Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 125 of 352
Found at i:40041237 original size:27 final size:28
Alignment explanation
Indices: 40041207--40041342 Score: 129
Period size: 27 Copynumber: 5.0 Consensus size: 28
40041197 ATTACCAAAG
* * * *
40041207 TACCCCTGAA-TTATAGAATTGCCCTTT
1 TACCCCTCAATTTATAAAATTACCATTT
40041234 TA-CCCTCAATTTATAAAATTACCATTT
1 TACCCCTCAATTTATAAAATTACCATTT
* * *
40041261 TA-CCCTCGATTTACAAAATTACCGTTT
1 TACCCCTCAATTTATAAAATTACCATTT
* * * * *
40041288 TA-CTCTCGATTTACAAAATTATCGTTT
1 TACCCCTCAATTTATAAAATTACCATTT
40041315 TA-CCCTCAATTTATAAAATTACCATTT
1 TACCCCTCAATTTATAAAATTACCATTT
40041342 T
1 T
40041343 GCCCTCGATT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 6 0.06
27 88 0.94
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (28 bp):
TACCCCTCAATTTATAAAATTACCATTT
Found at i:40041265 original size:54 final size:53
Alignment explanation
Indices: 40041210--40041363 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 53
40041200 ACCAAAGTAC
* * * *
40041210 CCCTGAATTATAGAATTGCCCTTTTACCCTCAATTTATAAAATTACCATTTTA
1 CCCTGAATTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTA
* * * * * * *
40041263 CCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTACAAAATTATCGTTTTA
1 CCCT-GAATTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTA
* * * *
40041317 CCCTCAATTTATAAAATTACCATTTTGCCCTCGATTTACAATATTAC
1 CCCTGAA-TTATAAAATTACCATTTTACCCTCAATTTACAAAATTAC
40041364 TGAAATACCC
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (53 bp):
CCCTGAATTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTA
Found at i:40041265 original size:81 final size:81
Alignment explanation
Indices: 40041180--40041363 Score: 181
Period size: 81 Copynumber: 2.3 Consensus size: 81
40041170 ATTATTAAAA
** * * *
40041180 TACCCTCAACTTGTAAAATTACCAAAGTACCC-CTGAATTATAGAATTGCCCTTTTACCCTCAAT
1 TACCCTCAACTTACAAAATTACCAAAGTACCCTC-GAATTACAAAATTACCCTTTTACCCTCAAT
40041244 TTATAAAATTACCATTT
65 TTATAAAATTACCATTT
* * **** * * * *
40041261 TACCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTACAAAATTATCGTTTTACCCTCAATT
1 TACCCTCAACTTACAAAATTACCAAAGTACCCTCGAATTACAAAATTACCCTTTTACCCTCAATT
40041326 TATAAAATTACCATTT
66 TATAAAATTACCATTT
* * * *
40041342 TGCCCTCGATTTACAATATTAC
1 TACCCTCAACTTACAAAATTAC
40041364 TGAAATACCC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 84 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.38
Consensus pattern (81 bp):
TACCCTCAACTTACAAAATTACCAAAGTACCCTCGAATTACAAAATTACCCTTTTACCCTCAATT
TATAAAATTACCATTT
Found at i:40041347 original size:27 final size:27
Alignment explanation
Indices: 40041231--40041363 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
40041221 AGAATTGCCC
* *
40041231 TTTTACCCTCAATTTATAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACCA
*
40041258 TTTTACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCGATTTACAAAATTACCA
* * *
40041285 TTTTACTCTCGATTTACAAAATTATCG
1 TTTTACCCTCGATTTACAAAATTACCA
* *
40041312 TTTTACCCTCAATTTATAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACCA
* *
40041339 TTTTGCCCTCGATTTACAATATTAC
1 TTTTACCCTCGATTTACAAAATTAC
40041364 TGAAATACCC
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACCA
Found at i:40041389 original size:27 final size:27
Alignment explanation
Indices: 40041359--40041588 Score: 214
Period size: 27 Copynumber: 8.5 Consensus size: 27
40041349 GATTTACAAT
*
40041359 ATTACTGAAATACCCATGTAAGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGA
*
40041386 ATTACTGAAATACCCATGTAAGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGA
* *
40041413 ACTACCGAAATACCCATGTAGGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGA
* *
40041440 ATTACCGGAATA-CCA-CTACAGGGTAGA
1 ATTACCGAAATACCCATGTA-A-GGTAGA
* * *
40041467 ATTACCGAAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGA
* * * * *
40041494 ATTACTGGAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGA
*
40041521 ATTACCGAAATACCCCTGT-AGGATAGA
1 ATTACCGAAATACCCATGTAAGG-TAGA
** * * * *
40041548 ATTACTAAAATACCCCTATAGGGTGGA
1 ATTACCGAAATACCCATGTAAGGTAGA
*
40041575 ATTACCGAGATACC
1 ATTACCGAAATACC
40041589 TTGTGGGGTA
Statistics
Matches: 172, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.01
26 5 0.03
27 159 0.92
28 4 0.02
29 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
ATTACCGAAATACCCATGTAAGGTAGA
Found at i:40041423 original size:54 final size:54
Alignment explanation
Indices: 40041359--40041588 Score: 248
Period size: 54 Copynumber: 4.3 Consensus size: 54
40041349 GATTTACAAT
* *
40041359 ATTACTGAAATACCCATGTAAGGTAGAATTACTGAAATACCCATGTAAGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCATATAAGGTAGA
* * * * * *
40041413 ACTACCGAAATACCCATGTAGGGTAGAATTACCGGAATA-CCACTACAGGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCA-TATAAGGTAGA
* * * * * *
40041467 ATTACCGAAATACCCCTATAGGGTAGAATTACTGGAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCATATAAGGTAGA
* * * * *
40041521 ATTACCGAAATACCCCTGT-AGGATAGAATTACTAAAATACCCCTATAGGGTGGA
1 ATTACCGAAATACCCATGTAAGG-TAGAATTACTGAAATACCCATATAAGGTAGA
*
40041575 ATTACCGAGATACC
1 ATTACCGAAATACC
40041589 TTGTGGGGTA
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
53 5 0.03
54 146 0.95
55 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (54 bp):
ATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCATATAAGGTAGA
Found at i:40041468 original size:81 final size:81
Alignment explanation
Indices: 40041380--40041606 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 81
40041370 ACCCATGTAA
* * * *
40041380 GGTAGAATTACTGAAATACCCATGTAAGGTAGAACTACCGAAATACCCATGTAGGGTAGAATTAC
1 GGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAATTAC
*
40041445 CGGAATACCACTACAG
66 CGAAATACCACTACAG
* * * * *
40041461 GGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGGAATACCCCTATAGGGTAGAATTAC
1 GGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAATTAC
* **
40041526 CGAAATACCCCTGTAG
66 CGAAATACCACTACAG
* * * * * * *
40041542 GATAGAATTACTAAAATACCCCTATAGGGTGGAATTACCGAGATA-CCTTGTGGGGTAAAATTAC
1 GGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAATTAC
40041606 C
66 C
40041607 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 16 0.13
81 106 0.87
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (81 bp):
GGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAATTAC
CGAAATACCACTACAG
Found at i:40042084 original size:22 final size:22
Alignment explanation
Indices: 40042032--40042087 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
40042022 TTAAAGCCTT
* * *
40042032 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTATGCCAAC
*
40042054 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTATGCCAAC
40042076 CTGATTATGGCT
1 CTGATTATGGCT
40042088 GTGTTCCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTCTATGCCAAC
Found at i:40042096 original size:22 final size:22
Alignment explanation
Indices: 40042032--40042096 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
40042022 TTAAAGCCTT
*
40042032 CTGATTATGGCTTTGTGT-CAAC
1 CTGATTATGGCTCTGT-TCCAAC
* * *
40042054 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTTCCAAC
*
40042076 CTGATTATGGCTGTGTTCCAA
1 CTGATTATGGCTCTGTTCCAA
40042097 ACGTTTTTGC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTTCCAAC
Found at i:40042275 original size:25 final size:26
Alignment explanation
Indices: 40042247--40042302 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
40042237 TGCCACGTAT
* *
40042247 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
*
40042272 TCTGTTCTAGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
40042298 TCTGT
1 TCTGT
40042303 ATCTGGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:40042291 original size:26 final size:27
Alignment explanation
Indices: 40042254--40042328 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
40042244 TATTCTGTTA
* *
40042254 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATATCTGTATCT
40042280 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* * * *
40042307 GGTGACTCTGTCGCAATATCTG
1 AGTGGCTCTGCCACAATATCTG
40042329 ATAACTGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 21 0.50
27 21 0.50
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:40042323 original size:27 final size:26
Alignment explanation
Indices: 40042262--40042328 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
40042252 TAAGTGGCTT
* *
40042262 TGCCACATTATCTGTTCTAGTGGCTC
1 TGCCACAATATCTGTTCTAGTGACTC
*
40042288 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTAGTGACTC
* *
40042315 TGTCGCAATATCTG
1 TGCCACAATATCTG
40042329 ATAACTGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTAGTGACTC
Found at i:40042430 original size:6 final size:6
Alignment explanation
Indices: 40042415--40042511 Score: 90
Period size: 6 Copynumber: 15.8 Consensus size: 6
40042405 ATTCTGTTAC
* * *
40042415 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
** *
40042464 CTGATT CTGACAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
40042512 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
5 3 0.04
6 63 0.85
7 7 0.09
8 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:40042442 original size:31 final size:31
Alignment explanation
Indices: 40042405--40042527 Score: 151
Period size: 31 Copynumber: 4.0 Consensus size: 31
40042395 TTGATTTTTT
*
40042405 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
40042436 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
** * *
40042467 ATTCTGACACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
40042498 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
40042528 TAATGGGTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
30 16 0.20
31 62 0.78
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:40044470 original size:27 final size:27
Alignment explanation
Indices: 40044440--40044590 Score: 200
Period size: 27 Copynumber: 5.6 Consensus size: 27
40044430 TTAGTTTACC
*
40044440 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
* * *
40044467 AAATTA-CTAAAATACCCTTGGTTTATA
1 AAATTATC-AAAATACCCCTAGTTTGTA
40044494 AAATTA-CGAAAATACCCCTAGTTTGT-
1 AAATTATC-AAAATACCCCTAGTTTGTA
*
40044520 AAATTTTCCAAAATACCCCTAGTTTGTA
1 AAATTAT-CAAAATACCCCTAGTTTGTA
40044548 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
*
40044575 AAATTACCAAAATACC
1 AAATTATCAAAATACC
40044591 ACTGATTTGT
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.05
27 98 0.88
28 7 0.06
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTAGTTTGTA
Found at i:40044498 original size:54 final size:54
Alignment explanation
