Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 17 of 228
Found at i:5759070 original size:39 final size:39
Alignment explanation
Indices: 5759004--5759098 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 39
5758994 AACATTATGA
* *
5759004 GAGAA-TACAAAAAA-TATGAGGGAATACTAAAAAAAT-T
1 GAGAAGTAAAAAAAATTATGAGAGAATACT-AAAAAATCT
*
5759041 GAGAAGTAAAAAAAATTATGAGAGAATACTATAAAATCT
1 GAGAAGTAAAAAAAATTATGAGAGAATACTAAAAAATCT
5759080 GAGAAAGAATAAAAAAAAT
1 GAG-AAG--TAAAAAAAAT
5759099 GAAGATGTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 5 0.10
38 14 0.29
39 17 0.35
40 3 0.06
42 10 0.20
ACGTcount: A:0.61, C:0.04, G:0.16, T:0.19
Consensus pattern (39 bp):
GAGAAGTAAAAAAAATTATGAGAGAATACTAAAAAATCT
Found at i:5759214 original size:16 final size:16
Alignment explanation
Indices: 5759193--5759225 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5759183 AAAGTATAAA
5759193 AAAAATATGAGGATGT
1 AAAAATATGAGGATGT
*
5759209 AAAAATATGATGATGT
1 AAAAATATGAGGATGT
5759225 A
1 A
5759226 TTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (16 bp):
AAAAATATGAGGATGT
Found at i:5759307 original size:42 final size:42
Alignment explanation
Indices: 5759228--5759307 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
5759218 ATGATGTATT
* * * * *
5759228 AAAAATTATGAGAAAATACCAAAAATTACGAGGGAATATTAA
1 AAAAAATAAGAGAAAATACAAAAAATTACAAGAGAATATTAA
* *
5759270 AAAAAATAAGAGAAAGTACAAAAAATTATAAGAGAATA
1 AAAAAATAAGAGAAAATACAAAAAATTACAAGAGAATA
5759308 CTATAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (42 bp):
AAAAAATAAGAGAAAATACAAAAAATTACAAGAGAATATTAA
Found at i:5759316 original size:118 final size:116
Alignment explanation
Indices: 5758892--5759372 Score: 326
Period size: 118 Copynumber: 4.1 Consensus size: 116
5758882 TTAGATGTAT
* * * * * *
5758892 CAAAAATCACGAGGGAATACCAAAAAAATATGAGGAAGTACAAAAAATTATGAG-GGATACCA-A
1 CAAAAATTACGAGGGAATATCAAAAAAATATGAGAAAGTACAAAAAATTATAAGAGAATACTATA
* *
5758955 AAACTACGAGGATGCACAAAAAATTATGAAGATGTATAAAACATTATGAGAGAATA
66 AAA-TATGAGGATG-A-TAAAAA-TATGAAGATGTATAAAA-ATTATGAGAGAATA
* * * *
5759011 CAAAAAATATGAGGGAATA-CTAAAAAAAT-TGAG-AAGTAAAAAAAATTATGAGAGAATACTAT
1 CAAAAATTACGAGGGAATATC-AAAAAAATATGAGAAAGTACAAAAAATTATAAGAGAATACTAT
* * * * * *
5759073 AAAATCTGAGAAAGAATAAAAAAAATGAAGATGTACTAAAAATTA-GAAGGGTATA
65 AAAATATGAGGATG-AT-AAAAATATGAAGATGTA-TAAAAATTATG-AGAGAATA
* * * * * *
5759128 TCAAAACA-TATGA-GGAAGTATCCAAAGATTATGAGAGAA-TACCAAAAA-CA-AAGAGAAAGT
1 -CAAAA-ATTACGAGGGAA-TATCAAAAAAATATGAGA-AAGTACAAAAAATTATAAGAG-AA-T
* * *
5759188 A-TAAAAAAAATATGAGGATG-TAAAAATATGATGATGTATTAAAAATTATGAGAAAATA
60 ACT--ATAAAATATGAGGATGATAAAAATATGAAGATGTA-TAAAAATTATGAGAGAATA
* *
5759246 CCAAAAATTACGAGGGAATATTAAAAAAAATAAGAGAAAGTACAAAAAATTATAAGAGAATACTA
1 -CAAAAATTACGAGGGAATA-TCAAAAAAATATGAGAAAGTACAAAAAATTATAAGAGAATACTA
* * * *
5759311 TAAAATATGAGGAAGTACTAAAAAAATG-AGAAAGTACCAAAAATTATGA-AGGAATA
64 TAAAATATGAGGATG-A-TAAAAATATGAAG-ATGTA-TAAAAATTATGAGA-GAATA
5759367 CAAAAA
1 CAAAAA
5759373 AATATGAGGA
Statistics
Matches: 283, Mismatches: 49, Indels: 59
0.72 0.13 0.15
Matches are distributed among these distances:
116 1 0.00
117 44 0.16
118 105 0.37
119 65 0.23
120 21 0.07
121 47 0.17
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (116 bp):
CAAAAATTACGAGGGAATATCAAAAAAATATGAGAAAGTACAAAAAATTATAAGAGAATACTATA
AAATATGAGGATGATAAAAATATGAAGATGTATAAAAATTATGAGAGAATA
Found at i:5759392 original size:20 final size:20
Alignment explanation
Indices: 5758816--5759393 Score: 149
Period size: 20 Copynumber: 29.2 Consensus size: 20
5758806 GATGATGTAT
**
5758816 AAAAAATTATGAGGAAGTATA
1 AAAAAA-TATGAGGAAGTACC
*
5758837 AAAAAATACT-AGGAATTACC
1 AAAAAATA-TGAGGAAGTACC
* * *
5758857 AAAAATTATGAGGGAGTGCC
1 AAAAAATATGAGGAAGTACC
* * *
5758877 -AAAACT-T-A-GATGTATC
1 AAAAAATATGAGGAAGTACC
*
5758893 -AAAAATCACGAGGGAA-TACC
1 AAAAAAT-ATGA-GGAAGTACC
5758913 AAAAAAATATGAGGAAGTA-C
1 -AAAAAATATGAGGAAGTACC
*
5758933 AAAAAATTATGAGGGA-TACC
1 AAAAAA-TATGAGGAAGTACC
* * * *
5758953 AAAAACTACGAGGATGCA-C
1 AAAAAATATGAGGAAGTACC
* * *
5758972 AAAAAATTATGAAGATGTA-T
1 AAAAAA-TATGAGGAAGTACC
*
5758992 AAAACATTATGAGAGAA-TA-C
1 AAAA-AATATGAG-GAAGTACC
*
5759012 AAAAAATATGAGGGAA-TACT
1 AAAAAATATGA-GGAAGTACC
*
5759032 AAAAAA-ATTGA-GAAGTA-A
1 AAAAAATA-TGAGGAAGTACC
*
5759050 AAAAAATTATGAGAGAA-TACT
1 AAAAAA-TATGAG-GAAGTACC
* * * **
5759071 ATAAAATCTGAGAAAG-AAT
1 AAAAAATATGAGGAAGTACC
* * * *
5759090 AAAAAAAATGAAGATGTACT
1 AAAAAATATGAGGAAGTACC
* * *
5759110 AAAAATTA-GAAGGGTA-TATC
1 AAAAAATATG-A-GGAAGTACC
*
5759130 AAAACATATGAGGAAGTATCC
1 AAAAAATATGAGGAAGTA-CC
* *
5759151 AAAGATTATGAGAGAA-TACC
1 AAAAAATATGAG-GAAGTACC
* * **
5759171 AAAAACA-AAGAGAAAGTATAA
1 AAAAA-ATATGAGGAAGTA-CC
*
5759192 AAAAAATATGAGGATGT---
1 AAAAAATATGAGGAAGTACC
* * **
5759209 -AAAAATATGATGATGTATT
1 AAAAAATATGAGGAAGTACC
* * *
5759228 AAAAATTATGAGAAAATACC
1 AAAAAATATGAGGAAGTACC
* * **
5759248 AAAAATTACGAGGGAA-TATTAA
1 AAAAAATATGA-GGAAGTA--CC
* *
5759270 AAAAAATAAGAGAAAGTA-C
1 AAAAAATATGAGGAAGTACC
* *
5759289 AAAAAATTATAAGAGAA-TACT
1 AAAAAA-TATGAG-GAAGTACC
* *
5759310 ATAAAATATGAGGAAGTACT
1 AAAAAATATGAGGAAGTACC
*
5759330 AAAAAA-ATGAGAAAGTACC
1 AAAAAATATGAGGAAGTACC
* *
5759349 AAAAATTATGAAGGAA-TACA
1 AAAAAATATG-AGGAAGTACC
5759369 AAAAAATATGAGGAAGTACC
1 AAAAAATATGAGGAAGTACC
5759389 AAAAA
1 AAAAA
5759394 TTGTAAGGGG
Statistics
Matches: 405, Mismatches: 100, Indels: 105
0.66 0.16 0.17
Matches are distributed among these distances:
16 24 0.06
17 1 0.00
18 10 0.02
19 94 0.23
20 188 0.46
21 68 0.17
22 20 0.05
ACGTcount: A:0.56, C:0.07, G:0.17, T:0.20
Consensus pattern (20 bp):
AAAAAATATGAGGAAGTACC
Found at i:5762041 original size:20 final size:19
Alignment explanation
Indices: 5762018--5762085 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
5762008 ATCTAAGGGA
5762018 ATACCAAAAATTATGAACAT
1 ATACCAAAAATTATGAA-AT
**
5762038 ATACCAATTATTATGAGAAAAT
1 ATACCAAAAATTAT--G-AAAT
*
5762060 ATA-AAAAAATTATGAAACT
1 ATACCAAAAATTATGAAA-T
5762079 ATACCAA
1 ATACCAA
5762086 TTATTAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 3 0.08
19 5 0.14
20 14 0.38
21 7 0.19
22 6 0.16
23 2 0.05
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (19 bp):
ATACCAAAAATTATGAAAT
Found at i:5767605 original size:15 final size:15
Alignment explanation
Indices: 5767555--5767611 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
5767545 CTTAACCTAA
5767555 AATT-TTTAA-TTAT
1 AATTATTTAATTTAT
* *
5767568 ACTTATATTAATATTTT
1 AATTAT-TTAAT-TTAT
*
5767585 ATTTATTTAATTTAT
1 AATTATTTAATTTAT
5767600 AATTATTTAATT
1 AATTATTTAATT
5767612 ATCCAACCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 18 0.51
16 5 0.14
17 8 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTATTTAATTTAT
Found at i:5769359 original size:21 final size:21
Alignment explanation
Indices: 5769334--5769439 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
5769324 TGAGCTCCAG
5769334 TTAACTCATATGAGTTTCCGT
1 TTAACTCATATGAGTTTCCGT
* * *
5769355 TTAAC-CCTAATGGGTTTCAGT
1 TTAACTCAT-ATGAGTTTCCGT
* * * * * *
5769376 TCAGCTCTTTTGAGCTTCAGT
1 TTAACTCATATGAGTTTCCGT
* * *
5769397 TTAACTCCTATGGGTTTTCGT
1 TTAACTCATATGAGTTTCCGT
* * *
5769418 TCAGCTCATATGAGCTTCCGT
1 TTAACTCATATGAGTTTCCGT
5769439 T
1 T
5769440 CAACCCTTAT
Statistics
Matches: 60, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (21 bp):
TTAACTCATATGAGTTTCCGT
Found at i:5769400 original size:42 final size:40
Alignment explanation
Indices: 5769338--5769456 Score: 139
Period size: 42 Copynumber: 2.9 Consensus size: 40
5769328 CTCCAGTTAA
*
5769338 CTCATATGAGTTTCCGTTTAACCCTAATGGGTTTCAGTTCAG
1 CTCATATGAGCTTCCGTTTAACCCT-ATGGGTTTC-GTTCAG
* * *
5769380 CTCTTTTGAGCTTCAGTTTAACTCCTATGGGTTTTCGTTCAG
1 CTCATATGAGCTTCCGTTTAAC-CCTATGGG-TTTCGTTCAG
* *
5769422 CTCATATGAGCTTCCGTTCAACCCTTATAGGTTTC
1 CTCATATGAGCTTCCGTTTAACCC-TATGGGTTTC
5769457 CATTTAGCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 6 0.09
42 52 0.80
43 7 0.11
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (40 bp):
CTCATATGAGCTTCCGTTTAACCCTATGGGTTTCGTTCAG
Found at i:5775158 original size:17 final size:17
Alignment explanation
Indices: 5775136--5775169 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5775126 TTAAATTAAT
5775136 TTAAATAAAATTTTCAA
1 TTAAATAAAATTTTCAA
5775153 TTAAATAAAATTTTCAA
1 TTAAATAAAATTTTCAA
5775170 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATAAAATTTTCAA
Found at i:5775305 original size:13 final size:13
Alignment explanation
Indices: 5775289--5775315 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5775279 TCAATGTGTT
5775289 TTATTATAGTACC
1 TTATTATAGTACC
5775302 TTATTATAGTACC
1 TTATTATAGTACC
5775315 T
1 T
5775316 AGTGTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TTATTATAGTACC
Found at i:5775588 original size:11 final size:12
Alignment explanation
Indices: 5775558--5775599 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
5775548 AGAGTTTTTC
*
5775558 ATTTGAAATAAT
1 ATTTTAAATAAT
*
5775570 AATTTTAATTAAT
1 -ATTTTAAATAAT
5775583 -TTTTAAATAAT
1 ATTTTAAATAAT
5775594 ATTTTA
1 ATTTTA
5775600 TTATTATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 10 0.40
12 5 0.20
13 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATTTTAAATAAT
Found at i:5787099 original size:19 final size:19
Alignment explanation
Indices: 5787075--5787126 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
5787065 TACGCGCTCC
5787075 GTGTGCCAAGATGCACTTT
1 GTGTGCCAAGATGCACTTT
*
5787094 GTGTG-CTAGTATGCACTTT
1 GTGTGCCAAG-ATGCACTTT
*
5787113 GTGCGCCAAGATGC
1 GTGTGCCAAGATGC
5787127 GTTTTGTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.11
19 22 0.79
20 3 0.11
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (19 bp):
GTGTGCCAAGATGCACTTT
Found at i:5789266 original size:31 final size:31
Alignment explanation
Indices: 5789155--5789265 Score: 107
Period size: 31 Copynumber: 3.6 Consensus size: 31
5789145 TCTAACTACC
* * *
5789155 GTGGTAAACCATCATTATCGTGCAATT-TGAG
1 GTGGTAAACCATCATTGTCGGGCAATTCAG-G
