Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 135 of 136
Found at i:46869642 original size:34 final size:35
Alignment explanation
Indices: 46869585--46869651 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46869575 CAAACACCAA
*
46869585 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46869620 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46869652 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46870489 original size:2 final size:2
Alignment explanation
Indices: 46870484--46870514 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
46870474 GCATGTGTGC
*
46870484 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46870515 AGATTTAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46874775 original size:9 final size:9
Alignment explanation
Indices: 46874761--46874786 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46874751 CAAATAAAGG
46874761 GGTTGAATC
1 GGTTGAATC
46874770 GGTTGAATC
1 GGTTGAATC
46874779 GGTTGAAT
1 GGTTGAAT
46874787 TAGAAACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.35, T:0.35
Consensus pattern (9 bp):
GGTTGAATC
Found at i:46878322 original size:79 final size:79
Alignment explanation
Indices: 46878191--46878350 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 79
46878181 TCAAGCACTC
46878191 AACAAGGCACTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
1 AACAAGGCACTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
46878256 TCTCTGTAAAATTA
66 TCTCTGTAAAATTA
* * *
46878270 AACAAGGCGCTCTTGCTCTGTGAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
1 AACAAGGCACTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
46878335 TCTCTGTAAAATTA
66 TCTCTGTAAAATTA
46878349 AA
1 AA
46878351 AGATGAAACA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
AACAAGGCACTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
TCTCTGTAAAATTA
Found at i:46880355 original size:26 final size:26
Alignment explanation
Indices: 46880326--46880377 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46880316 TACGTAATGT
46880326 ATGCTCAGATTAGACACAGGGTTGAC
1 ATGCTCAGATTAGACACAGGGTTGAC
46880352 ATGCTCAGATTAGACACAGGGTTGAC
1 ATGCTCAGATTAGACACAGGGTTGAC
46880378 TATAACCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (26 bp):
ATGCTCAGATTAGACACAGGGTTGAC
Found at i:46883830 original size:77 final size:77
Alignment explanation
Indices: 46883712--46883866 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
46883702 TTAATAGTCA
46883712 ATTAACTTGTTGTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTGGTCACTTAATT
1 ATTAACTTGTTGTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTGGTCACTTAATT
46883777 TTGTTAATTTTT
66 TTGTTAATTTTT
46883789 ATTAACTTGTTGTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTGGTCACTTAATT
1 ATTAACTTGTTGTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTGGTCACTTAATT
46883854 TTGTTAATTTTT
66 TTGTTAATTTTT
46883866 A
1 A
46883867 CTTTTTTGGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (77 bp):
ATTAACTTGTTGTTTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAATTGGTCACTTAATT
TTGTTAATTTTT
Found at i:46883895 original size:31 final size:31
Alignment explanation
Indices: 46883857--46883920 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
46883847 CTTAATTTTG
*
46883857 TTAATTTT-TACTTTTTTGGTCACCCAACTAT
1 TTAATTTTAT-CTTTTTTAGTCACCCAACTAT
46883888 TTAATTTTATCTTTTTTAGTCACCCAACTAT
1 TTAATTTTATCTTTTTTAGTCACCCAACTAT
46883919 TT
1 TT
46883921 TGCATTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (31 bp):
TTAATTTTATCTTTTTTAGTCACCCAACTAT
Found at i:46886668 original size:29 final size:28
Alignment explanation
Indices: 46886601--46886675 Score: 73
Period size: 32 Copynumber: 2.5 Consensus size: 28
46886591 ATTTACTCCT
*
46886601 ATATTTT-ATAAAATTATTATCCAAATA
1 ATATTTTAATAAAATTATTATCAAAATA
46886628 ATATCATATTAATTAAAATTATTGAT-AAAATA
1 ATAT--T-TTAA-TAAAATTATT-ATCAAAATA
46886660 ATATTTTAAATAAAAT
1 ATATTTT-AATAAAAT
46886676 ATATACTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
27 4 0.10
29 9 0.22
30 5 0.12
31 1 0.03
32 19 0.47
33 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATTTTAATAAAATTATTATCAAAATA
Found at i:46901578 original size:4 final size:4
Alignment explanation
Indices: 46901569--46901604 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
46901559 ACCTCCACTG
46901569 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
46901605 TTCCATTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:46915568 original size:29 final size:28
Alignment explanation
Indices: 46915510--46915578 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 28
46915500 TTCAATCTTG
* *
46915510 TTAAGAAAAAA-ATTAAAATTAAAATAA
1 TTAAGAAAAAATAATAAAATCAAAATAA
46915537 TTAAGAAAAAATAATAAAA-CACAAATAAA
1 TTAAGAAAAAATAATAAAATCA-AAAT-AA
*
46915566 TTAATAAGAAAAT
1 TTAAGAA-AAAAT
46915579 TTGTCTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 12 0.34
28 10 0.29
29 8 0.23
30 5 0.14
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (28 bp):
TTAAGAAAAAATAATAAAATCAAAATAA
Found at i:46921709 original size:12 final size:12
Alignment explanation
Indices: 46921692--46921727 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
46921682 AAATCCTCTG
*
46921692 CATGCATGCATA
1 CATGCATACATA
46921704 CATGCATACATA
1 CATGCATACATA
*
46921716 CATACATACATA
1 CATGCATACATA
46921728 TGTATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (12 bp):
CATGCATACATA
Found at i:46926723 original size:12 final size:13
Alignment explanation
Indices: 46926706--46926734 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46926696 ATTGACATTC
46926706 TTTTTTTCT-TTT
1 TTTTTTTCTCTTT
46926718 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
46926731 TTTT
1 TTTT
46926735 CATGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:46928244 original size:22 final size:22
Alignment explanation
Indices: 46928214--46928286 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 22
46928204 ATTTTTAAAA
46928214 TTTAGAAAAATAAAAATATGTAT
1 TTTA-AAAAATAAAAATATGTAT
* *
46928237 TTTAAAAATTAAAAATATTTAT
1 TTTAAAAAATAAAAATATGTAT
46928259 AATTCTAAAAAATAATAAA-ATGTAT
1 --TT-TAAAAAATAA-AAATATGTAT
46928284 TTT
1 TTT
46928287 TTAAGTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
22 17 0.40
23 6 0.14
24 2 0.05
25 14 0.33
26 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTAAAAAATAAAAATATGTAT
Found at i:46930783 original size:2 final size:2
Alignment explanation
Indices: 46930776--46930814 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
46930766 AAAAGAATGT
46930776 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46930815 TACTACTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46938293 original size:150 final size:150
Alignment explanation
Indices: 46938022--46938469 Score: 887
Period size: 150 Copynumber: 3.0 Consensus size: 150
46938012 AACATTGTTG
46938022 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
1 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
46938087 TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
66 TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
46938152 AGGAGAGAGGGAGAGAAACA
131 AGGAGAGAGGGAGAGAAACA
46938172 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
1 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
46938237 TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
66 TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
46938302 AGGAGAGAGGGAGAGAAACA
131 AGGAGAGAGGGAGAGAAACA
46938322 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
1 ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
*
46938387 GGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
66 TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
46938452 AGGAGAGAGGGAGAGAAA
131 AGGAGAGAGGGAGAGAAA
46938470 GAGAAAAAAG
Statistics
Matches: 297, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 297 1.00
ACGTcount: A:0.31, C:0.10, G:0.36, T:0.23
Consensus pattern (150 bp):
ATGTTGAGATCAGACAAACCAGAGATGGTAGTAGCATTGGACGGTTCACCTTGATTAGTGTAAGG
TGGAGAGCCACGGTAGAGGGTGCTTGGATTATGGTAGTGTTAAATCGGGTATTAAGGAGAAGTGT
AGGAGAGAGGGAGAGAAACA
Found at i:46950216 original size:78 final size:79
Alignment explanation
Indices: 46950116--46950274 Score: 311
Period size: 78 Copynumber: 2.0 Consensus size: 79
46950106 TTTATTTTGA
46950116 AACAAATAAAATTTTTTAGTTTAAAATTAAAACTTAATATTTATTTAATTATTTAAAGTAAAAAC
1 AACAAATAAAATTTTTTAGTTTAAAATTAAAACTTAATATTTATTTAATTATTTAAAGTAAAAAC
46950181 TTATTATGTATATT
66 TTATTATGTATATT
46950195 AACAAAT-AAATTTTTTAGTTTAAAATTAAAACTTAATATTTATTTAATTATTTAAAGTAAAAAC
1 AACAAATAAAATTTTTTAGTTTAAAATTAAAACTTAATATTTATTTAATTATTTAAAGTAAAAAC
46950259 TTATTATGTATATT
66 TTATTATGTATATT
46950273 AA
1 AA
46950275 ATATATTTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 73 0.91
79 7 0.09
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (79 bp):
AACAAATAAAATTTTTTAGTTTAAAATTAAAACTTAATATTTATTTAATTATTTAAAGTAAAAAC
TTATTATGTATATT
Found at i:46954868 original size:11 final size:11
Alignment explanation
Indices: 46954854--46954894 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
46954844 TGTTTTCTCC
46954854 CTATTTTGCTA
1 CTATTTTGCTA
*
46954865 CTATTTTACTA
1 CTATTTTGCTA
* *
46954876 TTATGTTGCTA
1 CTATTTTGCTA
