Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 65 of 218
Found at i:19625644 original size:22 final size:22
Alignment explanation
Indices: 19625599--19625645 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19625589 ACTGGTTGCT
*
19625599 ATGTCGCAACACGGAATGCCAA
1 ATGTCGCAACACGGAATGCAAA
*
19625621 ATGTCGCAACATTGGAA-GCAAA
1 ATGTCGCAACA-CGGAATGCAAA
19625643 ATG
1 ATG
19625646 GAGAAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (22 bp):
ATGTCGCAACACGGAATGCAAA
Found at i:19631205 original size:15 final size:15
Alignment explanation
Indices: 19631185--19631215 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19631175 CTTCAGGTTC
19631185 CTTTTCAGTTAATTT
1 CTTTTCAGTTAATTT
19631200 CTTTTCAGTTAATTT
1 CTTTTCAGTTAATTT
19631215 C
1 C
19631216 CTTTAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (15 bp):
CTTTTCAGTTAATTT
Found at i:19634475 original size:36 final size:36
Alignment explanation
Indices: 19634416--19634486 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
19634406 TACATACAAC
*
19634416 TCGCATAGTTCCTAGGGTCTGCATGATACATATGAA
1 TCGCATAGTTCCTAGGATCTGCATGATACATATGAA
** * *
19634452 TCGCATAGTTTTTAGGATTTGCATGATGCATATGA
1 TCGCATAGTTCCTAGGATCTGCATGATACATATGA
19634487 CTCGTATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (36 bp):
TCGCATAGTTCCTAGGATCTGCATGATACATATGAA
Found at i:19634569 original size:25 final size:25
Alignment explanation
Indices: 19634531--19634586 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
19634521 TGGTGGTTCA
*
19634531 CATGTAATACTCAACAAGTGACTCG
1 CATGTAATAATCAACAAGTGACTCG
19634556 CATGTAATAATCAACAAGTGACTCG
1 CATGTAATAATCAACAAGTGACTCG
19634581 CATGTA
1 CATGTA
19634587 CAACAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (25 bp):
CATGTAATAATCAACAAGTGACTCG
Found at i:19641315 original size:25 final size:26
Alignment explanation
Indices: 19641266--19641332 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
19641256 ATAAAATACA
**
19641266 TCTTTGCATTCATTTTTGAGCTAA-TAT
1 TCTTT-CATTC-TTTTTGAAATAATTAT
*
19641293 TTTTTCATTCTTTTTGAAATAATTAT
1 TCTTTCATTCTTTTTGAAATAATTAT
19641319 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
19641333 GGATTTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.29
26 21 0.60
27 4 0.11
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
TCTTTCATTCTTTTTGAAATAATTAT
Found at i:19643546 original size:44 final size:44
Alignment explanation
Indices: 19643465--19643866 Score: 321
Period size: 44 Copynumber: 9.1 Consensus size: 44
19643455 GCAGATCAGT
* * *
19643465 GAAGATAGCAGATCCTGTCTTTCTATATTGGTAGCGAAGTAGATC
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * *
19643510 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* *** * * *
19643554 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCA-TGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * * *
19643598 GAAGATAGCGGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * *
19643642 GAAGATGCAGATCTTGTCTTTCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* **** * *
19643686 GAAGAAAT-CAGATCTTATCTTTATGTATTGG-CGTGAAGTAGATC
1 GAAG--ATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * * * *
19643730 GAAGATAGTAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * * *
19643774 AAAGATGCAGATATTGTCTTCCCATATTGGTGGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
* * *** *
19643818 GAAGAAAGCAGAACTTGTCTTCATGTATTGG-AGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
19643862 GAAGA
1 GAAGA
19643867 CACCAGCCTT
Statistics
Matches: 283, Mismatches: 63, Indels: 24
0.76 0.17 0.06
Matches are distributed among these distances:
42 2 0.01
43 44 0.16
44 171 0.60
45 64 0.23
46 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATC
Found at i:19643712 original size:132 final size:131
Alignment explanation
Indices: 19643465--19643866 Score: 606
Period size: 132 Copynumber: 3.0 Consensus size: 131
19643455 GCAGATCAGT
* * * *
19643465 GAAGATAGCAGATCCTGTCTTTCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTATCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
19643530 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT-GCATGAAGTAG
19643595 ATC
129 ATC
* * *
19643598 GAAGATAGCGGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
19643663 CCATACTGGTGGCGAAGTAGATCGAAGAAATCAGATCTTATCTTTATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT-GCATGAAGTAGA
19643728 TC
130 TC
* * *
19643730 GAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATATTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
19643795 CCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGAACTTGTCTTCATGTATTGGAGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGCA-TGAAGTAGA
19643860 TC
130 TC
19643862 GAAGA
1 GAAGA
19643867 CACCAGCCTT
Statistics
Matches: 242, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
131 1 0.00
132 211 0.87
133 30 0.12
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (131 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGCATGAAGTAGAT
C
Found at i:19643955 original size:88 final size:88
Alignment explanation
Indices: 19643852--19644304 Score: 663
Period size: 88 Copynumber: 5.1 Consensus size: 88
19643842 GTATTGGAGT
* * * * * *
19643852 GAAGTAGATCGAAGACACCAGCCTTGTCTTCTTGGGTTGCAGCGGAGTAGGCTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
* *
19643917 TCTTGCCTTCTTGCACCGATAGC
66 TCTTGCCTTCCTGCACCGACAGC
* * * *
19643940 GAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTGTAGCAGAGCAGGCTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
*
19644005 TATTGCCTTCCTGCACCGACAGC
66 TCTTGCCTTCCTGCACCGACAGC
*
19644028 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTATAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
*
19644093 TCTTTCCTTCCTGCACCGACAGC
66 TCTTGCCTTCCTGCACCGACAGC
* * ** * *
19644116 GAAACAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTAAAAAATAGCGG
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCT-AAAAATAGCAG
19644181 ATCTTGCCTTCCTGCACCGACAGC
65 ATCTTGCCTTCCTGCACCGACAGC
* * *
19644205 GAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTGTAGCGGAGCAGGTTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
* *
19644270 TCTTGCTTTCCTGCACCGTCAGC
66 TCTTGCCTTCCTGCACCGACAGC
19644293 GAAGCAGATCGA
1 GAAGCAGATCGA
19644305 TAACCCAAAC
Statistics
Matches: 329, Mismatches: 35, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
88 250 0.76
89 79 0.24
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (88 bp):
GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
TCTTGCCTTCCTGCACCGACAGC
Found at i:19644246 original size:177 final size:176
Alignment explanation
Indices: 19643852--19644304 Score: 667
Period size: 177 Copynumber: 2.6 Consensus size: 176
19643842 GTATTGGAGT
* * * *
19643852 GAAGTAGATCGAAGACACCAGCCTTGTCT-TCTTGGGTTGCAGCGGAGTAGGCTAAAAATAGCAG
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCTC-TGGGTTGTAGCGGAGCAGGCTAAAAATAGCAG
* * * * **
19643916 ATCTTGCCTTCTTGCACCGATAGCGAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTGTA
65 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTACA
19643981 GCAGAGCAGGCTAAAAATAGCAGATATTGCCTTCCTGCACCGACAGC
130 GCAGAGCAGGCTAAAAATAGCAGATATTGCCTTCCTGCACCGACAGC
* *
19644028 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTATAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
* *
19644093 TCTTTCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCT-AGGTTACA
66 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGA-GTTACA
* * * *
19644157 GCGGAGCAGGTTAAAAAATAGCGGATCTTGCCTTCCTGCACCGACAGC
130 GCAGAGCAGGCT-AAAAATAGCAGATATTGCCTTCCTGCACCGACAGC
* *
19644205 GAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTGTAGCGGAGCAGGTTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
* *
19644270 TCTTGCTTTCCTGCACCGTCAGCGAAGCAGATCGA
66 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
19644305 TAACCCAAAC
Statistics
Matches: 248, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 121 0.49
177 126 0.51
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (176 bp):
GAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGTAGCGGAGCAGGCTAAAAATAGCAGA
TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTACAG
CAGAGCAGGCTAAAAATAGCAGATATTGCCTTCCTGCACCGACAGC
Found at i:19644365 original size:44 final size:44
Alignment explanation
Indices: 19644315--19644477 Score: 204
Period size: 44 Copynumber: 3.7 Consensus size: 44
19644305 TAACCCAAAC
*
19644315 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAATATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* * * *
19644359 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG-AGAAT
* * *
19644403 CCAATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* *
19644447 CCTATCTCCCTGAG-CAGTAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
19644478 AAAAATAGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 96 0.96
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
Found at i:19644861 original size:101 final size:101
Alignment explanation
Indices: 19644679--19644870 Score: 233
Period size: 101 Copynumber: 1.9 Consensus size: 101
19644669 ATAGTGGAGC
* * *
19644679 AGATTGAAGCCGCAACGGCAAATCTTACTCCCCTGGCGGTGTAATGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCAAATCTTACTCCCCTGGCAGTGTAACGGAACAGATTGAAGCCACGA
* * * *
19644744 CAGTGAATTTTTTTTCCTCAACATTGCAAATTTAAA
66 CAGCGAATCTTGTTTCCCCAACATTGCAAATTTAAA
* * * * * **
19644780 AGATTGAAGCCGCAACGGCGAATTTTACTTCCCTGGCATTGTAGCGGAGTAGATTGAAGCCACGA
1 AGATTGAAGCCGCAACGGCAAATCTTACTCCCCTGGCAGTGTAACGGAACAGATTGAAGCCACGA
*
19644845 C-GACGAATCTTGTTTCCCCGACATTG
66 CAG-CGAATCTTGTTTCCCCAACATTG
19644871 TAGATGGAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 1 0.01
101 74 0.99
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (101 bp):
AGATTGAAGCCGCAACGGCAAATCTTACTCCCCTGGCAGTGTAACGGAACAGATTGAAGCCACGA
CAGCGAATCTTGTTTCCCCAACATTGCAAATTTAAA
Found at i:19644977 original size:44 final size:44
Alignment explanation
Indices: 19644880--19645001 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
19644870 GTAGATGGAA
* * * *
19644880 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCTAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAC
* * *
19644924 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAC
* * *
19644967 AGATTTTATCTCTCTGAAGTTGTAG-AGAGCAGATT
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
19645002 GCATATAGCC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 11 0.17
44 54 0.83
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCTAC
Found at i:19645626 original size:19 final size:19
Alignment explanation
Indices: 19645580--19645635 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
19645570 AATCTTCAAG
