Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 165 of 182
Found at i:50598338 original size:26 final size:25
Alignment explanation
Indices: 50598240--50598339 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 25
50598230 AATTTTAGTG
50598240 TGTATTATTTTGAGTATAAAATTATT
1 TGTATTATTTTGAGTATAAAATT-TT
**
50598266 AATATTATTTTGAGTATAAAA---T
1 TGTATTATTTTGAGTATAAAATTTT
* * * * *
50598288 T-AATAATTTTAGTGTGTAATATTTT
1 TGTATTATTTT-GAGTATAAAATTTT
50598313 GTGTATTATTTTGAGTATAAAATTTT
1 -TGTATTATTTTGAGTATAAAATTTT
50598339 T
1 T
50598340 TTAAGTAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
21 7 0.13
22 8 0.15
25 2 0.04
26 31 0.56
27 7 0.13
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (25 bp):
TGTATTATTTTGAGTATAAAATTTT
Found at i:50598931 original size:18 final size:18
Alignment explanation
Indices: 50598888--50598932 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
50598878 TTGATATGGT
*
50598888 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
50598906 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
50598924 TGGTGGCGA
1 TGGTGGCGA
50598933 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:50599254 original size:11 final size:12
Alignment explanation
Indices: 50599231--50599255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50599221 CGAAAATAAT
50599231 AAAATGCGAAAA
1 AAAATGCGAAAA
50599243 AAAATGCGAAAA
1 AAAATGCGAAAA
50599255 A
1 A
50599256 TGCACACGTA
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:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATGCGAAAA
Found at i:50599875 original size:11 final size:12
Alignment explanation
Indices: 50599851--50599875 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50599841 TACATGTGCA
50599851 TTTTTCGCATTT
1 TTTTTCGCATTT
50599863 TTTTTCGCATTT
1 TTTTTCGCATTT
50599875 T
1 T
50599876 ATTATTTTCG
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTTCGCATTT
Found at i:50600240 original size:39 final size:40
Alignment explanation
Indices: 50600177--50600387 Score: 156
Period size: 39 Copynumber: 5.3 Consensus size: 40
50600167 ATAAAATTAC
* * * *
50600177 CTTTTTTTTTCTTTTTTTCC-TTCCTTCCCTCTTCTTC-CT
1 CTTTTTTTTTC-TCTTCTCCTTTCCTTTCCTCTTCTTCTTT
*
50600216 CTTTTTTTTTCTCTTCTCCTTTCCTTTTCT-TTCCTTCTTT
1 CTTTTTTTTTCTCTTCTCCTTTCCTTTCCTCTT-CTTCTTT
* *
50600256 CTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTCTTCTTCTTT
1 CTTTTTTTTTCTCTTCTCCTTTCC-TTTCCTCTTCTTCTTT
50600296 CTTTCTTTTTTTCTCTTCTCCTTTCCCTTT-CT-TTCCTTCTTT
1 C-TT-TTTTTTTCTCTTCTCCTTT-CCTTTCCTCTT-CTTCTTT
* * * *
50600338 -TTCTTTCTTC-CCTCTCCTTT-C-TTCCT-TTCTTTCTCT
1 CTTTTTTTTTCTCTTCTCCTTTCCTTTCCTCTTC-TTCTTT
50600374 CTTTCTTTCTTTCT
1 CTTT-TTT-TTTCT
50600388 TTCCCTCTCC
Statistics
Matches: 140, Mismatches: 16, Indels: 31
0.75 0.09 0.17
Matches are distributed among these distances:
35 3 0.02
36 10 0.07
37 2 0.01
38 20 0.14
39 45 0.32
40 24 0.17
41 6 0.04
42 14 0.10
43 14 0.10
44 2 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (40 bp):
CTTTTTTTTTCTCTTCTCCTTTCCTTTCCTCTTCTTCTTT
Found at i:50600246 original size:34 final size:35
Alignment explanation
Indices: 50600185--50600369 Score: 136
Period size: 34 Copynumber: 5.2 Consensus size: 35
50600175 ACCTTTTTTT
* *
50600185 TTCTTTTTTTC-C-T-TCCTTCCCTCTTCTTCCTC
1 TTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTCCTC
50600217 TT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTC
1 TTCTTTTTTTCTCTTCTCCTTTCCTTTTC-TTCC-TC