* ** * * *
5789186 ATGGTAAGTCATCGTTGTCGGACAATTCGGG
1 GTGGTAAACCATCATTGTCGGGCAATTCAGG
* *
5789217 GTGGTAAACCATCGTTGTTGGGCAATTCAGG
1 GTGGTAAACCATCATTGTCGGGCAATTCAGG
5789248 GTGGTAAACCATCATTGT
1 GTGGTAAACCATCATTGT
5789266 TAGGCAATCT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
31 63 0.98
32 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (31 bp):
GTGGTAAACCATCATTGTCGGGCAATTCAGG
Found at i:5789272 original size:31 final size:31
Alignment explanation
Indices: 5789208--5789273 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
5789198 CGTTGTCGGA
* * *
5789208 CAATTCGGGGTGGTAAACCATCGTTGTTGGG
1 CAATTCAGGGTGGTAAACCATCATTGTTAGG
5789239 CAATTCAGGGTGGTAAACCATCATTGTTAGG
1 CAATTCAGGGTGGTAAACCATCATTGTTAGG
5789270 CAAT
1 CAAT
5789274 CTGAAGTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (31 bp):
CAATTCAGGGTGGTAAACCATCATTGTTAGG
Found at i:5797768 original size:36 final size:36
Alignment explanation
Indices: 5797721--5797794 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
5797711 TGGTAACCAT
*
5797721 TACATCTTCCTTAATGAAAAGTCAATTACTATAAAA
1 TACATATTCCTTAATGAAAAGTCAATTACTATAAAA
5797757 TACATATTCCTTAATGAAAAGTCAATTACTATAAAA
1 TACATATTCCTTAATGAAAAGTCAATTACTATAAAA
5797793 TA
1 TA
5797795 GTAATCAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (36 bp):
TACATATTCCTTAATGAAAAGTCAATTACTATAAAA
Found at i:5809453 original size:19 final size:18
Alignment explanation
Indices: 5809423--5809468 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
5809413 CATGCAACTG
5809423 TCATATATATATATCATA
1 TCATATATATATATCATA
*
5809441 TCATATCATATATCTCATA
1 TCATAT-ATATATATCATA
5809460 T-AT-TATATA
1 TCATATATATA
5809469 AAAGAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 8 0.31
19 12 0.46
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (18 bp):
TCATATATATATATCATA
Found at i:5819966 original size:44 final size:44
Alignment explanation
Indices: 5819917--5820004 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
5819907 CAAGTGGAGA
5819917 AAGTTGATGGTTTCTCTCCTATTCGGGTATAACTAGCCCTTATT
1 AAGTTGATGGTTTCTCTCCTATTCGGGTATAACTAGCCCTTATT
*
5819961 AAGTTGATGGTTTCTCTCCTATTCGGGTATAACTGGCCCTTATT
1 AAGTTGATGGTTTCTCTCCTATTCGGGTATAACTAGCCCTTATT
5820005 GCATTATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (44 bp):
AAGTTGATGGTTTCTCTCCTATTCGGGTATAACTAGCCCTTATT
Found at i:5824078 original size:16 final size:17
Alignment explanation
Indices: 5824052--5824085 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5824042 TTTAATTATT
5824052 TAAAAATTAATATAATA
1 TAAAAATTAATATAATA
*
5824069 TAAAAA-TAATTTAATA
1 TAAAAATTAATATAATA
5824085 T
1 T
5824086 TTTCTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAATTAATATAATA
Found at i:5829341 original size:14 final size:14
Alignment explanation
Indices: 5829322--5829368 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
5829312 ATTTATATTA
5829322 TAAAAATGTAATTG
1 TAAAAATGTAATTG
5829336 TAAAAATAGT-A-TG
1 TAAAAAT-GTAATTG
*
5829349 -ATAAATGTAATTG
1 TAAAAATGTAATTG
5829362 TAAAAAT
1 TAAAAAT
5829369 AAATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.07
12 6 0.22
13 4 0.15
14 13 0.48
15 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (14 bp):
TAAAAATGTAATTG
Found at i:5831845 original size:16 final size:16
Alignment explanation
Indices: 5831824--5831857 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5831814 CATTACAAAC
*
5831824 ATTTTTCTTTTCTTCT
1 ATTTTTCTTATCTTCT
5831840 ATTTTTCTTATCTTCT
1 ATTTTTCTTATCTTCT
5831856 AT
1 AT
5831858 ACTAAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTCTTATCTTCT
Found at i:5835458 original size:14 final size:16
Alignment explanation
Indices: 5835439--5835473 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5835429 TTAATACCAC
5835439 ATTTTTTA-ATATATT
1 ATTTTTTACATATATT
*
5835454 ATTTTTTACTTATATT
1 ATTTTTTACATATATT
5835470 ATTT
1 ATTT
5835474 GTAAATCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTACATATATT
Found at i:5839008 original size:3 final size:3
Alignment explanation
Indices: 5839000--5839027 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5838990 GTGTATCAGT
5839000 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
5839028 CTCTAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:5843639 original size:18 final size:18
Alignment explanation
Indices: 5843618--5843655 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5843608 CAATACACTT
5843618 AACATCCAAACACAAGCC
1 AACATCCAAACACAAGCC
5843636 AACATCCAAACACAAGCC
1 AACATCCAAACACAAGCC
5843654 AA
1 AA
5843656 AAAGGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.37, G:0.05, T:0.05
Consensus pattern (18 bp):
AACATCCAAACACAAGCC
Found at i:5848754 original size:45 final size:45
Alignment explanation
Indices: 5848670--5848755 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
5848660 GCTATATGCC
* *
5848670 AAAATGAGTAAGACTATAGCTGAAAGATGCTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTGAAAGATACTATGACATCATGATA
* * *
5848715 AAAATGAGTAAGACCATGGCTGAAAGATATTATGGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAGATACTATGACATCAT
5848756 ATGAAATCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATACTATGACATCATGATA
Found at i:5854135 original size:46 final size:43
Alignment explanation
Indices: 5854051--5854138 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 43
5854041 CTTGATCAGT
* *
5854051 ATATGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGAA
1 ATATGACACATAAGTGCCTGAAACGACACACAAAGTGCCTGAA
*
5854094 ATATGACACATAAAGTGCCTGATATACGACACATAAAGTGCCTGA
1 ATATGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTGA
5854139 TCGGCAGAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 11 0.28
44 10 0.26
45 1 0.03
46 17 0.44
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (43 bp):
ATATGACACATAAGTGCCTGAAACGACACACAAAGTGCCTGAA
Found at i:5854139 original size:23 final size:23
Alignment explanation
Indices: 5854050--5854139 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
5854040 ACTTGATCAG
*
5854050 TATATGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
5854072 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* *
5854093 AATATGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
5854116 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
5854139 T
1 T
5854140 CGGCAGAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.12
21 10 0.18
22 1 0.02
23 38 0.68
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:5857035 original size:10 final size:10
Alignment explanation
Indices: 5856986--5857033 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
5856976 TAAATTCCTA
5856986 AAAGATAAAT
1 AAAGATAAAT
* ** *
5856996 ACATTTAATT
1 AAAGATAAAT
5857006 AAAGATAAAT
1 AAAGATAAAT
5857016 AAAGATAAAT
1 AAAGATAAAT
5857026 AAA-ATAAA
1 AAAGATAAA
5857034 ATGCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5863197 original size:29 final size:29
Alignment explanation
Indices: 5863161--5863218 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
5863151 GATTCTTGAC
5863161 TTGATTTGTGTTTATTTGAAGTTGAAATG
1 TTGATTTGTGTTTATTTGAAGTTGAAATG
5863190 TTGATTTGTGTTTATTTGAAGTTGAAATG
1 TTGATTTGTGTTTATTTGAAGTTGAAATG
5863219 GATGAATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (29 bp):
TTGATTTGTGTTTATTTGAAGTTGAAATG
Found at i:5863524 original size:29 final size:29
Alignment explanation
Indices: 5863491--5863572 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
5863481 GCTTAAGACC
*
5863491 CGGGCTGTCACACGACCATGTGTCACACA
1 CGGGCTGTCACACGACCGTGTGTCACACA
* *
5863520 CGGGCTGCCACACAACCGTGTGTCACACA
1 CGGGCTGTCACACGACCGTGTGTCACACA
*
5863549 CGGGCTGTTCACATGACCGTGTGT
1 CGGGCTG-TCACACGACCGTGTGT
5863573 TTTTAAATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 33 0.72
30 13 0.28
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.20
Consensus pattern (29 bp):
CGGGCTGTCACACGACCGTGTGTCACACA
Found at i:5864866 original size:21 final size:21
Alignment explanation
Indices: 5864840--5864882 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5864830 CAACGATAGA
*
5864840 AGGAACAACAGCAGCGACATG
1 AGGAACAACAGCAACGACATG
* *
5864861 AGGAACACCCGCAACGACATG
1 AGGAACAACAGCAACGACATG
5864882 A
1 A
5864883 TCACTGGCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.28, G:0.26, T:0.05
Consensus pattern (21 bp):
AGGAACAACAGCAACGACATG
Found at i:5867043 original size:3 final size:3
Alignment explanation
Indices: 5867028--5867135 Score: 99
Period size: 3 Copynumber: 36.0 Consensus size: 3
5867018 TTTAAGATTT
* * ** * * * * * *
5867028 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
5867076 TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5867124 TTA TTA TTA TTA
1 TTA TTA TTA TTA
5867136 AATTGTTTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:5885558 original size:46 final size:46
Alignment explanation
Indices: 5885491--5885813 Score: 513
Period size: 46 Copynumber: 7.0 Consensus size: 46
5885481 CATGGCAAAG
5885491 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
5885537 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* **
5885583 TATGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* **
5885629 TGTGAAAAGTAGGTATGGTATTTCCTTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
5885675 TGTTAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * * *
5885721 TGTGAAAATTATGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
*
5885767 TGTGAAAAGTAGGTATGGTATTTTC-GTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGT-GTTTCGGTGAAGAAAACCATACTGAGT
5885813 T
1 T
5885814 ATAGCAATGT
Statistics
Matches: 256, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 252 0.98
47 4 0.02
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:5886257 original size:30 final size:30
Alignment explanation
Indices: 5886221--5886279 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
5886211 TCGAGTGATT
5886221 GATTAAAAACTAAAATTAACTAACAAACAC
1 GATTAAAAACTAAAATTAACTAACAAACAC
5886251 GATTAAAAACTAAAATTAACTAACAAACA