46954887 CTATTTTG
1 CTATTTTG
46954895 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:46955160 original size:12 final size:11
Alignment explanation
Indices: 46955132--46955165 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
46955122 ATATATATTT
46955132 TAAAATT-ATA
1 TAAAATTAATA
46955142 TAAAATTAATA
1 TAAAATTAATA
46955153 TAAAAATTAATA
1 T-AAAATTAATA
46955165 T
1 T
46955166 GAGTGGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:46955489 original size:15 final size:16
Alignment explanation
Indices: 46955455--46955497 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
46955445 TTTATTCTTG
*
46955455 AATATTTATAAATTAT
1 AATATTTATAAATTAA
*
46955471 AATATTTAT-TATTAA
1 AATATTTATAAATTAA
*
46955486 AATATTAATAAA
1 AATATTTATAAA
46955498 AAAAGTATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTATAAATTAA
Found at i:46957935 original size:48 final size:48
Alignment explanation
Indices: 46957879--46957971 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
46957869 AATTATTTTT
* * *
46957879 ATTTTAGTCCCCCAACTTTAATAAGCTTTCATTTTGGTCACTCGTTTC
1 ATTTTAGTCACCCAACTTTAATAAGCTTTCATTTTGATCAATCGTTTC
46957927 ATTTTAGTCACCCAACTTTAATAAGCTTTCATTTTGATCAATCGT
1 ATTTTAGTCACCCAACTTTAATAAGCTTTCATTTTGATCAATCGT
46957972 CTTTAATTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.43
Consensus pattern (48 bp):
ATTTTAGTCACCCAACTTTAATAAGCTTTCATTTTGATCAATCGTTTC
Found at i:46960524 original size:15 final size:12
Alignment explanation
Indices: 46960483--46960516 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
46960473 AATTCGTAGT
46960483 GATCTTCTTCAC
1 GATCTTCTTCAC
46960495 GATCTTCTTCAC
1 GATCTTCTTCAC
46960507 GATCTTCTTC
1 GATCTTCTTC
46960517 GACTCGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.32, G:0.09, T:0.44
Consensus pattern (12 bp):
GATCTTCTTCAC
Found at i:46974109 original size:22 final size:22
Alignment explanation
Indices: 46974067--46974110 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46974057 TTTATCTCTA
*
46974067 AAAAAAAATTACAAAACAATTT
1 AAAAAAAATTACAAAAAAATTT
*
46974089 AAAATAAATT-CAAAAGAAATTT
1 AAAAAAAATTACAAAA-AAATTT
46974111 GAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAAAAATTACAAAAAAATTT
Found at i:46979070 original size:30 final size:30
Alignment explanation
Indices: 46979012--46979093 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
46979002 TCTAAGATTT
* * *
46979012 TTTTGAAATTTTTATTTAGAACCCTTCAAAAA
1 TTTTGAAAATTTTAATTA-AA-TCTTCAAAAA
* *
46979044 TTTT-AAAATTTCTCATTAAATCTTCAAAAG
1 TTTTGAAAATTT-TAATTAAATCTTCAAAAA
46979074 TTTTGAAAATTTTAATTAAA
1 TTTTGAAAATTTTAATTAAA
46979094 CCTCTTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
30 19 0.45
31 15 0.36
32 8 0.19
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTTGAAAATTTTAATTAAATCTTCAAAAA
Found at i:46991415 original size:110 final size:111
Alignment explanation
Indices: 46991290--46991517 Score: 440
Period size: 110 Copynumber: 2.1 Consensus size: 111
46991280 ATTTAATAGC
46991290 TTTAAGTCGAGTTAAAGCTCAAATTTAATATATATATTTATATTTATTTAATTCTCTCAATTAAT
1 TTTAAGTCGAGTTAAAGCTCAAATTTAATATATATATTTATATTTATTTAATTCTCTCAATTAAT
46991355 GTATTTATTGTTTGTGTTAATTAATGTTTTCTTTAAACATTTAAAA
66 GTATTTATTGTTTGTGTTAATTAATGTTTTCTTTAAACATTTAAAA
46991401 TTTAAGTCGA-TTAAAGCTCAAATTTAATATATATATTTATATTTATTTAATTCTCTCAATTAAT
1 TTTAAGTCGAGTTAAAGCTCAAATTTAATATATATATTTATATTTATTTAATTCTCTCAATTAAT
46991465 GTATTTATTGTTTGTGTTAATTAATGTTTTCTTTAAACATTTAAAA
66 GTATTTATTGTTTGTGTTAATTAATGTTTTCTTTAAACATTTAAAA
*
46991511 TTGAAGT
1 TTTAAGT
46991518 AGTTGTACCA
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 106 0.91
111 10 0.09
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (111 bp):
TTTAAGTCGAGTTAAAGCTCAAATTTAATATATATATTTATATTTATTTAATTCTCTCAATTAAT
GTATTTATTGTTTGTGTTAATTAATGTTTTCTTTAAACATTTAAAA
Found at i:46994342 original size:17 final size:18
Alignment explanation
Indices: 46994320--46994357 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
46994310 TAACTTAAAA
46994320 AAATAAAGACAAA-ATTG
1 AAATAAAGACAAATATTG
* *
46994337 AAATAAATATAAATATTG
1 AAATAAAGACAAATATTG
46994355 AAA
1 AAA
46994358 GTTCTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAGACAAATATTG
Found at i:46997258 original size:15 final size:15
Alignment explanation
Indices: 46997206--46997258 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
46997196 AACATATAGA
* * *
46997206 AAAAATATAATCTAG
1 AAAAATAAAATTTAC
*
46997221 AAAAATATAAA-TTAT
1 AAAAATA-AAATTTAC
46997236 AAAAATAAAATTTAC
1 AAAAATAAAATTTAC
46997251 AAAAATAA
1 AAAAATAA
46997259 GATAATTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.09
15 27 0.84
16 2 0.06
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATAAAATTTAC
Found at i:46997516 original size:20 final size:20
Alignment explanation
Indices: 46997473--46997535 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
46997463 GTTTTATAAT
*
46997473 ATTTAA-ATATTTAATATTATA
1 ATTTAATATTTTTAAT-TTA-A
**
46997494 ATTTTTTATTTTTAATTTAA
1 ATTTAATATTTTTAATTTAA
46997514 ATTTAATATTTTTAATTTAA
1 ATTTAATATTTTTAATTTAA
46997534 AT
1 AT
46997536 AAATTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.58
21 7 0.19
22 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTAATATTTTTAATTTAA
Found at i:46997803 original size:39 final size:39
Alignment explanation
Indices: 46997759--46997839 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
46997749 AAATAAACTT
*
46997759 AAAATAAGATAATAATAAAAAGCTTGAACGAACTATTAA
1 AAAATAAGATAATAATAAAAAGCTTGAACGAACTAATAA
*
46997798 AAAATAAGATAATAATAAAAAGCTTGAATGAACTAATAA
1 AAAATAAGATAATAATAAAAAGCTTGAACGAACTAATAA
46997837 AAA
1 AAA
46997840 CTGATTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.22
Consensus pattern (39 bp):
AAAATAAGATAATAATAAAAAGCTTGAACGAACTAATAA
Found at i:46997836 original size:21 final size:20
Alignment explanation
Indices: 46997771--46997839 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
46997761 AATAAGATAA
46997771 TAATAAAAAGCTTGAACGAAC
1 TAATAAAAAGCTTGAA-GAAC
* * *
46997792 TATTAAAAA--AT-AAGATAA
1 TAATAAAAAGCTTGAAGA-AC
46997810 TAATAAAAAGCTTGAATGAAC
1 TAATAAAAAGCTTGAA-GAAC
46997831 TAATAAAAA
1 TAATAAAAA
46997840 CTGATTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
17 2 0.05
18 11 0.30
19 1 0.03
20 1 0.03
21 20 0.54
22 2 0.05
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (20 bp):
TAATAAAAAGCTTGAAGAAC
Found at i:47000167 original size:16 final size:16
Alignment explanation
Indices: 47000115--47000166 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
47000105 ATTACTGATC
47000115 ACAGCTTTATTCCATT
1 ACAGCTTTATTCCATT
* * *
47000131 ACAACTATATTCAATT
1 ACAGCTTTATTCCATT
*
47000147 ACAGTTTTATTCCATT
1 ACAGCTTTATTCCATT
47000163 ACAG
1 ACAG
47000167 TGAACCAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTTTATTCCATT
Found at i:47001001 original size:44 final size:46
Alignment explanation
Indices: 47000938--47001032 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
47000928 TATTACAACA
* *
47000938 CCATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGTTTTATT
1 CCATTCCATTCAACCAAACA-ATAGAATTACTGATCACAGCTTTATT
* *
47000982 CCATTCCATTTAACCAAACAATTGAATTACTGATCACAGCTTTATT
1 CCATTCCATTCAACCAAACAATAGAATTACTGATCACAGCTTTATT
47001028 CCATT
1 CCATT
47001033 ACAACTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 4 0.09
46 17 0.39
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACAATAGAATTACTGATCACAGCTTTATT
Found at i:47001069 original size:16 final size:16
Alignment explanation
Indices: 47001017--47001068 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
47001007 ATTACTGATC
47001017 ACAGCTTTATTCCATT
1 ACAGCTTTATTCCATT
* * *
47001033 ACAACTATATTCAATT
1 ACAGCTTTATTCCATT
*
47001049 ACAGTTTTATTCCATT
1 ACAGCTTTATTCCATT
47001065 ACAG
1 ACAG
47001069 TGAACCAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTTTATTCCATT
Found at i:47007458 original size:24 final size:25
Alignment explanation
Indices: 47007401--47007462 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
47007391 TGCTTATACC
47007401 CTTTCTACTTTTC-GAAAATTACAT
1 CTTTCTACTTTTCAGAAAATTACAT
*
47007425 C-TTCTA-TTTTCAGGAAATTA-AT
1 CTTTCTACTTTTCAGAAAATTACAT
*
47007447 CTTTTTACTTTTCAGA
1 CTTTCTACTTTTCAGA
47007463 TTTCAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 8 0.25
23 16 0.50
24 8 0.25
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (25 bp):
CTTTCTACTTTTCAGAAAATTACAT
Found at i:47013766 original size:63 final size:61
Alignment explanation
Indices: 47013658--47013824 Score: 222
Period size: 54 Copynumber: 2.8 Consensus size: 61
47013648 TTTTTGATGT
* *
47013658 CAATGCCAACATGAGAAGGCATTAGCACAAGGAAGTACAAGGTCCATTAGGTCCATTGTGTGC
1 CAATGCCAACATGAGAAGGCATTAGCACAAGGAAGAATAAGGTCCATT--GTCCATTGTGTGC
*
47013721 CAATGCCAACATGAGAAGGAATTAGCACAAGGAAGAAT-A-----A-TGTCCATTGTGTGC
1 CAATGCCAACATGAGAAGGCATTAGCACAAGGAAGAATAAGGTCCATTGTCCATTGTGTGC
* *
47013775 CAATGCCAACATCAAAAGGCATTAGCACAAGGAAGAATAAGGTCCATTGT
1 CAATGCCAACATGAGAAGGCATTAGCACAAGGAAGAATAAGGTCCATTGT
47013825 GTGTTTTTTC
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
54 48 0.53
55 1 0.01
56 1 0.01
57 1 0.01
60 1 0.01
61 3 0.03
62 1 0.01
63 35 0.38
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (61 bp):