19645580 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19645599 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
19645620 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19645636 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19647368 original size:17 final size:17
Alignment explanation
Indices: 19647348--19647413 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
19647338 CAGACATAAA
*
19647348 AGTTCGCCAGTTATAGG
1 AGTTCGCCAGTAATAGG
*
19647365 AGTTTGCCAGTAATA-G
1 AGTTCGCCAGTAATAGG
* **
19647381 TGTTCGCCAGGCATAGG
1 AGTTCGCCAGTAATAGG
*
19647398 AGTTTGCCAGTAATAG
1 AGTTCGCCAGTAATAG
19647414 TGTTCGTCAG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 12 0.32
17 26 0.68
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (17 bp):
AGTTCGCCAGTAATAGG
Found at i:19647386 original size:33 final size:33
Alignment explanation
Indices: 19647349--19647437 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
19647339 AGACATAAAA
**
19647349 GTTCGCCAGTTATAGGAGTTTGCCAGTAATAGT
1 GTTCGCCAGACATAGGAGTTTGCCAGTAATAGT
*
19647382 GTTCGCCAGGCATAGGAGTTTGCCAGTAATAGT
1 GTTCGCCAGACATAGGAGTTTGCCAGTAATAGT
* *
19647415 GTTCGTCAGACATTGGAGTTTGC
1 GTTCGCCAGACATAGGAGTTTGC
19647438 TAGACTTAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (33 bp):
GTTCGCCAGACATAGGAGTTTGCCAGTAATAGT
Found at i:19649698 original size:26 final size:26
Alignment explanation
Indices: 19649637--19649686 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19649627 CATGTATGTG
*
19649637 AAAATATGTATGAATTATAAAATGGA
1 AAAATATATATGAATTATAAAATGGA
* *
19649663 AAAATGTATATGTATTATAAAATG
1 AAAATATATATGAATTATAAAATG
19649687 TAAATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AAAATATATATGAATTATAAAATGGA
Found at i:19649838 original size:3 final size:3
Alignment explanation
Indices: 19649830--19649878 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
19649820 GTATATATGT
*
19649830 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA TATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
19649875 ATA A
1 ATA A
19649879 CAAAAATAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19650894 original size:28 final size:29
Alignment explanation
Indices: 19650854--19650908 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
19650844 GTTGAAATTG
*
19650854 GCTATTGGGTTTTAATT-TT-ATTGGGCCT
1 GCTATTGGATTTT-ATTATTGATTGGGCCT
*
19650882 GCTATTGTATTTTATTATTGATTGGGC
1 GCTATTGGATTTTATTATTGATTGGGC
19650909 AAGGCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 13 0.57
29 7 0.30
ACGTcount: A:0.16, C:0.09, G:0.24, T:0.51
Consensus pattern (29 bp):
GCTATTGGATTTTATTATTGATTGGGCCT
Found at i:19651896 original size:88 final size:88
Alignment explanation
Indices: 19651804--19651974 Score: 225
Period size: 88 Copynumber: 1.9 Consensus size: 88
19651794 GGACCTACTA
* * * * *
19651804 TCTTTGATCTACTTCACGTCAGTACATGAAGACACGGTCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACC
* *
19651869 AGTATGGGGATGCAAGATCTGTT
66 AGTATGGGAAGGCAAGATCTGTT
* * * * * *
19651892 TCTTTGATCTACTTCATGCCAGTACATAAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACC
19651957 AGTATGGGAAGGCAAGAT
66 AGTATGGGAAGGCAAGAT
19651975 ATGTATATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (88 bp):
TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACC
AGTATGGGAAGGCAAGATCTGTT
Found at i:19651994 original size:88 final size:88
Alignment explanation
Indices: 19651809--19651994 Score: 210
Period size: 88 Copynumber: 2.1 Consensus size: 88
19651799 TACTATCTTT
* * * * *
19651809 GATCTACTTCACGTCAGTACATGAAGACACGGTCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACCAGTAT
* * * * * *
19651874 GGGGATGCAAGATCTGTTTCTTT
66 GGGAAGGCAAGATATGTATATTC
* * * * * *
19651897 GATCTACTTCATGCCAGTACATAAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACCAGTAT
19651962 GGGAAGGCAAGATATGTATATTC
66 GGGAAGGCAAGATATGTATATTC
*
19651985 GATCCACTTC
1 GATCTACTTC
19651995 GCTACCAATA
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (88 bp):
GATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGACCTACTCCACCACCAGTAT
GGGAAGGCAAGATATGTATATTC
Found at i:19652073 original size:44 final size:43
Alignment explanation
Indices: 19651804--19652153 Score: 182
Period size: 44 Copynumber: 7.9 Consensus size: 43
19651794 GGACCTACTA
** * *
19651804 TCTTTGATCTACTTCACGTCAGTACATGAAGACACGGTCTGTTT
1 TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTG-TT
* * * **
19651848 TCTTCGACCTACTCCACCACCAGT--ATGGGGATGCAAGATCTGTT
1 TCTTTGATCTACTTCA-CACCAGTACATGAAGA--CAAGATCTGTT
** *
19651892 TCTTTGATCTACTTCATGCCAGTACATAAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTG-TT
* * *** * * *
19651936 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTA
1 TCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGTT
* * * * * * * * * * *
19651980 TATTCGATCCACTTCGCTACCAATATAGGAAGACATGACCTACTA
1 TCTTTGATCTACTTCAC-ACCAGTACATGAAGACAAGATCT-GTT
* *
19652025 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTG-TT
* * *** ** *
19652069 TCTTTGACCTACTCCACCACCAGTATGGGGGGACAAGATCTGGTA
1 TCTTTGATCTACTTCA-CACCAGTACATGAAGACAAGATCT-GTT
* * * *
19652114 TATTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
1 TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCT
19652154 TTTGTATTCA
Statistics
Matches: 221, Mismatches: 73, Indels: 24
0.69 0.23 0.08
Matches are distributed among these distances:
43 20 0.09
44 122 0.55
45 78 0.35
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGTT
Found at i:19652086 original size:221 final size:222
Alignment explanation
Indices: 19651721--19652153 Score: 699
Period size: 221 Copynumber: 2.0 Consensus size: 222
19651711 ATAATCTTCA
* *
19651721 ATCTACTTCGCCGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
1 ATCTACTTCGCCACCAGTATGGGAAGACAAAATATGTATATTCGATCCACTTCGCTACCAATATA
* *
19651786 GGAAGACAGGACCTACTATCTTTGATCTACTTCACGTCAGTACATGAAGACACGGTCTGTTTTCT
66 GGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCT
* * * * * *
19651851 TCGACCTACTCCACCACCAGTATGGGGATG-CAAGATCT-GTTTCTTTGATCTACTTCATGCCAG
131 TCGACCTACTCCACCACCAGTATGGGG-GGACAAGATCTGGTATATTCGATCTACTTCACGCCAA
19651914 TACATAAAGACAAGATCTGCTTTCTTTG
195 TACATAAAGACAAGATCTGCTTTCTTTG
* * *
19651942 ATCTGCTTCGCCACCAGTATGGGAAGGCAAGATATGTATATTCGATCCACTTCGCTACCAATATA
1 ATCTACTTCGCCACCAGTATGGGAAGACAAAATATGTATATTCGATCCACTTCGCTACCAATATA
*
19652007 GGAAGACATGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCT
66 GGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCT
*
19652072 TTGACCTACTCCACCACCAGTATGGGGGGACAAGATCTGGTATATTCGATCTACTTCACGCCAAT
131 TCGACCTACTCCACCACCAGTATGGGGGGACAAGATCTGGTATATTCGATCTACTTCACGCCAAT
*
19652137 ACATGAAGACAAGATCT
196 ACATAAAGACAAGATCT
19652154 TTTGTATTCA
Statistics
Matches: 194, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
220 1 0.01
221 156 0.80
222 37 0.19
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (222 bp):
ATCTACTTCGCCACCAGTATGGGAAGACAAAATATGTATATTCGATCCACTTCGCTACCAATATA
GGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCT
TCGACCTACTCCACCACCAGTATGGGGGGACAAGATCTGGTATATTCGATCTACTTCACGCCAAT
ACATAAAGACAAGATCTGCTTTCTTTG
Found at i:19652136 original size:133 final size:133
Alignment explanation
Indices: 19651892--19652147 Score: 345
Period size: 133 Copynumber: 1.9 Consensus size: 133
19651882 AAGATCTGTT
* * * * *
19651892 TCTTTGATCTACTTCATGCCAGTACATAAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTTGACCTACTCCACCACC
* *
19651957 AGTATGGGAAGGCAAGATATGTATATTCGATCCACTTCGCTACCAATATAGGAAGACATGACCTA
66 AGTATGGGAAGGCAAGATATGTATATTCGATCCACTTCACTACCAATACAGGAAGACATGACCTA
19652022 CTA
131 CTA
* * *
19652025 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTTGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTTGACCTACTCCACCACC
* * * * *
19652090 AGTATGGG-GGGACAAGATCTGGTATATTCGATCTACTTCAC-GCCAATACATGAAGACA
66 AGTATGGGAAGG-CAAGATAT-GTATATTCGATCCACTTCACTACCAATACAGGAAGACA
19652148 AGATCTTTTG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 2 0.02
133 86 0.81
134 18 0.17
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (133 bp):
TCTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTTGACCTACTCCACCACC
AGTATGGGAAGGCAAGATATGTATATTCGATCCACTTCACTACCAATACAGGAAGACATGACCTA
CTA
Found at i:19658326 original size:26 final size:26
Alignment explanation
Indices: 19658265--19658314 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19658255 CATGTATGTG
*
19658265 AAAATATGTATGAATTATAAAATGGA
1 AAAATATATATGAATTATAAAATGGA
* *
19658291 AAAATGTATATGTATTATAAAATG
1 AAAATATATATGAATTATAAAATG
19658315 TAAATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AAAATATATATGAATTATAAAATGGA
Found at i:19658467 original size:3 final size:3
Alignment explanation
Indices: 19658459--19658507 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
19658449 GTATATATGT
*
19658459 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA TATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
19658504 ATA A
1 ATA A
19658508 CAAAAATAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19659527 original size:28 final size:29
Alignment explanation
Indices: 19659487--19659541 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
19659477 GTTGAAATTG
*
19659487 GCTATTGGGTTTTAATT-TT-ATTGGGCCT
1 GCTATTGGATTTT-ATTATTGATTGGGCCT
*
19659515 GCTATTGTATTTTATTATTGATTGGGC
1 GCTATTGGATTTTATTATTGATTGGGC
19659542 AGGGCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 13 0.57
29 7 0.30
ACGTcount: A:0.16, C:0.09, G:0.24, T:0.51
Consensus pattern (29 bp):
GCTATTGGATTTTATTATTGATTGGGCCT
Found at i:19660560 original size:37 final size:37
Alignment explanation
Indices: 19660518--19660595 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
19660508 CAAATGCTTC
19660518 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
1 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
19660555 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
1 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
19660592 TGAG
1 TGAG
19660596 GAAAAGAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.27
Consensus pattern (37 bp):
TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
Found at i:19661811 original size:37 final size:37
Alignment explanation
Indices: 19661770--19661914 Score: 146
Period size: 37 Copynumber: 3.9 Consensus size: 37
19661760 GATTCCCTGC
*
19661770 AAAAGATGGAGAACAATAGTAAAGATTCTCTGCAAAG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
** * * *
19661807 AAAAGACGGAGATTAGTAATAAAGATTCTCTGCAAAAAA
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTGC--AAAG
** * * * *
19661846 AAAAGACATAGATCAACAGTAAAGGTTCTATGCAAAG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
* *
