Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 82 of 770
Found at i:24193080 original size:53 final size:53
Alignment explanation
Indices: 24193013--24193169 Score: 228
Period size: 53 Copynumber: 2.9 Consensus size: 53
24193003 AAATACTTTG
*
24193013 GTTTATAAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTG-TTTGTAAAATTACTAAAATACCCCTA
*
24193066 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATTAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCCCTA
* * *
24193120 G-TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACTAAAATACCC
24193170 TCGACCTGTA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
53 65 0.68
54 30 0.31
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
GTTTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACTAAAATACCCCTA
Found at i:24193151 original size:80 final size:81
Alignment explanation
Indices: 24193018--24193223 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
24193008 CTTTGGTTTA
** * *
24193018 TAAAATTACCAAAATACCCT-G-CTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACC
1 TAAAATTATTAAAATACCCTCGAC-TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACC
**
24193081 AAAATACCCCTAG-TTTG
65 AAAATA-CCCTAGACCTG
* * * **
24193098 TAAAATTATTAAAATACCC-CTAGTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 TAAAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCA
*
24193162 AAATACCCTCGACCTG
66 AAATACCCTAGACCTG
* *
24193178 TAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 TAAAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAATACCC
24193224 TCGATTTATA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
79 5 0.05
80 78 0.74
81 23 0.22
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TAAAATTATTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCA
AAATACCCTAGACCTG
Found at i:24193238 original size:27 final size:27
Alignment explanation
Indices: 24193192--24193618 Score: 387
Period size: 27 Copynumber: 15.9 Consensus size: 27
24193182 ATTATTGAAA
* * * ***
24193192 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
*
24193219 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
24193246 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
24193273 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
24193300 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCATTT
*
24193327 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
24193354 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTATAGAATTACCATTT
* * *
24193381 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTATAGAATTACCATTT
* * *
24193408 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * * *
24193435 TACCCACAATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
24193462 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCATTT
* * *
24193489 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
24193516 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
24193543 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
24193570 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
24193597 TACCCTCGATTTA-AAAATTACC
1 TACCCTCGATTTATAGAATTACC
24193619 GAAATACCCT
Statistics
Matches: 346, Mismatches: 48, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.03
27 334 0.97
28 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:24193239 original size:54 final size:54
Alignment explanation
Indices: 24193014--24193296 Score: 148
Period size: 54 Copynumber: 5.3 Consensus size: 54
24193004 AATACTTTGG
* * * * *
24193014 TTTATAAAATTACCAAAATACCCT-G-CTTTGTAAAATTACTAAAATACCC-CTA
1 TTTATAGAATTACCGAAATACCCTCGAC-TTGTAAAATTACCAAAGTACCCTCGA
* * * * * ** * *
24193066 GTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTATTAAAATACCC-CTA
1 -TTTATAGAATTACCGAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCTCGA
* * * * * * * *
24193120 GTTGTAAAATTACCAAAATACCC-CTAATTTGTGAAATTACTGAAA-TACCCTCGA
1 TTTATAGAATTACCGAAATACCCTC-GACTTGTAAAATTAC-CAAAGTACCCTCGA
** * * **
24193174 CCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
1 TTTATAGAATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
*** * ****
24193228 TTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGA
1 TTTATAGAATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
24193282 TTTATAGAATTACCG
1 TTTATAGAATTACCG
24193297 TTTTACCCTC
Statistics
Matches: 189, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
53 64 0.34
54 124 0.66
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (54 bp):
TTTATAGAATTACCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
Found at i:24193250 original size:81 final size:80
Alignment explanation
Indices: 24193018--24193266 Score: 218
Period size: 80 Copynumber: 3.1 Consensus size: 80
24193008 CTTTGGTTTA
** * * * * * *
24193018 TAAAATTACCAAAATACCCTG-CTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCA
1 TAAAATTATTAAAATACCCCGAC-TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCG
* **
24193082 AAATACCC-CTAGTTTG
65 AAATACCCTCGA-CCTG
* * * *
24193098 TAAAATTATTAAAATACCCCTAGTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGA
1 TAAAATTATTAAAATACCCCGACTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGA
24193163 AATACCCTCGACCTG
66 AATACCCTCGACCTG
* * *
24193178 TAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTA-CCCTCGATTTAT-AGAATTAC
1 TAAAATTATTAAAATACCC-CGACTTGTAAAATTACCAAAATACCCCT-AATTTATGA-AATTAC
*** **
24193241 CGTTTTACCCTCGATTTG
63 CGAAATACCCTCGACCTG
24193259 TAAAATTA
1 TAAAATTA
24193267 CCGTTTTACC
Statistics
Matches: 139, Mismatches: 25, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
80 86 0.62
81 53 0.38
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
TAAAATTATTAAAATACCCCGACTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACCGA
AATACCCTCGACCTG
Found at i:24193277 original size:81 final size:81
Alignment explanation
Indices: 24193219--24193619 Score: 488
Period size: 81 Copynumber: 5.0 Consensus size: 81
24193209 ATTACCAAAG
* * ** *
24193219 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
24193284 TATAGAATTACCGTTT
66 TACATAATTACCGTTT
* * * * *
24193300 TACCCTC-AGTTTACAGAATTACTATTTTACCCTTGATTTATAGAATTACCATTTTACCC-CTAA
1 TACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-GA
24193363 TTTACATAATTACCGTTT
64 TTTACATAATTACCGTTT
* * * * *
24193381 TACCC-CTGATTTACATAATTATCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCACAAT
1 TACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
24193445 TTACATAATTACCGTTT
65 TTACATAATTACCGTTT
* * * *
24193462 TACCC-CTGATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGAT
1 TACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
*
24193526 TTACAGAATTACCGTTT
65 TTACATAATTACCGTTT
* * * *
24193543 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
24193608 TA-AAAATTACCG
66 TACATAATTACCG
24193620 AAATACCCTC
Statistics
Matches: 284, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
80 12 0.04
81 269 0.95
82 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACATAATTACCGTTT
Found at i:24193661 original size:27 final size:27
Alignment explanation
Indices: 24193597--24193654 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
24193587 ATTACTGTTT
* * *
24193597 TACCCTCGATTT-AAAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
24193623 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
24193650 TACCC
1 TACCC
24193655 CTGATTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:24193736 original size:27 final size:26
Alignment explanation
Indices: 24193689--24193744 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
24193679 CCCTTGACTT
*
24193689 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
24193715 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
24193742 TTT
1 TTT
24193745 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:24193862 original size:27 final size:27
Alignment explanation
Indices: 24193798--24193862 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
24193788 ACCCCTAAAA
*
24193798 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
24193825 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
24193852 GGTAAAATGAC
1 GGTAAAATGAC
24193863 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:24195049 original size:25 final size:25
Alignment explanation
Indices: 24195020--24195067 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24195010 TTATAATATG
* * *
24195020 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
24195045 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
24195068 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:24195136 original size:20 final size:20
Alignment explanation
Indices: 24195111--24195169 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
24195101 TAAATATGGT
24195111 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
24195131 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