*
50600253 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTCTTTC
1 -TTCTTT-TTTTCTCTTCTCCTTTCC--TT-TTCTTC--C--TC
* *
50600297 TTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTC-C
1 -TTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTCCTC
*
50600332 TTCTTTTTCTT-TCTTC-CCTCTCC-TTTCTTCCT-
1 TTCTTTTT-TTCTCTTCTCCTTTCCTTTTCTTCCTC
50600364 TTCTTT
1 TTCTTT
50600370 CTCTCTTTCT
Statistics
Matches: 129, Mismatches: 8, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
31 8 0.06
32 16 0.12
33 7 0.05
34 24 0.19
35 7 0.05
36 2 0.02
37 2 0.02
38 4 0.03
39 17 0.13
40 5 0.04
41 6 0.05
42 3 0.02
43 18 0.14
44 10 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (35 bp):
TTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTCCTC
Found at i:50600257 original size:4 final size:4
Alignment explanation
Indices: 50600241--50600390 Score: 98
Period size: 4 Copynumber: 37.0 Consensus size: 4
50600231 CTCCTTTCCT
*
50600241 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * *
50600287 -TTC -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC
* * * *
50600335 -TT- TTTC TTTC TTCCC TCTCC TTTC TTCC TTTC TTTC TCTC TTTC TTTC
1 TTTC TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
50600383 TTTC TTTC
1 TTTC TTTC
50600391 CCTCTCCTNN
Statistics
Matches: 119, Mismatches: 13, Indels: 28
0.74 0.08 0.17
Matches are distributed among these distances:
3 16 0.13
4 80 0.67
5 15 0.13
6 8 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:50600272 original size:44 final size:43
Alignment explanation
Indices: 50600218--50600385 Score: 178
Period size: 40 Copynumber: 4.1 Consensus size: 43
50600208 TTCTTCCTCT
50600218 TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
1 TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
*
50600261 ---TTTTT-TCTTCTCCTTTCCTTTTCTTCTTCTTCTTTCTTTC
1 TTTTTTTTCTCTTCTCCTTTCCTTTTCTT-TCCTTCTTTCTTTC
*
50600301 -TTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-TTTC
1 TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
* * *
50600341 --TTTCTTC-CCTCTCCTTTCTTCCTTTCTTT-CTCTCTTTCTTTC
1 TTTTTTTTCTCTTCTCCTTTC--CTTTTCTTTCCT-TCTTTCTTTC
50600383 TTT
1 TTT
50600386 CTTTCCCTCT
Statistics
Matches: 109, Mismatches: 5, Indels: 21
0.81 0.04 0.16
Matches are distributed among these distances:
38 10 0.09
39 28 0.26
40 33 0.30
41 4 0.04
42 14 0.13
43 19 0.17
44 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
Found at i:50600315 original size:82 final size:84
Alignment explanation
Indices: 50600205--50600389 Score: 245
Period size: 82 Copynumber: 2.2 Consensus size: 84
50600195 CCTTCCTTCC
* * *
50600205 CTCTTCTTCCTCTT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTCTTT-TTTC
1 CTCTTCTTTCT-TTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-TTTCTTTCTTCC
* *
50600268 TTCTCCTTTC-CTTTTC-TTCT
63 CTCTCCTTTCTCCTTTCTTTCT
50600288 -TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTC
1 CTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTC
50600352 TCCTTTCTTCCTTTCTTTCT
66 TCCTTTC-TCCTTTCTTTCT
50600372 CTCTTTCTTTCTTTCTTT
1 CTC-TTCTTTCTTTCTTT
50600390 CCCTCTCCTN
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
80 7 0.08
81 16 0.18
82 42 0.47
83 5 0.06
84 4 0.04
85 2 0.02
86 14 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (84 bp):
CTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCCCTC
TCCTTTCTCCTTTCTTTCT
Found at i:50600335 original size:48 final size:46