Indices: 40044431--40044590 Score: 223
Period size: 54 Copynumber: 3.0 Consensus size: 54
40044421 TAGAATACTT
** * * *
40044431 TAGTTTACCAAATTATCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
* * *
40044485 TGGTTTATAAAATTA-CGAAAATACCCCTAGTTTGTAAATTTTCCAAAATACCCC
1 TAGTTTATAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
*
40044539 TAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
1 TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
40044591 ACTGATTTGT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 90 0.98
55 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
Found at i:40044599 original size:27 final size:26
Alignment explanation
Indices: 40044440--40044718 Score: 159
Period size: 27 Copynumber: 10.3 Consensus size: 26
40044430 TTAGTTTACC
* *
40044440 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
* * *
40044467 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGATTTGTA
*
40044494 AAATTACGAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
* *
40044521 AATTTTCCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
*
40044548 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
*
40044575 AAATTACCAAAATACCACTGATTTGTG
1 AAATTACCAAAATACC-CTGATTTGTA
* ** **
40044602 AAATCACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
*** **
40044629 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
*** * *
40044656 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
* * *
40044683 AAATTACCAAAGTACCACCGATTTATA
1 AAATTACCAAAATACC-CTGATTTGTA
*
40044710 GAATTACCA
1 AAATTACCA
40044719 TTTTACCCTT
Statistics
Matches: 212, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.03
27 200 0.94
28 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGATTTGTA
Found at i:40044600 original size:81 final size:82
Alignment explanation
Indices: 40044447--40044605 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 82
40044437 ACCAAATTAT
* * * * *
40044447 CAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACGAAAATACCCC
1 CAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCAC
40044512 TAGTTTGT-AAATTTTC
66 TAGTTTGTGAAATTTTC
*
40044528 CAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCA
1 CAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTAGTTTATAAAATTACCAAAATACCA
40044592 CT-GATTTGTGAAAT
65 CTAG-TTTGTGAAAT
40044606 CACTGAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 2 0.03
81 63 0.91
82 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (82 bp):
CAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCAC
TAGTTTGTGAAATTTTC
Found at i:40044615 original size:54 final size:53
Alignment explanation
Indices: 40044449--40044716 Score: 195
Period size: 54 Copynumber: 5.0 Consensus size: 53
40044439 CAAATTATCA
* * * *
40044449 AAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTAC-G
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACCC-TGATTTGTAAAATTACTG
* * *
40044502 AAAATACCCCTAGTTTGTAAATTTTCCAAAATACCCCT-AGTTTGTAAAATTA-TCA
1 -AAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTGA-TTTGTAAAATTACT-G
* *
40044557 AAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGATTTGTGAAATCACTG
1 AAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTGATTTGTAAAATTACTG
* ** *** ** *
40044611 AAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACCTGTAAAATTATTG
1 AAATACCCCTAG-TTTGTAAAATTACCAAAATACCCT-GATTTGTAAAATTACTG
** * * * *
40044665 AAATA-CCCTCAACTTGTAAAATTACCAAAGTACCACCGATTTATAGAATTAC
1 AAATACCCCT-AGTTTGTAAAATTACCAAAATACC-CTGATTTGTAAAATTAC
40044717 CATTTTACCC
Statistics
Matches: 167, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
53 9 0.05
54 152 0.91
55 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATACCCCTAGTTTGTAAAATTACCAAAATACCCTGATTTGTAAAATTACTG
Found at i:40044725 original size:27 final size:27
Alignment explanation
Indices: 40044701--40044873 Score: 229
Period size: 27 Copynumber: 6.4 Consensus size: 27
40044691 AAAGTACCAC
* *
40044701 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
**
40044728 TTATTTACAAAATTACCATTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
* *
40044755 TGATTTACAAAATTACTATTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
* * *
40044782 CGATTAATAAAATTACCGTTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
* *
40044809 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
* *
40044836 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAAAATTACCATTTTACCCT
40044863 CGATTTACAAA
1 CGATTTACAAA
40044874 TTTATTGAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (27 bp):
CGATTTACAAAATTACCATTTTACCCT
Found at i:40044767 original size:81 final size:81
Alignment explanation
Indices: 40044682--40044867 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
40044672 CTCAACTTGT
* * **
40044682 AAAATTACCAAAGTACCAC-CGATTTATAGAATTACCATTTTACCCTTTATTTACAAAATTACCA
1 AAAATTACCAAAGTACC-CTCGATTAATAAAATTACCATTTTACCCTCGATTTACAAAATTACCA
*
40044746 TTTTACCCTTGATTTAC
65 TTTTACCCTCGATTTAC
* *** * * *
40044763 AAAATTACTATTTTACCCTCGATTAATAAAATTACCGTTTTACCCTCGATTTACAGAATTATCAT
1 AAAATTACCAAAGTACCCTCGATTAATAAAATTACCATTTTACCCTCGATTTACAAAATTACCAT
*
40044828 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* ***
40044844 AGAATTACCATTTTACCCTCGATT
1 AAAATTACCAAAGTACCCTCGATT
40044868 TACAAATTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 88 0.99
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAGTACCCTCGATTAATAAAATTACCATTTTACCCTCGATTTACAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:40044911 original size:27 final size:27
Alignment explanation
Indices: 40044881--40045040 Score: 196
Period size: 27 Copynumber: 5.9 Consensus size: 27
40044871 AAATTTATTG
* *
40044881 AAATACCCATGTAAGGTAAAATTACCA
1 AAATACCCCTGTAAGGTAGAATTACCA
* *
40044908 AAATACCCCTGTAGGGTAGAATTATCA
1 AAATACCCCTGTAAGGTAGAATTACCA
* *
40044935 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAAGGTAGAATTACCA
* * *
40044962 GAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAAGGTAGAATTACCA
*
40044989 AAATACCCCTGT-AGGATAGAATTACTA
1 AAATACCCCTGTAAGG-TAGAATTACCA
* *
40045016 AAATACCCCAGTAAGGTGGAATTAC
1 AAATACCCCTGTAAGGTAGAATTAC
40045041 AGAGATACCT
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 111 0.96
28 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAAGGTAGAATTACCA
Found at i:40045049 original size:81 final size:81
Alignment explanation
Indices: 40044882--40045068 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 81
40044872 AATTTATTGA
* * * *
40044882 AATACCCATGTAAGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGT
1 AATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGATAGAATTATCAAAATACCCCAGT
* *
40044947 AGGGTAGAATTACCGG
66 AAGGTAGAATTACAGG
*
40044963 AATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAGAATTA-CTAAAATACCCCAG
1 AATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGATAGAATTATC-AAAATACCCCAG
*
40045027 TAAGGTGGAATTACA-G
65 TAAGGTAGAATTACAGG
* *
40045043 AGATA-CCTTATGGGGTAAAATTACCA
1 A-ATACCCTTGTAGGGTAAAATTACCA
40045069 TTTTGCCCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 21 0.23
81 72 0.77
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
AATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGATAGAATTATCAAAATACCCCAGT
AAGGTAGAATTACAGG
Found at i:40045526 original size:22 final size:22
Alignment explanation
Indices: 40045496--40045557 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
40045486 AAGCCTTCTG
*
40045496 ATTATGGCTCTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
40045518 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
40045540 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
40045558 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:40045730 original size:25 final size:26
Alignment explanation
Indices: 40045698--40045762 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
40045688 GATGGCTTTG
*
40045698 TGCCACA-TATTCTGTT-AAGTGGCTT
1 TGCCACATTA-TCTGTTCAAGTGGCTC
*
40045723 TGCCACATTATCTGTTCTAGTGGCTC
1 TGCCACATTATCTGTTCAAGTGGCTC
*
40045749 TGCCACAATATCTG
1 TGCCACATTATCTG
40045763 ATAACTGAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.37
26 22 0.63
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TGCCACATTATCTGTTCAAGTGGCTC
Found at i:40045937 original size:6 final size:6
Alignment explanation
Indices: 40045922--40046018 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
40045912 ATTCTGTGAC
* * *
40045922 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
40045971 CTGATT CTG-TCAC CTAATT CTGATT TTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
40046019 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40045994 original size:37 final size:31
Alignment explanation
Indices: 40045899--40046034 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
40045889 TTGCATTCAC
* *
40045899 ATTCTGATTTTTGATTCTGTGACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
40045931 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
40045962 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
40045993 ATTTTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
40046023 TTTCTTATTCTG
1 ATTCTGATTCTG
40046035 TTATGGGTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
30 15 0.17
31 66 0.73
32 9 0.10
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:40051250 original size:47 final size:48
Alignment explanation
Indices: 40051198--40051303 Score: 108
Period size: 54 Copynumber: 2.1 Consensus size: 48
40051188 TGGTTGTACC
**
40051198 ATGGC-AACAAGTGATAAGTGACATT-CGTATAAGACCATAGTTGGGCT
1 ATGGCAAACAAGTGATAAGTGA-ATTCCGTATAAGACCATAGCCGGGCT
*
40051245 ATGGCATCGAAAAACAAGTGATAAGTGATTTCCGTATAAGACCATAGCCGGGCT
1 ATGG---C---AAACAAGTGATAAGTGAATTCCGTATAAGACCATAGCCGGGCT
40051299 ATGGC
1 ATGGC
40051304 TTCAGATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
47 4 0.08
50 1 0.02
51 1 0.02
53 2 0.04
54 40 0.83
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (48 bp):
ATGGCAAACAAGTGATAAGTGAATTCCGTATAAGACCATAGCCGGGCT
Found at i:40051372 original size:53 final size:52
Alignment explanation
Indices: 40051225--40051374 Score: 144
Period size: 53 Copynumber: 2.8 Consensus size: 52
40051215 GTGACATTCG
* * * *
40051225 TATAAGACCATAGTTGGGCTATGGCATCGAAAAACAAGTGAT-AAGTGATTTCCG
1 TATAAGACCATAGCTGGGCTATGGCATC--AAAA-AAGTGATAAACTGATATCCA
* * *
40051279 TATAAGACCATAGCCGGGCTATGGCTTCAGATTAAAGTGATACAACT-A-ATCCA
1 TATAAGACCATAGCTGGGCTATGGCATCA-A-AAAAGTGATA-AACTGATATCCA
40051332 TATAAGACCATAGCTGGGCTATGGCATCAAAGAAATGTGATAA
1 TATAAGACCATAGCTGGGCTATGGCATCAAA-AAA-GTGATAA
40051375 GTGTTTCCGT