19661883 AAAAGACGGAAAACAATAGTAAAGATTTTCTG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTG
19661915 TAAAAGTTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
37 55 0.66
39 28 0.34
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (37 bp):
AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
Found at i:19661869 original size:39 final size:39
Alignment explanation
Indices: 19661778--19661886 Score: 96
Period size: 39 Copynumber: 2.8 Consensus size: 39
19661768 GCAAAAGATG
* * * *
19661778 GAGAACAATAGTAAAGATTCTCTGC--AAAGAAAAGACG
1 GAGATCAACAGTAAAGATTCTCTGCAAAAAAAAAAGACA
* ** *
19661815 GAGATTAGTAATAAAGATTCTCTGCAAAAAAAAAAGACA
1 GAGATCAACAGTAAAGATTCTCTGCAAAAAAAAAAGACA
* * * *
19661854 TAGATCAACAGTAAAGGTTCTATGCAAAGAAAA
1 GAGATCAACAGTAAAGATTCTCTGCAAAAAAAA
19661887 GACGGAAAAC
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 21 0.38
39 35 0.62
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (39 bp):
GAGATCAACAGTAAAGATTCTCTGCAAAAAAAAAAGACA
Found at i:19663491 original size:26 final size:26
Alignment explanation
Indices: 19663430--19663479 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19663420 CATGTATGTG
*
19663430 AAAATATGTATGAATTATAAAATGGA
1 AAAATATATATGAATTATAAAATGGA
* *
19663456 AAAATGTATATGTATTATAAAATG
1 AAAATATATATGAATTATAAAATG
19663480 TAAATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AAAATATATATGAATTATAAAATGGA
Found at i:19663632 original size:3 final size:3
Alignment explanation
Indices: 19663624--19663669 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
19663614 GTATATATGT
*
19663624 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA TATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
19663669 A
1 A
19663670 CAAAATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:19664684 original size:28 final size:29
Alignment explanation
Indices: 19664644--19664698 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
19664634 GTTGAAATTG
*
19664644 GCTATTGGGTTTTAATT-TT-ATTGGGCCT
1 GCTATTGGATTTT-ATTATTGATTGGGCCT
*
19664672 GCTATTGTATTTTATTATTGATTGGGC
1 GCTATTGGATTTTATTATTGATTGGGC
19664699 AGGGCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 13 0.57
29 7 0.30
ACGTcount: A:0.16, C:0.09, G:0.24, T:0.51
Consensus pattern (29 bp):
GCTATTGGATTTTATTATTGATTGGGCCT
Found at i:19665716 original size:37 final size:37
Alignment explanation
Indices: 19665674--19665751 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
19665664 CAAATGCTTC
19665674 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
1 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
19665711 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
1 TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
19665748 TGAG
1 TGAG
19665752 GAAAAGAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.27
Consensus pattern (37 bp):
TGAGATAGGGTATGGTAGGATTTTAAAACAAGTCAAA
Found at i:19666967 original size:37 final size:37
Alignment explanation
Indices: 19666926--19667069 Score: 130
Period size: 37 Copynumber: 3.9 Consensus size: 37
19666916 GATTCCCTGC
*
19666926 AAAAGATGGAGAACAATAGTAAAGATTCTCTGCAAAG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
* * * *
19666963 AAAAGACGGA-AATTAGTAATAAAGATTCTCTGCAAAAAA
1 AAAAGACGGAGAA-CAATAGTAAAGATTCTCTGC--AAAG
** * * * *
19667002 AAAAGACATAGATCAACAGTAAAGGTTCTATGCAAAG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
* *
19667039 AAAAGACGGAAAACAATAGT-AAGATTTTCTG
1 AAAAGACGGAGAACAATAGTAAAGATTCTCTG
19667070 TAAAAGTTTT
Statistics
Matches: 80, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
36 10 0.12
37 44 0.55
39 25 0.31
40 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (37 bp):
AAAAGACGGAGAACAATAGTAAAGATTCTCTGCAAAG
Found at i:19672436 original size:87 final size:87
Alignment explanation
Indices: 19672290--19672463 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
19672280 ACTAGGTGTG
*
19672290 TTGCCTATCATATAGGCACCACCATTATTGCCTATCAGATAAGGGTCACTGGTGTCGCCTATCAG
1 TTGCCTATCATATAGGCACCACCATTACTGCCTATCAGATAAGGGTCACTGGTGTCGCCTATCAG
19672355 ATAGGCACCATACCTCCATACC
66 ATAGGCACCATACCTCCATACC
19672377 TTGCCTATCATATAGGCACCACCATTACTGCCTATCAGATAAGGGTCACTGGTGTCGCCTATCAG
1 TTGCCTATCATATAGGCACCACCATTACTGCCTATCAGATAAGGGTCACTGGTGTCGCCTATCAG
19672442 ATAGGCACCATACCTCCATACC
66 ATAGGCACCATACCTCCATACC
19672464 CCTTTCGTAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (87 bp):
TTGCCTATCATATAGGCACCACCATTACTGCCTATCAGATAAGGGTCACTGGTGTCGCCTATCAG
ATAGGCACCATACCTCCATACC
Found at i:19673036 original size:18 final size:18
Alignment explanation
Indices: 19672989--19673036 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19672979 TAAAATTTTA
19672989 ATTTATAATT-TTTTTATG
1 ATTTA-AATTATTTTTATG
*
19673007 ATTTTAAA-TATTTTTATT
1 A-TTTAAATTATTTTTATG
19673025 ATTTAAATTATT
1 ATTTAAATTATT
19673037 GAAGATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTAAATTATTTTTATG
Found at i:19673472 original size:11 final size:11
Alignment explanation
Indices: 19673457--19673496 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19673447 TGTTTTCTCC
19673457 TTATTTTGCTA
1 TTATTTTGCTA
* *
19673468 CTATTTTACTA
1 TTATTTTGCTA
*
19673479 TTATGTTGCTA
1 TTATTTTGCTA
19673490 TTATTTT
1 TTATTTT
19673497 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (11 bp):
TTATTTTGCTA
Found at i:19674583 original size:9 final size:9
Alignment explanation
Indices: 19674569--19674599 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19674559 ATGAAACGAA
19674569 TCGAGTTAT
1 TCGAGTTAT
*
19674578 TCGAGTTAA
1 TCGAGTTAT
19674587 TCGAGTTAT
1 TCGAGTTAT
19674596 TCGA
1 TCGA
19674600 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:19674758 original size:21 final size:21
Alignment explanation
Indices: 19674717--19674759 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
19674707 ACCCCAAACT
* *
19674717 CTCAAATCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
19674738 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
19674759 C
1 C
19674760 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:19675181 original size:13 final size:12
Alignment explanation
Indices: 19675158--19675190 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
19675148 ATAAATAGTA
19675158 ATATT-TTATTT
1 ATATTATTATTT
19675169 ATATCTATTATTT
1 ATAT-TATTATTT
19675182 ATATTATTA
1 ATATTATTA
19675191 AATTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 6 0.30
13 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:19675195 original size:17 final size:17
Alignment explanation
Indices: 19675175--19675257 Score: 64
Period size: 17 Copynumber: 4.8 Consensus size: 17
19675165 ATTTATATCT
19675175 ATTATTTATATTATTAA
1 ATTATTTATATTATTAA
* *
19675192 ATTAAATTTCACATT-TTAT
1 ATT--ATTT-ATATTATTAA
*
19675211 ATTATTTATATTATTGA
1 ATTATTTATATTATTAA
*
19675228 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTAA
19675246 A-TATTTATATTA
1 ATTATTTATATTA
19675258 AAATTGAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 7 0.13
17 23 0.43
18 8 0.15
19 11 0.20
20 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTAA
Found at i:19675605 original size:5 final size:5
Alignment explanation
Indices: 19675595--19675646 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
19675585 GAATAAATAT
* *
19675595 ATTCG ATTCG ATTCG ATTCG ATTCG AATTCC ATCTC- ACTCG ATTCG ATTCG
1 ATTCG ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG ATTCG ATTCG ATTCG
19675646 A
1 A
19675647 GAAAACTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (5 bp):
ATTCG
Found at i:19677195 original size:13 final size:13
Alignment explanation
Indices: 19677177--19677201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19677167 ATATAGGGGG
19677177 AAATGTACCATTT
1 AAATGTACCATTT
19677190 AAATGTACCATT
1 AAATGTACCATT
19677202 AACGAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
AAATGTACCATTT
Found at i:19689161 original size:46 final size:46
Alignment explanation
Indices: 19689090--19689274 Score: 293
Period size: 46 Copynumber: 4.0 Consensus size: 46
19689080 CATGGCAAAG
* *
19689090 TGTGGAACGTAGGTATGGTAATTCAG-GAAAGAAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTG-AAGAAAACCATACTGAGT
*
19689136 TGTGGAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
19689182 TGTGAAACGTAGGTATGGTATTTCAGT-AACGAAAACCATACAGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTGAA-GAAAACCATACTGAGT
*
19689228 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
19689274 T
1 T
19689275 ATAGCATTGT
Statistics
Matches: 131, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
45 2 0.02
46 126 0.96
47 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (46 bp):
TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:19690521 original size:17 final size:17
Alignment explanation
Indices: 19690467--19690513 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
19690457 TCTGGATTGG
* * *
19690467 TTTATTGATTTTTATCA
1 TTTATTTATTTTTCTTA
*
19690484 TTTGTTTATTTTTCTTA
1 TTTATTTATTTTTCTTA
19690501 TTTATTTATTTTT
1 TTTATTTATTTTT
19690514 GCTATTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTTCTTA
Found at i:19693565 original size:10 final size:10
Alignment explanation
Indices: 19693540--19693580 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
19693530 AGGCCAACAT
19693540 AAGAAAAAACA
1 AAGAAAAAA-A
*
19693551 AAGAAAATAA
1 AAGAAAAAAA
*
19693561 TAGAAAAAAA
1 AAGAAAAAAA
19693571 AAGAAAAAAA
1 AAGAAAAAAA
19693581 GGGATAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:19698272 original size:24 final size:24
Alignment explanation
Indices: 19698240--19698294 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
19698230 TAGACAGATG
*
19698240 GGGGGAAAACTAAGTTAGGGATTT
1 GGGGAAAAACTAAGTTAGGGATTT
*
19698264 GGGGAAAAACTAAGTTAGGTATTT
1 GGGGAAAAACTAAGTTAGGGATTT
19698288 GGAGGAA
1 GG-GGAA
19698295 TAAGGGTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.36, C:0.04, G:0.36, T:0.24
Consensus pattern (24 bp):
GGGGAAAAACTAAGTTAGGGATTT
Found at i:19708538 original size:15 final size:15
Alignment explanation
Indices: 19708520--19708554 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19708510 GTATTATATA
*
19708520 ATAATGACAATAGTT
1 ATAATGACAATAATT
*
19708535 ATAATGATAATAATT
1 ATAATGACAATAATT
19708550 ATAAT
1 ATAAT
19708555 AATAGTACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (15 bp):
ATAATGACAATAATT
Found at i:19715509 original size:13 final size:13
Alignment explanation
Indices: 19715491--19715515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19715481 CTAAATCATA
19715491 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
19715504 ATTTTAGTAAAA
1 ATTTTAGTAAAA
19715516 CCCCTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:19716725 original size:10 final size:11