24195151 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
24195170 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:24195247 original size:24 final size:24
Alignment explanation
Indices: 24195220--24195362 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
24195210 GAGGAAGTGA
24195220 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24195244 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24195268 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
24195291 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
24195315 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
24195339 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24195363 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:24195313 original size:47 final size:47
Alignment explanation
Indices: 24195220--24195362 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
24195210 GAGGAAGTGA
24195220 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
24195268 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
24195315 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
24195363 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:24195336 original size:71 final size:72
Alignment explanation
Indices: 24195220--24195363 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
24195210 GAGGAAGTGA
*
24195220 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
24195283 CCAGTTAT
65 CCAGTTAT
** * *
24195291 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
24195356 CAGTTAT
66 CAGTTAT
24195363 A
1 A
24195364 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:24195589 original size:31 final size:31
Alignment explanation
Indices: 24195554--24195617 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
24195544 CGTTTACAGT
24195554 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
24195585 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24195616 AA
1 AA
24195618 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24198481 original size:27 final size:27
Alignment explanation
Indices: 24198422--24198579 Score: 230
Period size: 27 Copynumber: 5.9 Consensus size: 27
24198412 AAATACTTTG
*
24198422 GTTTATAAAATTACCAAAATA-CCCT-
1 GTTTGTAAAATTACCAAAATACCCCTA
*
24198447 GCTTTGTAAAATTACTAAAATACCCCTA
1 G-TTTGTAAAATTACCAAAATACCCCTA
24198475 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
*
24198502 GTTTGTAAAATTATCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
24198529 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCAAAATACCCCTA
* * **
24198556 ATTTGTGAAATTACTGAAATACCC
1 GTTTGTAAAATTACCAAAATACCC
24198580 TCGACCTGTA
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
25 1 0.01
26 18 0.15
27 101 0.83
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
GTTTGTAAAATTACCAAAATACCCCTA
Found at i:24198590 original size:81 final size:80
Alignment explanation
Indices: 24198427--24198633 Score: 229
Period size: 81 Copynumber: 2.6 Consensus size: 80
24198417 CTTTGGTTTA
* * * *
24198427 TAAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAA
1 TAAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAA
* **
24198492 AATACCCCTAGTTTG
66 AATACCCCGAGCCTG
* *
24198507 TAAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACT
1 TAAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACC
*
24198571 GAAATACCCTCGA-CCTG
64 AAAATACCC-CGAGCCTG
** * * *
24198588 TAAAATTATTGAAATACCCTCGACTTATAAAATTACCAAAGTACCC
1 TAAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCC
24198634 TCGATTTATA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
80 19 0.18
81 85 0.79
82 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (80 bp):
TAAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAA
AATACCCCGAGCCTG
Found at i:24198642 original size:27 final size:27
Alignment explanation
Indices: 24198427--24198705 Score: 208
Period size: 27 Copynumber: 10.4 Consensus size: 27
24198417 CTTTGGTTTA
*
24198427 TAAAATTACCAAAATACCCT-GCTTTG
1 TAAAATTACCAAAATACCCTCGATTTG
* *
24198453 TAAAATTACTAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTG
*
24198480 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTG
* *
24198507 TAAAATTATCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTG
*
24198534 TAAAATTACCAAAATACCC-CTAATTTG
1 TAAAATTACCAAAATACCCTC-GATTTG
* ** **
24198561 TGAAATTACTGAAATACCCTCGACCTG
1 TAAAATTACCAAAATACCCTCGATTTG
*** * *
24198588 TAAAATTATTGAAATACCCTCGACTTA
1 TAAAATTACCAAAATACCCTCGATTTG
* *
24198615 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTG
* **** *
24198642 TAGAATTACCGTTTTACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTG
**** *
24198669 TAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTG
*
24198696 TAGAATTACC
1 TAAAATTACC
24198706 GTTTTACCCT
Statistics
Matches: 216, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.08
27 196 0.91
28 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTG
Found at i:24198706 original size:27 final size:27
Alignment explanation
Indices: 24198629--24199030 Score: 479
Period size: 27 Copynumber: 14.9 Consensus size: 27
24198619 ATTACCAAAG
*
24198629 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** *
24198656 TACCCTCAATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
24198683 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
24198710 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* * *
24198737 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
24198764 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
24198791 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
24198818 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
24198845 TACCCACAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
24198872 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
24198899 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
24198926 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
24198953 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
24198980 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
24199007 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTACAGAATTACCG
24199031 AAATACCCTC
Statistics
Matches: 326, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 321 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:24199037 original size:27 final size:27
Alignment explanation
Indices: 24198602--24199082 Score: 314
Period size: 27 Copynumber: 17.8 Consensus size: 27
24198592 ATTATTGAAA
* * * **
24198602 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCGATT
* * *
24198629 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* ** *
24198656 TACCCTCAATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * *
24198683 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
24198710 TACCCTC-AGTTTACAGAATTA-CTATTT
1 TACCCTCGA-TTTACAAAATTACCGA-TT
* * *
24198737 TACCCTTGATTTATAGAATTACC-ATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* * *
24198764 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAAAATTACCGATT
* *
24198791 TACCC-CTGATTTACATAATTATC-ATTT
1 TACCCTC-GATTTACAAAATTACCGA-TT
* * *
24198818 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * * *
24198845 TACCCACAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * *
24198872 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAAAATTACCGATT
* * *
24198899 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
24198926 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * *
24198953 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* * * *
24198980 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGATT
**
24199007 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCGATT
* ** * **
24199034 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCGATT
*
24199061 TACCC-CTGATTTACAAAGTTAC
1 TACCCTC-GATTTACAAAATTAC
24199083 AGAAATACCC
Statistics
Matches: 379, Mismatches: 61, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.01
27 370 0.98
28 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGATT
Found at i:24199088 original size:27 final size:28
Alignment explanation
Indices: 24199009--24199092 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 28
24198999 TACTGTTTTA
*
24199009 CCCTCGATTTACAAAATTACCGAAATA-
1 CCCTCGATTTACAAAATTACAGAAATAC
* **
24199036 CCCTCAATTTGTAAAATTACCA-AAATAC
1 CCCTCGATTTACAAAATTA-CAGAAATAC
*
24199064 CCCT-GATTTACAAAGTTACAGAAATAC
1 CCCTCGATTTACAAAATTACAGAAATAC
24199091 CC
1 CC
24199093 TTGACTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.04
27 39 0.85
28 5 0.11
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (28 bp):
CCCTCGATTTACAAAATTACAGAAATAC
Found at i:24199147 original size:27 final size:26
Alignment explanation
Indices: 24199100--24199155 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
24199090 CCCTTGACTT
*