Alignment explanation
Indices: 50600234--50600389 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 46
50600224 TTCTCTTCTC
* *
50600234 CTTTCCTT-TTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCCTTTCCT
1 CTTTCCTTCTTC-TTCTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCT
50600280 -TTT-CTTCTTCTTCTTTCTTTCTTT-TTTTCTCTTCTCCTTTCC-
1 CTTTCCTTCTTCTTCTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCT
* * *
50600322 CTTT-CTT-TCCTTC-TT-TTTCTTTC--TTC-CCTCTCCTTTCTT
1 CTTTCCTTCTTCTTCTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCT
*
50600361 CCTTTCTTTC-TC-TCTTTCTTTCTTTCTTT
1 -CTTTCCTTCTTCTTCTTTCTTTCTTTCTTT
50600390 CCCTCTCCTN
Statistics
Matches: 92, Mismatches: 7, Indels: 24
0.75 0.06 0.20
Matches are distributed among these distances:
38 10 0.11
39 3 0.03
40 13 0.14
41 7 0.08
42 13 0.14
43 23 0.25
44 17 0.18
45 6 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (46 bp):
CTTTCCTTCTTCTTCTTTCTTTCTTTCTTTTCTCTTCTCCTTTCCT
Found at i:50612783 original size:26 final size:26
Alignment explanation
Indices: 50612754--50612825 Score: 117
Period size: 26 Copynumber: 2.7 Consensus size: 26
50612744 ACAGGTTTTT
50612754 TTTATATATTTTGGTAAATAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
50612780 TTTATATATTTTGGTAAATAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
* *
50612806 GTTATAATATTTTAGTAAAT
1 TTTAT-ATATTTTGGTAAAT
50612826 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 30 0.70
27 13 0.30
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TTTATATATTTTGGTAAATAAAAAAA
Found at i:50616480 original size:21 final size:21
Alignment explanation
Indices: 50616454--50616509 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
50616444 AACAGCGGTG
*
50616454 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
50616475 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
50616496 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
50616510 AACAATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:50622252 original size:44 final size:44
Alignment explanation
Indices: 50622158--50622277 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
50622148 TTGATGCGAT
* * * *
50622158 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTCAATC
* *
50622203 C-GCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAA-C
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTCAATC
* *
50622246 CTGCTCCACTGCAACCTGAGGGAGATAAGATT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT
50622278 TGCTTCTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.08
44 57 0.90
45 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTCAATC
Found at i:50622317 original size:44 final size:42
Alignment explanation
Indices: 50622246--50622412 Score: 127
Period size: 44 Copynumber: 3.8 Consensus size: 42
50622236 CGACTTCAAC
** * *
50622246 CTGCTCCACTGCAACCTGAGGGAGATAAGATTTGCTTCTTCAGT
1 CTGCTCCACTGTGACTTCAGGGAGATAAGA-TTG-TTCTTCAGT
* * *
50622290 CTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGT
1 CTGCTCCACTGTGACTTCAGGGAGATAAGA-TTGTTCT-TCAGT
* * *** * *
50622334 CTGCTTCGCTACAACTTCAGGGAGATAGGATTGATTTCTTCTGT
1 CTGCTCCACTGTGACTTCAGGGAGATAAGATTG--TTCTTCAGT
* *
50622378 TTGCTCCACTGTGACTTCAGGGGGATAAGACTTGT
1 CTGCTCCACTGTGACTTCAGGGAGATAAGA-TTGT
50622413 AATTTCCAAC
Statistics
Matches: 93, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
43 7 0.08
44 80 0.86
45 6 0.06