CAATGCCAACATGAGAAGGCATTAGCACAAGGAAGAATAAGGTCCATTGTCCATTGTGTGC
Found at i:47019653 original size:69 final size:69
Alignment explanation
Indices: 47019530--47019660 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 69
47019520 AGTAGTGTTC
* *
47019530 GCTTCAAGTAGCTTGAAAAGATTAGAAGAATCAAGAGACTCTTATCAATTTGATGGTAGCACGGG
1 GCTTCAAGTAGCTTGAAAAGATTAGAAGAATCAAGAGACTCATATCAATCTGATGGTAGCACGGG
47019595 ACTA
66 ACTA
* * * * *
47019599 GCTTCAGGTAGCTT-AAGGAGATTAGCAGAATCAAGGGACTCATATGAATCTGATGGTAGCAC
1 GCTTCAAGTAGCTTGAA-AAGATTAGAAGAATCAAGAGACTCATATCAATCTGATGGTAGCAC
47019661 TGGATCCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.04
69 52 0.96
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (69 bp):
GCTTCAAGTAGCTTGAAAAGATTAGAAGAATCAAGAGACTCATATCAATCTGATGGTAGCACGGG
ACTA
Found at i:47027966 original size:21 final size:23
Alignment explanation
Indices: 47027941--47027997 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
47027931 CTTAAAATTT
47027941 ATAAAATTTTATATT-AA-TATA
1 ATAAAATTTTATATTGAACTATA
* *
47027962 ATAAAATTATATTTTGAACTATA
1 ATAAAATTTTATATTGAACTATA
* *
47027985 TTAAAAATTTATA
1 ATAAAATTTTATA
47027998 ATTCAAACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 13 0.46
22 2 0.07
23 13 0.46
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATAAAATTTTATATTGAACTATA
Found at i:47032539 original size:7 final size:7
Alignment explanation
Indices: 47032492--47032540 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
47032482 AAATCATAAC
47032492 ATAAGAA
1 ATAAGAA
*
47032499 ATGAGAA
1 ATAAGAA
*
47032506 ATAATAA
1 ATAAGAA
*
47032513 ATAATAA
1 ATAAGAA
*
47032520 ATAATAA
1 ATAAGAA
47032527 AT-AGAA
1 ATAAGAA
47032533 ATAAGAA
1 ATAAGAA
47032540 A
1 A
47032541 GATATATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (7 bp):
ATAAGAA
Found at i:47032584 original size:28 final size:28
Alignment explanation
Indices: 47032552--47032606 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
47032542 ATATATTATA
47032552 TTAGGATTT-AAATAGGAGTAATTTGAAG
1 TTAGGATTTCAAA-AGGAGTAATTTGAAG
*
47032580 TTAGGATTTCAAAAGGATTAATTTGAA
1 TTAGGATTTCAAAAGGAGTAATTTGAA
47032607 TTTCGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (28 bp):
TTAGGATTTCAAAAGGAGTAATTTGAAG
Found at i:47033063 original size:23 final size:23
Alignment explanation
Indices: 47033035--47033091 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
47033025 TTAGAAAATA
47033035 TATAATTTGATAAGATTTGATTT
1 TATAATTTGATAAGATTTGATTT
* * *
47033058 TGTAATTTGATACGGTTTGATTT
1 TATAATTTGATAAGATTTGATTT
47033081 TATAATTTGAT
1 TATAATTTGAT
47033092 TTTGTATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.53
Consensus pattern (23 bp):
TATAATTTGATAAGATTTGATTT
Found at i:47033709 original size:21 final size:21
Alignment explanation
Indices: 47033685--47033733 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
47033675 TTTAGGCTAC
47033685 ATGATGGGATTTCTTCATGGA
1 ATGATGGGATTTCTTCATGGA
47033706 ATGATGGGATTTCTTCATGGA
1 ATGATGGGATTTCTTCATGGA
*
47033727 TTGATGG
1 ATGATGG
47033734 AGATCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.31, T:0.39
Consensus pattern (21 bp):
ATGATGGGATTTCTTCATGGA
Found at i:47033839 original size:12 final size:12
Alignment explanation
Indices: 47033822--47033846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47033812 TAATCTTGGG
47033822 GATGTTCCACCT
1 GATGTTCCACCT
47033834 GATGTTCCACCT
1 GATGTTCCACCT
47033846 G
1 G
47033847 TTTTATTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (12 bp):
GATGTTCCACCT
Found at i:47036206 original size:25 final size:26
Alignment explanation
Indices: 47036176--47036224 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
47036166 TATATTAAAA
47036176 TATTTT-TTGTTTAAT-AAAATATTAT
1 TATTTTATT-TTTAATAAAAATATTAT
*
47036201 TATTTTATTTTTATTAAAAATATT
1 TATTTTATTTTTAATAAAAATATT
47036225 TAAATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTTTATTTTTAATAAAAATATTAT
Found at i:47040200 original size:28 final size:28
Alignment explanation
Indices: 47040168--47040222 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
47040158 ATAAATTCTA
47040168 TTAGGA-TTTAAATAGGAGTAATTTGAAG
1 TTAGGATTTTAAA-AGGAGTAATTTGAAG
*
47040196 TTAGGATTTTAAAAGGATTAATTTGAA
1 TTAGGATTTTAAAAGGAGTAATTTGAA
47040223 TTTCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (28 bp):
TTAGGATTTTAAAAGGAGTAATTTGAAG
Found at i:47040671 original size:23 final size:23
Alignment explanation
Indices: 47040643--47040698 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
47040633 TTAGAAGATA
47040643 TATAATTTGATAAGATTTGATTT
1 TATAATTTGATAAGATTTGATTT
* *
47040666 TGTAATTTGATACGATTTGATTT
1 TATAATTTGATAAGATTTGATTT
47040689 TATAATTTGA
1 TATAATTTGA
47040699 CTGTCGAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (23 bp):
TATAATTTGATAAGATTTGATTT
Found at i:47045432 original size:46 final size:46
Alignment explanation
Indices: 47045295--47045433 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
47045285 TGGCAAATCG
* *
47045295 TGAAAAGTAGGTATGGTGTTTCATTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
* * *
47045341 TGAAAAGTAGGTATAGTGTTTCGGTAAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
* * *
47045387 TGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACTATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
47045433 T
1 T
47045434 AGCATTGTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
Found at i:47052665 original size:54 final size:54
Alignment explanation
Indices: 47052591--47052699 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
47052581 CAAAATATAT
*
47052591 AATATTTATTATTCTGTATAAAAGAGTT-TTCTTAATAAATTCACGATTGATTTC
1 AATACTTATTATTCTGTATAAAAGAGTTCTT-TTAATAAATTCACGATTGATTTC
47052645 AATACTTATTATTCTGTATAAAAGAGTTCTTTTAATAAATTCACGATTGATTTC
1 AATACTTATTATTCTGTATAAAAGAGTTCTTTTAATAAATTCACGATTGATTTC
47052699 A
1 A
47052700 GACTCGATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (54 bp):
AATACTTATTATTCTGTATAAAAGAGTTCTTTTAATAAATTCACGATTGATTTC
Found at i:47053543 original size:6 final size:6
Alignment explanation
Indices: 47053529--47053560 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
47053519 AAAAAATTGT
*
47053529 TTAAAA TTAATA TTAATA TTAATA TTAATA TT
1 TTAATA TTAATA TTAATA TTAATA TTAATA TT
47053561 TTTACCCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:47064620 original size:28 final size:27
Alignment explanation
Indices: 47064583--47064648 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 27
47064573 ACTAATAATT
**
47064583 AAAATTAAAATTTGAAATTTGAAATATA
1 AAAATTAAAATTAAAAATTTGAAA-ATA
*
47064611 AAAATTAAAAATTAAAAATTTTAAAATA
1 AAAATT-AAAATTAAAAATTTGAAAATA
*
47064639 AAAATAAAAA
1 AAAATTAAAA
47064649 ATATTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 14 0.42
29 15 0.45
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATTAAAATTAAAAATTTGAAAATA
Found at i:47064621 original size:8 final size:7
Alignment explanation
Indices: 47064604--47064650 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
47064594 TTGAAATTTG
47064604 AAATATAA
1 AAAT-TAA
47064612 AAATTAA
1 AAATTAA
47064619 AAATTAA
1 AAATTAA
*
47064626 AAATTTTA
1 AAA-TTAA
47064634 AAA-TAA
1 AAATTAA
*
47064640 AAATAAA
1 AAATTAA
47064647 AAAT
1 AAAT
47064651 ATTTTCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.15
7 19 0.56
8 10 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAA
Found at i:47066818 original size:27 final size:26
Alignment explanation
Indices: 47066788--47066840 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
47066778 TAACAATATA
47066788 TGGACTTTT-AATTTAATTTAATTTAAT
1 TGGACTTTTGAATTTAA-TT-ATTTAAT
* *
47066815 TGGAGTTTTGATTTTAATTATTTAAT
1 TGGACTTTTGAATTTAATTATTTAAT
47066841 GTTAGTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 10 0.43
28 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (26 bp):
TGGACTTTTGAATTTAATTATTTAAT
Found at i:47068468 original size:19 final size:20
Alignment explanation
Indices: 47068446--47068487 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47068436 AATGTTTAAA
*
47068446 TTTAATATTTTA-ATATTAT
1 TTTAACATTTTACATATTAT
* *
47068465 TTTAGCATTTTACATTTTAT
1 TTTAACATTTTACATATTAT
47068485 TTT
1 TTT
47068488 TTTCTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTAACATTTTACATATTAT
Found at i:47078093 original size:251 final size:249
Alignment explanation
Indices: 47077733--47078416 Score: 766
Period size: 250 Copynumber: 2.7 Consensus size: 249
47077723 AACTATTTAG
* * * * * * *
47077733 TATTTACTACCAAATGAATAAAAATTGAAAAAAAATTAT-TATCAAACAATCAGAAATATTTACC
1 TATTTACTACCAAATGAATAAAAATTG-AAAAATATTATCAAACAGACAATAAGACATATTT-CA
* * * *
47077797 ACTCAACTAAACAAGATTAAAAACACTGAATCCTTTAGGAAATGAAGAACCATGTTCATAAAAAA
64 ACTCAGCTAAACAAGATTAAAAACACTGAATTCTTTAGAAAATGAAGAACAATGTTCATAAAAAA
*
47077862 TGGATATAAAATTCTTCTGCAAACAAAATAGTTCCTGAAACTGAATTCATTTCACCTTAAAGTAG
129 TGGATATAAAATCCTTCTGCAAACAAAATAGTTCCTGAAACTGAATTCATTTCACCTTAAAGTAG
* * * *
47077927 TGCCATCATCATCATCATC-AA-AAC-CCATTTCCTTTTTCAGGATTCTCAACACGGC
194 TGCCACCATCATCATAAGCAAATAACACCATTTCCTTTTTCAGGATTCTCAACA--AC
*
47077982 TATTTACTACCAAATGAATAAAAATTGAAAATATGATTATCAAACAGACAATAAGACACATTTGC
1 TATTTACTACCAAATGAATAAAAATTGAAAA-AT-ATTATCAAACAGACAATAAGACATATTT-C
* * *