1 GATTAAAAACTAAAATTAACTAACAAACA
5886280 TGACAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.15, G:0.03, T:0.20
Consensus pattern (30 bp):
GATTAAAAACTAAAATTAACTAACAAACAC
Found at i:5893368 original size:46 final size:46
Alignment explanation
Indices: 5893301--5893399 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
5893291 AGAAATCATA
* *
5893301 CTACACAAATCAGATAATAGTGTCTGGTCATCCATTAGGGTTGAAC
1 CTACACAAATCAAATAATAGTGTCTGGTCATCCATTAGGATTGAAC
* *
5893347 CTACACGAATCAAATAATAGTGTCTGGTCATCCGTTAGGATTGAAC
1 CTACACAAATCAAATAATAGTGTCTGGTCATCCATTAGGATTGAAC
5893393 CTACACA
1 CTACACA
5893400 GCAAATAGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (46 bp):
CTACACAAATCAAATAATAGTGTCTGGTCATCCATTAGGATTGAAC
Found at i:5897978 original size:40 final size:40
Alignment explanation
Indices: 5897892--5897999 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
5897882 TCATTCATCA
* **
5897892 AGCATTAGCGGCGCTTCTTGAAAAACGCCGTTAAAGATCG
1 AGCATTAGCGGCGCTTCTAGAAAAACGCCACTAAAGATCG
* * *
5897932 AGCATTAGCGGCGCATTC-AGAAAAACGCCACTATAGGTTG
1 AGCATTAGCGGCGC-TTCTAGAAAAACGCCACTAAAGATCG
* *
5897972 ATCATTAGTGGCGCTTCTAGAAAAACGC
1 AGCATTAGCGGCGCTTCTAGAAAAACGC
5898000 TGCAAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.05
40 52 0.90
41 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTCTAGAAAAACGCCACTAAAGATCG
Found at i:5898312 original size:7 final size:7
Alignment explanation
Indices: 5898302--5898676 Score: 109
Period size: 7 Copynumber: 52.7 Consensus size: 7
5898292 AGAGTTTTGA
5898302 GTTTAGG
1 GTTTAGG
*
5898309 GTTTATG
1 GTTTAGG
**
5898316 GTTTACA
1 GTTTAGG
*
5898323 GTTT-GTA
1 GTTTAG-G
*
5898330 GTTTATG
1 GTTTAGG
*
5898337 GTTTAGT
1 GTTTAGG
*
5898344 GTTTAGT
1 GTTTAGG
*
5898351 GTTTAAAG
1 GTTT-AGG
5898359 G-TTAGG
1 GTTTAGG
**
5898365 AACTTAGG
1 -GTTTAGG
5898373 GTTTAAGG
1 GTTT-AGG
5898381 G-TTATGG
1 GTTTA-GG
*
5898388 GCTTAGG
1 GTTTAGG
*
5898395 GTCTAGG
1 GTTTAGG
5898402 G-TTAGTG
1 GTTTAG-G
* *
5898409 GCTTAAG
1 GTTTAGG
*
5898416 ATTTAGG
1 GTTTAGG
5898423 GTTTAAGG
1 GTTT-AGG
* *
5898431 ATTTATG
1 GTTTAGG
5898438 GTTTAAGG
1 GTTT-AGG
5898446 G-TTATGG
1 GTTTA-GG
*
5898453 GCTTAGG
1 GTTTAGG
*
5898460 GTCTAGG
1 GTTTAGG
* *
5898467 GGTTATTG
1 GTTTA-GG
*
5898475 GCTTAGG
1 GTTTAGG
*
5898482 GTTTAGT
1 GTTTAGG
**
5898489 GTTTATA
1 GTTTAGG
5898496 GTTTAGG
1 GTTTAGG
*
5898503 GTGTA-G
1 GTTTAGG
*
5898509 GTTTATG
1 GTTTAGG
**
5898516 GTTTAAA
1 GTTTAGG
*
5898523 GTTTAAG
1 GTTTAGG
* *
5898530 TTTTATG
1 GTTTAGG
* *
5898537 ATTTAGT
1 GTTTAGG
* *
5898544 GTTAAGA
1 GTTTAGG
*
5898551 GTTTAGT
1 GTTTAGG
*
5898558 GTTTATG
1 GTTTAGG
*
5898565 GTTTAAG
1 GTTTAGG
*
5898572 GTATA-G
1 GTTTAGG
*
5898578 GTTTATG
1 GTTTAGG
*
5898585 GTTTAGT
1 GTTTAGG
5898592 GTTTAGG
1 GTTTAGG
5898599 GTTTAGG
1 GTTTAGG
*
5898606 GTTTAAGA
1 GTTT-AGG
* *
5898614 GCTTAGA
1 GTTTAGG
*
5898621 TTTTAGG
1 GTTTAGG
*
5898628 GGTTATGG
1 GTTTA-GG
* *
5898636 GCTTAAG
1 GTTTAGG
5898643 GTTTATGG
1 GTTTA-GG
5898651 G-TTAGGG
1 GTTTA-GG
* *
5898658 GCTTATG
1 GTTTAGG
5898665 GTTTAGG
1 GTTTAGG
5898672 GTTTA
1 GTTTA
5898677 AATTTTATAT
Statistics
Matches: 270, Mismatches: 77, Indels: 42
0.69 0.20 0.11
Matches are distributed among these distances:
6 17 0.06
7 203 0.75
8 50 0.19
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:5898392 original size:22 final size:22
Alignment explanation
Indices: 5898367--5898486 Score: 111
Period size: 22 Copynumber: 5.5 Consensus size: 22
5898357 AGGTTAGGAA
5898367 CTTAGGGTTTAAGGGTTATGGG
1 CTTAGGGTTTAAGGGTTATGGG
*
5898389 CTTAGGGTCT-AGGGTTA-GTGG
1 CTTAGGGTTTAAGGGTTATG-GG
* * * *
5898410 CTTAAGATTT-AGGGTTTAAGGA
1 CTTAGGGTTTAAGGG-TTATGGG
* *
5898432 TTTATGGTTTAAGGGTTATGGG
1 CTTAGGGTTTAAGGGTTATGGG
* * *
5898454 CTTAGGGTCTAGGGGTTATTGG
1 CTTAGGGTTTAAGGGTTATGGG
5898476 CTTAGGGTTTA
1 CTTAGGGTTTA
5898487 GTGTTTATAG
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.01
21 20 0.26
22 52 0.67
23 5 0.06
ACGTcount: A:0.19, C:0.06, G:0.37, T:0.38
Consensus pattern (22 bp):
CTTAGGGTTTAAGGGTTATGGG
Found at i:5898433 original size:15 final size:15
Alignment explanation
Indices: 5898411--5898445 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5898401 GGTTAGTGGC
5898411 TTAA-GATTTAGGGT
1 TTAAGGATTTAGGGT
*
5898425 TTAAGGATTTATGGT
1 TTAAGGATTTAGGGT
5898440 TTAAGG
1 TTAAGG
5898446 GTTATGGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (15 bp):
TTAAGGATTTAGGGT
Found at i:5898514 original size:20 final size:21
Alignment explanation
Indices: 5898477--5898520 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
5898467 GGTTATTGGC
*
5898477 TTAGGGTTTAGTGTTTATAGT
1 TTAGGGTGTAGTGTTTATAGT
*
5898498 TTAGGGTGTAG-GTTTATGGT
1 TTAGGGTGTAGTGTTTATAGT
5898518 TTA
1 TTA
5898521 AAGTTTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (21 bp):
TTAGGGTGTAGTGTTTATAGT
Found at i:5898583 original size:20 final size:22
Alignment explanation
Indices: 5898558--5898612 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
5898548 AGAGTTTAGT
5898558 GTTTATGGTTTAAG-GTATA-G
1 GTTTATGGTTTAAGTGTATAGG
*
5898578 GTTTATGGTTT-AGTGTTTAGG
1 GTTTATGGTTTAAGTGTATAGG
*
5898599 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
5898613 AGCTTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 11 0.37
22 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
GTTTATGGTTTAAGTGTATAGG
Found at i:5898639 original size:22 final size:22
Alignment explanation
Indices: 5898598--5898677 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
5898588 TAGTGTTTAG
* *
5898598 GGTTTAGGGTTTAAGAGCTT-A
1 GGTTTAGGGGTTAAGGGCTTAA
* *
5898619 GATTTTAGGGGTTATGGGCTTAA
1 G-GTTTAGGGGTTAAGGGCTTAA
* * *
5898642 GGTTTATGGGTTAGGGGCTTAT
1 GGTTTAGGGGTTAAGGGCTTAA
*
5898664 GGTTTAGGGTTTAA
1 GGTTTAGGGGTTAA
5898678 ATTTTATATT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.02
22 43 0.93
23 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.36, T:0.40
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGGGCTTAA
Found at i:5898663 original size:15 final size:14
Alignment explanation
Indices: 5898623--5898672 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
5898613 AGCTTAGATT
5898623 TTAGGGGTTATGGG
1 TTAGGGGTTATGGG
* *
5898637 CTTAAGGTTTATGGG
1 -TTAGGGGTTATGGG
*
5898652 TTAGGGGCTTATGGT
1 TTAGGGG-TTATGGG
5898667 TTAGGG
1 TTAGGG
5898673 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.16, C:0.04, G:0.42, T:0.38
Consensus pattern (14 bp):
TTAGGGGTTATGGG
Found at i:5899049 original size:103 final size:103
Alignment explanation
Indices: 5898876--5899206 Score: 383
Period size: 103 Copynumber: 3.1 Consensus size: 103
5898866 GTTTTTAGTG
* ** *
5898876 GCGTTTTTACTAAAATGCTGCAAAAGGATATGTGTTAGTGGCGTTTTTAAAAAAAATGCCGCAAT
1 GCGTTTTTACTAAAACGCTGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCGCAAT
*
5898941 CATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATCT
66 TATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATCT
* * ** *
5898979 GCGTTTTTACTAAAACGCTACAAAAGGATATGTGCTAGTGGTATTTTTACGCAAAACGCCGCAAT
1 GCGTTTTTACTAAAACGCTGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCGCAAT
* * * *
5899044 TATGTTTTAAGTGTTTGCTAAACGTTGTTGTTTTGTTCTGCGTTTTTAGT
66 TATGTTTTAAGTGTTTGCTAGACATTGTCG--TT-TTAT-C--------T
* *
5899094 GGCGTTTTTACTAAAACGCCGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCACAA
1 -GCGTTTTTACTAAAACGCTGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCGCAA
*
5899159 TTATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATAT
65 TTATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATCT
*
5899198 ACGTTTTTA
1 GCGTTTTTA
5899207 GTGGCGTTTT
Statistics
Matches: 188, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
103 90 0.48
104 1 0.01
105 2 0.01
106 3 0.02
107 1 0.01
113 3 0.02
114 2 0.01
115 1 0.01
116 85 0.45
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (103 bp):
GCGTTTTTACTAAAACGCTGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCGCAAT
TATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATCT
Found at i:5899175 original size:116 final size:115
Alignment explanation
Indices: 5898979--5899232 Score: 373
Period size: 116 Copynumber: 2.2 Consensus size: 115
5898969 CGTTTTATCT
** * * *
5898979 GCGTTTTTACTAAAACGCTACAAAAGGATATGTGCTAGTGGTATTTTTACGCAAAACGCCGCAAT
1 GCGTTTTTACTAAAACGCCGCAAAAGGATATGTGCTAGTGGCATTTTTACGAAAAACGCCACAAT
* * * * *
5899044 TATGTTTTAAGTGTTTGCTAAACGTTGTTGTTTTGTTCTGCGTTTTTAGTG
66 TATGTTTTAAGTGTTTGCTAAACATTGTCGTTTT-ATATACGTTTTTAGTG
* *
5899095 GCGTTTTTACTAAAACGCCGCAAAAGGATATGTGTTAGTGGCGTTTTTACGAAAAACGCCACAAT
1 GCGTTTTTACTAAAACGCCGCAAAAGGATATGTGCTAGTGGCATTTTTACGAAAAACGCCACAAT
*
5899160 TATGTTTTAAGTGTTTGCTAGACATTGTCGTTTTATATACGTTTTTAGTG
66 TATGTTTTAAGTGTTTGCTAAACATTGTCGTTTTATATACGTTTTTAGTG
*
5899210 GCGTTTTTACTAAAATGCCGCAA
1 GCGTTTTTACTAAAACGCCGCAA
5899233 TTATGTTTTA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
115 35 0.28
116 89 0.72
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (115 bp):
GCGTTTTTACTAAAACGCCGCAAAAGGATATGTGCTAGTGGCATTTTTACGAAAAACGCCACAAT
TATGTTTTAAGTGTTTGCTAAACATTGTCGTTTTATATACGTTTTTAGTG
Found at i:5899289 original size:75 final size:75
Alignment explanation
Indices: 5899129--5899267 Score: 226
Period size: 74 Copynumber: 1.9 Consensus size: 75
5899119 AGGATATGTG
*
5899129 TTAGTGGCGTTTTTACGAAAAACGCCACAATTATGTTTTAAGTGTTTGCTAGACATTGTCGTTTT
1 TTAGTGGCGTTTTTACGAAAAACGCCACAATTATGTTTTAAGTGTTTGCTAAACATTGTCGTTTT
5899194 ATATACGTTT
66 ATATACGTTT
* * * *
5899204 TTAGTGGCGTTTTTAC-TAAAATGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGTTTT
1 TTAGTGGCGTTTTTACGAAAAACGCCACAATTATGTTTTAAGTGTTTGCTAAACATTGTCGTTTT
5899268 TAACTGTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
74 43 0.73
75 16 0.27
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (75 bp):
TTAGTGGCGTTTTTACGAAAAACGCCACAATTATGTTTTAAGTGTTTGCTAAACATTGTCGTTTT
ATATACGTTT
Found at i:5899433 original size:23 final size:22
Alignment explanation
Indices: 5899385--5899507 Score: 72
Period size: 23 Copynumber: 5.4 Consensus size: 22
