGAAAAAA
1 AAAGCAAAAGAAAAAA
953444 AAA
1 AAA
953447 CATAAGAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 15 0.45
17 13 0.39
18 5 0.15
ACGTcount: A:0.81, C:0.08, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAGAAAAAA
Found at i:954526 original size:32 final size:32
Alignment explanation
Indices: 954480--954542 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
954470 GGAAATGATA
*
954480 AATGATGGGGCATCTTTAGAGATTCAACATCG
1 AATGATGGGGCATCTTTAGAAATTCAACATCG
* *
954512 AATGTTGGGGCATCTTTGGAAATTCAACATC
1 AATGATGGGGCATCTTTAGAAATTCAACATC
954543 CTGAAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (32 bp):
AATGATGGGGCATCTTTAGAAATTCAACATCG
Found at i:954903 original size:65 final size:64
Alignment explanation
Indices: 954823--955044 Score: 223
Period size: 65 Copynumber: 3.4 Consensus size: 64
954813 AAAATTTATA
* * * * *
954823 ATCTTTGAGTCTGTTTCTCTTGAAACAAATTTTGTCTCTCTCGAGACAGTTTCTCATGAAATATC
1 ATCTTTGAGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTC-TGAAACATC
* *
954888 ACCTTTGAGACTGTTTCCCTTGAAACAAGA-TTTGTCTCCCTTGAGAAAGTTTCTCTTGAAACAC
1 ATCTTTGAGACTGTTTCCCTTGAAACAA-ATTTTGTCTCTCTTGAGAAAGTTTCTC-TGAAACA-
*
954952 CC
63 TC
* * * * *
954954 ATCTTTGATA-TCGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGATAGATTCTCTTAAAGCAT
1 ATCTTTGAGACT-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTCTGAAA-CAT
955018 C
64 C
* * * *
955019 ATCTGTGAGTCGGTTTCTCTTGAAAC
1 ATCTTTGAGACTGTTTCCCTTGAAAC
955045 CATTATCCTA
Statistics
Matches: 128, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
65 79 0.62
66 49 0.38
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (64 bp):
ATCTTTGAGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTCTGAAACATC
Found at i:955328 original size:130 final size:130
Alignment explanation
Indices: 955051--955429 Score: 458
Period size: 130 Copynumber: 2.9 Consensus size: 130
955041 AAACCATTAT
* * *
955051 CCTAAAGATGGTATGCCGTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAG-ACCTCGTCA
1 CCTAAAGATGGT-TACCATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAACTTC-TCA
* *
955115 TCACGTAGGAGCCATGTCACCCATAGATAACCAACCATCCTCATCATGTAGGAACCGTGTTATCA
64 TCACGTAAGAGCCATGTCACCCATAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCA
955180 TC
129 TC
955182 CCTAAAGATGGATTACCATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAACTTCTCAT
1 CCTAAAGATGG-TTACCATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAACTTCTCAT
*** * * *
955247 CACGTAAGAGTTGTGTTA-CCATAGATAACCAGCCATCCTCATTACGTAGGAACCGTGTTATCAT
65 CACGTAAGAGCCATGTCACCCATAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCAT
955311 C
130 C
* * * * * * *
955312 CCTAAAGATGGCTTACCATCCCCATTGCATAGGAACTGTGTCATCC-CCGACTAGACCTCCTCAT
1 CCTAAAGATGG-TTACCATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAACTTCTCAT
* * *** * * * *
955376 CACGTAGGAGCCGTGTCACATTTGGATAACTAACCGTCCTCATCATGTAGGAAC
65 CACGTAAGAGCCATGTCACCCATAGATAACCAACCATCCTCATCACGTAGGAAC
955430 AATATCATCC
Statistics
Matches: 213, Mismatches: 32, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
129 29 0.14
130 111 0.52
131 68 0.32
132 5 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (130 bp):
CCTAAAGATGGTTACCATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGAACTTCTCATC
ACGTAAGAGCCATGTCACCCATAGATAACCAACCATCCTCATCACGTAGGAACCGTGTTATCATC
Found at i:955500 original size:43 final size:42
Alignment explanation
Indices: 955369--955517 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 42
955359 CGACTAGACC
* *** *
955369 TCCTCATCACGTAGGAGCCGTGTCACATTTGGATAACTAACCG
1 TCCTCATCACGTAGGAACCGTGTCACCCCT-GATAACCAACCG
* ** *
955412 TCCTCATCATGTAGGAACAATATCATCCCCTG---ACCAACAC-