47078047 TACTCAGTTAAACAAGATTAAAAACACTGAATTCATTAGAAAATGAAGAACAATGTT--TGAAAA
63 AACTCAGCTAAACAAGATTAAAAACACTGAATTCTTTAGAAAATGAAGAACAATGTTCAT-AAAA
* * * *
47078110 AATGGATATAAAATCCTTTTGCTAACAAAATAGTTCCTGAAACTGAATTCATTTCACATGAAAGT
127 AATGGATATAAAATCCTTCTGCAAACAAAATAGTTCCTGAAACTGAATTCATTTCACCTTAAAGT
* * * * ** *
47078175 AGTGTCACCATTATCATAAGCAAATAACACCTTTTCTTTTTTCCTGATTCTTAACAAC
192 AGTGCCACCATCATCATAAGCAAATAACACCATTTCCTTTTTCAGGATTCTCAACAAC
* * *
47078233 TATTTCCTACCAAATAAAT-AAAATATGAAACTAAATATGATCAAAC-G---ATCAAG-CATA-T
1 TATTTACTACCAAATGAATAAAAAT-TG-AA--AAATATTATCAAACAGACAAT-AAGACATATT
* * * *
47078291 TAAACTCAGCTGAACAAGATTAAAAACATTG-TTTCTTTAGAAAATGAAGAACAATGTTCATAAA
61 TCAACTCAGCTAAACAAGATTAAAAACACTGAATTCTTTAGAAAATGAAGAACAATGTTCATAAA
* * * *
47078355 AAATGTATATAACATCCTGCTGCAAACAAAATAGATCCTGAGAACTGAATTCATTTCACCTT
126 AAATGGATATAAAATCCTTCTGCAAACAAAATAGTTCCTGA-AACTGAATTCATTTCACCTT
47078417 GAATTACTGT
Statistics
Matches: 370, Mismatches: 50, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
245 25 0.07
246 63 0.17
247 21 0.06
248 9 0.02
249 32 0.09
250 90 0.24
251 90 0.24
252 14 0.04
253 24 0.06
254 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (249 bp):
TATTTACTACCAAATGAATAAAAATTGAAAAATATTATCAAACAGACAATAAGACATATTTCAAC
TCAGCTAAACAAGATTAAAAACACTGAATTCTTTAGAAAATGAAGAACAATGTTCATAAAAAATG
GATATAAAATCCTTCTGCAAACAAAATAGTTCCTGAAACTGAATTCATTTCACCTTAAAGTAGTG
CCACCATCATCATAAGCAAATAACACCATTTCCTTTTTCAGGATTCTCAACAAC
Found at i:47082015 original size:30 final size:32
Alignment explanation
Indices: 47081956--47082019 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
47081946 TAGTAAAGGT
* *
47081956 AAAATTATACTTTAACCCTTTTTAAAATTATA
1 AAAATTATAATTTAACCCTTTTAAAAATTATA
*
47081988 AAAATT-TAATTTAATCC-TTTAAAAATTATA
1 AAAATTATAATTTAACCCTTTTAAAAATTATA
47082018 AA
1 AA
47082020 GATATACACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.48
31 9 0.31
32 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATTATAATTTAACCCTTTTAAAAATTATA
Found at i:47083289 original size:7 final size:7
Alignment explanation
Indices: 47083274--47083316 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
47083264 TTCCCAAAGG
*
47083274 TAATTTT
1 TAATATT
47083281 TAATATT
1 TAATATT
47083288 TAATATT
1 TAATATT
47083295 TAATATT
1 TAATATT
47083302 TAATATT
1 TAATATT
47083309 TAATATT
1 TAATATT
47083316 T
1 T
47083317 TCTGTTTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TAATATT
Found at i:47095152 original size:111 final size:113
Alignment explanation
Indices: 47094899--47095202 Score: 313
Period size: 108 Copynumber: 2.7 Consensus size: 113
47094889 AATAGTTTCA
* * ** *
47094899 CTATGTATGCAGTATTGCTAAATCTAGTTCTAGCTAATAGCTATCATTTTGGAATCATATGTGAT
1 CTATGTATGCAGTATGGTTAAATCT-G--CTAG-TTCTAGCTATCATTTTGGAATCATATATGAT
* * * **
47094964 TTTCTAATATAAACC---TATGGAAAATGCTATGGTATTGGACTGCACTTTGTCCT
62 TTTGT-ATATAAACCTATTATAGAAAATGCTATGGTATT-G--TGCACTTAGTCAG
* *
47095017 CTATGTATGCGGTATGGTTAAATCTGCTAGTTCTAGCTGTCATTTTGGAATCATATATGATTTTG
1 CTATGTATGCAGTATGGTTAAATCTGCTAGTTCTAGCTATCATTTTGGAATCATATATGATTTTG
*
47095082 TATATAAACCTATATATAGTAAATGCTATGGTA-T-T-CACTTAGTCAG
66 TATATAAACCTAT-TATAGAAAATGCTATGGTATTGTGCACTTAGTCAG
*
47095128 CTATGTATGCAGTATGGTTAAA--T-CTAGTTCTAGCTATCATTTTGGAATCAT-TGATGATTGT
1 CTATGTATGCAGTATGGTTAAATCTGCTAGTTCTAGCTATCATTTTGGAATCATAT-ATGATTTT
*
47095189 GTTTATAAACCTAT
65 GTATATAAACCTAT
47095203 GGGAAATGCT
Statistics
Matches: 164, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
107 1 0.01
108 47 0.29
109 1 0.01
111 29 0.18
112 1 0.01
113 9 0.05
114 31 0.19
115 4 0.02
116 1 0.01
117 18 0.11
118 22 0.13
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (113 bp):
CTATGTATGCAGTATGGTTAAATCTGCTAGTTCTAGCTATCATTTTGGAATCATATATGATTTTG
TATATAAACCTATTATAGAAAATGCTATGGTATTGTGCACTTAGTCAG
Found at i:47098165 original size:21 final size:21
Alignment explanation
Indices: 47098141--47098183 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47098131 AAATTCATTA
*
47098141 ATATTCTT-TTTGAATTTGTAT
1 ATATTCTTATTTAAATTT-TAT
*
47098162 ATATTTTTATTTAAATTTTAT
1 ATATTCTTATTTAAATTTTAT
47098183 A
1 A
47098184 AAAAATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
ATATTCTTATTTAAATTTTAT
Found at i:47098346 original size:28 final size:28
Alignment explanation
Indices: 47098293--47098347 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
47098283 ATGTAATGCC
*
47098293 GAAAATATAGTTTAAGTATATTTTTATA
1 GAAAATATAGTTTAAGTATATATTTATA
*
47098321 GAAAATATAGTTTAGGTAT-TAATTTAT
1 GAAAATATAGTTTAAGTATAT-ATTTAT
47098348 TATAACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (28 bp):
GAAAATATAGTTTAAGTATATATTTATA
Found at i:47100158 original size:79 final size:79
Alignment explanation
Indices: 47100027--47100265 Score: 478
Period size: 79 Copynumber: 3.0 Consensus size: 79
47100017 AAAATAGCCT
47100027 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
1 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
47100092 CCGAAAACAAATCG
66 CCGAAAACAAATCG
47100106 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
1 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
47100171 CCGAAAACAAATCG
66 CCGAAAACAAATCG
47100185 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
1 AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
47100250 CCGAAAACAAATCG
66 CCGAAAACAAATCG
47100264 AA
1 AA
47100266 GTTACTTATA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 160 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (79 bp):
AATTTTAAAGTACAAATAACTTGTTTATACCTATCATAAAATGCTTTGAATTGGACTTCAAGAAC
CCGAAAACAAATCG
Found at i:47101266 original size:25 final size:24
Alignment explanation
Indices: 47101209--47101266 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
47101199 TTAATGATGT
*
47101209 ATATTTAAAATAAAGTAATTAATG
1 ATATTTAAAAAAAAGTAATTAATG
47101233 A-ATTGTTAAAAGAAAAGTAATTAATG
1 ATA-T-TTAAAA-AAAAGTAATTAATG
47101259 ATATTTAA
1 ATATTTAA
47101267 TTTAGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.03
24 2 0.07
25 10 0.34
26 15 0.52
27 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.36
Consensus pattern (24 bp):
ATATTTAAAAAAAAGTAATTAATG
Found at i:47102065 original size:21 final size:21
Alignment explanation
Indices: 47102041--47102086 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47102031 TTTATCCCTT
*
47102041 TAAAAATTTATAATTCAATTC
1 TAAAAATTTAAAATTCAATTC
* **
47102062 TAAAATTTTAAAATTCTTTTC
1 TAAAAATTTAAAATTCAATTC
47102083 TAAA
1 TAAA
47102087 TGCCCCTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAAATTTAAAATTCAATTC
Found at i:47105233 original size:27 final size:27
Alignment explanation
Indices: 47105195--47105250 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
47105185 GGGGGGGGGG
47105195 ACAAAGTGTAGTTTTACCATTAAACTA
1 ACAAAGTGTAGTTTTACCATTAAACTA
47105222 ACAAAGTGTAGTTTTACCATTAAACTA
1 ACAAAGTGTAGTTTTACCATTAAACTA
47105249 AC
1 AC
47105251 TTATAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (27 bp):
ACAAAGTGTAGTTTTACCATTAAACTA
Found at i:47107418 original size:30 final size:30
Alignment explanation
Indices: 47107322--47107408 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
47107312 ATCGACCGCA
*
47107322 GGGAGAAACCAAGGAAAAGCACCGATACCC
1 GGGAAAAACCAAGGAAAAGCACCGATACCC
* *
47107352 GGGACAAGCCAAGGAAAAGCACCGATACCC
1 GGGAAAAACCAAGGAAAAGCACCGATACCC
*
47107382 GGGAAAAACCAAGGAAAAGCATCGATA
1 GGGAAAAACCAAGGAAAAGCACCGATA
47107409 GGCCTGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.45, C:0.24, G:0.26, T:0.05
Consensus pattern (30 bp):
GGGAAAAACCAAGGAAAAGCACCGATACCC
Found at i:47109725 original size:55 final size:56
Alignment explanation
Indices: 47109634--47109759 Score: 200
Period size: 55 Copynumber: 2.3 Consensus size: 56
47109624 AGAAATAGCT
* * *
47109634 TTTGAGTAATCTCACAATTACAATCTGATTATAAACTCCATTTCATTGGAGAACCC
1 TTTGAGTAATCTCATAATTACAATCTGATTACAAACTCCATTTCATTGAAGAACCC
* *
47109690 TTTGAGTAATCTCATAA-TACAATCTGATTACAAACTTCGTTTCATTGAAGAACCC
1 TTTGAGTAATCTCATAATTACAATCTGATTACAAACTCCATTTCATTGAAGAACCC
47109745 TTTGAGTAATCTCAT
1 TTTGAGTAATCTCAT
47109760 CCTTTTTCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 49 0.75
56 16 0.25
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (56 bp):
TTTGAGTAATCTCATAATTACAATCTGATTACAAACTCCATTTCATTGAAGAACCC
Found at i:47111746 original size:30 final size:29
Alignment explanation
Indices: 47111712--47111775 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
47111702 TTGGACTTCC
* * *
47111712 TTGATTCTTTTTAATAGTATAAGGACTAAA
1 TTGATTC-ATTTAATAATAGAAGGACTAAA
* *
47111742 TTGATTCATTTAATAATAGAGGGACTAAT
1 TTGATTCATTTAATAATAGAAGGACTAAA
47111771 TTGAT
1 TTGAT
47111776 CTAGTCTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (29 bp):
TTGATTCATTTAATAATAGAAGGACTAAA
Found at i:47113332 original size:21 final size:21
Alignment explanation
Indices: 47113290--47113332 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
47113280 ATTAGCTCTA
* **
47113290 TTAAATAGTATATGATGTTTT
1 TTAAATAGTAAATGATAATTT
*
47113311 TTAAATAGTAAATGTTAATTT
1 TTAAATAGTAAATGATAATTT
47113332 T
1 T
47113333 ATTCTAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TTAAATAGTAAATGATAATTT
Found at i:47113412 original size:29 final size:30
Alignment explanation
Indices: 47113362--47113418 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