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
52 6 0.08
53 44 0.55
54 27 0.34
55 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (52 bp):
TATAAGACCATAGCTGGGCTATGGCATCAAAAAAGTGATAAACTGATATCCA
Found at i:40068529 original size:15 final size:16
Alignment explanation
Indices: 40068496--40068539 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
40068486 CTTCTTCCTC
40068496 TCTTTTTCCTCTATTT
1 TCTTTTTCCTCTATTT
40068512 TCTTTCTTCCT-T-TTT
1 TCTTT-TTCCTCTATTT
*
40068527 TCTTTTTCTTCTA
1 TCTTTTTCCTCTA
40068540 GCCAAAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 6 0.25
17 5 0.21
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTTCCTCTATTT
Found at i:40074431 original size:128 final size:128
Alignment explanation
Indices: 40074188--40074431 Score: 357
Period size: 127 Copynumber: 1.9 Consensus size: 128
40074178 TCTTTTTCTT
* *
40074188 TCTCCTCTCCACCCTTTTTTTCTCTCTTTTGACAACCACCACCACCATCCTTTTTTATTTTCTCC
1 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCATCCATTTTTATTTTCTCC
* * *
40074253 ATCGTAAGCTTATTTCTACCACCACATCACCACCATCCACAACTAACTTTAACTTTCCTTTTA
66 ACCATAAGCTTATTTCTACCACCACATCACCACCATCCACAACCAACTTTAACTTTCCTTTTA
* * *
40074316 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACTACCACCA-CCATTTTTCTTTTCTCT
1 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCATCCATTTTTATTTTCTCC
* * *
40074380 GCCATAAGCTTATTTGC-ACCACTATATCACCACCATCCACAACCAACCTTTA
66 ACCATAAGCTTATTT-CTACCACCACATCACCACCATCCACAACCAA-CTTTA
40074432 CTTCTATTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
127 52 0.50
128 51 0.50
ACGTcount: A:0.22, C:0.38, G:0.03, T:0.37
Consensus pattern (128 bp):
TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCATCCATTTTTATTTTCTCC
ACCATAAGCTTATTTCTACCACCACATCACCACCATCCACAACCAACTTTAACTTTCCTTTTA
Found at i:40080569 original size:28 final size:29
Alignment explanation
Indices: 40080529--40080651 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
40080519 AAAGCATGAC
40080529 TATGAATGTGA-TTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
40080557 TATGAATCTGATTTGGCCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
40080586 -ATTGAATGTGATTTGGGCCTAATGGGCCA
1 TA-TGAATGTGATTTGGGCCTAATGGGCCA
** *
40080615 TATGAATAAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
40080643 TATGCATGT
1 TATGAATGT
40080652 ATGTAGACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
28 33 0.40
29 48 0.59
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:40084629 original size:29 final size:29
Alignment explanation
Indices: 40084587--40084693 Score: 128
Period size: 29 Copynumber: 3.7 Consensus size: 29
40084577 ATGAGTGTGA
40084587 TTGGGCCTAATGGGCCATATGAATATGAT
1 TTGGGCCTAATGGGCCATATGAATATGAT
** * *
40084616 TTATGCCTAATGGGCCAAATGAATGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAT
* *
40084645 TTGGGTCTAATGGGTCATATGAATGA-GA-
1 TTGGGCCTAATGGGCCATATGAAT-ATGAT
*
40084673 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
40084694 CATGTATGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAT
Found at i:40084688 original size:57 final size:57
Alignment explanation
Indices: 40084577--40084698 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 57
40084567 AAGTATGACT
* *
40084577 ATGAGTGTGATTGGGCCTAATGGGCCATATGAATATGATTTATGCCTAATGGGCCAA
1 ATGAATGTGATTGGGCCTAATGGGCCATATGAATATGATTTAGGCCTAATGGGCCAA
* * * * *
40084634 ATGAATGTGATTTGGGTCTAATGGGTCATATGAATGA-GA-TTGGGCCTAGTGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCATATGAAT-ATGATTTAGGCCTAATGGGCCAA
*
40084691 ATGCATGT
1 ATGAATGT
40084699 ATGAAGACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 30 0.55
58 24 0.44
59 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.31
Consensus pattern (57 bp):
ATGAATGTGATTGGGCCTAATGGGCCATATGAATATGATTTAGGCCTAATGGGCCAA
Found at i:40092266 original size:32 final size:32
Alignment explanation
Indices: 40092225--40092286 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
40092215 AAGTCTTACT
40092225 TGATTCATGCTCTTTTTTAACTATATCACTCC
1 TGATTCATGCTCTTTTTTAACTATATCACTCC
40092257 TGATTCATGCTCTTTTTTAACTATATCACT
1 TGATTCATGCTCTTTTTTAACTATATCACT
40092287 GAAAAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (32 bp):
TGATTCATGCTCTTTTTTAACTATATCACTCC
Found at i:40092423 original size:23 final size:23
Alignment explanation
Indices: 40092392--40092438 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
40092382 AATCAGAGTA
40092392 CAAGCTTCAGCATATTGTCCTTT
1 CAAGCTTCAGCATATTGTCCTTT
* * *
40092415 CAAGTTTCAGCGTATTGTTCTTT
1 CAAGCTTCAGCATATTGTCCTTT
40092438 C
1 C
40092439 CAGACCTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (23 bp):
CAAGCTTCAGCATATTGTCCTTT
Found at i:40096562 original size:5 final size:5
Alignment explanation
Indices: 40096547--40096587 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
40096537 GGGTTTTTAA
*
40096547 TTTTCC TTTTC TTTTC GTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
40096588 GCTTTTTCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:40097247 original size:11 final size:12
Alignment explanation
Indices: 40097194--40097261 Score: 70
Period size: 12 Copynumber: 5.6 Consensus size: 12
40097184 ACTTTATAGT
40097194 TTTTTATTTGAA
1 TTTTTATTTGAA
40097206 TTTTTA--TGAA
1 TTTTTATTTGAA
*
40097216 CTTTTATATTTTTTAA
1 -TTTT-TA--TTTGAA
40097232 TTTTTATTTG-A
1 TTTTTATTTGAA
40097243 TTTTTATTTGAA
1 TTTTTATTTGAA
40097255 TTTTTAT
1 TTTTTAT
40097262 AATTTTTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 4 0.09
11 15 0.32
12 19 0.40
14 2 0.04
15 4 0.09
16 3 0.06
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.69
Consensus pattern (12 bp):
TTTTTATTTGAA
Found at i:40097276 original size:37 final size:36
Alignment explanation
Indices: 40097196--40097277 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 36
40097186 TTTATAGTTT
*
40097196 TTTATTTGAATTTTTATGAACTTTTATATTTTTTAA
1 TTTATTTGAATTTTTATGAACTTTTATATTTTTGAA
*
40097232 TTTTTATTTG-ATTTTTATTTGAATTTTTATAATTTTTGAA
1 --TTTATTTGAATTTTTA--TGAACTTTTAT-ATTTTTGAA
40097272 -TTATTT
1 TTTATTT
40097278 ATTGACATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
37 13 0.33
38 8 0.21
39 10 0.26
40 8 0.21
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (36 bp):
TTTATTTGAATTTTTATGAACTTTTATATTTTTGAA
Found at i:40097947 original size:31 final size:31
Alignment explanation
Indices: 40097906--40097970 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
40097896 TTCCTGCATT
40097906 AAATCCAACCAAAAACAACAAATATAACATA
1 AAATCCAACCAAAAACAACAAATATAACATA
* * * * *
40097937 AAATCTAACCAAAAATAGCAAATGTAGCATA
1 AAATCCAACCAAAAACAACAAATATAACATA
40097968 AAA
1 AAA
40097971 AATACAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.62, C:0.18, G:0.05, T:0.15
Consensus pattern (31 bp):
AAATCCAACCAAAAACAACAAATATAACATA
Found at i:40098223 original size:21 final size:21
Alignment explanation
Indices: 40098198--40098237 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
40098188 TTTGCTACCA
* *
40098198 TCGCTACTGCCTCTGCCTCTT
1 TCGCTACAGCCGCTGCCTCTT
*
40098219 TCGCTGCAGCCGCTGCCTC
1 TCGCTACAGCCGCTGCCTC
40098238 CCTCGCTGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.45, G:0.20, T:0.30
Consensus pattern (21 bp):
TCGCTACAGCCGCTGCCTCTT
Found at i:40098686 original size:13 final size:14
Alignment explanation
Indices: 40098660--40098691 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
40098650 ACTAACGACG
40098660 AATTAAACCATTAT
1 AATTAAACCATTAT
40098674 AATTAAA-CATTAT
1 AATTAAACCATTAT
40098687 AATTA
1 AATTA
40098692 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:40101180 original size:18 final size:19
Alignment explanation
Indices: 40101141--40101183 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
40101131 AATGAGTAAG
*
40101141 TATGATAATTGAATATATT
1 TATGATAATAGAATATATT
40101160 TATGA-AATAGAATATGA-T
1 TATGATAATAGAATAT-ATT
40101178 TATGAT
1 TATGAT
40101184 TATTGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (19 bp):
TATGATAATAGAATATATT
Found at i:40102432 original size:23 final size:22
Alignment explanation
Indices: 40102371--40102672 Score: 76
Period size: 23 Copynumber: 13.1 Consensus size: 22
40102361 ATAGATCTCT
40102371 TTTCCAGCAACTAAACACTCCAA
1 TTTCCAGCAACTAAACACT-CAA
* * *
40102394 TTTGCGGCGA-TAAAACATCTCAA
1 TTTCCAGCAACT-AAACA-CTCAA
40102417 TTTCCAGCAACTAAACACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
* *
40102440 TTTGCAG-TACTTAAAACACTTCAA
1 TTTCCAGCAAC-T-AAACAC-TCAA
* * ** *
40102464 TTTACAACATTTAAGCACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
* **
40102487 TTTACAGCATTTAAACACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
* * * *
40102510 CTTGCAGC-ACTTTAACATATCAA
1 TTTCCAGCAAC-TAAACA-CTCAA
** * ** *
40102533 TTAACAACATTTATACAACTCAA
1 TTTCCAGCAACTAAAC-ACTCAA
* *
40102556 -TTACAACAA-TAAAACATCTCAA
1 TTTCCAGCAACT-AAACA-CTCAA
40102578 TTTCCAGCAACTAAACACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
* *
40102601 TTTGCAG-TACTTAAACACTTCAA
1 TTTCCAGCAAC-TAAACAC-TCAA
* * **
40102624 TTTACAACATTTAAACACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
* * **
40102647 TTTACAACATTTAAACACTTCAA
1 TTTCCAGCAACTAAACAC-TCAA
40102670 TTT
1 TTT
40102673 GCAACATTTA
Statistics
Matches: 218, Mismatches: 43, Indels: 36
0.73 0.14 0.12
Matches are distributed among these distances:
21 2 0.01
22 22 0.10
23 172 0.79
24 22 0.10
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (22 bp):
TTTCCAGCAACTAAACACTCAA
Found at i:40102576 original size:22 final size:23
Alignment explanation
Indices: 40102523--40102579 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
40102513 GCAGCACTTT
* * *
40102523 AACATATCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* *
40102546 TACAACTCAATT-ACAACAATAA
1 AACATCTCAATTAACAACAATAA
40102568 AACATCTCAATT
1 AACATCTCAATT
40102580 TCCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:40102586 original size:91 final size:92
Alignment explanation
Indices: 40102453--40102686 Score: 278
Period size: 91 Copynumber: 2.6 Consensus size: 92
40102443 GCAGTACTTA
* * *
40102453 AAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAACTTGCAGC
1 AAACACTTCAATTTACAACAATAAAACACTTCAATTTACAGCATTTAAACACTTCAACTTGCAGC
*
40102518 ACTTTAACA-TATCAATTAACAACATTT
66 ACTTAAACACT-TCAATTAACAACATTT
* * ** *
40102545 ATACAAC-TCAA-TTACAACAATAAAACA-TCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
1 AAAC-ACTTCAATTTACAACAATAAAACACT-TCAATTTACAGCATTTAAACACTTCAACTTGCA
* *
40102607 GTACTTAAACACTTCAATTTACAACATTT
64 GCACTTAAACACTTCAATTAACAACATTT
* * * *
40102636 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAACATTTAAACA
1 AAACACTTCAATTTACAACAATAAAACACTTCAATTTACAGCATTTAAACA
40102687 TCAGCAGCCA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
90 3 0.03
91 73 0.62
92 39 0.33
93 3 0.03
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.31
Consensus pattern (92 bp):
AAACACTTCAATTTACAACAATAAAACACTTCAATTTACAGCATTTAAACACTTCAACTTGCAGC
ACTTAAACACTTCAATTAACAACATTT
Found at i:40102647 original size:69 final size:69
Alignment explanation
Indices: 40102371--40102686 Score: 252
Period size: 69 Copynumber: 4.6 Consensus size: 69
40102361 ATAGATCTCT
* ** * * * *
40102371 TTTCCAGCAACTAAACACTCCAATTTGCGGCGA-TAAAACA-TCTCAATTTCCAGCAACTAAACA
1 TTTCCAGCAACTAAACACTTCAATTTGCAAC-ATTTAAACACT-TCAATTTACAACAATTAAACA
40102434 CTTCAA
64 CTTCAA
* * * * * *
40102440 TTTGCAG-TACTTAAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCATTTAAACA
1 TTTCCAGCAAC-T-AAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAACAATTAAACA
40102504 CTTCAA
64 CTTCAA
* * * ** * *
40102510 CTTGCAGC-ACTTTAACA-TATCAATTAACAACATTTATACAAC-TCAA-TTACAACAATAAAAC
1 TTTCCAGCAAC-TAAACACT-TCAATTTGCAACATTTAAAC-ACTTCAATTTACAACAATTAAAC
40102571 A-TCTCAA
63 ACT-TCAA
** * *
40102578 TTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACT
1 TTTCCAGCAACTAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAACAATTAAACACT
40102643 TCAA
66 TCAA
* * **
40102647 TTTACAACATTTAAACACTTCAATTTGCAACATTTAAACA
1 TTTCCAGCAACTAAACACTTCAATTTGCAACATTTAAACA
40102687 TCAGCAGCCA
Statistics
Matches: 197, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
67 3 0.02
68 49 0.25
69 87 0.44
70 57 0.29
71 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (69 bp):
TTTCCAGCAACTAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAACAATTAAACACT
TCAA
Found at i:40102677 original size:23 final size:23
Alignment explanation
Indices: 40102428--40102686 Score: 242
Period size: 23 Copynumber: 11.3 Consensus size: 23
40102418 TTCCAGCAAC
*
40102428 TAAACACTTCAATTTGCAGTAC-TT
1 TAAACACTTCAATTTACA--ACATT
*
40102452 AAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
40102475 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
* * *
40102498 TAAACACTTCAACTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
40102522 T-AACA-TATCAATTAACAACATT
1 TAAACACT-TCAATTTACAACATT
* *
40102544 TATACAAC-TCAA-TTACAACAAT
1 TAAAC-ACTTCAATTTACAACATT
* * * **
40102566 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAACATT
* ** *
40102589 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAACATT
40102612 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
40102635 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
*
40102658 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAACATT
40102681 TAAACA
1 TAAACA
40102687 TCAGCAGCCA
Statistics
Matches: 195, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.01
22 21 0.11
23 152 0.78
24 21 0.11
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACTTCAATTTACAACATT
Found at i:40106310 original size:25 final size:26
Alignment explanation
Indices: 40106281--40106349 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 26
40106271 ATTTTTTAAA
* *
40106281 ATTTAGTTTCATTTT-GTTGGAAAAT
1 ATTTATTTTAATTTTAGTTGGAAAAT
*
40106306 ATTTATTTTGATTTTTTTAGTTGGAAAAT
1 ATTTATTTT-A--ATTTTAGTTGGAAAAT
40106335 ATTTATTTTAATTTT
1 ATTTATTTTAATTTT
40106350 TTTAGTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 8 0.22
26 4 0.11
28 5 0.14
29 19 0.53
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (26 bp):
ATTTATTTTAATTTTAGTTGGAAAAT
Found at i:40106328 original size:29 final size:29
Alignment explanation
Indices: 40106292--40106355 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
40106282 TTTAGTTTCA
*
40106292 TTTT-GTTGGAAAATATTTATTTTGATTT
1 TTTTAGTTGGAAAATATTTATTTTAATTT
40106320 TTTTAGTTGGAAAATATTTATTTTAATTT
1 TTTTAGTTGGAAAATATTTATTTTAATTT
40106349 TTTTAGT
1 TTTTAGT
40106356 ATTTTGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (29 bp):
TTTTAGTTGGAAAATATTTATTTTAATTT
Found at i:40107267 original size:21 final size:21
Alignment explanation
Indices: 40107237--40107294 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
40107227 TTTATTTTTA
*
40107237 AAAATAATTAAAATTAAAATT
1 AAAATTATTAAAATTAAAATT
* *
40107258 AAAATTATTAATTATGAAAATT
1 AAAATTATTAA-AATTAAAATT
* *
40107280 -GAGTTATTAAAATTA
1 AAAATTATTAAAATTA
40107295 TTATTTGAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 3 0.10
21 18 0.62
22 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATTATTAAAATTAAAATT
Found at i:40107317 original size:33 final size:31
Alignment explanation
Indices: 40107254--40107323 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
40107244 TTAAAATTAA
**
40107254 AATTAAAATTATTAATTATGAAAATTGAGTT
1 AATTAAAATTATTAATTAACAAAATTGAGTT
*
40107285 -ATTAAAATTATTATTTGAACAAATATTAGAGTT
1 AATTAAAATTATTAATT-AACAAA-ATT-GAGTT
40107318 AATTAA
1 AATTAA
40107324 TACTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 15 0.47
31 4 0.12
32 3 0.09
33 5 0.16
34 5 0.16
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (31 bp):
AATTAAAATTATTAATTAACAAAATTGAGTT
Found at i:40108009 original size:25 final size:24
Alignment explanation
Indices: 40107962--40108010 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
40107952 TTTATGAAAG
40107962 AAAAAAACAATGCTTATACTAATA
1 AAAAAAACAATGCTTATACTAATA
*
40107986 AAAAAATAGCAATGTTTATA-TAATA
1 AAAAAA-A-CAATGCTTATACTAATA
40108011 GTTTACGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 6 0.27
26 10 0.45
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAAAACAATGCTTATACTAATA
Found at i:40110510 original size:11 final size:11
Alignment explanation
Indices: 40110496--40110540 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
40110486 AGATAAATAT
40110496 TATTTTATTAA
1 TATTTTATTAA
*
40110507 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
40110520 TATTTTATTAT
1 TATTTTATTAA
40110531 TATTTTATTA
1 TATTTTATTA
40110541 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:40112358 original size:46 final size:45
Alignment explanation
Indices: 40112306--40112620 Score: 411
Period size: 46 Copynumber: 6.8 Consensus size: 45
40112296 GCTCTTTGAA
*
40112306 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
40112352 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
40112398 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
40112444 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
40112490 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
40112536 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
40112582 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAAT-AGTAAGACCATGGTTGAAAGATACCATGGCA
40112621 TAATGTGACA
Statistics
Matches: 241, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 235 0.98
48 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (45 bp):
ATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:40112463 original size:92 final size:92
Alignment explanation
Indices: 40112316--40112620 Score: 468
Period size: 92 Copynumber: 3.3 Consensus size: 92
40112306 ATGAAATATG
* **
40112316 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
40112381 TACCATGGCAACTTGACATGAAAAGAA
66 TACCATGGCAACATGACATGAAAAGAA
**
40112408 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
40112473 TACCATGGCAGCGTGACATGAAATGAA
66 TACCATGGCAACATGACATGAAAAGAA
*
40112500 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
40112565 TACCATGGCAACATGACA-GAAAATGAG
66 TACCATGGCAACATGACATGAAAA-GAA
* * *
40112592 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
40112621 TAATGTGACA
Statistics
Matches: 194, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 4 0.02
92 190 0.98
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAA
Found at i:40112556 original size:138 final size:138
Alignment explanation
Indices: 40112316--40112620 Score: 502
Period size: 138 Copynumber: 2.2 Consensus size: 138
40112306 ATGAAATATG
* **
40112316 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
40112381 TACCATGGCAACTTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
40112446 GAAATGAA
131 AAAATGAA
* *
40112454 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
40112519 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
40112584 AAAATGAG
131 AAAATGAA
* * *
40112592 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
40112621 TAATGTGACA
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 155 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:40115079 original size:47 final size:47
Alignment explanation
Indices: 40115028--40115250 Score: 315
Period size: 47 Copynumber: 4.7 Consensus size: 47
40115018 TTAGGATTCT
* *
40115028 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
40115075 ATGTGAT-GACTGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGGA-TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
40115122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
40115169 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
40115216 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
40115251 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
46 3 0.02
47 156 0.98
48 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:40115425 original size:37 final size:37
Alignment explanation
Indices: 40115369--40115447 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
40115359 CCGAGCTCTA
* * * *
40115369 AAGACCCGATGACTACGTGTGGGGATTTTTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40115406 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40115443 AAGAC
1 AAGAC
40115448 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40120655 original size:39 final size:40
Alignment explanation
Indices: 40120610--40120777 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
40120600 CGGGGTTTAG
* * *
40120610 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
40120649 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
40120689 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
40120729 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
40120770 CCGGATAT
1 CCGGATAT
40120778 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:40120760 original size:41 final size:40
Alignment explanation
Indices: 40120633--40120777 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
40120623 CTCGCACAAG
* * * * *
40120633 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
40120673 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
40120713 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
40120754 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