1 TCCTCATCACGTAGGAACCGTGTCA-CCCCTGATAACCAAC-CG
*
955452 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAACCG
1 TCCTCATCACGTAGGAACCGTGTCACCCCT-GATAACCAACCG
955495 TCCTCAT-AGCGTAGGAACCGTGT
1 TCCTCATCA-CGTAGGAACCGTGT
955518 TATCACCCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
39 5 0.06
40 26 0.31
41 1 0.01
42 2 0.02
43 47 0.57
44 2 0.02
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (42 bp):
TCCTCATCACGTAGGAACCGTGTCACCCCTGATAACCAACCG
Found at i:955509 original size:83 final size:82
Alignment explanation
Indices: 955352--955512 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 82
955342 AGGAACTGTG
* ** * *
955352 TCATCCCCGACTAGACCTCCTCATCACGTAGGAGCCGTGTCACATTTGGATAACTAACCGTCCTC
1 TCATCCCCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACACCTAGATAACCAACCGTCCTC
*
955417 ATCATGTAGGAACAATA
66 ATCACGTAGGAACAATA
*
955434 TCATCCCCTGACCA-ACACTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAACCGTCC
1 TCATCCCC-GACCAGAC-CTCCTCATCACGTAGGAGCCGTGTCACACCTAGATAACCAACCGTCC
955498 TCAT-AGCGTAGGAAC
64 TCATCA-CGTAGGAAC
955513 CGTGTTATCA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
82 11 0.16
83 58 0.84
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (82 bp):
TCATCCCCGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACACCTAGATAACCAACCGTCCTC
ATCACGTAGGAACAATA
Found at i:955560 original size:51 final size:51
Alignment explanation
Indices: 955505--955619 Score: 221
Period size: 51 Copynumber: 2.3 Consensus size: 51
955495 TCCTCATAGC
955505 GTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCATGCCGTCCTCTTCAT
1 GTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCATGCCGTCCTCTTCAT
*
955556 GTAGGAACCGTGTTATTACCCTTCCTAAAGATGGCATGCCGTCCTCTTCAT
1 GTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCATGCCGTCCTCTTCAT
955607 GTAGGAACCGTGT
1 GTAGGAACCGTGT
955620 CATCCACCGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (51 bp):
GTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCATGCCGTCCTCTTCAT
Found at i:955871 original size:3 final size:3
Alignment explanation
Indices: 955859--955894 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
955849 CGAAAAAATA
*
955859 TAT TATT TAT TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
955895 ATTAATGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:957277 original size:30 final size:30
Alignment explanation
Indices: 957243--957385 Score: 148
Period size: 30 Copynumber: 4.7 Consensus size: 30
957233 AATTTCTATA
*
957243 TTGCTATTTTAGTCCTTAAAATTTTTGTTT
1 TTGCTATTTTAGTCCTTTAAATTTTTGTTT
* * * *
957273 TTGCTATTTTCGTCTTTTAAGTTTATGTATT
1 TTGCTATTTTAGTCCTTTAAATTTTTGT-TT
* * *
957304 TT-ATATTTTAGTCCTTTAAGTTTTTGTAT
1 TTGCTATTTTAGTCCTTTAAATTTTTGTTT
957333 TTGCTATTTTAGTCCTTTAAATTTCTAT-TTT
1 TTGCTATTTTAGTCCTTTAAATTT-T-TGTTT
*
957364 TTTCTATTTT-GATCCTTTAAAT
1 TTGCTATTTTAG-TCCTTTAAAT
957386 CGAATATGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
29 3 0.03
30 64 0.68
31 26 0.28
32 1 0.01
ACGTcount: A:0.20, C:0.10, G:0.09, T:0.61
Consensus pattern (30 bp):
TTGCTATTTTAGTCCTTTAAATTTTTGTTT
Found at i:959750 original size:14 final size:12
Alignment explanation
Indices: 959733--959859 Score: 63
Period size: 11 Copynumber: 10.6 Consensus size: 12
959723 TATATATATA
959733 TATTATTTTATTCT
1 TATT-TTTT-TTCT
959747 TATTTTTTTTCT
1 TATTTTTTTTCT
* *
959759 CTCTTTTTGTT-T
1 -TATTTTTTTTCT
959771 TATTTTTGTTT-T
1 TATTTTT-TTTCT
959783 TA-TTTTTTTC-
1 TATTTTTTTTCT
**
959793 TATTTAATTTCAT
1 TATTTTTTTTC-T
*
959806 TATTTTTCCTTTGT
1 TATTTTT--TTTCT
959820 T-TTTATTTTTCT
1 TATTT-TTTTTCT
*
959832 T-TTATTTTTCT
1 TATTTTTTTTCT
*
959843 T-TTATTTTT-T