24199100 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
24199126 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
24199153 TTT
1 TTT
24199156 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:24199273 original size:27 final size:27
Alignment explanation
Indices: 24199209--24199273 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
24199199 ACCCCTAAAA
*
24199209 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
24199236 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
24199263 GGTAAAATGAC
1 GGTAAAATGAC
24199274 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:24200459 original size:25 final size:25
Alignment explanation
Indices: 24200430--24200477 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24200420 TTATAATATG
* * *
24200430 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
24200455 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
24200478 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:24200546 original size:20 final size:20
Alignment explanation
Indices: 24200521--24200579 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
24200511 TAAATATGGT
24200521 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
24200541 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
24200561 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
24200580 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:24200657 original size:24 final size:24
Alignment explanation
Indices: 24200630--24200772 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
24200620 GAGGAAGTGA
24200630 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24200654 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24200678 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
24200701 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
24200725 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
24200749 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24200773 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:24200723 original size:47 final size:47
Alignment explanation
Indices: 24200630--24200772 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
24200620 GAGGAAGTGA
24200630 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
24200678 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
24200725 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
24200773 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:24200746 original size:71 final size:72
Alignment explanation
Indices: 24200630--24200773 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
24200620 GAGGAAGTGA
*
24200630 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
24200693 CCAGTTAT
65 CCAGTTAT
** * *
24200701 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
24200766 CAGTTAT
66 CAGTTAT
24200773 A
1 A
24200774 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:24200999 original size:31 final size:31
Alignment explanation
Indices: 24200964--24201027 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
24200954 CGTTTACAGT
24200964 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
24200995 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24201026 AA
1 AA
24201028 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24210654 original size:24 final size:24
Alignment explanation
Indices: 24210617--24210796 Score: 306
Period size: 24 Copynumber: 7.4 Consensus size: 24
24210607 CTAGAGGCCT
*
24210617 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
24210642 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
24210666 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
24210690 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
24210714 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
24210739 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
24210763 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
24210788 AGCCCTTTT
1 AGCCCTTTT
24210797 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
24 96 0.65
25 52 0.35
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:24210748 original size:49 final size:49
Alignment explanation
Indices: 24210623--24210796 Score: 314
Period size: 49 Copynumber: 3.6 Consensus size: 49
24210613 GCCTAGCCTC
* *
24210623 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
24210671 TTTTGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
24210720 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
24210769 TTTTAATAACTGGGGCATAAGCCCTTTT
1 TTTTAATAACTGGGGCATAAGCCCTTTT
24210797 GCACTTCCTC
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
48 45 0.37
49 76 0.63
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:24210871 original size:20 final size:20
Alignment explanation
Indices: 24210846--24210912 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
24210836 TTATGAAGAC
24210846 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
24210866 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
24210886 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
24210906 ACCATGT
1 ATCATGT
24210913 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:24210877 original size:11 final size:11
Alignment explanation
Indices: 24210846--24210901 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
24210836 TTATGAAGAC
24210846 ATCATGTGCAT
1 ATCATGTGCAT
*
24210857 ATCA--TACAT
1 ATCATGTGCAT
24210866 ATCATGTGCAT
1 ATCATGTGCAT
*
24210877 ATCA--TACAT
1 ATCATGTGCAT
*
24210886 GTCATGTGCAT
1 ATCATGTGCAT
24210897 ATCAT
1 ATCAT
24210902 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:24210981 original size:25 final size:25
Alignment explanation
Indices: 24210949--24210996 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24210939 ATATATAAAC
* * *
24210949 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
24210974 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
24210997 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:24221741 original size:46 final size:44
Alignment explanation
Indices: 24221668--24221795 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 44
24221658 GGGTTATTTG
* **
24221668 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAAA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAAAAAA
* *
24221712 TGTAAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCTAAAAAA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAAAA
*
24221758 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
24221796 TAGGGATAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.20
45 15 0.21
46 42 0.59
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAAAA
Found at i:24237092 original size:22 final size:23
Alignment explanation
Indices: 24237053--24237102 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
24237043 ATATATATTT
* *
24237053 TTTATTTTTATATATTTTTAA-A
1 TTTATTCTTATATATTTTAAATA
* *
24237075 TTTATTCTTGTATTTTTTAAATA
1 TTTATTCTTATATATTTTAAATA
24237098 TTTAT
1 TTTAT
24237103 GTATTTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTATTCTTATATATTTTAAATA
Found at i:24237093 original size:21 final size:22
Alignment explanation
Indices: 24237053--24237096 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24237043 ATATATATTT
*
24237053 TTTATTTTTATATATTTTTAAA
1 TTTATTCTTATATATTTTTAAA
*
24237075 TTTATTCTTGTAT-TTTTTAAA
1 TTTATTCTTATATATTTTTAAA
24237096 T
1 T
24237097 ATTTATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTCTTATATATTTTTAAA
Found at i:24237099 original size:19 final size:20
Alignment explanation
Indices: 24237048--24237109 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 20
24237038 TTTACATATA
*
24237048 TATTTTTT--ATT-TTTATA
1 TATTTTTTAAATTATTTATG
24237065 TA-TTTTTAAATTTATTCT-TG
1 TATTTTTTAAA-TTATT-TATG
24237085 TATTTTTTAAA-TATTTATG
1 TATTTTTTAAATTATTTATG
24237104 TATTTT
1 TATTTT
24237110 ATATATTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
16 5 0.14
17 2 0.05
18 2 0.05
19 14 0.38
20 5 0.14
21 9 0.24
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTTTTTAAATTATTTATG
Found at i:24240148 original size:20 final size:17
Alignment explanation
Indices: 24240132--24240166 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24240122 ATAAAATATG
24240132 TATAATAAAATTAAAATA
1 TATAA-AAAATTAAAATA
*
24240150 TATAAAATATTAAAATA
1 TATAAAAAATTAAAATA
24240167 AAACTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATTAAAATA
Found at i:24243588 original size:28 final size:28
Alignment explanation
Indices: 24243556--24243647 Score: 69
Period size: 33 Copynumber: 3.1 Consensus size: 28
24243546 GGGCTTTAGC
24243556 CCTTAAACAATAGCAATATGGGCCTAAG
1 CCTTAAACAATAGCAATATGGGCCTAAG
* * * *
24243584 CCTTATTCAGTAACAGTA-CAGTCTGGGCCTTAG
1 CC---TT-A--AACAATAGCAATATGGGCCTAAG
*
24243617 CCCTTAAACAATAGCAATATGGGCTTAAG
1 -CCTTAAACAATAGCAATATGGGCCTAAG
24243646 CC
1 CC
24243648 CAAATTCAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