5899375 CCCCACTCAG
* *
5899385 ATTTCCCCAATTTC-ATTTCCCTA
1 ATTT-CCC-ATTTCTATTCCCCCA
5899408 ATTTCCCATTTCCTATTCCCCCA
1 ATTTCCCATTT-CTATTCCCCCA
* * *
5899431 ATTTCTTCGATTT-AATTTCCCCA
1 ATTTC--CCATTTCTATTCCCCCA
* * *
5899454 ATTTCCCAATTCATTTTCCCCTA
1 ATTTCCCATTTC-TATTCCCCCA
*
5899477 ATTTCCCCGATTTC-ATTTCCCCA
1 ATTT-CCC-ATTTCTATTCCCCCA
5899500 ATTTCCCA
1 ATTTCCCA
5899508 ACTGACCTGT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 9 0.12
22 7 0.09
23 49 0.64
24 3 0.04
25 9 0.12
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTCCCATTTCTATTCCCCCA
Found at i:5899435 original size:46 final size:46
Alignment explanation
Indices: 5899385--5899508 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
5899375 CCCCACTCAG
* * * *
5899385 ATTTCCCCAATTTCATTTCCCTAATTTCCCATTTCCTATTCCCCCA
1 ATTTCCCCGATTTCATTTCCCCAATTTCCCAATTCATATTCCCCCA
** * * *
5899431 ATTTCTTCGATTTAATTTCCCCAATTTCCCAATTCATTTTCCCCTA
1 ATTTCCCCGATTTCATTTCCCCAATTTCCCAATTCATATTCCCCCA
5899477 ATTTCCCCGATTTCATTTCCCCAATTTCCCAA
1 ATTTCCCCGATTTCATTTCCCCAATTTCCCAA
5899509 CTGACCTGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.21, C:0.35, G:0.02, T:0.42
Consensus pattern (46 bp):
ATTTCCCCGATTTCATTTCCCCAATTTCCCAATTCATATTCCCCCA
Found at i:5899650 original size:13 final size:12
Alignment explanation
Indices: 5899617--5899650 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
5899607 GGTCATATTC
5899617 TTTTGTTGGCAT
1 TTTTGTTGGCAT
5899629 TTTTGTTGGCAT
1 TTTTGTTGGCAT
5899641 TTTTGCTTGG
1 TTTTG-TTGG
5899651 GCCGTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.06, C:0.09, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTTGTTGGCAT
Found at i:5901523 original size:34 final size:34
Alignment explanation
Indices: 5901483--5901547 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
5901473 TACTATTAAC
* *
5901483 TTTTTAAATTTTAAACATAATTCTTTATTTTATA
1 TTTTTAAATATTAAACATAATTATTTATTTTATA
* *
5901517 TTTTTAAATATTATATATAATTATTTATTTT
1 TTTTTAAATATTAAACATAATTATTTATTTT
5901548 TAAATATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTTAAATATTAAACATAATTATTTATTTTATA
Found at i:5901577 original size:29 final size:27
Alignment explanation
Indices: 5901509--5901577 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
5901499 ATAATTCTTT
*
5901509 ATTTTATATTTTTAAATATTATATATA
1 ATTTTATATTTTTAAATATTATATAAA
5901536 ATTATT-TATTTTTAAATATTATACATAAA
1 ATT-TTATATTTTTAAATATTAT--ATAAA
*
5901565 ATTTTAAATTTTT
1 ATTTTATATTTTT
5901578 TTACATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 19 0.53
28 4 0.11
29 13 0.36
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTTTATATTTTTAAATATTATATAAA
Found at i:5901686 original size:9 final size:9
Alignment explanation
Indices: 5901672--5901705 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5901662 ACTAATTTCC
5901672 ACATAACAT
1 ACATAACAT
5901681 ACATAAC-T
1 ACATAACAT
5901689 CACATAACAT
1 -ACATAACAT
5901699 ACATAAC
1 ACATAAC
5901706 TTAATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (9 bp):
ACATAACAT
Found at i:5901694 original size:18 final size:18
Alignment explanation
Indices: 5901671--5901706 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5901661 TACTAATTTC
5901671 CACATAACATACATAACT
1 CACATAACATACATAACT
5901689 CACATAACATACATAACT
1 CACATAACATACATAACT
5901707 TAATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (18 bp):
CACATAACATACATAACT
Found at i:5901749 original size:47 final size:45
Alignment explanation
Indices: 5901684--5901867 Score: 131
Period size: 43 Copynumber: 4.3 Consensus size: 45
5901674 ATAACATACA
* * *
5901684 TAACTCACATAACATACATAACTTA-ATAACTTATATATATCATAAC-
1 TAACTTACATAACTTACATAACTTACATAA---AAATATATCATAACG
*
5901730 TCAACTTACATAACTTACATAA--TACATAAAAATATATCATATCG
1 T-AACTTACATAACTTACATAACTTACATAAAAATATATCATAACG
* * * *
5901774 TAACTTACATAACTCACATAACTT--AT----GTATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAAAAATATATCATAACG
* * * *
5901813 TAACTTACATAACTTGCATAA--TACATAAATATATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAAAAATATATCATAACG
*
5901856 TAAGTTACATAA
1 TAACTTACATAA
5901868 TTTAATTATA
Statistics
Matches: 116, Mismatches: 11, Indels: 25
0.76 0.07 0.16
Matches are distributed among these distances:
37 1 0.01
39 32 0.28
43 56 0.48
44 1 0.01
45 3 0.03
46 5 0.04
47 18 0.16
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (45 bp):
TAACTTACATAACTTACATAACTTACATAAAAATATATCATAACG
Found at i:5901779 original size:43 final size:43
Alignment explanation
Indices: 5901716--5901867 Score: 188
Period size: 43 Copynumber: 3.6 Consensus size: 43
5901706 TTAATAACTT
*
5901716 ATATATATCATAAC-TCAACTTACATAACTTACATAATACATAA
1 ATATATATCATATCAT-AACTTACATAACTTACATAATACATAA
* * * *
5901759 AAATATATCATATCGTAACTTACATAACTCACAT-A-AC-T-T
1 ATATATATCATATCATAACTTACATAACTTACATAATACATAA
* *
5901798 ATGTATATCATATCATAACTTACATAACTTGCATAATACATAA
1 ATATATATCATATCATAACTTACATAACTTACATAATACATAA
*
5901841 ATATATATCATATCATAAGTTACATAA
1 ATATATATCATATCATAACTTACATAA
5901868 TTTAATTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
39 29 0.32
40 2 0.02
41 4 0.04
42 2 0.02
43 54 0.59
44 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (43 bp):
ATATATATCATATCATAACTTACATAACTTACATAATACATAA
Found at i:5901783 original size:34 final size:37
Alignment explanation
Indices: 5901738--5901867 Score: 122
Period size: 39 Copynumber: 3.4 Consensus size: 37
5901728 ACTCAACTTA
5901738 CATAACTTACATAA-T-ACATAA-AAATATATCATAT
1 CATAACTTACATAACTCACATAATAAATATATCATAT
* **
5901772 CGTAACTTACATAACTCACATAACTTATGTATATCATAT
1 CATAACTTACATAACTCACATAA--TAAATATATCATAT
*
5901811 CATAACTTACATAACTTGCATAATACATAAATATATATCATAT
1 CATAACTTACATAAC-T-CA-CATA-AT-AA-ATATATCATAT
*
5901854 CATAAGTTACATAA
1 CATAACTTACATAA
5901868 TTTAATTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
34 13 0.17
35 1 0.01
36 6 0.08
39 25 0.32
40 1 0.01
41 3 0.04
42 4 0.05
43 24 0.31
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (37 bp):
CATAACTTACATAACTCACATAATAAATATATCATAT
Found at i:5901808 original size:82 final size:81
Alignment explanation
Indices: 5901691--5901867 Score: 257
Period size: 82 Copynumber: 2.2 Consensus size: 81
5901681 ACATAACTCA
* *
5901691 CATAACATACATAACTTAATAACTTATATATATCATAAC-TCAACTTACATAACTTACATAATAC
1 CATAACTTACATAACTCAATAACTTATATATATCATAACAT-AACTTACATAACTTACATAATAC
5901755 ATAAAAATATATCATAT
65 ATAAAAATATATCATAT
* * * *
5901772 CGTAACTTACATAACTCACATAACTTATGTATATCATATCATAACTTACATAACTTGCATAATAC
1 CATAACTTACATAACTCA-ATAACTTATATATATCATAACATAACTTACATAACTTACATAATAC
*
5901837 ATAAATATATATCATAT
65 ATAAAAATATATCATAT
*
5901854 CATAAGTTACATAA
1 CATAACTTACATAA
5901868 TTTAATTATA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
81 15 0.18
82 69 0.81
83 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (81 bp):
CATAACTTACATAACTCAATAACTTATATATATCATAACATAACTTACATAACTTACATAATACA
TAAAAATATATCATAT
Found at i:5907385 original size:21 final size:21
Alignment explanation
Indices: 5907361--5907410 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
5907351 CTACAACTTA
5907361 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCAGCAACGAGGG
5907382 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCAGCAACGAGGG
5907403 AAGCAGAG
1 AAGCAGAG
5907411 CAGAGTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.42, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGGG
Found at i:5907774 original size:43 final size:42
Alignment explanation
Indices: 5907721--5907883 Score: 218
Period size: 43 Copynumber: 3.8 Consensus size: 42
5907711 AAAGCGTCGT
*
5907721 TAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGA
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGT-A
* * * *
5907764 TAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTACTA
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTT-GTA
* * *
5907807 GAAAAGCGCCGCTAAAGGTCCTGTTCTTTAGCGGCATTTGCTA
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTG-TA
*
5907850 CAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGG
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGG
5907884 TGTTTTTGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
43 102 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTA
Found at i:5907867 original size:86 final size:86
Alignment explanation
Indices: 5907722--5907881 Score: 277
Period size: 86 Copynumber: 1.9 Consensus size: 86
5907712 AAGCGTCGTT
*
5907722 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAACGCCGCTAAAGATCATG
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAAACGCCGCTAAAGATCATG
5907787 TTCTTTAGCAGCGTTTACTAG
66 TTCTTTAGCAGCGTTTACTAG
* *
5907808 AAAAGCGCCGCTAAAGGTCCTGTTCTTTAGCGGCATTTGCT-ACAAAAGCGCCGCTAAAGATCAT
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTG-TGACAAAAACGCCGCTAAAGATCAT
5907872 GTTCTTTAGC
65 GTTCTTTAGC
5907882 GGTGTTTTTG
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
86 69 0.99
87 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAAACGCCGCTAAAGATCATG
TTCTTTAGCAGCGTTTACTAG
Found at i:5909313 original size:23 final size:23
Alignment explanation
Indices: 5909283--5909330 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
5909273 AGAATACCAA
5909283 AAGAAAGTTGATTAACTTTTATT
1 AAGAAAGTTGATTAACTTTTATT
5909306 AAGAAAGTTGATTAACTTTTATT
1 AAGAAAGTTGATTAACTTTTATT
5909329 AA
1 AA
5909331 ATCAACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (23 bp):
AAGAAAGTTGATTAACTTTTATT
Found at i:5911884 original size:28 final size:28
Alignment explanation
Indices: 5911853--5911920 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
5911843 ATCTTTTTTT
*
5911853 ATATATTTCATAATTTT-TATATACCTAC
1 ATATATTTCAT-ATTTTATACATACCTAC
* *
5911881 ATATA-TACATATTTTAATACATACTTAC
1 ATATATTTCATATTTT-ATACATACCTAC
5911909 ATATACTTTCAT
1 ATATA-TTTCAT
5911921 GTATAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.16
27 4 0.12
28 19 0.59
30 4 0.12
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATATTTCATATTTTATACATACCTAC
Found at i:5912178 original size:6 final size:6
Alignment explanation
Indices: 5912167--5912195 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
5912157 TACGCACCTA
5912167 TATATC TATATC TATATC TATATC TATAT
1 TATATC TATATC TATATC TATATC TATAT
5912196 ATGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
TATATC
Found at i:5912388 original size:18 final size:18
Alignment explanation
Indices: 5912347--5912385 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5912337 TTATTTTATT
*
5912347 TTTATTTTTATAATTTTA
1 TTTATTTTCATAATTTTA
*
5912365 TTTATTTTCATTATTGTTA
1 TTTATTTTCATAATT-TTA
5912384 TT
1 TT
5912386 ATTGTCTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTTTCATAATTTTA
Found at i:5924348 original size:15 final size:15
Alignment explanation
Indices: 5924313--5924364 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5924303 TTAAGAATTT
*
5924313 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5924327 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5924341 TATTTAATAATAAT-
1 TATTTAATTATAATA
5924355 TATGTTAATT
1 TAT-TTAATT
5924365 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5924398 original size:120 final size:120
Alignment explanation
Indices: 5924251--5924480 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
5924241 TTTGAGTAAA
5924251 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
5924316 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
5924371 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
5924436 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
5924481 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:5924446 original size:61 final size:61
Alignment explanation
Indices: 5924261--5924448 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
5924251 TTATAGTATC
5924261 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
5924322 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
5924381 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
5924442 ATATATT
1 ATATATT
5924449 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:5924463 original size:16 final size:16
Alignment explanation
Indices: 5924442--5924483 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5924432 TTATTAAATT
*
5924442 ATATATTTTAATTATA
1 ATATATTTTAATAATA
5924458 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
5924473 AT-TATGTTTAA
1 ATATAT-TTTAA
5924484 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:5924468 original size:15 final size:15
Alignment explanation
Indices: 5924433--5924474 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5924423 TTAAGAATTT
*
5924433 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5924447 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5924461 TATTTAATAATAAT
1 TATTTAATTATAAT
5924475 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5924709 original size:45 final size:43
Alignment explanation
Indices: 5924609--5924718 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
5924599 TTTTCCATTA
5924609 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
5924648 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
5924693 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
5924719 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:5924720 original size:16 final size:16
Alignment explanation
Indices: 5924699--5924766 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
5924689 GATTTGCTAT
*
5924699 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
5924715 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
5924731 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5924747 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
5924763 TACA
1 TACA
5924767 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5929071 original size:20 final size:20
Alignment explanation
Indices: 5929048--5929087 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5929038 TTCAATTCAA
* *
5929048 TATTCTAATTTTATTTTATT
1 TATTCTAATGTTATATTATT
*
5929068 TATTTTAATGTTATATTATT
1 TATTCTAATGTTATATTATT
5929088 CTATGGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTCTAATGTTATATTATT
Found at i:5943697 original size:38 final size:38
Alignment explanation
Indices: 5943655--5943727 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
5943645 CCCTACTGAT
5943655 TACATGTTAAGCATGTCT-ACTGCTAGTGTTGAATTAAA
1 TACATGTTAAGCATGT-TGACTGCTAGTGTTGAATTAAA
5943693 TACATGTTAAGCATGTTGACTGCTAGTGTTGAATT
1 TACATGTTAAGCATGTTGACTGCTAGTGTTGAATT
5943728 GTTCTATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (38 bp):
TACATGTTAAGCATGTTGACTGCTAGTGTTGAATTAAA
Found at i:5950255 original size:2 final size:2
Alignment explanation
Indices: 5950250--5950291 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
5950240 TATAAATATA
5950250 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
5950292 AGGGGTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:5950449 original size:2 final size:2
Alignment explanation
Indices: 5950442--5950466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5950432 CATAAAACTC
5950442 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 A
5950467 TGAGGATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5956367 original size:12 final size:12
Alignment explanation
Indices: 5956352--5956390 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
5956342 CTCTCTTAAC
5956352 AAAAATTTCAAAA
1 AAAAATTTC-AAA
5956365 AAAAATTTCAAA
1 AAAAATTTCAAA
*
5956377 AAAATTTTCAAA
1 AAAAATTTCAAA
5956389 AA
1 AA
5956391 TTCAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATTTCAAA
Found at i:5956370 original size:13 final size:13
Alignment explanation
Indices: 5956352--5956390 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
5956342 CTCTCTTAAC
5956352 AAAAATTTCAAAA
1 AAAAATTTCAAAA
5956365 AAAAATTTC-AAA
1 AAAAATTTCAAAA
*
5956377 AAAATTTTCAAAA
1 AAAAATTTCAAAA
5956390 A
1 A
5956391 TTCAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATTTCAAAA
Found at i:5956415 original size:18 final size:20
Alignment explanation
Indices: 5956394--5956437 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
5956384 TCAAAAATTC
*
5956394 AAAAAAATTAT-AT-TTTTA
1 AAAAAAATTATAATAGTTTA
5956412 AAAAAAATTATAATAGTTTA
1 AAAAAAATTATAATAGTTTA
5956432 AAAAAA
1 AAAAAA
5956438 TTCTAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 2 0.09
20 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAAATTATAATAGTTTA
Found at i:5964367 original size:19 final size:19
Alignment explanation
Indices: 5964342--5964433 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
5964332 AATCTTTAGG
*
5964342 GATATGCAATCTTAGACAT
1 GATATGCAATCTTAGATAT
*
5964361 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
5964380 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5964399 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5964418 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
5964434 AGATATGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5965080 original size:20 final size:20
Alignment explanation
Indices: 5965052--5965097 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
5965042 ATGTACGTAT
* *
5965052 ATATATTATACTTTCTATAC
1 ATATATTATAATTTATATAC
* *
5965072 ATATTTTATAATTTATATAT
1 ATATATTATAATTTATATAC
5965092 ATATAT
1 ATATAT
5965098 GTAATCATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTATATAC
Found at i:5965114 original size:100 final size:103
Alignment explanation
Indices: 5964991--5965203 Score: 306
Period size: 106 Copynumber: 2.1 Consensus size: 103
5964981 TTTTTAAGTT
* * *
5964991 TATATATATAATTATTATTTTTATGATTTATATATTTATT-ACCT-TATATATATGTACG-TATA
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACGATATA
5965053 TATATTATACTTTCTATACATATTTTATAATTTATATA
66 TATATTATACTTTCTATACATATTTTATAATTTATATA
* *
5965091 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACG---AT
* *
5965156 ATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
63 ATATATATTATACTTTCTATACATATTTTATAATTTATATA
*
5965197 TGTATAT
1 TATATAT
5965204 TTTTTTTATT
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
100 36 0.36
101 3 0.03
102 14 0.14
106 46 0.46
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (103 bp):
TATATATATAATCATTATCTTTATGATCTATATATTTATTAACCTATATATATATGTACGATATA
TATATTATACTTTCTATACATATTTTATAATTTATATA
Found at i:5965143 original size:48 final size:48
Alignment explanation
Indices: 5964991--5965148 Score: 144
Period size: 48 Copynumber: 3.2 Consensus size: 48
5964981 TTTTTAAGTT
* * * *
5964991 TATATATATAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATCTTTATGATCTATATATTTATTAACTTATA
* * *
5965039 TATATGTACGTATATATATTATACTTTCT-ATAC-ATAT-TTTA-TAATTTATATA
1 TATA--TATGTA-AT-TATTAT-CTTTATGAT-CTATATATTTATTAA-CT-TATA
*
5965091 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATCTTTATGATCTATATATTTATTAACTTATA
5965139 TATATATGTA
1 TATATATGTA
5965149 CGTATATATA
Statistics
Matches: 87, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
47 6 0.07
48 29 0.33
49 7 0.08
50 14 0.16
51 7 0.08
52 20 0.23
53 4 0.05
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATATGTAATTATTATCTTTATGATCTATATATTTATTAACTTATA
Found at i:5965181 original size:20 final size:20
Alignment explanation
Indices: 5965158--5965195 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5965148 ACGTATATAT
*
5965158 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
5965178 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
5965196 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:5972201 original size:57 final size:59
Alignment explanation
Indices: 5972086--5972226 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 59
5972076 AATTGACGGT
*
5972086 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCTCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
* *
5972149 AAAAAGATCTAGCCCGAACGGGTGAT-C-T-TGATATAGCCTTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* *
5972205 AAAATGGATTTAGCCCGGACGG
1 AAAA-AGATCTAGCCCGGACGG