1 TATTTTTTTTCT
959853 TATTTTT
1 TATTTTT
959860 ATTTATTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
10 7 0.08
11 36 0.40
12 17 0.19
13 20 0.22
14 8 0.09
15 3 0.03
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (12 bp):
TATTTTTTTTCT
Found at i:959753 original size:12 final size:12
Alignment explanation
Indices: 959738--959797 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
959728 ATATATATTA
*
959738 TTTTATTCTTAT
1 TTTTGTTCTTAT
* *
959750 TTTTTTTCTCTCT
1 TTTTGTTCT-TAT
959763 TTTTGTT-TTAT
1 TTTTGTTCTTAT
*
959774 TTTTGTTTTTAT
1 TTTTGTTCTTAT
959786 TTTT-TTC-TAT
1 TTTTGTTCTTAT
959796 TT
1 TT
959798 AATTTCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 5 0.12
11 11 0.27
12 17 0.41
13 8 0.20
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTGTTCTTAT
Found at i:959776 original size:10 final size:9
Alignment explanation
Indices: 959735--959913 Score: 76
Period size: 10 Copynumber: 18.6 Consensus size: 9
959725 TATATATATA
959735 TTATTTTATT
1 TTATTTT-TT
959745 CTTATTTTTT
1 -TTATTTTTT
* *
959755 TTCTCTCTTT
1 TTAT-TTTTT
* *
959765 TTGTTTTAT
1 TTATTTTTT
*
959774 TT-TTGTTT
1 TTATTTTTT
959782 TTATTTTTT
1 TTATTTTTT
*
959791 TCTATTTAATT
1 T-TATTT-TTT
*
959802 TCATTATTTT
1 TTATT-TTTT
**
959812 TCCTTTGTTT
1 TTATTT-TTT
959822 TTATTTTTCTT
1 TTA-TTTT-TT
959833 TTATTTTTCT
1 TTATTTTT-T
959843 TT-TATTTTT
1 TTAT-TTTTT
959852 TTATTTTTAT
1 TTATTTTT-T
*
959862 TTA-TTTTA
1 TTATTTTTT
* *
959870 CTATTTTAT
1 TTATTTTTT
959879 TTATTTTGTT
1 TTATTTT-TT
959889 TATATTTATTT
1 T-TATTT-TTT
* *
959900 ATATTTATT
1 TTATTTTTT
959909 TTATT
1 TTATT
959914 ATTCTTCCAT
Statistics
Matches: 129, Mismatches: 23, Indels: 34
0.69 0.12 0.18
Matches are distributed among these distances:
8 8 0.06
9 43 0.33
10 51 0.40
11 26 0.20
12 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (9 bp):
TTATTTTTT
Found at i:959827 original size:17 final size:17
Alignment explanation
Indices: 959805--959845 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
959795 TTTAATTTCA
*
959805 TTATTTTTCCTTTGTTT
1 TTATTTTTCCTTTATTT
*
959822 TTATTTTTCTTTTATTT
1 TTATTTTTCCTTTATTT
*
959839 TTCTTTT
1 TTATTTT
959846 ATTTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (17 bp):
TTATTTTTCCTTTATTT
Found at i:959883 original size:21 final size:21
Alignment explanation
Indices: 959850--959912 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
959840 TCTTTTATTT
959850 TTTTATTTTTATTTATTTTACTA
1 TTTTA-TTTTATTTATTTTA-TA
959873 TTTTA-TTTATTT-TGTTTATA
1 TTTTATTTTATTTAT-TTTATA
959893 -TTTATTTATATTTATTTTAT
1 TTTTATTT-TATTTATTTTAT
959913 TATTCTTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 21 0.58
22 1 0.03
23 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTATTTTATTTATTTTATA
Found at i:962667 original size:95 final size:96
Alignment explanation
Indices: 962494--962756 Score: 379
Period size: 95 Copynumber: 2.7 Consensus size: 96
962484 AGATTATAAT
* * * *
962494 ATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACTCCCTGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
962559 TGGATAAGATTCAACTAGCCTGATAAAGGTG
66 TGGATAAGATTCAACTAGCCTGATAAAGGTG
* *
962590 ATTATA-ATGTACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
* *
962654 TGGATAATATTCAACTAGCTTGATAAAGGTG
66 TGGATAAGATTCAACTAGCCTGATAAAGGTG
* *
962685 ATTATAATATCTATACAATTATA--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGAC
1 ATTAT-ATA--TATACAA-TAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGC
962748 TTTATGGAT
62 TTTATGGAT
962757 TCAGCTAGCC
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
95 86 0.57
96 7 0.05
97 1 0.01
98 47 0.31
99 6 0.04