28 10 0.21
29 11 0.23
30 1 0.02
31 4 0.09
32 1 0.02
33 12 0.26
34 8 0.17
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (28 bp):
CCTTAAACAATAGCAATATGGGCCTAAG
Found at i:24243611 original size:33 final size:33
Alignment explanation
Indices: 24243497--24243618 Score: 101
Period size: 33 Copynumber: 3.8 Consensus size: 33
24243487 TGAATAACAT
* * *
24243497 AGTATCAGTACAATCTTGGCCAAAGCCTTATTC
1 AGTAACAGTACAATCTGGGCCTAAGCCTTATTC
* * * *
24243530 AGTAACAGTACAGTCTGGGCTTTAGCC--CTT-
1 AGTAACAGTACAATCTGGGCCTAAGCCTTATTC
* *
24243560 A--AACAATAGCAATATGGGCCTAAGCCTTATTC
1 AGTAACAGTA-CAATCTGGGCCTAAGCCTTATTC
* *
24243592 AGTAACAGTACAGTCTGGGCCTTAGCC
1 AGTAACAGTACAATCTGGGCCTAAGCC
24243619 CTTAAACAAT
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
28 6 0.09
29 13 0.20
30 1 0.02
31 4 0.06
32 1 0.02
33 35 0.53
34 6 0.09
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (33 bp):
AGTAACAGTACAATCTGGGCCTAAGCCTTATTC
Found at i:24243617 original size:62 final size:62
Alignment explanation
Indices: 24243514--24243647 Score: 241
Period size: 62 Copynumber: 2.2 Consensus size: 62
24243504 GTACAATCTT
* *
24243514 GGCCAAAGCCTTATTCAGTAACAGTACAGTCTGGGCTTTAGCCCTTAAACAATAGCAATATG
1 GGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAACAATAGCAATATG
24243576 GGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAACAATAGCAATATG
1 GGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAACAATAGCAATATG
*
24243638 GGCTTAAGCC
1 GGCCTAAGCC
24243648 CAAATTCAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (62 bp):
GGCCTAAGCCTTATTCAGTAACAGTACAGTCTGGGCCTTAGCCCTTAAACAATAGCAATATG
Found at i:24243956 original size:24 final size:25
Alignment explanation
Indices: 24243929--24243980 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
24243919 GCCTAGCCTC
24243929 TTTTAAT-AACTAGGGTAAAGCCCT
1 TTTTAATAAACTAGGGTAAAGCCCT
* *
24243953 TTTTGATAAACTGGGGTAAAGCCCT
1 TTTTAATAAACTAGGGTAAAGCCCT
24243978 TTT
1 TTT
24243981 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (25 bp):
TTTTAATAAACTAGGGTAAAGCCCT
Found at i:24243970 original size:25 final size:25
Alignment explanation
Indices: 24243936--24244005 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
24243926 CTCTTTTAAT
* *
24243936 AACTAGGGTAAAGCCCTTTTTGATA
1 AACTGGGGTAAAGCCCTTTTCGATA
*
24243961 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGTAAAGCCCTTTTCGATA
* *
24243986 AACTGGGGCATAGCCCTTTT
1 AACTGGGGTAAAGCCCTTTT
24244006 AGCACTTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
AACTGGGGTAAAGCCCTTTTCGATA
Found at i:24244968 original size:27 final size:27
Alignment explanation
Indices: 24244938--24245044 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
24244928 GTAAATCTAC
24244938 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
**
24244965 AAACCAATTGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** **
24244991 AGAAAGTTAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
24245021 AAATCAGGGGTATTTTGGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
24245045 AACAAATTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.62
28 7 0.11
29 15 0.24
30 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:24245051 original size:27 final size:27
Alignment explanation
Indices: 24245001--24245157 Score: 131
Period size: 27 Copynumber: 5.8 Consensus size: 27
24244991 AGAAAGTTAA
* ***
24245001 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTAACAAATCAG
*
24245028 GGGTATTTTGGTAATTTAACAAAT-TG
1 GGGTATTTTGGTAATTTAACAAATCAG
* * *
24245054 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTAACAAATCAG
* *
24245082 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTAACAAATC-AG
* **
24245109 GGGTATTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTGGTAATT-TAACAAATCAG
* *
24245136 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTAACAA
24245158 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.04
27 95 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTAACAAATCAG
Found at i:24245140 original size:81 final size:81
Alignment explanation
Indices: 24245002--24245157 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
24244992 GAAAGTTAAG
* ** * *
24245002 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTAACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTAACAAATAGAGGGTATTTCAGT
24245067 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* ** *
24245083 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTTA
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATT-TAACAAATAGAGGGTATTTCA
24245146 GTAATTTCACAA
64 GTAATTTCACAA
24245158 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 57 0.89
82 6 0.09
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTAACAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:24245500 original size:27 final size:27
Alignment explanation
Indices: 24245156--24245489 Score: 402
Period size: 27 Copynumber: 12.4 Consensus size: 27
24245146 GTAATTTCAC
24245156 AATCGAGGGTAAAACGGTAATTC-GTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
24245182 ACTTGAGGGTAAAACGATAATTCCATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
24245209 AATCGAGAGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
24245236 AACCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
24245263 AATCAATGGTAAAACGATAATT-TCGTA
1 AATCGAGGGTAAAACGGTAATTCT-GTA
* *
24245290 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
24245317 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
24245344 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
24245371 AATAGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
24245398 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
24245425 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24245452 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24245479 AATCGAGGGTA
1 AATCGAGGGTA
24245490 CTTTGGTAAT
Statistics
Matches: 261, Mismatches: 44, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 21 0.08
27 239 0.92
28 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:24245500 original size:81 final size:81
Alignment explanation
Indices: 24245156--24245489 Score: 456
Period size: 81 Copynumber: 4.1 Consensus size: 81
24245146 GTAATTTCAC
* * ** ** *
24245156 AATCGAGGGTAAAACGGTAATTC-GTAACTTGAGGGTAAAACGATAATTCCATAAATCGAGAGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
24245220 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
* * *
24245236 AACCGAGGGTAAAACGATAATTTTGTAAATCAATGGTAAAACGATAATT-TCGTAAATCGAGGGT
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGATAATTCT-GTAAATCGAGGGT
24245300 AAAACAGTAATTCTATA
65 AAAACAGTAATTCTATA
* * * * * *
24245317 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAATAGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
*
24245382 AAATAGTAATTCTATA
66 AAACAGTAATTCTATA
* *
24245398 AATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
* *
24245463 AAACGGTAATTCTGTA
66 AAACAGTAATTCTATA
24245479 AATCGAGGGTA
1 AATCGAGGGTA
24245490 CTTTGGTAAT
Statistics
Matches: 221, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
80 20 0.09
81 200 0.90
82 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:24253897 original size:37 final size:37
Alignment explanation
Indices: 24253847--24253920 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
24253837 GACGTTAGCT
24253847 ACGGAATAAAACAATTAAATCACATTAATATTACATA
1 ACGGAATAAAACAATTAAATCACATTAATATTACATA
24253884 ACGGAATAAAACAATTAAATCACATTAATATTACATA
1 ACGGAATAAAACAATTAAATCACATTAATATTACATA
24253921 TTTTAATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (37 bp):
ACGGAATAAAACAATTAAATCACATTAATATTACATA
Found at i:24253960 original size:19 final size:18
Alignment explanation
Indices: 24253918--24253960 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24253908 TTAATATTAC
* *
24253918 ATATTTTAATTTCACATT
1 ATATTTCAATTTCACACT
*
24253936 AAATTTCAATTTTCACACT
1 ATATTTCAA-TTTCACACT
24253955 ATATTT
1 ATATTT
24253961 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTCAATTTCACACT
Found at i:24254502 original size:2 final size:2
Alignment explanation
Indices: 24254497--24254564 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
24254487 TAAAGTTAAC
* * **
24254497 AT AT AT AT A- AT AT AT AT A- AT AT AC AC AT GC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24254537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24254565 CTTTAAACCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
1 2 0.03
2 56 0.97
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24254942 original size:29 final size:29
Alignment explanation
Indices: 24254900--24254957 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24254890 CCTTTTTAGC
24254900 CTTAGTCCAGTTATTGCTCCGACAAAATA
1 CTTAGTCCAGTTATTGCTCCGACAAAATA
24254929 CTTAGTCCAGTTATTGCTCCGACAAAATA