40120778 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:40122002 original size:35 final size:36
Alignment explanation
Indices: 40121963--40122035 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 36
40121953 CAAGAAATCC
40121963 TTCCTCCTTCCTTAGAATTTT-CCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTGCCAAAAGAAATGAA
40121998 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTT--GCCAAAAGAAATGAA
40122036 AAAGGATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 21 0.60
38 14 0.40
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (36 bp):
TTCCTCCTTCCTTAGAATTTTGCCAAAAGAAATGAA
Found at i:40140338 original size:8 final size:8
Alignment explanation
Indices: 40140325--40140392 Score: 82
Period size: 8 Copynumber: 8.5 Consensus size: 8
40140315 GGCAAAAGCT
40140325 GAAATGCC
1 GAAATGCC
*
40140333 GAAATGTC
1 GAAATGCC
40140341 GAAATGCC
1 GAAATGCC
* *
40140349 GAAAAGCT
1 GAAATGCC
*
40140357 GAAATGCT
1 GAAATGCC
*
40140365 GAAAAGCC
1 GAAATGCC
40140373 GAAATGCC
1 GAAATGCC
*
40140381 GAAAAGCC
1 GAAATGCC
40140389 GAAA
1 GAAA
40140393 GTTTGGCTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 51 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (8 bp):
GAAATGCC
Found at i:40140359 original size:32 final size:32
Alignment explanation
Indices: 40140318--40140392 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
40140308 ATGAATCGGC
* *
40140318 AAAAGCTGAAATGCCGAAATGTCGAAATGCCG
1 AAAAGCTGAAATGCCGAAAAGCCGAAATGCCG
*
40140350 AAAAGCTGAAATGCTGAAAAGCCGAAATGCCG
1 AAAAGCTGAAATGCCGAAAAGCCGAAATGCCG
*
40140382 AAAAGCCGAAA
1 AAAAGCTGAAA
40140393 GTTTGGCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (32 bp):
AAAAGCTGAAATGCCGAAAAGCCGAAATGCCG
Found at i:40140656 original size:29 final size:29
Alignment explanation
Indices: 40140619--40140718 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
40140609 AATGTGACTA
* *
40140619 GGCCCAATGGGCCATATAAATTTGATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* **
40140648 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* *
40140677 GGCCTGAA-GGGTCATATGAATATGA-TTG
1 GGCCT-AATGGGCCATATAAATATGATTTG
*
40140705 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
40140719 GATACAGGCA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.03
28 12 0.21
29 42 0.72
30 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGATTTG
Found at i:40142333 original size:46 final size:46
Alignment explanation
Indices: 40142281--40142374 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
40142271 TATTACATTC
40142281 ACATAACTAAATGAATCACTTTATTAATTCACATTCTCATAATCAT
1 ACATAACTAAATGAATCACTTTATTAATTCACATTCTCATAATCAT
40142327 ACATAACTAAATGAATCACTTTATTAATTCACATTCTCATAATCAT
1 ACATAACTAAATGAATCACTTTATTAATTCACATTCTCATAATCAT
40142373 AC
1 AC
40142375 TTACTTCACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.36
Consensus pattern (46 bp):
ACATAACTAAATGAATCACTTTATTAATTCACATTCTCATAATCAT
Found at i:40142674 original size:40 final size:40
Alignment explanation
Indices: 40142614--40142836 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
40142604 CAAGCTCAAT
* * * * *
40142614 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
40142654 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
40142694 TGCCTTCGGGTCTTAGCTCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
40142734 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
40142774 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
40142814 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
40142837 GTATTCAAAT
Statistics
Matches: 170, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:40150764 original size:30 final size:30
Alignment explanation
Indices: 40150730--40150787 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
40150720 ATTTTTGGGC
* *
40150730 CTAGGGGTAAAATGGCCATTTTATCAAAGT
1 CTAGGGGCAAAATGGCCATTTTACCAAAGT
*
40150760 CTAGGGGCAAAATGGTCATTTTACCAAA
1 CTAGGGGCAAAATGGCCATTTTACCAAA
40150788 AATATGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (30 bp):
CTAGGGGCAAAATGGCCATTTTACCAAAGT
Found at i:40151384 original size:47 final size:45
Alignment explanation
Indices: 40151126--40151392 Score: 191
Period size: 47 Copynumber: 5.7 Consensus size: 45
40151116 GTTATTGTGG
*
40151126 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATGA-GATAAGA
* * * *
40151172 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATCGAGATAAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCAT-GAGATAAGA
** * * *
40151220 GCTAGTGTAAGACATGTCTTAGACATGCATTGGCCTTGAGACGT-A-T
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGCCATGAGA--TAAGA
* * * * *
40151266 GCCAGTGTAAGACATGTCTGGGGCATGCATCGGCTACGAGATAATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATGAGATAAGA
* * * *
40151312 G-TCAATGTAATACCATGTCTAGGACATGGCATCGACATGAGATAAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATGAGATAAGA
* *
40151359 GCTAGTGTAAGACCGTATCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
40151393 GCACCTTACC
Statistics
Matches: 174, Mismatches: 33, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 58 0.33
47 84 0.48
48 28 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCATGAGATAAGA
Found at i:40151385 original size:140 final size:140
Alignment explanation
Indices: 40151129--40151386 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
40151119 ATTGTGGGCT
* * *
40151129 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATAAGAGCCAATGTAAGACCATGTCTGA
* * * *
40151194 GACATGGCATCGGCATCGAGATAAGTGCTAGTGTAAGACATGTCTTAGACATGCATTGGCCTTGA
66 GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGACATATCTGAGACATGCATTGGCCTTGA
40151259 GACGTATGCC
131 GACGTATGCC
* * * * * *
40151269 AGTGTAAGACATGTCTGGGGCATGCATCGGCTACGA-GATAATAGTCAATGTAATACCATGTCT-
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-GATGATAAGAGCCAATGTAAGACCATGTCTG
* *
40151332 AGGACATGGCATCGACAT-GAGATAAGAGCTAGTGTAAGACCGTATCTGGGACATG
65 A-GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGA-CATATCTGAGACATG
40151387 GCATCGGCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 21 0.21
140 78 0.78
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATAAGAGCCAATGTAAGACCATGTCTGA
GACATGGCATCGACATCGAGATAAGAGCTAGTGTAAGACATATCTGAGACATGCATTGGCCTTGA
GACGTATGCC
Found at i:40158450 original size:30 final size:30
Alignment explanation
Indices: 40158416--40158473 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
40158406 ATTTTCGGGC
* *
40158416 CTAGGGGTAAAATGGTCATTTTATCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
40158446 CTAGGGGCAAAATGGTCATTTTACCAAA
1 CTAGGGGCAAAATGGTCATTTTACCAAA
40158474 AATATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:40158868 original size:46 final size:45
Alignment explanation
Indices: 40158815--40159072 Score: 209
Period size: 47 Copynumber: 5.5 Consensus size: 45
40158805 ATTGTGGGCT
*
40158815 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGA-GATGAGAGCC
* * * *
40158861 AGTGTAAGACCATGTCTGGGACATGGCAT-TGGCATCGAGACT-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--GAGA-TGAGAGCC
* * *
40158909 AGTGTAAGACATGTCTGGGACATGCATTAGCCTTGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC-AGAGATG-AGAGCC
* * *
40158955 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-GAGATGAGAGCC
* ** * *
40159001 AGTGTAAGACCATGTTTGGGACATGGCATC-GAAATGAGATAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-GAGATGAGAGCC
* *
40159048 AATGTAAGATCGTGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
40159073 GCATTGGCAC
Statistics
Matches: 171, Mismatches: 28, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 67 0.39
47 77 0.45
48 23 0.13
49 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGAGATGAGAGCC
Found at i:40159067 original size:140 final size:141
Alignment explanation
Indices: 40158815--40159077 Score: 372
Period size: 140 Copynumber: 1.9 Consensus size: 141
40158805 ATTGTGGGCT
*
40158815 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
* ** * *
40158880 GACATGGCATTGGCATCGAGACTAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATTAGCCTTG
66 GACATGGCATCGAAATCGAGACTAGAGCTAATGTAAGACATGTCTGGGACATGGCATTAGCCTTG
40158944 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
40158955 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
*
40159019 GGACATGGCATCGAAAT-GAGA-TAAGAGCTAATGTAAGATCGTGTCTGGGACATGGCATT
65 GGACATGGCATCGAAATCGAGACT-AGAGCTAATGTAAGA-CATGTCTGGGACATGGCATT
40159078 GGCACCTTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
138 1 0.01
139 17 0.16
140 83 0.77
141 7 0.06
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGAAATCGAGACTAGAGCTAATGTAAGACATGTCTGGGACATGGCATTAGCCTTG
AGACGTAAGCC
Found at i:40159630 original size:55 final size:55
Alignment explanation
Indices: 40159532--40159635 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 55
40159522 ACTTTTAAAC
* * *
40159532 ACGGCCATGACACACGCCTGTGAGGCCTGCCAGTGTACAATACTGACTTTAGGAT
1 ACGGCCATGACACACGCCCGTGAGGCCTACCAGTGTACAATACTAACTTTAGGAT
* * * * * *
40159587 ACGGCTATGGCACACGCCCGTGTGGCCTACCCGTGTCCTATACTAACTT
1 ACGGCCATGACACACGCCCGTGAGGCCTACCAGTGTACAATACTAACTT
40159636 AAAATTTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (55 bp):
ACGGCCATGACACACGCCCGTGAGGCCTACCAGTGTACAATACTAACTTTAGGAT
Found at i:40167389 original size:48 final size:47
Alignment explanation
Indices: 40167305--40167527 Score: 257
Period size: 48 Copynumber: 4.6 Consensus size: 47
40167295 GTCATTAGGA
*
40167305 CTTCATTGATTTGGCTTTAGGCCATGATATTAGCACTTCAGGTGCGAG
1 CTTCATTGATTTGGC-TTCGGCCATGATATTAGCACTTCAGGTGCGAG
* * * * ** *
40167353 CTTTATTAATTTGGCTTCGGTTCATGATATTTGCACTTCAGGTATGTG
1 CTTCATTGATTTGGCTTCGG-CCATGATATTAGCACTTCAGGTGCGAG
* *
40167401 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCGGGTGCGAG
1 CTTCATTGATTTGG-CTTCGGCCATGATATTAGCACTTCAGGTGCGAG
* * * *
40167449 CTTCATTGATTTGGCTTTGGGCCATGAAATTAGCACTTCAAGTGTGAG
1 CTTCATTGATTTGGC-TTCGGCCATGATATTAGCACTTCAGGTGCGAG
**
40167497 CTTTGTTGATTTGGCTTCAGGCCATGATATT
1 CTTCATTGATTTGGCTTC-GGCCATGATATT
40167528 GGTACCTAAG
Statistics
Matches: 145, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 7 0.05
48 133 0.92
49 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (47 bp):
CTTCATTGATTTGGCTTCGGCCATGATATTAGCACTTCAGGTGCGAG
Found at i:40167475 original size:96 final size:96
Alignment explanation
Indices: 40167305--40167527 Score: 304
Period size: 96 Copynumber: 2.3 Consensus size: 96
40167295 GTCATTAGGA
* *
40167305 CTTCATTGATTTGGCTTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTTATTAATTTGGCTT
1 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