100 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
TGGATAAGATTCAACTAGCCTGATAAAGGTG
Found at i:964019 original size:84 final size:84
Alignment explanation
Indices: 963862--965002 Score: 1142
Period size: 84 Copynumber: 13.7 Consensus size: 84
963852 GAAACTATTG
* * *
963862 GCAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAAGACCTTCGAGTTCGACTACTCTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
963927 GCTCCAAGGCACATTATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
963946 GCAACATAGCTCAAGGCAAGAAGGGATATTTTCCAGCAAAAGACCTTCGAGTTCGACTACGC-CT
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTC-
* *
964010 AGCTGCAAGGCACGTCATTT
65 AGCTCCAAGGCACATCATTT
* * * * * * *
964030 GTAGCATAGCTCAAGGCGAGAAGGGCGATCTGCCAACAAAAGACCTTCAAGTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
964095 GCTCCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
** * * * * * * *
964114 GCAATATAACTTAAGTCGAGAAAGGCTATCTTCCAACCAAAGACCTTCAAGTTTGATTACACTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
964179 GCTTCAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * *
964198 TCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
* *
964263 GCTCAAAGGCATATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
964282 GTAGCATATCTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
964347 GCTCCAAGGCAAATCATTT
66 GCTCCAAGGCACATCATTT
* ** * * *
964366 ACATAATAACTCAAGGCCAGAAGGGTTATCTAT-CAAC-AAAGACCTTCGAGTTCGAATACACTC
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCT-TCCAACAAAAGACCTTCGAGTTCGACTACACTC
*
964429 AGCTCAAAGGCACATCATTT
65 AGCTCCAAGGCACATCATTT
* * * * * * *
964449 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCCATTACACTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
964514 GCTCCAAGGCAAATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * * * *
964533 ACAGTATAACTCAAGGCTAG-AGGGTTATCTGCCAATAAAAGACCTTCGACTTTGACTACGCTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
964597 GCTCAAAGGCACATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
964616 GCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGAGTTCAATTACACTCA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
*
964681 GCTCCAAGGCAAATCATTT
66 GCTCCAAGGCACATCATTT
* * * * * * *
964700 ACAGTATAACTCAAGGCTAGAAGGGTTATCTGT-CAAC-AAAGTCCTTCGAGTTCGATTACCCTC
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCT-TCCAACAAAAGACCTTCGAGTTCGACTACACTC
*
964763 AGCTCAAAGGCACATCATTT
65 AGCTCCAAGGCACATCATTT
* * * * * *
964783 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTC-ATTTACACTC
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGA-CTACACTC
*
964847 AGCT-CAAGGGCATATCATTT
65 AGCTCCAA-GGCACATCATTT
* * * * * * *
964867 GCAGTATAGCTCAAGGCTAGAAAGGG-TATC-TGC--C-AAAGACCCTCGAGTTCGATTACACTT
1 GCAGCATAACTCAAGGCGAG-AAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTC
* * *
964927 AGTTTCGAGTGCACATCATTT
65 AGCTCCAAG-GCACATCATTT
* * * *
964948 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGT-AAAC-AAAGACCTTTGAGTTCGA
1 GCAGCATAACTCAAGGCGAGAAGGGCTATCT-TCCAACAAAAGACCTTCGAGTTCGA
965003 TTATCTGTCA
Statistics
Matches: 871, Mismatches: 166, Indels: 40
0.81 0.15 0.04
Matches are distributed among these distances:
80 31 0.04
81 36 0.04
83 211 0.24
84 586 0.67
85 7 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCGAGAAGGGCTATCTTCCAACAAAAGACCTTCGAGTTCGACTACACTCA
GCTCCAAGGCACATCATTT
Found at i:964158 original size:168 final size:168
Alignment explanation
Indices: 963863--965005 Score: 1423
Period size: 167 Copynumber: 6.8 Consensus size: 168
963853 AAACTATTGG
* *
963863 CAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAAGACCTTCGAGTTCGACTACTCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * * * * *
963928 CTCCAAGGCACATTATTTGCAACATAGCTCAAGGCAAGAAGGGATATTTTCCAGCAAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
* * * ** *
963993 CGAGTTCGACTACGC-CTAGCTGCAAGGCACGTCATTTG
131 CGAGTTCGATTACACTC-AGCTCCAAGGCAAATCATTTA
* * * ** * *
964031 TAGCATAGCTCAAGGCGAGAAGGGCGATCTGCCAACAAAAGACCTTCAAGTTTGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * *
964096 CTCCAAGGCACATCATTTGCAATATAACTTAAGTCGAGAAAGGCTATCTTCCAACCAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
* * * * *
964161 CAAGTTTGATTACACTCAGCTTCAAGGCACATCATTTT
131 CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
964199 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * *
964264 CTCAAAGGCATATCATTTGTAGCATATCTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
964329 CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
131 CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
** * ** * *
964367 CATAATAACTCAAGGCCAGAAGGGTTATCTATCAAC-AAAGACCTTCGAGTTCGAATACACTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
964431 CTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
*
964496 CGAGTTCCATTACACTCAGCTCCAAGGCAAATCATTTA
131 CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
* * * *
964534 CAGTATAACTCAAGGCTAG-AGGGTTATCTGCCAATAAAAGACCTTCGACTTTGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
964598 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
*
964663 CGAGTTCAATTACACTCAGCTCCAAGGCAAATCATTTA
131 CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
* * * * *
964701 CAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGTCCTTCGAGTTCGATTACCCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
964765 CTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
66 CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
* *
964830 CGAGTTC-ATTTACACTCAGCT-CAAGGGCATATCATTTG
131 CGAGTTCGA-TTACACTCAGCTCCAA-GGCAAATCATTTA
* * * * * *
964868 CAGTATAGCTCAAGGCTAGAAAGGG-TATCTG-C--C-AAAGACCCTCGAGTTCGATTACACTTA
1 CAGCATAACTCAAGGCTAG-AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * * * * *
964928 GTTTC-GAGTGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGT--AAACAAAGA
65 G-CTCAAAG-GCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCT-TCCAACCAAAGA
*
964990 CCTTTGAGTTCGATTA
127 CCTTCGAGTTCGATTA
965006 TCTGTCAACA
Statistics
Matches: 867, Mismatches: 98, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
164 48 0.06
165 40 0.05
166 18 0.02
167 423 0.49
168 337 0.39
169 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (168 bp):
CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
CTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTT
CGAGTTCGATTACACTCAGCTCCAAGGCAAATCATTTA
Found at i:965009 original size:30 final size:30
Alignment explanation
Indices: 964973--965035 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
964963 GCTAGAAGGG
*
964973 TTATCTGTAAACAAAGACCTTTGAGTTCGA
1 TTATCTGTAAACAAAGACCTTCGAGTTCGA
* *
965003 TTATCTGTCAACAAAGACCTTCGAGTTTGA
1 TTATCTGTAAACAAAGACCTTCGAGTTCGA
965033 TTA
1 TTA
965036 CACTCAGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (30 bp):
TTATCTGTAAACAAAGACCTTCGAGTTCGA
Found at i:965094 original size:278 final size:279
Alignment explanation
Indices: 964725--965285 Score: 785
Period size: 278 Copynumber: 2.0 Consensus size: 279
964715 GCTAGAAGGG
* *
964725 TTATCTGTCAACAAAGTCCTTCGAGTTCGATTACCCTCAGCTCAAAGGCACATCATTTGCAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCAT
* * * * *
964790 AGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTC-ATTTACACTCAGCTCAA
66 AGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGA-TTACACGCAGCTCAA
* * * *