1 CTTAGTCCAGTTATTGCTCCGACAAAATA
24254958 ATCGAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (29 bp):
CTTAGTCCAGTTATTGCTCCGACAAAATA
Found at i:24257816 original size:42 final size:42
Alignment explanation
Indices: 24257716--24257882 Score: 162
Period size: 42 Copynumber: 4.0 Consensus size: 42
24257706 GGATTACCGA
* *
24257716 GATATGAGATTTGTGTACGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
* ** * *
24257758 AACCTGATATTTGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
*
24257800 GATATGAGATTCGTGTAAGACCATAG-CTAGG-CTATTGGCATC
1 GATATGAGATTCGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC
* * * *
24257842 GATAT-ATGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATATGA-GAT-TCGTGTAAGACCATGTCTGGGACATTGGCAT
24257883 TGTACGAGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 83 0.81
43 18 0.17
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
GATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:24259675 original size:18 final size:17
Alignment explanation
Indices: 24259643--24259684 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
24259633 GACAATGTGA
*
24259643 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGAT-T
24259660 TTATGTGTTAATGGATT
1 TTATGTGTTAATGGATT
24259677 TTCATGTG
1 TT-ATGTG
24259685 AGAAATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.52
Consensus pattern (17 bp):
TTATGTGTTAATGGATT
Found at i:24259908 original size:69 final size:69
Alignment explanation
Indices: 24259800--24259999 Score: 206
Period size: 69 Copynumber: 2.9 Consensus size: 69
24259790 GTGTGCCTAG
* ** *** *
24259800 CACTAGTCGAACGAATCAACAAATTATTATGCTTGGTGCTAGTCGGATAATCGATGATAGTTGTG
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTT-TG
24259865 CCCAA
65 CCCAA
* * *
24259870 TACTAGTCTAA-AAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGACGATAGCTTTG
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAG-TTTG
24259934 CCCAA
65 CCCAA
* * * ** * **
24259939 CATTAGTCGAACAAATTG-TAAATTATTACGCCCAACGCTAATTAGATAACCGATGATAGTT
1 CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTT
24260000 ACTCAATAGA
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
68 2 0.02
69 88 0.82
70 17 0.16
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (69 bp):
CACTAGTCGAACAAATTGACAAATTATTATGCCCAGTGCTAGTCGGATAACCGATGATAGTTTGC
CCAA
Found at i:24261839 original size:13 final size:13
Alignment explanation
Indices: 24261821--24261860 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 13
24261811 TAGATTTTCC
24261821 CTAAATATTATCA
1 CTAAATATTATCA
24261834 CTAAATA--ATC-
1 CTAAATATTATCA
24261844 CTAAATATTATCA
1 CTAAATATTATCA
24261857 -TAAA
1 CTAAA
24261861 ATAATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:24261850 original size:23 final size:23
Alignment explanation
Indices: 24261820--24261865 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
24261810 CTAGATTTTC
24261820 CCTAAATATTATCACT-AAATAAT
1 CCTAAATATTATCA-TAAAATAAT
24261843 CCTAAATATTATCATAAAATAAT
1 CCTAAATATTATCATAAAATAAT
24261866 TCAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (23 bp):
CCTAAATATTATCATAAAATAAT
Found at i:24261872 original size:23 final size:23
Alignment explanation
Indices: 24261823--24261872 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
24261813 GATTTTCCCT
*
24261823 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
24261846 AAATATTATCA-TAAAATAATTCA
1 AAATATTATCACT-AAATAATCCA
24261869 AAAT
1 AAAT
24261873 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:24262286 original size:11 final size:11
Alignment explanation
Indices: 24262270--24262304 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
24262260 GGCTCAAGCT
24262270 TCTCTTCTCAC
1 TCTCTTCTCAC
24262281 TCTCTTCTCAC
1 TCTCTTCTCAC
24262292 TCTCTTCTCAC
1 TCTCTTCTCAC
24262303 TC
1 TC
24262305 CCTGCAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.09, C:0.46, G:0.00, T:0.46
Consensus pattern (11 bp):
TCTCTTCTCAC
Found at i:24264741 original size:16 final size:16
Alignment explanation
Indices: 24264696--24264744 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
24264686 ATACCCAAAA
* * *
24264696 TATATTGTTATTTATA
1 TATATTTTTATTTTTT
24264712 TATATTTTTATTTTTT
1 TATATTTTTATTTTTT
24264728 TATATTTTTATTTTTT
1 TATATTTTTATTTTTT
24264744 T
1 T
24264745 CAAACGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TATATTTTTATTTTTT
Found at i:24269478 original size:43 final size:44
Alignment explanation
Indices: 24269430--24269588 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 44
24269420 GATTACCGAG
24269430 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
*
24269474 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
* * * * * *
24269516 ATATGATTTCGTGTAATACCATGCCTGGGACATT-AGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGA-CATTGTAT
* *
24269559 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
24269589 TATGGCGTTG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGTAT
Found at i:24275850 original size:21 final size:20
Alignment explanation
Indices: 24275816--24275857 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
24275806 TGTCAGTAAC
24275816 CAAAAGTTCACACAAACAGA
1 CAAAAGTTCACACAAACAGA
*
24275836 CAAAATGTTCTCACAAACAGA
1 CAAAA-GTTCACACAAACAGA
24275857 C
1 C
24275858 GTATATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.50, C:0.26, G:0.10, T:0.14
Consensus pattern (20 bp):
CAAAAGTTCACACAAACAGA
Found at i:24279222 original size:27 final size:27
Alignment explanation
Indices: 24279192--24279262 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
24279182 CGACTTGTAA
*
24279192 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCAATTTACAG
***
24279219 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
*
24279246 AATTACCAAAATACCCT
1 AATTACCAAAGTACCCT
24279263 TGGTTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCAATTTACAG
Found at i:24279269 original size:27 final size:27
Alignment explanation
Indices: 24279246--24279369 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
24279236 CAATTTACAG
*
24279246 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTAGTTTATAA
* * *
24279273 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTATAA
* *
24279300 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTAGTTTATAA
* *
24279327 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTAGTTT-ATAA
*
24279354 AATTACTAAAATACCC
1 AATTACCAAAATACCC
24279370 CTGTAGGGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTATAA
Found at i:24279288 original size:54 final size:54
Alignment explanation
Indices: 24279232--24279369 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 54
24279222 TACCATTTTA
*
24279232 CCCTCAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
1 CCCT-AATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** * * *
24279287 CCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATAC
1 CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** *
24279341 CCATGGTTTGA-AAAATTACTAAAATACCC
1 CCCTAATTT-ACAAAATTACCAAAATACCC
24279370 CTGTAGGGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
54 68 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
Found at i:24279381 original size:81 final size:81
Alignment explanation
Indices: 24279246--24279398 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
24279236 CAATTTACAG
* **
24279246 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
24279311 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * * *
24279327 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTATTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTAGT-GGGTAAAATTACTAA
24279390 AATACCCTT
64 AATACCCTT
24279399 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:24279396 original size:54 final size:54
Alignment explanation
Indices: 24279246--24279385 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 54
24279236 CAATTTACAG
* ** * * *
24279246 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATAGTTTGAAA
* ** *
24279300 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
*
24279354 AATTACTAAAATACCC-CTGTAGGGTAAAATTA
1 AATTACTAAAATACCCTCTGT-GGATAAAATTA
24279386 TTGAAATACC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.04
54 71 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
Found at i:24279409 original size:26 final size:27
Alignment explanation
Indices: 24279352--24279414 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
24279342 CATGGTTTGA
24279352 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * * *
24279379 AAAATTATTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
24279406 -AAATTACTA
1 AAAATTACTA
24279415 TTTTGCCCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:24279424 original size:27 final size:26
Alignment explanation
Indices: 24279394--24279456 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