** * * * *
40167370 CGGTTCATGATATTTGCACTTCAGGTATGTG
66 CGGGCCATGAAATTAGCACTTCAAGTATGAG
* *
40167401 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCGGGTGCGAGCTTCATTGATTTGGCTT
1 CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
* *
40167466 TGGGCCATGAAATTAGCACTTCAAGTGTGAG
66 CGGGCCATGAAATTAGCACTTCAAGTATGAG
**
40167497 CTTTGTTGATTTGG-CTTCAGGCCATGATATT
1 CTTCATTGATTTGGCCTT-AGGCCATGATATT
40167528 GGTACCTAAG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
95 3 0.03
96 109 0.97
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (96 bp):
CTTCATTGATTTGGCCTTAGGCCATGATATTAGCACTTCAGGTGCGAGCTTCATTAATTTGGCTT
CGGGCCATGAAATTAGCACTTCAAGTATGAG
Found at i:40172419 original size:49 final size:49
Alignment explanation
Indices: 40172361--40172537 Score: 246
Period size: 49 Copynumber: 3.6 Consensus size: 49
40172351 ATCTAATACG
40172361 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
* * * * * * **
40172410 CGTAGTAGCCTGCACTTAGAACTACACACGTGATCGAAGTTATCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACA
* *
40172461 CATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
40172510 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
40172538 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 65 0.61
50 6 0.06
51 36 0.34
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
Found at i:40172490 original size:100 final size:100
Alignment explanation
Indices: 40172360--40172542 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
40172350 TATCTAATAC
* * *
40172360 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
40172425 TTAGAACTACACACGTGATCGAAGTTATCGGGTAT
66 TTAGAACTACACACGTGATCGAAGTTATCGGGTAT
40172460 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
1 GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
*
40172525 TTAGTACTACACACGTGA
66 TTAGAACTACACACGTGA
40172543 CCTCACAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (100 bp):
GCATAGTAGCCAGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTGCAC
TTAGAACTACACACGTGATCGAAGTTATCGGGTAT
Found at i:40175080 original size:31 final size:31
Alignment explanation
Indices: 40175045--40175107 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
40175035 CCTTTTCATA
40175045 TTTCATATCTCATAACACTAGGCCGAAGCCT
1 TTTCATATCTCATAACACTAGGCCGAAGCCT
* ** *
40175076 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTAGGCCGAAGCCT
40175107 T
1 T
40175108 CACTGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (31 bp):
TTTCATATCTCATAACACTAGGCCGAAGCCT
Found at i:40175373 original size:25 final size:26
Alignment explanation
Indices: 40175330--40175399 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 26
40175320 CTCTTATAAT
40175330 AACTGGGGC-AAAGCCCTTTT-GATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
40175354 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
40175380 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
40175400 TGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 9 0.21
25 18 0.43
26 15 0.36
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:40175475 original size:20 final size:20
Alignment explanation
Indices: 40175450--40175516 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
40175440 TTATGAATAC
40175450 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40175470 ATCATGTGTC-TATCGTACAT
1 ATCATGTG-CATATCATACAT
40175490 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
40175510 ATCATGT
1 ATCATGT
40175517 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40175501 original size:11 final size:11
Alignment explanation
Indices: 40175450--40175505 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
40175440 TTATGAATAC
40175450 ATCATGTGCAT
1 ATCATGTGCAT
*
40175461 ATCA--TACAT
1 ATCATGTGCAT
40175470 ATCATGTGTC-T
1 ATCATGTG-CAT
*
40175481 ATC--GTACAT
1 ATCATGTGCAT
40175490 ATCATGTGCAT
1 ATCATGTGCAT
40175501 ATCAT
1 ATCAT
40175506 ACATATCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
8 1 0.03
9 14 0.40
11 19 0.54
12 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:40183298 original size:26 final size:26
Alignment explanation
Indices: 40183226--40183297 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
40183216 CTCTTTTAAT
*
40183226 AACTGGGGCAAAAACCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
40183252 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
40183278 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
40183298 TGCACTTCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 10 0.23
26 34 0.77
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:40188960 original size:47 final size:47
Alignment explanation
Indices: 40188902--40189107 Score: 322
Period size: 47 Copynumber: 4.4 Consensus size: 47
40188892 AGCCAAGAAT
*
40188902 GTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
40188949 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
40188996 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * * * *
40189043 GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
40189090 GTGCATAAATGTGATAAG
1 GTGTATATATGTGATAAG
40189108 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:40189282 original size:37 final size:37
Alignment explanation
Indices: 40189226--40189304 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40189216 CCGAGCTCTA
* *
40189226 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
40189263 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40189300 AAGAC
1 AAGAC
40189305 TTCGTAATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40190613 original size:43 final size:43
Alignment explanation
Indices: 40190565--40190667 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
40190555 TTGGTTTTCA
*
40190565 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGATATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40190608 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40190651 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
40190668 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:40190684 original size:29 final size:29
Alignment explanation
Indices: 40190649--40190722 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40190639 GTTGTGAGAT
* *
40190649 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40190678 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40190707 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40190723 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40191168 original size:80 final size:80
Alignment explanation
Indices: 40191073--40191390 Score: 476
Period size: 80 Copynumber: 4.0 Consensus size: 80
40191063 TAAGTGACCA
40191073 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
40191138 TTCATGCTAGTGATG
66 TTCATGCTAGTGATG
40191153 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
*
40191218 TTCGTGCTAGTGATG
66 TTCATGCTAGTGATG
40191233 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
* *
40191298 TTCGTGCTAGTGATA
66 TTCATGCTAGTGATG
*** * * * * ** * *
40191313 TATCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCTGGGTTAGGTCCCGAAGAGC
1 TATCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGC
* *
40191377 AATCATGCTGGTGA
65 ATTCATGCTAGTGA
40191391 CGTGTATTCG
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 220 1.00
81 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
TTCATGCTAGTGATG
Found at i:40191248 original size:120 final size:120
Alignment explanation
Indices: 40191035--40191390 Score: 493
Period size: 120 Copynumber: 3.0 Consensus size: 120
40191025 TTGAATGATG
* * * *
40191035 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGTTCCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGACTAAGTTCCGAAGAGCA
40191098 TTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
64 TTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
*
40191155 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCGAAGAGCATT
*
40191220 CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
***
40191275 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCCCGAAGAGCAT
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG-GACTAAGTTCCGAAGAGCAT
* * * * ** * * * *
40191339 TCGTGCTGGTGTTATATCTGGGTTAGGTCCCGAAGAGCAATCATGCTGGTGA
65 TCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGA
40191391 CGTGTATTCG
Statistics
Matches: 212, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
120 197 0.93
121 8 0.04
122 7 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCGAAGAGCATT
CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:40191377 original size:40 final size:40
Alignment explanation
Indices: 40191073--40191345 Score: 485
Period size: 40 Copynumber: 6.8 Consensus size: 40
40191063 TAAGTGACCA
40191073 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
40191113 TATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
40191153 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
40191193 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
40191233 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
40191273 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
***
40191313 TATCCGTG-CTAAACCCCGAAGAGCATTCGTGCT
1 TATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
40191346 GGTGTTATAT
Statistics
Matches: 226, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
40 225 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:40194968 original size:47 final size:47
Alignment explanation
Indices: 40194910--40195264 Score: 512
Period size: 47 Copynumber: 7.5 Consensus size: 47
40194900 ATTCAGCCAA
* *
40194910 GAAAGTGTATATATGTGATAAGGACTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
40194957 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
40195004 GAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
40195053 GAAAATGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
40195100 GAAAGTGTATATATATGTAATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
40195149 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
40195196 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
40195243 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
40195265 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 190 0.69
49 87 0.31
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:40195026 original size:96 final size:95
Alignment explanation
Indices: 40194910--40195264 Score: 502
Period size: 96 Copynumber: 3.7 Consensus size: 95
40194900 ATTCAGCCAA
*
40194910 GAAAGTG--TATATATGTGATAAGGACTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT
*
40194973 GATAAGGCCTAATGGCCGATGTGCTGAATGT