47113352 TATTCTTTTC
*
47113362 AATAGTACAGGGATTAAATTGAT-TTATTT
1 AATAGTACAGGGACTAAATTGATCTTATTT
* *
47113391 AATAGTAGAGGGACTAATTTGATCTTAT
1 AATAGTACAGGGACTAAATTGATCTTAT
47113419 AATATAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (30 bp):
AATAGTACAGGGACTAAATTGATCTTATTT
Found at i:47113422 original size:28 final size:28
Alignment explanation
Indices: 47113362--47113426 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
47113352 TATTCTTTTC
* *
47113362 AATAGTACAGGGATTAAATTGATTTATTT
1 AATAGTAGAGGGACTAAATTGATTTA-TT
*
47113391 AATAGTAGAGGGACTAATTTGATCTTA-T
1 AATAGTAGAGGGACTAAATTGAT-TTATT
47113419 AATA-TAGA
1 AATAGTAGA
47113427 TTCAATGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 5 0.16
29 20 0.62
30 3 0.09
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (28 bp):
AATAGTAGAGGGACTAAATTGATTTATT
Found at i:47119835 original size:3 final size:3
Alignment explanation
Indices: 47119827--47119856 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47119817 ATTTCATAAG
47119827 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
47119857 TTCTTGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:47122945 original size:103 final size:104
Alignment explanation
Indices: 47122786--47122994 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 104
47122776 GGGAAGTTTC
47122786 TATGCCACGATGTATTTTTTTTTTTTTACTAGAAAAGCAACTCAATCTTTTATATTTAAGTGATG
1 TATGCCACGA-GTATTTTTTTTTTTTTACTAGAAAAGCAACTCAATCTTTTATATTTAAGTGATG
47122851 ATCCTTATATTGTACCTTTTTAATCTATATTAGTTACATT
65 ATCCTTATATTGTACCTTTTTAATCTATATTAGTTACATT
47122891 TATGCCACGA-TATTTTTTTTTTTTTACTAGAAAAGCAACTCAATCTTTTATATTTAAGTGATGA
1 TATGCCACGAGTATTTTTTTTTTTTTACTAGAAAAGCAACTCAATCTTTTATATTTAAGTGATGA
47122955 TCCTTATATTGTACCTTTTTAATCTATATTAGTTACATT
66 TCCTTATATTGTACCTTTTTAATCTATATTAGTTACATT
47122994 T
1 T
47122995 TCTACACTTG
Statistics
Matches: 104, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 94 0.90
105 10 0.10
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (104 bp):
TATGCCACGAGTATTTTTTTTTTTTTACTAGAAAAGCAACTCAATCTTTTATATTTAAGTGATGA
TCCTTATATTGTACCTTTTTAATCTATATTAGTTACATT
Found at i:47141340 original size:2 final size:2
Alignment explanation
Indices: 47141331--47141370 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
47141321 CCCTCTCTTA
47141331 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
47141371 ATATATACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:47141478 original size:87 final size:87
Alignment explanation
Indices: 47141371--47141537 Score: 334
Period size: 87 Copynumber: 1.9 Consensus size: 87
47141361 TCTCTCTCTC
47141371 ATATATACATATACATATCTATGGCCTTTGGTGGGCTTTCTTTATTTTTCTTAATCTGACTGAAA
1 ATATATACATATACATATCTATGGCCTTTGGTGGGCTTTCTTTATTTTTCTTAATCTGACTGAAA
47141436 TTTGGGTTGATGGGTCTATTAT
66 TTTGGGTTGATGGGTCTATTAT
47141458 ATATATACATATACATATCTATGGCCTTTGGTGGGCTTTCTTTATTTTTCTTAATCTGACTGAAA
1 ATATATACATATACATATCTATGGCCTTTGGTGGGCTTTCTTTATTTTTCTTAATCTGACTGAAA
47141523 TTTGGGTTGATGGGT
66 TTTGGGTTGATGGGT
47141538 GATTGTTGAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (87 bp):
ATATATACATATACATATCTATGGCCTTTGGTGGGCTTTCTTTATTTTTCTTAATCTGACTGAAA
TTTGGGTTGATGGGTCTATTAT
Found at i:47153628 original size:24 final size:27
Alignment explanation
Indices: 47153587--47153640 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 27
47153577 ATTATTTATA
47153587 TTATATTATTTTAATATTTAAT-AAAAT
1 TTATATTATTTT-ATATTTAATGAAAAT
*
47153614 TTATATT-TTTT-TATTTATTGAAAAT
1 TTATATTATTTTATATTTAATGAAAAT
47153639 TT
1 TT
47153641 TTATATAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 7 0.28
25 7 0.28
26 4 0.16
27 7 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATATTATTTTATATTTAATGAAAAT
Found at i:47158305 original size:17 final size:17
Alignment explanation
Indices: 47158285--47158320 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47158275 ATTTGGTCAG
47158285 TTTTAATTTTTGTAATTT
1 TTTTAATTTTT-TAATTT
*
47158303 TTTTTATTTTTTAATTT
1 TTTTAATTTTTTAATTT
47158320 T
1 T
47158321 CAATTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTAATTTTTTAATTT
Found at i:47162999 original size:21 final size:22
Alignment explanation
Indices: 47162975--47163021 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
47162965 CATTTTATGT
* *
47162975 TTATA-TATTGCATATAAATAA
1 TTATATTATTCCATATAAAAAA
47162996 TTATATTTATTCCATATAAAAAA
1 TTATA-TTATTCCATATAAAAAA
47163019 TTA
1 TTA
47163022 ATGTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
23 17 0.77
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATATTATTCCATATAAAAAA
Found at i:47163102 original size:30 final size:29
Alignment explanation
Indices: 47163067--47163192 Score: 97
Period size: 30 Copynumber: 4.5 Consensus size: 29
47163057 AAAATTAAAG
47163067 TTTCATGTATATATTTGAACTACAATTAAT
1 TTTCATGTAT-TATTTGAACTACAATTAAT
* * *
47163097 TTTCATGTATTATTT--ATTTC-TTTAA-
1 TTTCATGTATTATTTGAACTACAATTAAT
* * * * *
47163122 --T-ATGTATGA-TTAAATTAAAATTAAAG
1 TTTCATGTATTATTTGAACTACAATT-AAT
47163148 TTTCATGTATATATTTGAACTACAATTAAT
1 TTTCATGTAT-TATTTGAACTACAATTAAT
47163178 TTTCATGTATTATTT
1 TTTCATGTATTATTT
47163193 TGAAATTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
21 2 0.03
22 7 0.09
23 4 0.05
24 2 0.03
25 2 0.03
26 4 0.05
27 3 0.04
28 1 0.01
29 16 0.22
30 23 0.31
31 10 0.14
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTCATGTATTATTTGAACTACAATTAAT
Found at i:47163134 original size:81 final size:82
Alignment explanation
Indices: 47163025--47163192 Score: 329
Period size: 81 Copynumber: 2.1 Consensus size: 82
47163015 AAAATTAATG
47163025 TATTTATTTCTTTAAATATGTATGATTAAATTAAAATTAAAGTTTCATGTATATATTTGAACTAC
1 TATTTATTTCTTTAAATATGTATGATTAAATTAAAATTAAAGTTTCATGTATATATTTGAACTAC
47163090 AATTAATTTTCATGTAT
66 AATTAATTTTCATGTAT
47163107 TATTTATTTCTTT-AATATGTATGATTAAATTAAAATTAAAGTTTCATGTATATATTTGAACTAC
1 TATTTATTTCTTTAAATATGTATGATTAAATTAAAATTAAAGTTTCATGTATATATTTGAACTAC
47163171 AATTAATTTTCATGTAT
66 AATTAATTTTCATGTAT
47163188 TATTT
1 TATTT
47163193 TGAAATTTGT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 73 0.85
82 13 0.15
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (82 bp):
TATTTATTTCTTTAAATATGTATGATTAAATTAAAATTAAAGTTTCATGTATATATTTGAACTAC
AATTAATTTTCATGTAT
Found at i:47170302 original size:30 final size:30
Alignment explanation
Indices: 47170231--47170402 Score: 188
Period size: 30 Copynumber: 5.8 Consensus size: 30
47170221 CTTCTTGGTC
* * * *
47170231 GCAGAAGCCACAGAAGCACAGACGGACCAT
1 GCAGAAGCCGCAGAAGCACCGACTGTCCAT
*
47170261 G-AGAAGCCGCAGAAGCACCGACTGTTCAT
1 GCAGAAGCCGCAGAAGCACCGACTGTCCAT
* *
47170290 GCAGAAGTCGCAGAAGCACCGATTGTCCAT
1 GCAGAAGCCGCAGAAGCACCGACTGTCCAT
* * *
47170320 GCAGAAGCTGTAAAAG-AGCCGACTGTCCAT
1 GCAGAAGCCGCAGAAGCA-CCGACTGTCCAT
* *
47170350 TCCGAAGCCGCAGAAGCACCGACTGTCCAT
1 GCAGAAGCCGCAGAAGCACCGACTGTCCAT
*
47170380 GCA-ATAGCCGCAGAAGCGCCGAC
1 GCAGA-AGCCGCAGAAGCACCGAC
47170403 AATTGAGGAA
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
29 26 0.22
30 90 0.77
31 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.12
Consensus pattern (30 bp):
GCAGAAGCCGCAGAAGCACCGACTGTCCAT
Found at i:47170909 original size:30 final size:30
Alignment explanation
Indices: 47170875--47171045 Score: 207
Period size: 30 Copynumber: 5.7 Consensus size: 30
47170865 TTCCTCAATT
*
47170875 GTCGGCGCTTCTGCGGCTTTTGCATGGACA
1 GTCGGCGCTTCTGCGGCTTCTGCATGGACA
* *
47170905 GTCGGCGCTTCTGCGGCTTCGGCATGGATA
1 GTCGGCGCTTCTGCGGCTTCTGCATGGACA
* *
47170935 GTCGGCGCTTCTGCAGCTTCGGCATGGACA
1 GTCGGCGCTTCTGCGGCTTCTGCATGGACA
* * *
47170965 GTCGGCGCTTCTGCGGCTTTTGCATGGTCC
1 GTCGGCGCTTCTGCGGCTTCTGCATGGACA
* * ** *
47170995 GTCGACGCTTTTATGGCTTCTGCATGGACC
1 GTCGGCGCTTCTGCGGCTTCTGCATGGACA
* *
47171025 GTCGGCGTTTCTGAGGCTTCT
1 GTCGGCGCTTCTGCGGCTTCT
47171046 AAGAGTTCTC
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 120 1.00
ACGTcount: A:0.09, C:0.27, G:0.33, T:0.30
Consensus pattern (30 bp):
GTCGGCGCTTCTGCGGCTTCTGCATGGACA
Found at i:47171802 original size:155 final size:152
Alignment explanation
Indices: 47171604--47172192 Score: 810
Period size: 155 Copynumber: 3.8 Consensus size: 152
47171594 TTTTTTATTG
* * * *
47171604 AAAGTAATAAAAATCGAAAAAAAAATATGAACAAATGGCCGAAATAAGGGTTTTTTACTAAATTT
1 AAAGTAAT-AAAATTGAGAAAAAAATACGAACAAAAGGCCGAAATAAGGGTTTTTT-CTAAATTT
* * *
47171669 ATTTAAAAAACACAATTAATTAATACATTTCAAATATAATATACTAAAATAATGTAAAATAATAA
64 ATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
47171734 AATTAGAAAATAGTATATTTTTTA
129 AATTAGAAAATAGTATATTTTTTA
*
47171758 AAAGTAATAAAATTAGCAGAAAAAAATACGAACAAAAGGTCGAAATAAGGGTTTTTTACTAAATT
1 AAAGTAATAAAATT-G-AGAAAAAAATACGAACAAAAGGCCGAAATAAGGGTTTTTT-CTAAATT
* * *
47171823 TATTTAAAAAACACAATTAATTAATACATTTCAAACATAATGTGCTAAAATAATGTGAAATAATA
63 TATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
47171888 AAA-TACAAAAATAATATATTTTTATTA
128 AAATTA-GAAAATAGTATA-TTTT-TTA
* * * *
47171915 AAAGTAATAAAATCCG-GAAAAAAATACGAATAAAGGGCCGAAATAAGGGTATTTTT-TTAATTT
1 AAAGTAATAAAAT-TGAGAAAAAAATACGAACAAAAGGCCGAAATAAGGGT-TTTTTCTAAATTT
* *
47171978 ATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
64 ATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
47172043 AATTAGAAAATAGTAT-TTTTTT-
129 AATTAGAAAATAGTATATTTTTTA