Alignment explanation
Indices: 19716700--19716728 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
19716690 TTAAAAATAA
19716700 AAAAATATTTT
1 AAAAATATTTT
19716711 AAAAATATTTT
1 AAAAATATTTT
19716722 AAAAATA
1 AAAAATA
19716729 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:19717948 original size:107 final size:107
Alignment explanation
Indices: 19717596--19718317 Score: 1032
Period size: 106 Copynumber: 6.7 Consensus size: 107
19717586 AAGTAAAAAA
*
19717596 AAAAACAAAATTTCTCCAAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCCAAA--TTTTTT
1 AAAAA-AAAA-TTC-CCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-CCAAATTTTTTTT
19717659 TTTACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
62 TTTACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
* * * *
19717705 AAAAAAAAATTTCCAAAAAAGATGGTGCTGGCCATTGGCAGGCCACCACCAAAAGAATTTTTTTT
1 AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC--AA-ATTTTTTTTT
19717770 TTACTTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAA-T
63 TTAC-TTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
* *
19717815 -AAAAAAAATCCCCAAAAAAGGTGGTGCCGGCCATCGGCAGGCCACCACCAAAATTTTTTTTTTT
1 AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC-AAATTTTTTTTTTT
*
19717879 ACTTTTTTCGTATACTCATACCTGCTATTGACACGAAAAAAGT
65 ACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
**
19717922 -AAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCGTCAAATTTTTTTTTTTA
1 AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTTTA
* * * *
19717986 TTTTTTTCTTACACTGATACCTACTATTGACACGAAAAAAGT
66 CTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
* * *
19718028 -AAAAAAAATCCCCAAAAAAGGTGGTGCCGGCTATTGGCAGGCCACCATCAAATTTGTTTTTTTT
1 AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAA-TT-TTTTTTTT
*
19718092 TACTTTTTTCGTATACTGATACCTGTTATTGACACGAAAAAAGT
64 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
* *
19718136 AAAAAAAAATTTCCCCAAAAAAGGTGGTGTCGGCCATTGGCAGGCCACTA-C-AA-TTTTTTTTT
1 AAAAAAAAA-TT-CCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTT
19718198 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
64 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
* * * *
19718242 AAAAAAAAAATTTCCAAAAATGGTGGTGCCGGCCATTGGCAAGCTACCACC-AATTTTTTTTTTT
1 -AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTTT
19718306 ACTTTTTTCGTA
65 ACTTTTTTCGTA
19718318 CTCTGGTGCC
Statistics
Matches: 559, Mismatches: 39, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
105 33 0.06
106 228 0.41
107 97 0.17
108 55 0.10
109 59 0.11
110 14 0.03
111 73 0.13
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (107 bp):
AAAAAAAAATTCCCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTTTA
CTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT
Found at i:19718143 original size:322 final size:320
Alignment explanation
Indices: 19717546--19718318 Score: 1067
Period size: 322 Copynumber: 2.4 Consensus size: 320
19717536 AAAAAATTTG
* *
19717546 TACTTTTTTCGTATACTGGTACATGCTATTGACACGAAAAAAGTAAAAAAAAAAACAAAATTTCT
1 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT------AAAAA-AAAA-TTC-
*
19717611 CCAAAAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCCAAA--TTTTTTTTTACTTTTTTCGTA
57 CCAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCA--CAAATTTTTTTTTTTACTTTTTTCGTA
* * ** *
19717674 TACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAATTTCCAAAAAAGATGGTGCTGGCCA
120 CACTGATACCTACTATTGACACGAAAAAAGTAAAAAAAAATCCCCAAAAAAGATGGTGCCGGCCA
19717739 TTGGCAGGCCACCACCAAAAGAATTTTTTTTTTACTTTTTTTCGTATACTGATACCTGCTATTGA
185 TTGGCAGGCCACCACCAAAAGAATTTTTTTTTTACTTTTTTTCGTATACTGATACCTGCTATTGA
19717804 CACGAAAAAATAAAAAAAA-TCCCCAAAAAAGGTGGTGCCGGCCATCGGCAGGCCACCACCAAAA
250 CACGAAAAAATAAAAAAAATTCCCCAAAAAAGGTGGTGCCGGCCATCGGCAGGCCACCA-C--AA
19717868 TTTTTTTTTT
312 -TTTTTTTTT
*
19717878 TACTTTTTTCGTATACTCATACCTGCTATTGACACGAAAAAAGT-AAAAAAAATTCCCAAAAAAG
1 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAATTCCCAAAAAAG
* * *
19717942 GTGGTGCCGGCCATTGGCAGGCCACCGTCAAATTTTTTTTTTTATTTTTTTCTTACACTGATACC
66 GTGGTGCCGGCCATTGGCAGGCCACC-ACAAATTTTTTTTTTTACTTTTTTCGTACACTGATACC
* *
19718007 TACTATTGACACGAAAAAAGT-AAAAAAAATCCCCAAAAAAGGTGGTGCCGGCTATTGGCAGGCC
130 TACTATTGACACGAAAAAAGTAAAAAAAAATCCCCAAAAAAGATGGTGCCGGCCATTGGCAGGCC
* ** *
19718071 ACCATC-AAA-TTTGTTTTTTTTTAC-TTTTTTCGTATACTGATACCTGTTATTGACACGAAAAA
195 ACCACCAAAAGAAT-TTTTTTTTTACTTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAA
* * *
19718133 AGTAAAAAAAAATTTCCCCAAAAAAGGTGGTGTCGGCCATTGGCAGGCCACTACAATTTTTTTTT
259 A-T-AAAAAAAA-TTCCCCAAAAAAGGTGGTGCCGGCCATCGGCAGGCCACCACAATTTTTTTTT
* *
19718198 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAAATTTCCAAAAAT
1 TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGT-AAAAAAAAATTCCCAAAAAA
* * *
19718263 GGTGGTGCCGGCCATTGGCAAGCTACCACCAATTTTTTTTTTTACTTTTTTCGTAC
65 GGTGGTGCCGGCCATTGGCAGGCCACCACAAATTTTTTTTTTTACTTTTTTCGTAC
19718319 TCTGGTGCCG
Statistics
Matches: 401, Mismatches: 30, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
320 91 0.23
321 46 0.11
322 127 0.32
323 52 0.13
324 40 0.10
325 4 0.01
332 41 0.10
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (320 bp):
TACTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAGTAAAAAAAAATTCCCAAAAAAG
GTGGTGCCGGCCATTGGCAGGCCACCACAAATTTTTTTTTTTACTTTTTTCGTACACTGATACCT
ACTATTGACACGAAAAAAGTAAAAAAAAATCCCCAAAAAAGATGGTGCCGGCCATTGGCAGGCCA
CCACCAAAAGAATTTTTTTTTTACTTTTTTTCGTATACTGATACCTGCTATTGACACGAAAAAAT
AAAAAAAATTCCCCAAAAAAGGTGGTGCCGGCCATCGGCAGGCCACCACAATTTTTTTTT
Found at i:19719027 original size:54 final size:54
Alignment explanation
Indices: 19718942--19719056 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
19718932 TAAATATCAA
*
19718942 GGTCTCAATGAGCTGGACAGTGAGTCCGTGATGAAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACAGTGAATCCGTGATGAAAATTTTGTTGCCTAAAGCT
* *
19718996 GGTCTCAATGAGCTGGACAGTGAATCTGTGATGGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACAGTGAATCCGTGATGAAAATTTTGTTGCCTAAAGCT
19719050 GGTCTCA
1 GGTCTCA
19719057 GTGGCCCAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (54 bp):
GGTCTCAATGAGCTGGACAGTGAATCCGTGATGAAAATTTTGTTGCCTAAAGCT
Found at i:19722841 original size:21 final size:21
Alignment explanation
Indices: 19722816--19722858 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19722806 TTGTAGAAGA
19722816 GATAATAAATGAAACAATGTT
1 GATAATAAATGAAACAATGTT
19722837 GATAATAAATGAAACAATGTT
1 GATAATAAATGAAACAATGTT
19722858 G
1 G
19722859 CTACTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (21 bp):
GATAATAAATGAAACAATGTT
Found at i:19725744 original size:3 final size:3
Alignment explanation
Indices: 19725738--19725766 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19725728 ACTATTTAGG
19725738 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19725767 TTTCTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19725937 original size:22 final size:22
Alignment explanation
Indices: 19725886--19725938 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
19725876 TCATCTCATT
*
19725886 TATTTATTTATTTGTTTTCTTTA
1 TATTTA-TTATTTGTTTTCTTAA
19725909 T-TGTTATTA-TTGTTTTACTTAA
1 TAT-TTATTATTTGTTTT-CTTAA
19725931 TATTTATT
1 TATTTATT
19725939 CATTCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.70
Consensus pattern (22 bp):
TATTTATTATTTGTTTTCTTAA
Found at i:19730171 original size:32 final size:31
Alignment explanation
Indices: 19730106--19730172 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
19730096 ACCTAAAATT
* * *
19730106 ATTAATTCTAATTATTCTAATATTTTATTTA
1 ATTAATTCTAATTATTCTAATATATAATCTA
19730137 ATTAATTCCTAATTATT-TAATTATATAATCTA
1 ATTAATT-CTAATTATTCTAA-TATATAATCTA
19730169 ATTA
1 ATTA
19730173 TGGTTTCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATCTA
Found at i:19736680 original size:26 final size:26
Alignment explanation
Indices: 19736643--19736738 Score: 165
Period size: 26 Copynumber: 3.7 Consensus size: 26
19736633 AAGTATAATA
* *
19736643 TACTGGCAGCTTTGCTGCGATACTGT
1 TACTGGCAGCTTTGCTGCGTTACTAT
*
19736669 TACTGGCGGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGTTACTAT
19736695 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGTTACTAT
19736721 TACTGGCAGCTTTGCTGC
1 TACTGGCAGCTTTGCTGC
19736739 AATATTAGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGTTACTAT
Found at i:19738231 original size:6 final size:6
Alignment explanation
Indices: 19738220--19738244 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19738210 TTTGTTTATA
19738220 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
19738245 AAGGTACCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:19744125 original size:22 final size:23
Alignment explanation
Indices: 19744092--19744141 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
19744082 GGACAAGTCA
* *
19744092 CCACT-GATTTGCATATAAATTG
1 CCACTGGATTTGCAGATAAACTG
19744114 CCACTGGA-TTGCAGATAAACTG
1 CCACTGGATTTGCAGATAAACTG
19744136 CCACTG
1 CCACTG
19744142 ATAACACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (23 bp):
CCACTGGATTTGCAGATAAACTG
Found at i:19758607 original size:27 final size:27
Alignment explanation
Indices: 19758561--19758883 Score: 373
Period size: 27 Copynumber: 12.0 Consensus size: 27
19758551 TGTAATGGGC
* * *
19758561 GTAAAATGACCGAAAAACCCGCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
* * *
19758588 GTAAAATGACCAAAATACCC-CTAAAGG
1 GTAAAATGATCGAAATACCCTC-GAAGG
19758615 GTAAAATGATCGAAATACCCTCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
*
19758642 GTAAAATGATCGAAATACTCC-CAAAGG
1 GTAAAATGATCGAAATAC-CCTCGAAGG
19758669 GTAAAATGATCGAAATACCCTCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
* **
19758696 GTAAAATGACCGAAATACCCTTAAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
* * *
19758723 GTAAAATGATCAAAATACCCTCAAAGA
1 GTAAAATGATCGAAATACCCTCGAAGG
* *
19758750 GTAAAATGATTGAAATAGCCTCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
*
19758777 GTAAAATGATCGAAATAGCCTCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
*
19758804 GTAAAATG-GCTGAAATACCCTCGAAGG
1 GTAAAATGATC-GAAATACCCTCGAAGG
* * ** *
19758831 GTAAATTGATTGAAATACCCTTAAAAG
1 GTAAAATGATCGAAATACCCTCGAAGG
* * *
19758858 GTAAAATGACCAAAATACCTTCGAAG
1 GTAAAATGATCGAAATACCCTCGAAG
19758884 TTTATAATTA
Statistics
Matches: 253, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.02
27 246 0.97
28 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
GTAAAATGATCGAAATACCCTCGAAGG
Found at i:19758882 original size:54 final size:54
Alignment explanation
Indices: 19758561--19758922 Score: 358
Period size: 54 Copynumber: 6.7 Consensus size: 54
19758551 TGTAATGGGC
* * * * *
19758561 GTAAAATGACCGAAAAACCCGCGAAGGGTAAAATGACCAAAATACC-CCTAAAGG