65 GATAAGGCCTAATGGCCGATGTGATGAATGT
* *
40195004 GAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAATGTATATGTGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATG-CCGATGTGATGAATGTGAAAGTGTATATATGT
*
40195069 GATAAGGCCTAATAGCCGATGTGATGAATGT
65 GATAAGGCCTAATGGCCGATGTGATGAATGT
* *
40195100 GAAAGTGTATATATATGTAATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT
40195165 GATAAGGCCTAATGGCCGATGTGATGAATGT
65 GATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * * *
40195196 GAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT
40195259 GATAAG
65 GATAAG
40195265 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
94 58 0.25
95 1 0.00
96 176 0.75
97 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:40195081 original size:143 final size:141
Alignment explanation
Indices: 40194910--40195264 Score: 521
Period size: 143 Copynumber: 2.5 Consensus size: 141
40194900 ATTCAGCCAA
*
40194910 GAAAGTGTATATATGTGATAAGGACTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40194975 TAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGACCG
40195040 ATGTGATGAATGT
129 ATGTGATGAATGT
* *
40195053 GAAAATGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
* * *
40195118 AATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCG
40195183 ATGTGATGAATGT
129 ATGTGATGAATGT
* * * * * * * * * *
40195196 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40195261 TAAG
66 TAAG
40195265 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
141 12 0.06
143 134 0.71
145 44 0.23
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGAT
GTGATGAATGT
Found at i:40195439 original size:37 final size:37
Alignment explanation
Indices: 40195383--40195461 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40195373 CCGAGCTCTA
* *
40195383 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
40195420 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40195457 AAGAC
1 AAGAC
40195462 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40218459 original size:47 final size:47
Alignment explanation
Indices: 40218401--40218988 Score: 960
Period size: 47 Copynumber: 12.5 Consensus size: 47
40218391 ATTCAGCCAA
*
40218401 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
40218448 GAAAGTGTATATGTGTGATAAGGCCTAATAGTCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218495 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218542 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATCT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218591 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218638 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218685 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
40218732 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218779 GAAAGTGTATATATGCGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
40218826 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
40218873 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * *
40218920 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
40218967 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
40218989 TCCCGAAGGG
Statistics
Matches: 512, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 467 0.91
49 45 0.09
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:40219163 original size:37 final size:37
Alignment explanation
Indices: 40219107--40219185 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40219097 CCGAGCTCTA
* *
40219107 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
40219144 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40219181 AAGAC
1 AAGAC
40219186 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40222706 original size:68 final size:66
Alignment explanation
Indices: 40222526--40222711 Score: 211
Period size: 68 Copynumber: 2.8 Consensus size: 66
40222516 ATATAGTTCG
* *
40222526 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGC--CA-ATTTATCTCGT
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCGT
40222588 A
66 A
* *
40222589 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATATC
1 GCTCTCTTGTAC-ACATGGTGTACAC-TCAGTACCACCCATGTGACCTAGCTACAT-AT-ATATC
*
40222652 TTGTA
62 TCGTA
* * * **
40222657 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATA
40222712 CTATCTGTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 42 0.41
64 1 0.01
65 2 0.02
67 4 0.04
68 51 0.50
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTACCACCCATGTGACCTAGCTACATATATATCTCGT
A
Found at i:40223410 original size:30 final size:30
Alignment explanation
Indices: 40223376--40223436 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40223366 TCCTTAACTC
40223376 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
40223406 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
40223436 A
1 A
40223437 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:40229495 original size:30 final size:31
Alignment explanation
Indices: 40229429--40229506 Score: 122
Period size: 30 Copynumber: 2.5 Consensus size: 31
40229419 CTCAACATAT
**
40229429 ACTGGGCCGAAGCCTTTGCATTATTCATGTC
1 ACTGGGCCGAAGCCTTTGCATTATTCATACC
*
40229460 ACTGGGCCGAAGCCTTTTCATTA-TCATACC
1 ACTGGGCCGAAGCCTTTGCATTATTCATACC
40229490 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40229507 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 22 0.50
31 22 0.50
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTGCATTATTCATACC
Found at i:40229755 original size:25 final size:25
Alignment explanation
Indices: 40229727--40229796 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
40229717 CTCTTTTAAT
*
40229727 AACTGGGGTAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
40229752 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
40229777 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
40229797 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:40229869 original size:20 final size:20
Alignment explanation
Indices: 40229844--40229900 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
40229834 TATATGAATT
40229844 TATCATGTGCATA-CAATACA
1 TATCATGTGCATATC-ATACA
40229864 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
40229884 TATCATGTGCATATCAT
1 TATCATGTGCATATCAT
40229901 GTCAAATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:40229878 original size:11 final size:11
Alignment explanation
Indices: 40229844--40229912 Score: 67
Period size: 11 Copynumber: 6.7 Consensus size: 11
40229834 TATATGAATT
40229844 TATCATGTGCA
1 TATCATGTGCA
* *
40229855 TA-CA-ATACA
1 TATCATGTGCA
40229864 TATCATGTGCA
1 TATCATGTGCA
*
40229875 TATCA--TACA
1 TATCATGTGCA
40229884 TATCATGTGCA
1 TATCATGTGCA
40229895 TATCATGT-CA
1 TATCATGTGCA
*
40229905 AATCATGT
1 TATCATGT
40229913 ATATCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 13 0.28
10 13 0.28
11 21 0.45
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:40254072 original size:96 final size:94
Alignment explanation
Indices: 40253965--40254645 Score: 1024
Period size: 96 Copynumber: 7.3 Consensus size: 94
40253955 GATAATTGTG
* *
40253965 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
40254030 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254059 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGAATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40254124 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254155 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40254220 ATGTGATAAGGCCTAATGGCCGA--TG-TG-
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254247 A--T-----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
40254305 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254334 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
40254399 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
40254430 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
40254495 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254526 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * ** *
40254591 GTGACAGGGCCGAGTGGCCAACATGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
40254620 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40254646 TCCCGAAGGG
Statistics
Matches: 542, Mismatches: 28, Indels: 34
0.90 0.05 0.06
Matches are distributed among these distances:
83 27 0.05
85 48 0.09
86 2 0.00
87 1 0.00
89 1 0.00
90 1 0.00
92 1 0.00
93 2 0.00
94 199 0.37
96 215 0.40
98 45 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40254256 original size:36 final size:36
Alignment explanation
Indices: 40254215--40254284 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
40254205 TGAAAGTGTA
*
40254215 TATATATGTGATAAGGCCTAATGGCCGATGTGATTG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATTG
40254251 TATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TATATATGTGATAAGGCCTAATAGCCGATGTGAT
40254285 GAATGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (36 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATTG
Found at i:40254351 original size:49 final size:47
Alignment explanation
Indices: 40253965--40254645 Score: 1024
Period size: 47 Copynumber: 14.6 Consensus size: 47
40253955 GATAATTGTG
* *
40253965 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40254012 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254059 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40254106 ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254155 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40254202 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA--TG-TG-
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254247 A--T-----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254287 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40254334 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40254381 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40254430 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254479 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254526 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * ** *
40254573 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACATGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40254620 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40254646 TCCCGAAGGG
Statistics
Matches: 584, Mismatches: 33, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
36 27 0.05
38 4 0.01
39 2 0.00
40 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 2 0.00
47 380 0.65
49 165 0.28
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40254496 original size:275 final size:279
Alignment explanation