* * * * *
47172065 AAAGTAATAAACTCTGGGAAAAAAATATGAACAAAAGGTCGAAATAAGGGTTTTTTTTAAATTTA
1 AAAGTAATAAAAT-TGAGAAAAAAATACGAACAAAAGGCCGAAATAAGGGTTTTTTCTAAATTTA
* *
47172130 TTTAAAAAACACAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATA
65 TTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
47172193 TATATTTATT
Statistics
Matches: 392, Mismatches: 33, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
150 19 0.05
151 99 0.25
152 4 0.01
153 5 0.01
154 88 0.22
155 151 0.39
156 9 0.02
157 17 0.04
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (152 bp):
AAAGTAATAAAATTGAGAAAAAAATACGAACAAAAGGCCGAAATAAGGGTTTTTTCTAAATTTAT
TTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
TTAGAAAATAGTATATTTTTTA
Found at i:47172284 original size:135 final size:136
Alignment explanation
Indices: 47172084--47172327 Score: 411
Period size: 135 Copynumber: 1.8 Consensus size: 136
47172074 AACTCTGGGA
* * *
47172084 AAAAAATATGAACAAAAGGTCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACAGTAAAT
1 AAAAAATACGAACAAAAGGTCGAAATAAAGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
* *
47172149 TAATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATATATATTTATTGAAAATAATAA
66 TAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATATATATTTATTGAAAATAATAA
47172214 AATCTG
131 AATCTG
*
47172220 AAAAAATACGAACAAAAGG-CTGAAATAAAGGTTTTTTTT-AATTTATTTAAATAACACACTAAA
1 AAAAAATACGAACAAAAGGTC-GAAATAAAGGTTTTTTTTAAATTTATTTAAAAAACACACTAAA
47172283 TTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATA
65 TTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATA
47172328 AAATTAGACA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
135 66 0.65
136 35 0.35
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (136 bp):
AAAAAATACGAACAAAAGGTCGAAATAAAGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
TAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATATATATTTATTGAAAATAATAA
AATCTG
Found at i:47173733 original size:338 final size:340
Alignment explanation
Indices: 47173115--47173793 Score: 1292
Period size: 338 Copynumber: 2.0 Consensus size: 340
47173105 TTACAAAAAA
* *
47173115 AAAATCACACTCTTTAAAATTGTTAAATTAAAATATTATTTTTTATAATTGGCGAAAAGGATTGA
1 AAAATCACACTCTTTAAAATTATTAAATTAAAATATTATTTTTTATAATTGACGAAAAGGATTGA
*
47173180 GGTTGCTTGAGATTAAATCGAAACTCTTATATCTACAATATAATTTTTTTGTCGCTCAACTAAAA
66 GGTTGCTTGAGATTAAATCGAAACACTTATATCTACAATATAATTTTTTTGTCGCTCAACTAAAA
47173245 AATTGTTGGCATAAAAAATTTATATTAAATCTTCAATTAACATAATTTCTAAATTCAATTATTAA
131 AATTGTTGGCATAAAAAATTTATATTAAATCTTCAATTAACATAATTTCTAAATTCAATTATTAA
47173310 GTAACTCCTATCTTTTTCCTTGTTCTTCATATATGTAAAAAATAATTACCATATATGTAATAACT
196 GTAACTCCTATCTTTTTCCTTGTTCTTCATATATGTAAAAAATAATTACCATATATGTAATAACT
47173375 TTTCGGAGACGTTTACATAATGATATATTCCGAAATGAGATCACGATATTTAGATTTCGTCGAAC
261 TTTCGGAGACGTTTACATAATGATATATTCCGAAATGAGATCACGATATTTAGATTTCGTCGAAC
47173440 CATTCGTAATATTAC
326 CATTCGTAATATTAC
47173455 AAAATCACACTCTTTAAAATTATTAAATTAAAATATTATTTTTTATAATTGACGTAAAA-GATTG
1 AAAATCACACTCTTTAAAATTATTAAATTAAAATATTATTTTTTATAATTGACG-AAAAGGATTG
*
47173519 AGGTTGCTTGAGATTAAATCGAAACACTTATATCTACAATATAA-TTTTTT-TCTCTCAACTAAA
65 AGGTTGCTTGAGATTAAATCGAAACACTTATATCTACAATATAATTTTTTTGTCGCTCAACTAAA
47173582 AAATTGTTGGCATAAAAAATTTATATTAAATCTTCAATTAACATAATTTCTAAATTCAATTATTA
130 AAATTGTTGGCATAAAAAATTTATATTAAATCTTCAATTAACATAATTTCTAAATTCAATTATTA
47173647 AGTAACTCCTATCTTTTTCCTTGTTCTTCATATATGTAAAAAATAATTACCATATATGTAATAAC
195 AGTAACTCCTATCTTTTTCCTTGTTCTTCATATATGTAAAAAATAATTACCATATATGTAATAAC
47173712 TTTTCGGAGACGTTTACATAATGATATATTCCGAAATGAGATCACGATATTTAGATTTCGTCGAA
260 TTTTCGGAGACGTTTACATAATGATATATTCCGAAATGAGATCACGATATTTAGATTTCGTCGAA
47173777 CCATTCGTAATATTAC
325 CCATTCGTAATATTAC
47173793 A
1 A
47173794 TTACAACTTC
Statistics
Matches: 334, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
338 224 0.67
339 6 0.02
340 100 0.30
341 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (340 bp):
AAAATCACACTCTTTAAAATTATTAAATTAAAATATTATTTTTTATAATTGACGAAAAGGATTGA
GGTTGCTTGAGATTAAATCGAAACACTTATATCTACAATATAATTTTTTTGTCGCTCAACTAAAA
AATTGTTGGCATAAAAAATTTATATTAAATCTTCAATTAACATAATTTCTAAATTCAATTATTAA
GTAACTCCTATCTTTTTCCTTGTTCTTCATATATGTAAAAAATAATTACCATATATGTAATAACT
TTTCGGAGACGTTTACATAATGATATATTCCGAAATGAGATCACGATATTTAGATTTCGTCGAAC
CATTCGTAATATTAC
Found at i:47176536 original size:19 final size:19
Alignment explanation
Indices: 47176498--47176537 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47176488 ATGAAAAGTT
*
47176498 ATAATAAATTTAGTTTTTA
1 ATAATAAATTTAGTTATTA
47176517 ATAATTAAATTT-GTTATTA
1 ATAA-TAAATTTAGTTATTA
47176536 AT
1 AT
47176538 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAATAAATTTAGTTATTA
Found at i:47177937 original size:6 final size:6
Alignment explanation
Indices: 47177926--47177952 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47177916 AACAGGTATG
47177926 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
47177953 GCTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:47179149 original size:5 final size:5
Alignment explanation
Indices: 47179134--47179194 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
47179124 TTAGCCTATG
47179134 TTTTA -TTTA TTTTA TTTTA TTTTA TTTT- TTATT- TTTTA TTTT- TTATT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TT-TTA
47179181 TTTTA TTTTTA TTT
1 TTTTA -TTTTA TTT
47179195 AAAACTGTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
4 12 0.24
5 33 0.66
6 5 0.10
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:47179165 original size:7 final size:7
Alignment explanation
Indices: 47179139--47179194 Score: 80
Period size: 7 Copynumber: 8.0 Consensus size: 7
47179129 CTATGTTTTA
47179139 TTTATTT
1 TTTATTT
47179146 TATT-TTAT
1 T-TTATT-T
47179154 TTTATTT
1 TTTATTT
47179161 TTTATTT
1 TTTATTT
47179168 TTTATTT
1 TTTATTT
47179175 TTTATTT
1 TTTATTT
47179182 TTTA-TT
1 TTTATTT
47179188 TTTATTT
1 TTTATTT
47179195 AAAACTGTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.13
7 33 0.73
8 6 0.13
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:47189080 original size:150 final size:151
Alignment explanation
Indices: 47188666--47189119 Score: 653
Period size: 154 Copynumber: 3.0 Consensus size: 151
47188656 CAATTGTTCG
* * *
47188666 TATTTCAGTCCTTTGTTCATATTTTTTTTCTTCAGATTTTATTACTTTTAAAAAATATACTATTT
1 TATTTCAGTCCTTTGTTCGTA-TTTTTTTC-TCGGATTTTATTAC-TTTAAAAAATATATTATTT
* * *
47188731 TCTAATTTTATTATTTTAGATTATTTTAGTATATTATGTTTGAAATGTATTAATTTAGTGTATTT
63 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
47188796 TTTAAATAAATTAAAAAAAACCCCT
128 TTTAAATAAATTAAAAAAAA-CCCT
* * *
47188821 TATTTCAATCCTTTATTCGTATTTTTTT-TCGGATTTTATTATTTTCAATAAATATATATTATTT
1 TATTTCAGTCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTT-AA-AAA-ATATATTATTT
* *
47188885 TCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTAATTTATTGTGTT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
*
47188949 TTTTAAATAAATTTAAAAAAACCCT
127 TTTTAAATAAATTAAAAAAAACCCT
* * * *
47188974 TATTTCGGTCTTTTGTTCGTATTTTTTTCCCGGAGTTTATTACTTTAAAAAA-ATATTATTTTCT
1 TATTTCAGTCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAAAATATATTATTTTCT
* *
47189038 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
47189103 AAATAAATTAAAAAAAA
131 AAATAAATTAAAAAAAA
47189120 AAACCCTTAT
Statistics
Matches: 269, Mismatches: 24, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
149 1 0.00
150 87 0.32
151 4 0.01
152 17 0.06
153 33 0.12
154 108 0.40
155 19 0.07
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.53
Consensus pattern (151 bp):
TATTTCAGTCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAAAATATATTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTAAAAAAAACCCT
Found at i:47191309 original size:48 final size:48
Alignment explanation
Indices: 47191249--47191494 Score: 449
Period size: 48 Copynumber: 5.1 Consensus size: 48
47191239 TCTGAGTGGG
* * *
47191249 ATAA-AATACATTCAGGGGCAGAAACAATTAAATTATTTTACACCAGA
1 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
47191296 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
1 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
47191344 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
1 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
47191392 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
1 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
*
47191440 ATAATAATACATTCAGGGACAGAAACATTTAAATTATTTTACACCAGA
1 ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
47191488 ATAATAA
1 ATAATAA
47191495 CTTCATTAAT
Statistics
Matches: 194, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
47 4 0.02
48 190 0.98
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (48 bp):
ATAATAATACATTCAGGGACAGAACCATTTAAATTATTTTACACCAGA
Found at i:47203267 original size:2 final size:2
Alignment explanation
Indices: 47203262--47203296 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47203252 ATATATATAT
47203262 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47203297 ACATCATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47203725 original size:20 final size:21
Alignment explanation
Indices: 47203697--47203740 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47203687 TGGATCAAGG