5972227 ATAATCCGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.07
57 39 0.55
59 1 0.01
61 1 0.01
62 20 0.28
63 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:5974492 original size:44 final size:43
Alignment explanation
Indices: 5974444--5974625 Score: 98
Period size: 44 Copynumber: 4.1 Consensus size: 43
5974434 CCTGGACAAC
** *
5974444 AGTGGAATAGATTGAAGATTTTAGATCTTATTTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGAT-TTATCTCCCTAAGCAGT
** * * * * *
5974488 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATAGTTA-T
1 AGTGGAATAGATTGAAGATTGCAGA-TTTATCTCCCTA-AG-CAGT
* * *** * * * **
5974533 AGTGGAGTACATTGAAGCCAGTA-ATTCTATTTCCCTAGGCAAC
1 AGTGGAATAGATTGAAGATTGCAGATT-TATCTCCCTAAGCAGT
* *
5974576 AATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGAT-TTATCTCCCTAAGCAGT
5974620 AGTGGA
1 AGTGGA
5974626 GCAGATCGAA
Statistics
Matches: 95, Mismatches: 36, Indels: 14
0.66 0.25 0.10
Matches are distributed among these distances:
42 1 0.01
43 18 0.19
44 55 0.58
45 20 0.21
46 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
AGTGGAATAGATTGAAGATTGCAGATTTATCTCCCTAAGCAGT
Found at i:5974655 original size:44 final size:44
Alignment explanation
Indices: 5974476--5974656 Score: 114
Period size: 44 Copynumber: 4.1 Consensus size: 44
5974466 AGATCTTATT
5974476 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* * * * *** ** * **
5974520 TCCCTATAGTTA-TAGTGGAGTACATTGAAGCCAG-TAATTCTATT
1 TCCCTA-AG-CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
* ** * ** * ** * * *
5974564 TCCCTAGGCAACAATGGAATAGATTGAAGATTTCAGATATTATC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
5974608 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
5974652 TCCCT
1 TCCCT
5974657 GTGGTTACAG
Statistics
Matches: 94, Mismatches: 39, Indels: 8
0.67 0.28 0.06
Matches are distributed among these distances:
42 1 0.01
43 15 0.16
44 59 0.63
45 18 0.19
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
Found at i:5975625 original size:659 final size:659
Alignment explanation
Indices: 5974361--5975665 Score: 2200
Period size: 659 Copynumber: 2.0 Consensus size: 659
5974351 TTGACAGCGA
5974361 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
* * *
5974426 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATTTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
*
5974491 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTA
131 GGAGCAGATCGAAGATGACGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTA
*
5974556 ATTCTATTTCCCTAGGCAACAATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTA
196 ATTCTACTTCCCTAGGCAACAATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTA
5974621 GTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAG
261 GTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAG
*
5974686 TAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACCG
326 TAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAG
* * * * *
5974751 TAGTGGAGCAGATCGAAGATGTCGGATTTTACCTCCCTGTAGTTATAGTGGAGTACATTGAAGCC
391 TAATGGAGCAGATCGAAGATGACAGATTTTACATCCCTGTAGTTACAGTGGAGTACATTGAAGCC
* * * *
5974816 AGTAATTCTACTTCCCTGGACAATAGTGGAATAGATTAAAGATTTCAGGTCTTATCTCCCTAAGC
456 AGTAATTCTACTTCCCTGGACAACAGTAGAATAGATTAAAGATTCCAGATCTTATCTCCCTAAGC
*
5974881 AGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
521 AGTAGTGGAGCAGATCGAAAATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
* ** * * *
5974946 CTAGTAATTTTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTTAGGTCTTATCTCCCAAG
586 CCAGTAATCATACTTCCCTGGACAACAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCCCAAG
5975011 CAGTAGTGG
651 CAGTAGTGG
* * *
5975020 AGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
5975085 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
* *
5975150 GGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
131 GGAGCAGATCGAAGATGACGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTA
* *
5975215 ATTCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
196 ATTCTACTTCCCTAGG-CAACAATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGT
*
5975279 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
260 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
5975344 GTAATTCTACTTCCCTGGACAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
325 GTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACA
*
5975409 GTAATGGAGCAGATCGAAGATGACAGATTTTACATCCCTGTGGTTACAGTGGAGTACATTGAAGC
390 GTAATGGAGCAGATCGAAGATGACAGATTTTACATCCCTGTAGTTACAGTGGAGTACATTGAAGC
* * *
5975474 CAGTAATTCTACTTCCCTGGACAACGGTAGAATATATTGAAGATTCCAGATCTTATCTCCCTAAG
455 CAGTAATTCTACTTCCCTGGACAACAGTAGAATAGATTAAAGATTCCAGATCTTATCTCCCTAAG
*
5975539 CAGTAGTGGAGCATATCGAAAATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
520 CAGTAGTGGAGCAGATCGAAAATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
* * * *
5975604 GCCAGTAATCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCC
585 GCCAGTAATCATACT-TCCCTGGACAACAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCC
5975666 TTGATATTGC
Statistics
Matches: 602, Mismatches: 42, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
658 3 0.00
659 599 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (659 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
GGAGCAGATCGAAGATGACGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTAGGCAACAATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAG
TAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAG
TAATGGAGCAGATCGAAGATGACAGATTTTACATCCCTGTAGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGACAACAGTAGAATAGATTAAAGATTCCAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAAATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
CCAGTAATCATACTTCCCTGGACAACAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCCCAAG
CAGTAGTGG
Found at i:5975665 original size:132 final size:132
Alignment explanation
Indices: 5974361--5975650 Score: 2138
Period size: 132 Copynumber: 9.8 Consensus size: 132
5974351 TTGACAGCGA
*
5974361 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
5974426 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATTTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5974491 GG
131 GG
* * *
5974493 AGCAGATCGAAGATGGCGGATTTTACCTCCCTATAGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
5974558 TCTATTTCCCTAGG-CAACAATGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAG
66 TCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
5974622 TGG
130 TGG
5974625 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
5974690 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACCGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5974755 GG
131 GG
* * *
5974757 AGCAGATCGAAGATGTCGGATTTTACCTCCCTGTAGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
5974822 TCTACTTCCCTGGACAATAGTGGAATAGATTAAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5974887 GG
131 GG
*
5974889 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
5974954 TTTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTTAGGTCTTATCTCCC-AAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5975018 GG
131 GG
* *
5975020 AGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
5975085 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5975150 GG
131 GG
* *
5975152 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
5975217 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5975282 GG
131 GG
*
5975284 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
5975349 TCTACTTCCCTGGACAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAAT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5975414 GG
131 GG
* * *
5975416 AGCAGATCGAAGATGACAGATTTTACATCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
5975481 TCTACTTCCCTGGACAACGGTAGAATATATTGAAGATTCCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
5975546 GG
131 GG
* *
5975548 AGCATATCGAAAATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
5975612 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
5975651 GTAAGTCCTA
Statistics
Matches: 1084, Mismatches: 69, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
131 130 0.12
132 952 0.88
133 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:5976001 original size:19 final size:19
Alignment explanation
Indices: 5975977--5976068 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
5975967 AATCTTCAGG
5975977 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5975996 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
5976015 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5976034 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
5976053 GATATATAATCTTAGA
1 GATATGCAATCTTAGA
5976069 AGATATGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5976027 original size:38 final size:38
Alignment explanation
Indices: 5975984--5976075 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
5975974 AGGGATATGC
5975984 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
5976022 AATCTTAGATATGACATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
5976060 AATCTTAGA-A-GATATG
1 AATCTTAGATATGATATG
5976076 ATTTTGTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
36 5 0.10
37 1 0.02
38 45 0.88
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:5976075 original size:22 final size:23
Alignment explanation
Indices: 5976047--5976091 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5976037 ATGCAATCTT
5976047 AGATATGA-TATATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
* *
5976069 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
5976092 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:5976101 original size:22 final size:23
Alignment explanation
Indices: 5976059--5976101 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5976049 ATATGATATA
*
5976059 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
5976082 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
5976102 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:5976688 original size:16 final size:17