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (42 bp):
CTGCTCCACTGTGACTTCAGGGAGATAAGATTGTTCTTCAGT
Found at i:50622338 original size:88 final size:88
Alignment explanation
Indices: 50622246--50622412 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 88
50622236 CGACTTCAAC
* *
50622246 CTGCTCCACTGCAACCTGAGGGAGATAAGATTTG-CTTCTTCAGTCTGCCCCACTGTGACTTCAG
1 CTGCTCCACTACAACCTCAGGGAGATAAGA-TTGACTTCTTCAGTCTGCCCCACTGTGACTTCAG
50622310 GGGGATAAGACTTGTTTTCTCAGT
65 GGGGATAAGACTTGTTTTCTCAGT
* * * * * * * *
50622334 CTGCTTCGCTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTTTGCTCCACTGTGACTTCAGG
1 CTGCTCCACTACAACCTCAGGGAGATAAGATTGACTTCTTCAGTCTGCCCCACTGTGACTTCAGG
50622399 GGGATAAGACTTGT
66 GGGATAAGACTTGT
50622413 AATTTCCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 3 0.04
88 65 0.96
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (88 bp):
CTGCTCCACTACAACCTCAGGGAGATAAGATTGACTTCTTCAGTCTGCCCCACTGTGACTTCAGG
GGGATAAGACTTGTTTTCTCAGT
Found at i:50622689 original size:88 final size:88
Alignment explanation
Indices: 50622527--50622987 Score: 712
Period size: 88 Copynumber: 5.3 Consensus size: 88
50622517 GTTGGTGCTT
*
50622527 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCC-ACTGCAACCGGTGGAGGCAAGGCTTTGTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAACCGATGGAGGCAAGGCTTTGTTT
*
50622591 TCGATATGCTTCGCTGTTAACGC
66 TCGATCTGCTTCGCTGTTAACGC
* ** *
50622614 AGGAAGGCAGGATCTTTTATCTTTAACCAGCTCCAACTGCAACCGATGGATGCAAGGCTTTGTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAACCGATGGAGGCAAGGCTTTGTTT
50622679 TCGATCTGCTTCGCTGTTAACGC
66 TCGATCTGCTTCGCTGTTAACGC
* * *
50622702 AGGAAAGCAAGATCTGCTATCTTTAACCAGCTTCAACTACAACCGATGGAGGCAAGGCTTTGTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAACCGATGGAGGCAAGGCTTTGTTT
*
50622767 TCGATCTGCTTCACTGTTAACGC
66 TCGATCTGCTTCGCTGTTAACGC
* *
50622790 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCC-ACTGCAACCAATGGAGGCAATGCTTTGTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAACCGATGGAGGCAAGGCTTTGTTT
** * *
50622854 TTTATTTGTTTCGCTGTTAACGC
66 TCGATCTGCTTCGCTGTTAACGC
* * *
50622877 AGGAAGCCAAGATCTGCTATCTTTAACCAGCTCCAACTGTC-GCCGATGGAGGTAAGGCTTTGTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTG-CAACCGATGGAGGCAAGGCTTTGTT
*
50622941 TTCAATCTGCTTCGCTGTTAACGC
65 TTCGATCTGCTTCGCTGTTAACGC
50622965 AGGAAGGCAAGATCTGCTATCTT
1 AGGAAGGCAAGATCTGCTATCTT
50622988 CATTGATCTG
Statistics
Matches: 337, Mismatches: 34, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
87 109 0.32
88 227 0.67
89 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (88 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAACCGATGGAGGCAAGGCTTTGTTT
TCGATCTGCTTCGCTGTTAACGC
Found at i:50622798 original size:43 final size:43
Alignment explanation
Indices: 50622575--50622800 Score: 101
Period size: 43 Copynumber: 5.2 Consensus size: 43
50622565 CAACCGGTGG
* *
50622575 AGGCAAGGCTTTGTTTTCGATATGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
** * * * *
50622618 AGGC-AGGATCTTT-TATCTTTAACCAGCTCCAACTG-CAAC-CGATGG-
1 AGGCAAGG--CTTTGT-T-TTCGATCTGCTTC-ACTGTTAACGC-A-GGA
* *
50622663 ATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
* * * ** * * **
50622706 AAGCAA-GATCTGCTATCTTTAACCAGCTTCAACT-ACAAC-CGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTC-ACTGTTAACGC-A-GGA
50622751 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
50622794 AGGCAAG
1 AGGCAAG
50622801 ATCTGCTATC
Statistics