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTC-AAAGG
* *
19758615 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATA-CTCCCAAAGG
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCT-TCAAAGG
19758669 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTT-AAAGG
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCTTCAAAGG
* * * ** *
19758723 GTAAAATGATCAAAATACCCTCAAAGAGTAAAATGATTGAAATAGCC-TCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCTTCAAAGG
* * * * *
19758777 GTAAAATGATCGAAATAGCCTCGAAGGGTAAAATGGCTGAAATACCCTCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCAAAGG
* * ** * * * *
19758831 GTAAATTGATTGAAATACCCTTAAAAGGTAAAATGACCAAAATACCTTCGAAGT
1 GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCAAAGG
* * * *
19758885 TTATAATTA-CTGAAATACCC-CTATAGGGTAAAATGACC
1 GTAAAATGATC-GAAATACCCTCGA-AGGGTAAAATGACC
19758923 ATTATACCCC
Statistics
Matches: 261, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
53 5 0.02
54 252 0.97
55 2 0.01
56 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (54 bp):
GTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCAAAGG
Found at i:19758913 original size:81 final size:82
Alignment explanation
Indices: 19758561--19758920 Score: 337
Period size: 81 Copynumber: 4.4 Consensus size: 82
19758551 TGTAATGGGC
* * * ***
19758561 GTAAAATGACCGAAAAACCCGC-GAAGGGTAAAATGACCAAAATACCC-CTAAAGGGTAAAATGA
1 GTAAAATGATCGAAATACCC-CTAAAGGGTAAAATGATTGAAATACCCTC-AAAGGGTAAAATGA
*
19758624 TCGAAATACCC-TCGAAGG
64 CCGAAATACCCTTCGAAGG
* *
19758642 GTAAAATGATCGAAATACTCCC-AAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGAC
1 GTAAAATGATCGAAATAC-CCCTAAAGGGTAAAATGATTGAAATACCCTCAAAGGGTAAAATGAC
*
19758706 CGAAATACCCTT-AAAGG
65 CGAAATACCCTTCGAAGG
* * * * *
19758723 GTAAAATGATCAAAATA-CCCTCAAAGAGTAAAATGATTGAAATAGCCTCGAAGGGTAAAATGAT
1 GTAAAATGATCGAAATACCCCT-AAAGGGTAAAATGATTGAAATACCCTCAAAGGGTAAAATGAC
*
19758787 CGAAATAGCC-TCGAAGG
65 CGAAATACCCTTCGAAGG
* * * * *
19758804 GTAAAATG-GCTGAAATA-CCCTCGAAGGGTAAATTGATTGAAATACCCTTAAAAGGTAAAATGA
1 GTAAAATGATC-GAAATACCCCT-AAAGGGTAAAATGATTGAAATACCCTCAAAGGGTAAAATGA
* *
19758867 CCAAAATA-CCTTCGAAGT
64 CCGAAATACCCTTCGAAGG
* * * *
19758885 TTATAATTA-CTGAAATACCCCTATAGGGTAAAATGA
1 GTAAAATGATC-GAAATACCCCTAAAGGGTAAAATGA
19758921 CCATTATACC
Statistics
Matches: 236, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.01
80 4 0.02
81 221 0.94
82 8 0.03
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (82 bp):
GTAAAATGATCGAAATACCCCTAAAGGGTAAAATGATTGAAATACCCTCAAAGGGTAAAATGACC
GAAATACCCTTCGAAGG
Found at i:19759182 original size:26 final size:26
Alignment explanation
Indices: 19759119--19759195 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
19759109 ACATACACTG
* * * * *
19759119 TTACTGGCAGCATTGCTACGTTACTG
1 TTACTGGCAACTTTGCTGCGTTATTA
19759145 TTACTGGCAACTTTGCTGCGTTATTA
1 TTACTGGCAACTTTGCTGCGTTATTA
* *
19759171 TTACTGGCAACTTTGTTGCGCTATT
1 TTACTGGCAACTTTGCTGCGTTATT
19759196 GGTGTGTTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
TTACTGGCAACTTTGCTGCGTTATTA
Found at i:19759387 original size:30 final size:30
Alignment explanation
Indices: 19759315--19759398 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
19759305 CATTGTTCTA
* *
19759315 ATTACTGTTTTGGGCTAAGG-CC-CATACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
*
19759343 ATTACTATATTGGGCTAAGGCCCACACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
* * *
19759373 GTTACTGTAATGGGCTAAGACCCACA
1 ATTACTGTATTGGGCTAAGGCCCACA
19759399 TTGTGCTGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.38
29 2 0.04
30 27 0.57
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (30 bp):
ATTACTGTATTGGGCTAAGGCCCACACACT
Found at i:19766396 original size:27 final size:27
Alignment explanation
Indices: 19766366--19766751 Score: 383
Period size: 27 Copynumber: 14.3 Consensus size: 27
19766356 GTAATGGGCC
19766366 TAAAATGACTGAAATACCCTCGAAAGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* *
19766393 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* *
19766420 TAAAATGA-TCGAAATACCCCCAAAAGG
1 TAAAATGACT-GAAATACCCTCGAAAGG
* * *
19766447 TAAACTGATTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* * *
19766474 TAAAATAACTGAAATACCCCCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* * **
19766501 TAAAATAATTGAAATACATTCGAAAGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* * *
19766528 TAAAATGA-TCGAAAGACCCTTGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAAGG
* *
19766555 TAAAATGACCGAAACACCCTCGAAAGG
1 TAAAATGACTGAAATACCCTCGAAAGG
*
19766582 TAAAATGA-TCGAAATACCCTCGAATGG
1 TAAAATGACT-GAAATACCCTCGAAAGG
* * *
19766609 TAAAATAACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAAGG
* * *
19766636 TAAAAT-AATCGAAATACCCCCAAAAGG
1 TAAAATGACT-GAAATACCCTCGAAAGG
19766663 TAAAATGACTGAAATACCCTC--AAGG
1 TAAAATGACTGAAATACCCTCGAAAGG
*
19766688 ATAAACTGACTGAAATACCCTCG-AAGG
1 -TAAAATGACTGAAATACCCTCGAAAGG
* * *
19766715 ATAAAATTACTGAAATAACCCT-GTAGGG
1 -TAAAATGACTGAAAT-ACCCTCGAAAGG
19766743 TAAAATGAC
1 TAAAATGAC
19766752 CATTATACCC
Statistics
Matches: 300, Mismatches: 47, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.01
26 22 0.07
27 263 0.88
28 11 0.04
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAAGG
Found at i:19766448 original size:54 final size:54
Alignment explanation
Indices: 19766366--19766750 Score: 422
Period size: 54 Copynumber: 7.1 Consensus size: 54
19766356 GTAATGGGCC
*
19766366 TAAAATGA-CTGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * *
19766420 TAAAATGATCGAAATACCCCCAAAAGGTAAACTGATTGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * * * ** *
19766474 TAAAAT-AACTGAAATACCCCCGAAGGGTAAAATAATTGAAATACATTCGAAAGG
1 TAAAATGATC-GAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * * * *
19766528 TAAAATGATCGAAAGACCCTTGAAGGGTAAAATGACCGAAACACCCTCGAAAGG
1 TAAAATGATCGAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * *
19766582 TAAAATGATCGAAATACCCTCGAATGGTAAAATAACCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * * *
19766636 TAAAATAATCGAAATACCCCCAAAAGGTAAAATGACTGAAATACCCTC-AAGGA
1 TAAAATGATCGAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
* * *
19766689 TAAACTGA-CTGAAATACCCTCG-AAGGATAAAATTACTGAAATAACCCT-GTAGGG
1 TAAAATGATC-GAAATACCCTCGAAAGG-TAAAATGACTGAAAT-ACCCTCGAAGGG
19766743 TAAAATGA
1 TAAAATGA
19766751 CCATTATACC
Statistics
Matches: 280, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
52 5 0.02
53 36 0.13
54 236 0.84
55 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (54 bp):
TAAAATGATCGAAATACCCTCGAAAGGTAAAATGACTGAAATACCCTCGAAGGG
Found at i:19766515 original size:81 final size:81
Alignment explanation
Indices: 19766366--19766750 Score: 429
Period size: 81 Copynumber: 4.8 Consensus size: 81
19766356 GTAATGGGCC
* * * *
19766366 TAAAATGACTGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCG
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATGATCG
* *
19766431 AAATACCCCCAAAAGG
66 AAATACCCTCGAAAGG
* * * *
19766447 TAAACTGATTGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATAATTG
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATGATCG
**
19766512 AAATACATTCGAAAGG
66 AAATACCCTCGAAAGG
* * * * * * *
19766528 TAAAATGA-TCGAAAGACCCTTGAAGGGTAAAATGACCGAAACACCCTCGAAAGGTAAAATGATC
1 TAAAATGACT-GAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATGATC
*
19766592 GAAATACCCTCGAATGG
65 GAAATACCCTCGAAAGG
* * * *
19766609 TAAAATAACCGAAATACCCTCGAAGGGTAAAATAA-TCGAAATACCCCCAAAAGGTAAAATGA-C
1 TAAAATGACTGAAATACCCTCGAAGGGTAAAATAACT-GAAATACCCCCGAAGGGTAAAATGATC
19766672 TGAAATACCCTC--AAGG
65 -GAAATACCCTCGAAAGG
* * * * * *
19766688 ATAAACTGACTGAAATACCCTCGAAGGATAAAATTACTGAAATAACCCTGTAGGGTAAAATGA
1 -TAAAATGACTGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATGA
19766751 CCATTATACC
Statistics
Matches: 253, Mismatches: 45, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
79 3 0.01
80 52 0.21
81 198 0.78
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (81 bp):
TAAAATGACTGAAATACCCTCGAAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAAATGATCG
AAATACCCTCGAAAGG
Found at i:19766975 original size:26 final size:26
Alignment explanation
Indices: 19766945--19766997 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19766935 TGCCACATAC
*
19766945 ACTGTTACTGACAGCATTGCTGTGTT
1 ACTGTTACTGACAGCATTGCTGAGTT
* * *
19766971 ACTGTTATTGGCAGCTTTGCTGAGTT
1 ACTGTTACTGACAGCATTGCTGAGTT
19766997 A
1 A
19766998 TTATTACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (26 bp):
ACTGTTACTGACAGCATTGCTGAGTT
Found at i:19767190 original size:28 final size:28
Alignment explanation
Indices: 19767150--19767236 Score: 129
Period size: 28 Copynumber: 3.0 Consensus size: 28
19767140 ATTATTCTGA
*
19767150 TTACTGTTTTGGGCTAAGGCCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
19767178 TTACTGTATTGGGCTAAGGCCCACACACTG
1 TTACTGTATTGGGCTAAGG-CC-CACACTG
* *
19767208 TTACTGTAATGGGCTAAGACCCACACTG
1 TTACTGTATTGGGCTAAGGCCCACACTG
19767236 T
1 T
19767237 GCTGCTACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
28 26 0.48
29 4 0.07
30 24 0.44
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTG
Found at i:19767207 original size:30 final size:30
Alignment explanation
Indices: 19767150--19767233 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
19767140 ATTATTCTGA
*
19767150 TTACTGTTTTGGGCTAAGG-CC-CACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
19767178 TTACTGTATTGGGCTAAGGCCCACACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
* *
19767208 TTACTGTAATGGGCTAAGACCCACAC
1 TTACTGTATTGGGCTAAGGCCCACAC
19767234 TGTGCTGCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 18 0.35
29 2 0.04
30 31 0.61
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (30 bp):
TTACTGTATTGGGCTAAGGCCCACACACTG
Found at i:19782943 original size:19 final size:19
Alignment explanation
Indices: 19782919--19782956 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19782909 GCATCCACTG
19782919 AGCAGTCGCTGAAACCATC
1 AGCAGTCGCTGAAACCATC
19782938 AGCAGTCGCTGAAACCATC
1 AGCAGTCGCTGAAACCATC
19782957 TCGAAGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.16
Consensus pattern (19 bp):
AGCAGTCGCTGAAACCATC
Found at i:19783275 original size:7 final size:7
Alignment explanation
Indices: 19783253--19783298 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
19783243 ATTATTTTCA
19783253 TAATTCTT
1 TAATT-TT
*
19783261 TTATTTT
1 TAATTTT
19783268 TAATTTT
1 TAATTTT
19783275 TAAATTTT
1 T-AATTTT
19783283 TAA-TTT
1 TAATTTT
19783289 TAATTTT
1 TAATTTT
19783296 TAA
1 TAA
19783299 GAAAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 6 0.18
7 17 0.50
8 11 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TAATTTT