24279384 TATTGAAATA
*
24279394 CCCTTGTGGGGTAAATTACTATTTTG
1 CCCTTGTGGGGTAAATGACTATTTTG
* *
24279420 CCCCTAG-GGTGTTAAATGACTATTTTG
1 -CCCTTGTGG-GGTAAATGACTATTTTG
24279447 CCCTTGTGGG
1 CCCTTGTGGG
24279457 CAAGTGACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (26 bp):
CCCTTGTGGGGTAAATGACTATTTTG
Found at i:24280067 original size:28 final size:28
Alignment explanation
Indices: 24280035--24280130 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
24280025 GTAGATCACG
* *
24280035 AAATTACCCTTAAAGAGCAAAATTACTA
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
24280063 AAATTACCCCTAAAGAGCAAAATTACCG
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
24280091 AAATTACCCCTAAATAGCAAAATTACCA
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
24280119 ATA-TACCCCTAA
1 AAATTACCCCTAA
24280131 GGTTTAAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 9 0.15
28 53 0.85
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.22
Consensus pattern (28 bp):
AAATTACCCCTAAAGAGCAAAATTACCA
Found at i:24284132 original size:23 final size:23
Alignment explanation
Indices: 24284072--24284156 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
24284062 CTATATTGAC
24284072 CTAAAACGGTAAGCTC-TATCGAG
1 CTAAAACGGTAAGCTCATA-CGAG
* *
24284095 CT-GAACAGTAAGCTCATACGAG
1 CTAAAACGGTAAGCTCATACGAG
* *
24284117 CTAAAACGGAAAGCTCCA-AAGAG
1 CTAAAACGGTAAGCT-CATACGAG
*
24284140 CTAAAAACAGTAAGCTC
1 CT-AAAACGGTAAGCTC
24284157 TTACAACCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
22 17 0.34
23 20 0.40
24 13 0.26
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.16
Consensus pattern (23 bp):
CTAAAACGGTAAGCTCATACGAG
Found at i:24284141 original size:45 final size:47
Alignment explanation
Indices: 24284049--24284157 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
24284039 CCCAAGTTGA
* * * **
24284049 TGAACAGTAAGCTCTATATTGACCTAAAACGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATATCGACCTAAAACGGAAAGCTCCAAAGAGC
*
24284096 TGAACAGTAAGCTC-ATA-CGAGCTAAAACGGAAAGCTCCAAAGAGC
1 TGAACAGTAAGCTCTATATCGACCTAAAACGGAAAGCTCCAAAGAGC
*
24284141 TAAAAACAGTAAGCTCT
1 T--GAACAGTAAGCTCT
24284158 TACAACCTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
45 23 0.44
46 3 0.06
47 26 0.50
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (47 bp):
TGAACAGTAAGCTCTATATCGACCTAAAACGGAAAGCTCCAAAGAGC
Found at i:24284154 original size:24 final size:24
Alignment explanation
Indices: 24284051--24284156 Score: 76
Period size: 23 Copynumber: 4.5 Consensus size: 24
24284041 CAAGTTGATG
* * *
24284051 AACAGTAAGCTCTATATTGACCTAA
1 AACAGTAAGCTCCATA-AGAGCTAA
* * * *
24284076 AACGGTAAGCTCTAT-CGAGCT-G
1 AACAGTAAGCTCCATAAGAGCTAA
*
24284098 AACAGTAAGCT-CATACGAGCTAA
1 AACAGTAAGCTCCATAAGAGCTAA
* *
24284121 AACGGAAAGCTCCA-AAGAGCTAAA
1 AACAGTAAGCTCCATAAGAGCT-AA
24284145 AACAGTAAGCTC
1 AACAGTAAGCTC
24284157 TTACAACCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.03
22 16 0.25
23 19 0.29
24 14 0.22
25 14 0.22
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (24 bp):
AACAGTAAGCTCCATAAGAGCTAA
Found at i:24285028 original size:36 final size:36
Alignment explanation
Indices: 24284981--24285049 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
24284971 TAACCGAATG
*
24284981 TTTGAAGCTTTAAATTGGCTATTCTTTACCCTTCAT
1 TTTGAAGCTTTAAAATGGCTATTCTTTACCCTTCAT
24285017 TTTGAAGCTTTAAAATGGCTATTCTTTACCCTT
1 TTTGAAGCTTTAAAATGGCTATTCTTTACCCTT
24285050 AATTCGGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (36 bp):
TTTGAAGCTTTAAAATGGCTATTCTTTACCCTTCAT
Found at i:24287176 original size:47 final size:46
Alignment explanation
Indices: 24287117--24287245 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 46
24287107 CATCTCGTAG
* * *
24287117 CCGATGCATGTCCCAGACATGTCTTAGACTAGCTCTCGT-CTCAACA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-AACA
* * ***
24287163 CCGATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAACA
24287211 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
24287246 ACACAAGTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 20 0.29
47 26 0.37
48 23 0.33
49 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAACA
Found at i:24291529 original size:10 final size:9
Alignment explanation
Indices: 24291493--24291527 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24291483 ATATGTATAT
*
24291493 AAAATAAAG
1 AAAAAAAAG
*
24291502 CAAAAAAAG
1 AAAAAAAAG
24291511 AAAAAAAAG
1 AAAAAAAAG
24291520 AAAAAAAA
1 AAAAAAAA
24291528 AGTGATCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24292067 original size:13 final size:13
Alignment explanation
Indices: 24292049--24292077 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24292039 GATATAAATG
24292049 AAATCAACTCATT
1 AAATCAACTCATT
24292062 AAATCAACTCATT
1 AAATCAACTCATT
24292075 AAA
1 AAA
24292078 CTTGAGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCAACTCATT
Found at i:24292098 original size:4 final size:4
Alignment explanation
Indices: 24292089--24292119 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
24292079 TTGAGAATCA
24292089 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
24292120 GATGAATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:24293106 original size:12 final size:12
Alignment explanation
Indices: 24293089--24293113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24293079 ATGTAAGTGA
24293089 TCTTGATGATTT
1 TCTTGATGATTT
24293101 TCTTGATGATTT
1 TCTTGATGATTT
24293113 T
1 T
24293114 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:24293971 original size:46 final size:46
Alignment explanation
Indices: 24293798--24294019 Score: 177
Period size: 46 Copynumber: 4.8 Consensus size: 46
24293788 TTTGGGTTGT
* * * * *
24293798 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGA
* * *
24293844 GAGCCAGTGTAAGACCATGTCTGGGACATGGTATC-GACATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGAGATGA
* * * *
24293892 GTGCTAGCGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-A
*
24293939 -AGCCAGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGA
* * * *
24293982 GTGTCAGTGTAAAACCATGTCTGGGAAATGGCATCAGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
24294020 ACGAATATAT
Statistics
Matches: 141, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 67 0.48
47 29 0.21
48 20 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGA
Found at i:24295781 original size:147 final size:147
Alignment explanation
Indices: 24295602--24295965 Score: 435
Period size: 147 Copynumber: 2.5 Consensus size: 147
24295592 AATAGCATAG
* * * ** *
24295602 AACTACAAGTGTTAATGGATCCCATCCATTTAAAGCTCCAAGTGGGTCAAAGAGACGATCACTGA
1 AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTGA
* **
24295667 GTGGGCTACCAAGTTATAATTGAGCTAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAACT
66 GTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAACT
* * *
24295732 CCACACTAGTTGTATGC
131 CCACAATAGTCGCATGC
* * *
24295749 AACTATC-AGGGTTGATGAATCCCATTTGTTTAAAGCTACAAGTGGGT-AAGTGAGATGATCACT
1 AACTA-CAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAA-AGAGACGATCACT
* * * * * * *
24295812 AAGTGGACTACCGAGTTATAGTTGAAATAGACATAGGTTAGTGACTTAGTTGTTAGAACATGCAA
64 GAGTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAA
* *
24295877 CTCCACAATAGTCGCCTGG
129 CTCCACAATAGTCGCATGC
* * * * *
24295896 AACTACAAGTGTTGATGGATCTCATCTGTTTAAATCTTCAAGTGGGTCAAAGAGACGATCACTGA
1 AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTGA
24295961 GTGGA
66 GTGGA
24295966 TGATAACTCT
Statistics
Matches: 180, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
146 3 0.02
147 174 0.97
148 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (147 bp):
AACTACAAGGGTTGATGAATCCCATCTGTTTAAAGCTACAAGTGGGTCAAAGAGACGATCACTGA
GTGGACTACCAAGTTATAATTGAAATAGAAATAGCTTAGTGACTTAGTTGTCAGAACATGAAACT
CCACAATAGTCGCATGC
Found at i:24306436 original size:16 final size:16
Alignment explanation
Indices: 24306415--24306449 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
24306405 TAAAAGAATT
24306415 AATTAAGATAACATCA
1 AATTAAGATAACATCA
24306431 AATTAAGATAACATCA
1 AATTAAGATAACATCA
24306447 AAT
1 AAT
24306450 AAAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAAGATAACATCA
Found at i:24313070 original size:47 final size:48
Alignment explanation
Indices: 24313016--24313147 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
24313006 CAAAATCGAT
* *
24313016 AAGTACCTATACCATGGTCCGTAGCCAAATCAAGGTAACTTATCTC-G
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * * * *
24313063 GAGTACCTATACCATGGCCCATAGCCAAATTAATGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* *
24313111 AAATAACTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
24313148 TCACTCGCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 39 0.55
48 32 0.45
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:24316175 original size:22 final size:22