Alignment explanation
Indices: 5976669--5976711 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
5976659 TTTTTATGAT
5976669 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
5976685 TTATATATATATGTACG
1 TTATATATTTATGTACC
5976702 TATATATATT
1 T-TATATATT
5976712 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:5976697 original size:48 final size:48
Alignment explanation
Indices: 5976640--5976803 Score: 145
Period size: 48 Copynumber: 3.2 Consensus size: 48
5976630 TTTTTAAGTT
*
5976640 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
1 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTA
** *
5976688 TATATATATGTACGTA-TATATATTAT-ACTTTCTATACATATTT-TATAATTTCTATA
1 TATATATATGTAATTATTAT-TTTTATGA--TT-TAT--ATATTTAT-TAA---CT-TA
* * *
5976744 TATATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTA
1 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTA
5976792 TATATATATGTA
1 TATATATATGTA
5976804 CGTATATATA
Statistics
Matches: 92, Mismatches: 10, Indels: 28
0.71 0.08 0.22
Matches are distributed among these distances:
47 4 0.04
48 33 0.36
49 4 0.04
50 3 0.03
51 1 0.01
52 17 0.18
53 1 0.01
54 3 0.03
55 3 0.03
56 19 0.21
57 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTA
Found at i:5976728 original size:20 final size:20
Alignment explanation
Indices: 5976705--5976750 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
5976695 ATGTACGTAT
*
5976705 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
5976725 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
5976745 ATATAT
1 ATATAT
5976751 ATGTAATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:5976744 original size:52 final size:51
Alignment explanation
Indices: 5976688--5976848 Score: 193
Period size: 52 Copynumber: 3.1 Consensus size: 51
5976678 TATTACCTTA
5976688 TATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
* * * * * *
5976740 TATATATATATATGTA-AT-CATTAT-CTTTATGATCTATATATTTATTAACTTA
1 TATATATATGTACGTATATATATTATACTTTCT-ATC-ATAT-TTTA-TAATTTC
5976792 TATATATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
5976844 TATAT
1 TATAT
5976849 GTATATTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
49 6 0.07
50 11 0.12
51 6 0.07
52 43 0.48
53 6 0.07
54 11 0.12
55 6 0.07
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (51 bp):
TATATATATGTACGTATATATATTATACTTTCTATCATATTTTATAATTTC
Found at i:5976748 original size:54 final size:53
Alignment explanation
Indices: 5976686--5976854 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 53
5976676 TTTATTACCT
5976686 TATATATATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
* * * *
5976740 TATATATATA--TATGTA-AT-CATTAT-CTTTATGATCTATATATTTATTAA-CT-
1 TATATATATATGTACGTATATATATTATACTTTCT-ATC-ATAT-TTTA-TAATTTC
5976790 TATATATATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATATGTACGTATATATATTATACTTTCTAT-CATATTTTATAATTTC
*
5976844 TATATGTATAT
1 TATATATATAT
5976855 TTTTCTTTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
49 6 0.06
50 21 0.22
51 7 0.07
52 16 0.17
53 7 0.07
54 31 0.33
55 6 0.06
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (53 bp):
TATATATATATGTACGTATATATATTATACTTTCTATCATATTTTATAATTTC
Found at i:5976750 original size:104 final size:104
Alignment explanation
Indices: 5976640--5976854 Score: 376
Period size: 104 Copynumber: 2.1 Consensus size: 104
5976630 TTTTTAAGTT
* * * *
5976640 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACGTAT
1 TATATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
5976705 ATATATTATACTTTCTATACATATTTTATAATTTCTATA
66 ATATATTATACTTTCTATACATATTTTATAATTTCTATA
5976744 TATATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
1 TATATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
*
5976809 ATATATTATACTTTCTATCCATATTTTATAATTTCTATA
66 ATATATTATACTTTCTATACATATTTTATAATTTCTATA
*
5976848 TGTATAT
1 TATATAT
5976855 TTTTCTTTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (104 bp):
TATATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
ATATATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:5976832 original size:20 final size:20
Alignment explanation
Indices: 5976809--5976846 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5976799 ATGTACGTAT
*
5976809 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
5976829 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
5976847 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:5976848 original size:48 final size:48
Alignment explanation
Indices: 5976692--5976851 Score: 160
Period size: 48 Copynumber: 3.2 Consensus size: 48
5976682 ACCTTATATA
*
5976692 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
* ** * * * *
5976740 TATATATATATATGTAATCATTAT-CTTTATGATCTATATATTTATTAACTTATATA
1 TATATGTACGTATAT-AT-ATTATACTTTCT-ATCCATAT-TTTA-TAA--T-T-TC
5976796 TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
5976844 TATATGTA
1 TATATGTA
5976852 TATTTTTCTT
Statistics
Matches: 87, Mismatches: 15, Indels: 20
0.71 0.12 0.16
Matches are distributed among these distances:
48 20 0.23
49 8 0.09
50 12 0.14
51 4 0.05
52 6 0.07
53 4 0.05
54 13 0.15
55 8 0.09
56 12 0.14
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.52
Consensus pattern (48 bp):
TATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
Found at i:6003715 original size:142 final size:142
Alignment explanation
Indices: 6003459--6004026 Score: 841
Period size: 142 Copynumber: 4.0 Consensus size: 142
6003449 TCTTTATGGG
** * * * *
6003459 AATTCACCAATTCCTTCCCTACGTAAGCATTGGTTTCAAGTTCATTTCATTTAGAACCGACCACA
1 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
** * * * *
6003524 TAGTTTAAGGACTGTCTTAAGTAATGGTTACAGTAAACCCCTGTTTGCAAGTTATGTCCAAATGT
66 TAGTTCGAGGACTATCTTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGT
6003589 GGCCTAGATTTC
131 GGCCTAGATTTC
* *
6003601 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCATTTAGAAGCGACAATA
1 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
* * * *
6003666 TAGTTCGAGGACTATCTTAAGTAACAGTTACAATAAAACCTTGTTTGCAAGTTATATCCAAGTGT
66 TAGTTCGAGGACTATCTTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGT
6003731 GGCCTAGATTTC
131 GGCCTAGATTTC
6003743 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
1 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
* * * * *
6003808 TAGTTCGAGGAAC-ATCTTAAGTAATGGTTACATTAAGCCCTTGTTTGCAAGTTATGTACAAGTG
66 TAGTTCGAGG-ACTATCTTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATG
6003872 TGGCCTAGATTTC
130 TGGCCTAGATTTC
*
6003885 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGCTCATTTCACTTAGAACCGACAATA
1 AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
* ** * * * *
6003950 TAGTTAGAGGACCGTCTTAAATAACGGTTACAATAAGCCCTTGTTTGCAAGTAATGCCCAAATGT
66 TAGTTCGAGGACTATCTTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGT
6004015 GGCCTAGATTTC
131 GGCCTAGATTTC
6004027 CTCACTTAAT
Statistics
Matches: 389, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
141 2 0.01
142 385 0.99
143 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (142 bp):
AATTCACTGATTCCTTCCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATA
TAGTTCGAGGACTATCTTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGT
GGCCTAGATTTC
Found at i:6011003 original size:17 final size:17
Alignment explanation
Indices: 6010972--6011053 Score: 52
Period size: 18 Copynumber: 5.0 Consensus size: 17
6010962 AAAATTGAAA
6010972 TATATAATATT-TAAATT
1 TATATAA-ATTATAAATT
6010989 TATATAAATTATAAAATT
1 TATATAAATTAT-AAATT
6011007 TCAT-TAAATT-T--ATT
1 T-ATATAAATTATAAATT
* *
6011021 TTTAT-AA-TATACAAAT
1 TATATAAATTATA-AATT
*
6011037 TACATAAATTATAAATT
1 TATATAAATTATAAATT
6011054 ATAAAACCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
12 1 0.02
13 4 0.08
14 5 0.10
16 8 0.16
17 14 0.28
18 16 0.32
19 2 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATAAATTATAAATT
Found at i:6020953 original size:69 final size:69
Alignment explanation
Indices: 6020859--6021486 Score: 563
Period size: 69 Copynumber: 9.1 Consensus size: 69
6020849 ATTATCATCG
* * * *
6020859 GTAAAAATAAGGTTCGCAGGCGAAGAGCCGTAGCCTCTAAAATAGTTAGCGAGAGCAAAGTTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
6020924 AGCT
66 AGCT
* * * *
6020928 GTAAAAATAAGGTTTGTAGGTGAAGAGCCGCAACCTCTAAAATAGTTAGCAAGAGCAAAGCTCTC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
*
6020993 AACT
66 AGCT
* * * * * * *
6020997 GTGAAAACAAGGTTTATAGGCGAAGAGCCGCAGCTTCTAAAACAGTTAGCGAGAGTAAAGCTTCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
*
6021062 AACT
66 AGCT
* ** * * * * **
6021066 GTAAAAACAAGGTTTGTAGGAAAAGAGTCACAACCTCTAAAATAGCTAAAGAGAGCAAAGCTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
*
6021131 AGGT
66 AGCT
** ** ** *** * * * * * * * *
6021135 GTGGAAATAAAATTCATAAAAGAAAAGTCGCAGCCTCTAAAACAGTTAGCTAAAGCTAAGTTTCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
6021200 AGCT
66 AGCT
* *** * * * * *
6021204 GTAAAAACAAGGTTCACAGGTGAAGAGTCGTAGCCTCTAAAACAGTTAGCGAGAGTAAAGCTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
*
6021269 AGTT
66 AGCT
* * * * * *
6021273 GTGAAAATAAGGTTTGTAGGTGAAGAGCTGCAACCTCTAAACTAGTTAGCGAGAGCGAAGCTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
6021338 AGCT
66 AGCT
* * * * * * *
6021342 GTAAAAATAAGGTTTGTAGGCAAAAAGCCGTAGACTCTAAAACAGTTAGCGAGAGTAAAACTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
**
6021407 AATT
66 AGCT
* * * * * * *
6021411 GTAAAAACAAAGTTCGCAGGCGAAGAGCCACGGCTTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
1 GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
*
6021476 AGTT
66 AGCT
6021480 GTAAAAA
1 GTAAAAA
6021487 CAAAGTTTAC
Statistics
Matches: 438, Mismatches: 121, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
69 438 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (69 bp):
GTAAAAATAAGGTTTGTAGGCGAAGAGCCGCAGCCTCTAAAATAGTTAGCGAGAGCAAAGCTCCC
AGCT
Found at i:6035614 original size:134 final size:135
Alignment explanation
Indices: 6035353--6035614 Score: 386