Found at i:19783281 original size:15 final size:13
Alignment explanation
Indices: 19783259--19783298 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
19783249 TTCATAATTC
19783259 TTTT-ATTTTTAA
1 TTTTAATTTTTAA
19783271 TTTTTAAATTTTTAA
1 -TTTT-AATTTTTAA
19783286 TTTTAATTTTTAA
1 TTTTAATTTTTAA
19783299 GAAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 4 0.16
15 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:19783289 original size:21 final size:21
Alignment explanation
Indices: 19783259--19783298 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19783249 TTCATAATTC
*
19783259 TTTTATTTTTAATTTTTAAAT
1 TTTTAATTTTAATTTTTAAAT
19783280 TTTTAATTTTAATTTTTAA
1 TTTTAATTTTAATTTTTAA
19783299 GAAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAATTTTAATTTTTAAAT
Found at i:19783293 original size:13 final size:14
Alignment explanation
Indices: 19783253--19783298 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
19783243 ATTATTTTCA
*
19783253 TAATTCTTTTATTTT
1 TAATT-TTTAATTTT
19783268 TAATTTTTAAATTTT
1 TAATTTTT-AATTTT
19783283 TAA-TTTTAATTTT
1 TAATTTTTAATTTT
19783296 TAA
1 TAA
19783299 GAAAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 9 0.31
14 7 0.24
15 13 0.45
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTTTTAATTTT
Found at i:19785100 original size:30 final size:29
Alignment explanation
Indices: 19785066--19785157 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 29
19785056 ACATTGTACT
19785066 TGGAAATTGTAATCACCGGCATAGAGTGCC
1 TGGAAATTGTAATCACCGGCATA-AGTGCC
* *
19785096 TGG-AATTG-AAACACCGGTACATAA-TACC
1 TGGAAATTGTAATCACCGG--CATAAGTGCC
*
19785124 TGGAAACTGTAATCACCGGCA-ACTAGTGCC
1 TGGAAATTGTAATCACCGGCATA--AGTGCC
19785154 TGGA
1 TGGA
19785158 GCACCCTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
27 1 0.02
28 16 0.32
29 11 0.22
30 22 0.44
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
TGGAAATTGTAATCACCGGCATAAGTGCC
Found at i:19791493 original size:39 final size:38
Alignment explanation
Indices: 19791365--19791499 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 38
19791355 GCTTGGACAA
* * * *
19791365 AAAAACGCCACTAAAAATCGAGCATTAGCGGCACTTTTAT
1 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGC-GTTTTCT
** * * *
19791405 AAAAACGCCGCTAAAGGTAGAGCATTAACGGCGCTTCTCC
1 AAAAACGCCGCTAAAAATA-AGCATTAGCGGCG-TTTTCT
19791445 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTCT
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTCT
*
19791483 GAAAAGCGCCGC-AAAAA
1 -AAAAACGCCGCTAAAAA
19791500 CCTAAGCTAA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 9 0.12
39 22 0.29
40 46 0.60
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTCT
Found at i:19791594 original size:41 final size:41
Alignment explanation
Indices: 19791535--19791652 Score: 182
Period size: 41 Copynumber: 2.9 Consensus size: 41
19791525 GAGTTTTTGG
*
19791535 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
19791576 GGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
** * *
19791617 GATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
19791653 AATAATAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:19792529 original size:7 final size:7
Alignment explanation
Indices: 19792517--19792659 Score: 77
Period size: 7 Copynumber: 20.6 Consensus size: 7
19792507 ATTAAATAAT
19792517 GTTTAGG
1 GTTTAGG
19792524 GTTTAGG
1 GTTTAGG
19792531 GATTCT-GG
1 G-TT-TAGG
19792539 G-TTA-G
1 GTTTAGG
19792544 G-TTAGG
1 GTTTAGG
19792550 GTTTAGG
1 GTTTAGG
*
19792557 GATTAGG
1 GTTTAGG
19792564 GATTTAGG
1 G-TTTAGG
*
19792572 G--TCGG
1 GTTTAGG
19792577 G-TTAGG
1 GTTTAGG
* *
19792583 ATTTAAG
1 GTTTAGG
19792590 GTTTAGG
1 GTTTAGG
*
19792597 GGTTAGG
1 GTTTAGG
19792604 AG-TTAGAG
1 -GTTTAG-G
19792612 GTTTAAGG
1 GTTT-AGG
19792620 GTTTAGG
1 GTTTAGG
* *
19792627 AGTTAAGA
1 -GTTTAGG
*
19792635 GTTAAGG
1 GTTTAGG
* *
19792642 ATTTAGA
1 GTTTAGG
19792649 GTTTAGG
1 GTTTAGG
19792656 GTTT
1 GTTT
19792660 TATGGGTCGA
Statistics
Matches: 106, Mismatches: 17, Indels: 26
0.71 0.11 0.17
Matches are distributed among these distances:
5 10 0.09
6 6 0.06
7 62 0.58
8 25 0.24
9 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.37
Consensus pattern (7 bp):
GTTTAGG
Found at i:19792580 original size:33 final size:33
Alignment explanation
Indices: 19792517--19792597 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
19792507 ATTAAATAAT
*
19792517 GTTTAGGGTTTAGGGATTCTGGGTTAGGTTAGG
1 GTTTAGGGTTTAGGGATTCTGGGTCAGGTTAGG
* *
19792550 GTTTAGGGATTAGGGATT-TAGGGTCGGGTTAGG
1 GTTTAGGGTTTAGGGATTCT-GGGTCAGGTTAGG
* *
19792583 ATTTAAGGTTTAGGG
1 GTTTAGGGTTTAGGG
19792598 GTTAGGAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.37
Consensus pattern (33 bp):
GTTTAGGGTTTAGGGATTCTGGGTCAGGTTAGG
Found at i:19792625 original size:30 final size:30
Alignment explanation
Indices: 19792580--19792656 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
19792570 GGGTCGGGTT
*
19792580 AGGATTTAA-GGTTTAGGGGTTAGGAGTTA
1 AGGATTTAAGGGTTTAGGGGTTAAGAGTTA
*
19792609 GAGG-TTTAAGGGTTTAGGAGTTAAGAGTTA
1 -AGGATTTAAGGGTTTAGGGGTTAAGAGTTA
*
19792639 AGGATTT-AGAGTTTAGGG
1 AGGATTTAAGGGTTTAGGG
19792657 TTTTATGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 17 0.41
30 24 0.59
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.34
Consensus pattern (30 bp):
AGGATTTAAGGGTTTAGGGGTTAAGAGTTA
Found at i:19792639 original size:22 final size:22
Alignment explanation
Indices: 19792578--19792651 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
19792568 TAGGGTCGGG
* * *
19792578 TTAGGATTTAAG-GTTTAGGGG
1 TTAGGAGTTAAGAGTTAAGGGT
19792599 TTAGGAGTT-AGAGGTTTAAGGGT
1 TTAGGAGTTAAGA-G-TTAAGGGT
*
19792622 TTAGGAGTTAAGAGTTAAGGAT
1 TTAGGAGTTAAGAGTTAAGGGT
19792644 TTA-GAGTT
1 TTAGGAGTT
19792652 TAGGGTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.04
21 13 0.29
22 11 0.24
23 16 0.36
24 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.36
Consensus pattern (22 bp):
TTAGGAGTTAAGAGTTAAGGGT
Found at i:19792739 original size:13 final size:13
Alignment explanation
Indices: 19792700--19792739 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
19792690 TTAATTTTTT
19792700 ATTTATATTTTAA
1 ATTTATATTTTAA
*
19792713 ATATAT-TTTTAA
1 ATTTATATTTTAA
*
19792725 ATTTATATATTAA
1 ATTTATATTTTAA
19792738 AT
1 AT
19792740 AATTTCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTATATTTTAA
Found at i:19793350 original size:19 final size:19
Alignment explanation
Indices: 19793326--19793363 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19793316 AATTATAAGA
*
19793326 AAAAATAAAATACAAAAAT
1 AAAAATAAAATAAAAAAAT
*
19793345 AAAAATGAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
19793364 TATAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:19800670 original size:129 final size:129
Alignment explanation
Indices: 19800483--19800753 Score: 303
Period size: 129 Copynumber: 2.1 Consensus size: 129
19800473 AGGTTTATTC
* * * * * * *
19800483 TTTAGCGGCGTTTGTGACAAAAGTGCTGTTAAAGATCATATTCTTTAGTGACGTTTGTGGCTAAA
1 TTTAGCGGCGTTTGTGACAAAAATGCCGCTAAAGATCATACTCTTTAGCGACGTTTGTGACAAAA
* * *
19800548 GCGCCACTAAAGCTCACGATCTTTAGCGGTGTTTG-TATCTAAAGCGCCGCTAAAGATCACGATT
66 GCGCCACTAAAGCTCACGATCTTTAGCGGCGTTTGTTAT-AAAAGCACCGCTAAAGATCACGATT
* * * *
19800612 TTTAGCGGTGTTTGTGATAAAAATGCCGCTAAAGGTCA-AGCTCTTTAGCGTCGTTTGTGACAAA
1 TTTAGCGGCGTTTGTGACAAAAATGCCGCTAAAGATCATA-CTCTTTAGCGACGTTTGTGACAAA
* * * * * * ** *
19800676 AGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGGTCATAATC
65 AGCGCCACTAAAGCTCACGATCTTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGATCACGATT
19800741 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
19800754 TTTCACATAA
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
128 1 0.01
129 112 0.97
130 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (129 bp):
TTTAGCGGCGTTTGTGACAAAAATGCCGCTAAAGATCATACTCTTTAGCGACGTTTGTGACAAAA
GCGCCACTAAAGCTCACGATCTTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGATCACGATT
Found at i:19800720 original size:43 final size:43
Alignment explanation
Indices: 19800481--19800753 Score: 246
Period size: 43 Copynumber: 6.3 Consensus size: 43
19800471 ACAGGTTTAT
* * * * *
19800481 TCTTTAGCGGCGTTTGTGACAAAAGTGCTGTTAAAGATCAT-A
1 TCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
* * * * * *
19800523 TTCTTTAGTGACGTTTGTGGCT-AAAGCGCCACTAAAGCTCACGA
1 -TCTTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGA
* * * *
19800567 TCTTTAGCGGTGTTTGT-ATCTAAAGCGCCGCTAAAGATCACGA
1 TCTTTAGCGGCGTTTGTGAT-AAAAGCGCCGCTAAAGGTCATGA
* * ** * *
19800610 TTTTTAGCGGTGTTTGTGATAAAAATGCCGCTAAAGGTCAAGC
1 TCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
* * *
19800653 TCTTTAGCGTCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
* * * *
19800696 TTTTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGGTCATAA
1 TCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
19800739 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
19800754 TTTCACATAA
Statistics
Matches: 186, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
43 181 0.97
44 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
Found at i:19809731 original size:3 final size:3
Alignment explanation
Indices: 19809725--19809771 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
19809715 ATAGTTTTTG
* *
19809725 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TATA TCA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
19809770 TT
1 TT
19809772 CGTGCATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.95
4 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19811813 original size:22 final size:20
Alignment explanation
Indices: 19811784--19811830 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
19811774 AAATATATAA
* *
19811784 AAATATTTTTTATTAATATTT
1 AAATATTTATAATTAAT-TTT
19811805 ATAATATTTATAATTAATTTT
1 A-AATATTTATAATTAATTTT
19811826 AAATA
1 AAATA
19811831 AAAATACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 5 0.22
22 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATTTATAATTAATTTT
Found at i:19816186 original size:15 final size:15
Alignment explanation
Indices: 19816166--19816211 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
19816156 ATAGATATGA
*
19816166 TATTTTCAATTTTTT
1 TATTTTTAATTTTTT
*
19816181 TATTTTTATTTTTTT
1 TATTTTTAATTTTTT
* *
19816196 TGTTTTTTATTTTTT
1 TATTTTTAATTTTTT
19816211 T
1 T
19816212 CAAATTGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (15 bp):
TATTTTTAATTTTTT
Found at i:19823413 original size:46 final size:46
Alignment explanation
Indices: 19823345--19823567 Score: 243
Period size: 46 Copynumber: 4.9 Consensus size: 46
19823335 CTTATTATTA
* * * * * *