Alignment explanation
Indices: 24316097--24316176 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 22
24316087 AAGTTGAATA
** *
24316097 GTTTATCTGCACCA-TTAAGTG
1 GTTTATCCACACCATTTGAGTG
*
24316118 GTTTATCCACACCATTTGAGCAG
1 GTTTATCCACACCATTTGAG-TG
* *
24316141 CTTTTATCTACACCATTTGAGTG
1 -GTTTATCCACACCATTTGAGTG
*
24316164 GTTTAACCACACC
1 GTTTATCCACACC
24316177 GTACTAGCAG
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
21 12 0.26
22 14 0.30
23 2 0.04
24 18 0.39
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (22 bp):
GTTTATCCACACCATTTGAGTG
Found at i:24316186 original size:46 final size:45
Alignment explanation
Indices: 24316098--24316195 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 45
24316088 AGTTGAATAG
* * *
24316098 TTTATCTGCACCATTAAGTGGTTTATCCACACCATTTGAGCAGCT
1 TTTATCTACACCATTAAGTGGTTTAACCACACCATCTGAGCAGCT
* *
24316143 TTTATCTACACCATTTGAGTGGTTTAACCACACCGTACT-AGCAGCT
1 TTTATCTACACCA-TTAAGTGGTTTAACCACACCAT-CTGAGCAGCT
*
24316189 TTAATCT
1 TTTATCT
24316196 GCAAACATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 12 0.27
46 32 0.71
47 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (45 bp):
TTTATCTACACCATTAAGTGGTTTAACCACACCATCTGAGCAGCT
Found at i:24317145 original size:23 final size:23
Alignment explanation
Indices: 24317094--24317138 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
24317084 TGTTAACTCA
*
24317094 TAAG-TTT-TTCTGAAAATAAGT
1 TAAGTTTTCTTCTGAAAATAAAT
24317115 TAAGTTTTCTTCT-AAAATAAAT
1 TAAGTTTTCTTCTGAAAATAAAT
24317137 TA
1 TA
24317139 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TAAGTTTTCTTCTGAAAATAAAT
Found at i:24317845 original size:23 final size:24
Alignment explanation
Indices: 24317801--24317845 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
24317791 TTATATTTAA
*
24317801 AATTAATTTTTAATATTTTATTTT
1 AATTAATTTTTAATATTCTATTTT
24317825 AATT-ATTTTT-ATAATTCTATT
1 AATTAATTTTTAAT-ATTCTATT
24317846 AAAAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 13 0.68
24 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTAATTTTTAATATTCTATTTT
Found at i:24318443 original size:30 final size:30
Alignment explanation
Indices: 24318361--24318448 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
24318351 GTTTTTTATT
* *
24318361 AAAATAATATAAAA-ATAAATTTAATTT-TC
1 AAAATAATATAAAAGATAAAATT-ATTTACC
* *
24318390 AAAATAATGT--AAGTTATAAATTATTTACC
1 AAAATAATATAAAAGATA-AAATTATTTACC
*
24318419 AAAATAATATAAAAGCTAAAATTATTTACC
1 AAAATAATATAAAAGATAAAATTATTTACC
24318449 GACATTACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 23 0.48
30 12 0.25
31 5 0.10
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATAATATAAAAGATAAAATTATTTACC
Found at i:24319685 original size:23 final size:23
Alignment explanation
Indices: 24319655--24319699 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24319645 GTCTAGAAAA
*
24319655 ATTACAAGTCCAAAATAAAAATT
1 ATTACAAGCCCAAAATAAAAATT
*
24319678 ATTACAAGCCCAAAGTAAAAAT
1 ATTACAAGCCCAAAATAAAAAT
24319700 CTAAGCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.22
Consensus pattern (23 bp):
ATTACAAGCCCAAAATAAAAATT
Found at i:24321156 original size:4 final size:4
Alignment explanation
Indices: 24321147--24321179 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
24321137 GTATATTTTG
24321147 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
24321180 GTTTCAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:24321301 original size:4 final size:4
Alignment explanation
Indices: 24321292--24321322 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
24321282 ATTGTGCCTT
24321292 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
24321323 GCTACTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:24321371 original size:15 final size:16
Alignment explanation
Indices: 24321352--24321429 Score: 74
Period size: 15 Copynumber: 5.1 Consensus size: 16
24321342 AAATTTTAGA
24321352 TTTTATT-TT-TTATT
1 TTTTATTATTATTATT
24321366 ATTTTATTATTATT-TT
1 -TTTTATTATTATTATT
* *
24321382 TGTTATCATTATTA-T
1 TTTTATTATTATTATT
*
24321397 TTTTATTATTATCATT
1 TTTTATTATTATTATT
* *
24321413 TTTTATTTTTTTTATT
1 TTTTATTATTATTATT
24321429 T
1 T
24321430 ACGCATAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 30 0.59
16 19 0.37
17 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTATTATTATTATT
Found at i:24321375 original size:3 final size:3
Alignment explanation
Indices: 24321361--24321408 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
24321351 ATTTTATTTT
* * * *
24321361 TTA TTA TT- TTA TTA TTA TTT TTG TTA TCA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24321408 T
1 T
24321409 CATTTTTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:24321380 original size:21 final size:21
Alignment explanation
Indices: 24321357--24321428 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
24321347 TTAGATTTTA
24321357 TTTTTTATTAT-TTTATTATT
1 TTTTTTATTATCTTTATTATT
* * *
24321377 ATTTTTGTTATCATTATTATT
1 TTTTTTATTATCTTTATTATT
* *
24321398 TTTATTATTATCATTTTTTATT
1 TTTTTTATTATC-TTTATTATT
24321420 TTTTTTATT
1 TTTTTTATT
24321429 TACGCATAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 9 0.22
21 17 0.41
22 15 0.37
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTTTTATTATCTTTATTATT
Found at i:24321387 original size:9 final size:9
Alignment explanation
Indices: 24321358--24321428 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
24321348 TAGATTTTAT
24321358 TTTTTATTA
1 TTTTTATTA
24321367 TTTTATTATTA
1 -TTT-TTATTA
*
24321378 TTTTTGTTA
1 TTTTTATTA
**
24321387 TCATTATTA
1 TTTTTATTA
24321396 TTTTTATTA
1 TTTTTATTA
* *
24321405 TTATCA-T-
1 TTTTTATTA
*
24321412 TTTTTATTT
1 TTTTTATTA
24321421 TTTTTATT
1 TTTTTATT
24321429 TACGCATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
7 4 0.08
8 2 0.04
9 30 0.62
10 6 0.12
11 6 0.12
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTTTATTA
Found at i:24328969 original size:52 final size:52
Alignment explanation
Indices: 24328891--24328996 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
24328881 AGCCATCAAC
24328891 TTAATTTAAGTAAATCAGATCTTTCAAGTACCTTTTCAAGTTTATCCTCTAG
1 TTAATTTAAGTAAATCAGATCTTTCAAGTACCTTTTCAAGTTTATCCTCTAG
24328943 TTAATTTAAGTAAATCAGATCTTTCAAGTACCTTTTCAAGTTTATCCTCTAG
1 TTAATTTAAGTAAATCAGATCTTTCAAGTACCTTTTCAAGTTTATCCTCTAG
24328995 TT
1 TT
24328997 TCTTTAGCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (52 bp):
TTAATTTAAGTAAATCAGATCTTTCAAGTACCTTTTCAAGTTTATCCTCTAG
Found at i:24339789 original size:26 final size:26
Alignment explanation
Indices: 24339758--24339865 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
24339748 TGAAATGCCC
*
24339758 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24339784 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
** *
24339810 ATCATGGAGTATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
24339836 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24339862 ATCA
1 ATCA
24339866 ATTTGCACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24340221 original size:21 final size:21
Alignment explanation
Indices: 24340197--24340275 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
24340187 CAATGTGCCC
* *
24340197 CCTCCACACTGGCGTGTGGGG
1 CCTCCACACGGGCGTGTGAGG
* *
24340218 CCTCCACACGGGCATGTAAGG
1 CCTCCACACGGGCGTGTGAGG
* * *
24340239 CCTTCACACGGGTGTGTGTGG
1 CCTCCACACGGGCGTGTGAGG
*
24340260 CCTCCACATGGGCGTG
1 CCTCCACACGGGCGTG
24340276 AAGACCCCTA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (21 bp):
CCTCCACACGGGCGTGTGAGG
Found at i:24344843 original size:21 final size:21
Alignment explanation
Indices: 24344819--24344858 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24344809 AAAAATTCCA
24344819 ATATCTTTTA-AAGTTTTATAT
1 ATAT-TTTTACAAGTTTTATAT
*
24344840 ATATTTTTACAATTTTTAT
1 ATATTTTTACAAGTTTTAT
24344859 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATTTTTACAAGTTTTATAT
Found at i:24344895 original size:9 final size:9
Alignment explanation
Indices: 24344883--24344934 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
24344873 TTGTTTTTTC
24344883 ATTTTTATA
1 ATTTTTATA
*
24344892 A-TTTTACA
1 ATTTTTATA
24344900 ATTTTTATA
1 ATTTTTATA
*
24344909 TTTTTTAATA
1 ATTTTT-ATA
24344919 ATTTCTTATA
1 ATTT-TTATA
*
24344929 GTTTTT
1 ATTTTT
24344935 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.20
9 14 0.40
10 12 0.34
11 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:24344896 original size:17 final size:17
Alignment explanation
Indices: 24344876--24344914 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24344866 AAAATCTTTG
24344876 TTTTTTC-ATTTTTATA
1 TTTTTTCAATTTTTATA
* *
24344892 ATTTTACAATTTTTATA
1 TTTTTTCAATTTTTATA
24344909 TTTTTT
1 TTTTTT
24344915 AATAATTTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTCAATTTTTATA
Found at i:24346622 original size:31 final size:30