Matches: 126, Mismatches: 35, Indels: 44
0.61 0.17 0.21
Matches are distributed among these distances:
42 17 0.13
43 43 0.34
44 16 0.13
45 34 0.27
46 16 0.13
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGA
Found at i:50622869 original size:175 final size:176
Alignment explanation
Indices: 50622527--50622987 Score: 687
Period size: 175 Copynumber: 2.6 Consensus size: 176
50622517 GTTGGTGCTT
* * * *
50622527 AGGAAGGCAAGATCTGCTATCTTTAACCAGC-TCCACTGCAACCGGTGGAGGCAAGGCTTTGTTT
1 AGGAAAGCAAGATCTGCTATCTTTAACCAGCTTCAACTACAACCGATGGAGGCAAGGCTTTGTTT
* * **
50622591 TCGATATGCTTCGCTGTTAACGCAGGAAGGCAGGATCTTTTATCTTTAACCAGCTCCAACTGCAA
66 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAA
* *
50622656 CCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
131 CCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
50622702 AGGAAAGCAAGATCTGCTATCTTTAACCAGCTTCAACTACAACCGATGGAGGCAAGGCTTTGTTT
1 AGGAAAGCAAGATCTGCTATCTTTAACCAGCTTCAACTACAACCGATGGAGGCAAGGCTTTGTTT
*
50622767 TCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCC-ACTGCAA
66 TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAA
* ** * *
50622831 CCAATGGAGGCAATGCTTTGTTTTTTATTTGTTTCGCTGTTAACGC
131 CCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
* * * *
50622877 AGG-AAGCCAAGATCTGCTATCTTTAACCAGCTCCAACTGTC-GCCGATGGAGGTAAGGCTTTGT
1 AGGAAAG-CAAGATCTGCTATCTTTAACCAGCTTCAACT-ACAACCGATGGAGGCAAGGCTTTGT
*
50622940 TTTCAATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
64 TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
50622988 CATTGATCTG
Statistics
Matches: 261, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
174 3 0.01
175 175 0.67
176 83 0.32
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (176 bp):
AGGAAAGCAAGATCTGCTATCTTTAACCAGCTTCAACTACAACCGATGGAGGCAAGGCTTTGTTT
TCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAACTGCAA
CCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
Found at i:50624647 original size:28 final size:28
Alignment explanation
Indices: 50624615--50624674 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
50624605 TCTTTTTCTC
50624615 TTTTCATATTTT-ATTTTGACTTTGATTT
1 TTTTC-TATTTTGATTTTGACTTTGATTT
* *
50624643 TTTTCTTTTTTGCTTTTGACTTTGATTT
1 TTTTCTATTTTGATTTTGACTTTGATTT
50624671 TTTT
1 TTTT
50624675 TTTGAATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (28 bp):
TTTTCTATTTTGATTTTGACTTTGATTT
Found at i:50629647 original size:27 final size:25
Alignment explanation
Indices: 50629617--50629682 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
50629607 GTATAAGATG
50629617 ATTTTAAAATAATTATTATATAAAACA
1 ATTTTAAAATAATTA-TATA-AAAACA
* *
50629644 ATTTGGAATAA-AACTATATAAAAACA
1 ATTT-TAA-AATAATTATATAAAAACA
50629670 ATTTTAAAATAAT
1 ATTTTAAAATAAT
50629683 ATGTAGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 10 0.31
27 8 0.25
28 6 0.19
29 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (25 bp):
ATTTTAAAATAATTATATAAAAACA
Found at i:50631322 original size:31 final size:31
Alignment explanation
Indices: 50631256--50631372 Score: 195
Period size: 30 Copynumber: 3.9 Consensus size: 31
50631246 GAATATAAAT
*
50631256 TATATTTTTTATTTTTAAAACACACTAC--A
1 TATATTTTTTATTTTTAAAATACACTACATA
50631285 TATATTTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTACATA
50631316 TATA-TTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTACATA
*
50631346 TATATTTTTTATTTTTAAAGTACACTA
1 TATATTTTTTATTTTTAAAATACACTA