Period size: 135 Copynumber: 1.9 Consensus size: 135
6035343 GCATGTCATG
*
6035353 TGTATCTCACACTAACATACATTGATTATTTTTTATCAGTAAAAATGGATGAAATTTTAACAAAA
1 TGTATCTCACACTAACATACATTGACTATTTTTTATCAGTAAAAATGGATGAAATTTTAACAAAA
* **
6035418 TGGACTAGTTTGCTCTTTGATCAAACGTATAAGGACTAAAATGCCTATTTTTTTAGTAGAATGGA
66 TGAACTAGTTTGCTCTTTGATCAAACGTATAAAAACTAAAATGCCTATTTTTTTAGTAGAATGGA
6035483 CAACA
131 CAACA
** * *
6035488 TGTATCTCATGCTAACATACGTTGACTATTTTTTA-CTAGTAAAAATGGATGAATTTTTAACAAA
1 TGTATCTCACACTAACATACATTGACTATTTTTTATC-AGTAAAAATGGATGAAATTTTAACAAA
* **
6035552 AT-AACTAGTTTGCTCTTTGATCTAACGTATAAAAACTAAGCTGTCC-ATTTTTTTAGTAGAATG
65 ATGAACTAGTTTGCTCTTTGATCAAACGTATAAAAACTAAAATG-CCTATTTTTTTAGTAGAATG
6035615 AATTAAATGC
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
134 53 0.46
135 61 0.54
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (135 bp):
TGTATCTCACACTAACATACATTGACTATTTTTTATCAGTAAAAATGGATGAAATTTTAACAAAA
TGAACTAGTTTGCTCTTTGATCAAACGTATAAAAACTAAAATGCCTATTTTTTTAGTAGAATGGA
CAACA
Found at i:6040902 original size:6 final size:6
Alignment explanation
Indices: 6040891--6040935 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
6040881 AACAAATCTT
* * *
6040891 CCCTTC CCCTTC CCCTTC CTCTTC CTCTTC CTCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCC
6040936 CATCCTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCCTTC
Found at i:6052224 original size:51 final size:51
Alignment explanation
Indices: 6052169--6052285 Score: 209
Period size: 51 Copynumber: 2.3 Consensus size: 51
6052159 GGGATCACAT
6052169 TTATCACTTGTCACTTGTC-CTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCAC-TGATCAGATAAGTGTAGCTAAAGCTACCAC
*
6052220 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAT
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
6052271 TTATCACTTGTCACT
1 TTATCACTTGTCACT
6052286 GATCAGAAGT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:6053875 original size:23 final size:23
Alignment explanation
Indices: 6053849--6053944 Score: 122
Period size: 23 Copynumber: 4.2 Consensus size: 23
6053839 ATAAGTGCCA
*
6053849 CACTATTATCTAGCCGAAGCTAC
1 CACTAATATCTAGCCGAAGCTAC
*
6053872 CACTGATA-CGTAGCCGAAGCTAC
1 CACTAATATC-TAGCCGAAGCTAC
* *
6053895 CACTAATATGTAGCCGTAGCTAC
1 CACTAATATCTAGCCGAAGCTAC
* *
6053918 CACTAAAATGTAGCCGAAGCTAC
1 CACTAATATCTAGCCGAAGCTAC
6053941 CACT
1 CACT
6053945 GATCAATAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
22 1 0.02
23 63 0.98
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (23 bp):
CACTAATATCTAGCCGAAGCTAC
Found at i:6053916 original size:46 final size:46
Alignment explanation
Indices: 6053849--6053944 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
6053839 ATAAGTGCCA
* * *
6053849 CACTATTATCTAGCCGAAGCTACCACTGATACGTAGCCGAAGCTAC
1 CACTAATATCTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
* * *
6053895 CACTAATATGTAGCCGTAGCTACCACTAAAATGTAGCCGAAGCTAC
1 CACTAATATCTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
6053941 CACT
1 CACT
6053945 GATCAATAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (46 bp):
CACTAATATCTAGCCGAAGCTACCACTAAAACGTAGCCGAAGCTAC
Found at i:6060632 original size:2 final size:2
Alignment explanation
Indices: 6060625--6060687 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
6060615 GAGAAATTAT
6060625 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6060667 TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
6060688 TCTGTTTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6063088 original size:6 final size:6
Alignment explanation
Indices: 6063077--6063253 Score: 140
Period size: 6 Copynumber: 29.5 Consensus size: 6
6063067 CATTTTTGTC
* * *
6063077 ATTATT ATTATT ATTATT ATCATT ATTATT ATCATT ATCATT ATTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * * * *
6063125 ATTATC ATTATC ATTATT ATTATA ATTAAT ATTAAT ATTACT ATTTTT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * * *
6063173 ATTATT ACTATT ACTATT ACTT-TT ATTATT ACTAAT ATTTTT ATTTTT
1 ATTATT ATTATT ATTATT A-TTATT ATTATT ATTATT ATTATT ATTATT
* ** * * *
6063221 ATTTTT ACCACT ATTATT ATCATT ATTTTT ATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATT
6063254 TTTAAACTGT
Statistics
Matches: 139, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
5 2 0.01
6 136 0.98
7 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (6 bp):
ATTATT
Found at i:6063101 original size:21 final size:21
Alignment explanation
Indices: 6063075--6063253 Score: 123
Period size: 21 Copynumber: 8.7 Consensus size: 21
6063065 GTCATTTTTG
6063075 TCATTATTATTATTATTATTA
1 TCATTATTATTATTATTATTA
*
6063096 TC---ATTATTATTATCATTA
1 TCATTATTATTATTATTATTA
*
6063114 TCATTATTATTATTATCATTA
1 TCATTATTATTATTATTATTA
* *
6063135 TCATTATTATTATAATTAATA
1 TCATTATTATTATTATTATTA
* * * *
6063156 TTAATATTACTATTTTTATTA
1 TCATTATTATTATTATTATTA
* * *
6063177 TTACTATTACTATTACTT-TTA
1 TCATTATTATTATTA-TTATTA
* * * * *
6063198 TTATTACTAATATTTTTATTT
1 TCATTATTATTATTATTATTA
* * ** *
6063219 TTATTTTTACCACTATTATTA
1 TCATTATTATTATTATTATTA
*
6063240 TCATTATTTTTATT
1 TCATTATTATTATT
6063254 TTTAAACTGT
Statistics
Matches: 123, Mismatches: 30, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
18 17 0.14
20 2 0.02
21 102 0.83
22 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTATTATTATTATTATTA
Found at i:6063382 original size:5 final size:6
Alignment explanation
Indices: 6063368--6063426 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
6063358 AATTAGTTTG
* *
6063368 TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTGT-T TCTTA- TTTTGT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT
*
6063414 TTTTAT TCTTAT T
1 TTTTAT TTTTAT T
6063427 ATTCCTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 9 0.20
6 34 0.77
7 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:6063388 original size:17 final size:17
Alignment explanation
Indices: 6063374--6063426 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
6063364 TTTGTTTTAT
*
6063374 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTCTTA
6063391 TTTTATTTTGT-TTCTTA
1 TTTTATTTT-TATTCTTA
*
6063408 TTTTGTTTTTATTCTTA
1 TTTTATTTTTATTCTTA
6063425 TT
1 TT
6063427 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 1 0.03
17 30 0.94
18 1 0.03
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATTCTTA
Found at i:6064677 original size:27 final size:27
Alignment explanation
Indices: 6064639--6064714 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
6064629 TAGTATTGGC
6064639 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
6064666 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
6064693 GCCTATCTGGGAGGCGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
6064715 CTCTGATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:6064755 original size:19 final size:19
Alignment explanation
Indices: 6064731--6064771 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6064721 TTTTTTCAGG
*
6064731 TTTAGGGTTATGCTATAAA
1 TTTAGGATTATGCTATAAA
*
6064750 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGCTATAAA
6064769 TTT
1 TTT
6064772 TTGTGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (19 bp):
TTTAGGATTATGCTATAAA
Found at i:6064886 original size:22 final size:21
Alignment explanation
Indices: 6064861--6064914 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
6064851 AACATAATCC
6064861 TTACAA-ATTAATTATAAAATAA
1 TTACAATATTAA-TATAAAA-AA
*
6064883 TTACAATATTCATATAAAAAA
1 TTACAATATTAATATAAAAAA
6064904 TTACAATATTA
1 TTACAATATTA
6064915 CAATATATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 13 0.45
23 4 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TTACAATATTAATATAAAAAA
Found at i:6064907 original size:21 final size:22
Alignment explanation
Indices: 6064873--6064949 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 22
6064863 ACAAATTAAT
6064873 TATAAAATAATTACAATATTCA
1 TATAAAATAATTACAATATTCA
6064895 TATAAAA-AATTACAATATTACAA
1 TATAAAATAATTACAATATT-C-A
***
6064918 TATATCCTGACATTACAATATTCA
1 TATAAAAT-A-ATTACAATATTCA
6064942 TATAAAAT
1 TATAAAAT
6064950 TTCAATATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 12 0.27
22 8 0.18
23 5 0.11
24 6 0.14
25 2 0.05
26 11 0.25
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (22 bp):
TATAAAATAATTACAATATTCA
Found at i:6065006 original size:19 final size:19
Alignment explanation
Indices: 6064974--6065025 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
6064964 ATTCATACAA
6064974 ATTAT-TTA-AAATTTAGG
1 ATTATGTTATAAATTTAGG
6064991 ATTATGTTATAAATTTAGG
1 ATTATGTTATAAATTTAGG
6065010 ATTATGTTATAAATTT
1 ATTATGTTATAAATTT
6065026 TTGTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
ATTATGTTATAAATTTAGG
Found at i:6065311 original size:22 final size:24
Alignment explanation
Indices: 6065278--6065400 Score: 100
Period size: 27 Copynumber: 5.1 Consensus size: 24
6065268 ATAGATTATC
*
6065278 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
6065302 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
6065326 TATAATTTTGTATGAATATTGTAAT
1 TAT-ATTTTGTATGAATATTGTAAT
*
6065351 GTCGGGATATATTG--T-AATATTGTAA-
1 -T----ATATTTTGTATGAATATTGTAAT
6065376 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
6065398 TAT
1 TAT
6065401 TTTATAATTA
Statistics
Matches: 81, Mismatches: 3, Indels: 31
0.70 0.03 0.27
Matches are distributed among these distances:
18 4 0.05
19 1 0.01
20 1 0.01
21 10 0.12
22 17 0.21
23 3 0.04
24 5 0.06
25 3 0.04
26 12 0.15
27 18 0.22
29 5 0.06
30 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:6065562 original size:27 final size:27
Alignment explanation
Indices: 6065531--6065597 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
6065521 TAACATAAAT
6065531 TTCATTGGCGCCTCTCTATAAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
*
6065558 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
6065585 TTCATTGGCGCCT
1 TTCATTGGCGCCT
6065598 ACCTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATAAGGCACC
Done.