Alignment explanation
Indices: 24346582--24346643 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
24346572 AAATAATCAG
24346582 TTTACTCTTTAATCTAATATACAAGAAT-TAA
1 TTTACTCTTTAATCTAATA-A-AAGAATATAA
* **
24346613 TTTATTCTTTTTTCTAATAAAAGAATATAA
1 TTTACTCTTTAATCTAATAAAAGAATATAA
24346643 T
1 T
24346644 ACAATCTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.22
30 5 0.19
31 16 0.59
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTACTCTTTAATCTAATAAAAGAATATAA
Found at i:24347423 original size:51 final size:51
Alignment explanation
Indices: 24347367--24347474 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
24347357 CCTTAAAGTG
* * *
24347367 TACATATTCTGTCAATTTGGTTTTGTTTTAACAAATTCAGTCTT-CAACATT
1 TACATATTCTATCAATTTGATTTTGATTTAACAAATTCAG-CTTGCAACATT
* * *
24347418 TACATATTCTATCATTTTGATTTTGATTTAACAAATTTAGCTTGTAACATT
1 TACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACATT
24347469 TACATA
1 TACATA
24347475 GAATATATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 3 0.06
51 47 0.94
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (51 bp):
TACATATTCTATCAATTTGATTTTGATTTAACAAATTCAGCTTGCAACATT
Found at i:24349665 original size:29 final size:30
Alignment explanation
Indices: 24349632--24349692 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
24349622 TTTCACGTAC
* *
24349632 ATAATT-ACATCAAATTAAAATTTATTTAT
1 ATAATTAACATCAAATCAAAATTCATTTAT
*
24349661 ATAATTACACATTAAATCAAAATTCATTTAT
1 ATAATTA-ACATCAAATCAAAATTCATTTAT
24349692 A
1 A
24349693 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
31 21 0.78
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAATTAACATCAAATCAAAATTCATTTAT
Found at i:24355413 original size:29 final size:29
Alignment explanation
Indices: 24355383--24355459 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
24355373 TGAACTACAA
*
24355383 TTAAAGTTTCATATATATAATTATATTAAT
1 TTAAAATTT-ATATATATAATTATATTAAT
* *
24355413 TTAAAATTTATGTATATAATTATATATTAAA
1 TTAAAATTTATATATATAA-T-TATATTAAT
*
24355444 TCAAAATTTATATATA
1 TTAAAATTTATATATA
24355460 ATTTTAAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 9 0.22
30 9 0.22
31 22 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAAAATTTATATATATAATTATATTAAT
Found at i:24357255 original size:48 final size:48
Alignment explanation
Indices: 24357190--24357293 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
24357180 TGACTTATGC
24357190 ATGACATGATATAATTTTACTCAAAATAGTGGAAACATAGTACATGAT
1 ATGACATGATATAATTTTACTCAAAATAGTGGAAACATAGTACATGAT
24357238 ATGACATGATATAATTTTACTCAAAATAGTGGAAACATAGTACATGAT
1 ATGACATGATATAATTTTACTCAAAATAGTGGAAACATAGTACATGAT
*
24357286 ATGGCATG
1 ATGACATG
24357294 GTTTTACTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGACATGATATAATTTTACTCAAAATAGTGGAAACATAGTACATGAT
Found at i:24360057 original size:80 final size:80
Alignment explanation
Indices: 24359946--24360101 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 80
24359936 TGTACCACAT
* * * * *
24359946 GATTGTGTGAAATCGTGCAGGCTGTGCGGGTAGACTGTGTGGACCAGACAACTGTGTGAAATAGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
* *
24360011 GTAGTCTGTGTAGGA
66 GCAGACTGTGTAGGA
* * * *
24360026 GATTGCGTGAAATCGTACAGACCGTGTGGGTAGAGTGTGTGGACCACATAACTGTGTGAAATCGT
1 GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
24360091 GCAGACTGTGT
66 GCAGACTGTGT
24360102 GAACCACACA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (80 bp):
GATTGCGTGAAATCGTACAGACCGTGCGGGTAGACTGTGTGGACCACACAACTGTGTGAAATAGT
GCAGACTGTGTAGGA
Found at i:24361618 original size:22 final size:24
Alignment explanation
Indices: 24361574--24361621 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
24361564 CATGTTAGTT
*
24361574 TAATTTTATATTTTATAAATTTAA
1 TAATTTTATATTATATAAATTTAA
24361598 TAATTTTA-ATTATA-AAATTTAA
1 TAATTTTATATTATATAAATTTAA
24361620 TA
1 TA
24361622 TTATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 5 0.22
24 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTTTATATTATATAAATTTAA
Found at i:24367839 original size:2 final size:2
Alignment explanation
Indices: 24367832--24367858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24367822 ATTATCTGTT
24367832 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
24367859 TTAGCTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24368161 original size:18 final size:19
Alignment explanation
Indices: 24368125--24368161 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24368115 TTGAGATTGC
24368125 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
24368144 CAACCTATTTGC-TGAAAT
1 CAACCTATTTGCTTGAAAT
24368162 TATTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
CAACCTATTTGCTTGAAAT
Found at i:24380073 original size:23 final size:23
Alignment explanation
Indices: 24380047--24380091 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24380037 TGGGTATGTG
*
24380047 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
24380070 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
24380092 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:24386976 original size:30 final size:30
Alignment explanation
Indices: 24386940--24387016 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
24386930 GTCTTCTCAA
* *
24386940 TCCCAAGATCCTGAATGAGATATCGAGTTT
1 TCCCAAGATCCTGAATGAGAAATCAAGTTT
* **
24386970 TCCCAAGCTCCTGAACAAGAAATCAAGTTT
1 TCCCAAGATCCTGAATGAGAAATCAAGTTT
* *
24387000 TCTCAAGTTCCTGAATG
1 TCCCAAGATCCTGAATG
24387017 TCCTCATAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (30 bp):
TCCCAAGATCCTGAATGAGAAATCAAGTTT
Found at i:24389481 original size:8 final size:8
Alignment explanation
Indices: 24389470--24389507 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
24389460 TCTATATTAT
*
24389470 TTATTTTA
1 TTATTCTA
24389478 TTATTCTA
1 TTATTCTA
24389486 TTA-TCTA
1 TTATTCTA
*
24389493 TTATTATA
1 TTATTCTA
24389501 TTATTCT
1 TTATTCT
24389508 TACAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTCTA
Found at i:24390736 original size:21 final size:22
Alignment explanation
Indices: 24390695--24390742 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
24390685 ATAGGTAGAT
*
24390695 TAAATTAATTGTTTGTTAATAA
1 TAAATTAATTGTTTGTAAATAA
24390717 TAAATTAATT-TTTGTAAATAA
1 TAAATTAATTGTTTGTAAATAA
24390738 TAAAT
1 TAAAT
24390743 ATCACTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTAATTGTTTGTAAATAA
Found at i:24390803 original size:45 final size:46
Alignment explanation
Indices: 24390707--24390804 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
24390697 AATTAATTGT
*
24390707 TTGTTAATAATAAATTAATTTTTGTAAATAATAAATATCACTAAAA
1 TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
* *
24390753 TTGTTAATAATAAACTAACTTTTT-T-TATAATAAATATCATTGAAAA
1 TTGTTAATAATAAACTAA-TTTTTGTAAATAATAAATATCACT-AAAA
24390799 -TGTTAA
1 TTGTTAA
24390805 AATTAATCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 20 0.43
46 22 0.47
47 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (46 bp):
TTGTTAATAATAAACTAATTTTTGTAAATAATAAATATCACTAAAA
Found at i:24391602 original size:29 final size:31
Alignment explanation
Indices: 24391531--24391602 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 31
24391521 ATTTTATATT
*
24391531 TTTTACTTAAAAA-AATGAATAAATCAATTAC
1 TTTTA-TTAAAAATAATAAATAAATCAATTAC
*
24391562 TTTATATT--AAATAA-AAATAAATTAATTA-
1 TTT-TATTAAAAATAATAAATAAATCAATTAC
24391590 TTTTATTAAAAAT
1 TTTTATTAAAAAT
24391603 TAATCTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
27 4 0.11
28 3 0.09
29 19 0.54
30 2 0.06
31 5 0.14
32 2 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (31 bp):
TTTTATTAAAAATAATAAATAAATCAATTAC
Found at i:24394971 original size:4 final size:4
Alignment explanation
Indices: 24394962--24395012 Score: 77
Period size: 4 Copynumber: 12.8 Consensus size: 4
24394952 TGTTTAATAA
*
24394962 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAGAA AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAAG
24395010 AAA
1 AAA
24395013 CCTTGTACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
4 37 0.86
5 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24395696 original size:21 final size:20
Alignment explanation
Indices: 24395672--24395713 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
24395662 ATTAACAGGT
24395672 ATTATAATAAAATTAAAAAAA
1 ATTATAATAAAA-TAAAAAAA
24395693 ATTATAATAAAATAATAAAAA
1 ATTATAATAAAATAA-AAAAA
24395714 CAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTATAATAAAATAAAAAAA
Found at i:24395704 original size:11 final size:11
Alignment explanation
Indices: 24395672--24395710 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
24395662 ATTAACAGGT
24395672 ATTATAATAAA
1 ATTATAATAAA
*
24395683 ATTA-AAAAAA
1 ATTATAATAAA
24395693 ATTATAATAAA
1 ATTATAATAAA
*
24395704 ATAATAA
1 ATTATAA
24395711 AAACAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATTATAATAAA
Done.