19823345 CTATATTCTCTAGTCCACAACATATGCAGGAGTTGGGAATCTAAAC
1 CTATATTCTCCAGTCTACAACATATGCAGGAGCTAGGAACCTAAAT
*** * * *
19823391 CTATATTCTCCAGTCCGTAACATATGCAGGAGTTGGGAACCTGAAT
1 CTATATTCTCCAGTCTACAACATATGCAGGAGCTAGGAACCTAAAT
* * *
19823437 TTGTATTCTCCAGTCTACAACATATGCAGGAGCTAGAAACCTAAAT
1 CTATATTCTCCAGTCTACAACATATGCAGGAGCTAGGAACCTAAAT
* * * *
19823483 CTATATTCTCTAGTCTGA-AACATATACAGGAACTAGGAACCTGAAT
1 CTATATTCTCCAGTCT-ACAACATATGCAGGAGCTAGGAACCTAAAT
*
19823529 CTGTATTCTCCAGTCTACAACATATGCAGGAGCT-GGAAC
1 CTATATTCTCCAGTCTACAACATATGCAGGAGCTAGGAAC
19823568 TTGGGCAAGA
Statistics
Matches: 149, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
45 6 0.04
46 142 0.95
47 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (46 bp):
CTATATTCTCCAGTCTACAACATATGCAGGAGCTAGGAACCTAAAT
Found at i:19823505 original size:92 final size:92
Alignment explanation
Indices: 19823348--19823562 Score: 295
Period size: 92 Copynumber: 2.3 Consensus size: 92
19823338 ATTATTACTA
* * * * * * *
19823348 TATTCTCTAGTCCACAACATATGCAGGAGTTGGGAATCTAAACCTATATTCTCCAGTCCGTAACA
1 TATTCTCCAGTCTACAACATATGCAGGAGCTAGAAACCTAAACCTATATTCTCCAGTCCGAAACA
* ** * *
19823413 TATGCAGGAGTTGGGAACCTGAATTTG
66 TATACAGGAACTAGGAACCTGAATCTG
* * *
19823440 TATTCTCCAGTCTACAACATATGCAGGAGCTAGAAACCTAAATCTATATTCTCTAGTCTGAAACA
1 TATTCTCCAGTCTACAACATATGCAGGAGCTAGAAACCTAAACCTATATTCTCCAGTCCGAAACA
19823505 TATACAGGAACTAGGAACCTGAATCTG
66 TATACAGGAACTAGGAACCTGAATCTG
19823532 TATTCTCCAGTCTACAACATATGCAGGAGCT
1 TATTCTCCAGTCTACAACATATGCAGGAGCT
19823563 GGAACTTGGG
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 108 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (92 bp):
TATTCTCCAGTCTACAACATATGCAGGAGCTAGAAACCTAAACCTATATTCTCCAGTCCGAAACA
TATACAGGAACTAGGAACCTGAATCTG
Found at i:19834210 original size:18 final size:18
Alignment explanation
Indices: 19834177--19834211 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19834167 CCTATTGGTA
19834177 TTTATTTTAATATTTTAT
1 TTTATTTTAATATTTTAT
*
19834195 TTTATTTTAATTTTTTA
1 TTTATTTTAATATTTTA
19834212 GGAAGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTAATATTTTAT
Found at i:19834487 original size:26 final size:26
Alignment explanation
Indices: 19834418--19834489 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
19834408 CAAGATTCAT
* * * *
19834418 AAATTTTAATTTAGTTATATTTGATA
1 AAATTTTAATTTTGTTTTAATTAATA
*
19834444 AAATTTGAATTTAT-TTTTAATTAATA
1 AAATTTTAATTT-TGTTTTAATTAATA
*
19834470 AAATTTTTATTTTGTTTTAA
1 AAATTTTAATTTTGTTTTAA
19834490 ATTAGAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (26 bp):
AAATTTTAATTTTGTTTTAATTAATA
Found at i:19837673 original size:13 final size:13
Alignment explanation
Indices: 19837655--19837681 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19837645 GTTAATTATG
19837655 TGTGTGAAAATTT
1 TGTGTGAAAATTT
19837668 TGTGTGAAAATTT
1 TGTGTGAAAATTT
19837681 T
1 T
19837682 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:19848039 original size:32 final size:32
Alignment explanation
Indices: 19848003--19848069 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
19847993 TTCTACCAGA
19848003 AACCAATGTTGCCTCCATTTCCTAAATGGTAT
1 AACCAATGTTGCCTCCATTTCCTAAATGGTAT
19848035 AACCAATGTTGCCTCCATTTCCTAAATGGTAT
1 AACCAATGTTGCCTCCATTTCCTAAATGGTAT
19848067 AAC
1 AAC
19848070 ACAAATGCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (32 bp):
AACCAATGTTGCCTCCATTTCCTAAATGGTAT
Found at i:19850829 original size:12 final size:12
Alignment explanation
Indices: 19850812--19850836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19850802 AAATTGAGAC
19850812 TATCCCTTCAGA
1 TATCCCTTCAGA
19850824 TATCCCTTCAGA
1 TATCCCTTCAGA
19850836 T
1 T
19850837 TTTGTTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCCCTTCAGA
Found at i:19851495 original size:44 final size:44
Alignment explanation
Indices: 19851430--19851564 Score: 193
Period size: 44 Copynumber: 3.1 Consensus size: 44
19851420 GAAGATAATA
*
19851430 AATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAA-ATT-TG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
19851472 TAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 -AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * * *
19851518 AATCCTATCTCCCTGGTTAGCAATGAAATAGGTTGAAGATTGCG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
19851562 AAT
1 AAT
19851565 TTTACTTTTC
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
43 2 0.02
44 75 0.89
45 5 0.06
46 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:19851868 original size:169 final size:169
Alignment explanation
Indices: 19851589--19852057 Score: 731
Period size: 169 Copynumber: 2.8 Consensus size: 169
19851579 GTTATAACAA
* ** * *
19851589 AGCAGATTAAAGCTGAGGGTAACGAATCTTATCTCCCAAGCATTAAGACTTGAAAAAGCTGAAGT
1 AGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGT
19851654 GGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAG
66 GGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAG
* * *
19851719 CTAAAGGTAATGAATCTTGTTTCCCTAGCATTGCGGCGG
131 CTAAAGGTAACGAATCTTGTTTCCCTAGCATTACAGCGG
* *
19851758 AGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCTTGGTGTTAAGACTTGAAATAGCTGAAGT
1 AGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGT
* * * *
19851823 GGAGCGGATTAAAGTTGTGGGCAACGAATCCTATTTCTTTGGCATTATAGTGGAACAGATTAAAG
66 GGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAG
* *
19851888 CTAGAGGTAGCGAATCTTGTTTCCCTAGCATTACAGCGG
131 CTAAAGGTAACGAATCTTGTTTCCCTAGCATTACAGCGG
* * * *
19851927 AGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTAAAGC
1 AGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGT
* * *
19851992 GGAGCAGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAG
66 GGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAG
19852057 C
131 C
19852058 CACAACGATG
Statistics
Matches: 271, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
169 271 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (169 bp):
AGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGT
GGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAG
CTAAAGGTAACGAATCTTGTTTCCCTAGCATTACAGCGG
Found at i:19851902 original size:51 final size:51
Alignment explanation
Indices: 19851842--19851964 Score: 122
Period size: 51 Copynumber: 2.4 Consensus size: 51
19851832 TAAAGTTGTG
* ** * * *
19851842 GGCAACGAATCCTATTTCTTTGGCATTATAGTGGAACAGATTAAAGCT-AGA
1 GGCAGCGAATCCTATTTCCCTAGCATTACAGCGGAACAGATTAAAGCTGA-A
* * * *
19851893 GGTAGCGAATCTTGTTTCCCTAGCATTACAGCGGAGCAGATTAAAGCTGAA
1 GGCAGCGAATCCTATTTCCCTAGCATTACAGCGGAACAGATTAAAGCTGAA
* *
19851944 GGCAGCGAATCTTATCTCCCT
1 GGCAGCGAATCCTATTTCCCT
19851965 GGCGTTAAGA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (51 bp):
GGCAGCGAATCCTATTTCCCTAGCATTACAGCGGAACAGATTAAAGCTGAA
Found at i:19852188 original size:100 final size:100
Alignment explanation
Indices: 19852068--19852248 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
19852058 CACAACGATG
*
19852068 AATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCA
1 AATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACAACGGCGAATCTCGTTTCCCCA
19852133 ACATTGCAATTAAAAAAATTGAAGTCGCAACGGCA
66 ACATTGCAATTAAAAAAATTGAAGTCGCAACGGCA
* * * * *
19852168 AATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGTTTCCCCA
1 AATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACAACGGCGAATCTCGTTTCCCCA
*
19852233 ACATTGCAATTTAAAA
66 ACATTGCAATTAAAAA
19852249 GACTGAAGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (100 bp):
AATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACAACGGCGAATCTCGTTTCCCCA
ACATTGCAATTAAAAAAATTGAAGTCGCAACGGCA
Found at i:19852360 original size:44 final size:43
Alignment explanation
Indices: 19852264--19852420 Score: 142
Period size: 44 Copynumber: 3.7 Consensus size: 43
19852254 AAGATGACGA
* *
19852264 ATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCAAT-A-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAACC--TCAG
* *
19852308 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAACCTCAG
* * * * * *
19852352 ATCTTATCTCTCTGAAGGTGCAGTAGAGTAGA-T-CACATCGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAACCTCAG
* *
19852393 GTTTTATCTCCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
19852421 CAGACTCAAG
Statistics
Matches: 93, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 28 0.30
42 1 0.01
43 2 0.02
44 62 0.67
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAACCTCAG
Found at i:19860442 original size:58 final size:55
Alignment explanation
Indices: 19860337--19860453 Score: 126
Period size: 58 Copynumber: 2.1 Consensus size: 55
19860327 CCCAAAAATC
* * * * *
19860337 GATTGTTTATATGTTTAAATCAATTGTTATGGTGGAATATTATTTCTTCTTCTGAATA
1 GATTGTTTATATGTTTAAATCAATTATTATAGTAGAACATTACTTC-T-TTC-GAATA
** * *
19860395 GATTGTTTATATGTTTAAATTGATTATTATATTAGAACATTGCTTCTTTCGAATA
1 GATTGTTTATATGTTTAAATCAATTATTATAGTAGAACATTACTTCTTTCGAATA
19860450 GATT
1 GATT
19860454 ATTATATTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
55 9 0.18
56 3 0.06
57 1 0.02
58 37 0.74
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.50
Consensus pattern (55 bp):
GATTGTTTATATGTTTAAATCAATTATTATAGTAGAACATTACTTCTTTCGAATA
Found at i:19860476 original size:34 final size:34
Alignment explanation
Indices: 19860416--19860487 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
19860406 TGTTTAAATT
*
19860416 GATTATTATATTAGAACATTGCTTCTTTCGAATA
1 GATTATTATATTAGAACAATGCTTCTTTCGAATA
* * * *
19860450 GATTATTATATTAGAATAATGTTTCTTTTGAATC
1 GATTATTATATTAGAACAATGCTTCTTTCGAATA
19860484 GATT
1 GATT
19860488 GTTTATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (34 bp):
GATTATTATATTAGAACAATGCTTCTTTCGAATA
Found at i:19862258 original size:3 final size:3
Alignment explanation
Indices: 19862250--19862277 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19862240 CCACACACTG
19862250 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19862278 TGCCCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19881154 original size:21 final size:21
Alignment explanation
Indices: 19881128--19881167 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19881118 GTTCTTAGAT
19881128 AAATTAGTTTAGTAATTTTGA
1 AAATTAGTTTAGTAATTTTGA
19881149 AAATTAGTTTAGTAATTTT
1 AAATTAGTTTAGTAATTTT
19881168 AGATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
AAATTAGTTTAGTAATTTTGA
Found at i:19895359 original size:20 final size:20
Alignment explanation
Indices: 19895314--19895359 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
19895304 TGTTTATTTC
*
19895314 TCTTTTTATTTGTTTTGTTT
1 TCTTTTTATTTGTCTTGTTT
*
19895334 TATTTTTATTT-TCTTGTTCT
1 TCTTTTTATTTGTCTTGTT-T
19895354 TCTTTT
1 TCTTTT
19895360 AATTATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.78