47203697 AGAAAATCA-CAAATCAGCTA
1 AGAAAATCAGCAAATCAGCTA
* **
47203717 AGAACATCAGTGAATCAGCTA
1 AGAAAATCAGCAAATCAGCTA
47203738 AGA
1 AGA
47203741 TAAGATGGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAAAATCAGCAAATCAGCTA
Found at i:47237300 original size:30 final size:30
Alignment explanation
Indices: 47237250--47237306 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
47237240 GATTTAACAT
* * *
47237250 TTCAGTAATTTAAATTAAAATTTTAAATAA
1 TTCAATAAATTAAATGAAAATTTTAAATAA
47237280 TTCAATAAATTAAATGAAAATTTTAAA
1 TTCAATAAATTAAATGAAAATTTTAAA
47237307 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
TTCAATAAATTAAATGAAAATTTTAAATAA
Found at i:47240890 original size:22 final size:23
Alignment explanation
Indices: 47240851--47240899 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
47240841 AAGCAAAATA
*
47240851 AAATTGCTTTATTAAACA-TTG-
1 AAATTCCTTTATTAAACACTTGT
*
47240872 AAATTCCTTATATTTAACACTTGT
1 AAATTCCTT-TATTAAACACTTGT
47240896 AAAT
1 AAAT
47240900 ATCGAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 3 0.13
24 4 0.17
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (23 bp):
AAATTCCTTTATTAAACACTTGT
Found at i:47245166 original size:16 final size:16
Alignment explanation
Indices: 47245132--47245167 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47245122 ACACCGGCAC
* *
47245132 AAAGCCTGCTAGGCTT
1 AAAGCCTGCTAGACAT
47245148 AAAGCCTGCTAGACAT
1 AAAGCCTGCTAGACAT
47245164 AAAG
1 AAAG
47245168 TCTGAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (16 bp):
AAAGCCTGCTAGACAT
Found at i:47245510 original size:2 final size:2
Alignment explanation
Indices: 47245505--47245533 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47245495 ACACACACAC
47245505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47245534 ACTCATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47248319 original size:31 final size:31
Alignment explanation
Indices: 47248270--47248332 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
47248260 TCTTAAATAA
*
47248270 TTTTAAAGAGTTTTTATTATGATTCAATTAC
1 TTTTAAAGAGTTTTTATTAAGATTCAATTAC
47248301 TTTTGAAAGAG-TTTTATTAAGATTCAATTAC
1 TTTT-AAAGAGTTTTTATTAAGATTCAATTAC
47248332 T
1 T
47248333 CTTATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (31 bp):
TTTTAAAGAGTTTTTATTAAGATTCAATTAC
Found at i:47254086 original size:6 final size:6
Alignment explanation
Indices: 47254072--47254102 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
47254062 CGGAGTTGAT
*
47254072 GTCGCA GTCGGA GTCGGA GTCGGA GTCGGA G
1 GTCGGA GTCGGA GTCGGA GTCGGA GTCGGA G
47254103 AGCCCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (6 bp):
GTCGGA
Found at i:47264393 original size:18 final size:18
Alignment explanation
Indices: 47264367--47264401 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47264357 TTCGGATTGA
* *
47264367 CCATGGCCACCTTATTAG
1 CCATCGCCACCCTATTAG
47264385 CCATCGCCACCCTATTA
1 CCATCGCCACCCTATTA
47264402 TCGACTGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.40, G:0.11, T:0.26
Consensus pattern (18 bp):
CCATCGCCACCCTATTAG
Found at i:47282099 original size:32 final size:32
Alignment explanation
Indices: 47282062--47282138 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 32
47282052 AACTTTTCCG
** *
47282062 GAAAATATTTTCAAAAAATCTGTCAAACAGCA
1 GAAAATATTTTCAAAAAATCAATCAAACACCA
* * *
47282094 GAAAATATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTT-CAAAAAATCAATCAAACACCA
47282127 GAAAATATTTTC
1 GAAAATATTTTC
47282139 CAATAAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 12 0.32
33 26 0.68
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (32 bp):
GAAAATATTTTCAAAAAATCAATCAAACACCA
Found at i:47282194 original size:34 final size:35
Alignment explanation
Indices: 47282128--47282194 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
47282118 CAAACACCAG
47282128 AAAATATTTTCCAATAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAATAAGTCATTTTACAGAAAAGT
*
47282163 AAAATATTTTCCAGA-AA-TCATTTTACGGAAAA
1 AAAATATTTTCCA-ATAAGTCATTTTACAGAAAA
47282195 CATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 14 0.47
35 15 0.50
36 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAATAAGTCATTTTACAGAAAAGT
Found at i:47286769 original size:60 final size:60
Alignment explanation
Indices: 47286699--47286814 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
47286689 AAGACTAATA
* *
47286699 TATATCACAAAAATAGTATACATATTTCCTCCAAGTTTTTCAGTGTGTAAACTTAAAATG
1 TATATCACAAAAACAGTATACATATTTCCTCCAAGTTTATCAGTGTGTAAACTTAAAATG
* * *
47286759 TATATCACAAACACAGTATACATATTTTCTCCGAGTTTATCAGTGTGTAAACTTAA
1 TATATCACAAAAACAGTATACATATTTCCTCCAAGTTTATCAGTGTGTAAACTTAA
47286815 CTATTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (60 bp):
TATATCACAAAAACAGTATACATATTTCCTCCAAGTTTATCAGTGTGTAAACTTAAAATG
Found at i:47289201 original size:19 final size:19
Alignment explanation
Indices: 47289173--47289288 Score: 60
Period size: 21 Copynumber: 5.8 Consensus size: 19
47289163 AGAAACGCCA
*
47289173 ATGAAGATTGTAATTTTAT
1 ATGAATATTGTAATTTTAT
47289192 ATGAATATTGTAATTACTTTAT
1 ATGAATATTGTAA-T--TTTAT
*
47289214 AATTAA-ATTTGT-ATTTATAGTT
1 -ATGAATA-TTGTAATTT-TA--T
* * * *
47289236 TTGCAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTAT
47289253 ATGAATATTGTAATTTTTTAT
1 ATGAATATTGTAA--TTTTAT
47289274 ATGAATATTGTAATT
1 ATGAATATTGTAATT
47289289 ACTTTATAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 26
0.66 0.10 0.24
Matches are distributed among these distances:
17 5 0.07
18 3 0.04
19 18 0.25
20 10 0.14
21 21 0.29
22 8 0.11
23 8 0.11
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTAT
Found at i:47289276 original size:21 final size:21
Alignment explanation
Indices: 47289247--47289288 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47289237 TGCATTAGTA
*
47289247 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
47289268 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
47289289 ACTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:47289308 original size:82 final size:81
Alignment explanation
Indices: 47289173--47289348 Score: 327
Period size: 82 Copynumber: 2.2 Consensus size: 81
47289163 AGAAACGCCA
*
47289173 ATGAAGATTGTAA-TTTTATATGAATATTGTAATTACTTTATAATTAAATTTGTATTTATAGTTT
1 ATGAATATTGTAATTTTTATATGAATATTGTAATTACTTTATAATTAAATTTGTATTTATAGTTT
47289237 TGCATTAGTATTTTGT
66 TGCATTAGTATTTTGT
47289253 ATGAATATTGTAATTTTTTATATGAATATTGTAATTACTTTATAATTAAATTTGTATTTATAGTT
1 ATGAATATTGTAA-TTTTTATATGAATATTGTAATTACTTTATAATTAAATTTGTATTTATAGTT
47289318 TTGCATTAGTATTTTGT
65 TTGCATTAGTATTTTGT
47289335 ATGAATATTGTAAT
1 ATGAATATTGTAAT
47289349 ATTATAATTT
Statistics
Matches: 93, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
80 12 0.13
81 1 0.01
82 80 0.86
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (81 bp):
ATGAATATTGTAATTTTTATATGAATATTGTAATTACTTTATAATTAAATTTGTATTTATAGTTT
TGCATTAGTATTTTGT
Found at i:47289351 original size:8 final size:8
Alignment explanation
Indices: 47289338--47289443 Score: 59
Period size: 8 Copynumber: 12.1 Consensus size: 8
47289328 ATTTTGTATG
47289338 AATATTGT
1 AATATTGT
*
47289346 AATATTAT
1 AATATTGT
*
47289354 AATTTTGTAT
1 AATATTG--T
47289364 GAATATTGT
1 -AATATTGT
*
47289373 AATATTAT
1 AATATTGT
*
47289381 AATTTTGTAT
1 AATATTG--T
47289391 GAATATTGT
1 -AATATTGT
*
47289400 AATATTAT
1 AATATTGT
*
47289408 AATTTTGTAT
1 AATATTG--T
47289418 GAATATTGT
1 -AATATTGT
*
47289427 AATATTAT
1 AATATTGT
*
47289435 AATTTTGT
1 AATATTGT
47289443 A
1 A
47289444 TGAATATTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
8 50 0.68
9 3 0.04
10 3 0.04
11 18 0.24
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
AATATTGT
Found at i:47289352 original size:27 final size:27
Alignment explanation
Indices: 47289328--47289456 Score: 258
Period size: 27 Copynumber: 4.8 Consensus size: 27
47289318 TTGCATTAGT
47289328 ATTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATATTATA
47289355 ATTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATATTATA
47289382 ATTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATATTATA
47289409 ATTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATATTATA
47289436 ATTTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAAT
47289457 TATTTTATAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATATTATA
Found at i:47289370 original size:19 final size:18
Alignment explanation
Indices: 47289345--47289429 Score: 52
Period size: 19 Copynumber: 4.7 Consensus size: 18
47289335 ATGAATATTG
47289345 TAATATTATAATTTTGTA
1 TAATATTATAATTTTGTA
* *
47289363 TGAATATTGTAA-TAT-TA
1 T-AATATTATAATTTTGTA
* *
47289380 TAATTTTGTATGAATATTG--
1 TAA-TAT-TAT-AATTTTGTA
47289399 TAATATTATAATTTTGTA
1 TAATATTATAATTTTGTA
*
47289417 TGAATATTGTAAT
1 T-AATATTATAAT
47289430 ATTATAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 17
0.65 0.12 0.23
Matches are distributed among these distances:
16 8 0.16
17 8 0.16
18 8 0.16
19 24 0.49
20 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (18 bp):
TAATATTATAATTTTGTA
Found at i:47289451 original size:19 final size:18
Alignment explanation
Indices: 47289372--47289467 Score: 56
Period size: 19 Copynumber: 5.2 Consensus size: 18
47289362 ATGAATATTG
47289372 TAATATTATAATTTTGTA
1 TAATATTATAATTTTGTA