964854 GGGCATATCATTTGCAGT-ATAGCTCAAGGCTAGAAAGGG-TATCTG-C-CAAAGACCCTCGAGT
130 AGGCACATCATTTACA-TCATAACTCAAGGCTAG-AAGGGTTATCTGTCACAAAGACCCTCGAGT
* * * * *
964915 TCGATTACACTTAGTTTC-GAGTGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCT
193 TCGATTACAATCAG-CTCAAAG-GCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCT
964979 GTA-AACAAAGACCTTTGAGTTCGA
256 G-ACAACAAAGACCTTTGAGTTCGA
* *
965003 TTATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCAT
* *
965068 AGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACGCAGCTCAAA
66 AGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACGCAGCTCAAA
* *
965133 GGCACATCATTTACATCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTC
131 GGCACATCATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACAAAGACCCTCGAGTTC
* *
965198 GATTACAATCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAATAAGGGTTATCTGACA
195 GATTACAATCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGACA
*
965263 ATAAAGACCTTTGAGTTCGA
260 ACAAAGACCTTTGAGTTCGA
965283 TTA
1 TTA
965286 CACACAGCTC
Statistics
Matches: 250, Mismatches: 25, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
277 6 0.02
278 148 0.59
279 3 0.01
280 65 0.26
281 28 0.11
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (279 bp):
TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCAT
AGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACGCAGCTCAAA
GGCACATCATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACAAAGACCCTCGAGTTCG
ATTACAATCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGACAA
CAAAGACCTTTGAGTTCGA
Found at i:965099 original size:113 final size:115
Alignment explanation
Indices: 964900--965119 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 115
964890 GGGTATCTGC
* * *
964900 CAAAGACCCTCGAGTTCGATTACACTTAGTTTCGAGTGCACATCATTTGCAGCATAACTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGTCTCAAGTGCACATCATTTGCAGCATAACTCAAGGC
* *
964965 TAGAAGGGTTATCTGTAAAC-AAAGACCTTTGAGTTCGATTATCTGTCAA
66 AAGAAGGGTTATCTGCAAACAAAAGACCTTTGAGTTCGATTATCTGTCAA
* * * *
965014 CAAAGACCTTCGAGTTTGATTACACTCAG-CTCAAAG-GCACATCATTTGTAGCATAGCTCAAGG
1 CAAAGACCCTCGAGTTCGATTACACTCAGTCTC-AAGTGCACATCATTTGCAGCATAACTCAAGG
*
965077 CAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTA
65 CAAGAAGGGTTATCTGCAAACAAAAGACCTTTGAGTTCGATTA
965120 CACGCAGCTC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
113 45 0.48
114 49 0.52
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (115 bp):
CAAAGACCCTCGAGTTCGATTACACTCAGTCTCAAGTGCACATCATTTGCAGCATAACTCAAGGC
AAGAAGGGTTATCTGCAAACAAAAGACCTTTGAGTTCGATTATCTGTCAA
Found at i:965241 original size:83 final size:83
Alignment explanation
Indices: 965003--965850 Score: 1088
Period size: 83 Copynumber: 10.1 Consensus size: 83
964993 TTGAGTTCGA
* **
965003 TTATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
965068 AGCTCAAGGCAAGAAGGG
66 AGCTCAAGGCAAGAAGGG
* * * *
965086 TTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACGCAGCTCAAAGGCACATCATTTACATCA
1 TTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCA
* *
965151 TAACTCAAGGCTAGAAGGG
65 TAGCTCAAGGCAAGAAGGG
* * *
965170 TTATTTGTCAACAAAGACCTTCGAGTTCGATTACAATCAGCTCAAAGGCACATCATTTGCAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
*
965235 AGCTCAAGGCAATAAGGG
66 AGCTCAAGGCAAGAAGGG
* * * *
965253 TTATCTGACAATAAAGACCTTTGAGTTCGATTACACACAGCTCAAAGGCACATCATTTACAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
* * *
965318 AACTCAAGGCGAGAAGAG
66 AGCTCAAGGCAAGAAGGG
* *
965336 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
965401 AGCTCAAGGCAAGAAGGG
66 AGCTCAAGGCAAGAAGGG
* **
965419 TTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