Consensus pattern (20 bp):
TCTTTTTATTTGTCTTGTTT
Found at i:19901275 original size:21 final size:22
Alignment explanation
Indices: 19901250--19901297 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
19901240 TTTAGGCTTG
19901250 GTAGAGACTTTA-TTGCGCATT
1 GTAGAGACTTTAGTTGCGCATT
* *
19901271 TTAGAGACTTTAGTTGGGCATT
1 GTAGAGACTTTAGTTGCGCATT
19901293 GTAGA
1 GTAGA
19901298 ACTCCCAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (22 bp):
GTAGAGACTTTAGTTGCGCATT
Found at i:19906699 original size:25 final size:26
Alignment explanation
Indices: 19906664--19906727 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
19906654 TTTCAAATTC
19906664 ATAT-TTTTATAA-TATATATTATA-G
1 ATATATTTTATAATTAT-TATTATAGG
* *
19906688 ATATATTTTATAATTATTTTTCTAGG
1 ATATATTTTATAATTATTATTATAGG
19906714 A-ATATTTTATAATT
1 ATATATTTTATAATT
19906728 TCATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.11
25 26 0.74
26 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (26 bp):
ATATATTTTATAATTATTATTATAGG
Found at i:19906705 original size:11 final size:12
Alignment explanation
Indices: 19906664--19906707 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
19906654 TTTCAAATTC
19906664 ATAT-TTTTATA
1 ATATATTTTATA
*
19906675 ATATATATTATA
1 ATATATTTTATA
19906687 GATATATTTTATA
1 -ATATATTTTATA
19906700 AT-TATTTT
1 ATATATTTT
19906708 TCTAGGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 11 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
ATATATTTTATA
Found at i:19909123 original size:26 final size:26
Alignment explanation
Indices: 19909092--19909142 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19909082 CATTGAAGTT
* *
19909092 TGGTTTATCTTTTTACA-TGCATGAAG
1 TGGTTTATATTTATACACT-CATGAAG
19909118 TGGTTTATATTTATACACTCATGAA
1 TGGTTTATATTTATACACTCATGAA
19909143 ATCATAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (26 bp):
TGGTTTATATTTATACACTCATGAAG
Found at i:19920655 original size:27 final size:28
Alignment explanation
Indices: 19920625--19920700 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 28
19920615 ATTAGAGGTT
*
19920625 ATTATAGTAATTTTTTTAAAATTTT-AA
1 ATTATAATAATTTTTTTAAAATTTTAAA
* *
19920652 ATTA-AATTAATAATTTTAAAAATTTTAAA
1 ATTATAA-TAAT-TTTTTTAAAATTTTAAA
19920681 ATATATAATAATTTTGTTTA
1 AT-TATAATAATTTT-TTTA
19920701 TTTAATCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
26 1 0.03
27 8 0.21
28 12 0.32
29 6 0.16
30 9 0.24
31 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
ATTATAATAATTTTTTTAAAATTTTAAA
Found at i:19920677 original size:28 final size:27
Alignment explanation
Indices: 19920637--19920695 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
19920627 TATAGTAATT
* *
19920637 TTTTTAAAATTTTAAATTAAATTAATAA
1 TTTTAAAAATTTTAAAATAAA-TAATAA
*
19920665 TTTTAAAAATTTTAAAATATATAATAA
1 TTTTAAAAATTTTAAAATAAATAATAA
19920692 TTTT
1 TTTT
19920696 GTTTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTAAAAATTTTAAAATAAATAATAA
Found at i:19924986 original size:54 final size:54
Alignment explanation
Indices: 19924891--19925048 Score: 131
Period size: 54 Copynumber: 2.9 Consensus size: 54
19924881 GAGTCTCCAC
* * *** * *
19924891 CCATGTAACTCACTGAGTTGGGT-CACACGATTATGTTGCAAGCCGTGTGCCAGT
1 CCATGTAACACACTGACTT-GGTACACACGACCGTGTAGCAAGCCGTGTGCCAGG
* ** * * **
19924945 CCATGTAACTCTTTGACTTGCG-ACACACGACCGTGTCGCAAGCCATGTGCTGGG
1 CCATGTAACACACTGACTTG-GTACACACGACCGTGTAGCAAGCCGTGTGCCAGG
* *
19924999 CCGTGTAACACACTGACTTGGTACACACGACCGTGTAGCCAGGCCGTGTG
1 CCATGTAACACACTGACTTGGTACACACGACCGTGTAG-CAAGCCGTGTG
19925049 ACAGCCCGTG
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
53 2 0.02
54 71 0.87
55 9 0.11
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.24
Consensus pattern (54 bp):
CCATGTAACACACTGACTTGGTACACACGACCGTGTAGCAAGCCGTGTGCCAGG
Found at i:19926113 original size:15 final size:15
Alignment explanation
Indices: 19926089--19926146 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
19926079 ACATAAGTTT
19926089 GTTTTATTTTCATTA
1 GTTTTATTTTCATTA
* * *
19926104 GTTTTGTTTTTTTATTTT
1 G-TTT-TATTTTCA-TTA
19926122 GTTTTATTTTCATTA
1 GTTTTATTTTCATTA
*
19926137 GTTTTGTTTT
1 GTTTTATTTT
19926147 TTATTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 12 0.36
16 9 0.27
17 9 0.27
18 3 0.09
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.74
Consensus pattern (15 bp):
GTTTTATTTTCATTA
Found at i:19926128 original size:33 final size:33
Alignment explanation
Indices: 19926086--19926148 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
19926076 GATACATAAG
19926086 TTTGTTTTATTTTCATTAGTTTTGTTTTTTTAT
1 TTTGTTTTATTTTCATTAGTTTTGTTTTTTTAT
19926119 TTTGTTTTATTTTCATTAGTTTTGTTTTTT
1 TTTGTTTTATTTTCATTAGTTTTGTTTTTT
19926149 ATTATTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.11, C:0.03, G:0.10, T:0.76
Consensus pattern (33 bp):
TTTGTTTTATTTTCATTAGTTTTGTTTTTTTAT
Found at i:19926163 original size:33 final size:33
Alignment explanation
Indices: 19926086--19926164 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
19926076 GATACATAAG
*
19926086 TTTGTTTTATTTTCATTAGTTTTGTTTTTTTAT
1 TTTGTTCTATTTTCATTAGTTTTGTTTTTTTAT
*
19926119 TTTGTTTTATTTTCATTAGTTTTG-TTTTTTAT
1 TTTGTTCTATTTTCATTAGTTTTGTTTTTTTAT
19926151 TATT-TTACTATTTT
1 T-TTGTT-CTATTTT
19926165 ACCCTTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
32 11 0.26
33 32 0.74
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.75
Consensus pattern (33 bp):
TTTGTTCTATTTTCATTAGTTTTGTTTTTTTAT
Found at i:19930321 original size:50 final size:50
Alignment explanation
Indices: 19930241--19930882 Score: 162
Period size: 44 Copynumber: 13.5 Consensus size: 50
19930231 AATCCTATAC
* *
19930241 CCCTGAAGTTACAGTGG-G-ATGAATTAAAGCCATCATGGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCA-G-ATTGAAGCCATCATGGCGAATCTTATCT
* *
19930291 CCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-C-T----AATCCTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTAT-CT
* * *
19930335 CCCTGAAGTTGCAATGG-G-ATGGATTAAAGTCATCATGGCGAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCA--GATTGAAGCCATCATGGCGAATCTTATCT
* * * *
19930385 CCCTGAAGATGCAGTGGAACAGATTGAAGCCACCA--GC----CTTTTCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
* * * * * *
19930429 CCTTAAAGTTGCAGCGGAGCAGATTTAAG--AT-A--GAGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
** * * * * * * *
19930474 CCCTGGCGTTGCAATGGAACAAATTAAAGCTACAAATTATGGCGGATCTCATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ATCATGGCGAATCTTATCT
* * * * * * * * *
19930528 TCTTCAAGCTGTAGTGTAGCAGACTGAAGCCA-C----C-AACCTTATAT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
* *
19930572 CCCTGAAGTTGCAGTGGAGCAGACTGAAG--A-CA--GCGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
** * * * * *
19930617 CCCTGGGGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ATCATGGCGAATCTTATCT
* * * *
19930671 TCCTAAAGTTGCAGTGGAGCAGATTCAAGCCA-C-TAGC----CTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
* * * * * *
19930715 CCCTGAAATTGTAGTGGAGCAGACTGAA---AACA--ACGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
* * * * * * *
19930760 CCCTGACGTTGCAATGGAACAGATT-AGAGTTACAAATTATGGAGGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGA-AG---C-CATCATGGCGAATCTTATCT
* * * *
19930814 ACTTGAAGTTGCAGTGGAGCATATTGAAGCCA-C----C-AATCCTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
* *
19930858 TCCTGAAGTTGCAGTGGAGTAGATT
1 CCCTGAAGTTGCAGTGGAGCAGATT
19930883 AAAACGATGA
Statistics
Matches: 418, Mismatches: 118, Indels: 118
0.64 0.18 0.18
Matches are distributed among these distances:
41 4 0.01
42 5 0.01
43 1 0.00
44 149 0.36
45 85 0.20
46 1 0.00
48 6 0.01
49 2 0.00
50 60 0.14
51 6 0.01
52 8 0.02
54 90 0.22
55 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (50 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCATGGCGAATCTTATCT
Found at i:19930398 original size:94 final size:94
Alignment explanation
Indices: 19930231--19930417 Score: 311
Period size: 94 Copynumber: 2.0 Consensus size: 94
19930221 TAAAACCATA
*
19930231 AATCCTATACCCCTGAAGTTACAGTGGGATGAATTAAAGCCATCATGGCGAATCTTATCTCCCTA
1 AATCCTATACCCCTGAAGTTACAATGGGATGAATTAAAGCCATCATGGCGAATCTTATCTCCCTA
* *
19930296 AAGTTGCAGTGGAGCAGATTGAAGCCACT
66 AAGATGCAGTGGAACAGATTGAAGCCACT
* * * *
19930325 AATCCTATACCCCTGAAGTTGCAATGGGATGGATTAAAGTCATCATGGCGAATCTTATCTCCCTG
1 AATCCTATACCCCTGAAGTTACAATGGGATGAATTAAAGCCATCATGGCGAATCTTATCTCCCTA
19930390 AAGATGCAGTGGAACAGATTGAAGCCAC
66 AAGATGCAGTGGAACAGATTGAAGCCAC
19930418 CAGCCTTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (94 bp):
AATCCTATACCCCTGAAGTTACAATGGGATGAATTAAAGCCATCATGGCGAATCTTATCTCCCTA
AAGATGCAGTGGAACAGATTGAAGCCACT
Found at i:19930581 original size:143 final size:143
Alignment explanation
Indices: 19930284--19930876 Score: 624
Period size: 143 Copynumber: 4.2 Consensus size: 143
19930274 CATGGCGAAT
* * * ** * ** **
19930284 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAATCCTATACCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGAGAATCTTATTTCCCTGGCGTTGCA
* *** * * * * * * *
19930348 ATGGGATGGATTAAAG-T-C--ATCATGGCGAATCTTATCTCCCTGAAGATGCAGTGGAACAGAT
66 ATGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGAT
*
19930409 TGAAGCCACCAGC
131 TGAAGCCACCAAC
* * * * * * *
19930422 CTTTTCTCCTTAAAGTTGCAGCGGAGCAGATTTAAGATAGAGAATCTTATTTCCCTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGAGAATCTTATTTCCCTGGCGTTGCA
* * * * * *
19930487 ATGGAACAAATTAAAGCTACAAATTATGGCGGATCTCATCTTCTTCAAGCTGTAGTGTAGCAGAC
66 ATGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGAT
19930552 TGAAGCCACCAAC
131 TGAAGCCACCAAC
* * *
19930565 CTTATATCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGGGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGAGAATCTTATTTCCCTGGCGTTGCA
* *
19930630 GTGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGAT
66 ATGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGAT
* * *
19930695 TCAAGCCACTAGC
131 TGAAGCCACCAAC
* * * *
19930708 CTTATCTCCCTGAAATTGTAGTGGAGCAGACTGAAAACA-ACGAATCTTATTTCCCTGACGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGA-GAATCTTATTTCCCTGGCGTTGC
* * * * * * *
19930772 AATGGAACAGATTAGAGTTACAAATTATGGAGGATCTTATCTACTTGAAGTTGCAGTGGAGCATA
65 AATGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGA
19930837 TTGAAGCCACCAATC
130 TTGAAGCCACCAA-C
*
19930852 C-TATCTTCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
19930877 TAGATTAAAA
Statistics
Matches: 376, Mismatches: 72, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
138 33 0.09
139 30 0.08
140 1 0.00
141 1 0.00
143 309 0.82
144 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGAGAATCTTATTTCCCTGGCGTTGCA
ATGGAACAAATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAAC
Done.