* *
47289390 TGAATATTGTAA-TAT-TA
1 T-AATATTATAATTTTGTA
* *
47289407 TAATTTTGTATGAATATTG--
1 TAA-TAT-TAT-AATTTTGTA
47289426 TAATATTATAATTTTGTA
1 TAATATTATAATTTTGTA
* *
47289444 TGAATATTGTAATTATTTTA
1 T-AATATTATAATT-TTGTA
47289464 TAAT
1 TAAT
47289468 TAATTTGTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
16 8 0.14
17 8 0.14
18 8 0.14
19 28 0.48
20 6 0.10
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAATATTATAATTTTGTA
Found at i:47289624 original size:16 final size:15
Alignment explanation
Indices: 47289587--47289629 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
47289577 ATAAATACAA
* *
47289587 AATTAAATAAAATTT
1 AATTATATAAAAGTT
47289602 AATTATATAAAAGTT
1 AATTATATAAAAGTT
47289617 ACATTATATAAAA
1 A-ATTATATAAAA
47289630 ATTCAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATTATATAAAAGTT
Found at i:47293344 original size:116 final size:116
Alignment explanation
Indices: 47293140--47293385 Score: 307
Period size: 116 Copynumber: 2.1 Consensus size: 116
47293130 CCAACACTTG
* * * * * * *
47293140 ATGAGTCTTGGGTGTTATGCCGCATTTTGCTATATCGATGCTAATACCTAAAAATGGTTGATCGC
1 ATGAGTCATGGGTGTTATCCCACATTTTGCAATATCGATGCTAATACCTAAAAATGGCTCATCAC
* * * *
47293205 CGAATTATATTCCTTTAAGTCATTGAACTAGGTCCTACAAGCCTATTTCCC
66 CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGCCTATTTCCC
* * * * *
47293256 ATGAGTCATGGGTTTTATCCCATATTTTGCAATGTTGATGCTAATACCTAACAATGGCTCATCAC
1 ATGAGTCATGGGTGTTATCCCACATTTTGCAATATCGATGCTAATACCTAAAAATGGCTCATCAC
47293321 CAAATGT-CATT-CTTGTAAGTCATTGAACCAAGTCCTACAAGCCTATTTCCC
66 CAAAT-TACATTCCTT-TAAGTCATTGAACCAAGTCCTACAAGCCTATTTCCC
*
47293372 ATGAGCCATGGGTG
1 ATGAGTCATGGGTG
47293386 CTAAGCCACA
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
115 3 0.03
116 106 0.96
117 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (116 bp):
ATGAGTCATGGGTGTTATCCCACATTTTGCAATATCGATGCTAATACCTAAAAATGGCTCATCAC
CAAATTACATTCCTTTAAGTCATTGAACCAAGTCCTACAAGCCTATTTCCC
Found at i:47293679 original size:116 final size:113
Alignment explanation
Indices: 47293222--47293739 Score: 403
Period size: 116 Copynumber: 4.5 Consensus size: 113
47293212 TATTCCTTTA
* * * * * *
47293222 AGTCATTGAACTAGGTCCTACAAGCCTATTTCCCATGAGTCATGGGTTTTATCCCATATTTTGCA
1 AGTCATTGAACTAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCATATTGTGCA
* ** * **
47293287 ATGTTGATGCTAATACCTAACAATGGCTCATCACCAAATGTCATTCTTGT
66 AGGTCAATGCTAATACCTATCAATGGCTCATCACCAAAT-TCATTC-CCT
* * * * * *
47293337 AAGTCATTGAACCAAGTCCTACAAGCCTATTTCCCATGAGCCATGGGTGCTAAGCCACATAGTGC
1 -AGTCATTGAACTAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCATATTGTGC
* * * * * ** *
47293402 GAGGTCAATACTAATGCCCA-CTAAT-GTTCATTGCCAACATTTATTCCCT
65 AAGGTCAATGCTAATACCTATC-AATGGCTCATCACCAA-ATTCATTCCCT
* * * *** *
47293451 AGCTCATTGAACTAAGTCCTATAAGCCCATTTCCAATGAGTCATGGGTGTTATGCCATACCATTC
1 AG-TCATTGAACTAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCATATTGTGC
* * ** *
47293516 AAGGTCAATGCTAATAGCTATCAATGGTTCATTGCCAGAATACATTCCCAT
65 AAGGTCAATGCTAATACCTATCAATGGCTCATCACCA-AATTCATTCCC-T
* * * * *
47293567 AGTTATTGTACTTAAGTCCTATGAGCCTGTTTCCCATAAGCCATGGGTGTTATGCCATATTGTGC
1 AGTCATTGAAC-TAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCATATTGTGC
* * * *
47293632 AAGGTCAATGCTAATACCTATCAATGCCTAATCACCAAATTATATTCCTACG
65 AAGGTCAATGCTAATACCTATCAATGGCTCATCACCAAATT-CATTCC--CT
* * * * * ** * *
47293684 AGTTATTGAACTAAAT-CTACAAGCTTATTTCCAATGAGTAACGGGTGTAATGCCAT
1 AGTCATTGAACTAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCAT
47293740 TCCAGAGTAC
Statistics
Matches: 316, Mismatches: 75, Indels: 23
0.76 0.18 0.06
Matches are distributed among these distances:
113 2 0.01
114 69 0.22
115 75 0.24
116 159 0.50
117 10 0.03
118 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (113 bp):
AGTCATTGAACTAAGTCCTATAAGCCTATTTCCCATGAGCCATGGGTGTTATGCCATATTGTGCA
AGGTCAATGCTAATACCTATCAATGGCTCATCACCAAATTCATTCCCT
Found at i:47305755 original size:111 final size:111
Alignment explanation
Indices: 47305561--47306115 Score: 1074
Period size: 111 Copynumber: 5.0 Consensus size: 111
47305551 CAATACCATG
* *
47305561 CATGTAGTTGTATTGTTGTATAAAAGTTTGTTAATATGCACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
47305626 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
* *
47305672 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATCTAAAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
47305737 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
47305783 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
47305848 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
47305894 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
47305959 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
47306005 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
47306070 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
47306116 TACTTCATCA
Statistics
Matches: 438, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 438 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (111 bp):
CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
Found at i:47306678 original size:20 final size:20
Alignment explanation
Indices: 47306653--47306692 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47306643 AATATTTTCC
*
47306653 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
47306673 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
47306693 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:47306698 original size:34 final size:35
Alignment explanation
Indices: 47306641--47306707 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
47306631 CAAACACCAG
*
47306641 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
47306676 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47306708 CATTCTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:47314708 original size:25 final size:25
Alignment explanation
Indices: 47314674--47314724 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47314664 ATACGTAGAA
47314674 AAACATAGAAAATTTAACCATACCC
1 AAACATAGAAAATTTAACCATACCC
47314699 AAACATAGAAAATTTAACCATACCC
1 AAACATAGAAAATTTAACCATACCC
47314724 A
1 A
47314725 TGTCGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.20
Consensus pattern (25 bp):
AAACATAGAAAATTTAACCATACCC
Found at i:47315949 original size:24 final size:23
Alignment explanation
Indices: 47315901--47315950 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
47315891 CTTAATTGCC
47315901 TTTGCTAGAAAATATAACTACTTT
1 TTTGCTAGAAAATAT-ACTACTTT
* *
47315925 TTTGCTAGAAAATCT-CTACGTT
1 TTTGCTAGAAAATATACTACTTT
47315947 TTTG
1 TTTG
47315951 TGGTGCAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
24 14 0.58
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (23 bp):
TTTGCTAGAAAATATACTACTTT
Found at i:47337580 original size:28 final size:28
Alignment explanation
Indices: 47337547--47337602 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47337537 CTTATATTGC
47337547 TCAGTATGGTCCTCTGATATTTTATAAA
1 TCAGTATGGTCCTCTGATATTTTATAAA
47337575 TCAGTATGGTCCTCTGATATTTTATAAA
1 TCAGTATGGTCCTCTGATATTTTATAAA
47337603 GTTCTTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (28 bp):
TCAGTATGGTCCTCTGATATTTTATAAA
Found at i:47338891 original size:21 final size:21
Alignment explanation
Indices: 47338847--47338891 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47338837 AAAAACCACA
*
47338847 AAAAAATATAAAAATCTATTT
1 AAAAAATATAAAAATCTATAT
*
47338868 AAAAAATATTAAAAT-TATGAT
1 AAAAAATATAAAAATCTAT-AT
47338889 AAA
1 AAA
47338892 TATTCGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAAATATAAAAATCTATAT
Found at i:47339255 original size:19 final size:19
Alignment explanation
Indices: 47339220--47339266 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
47339210 TTAGTGAGGG
**
47339220 TTATTTT-AATTTTGATTA
1 TTATTTTAAATTAAGATTA
47339238 TTATTTTAAATTAAGATTA
1 TTATTTTAAATTAAGATTA
*
47339257 AT-TTTTAAAT
1 TTATTTTAAAT
47339267 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTATTTTAAATTAAGATTA
Found at i:47366749 original size:21 final size:23
Alignment explanation
Indices: 47366724--47366766 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
47366714 AATTAAAAAA
*
47366724 AAGTTAATATAT-T-ATAATTAT
1 AAGTTAAAATATGTAATAATTAT
47366745 AAGTTAAAATATGTAATAATTA
1 AAGTTAAAATATGTAATAATTA
47366767 CTTAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
AAGTTAAAATATGTAATAATTAT
Found at i:47372322 original size:16 final size:16
Alignment explanation
Indices: 47372301--47372357 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
47372291 TTTGGTTCGC
*
47372301 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
47372317 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
47372333 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
47372349 TGTAATGGA
1 TGTAATGGA
47372358 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:47383674 original size:21 final size:21
Alignment explanation
Indices: 47383650--47383689 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47383640 TTTTAAATTT
47383650 AAAAAATAT-TTATAAAAATCC
1 AAAAAATATATT-TAAAAATCC
*
47383671 AAAATATATATTTAAAAAT
1 AAAAAATATATTTAAAAAT
47383690 ATATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATATATTTAAAAATCC
Done.