*
965484 AGCTCAAAGCAAGAAGGG
66 AGCTCAAGGCAAGAAGGG
* ** * *
965502 ATATCTACCAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACA
1 TTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCA
* *
965567 TAACTCAAGGCGAGAAGGG
65 TAGCTCAAGGCAAGAAGGG
* * * *
965586 TTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCGCATCATTTGCAGCAT
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
*
965651 AGCTCAAGG-AGAGAATGG
66 AGCTCAAGGCA-AGAAGGG
* * * * * * *
965669 CTATCT-TCCAACAAAAGACCTTCGAGTTCGATCACAGTAAGCTCAAAGGCATATTAAAGTTACA
1 TTATCTGT-CAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA-T-CATTTACA
* *
965733 GCATAACTCAAGGCGAGAAGGG
62 GCATAGCTCAAGGCAAGAAGGG
* * * * * * * *
965755 TTATTTGTCATCAAAGACCTTCGATTTCGATTATATTCAACTCAGAGGCAAATCAAATTTACAGC
1 TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGC
*
965820 ATAGCTGAAGGCAAGAAGGG
64 ATAGCTCAAGGCAAGAAGGG
*
965840 CTATCTGTCAA
1 TTATCTGTCAA
965851 AAAAACTATC
Statistics
Matches: 658, Mismatches: 96, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
82 1 0.00
83 379 0.58
84 181 0.28
85 66 0.10
86 30 0.05
87 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (83 bp):
TTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCAT
AGCTCAAGGCAAGAAGGG
Found at i:965585 original size:167 final size:166
Alignment explanation
Indices: 965004--965870 Score: 1065
Period size: 167 Copynumber: 5.2 Consensus size: 166
964994 TGAGTTCGAT
* * * *
965004 TATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATA
1 TATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATA
* *
965069 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACGCAGCTCAAAG
66 GCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* * * *
965134 GCACATCATTTACATCATAACTCAAGGCTAGAAGGGT
130 GCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGC
* * * *
965171 TATTTGTCAACAAAGACCTTCGAGTTCGATTACAATCAGCTCAAAGGCACATCATTTGCAGCATA
1 TATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATA
* * * * *
965236 GCTCAAGGCAATAAGGGTTATCTGACAATAAAGACCTTTGAGTTCGATTACACACAGCTCAAAGG
66 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGG
* * * *
965301 CACATCATTTACAGCATAACTCAAGGCGAGAAGAGT
131 CACATCATTTACAGCATAGCTCAAGGCAAGAAGGGC
* * *
965337 TATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATA
1 TATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATA
965402 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGG
66 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGG
** * *
965467 CACATCATTTGTAGCATAGCTCAAAGCAAGAAGGGA
131 CACATCATTTACAGCATAGCTCAAGGCAAGAAGGGC
* * *
965503 TATCTACCAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACAT
1 TATCTGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCAT
* * * * *
965568 AACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTTAGCTCAAAG
65 AGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* * *
965633 GCGCATCATTTGCAGCATAGCTCAAGG-AGAGAATGGC
130 GCACATCATTTACAGCATAGCTCAAGGCA-AGAAGGGC
* * * * * * * *
965670 TATCTTCCAACAAAAGACCTTCGAGTTCGATCACAGTAAGCTCAAAGGCATATTAAAGTTACAGC
1 TATCTGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA-T-CATTTGCAGC
* * * * * * * * * *
965735 ATAACTCAAGGCGAGAAGGGTTATTTGTCATCAAAGACCTTCGATTTCGATTATATTCAACTCAG
63 ATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* *
965800 AGGCAAATCAAATTTACAGCATAGCTGAAGGCAAGAAGGGC
128 AGGCACATC--ATTTACAGCATAGCTCAAGGCAAGAAGGGC
* *
965841 TATCTGTCAAAAAA-A-CTATCGAGTTAGATT
1 TATCTGCCAAAAAAGACCT-TCGAGTTCGATT
965871 CCATTCATCT
Statistics
Matches: 623, Mismatches: 69, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
166 228 0.37
167 273 0.44
168 3 0.00
169 81 0.13