Indices: 40253976--40254645 Score: 1073
Period size: 275 Copynumber: 2.4 Consensus size: 279
40253966 TGTGAATGTA
40253976 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
40254041 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
40254106 ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
40254171 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
196 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAA
*
40254236 TGGCCGA-TG-TG-A-T-TG
260 TAGCCGAGTGATGAAGTATG
* *
40254251 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
40254316 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
40254381 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
40254446 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTA
194 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTA
40254510 ATAGCCGATGTGATGAATGTGAAAGTG
259 ATAGCCGA-GTGATGAA-GT---A-TG
* * *
40254537 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * ** * *
40254602 GAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
40254646 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 18, Indels: 15
0.92 0.05 0.04
Matches are distributed among these distances:
275 214 0.59
277 47 0.13
278 2 0.01
279 1 0.00
281 1 0.00
286 99 0.27
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (279 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAAAGTGAATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAT
AGCCGAGTGATGAAGTATG
Found at i:40256599 original size:17 final size:17
Alignment explanation
Indices: 40256573--40256606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40256563 GTCATCTCCA
*
40256573 CTCATTTCTTTTGCAAT
1 CTCATCTCTTTTGCAAT
*
40256590 CTCATCTCTTTTTCAAT
1 CTCATCTCTTTTGCAAT
40256607 TGCTTATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (17 bp):
CTCATCTCTTTTGCAAT
Found at i:40256746 original size:49 final size:50
Alignment explanation
Indices: 40256638--40256752 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 50
40256628 CCACTCTCAA
40256638 TCTCTTTTTCAATTTTATTTTCTCATTCAAGTTCTATTTCTTTTCTTTCAC
1 TCTCTTTTTCAATTTTATTTTCTCATTCAAGTTC-ATTTCTTTTCTTTCAC
*
40256689 TCTCTTTTTCAATTTTATTTTCTCGTTCAAGTTC-TTTCTTTTCTTTCAC
1 TCTCTTTTTCAATTTTATTTTCTCATTCAAGTTCATTTCTTTTCTTTCAC
40256738 TCTCTTTTTC-ATTTT
1 TCTCTTTTTCAATTTT
40256753 CACATGATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
48 5 0.08
49 25 0.40
51 33 0.52
ACGTcount: A:0.13, C:0.22, G:0.03, T:0.63
Consensus pattern (50 bp):
TCTCTTTTTCAATTTTATTTTCTCATTCAAGTTCATTTCTTTTCTTTCAC
Found at i:40261481 original size:42 final size:42
Alignment explanation
Indices: 40261424--40261585 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 42
40261414 TTGGGTTGAC
* * *
40261424 GAGATCTCGTATAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATCTCGTATAAGACCACATCTGGGACATGGCATCGATAT
* * * * *
40261466 GAGATTTCGTGTAAGACCACGTTTGGGACATGGCATCGAAAT
1 GAGATCTCGTATAAGACCACATCTGGGACATGGCATCGATAT
* * * *
40261508 GAGA-CTTCGTATAAGACC-CTATCTGAGATATGGCATCAATGT
1 GAGATC-TCGTATAAGACCAC-ATCTGGGACATGGCATCGATAT
* * * *
40261550 GAGATCCCATGTAAGACCACGTCTGGGACATGGCAT
1 GAGATCTCGTATAAGACCACATCTGGGACATGGCAT
40261586 TGGCATCTTA
Statistics
Matches: 93, Mismatches: 23, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 90 0.97
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGATCTCGTATAAGACCACATCTGGGACATGGCATCGATAT
Found at i:40261571 original size:84 final size:84
Alignment explanation
Indices: 40261430--40261585 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
40261420 TGACGAGATC
* ** ** * *
40261430 TCGTATAAGACCATATCTGGGATATGGCATTGATATGAGATTTCGTGTAAGACCACGTTTGGGAC
1 TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
40261495 ATGGCATCGAAATGAGACT
66 ATGGCATCGAAATGAGACT
* *
40261514 TCGTATAAGACCCTATCTGAGATATGGCATCAATGTGAGATCCCATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
40261579 ATGGCAT
66 ATGGCAT
40261586 TGGCATCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (84 bp):
TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
ATGGCATCGAAATGAGACT
Found at i:40264728 original size:71 final size:71
Alignment explanation
Indices: 40264612--40264755 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
40264602 AACACTTAGT
40264612 ACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
1 ACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
40264677 AATCAC
66 AATCAC
*
40264683 ACCACCCATGTGACCTAGCCAATTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
1 ACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
40264748 AATCAC
66 AATCAC
40264754 AC
1 AC
40264756 ATGCGACCTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (71 bp):
ACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
AATCAC
Found at i:40264788 original size:71 final size:70
Alignment explanation
Indices: 40264612--40264804 Score: 252
Period size: 71 Copynumber: 2.7 Consensus size: 70
40264602 AACACTTAGT
*
40264612 ACCACCCATGTGACCTAGCCAATTTATC-TCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCA-CCATGCGACCTAGCCAATTTATCTTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
40264676 GAATCAC
65 GAAT-AC
*
40264683 ACCACCCATGTGACCTAGCCAATTTATCTT-GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCA-CCATGCGACCTAGCCAATTTATCTTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
40264747 GAAT-C
65 GAATAC
* *
40264752 A-CA-CATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTTTACATGG
1 ACCACCATGCGACCTAGCCA-ATTTATCT-T--CGTAGCTCTCTTGTCTACATGG
40264805 GATACATCCC
Statistics
Matches: 113, Mismatches: 3, Indels: 12
0.88 0.02 0.09
Matches are distributed among these distances:
66 13 0.12
67 8 0.07
68 3 0.03
69 2 0.02
71 86 0.76
72 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.34
Consensus pattern (70 bp):
ACCACCATGCGACCTAGCCAATTTATCTTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
AATAC
Found at i:40270350 original size:28 final size:28
Alignment explanation
Indices: 40270287--40270384 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
40270277 ATATTAAGTC
*
40270287 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40270314 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40270342 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40270371 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40270385 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40300705 original size:27 final size:27
Alignment explanation
Indices: 40300667--40300946 Score: 310
Period size: 27 Copynumber: 10.4 Consensus size: 27
40300657 TAAGACCTTT
* *
40300667 GTTTGTAAAATTACTGAAATACCCTCG
1 GTTTGTAAAATTACCGAAATACCCCCG
* *
40300694 GTTTATAAAATTATCGAAATACCCCCG
1 GTTTGTAAAATTACCGAAATACCCCCG
* * *
40300721 GTTTGTAAGATTACCAAAATACCCTCG
1 GTTTGTAAAATTACCGAAATACCCCCG
* *
40300748 ATTTGTAAACTTACCGAAATACCCCCG
1 GTTTGTAAAATTACCGAAATACCCCCG
* * *
40300775 ATTTGTAAAATTACTGAAATA-CCCCA
1 GTTTGTAAAATTACCGAAATACCCCCG
* ****
40300801 ATTTGTAAAATTACCGAAATACCTTTA
1 GTTTGTAAAATTACCGAAATACCCCCG
* **
40300828 GTTTGTAAGATTACCGAAATACCCCTA
1 GTTTGTAAAATTACCGAAATACCCCCG
* *
40300855 GTTTGTAAAATTATCGAAATACCCCTG
1 GTTTGTAAAATTACCGAAATACCCCCG
* *
40300882 GTTTGTAAGACTACCGAAATACCCCCG
1 GTTTGTAAAATTACCGAAATACCCCCG
* *
40300909 GTTTGTAAGACTACCGAAATACCCCCG
1 GTTTGTAAAATTACCGAAATACCCCCG
*
40300936 ATTTGTAAAAT
1 GTTTGTAAAAT
40300947 GATCATAATA
Statistics
Matches: 217, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 24 0.11
27 193 0.89
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (27 bp):
GTTTGTAAAATTACCGAAATACCCCCG
Found at i:40304657 original size:16 final size:16
Alignment explanation
Indices: 40304615--40304664 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
40304605 ACGTAGCATT
40304615 ATAACCAAA-T-AAAC
1 ATAACCAAATTCAAAC
* *
40304629 TTAAACCATATTCAAAC
1 AT-AACCAAATTCAAAC
*
40304646 ATAACCAAATTCAAGC
1 ATAACCAAATTCAAAC
40304662 ATA
1 ATA
40304665 GAAGTTAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 6 0.21
16 16 0.57
17 5 0.18
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAACCAAATTCAAAC
Found at i:40305572 original size:45 final size:45
Alignment explanation
Indices: 40305470--40305590 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 45
40305460 ATGCTGATGA
* * * * *
40305470 CCCAGACATGGTCTTATATGTAACCAAATATATCGATGCCAACGT
1 CCCAGACATGGTCTTACACGAAAACACATATATCGATGCCAACGT
* * ** *
40305515 CTCAAATGTGGTCTTACACGAAAACACATATATTGATGCCAACGT
1 CCCAGACATGGTCTTACACGAAAACACATATATCGATGCCAACGT
*
40305560 CCCAGACATGGTCTTACACAAAAACACATAT
1 CCCAGACATGGTCTTACACGAAAACACATAT
40305591 TGGAATCCTA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (45 bp):
CCCAGACATGGTCTTACACGAAAACACATATATCGATGCCAACGT
Found at i:40306226 original size:24 final size:25
Alignment explanation
Indices: 40306193--40306239 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40306183 AACAAACAAC
*
40306193 ACATAGCTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
40306217 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
40306240 AATCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:40310148 original size:23 final size:26
Alignment explanation
Indices: 40310081--40310184 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
40310071 TGAAATGCCC
*
40310081 ATCATGGAACATTTACCTAAACC-TT
1 ATCATGGAACATTTACCTAACCCATT
40310106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
40310132 ATCATGG-A-A-TTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
40310155 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40310181 ATCA
1 ATCA
40310185 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
23 20 0.28
24 2 0.03
25 24 0.33
26 26 0.36
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40310939 original size:20 final size:20
Alignment explanation
Indices: 40310916--40310956 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
40310906 GAATCTCAGA
40310916 TCTTCTTCCAAGGTGAAACC
1 TCTTCTTCCAAGGTGAAACC
40310936 TCTTCTTCCAAGGTGAAACC
1 TCTTCTTCCAAGGTGAAACC
40310956 T
1 T
40310957 TTAAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (20 bp):
TCTTCTTCCAAGGTGAAACC
Found at i:40317111 original size:26 final size:26
Alignment explanation
Indices: 40317076--40317183 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
40317066 TGAAATGCCC
*
40317076 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
40317102 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
40317128 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
40317154 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40317180 ATCA
1 ATCA
40317184 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.