170 4 0.01
171 33 0.05
172 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (166 bp):
TATCTGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATA
GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGG
CACATCATTTACAGCATAGCTCAAGGCAAGAAGGGC
Found at i:966547 original size:20 final size:21
Alignment explanation
Indices: 966495--966547 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
966485 TATGTGTTGT
**
966495 TATT-TATATTATATAGTGTG
1 TATTATATATTATATAGTGCA
966515 TATGTAT-TA-TATATA-TGCA
1 TAT-TATATATTATATAGTGCA
966534 TATTATATATTATA
1 TATTATATATTATA
966548 ATTTAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 3 0.11
19 7 0.26
20 13 0.48
21 3 0.11
22 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (21 bp):
TATTATATATTATATAGTGCA
Found at i:967685 original size:17 final size:17
Alignment explanation
Indices: 967663--967704 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
967653 TTTAATTCCA
*
967663 TTATTTTTCCTTTGTTT
1 TTATTTTTCCTTTATTT
**
967680 TTATTTTTGTTTTATTT
1 TTATTTTTCCTTTATTT
967697 TTATTTTT
1 TTATTTTT
967705 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.81
Consensus pattern (17 bp):
TTATTTTTCCTTTATTT
Found at i:967692 original size:5 final size:5
Alignment explanation
Indices: 967678--967791 Score: 60
Period size: 5 Copynumber: 22.0 Consensus size: 5
967668 TTTCCTTTGT
*
967678 TTTTA TTTTTG TTTTA TTTTTA TTTTTA TTTT- TATTT- TTTTA TTTT-
1 TTTTA -TTTTA TTTTA -TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA
* *
967724 TATTCA TTTTG TTTTA TTTTA TTTT- TATTTA TTTTACCA TTTTA -TTTA
1 T-TTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT---A TTTTA TTTTA
*
967772 TTTTG TTTT- TGTTTA TTTTA
1 TTTTA TTTTA T-TTTA TTTTA
967792 GTGTTCTCCC
Statistics
Matches: 88, Mismatches: 7, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
4 11 0.12
5 54 0.61
6 18 0.20
8 5 0.06
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:967692 original size:6 final size:6
Alignment explanation
Indices: 967677--967753 Score: 79
Period size: 6 Copynumber: 12.5 Consensus size: 6
967667 TTTTCCTTTG
*
967677 TTTTTA TTTTT- GTTTTA TTTTTA TTTTTA TTTTTA TTTTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TTTTTA TTTTTA
967726 TTCATTT- TGTTTTA -TTTTA TTTTTA TTT
1 TT--TTTA T-TTTTA TTTTTA TTTTTA TTT
967754 ATTTTACCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
5 9 0.15
6 41 0.67
7 1 0.02
8 10 0.16
ACGTcount: A:0.14, C:0.01, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:967719 original size:20 final size:20
Alignment explanation
Indices: 967677--967759 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
967667 TTTTCCTTTG
*
967677 TTTTTATTTTT-GTTTTA--
1 TTTTTATTTTTATTTTTATT
967694 TTTTTATTTTTATTTTTATT
1 TTTTTATTTTTATTTTTATT
*
967714 TTTTTATTTTTATTCATT-TT
1 TTTTTATTTTTATT-TTTATT
*
967734 GTTTTA-TTTTATTTTTATT
1 TTTTTATTTTTATTTTTATT
967753 TATTTTA
1 T-TTTTA
967760 CCATTTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.20
18 7 0.13
19 9 0.16
20 26 0.47
21 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTATT
Found at i:967754 original size:29 final size:28
Alignment explanation
Indices: 967673--967756 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
967663 TTATTTTTCC
967673 TTTGTTTTTATTTTTGTTTTATTT-TTATT
1 TTTG-TTTTATTTTT-TTTTATTTATTATT
*
967702 TTTATTTTTATTTTTTTATT-TTTATTCA-T
1 TTT-GTTTTATTTTTTT-TTATTTATT-ATT
967731 TTTGTTTTATTTTATTTTTATTTATT
1 TTTGTTTTATTTT-TTTTTATTTATT
967757 TTACCATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
28 16 0.34
29 30 0.64
30 1 0.02
ACGTcount: A:0.14, C:0.01, G:0.04, T:0.81
Consensus pattern (28 bp):
TTTGTTTTATTTTTTTTTATTTATTATT
Done.