50631373 ATACATGTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
29 27 0.33
30 30 0.36
31 26 0.31
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (31 bp):
TATATTTTTTATTTTTAAAATACACTACATA
Found at i:50631326 original size:30 final size:29
Alignment explanation
Indices: 50631256--50631372 Score: 189
Period size: 29 Copynumber: 3.9 Consensus size: 29
50631246 GAATATAAAT
*
50631256 TATATTTTTTATTTTTAAAACACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
50631285 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
50631314 TATATATTTTTATTTTTAAAATACACTACATA
1 TATAT-TTTTTATTTTTAAAATACACTAC--A
*
50631346 TATATTTTTTATTTTTAAAGTACACTA
1 TATATTTTTTATTTTTAAAATACACTA
50631373 ATACATGTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
29 33 0.40
30 23 0.28
31 21 0.25
32 6 0.07
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:50631836 original size:24 final size:23
Alignment explanation
Indices: 50631809--50631889 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 23
50631799 TGTATCTTTC
50631809 ATTTAAATAATTAATTACCTATCT
1 ATTTAAATAATTAATTACCTAT-T
50631833 ATTTAAATAATTAATTACCTAAAAATT
1 ATTTAAATAATTAATTACCT----ATT
50631860 AATTTAAATAATTAATTACCTATTT
1 -ATTTAAATAATTAATTACCTA-TT
50631885 ATTTA
1 ATTTA
50631890 TTTGTTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
24 26 0.51
25 2 0.04
27 1 0.02
28 22 0.43
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATAATTAATTACCTATT
Found at i:50631874 original size:13 final size:13
Alignment explanation
Indices: 50631833--50631876 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
50631823 TTACCTATCT
50631833 ATTTAAATAATTA
1 ATTTAAATAATTA
50631846 ATTACCTAAA-AATTA
1 ATT---TAAATAATTA
50631861 ATTTAAATAATTA
1 ATTTAAATAATTA
50631874 ATT
1 ATT
50631877 ACCTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
15 8 0.30
16 4 0.15
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAAATAATTA
Found at i:50631892 original size:28 final size:26
Alignment explanation
Indices: 50631809--50631892 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 26
50631799 TGTATCTTTC
*
50631809 ATTTAAATAATTAATTACC--TATCT
1 ATTTAAATAATTAATTACCTATATTT
* *
50631833 ATTTAAATAATTAATTACCTAAAAATTA
1 ATTTAAATAATTAATTACCT--ATATTT
50631861 ATTTAAATAATTAATTACCTATTTATTT
1 ATTTAAATAATTAATTACCTA--TATTT
50631889 ATTT
1 ATTT
50631893 GTTTATTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.39
26 1 0.02
28 29 0.59
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAAATAATTAATTACCTATATTT
Found at i:50632295 original size:15 final size:16
Alignment explanation
Indices: 50632275--50632319 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
50632265 ACCGTTGAAA
*
50632275 CCCTAAACCCTAAA-T
1 CCCTAACCCCTAAACT
50632290 CCCTAACCCCTAAATCT
1 CCCTAACCCCTAAA-CT
50632307 CCCTAACCCCTAA
1 CCCTAACCCCTAA
50632320 CCTCGATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 13 0.48
17 14 0.52
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (16 bp):
CCCTAACCCCTAAACT
Found at i:50633198 original size:60 final size:62
Alignment explanation
Indices: 50633104--50633224 Score: 203
Period size: 60 Copynumber: 2.0 Consensus size: 62
50633094 CACTAATGCA
50633104 ATTTCCCCATTCCCATTTCCCTTCTTCCACCGATCAAA-CCCAAACCCCGTGCCCTCCTCCC
1 ATTTCCCCATTCCCATTTCCCTTCTTCCACCGATCAAAGCCCAAACCCCGTGCCCTCCTCCC
50633165 ATTT-CCCATTCCCATTTCTCC-TCTTCCACCGATCAAAGTCCCAAACCCCGTGCCCTCCTC
1 ATTTCCCCATTCCCATTTC-CCTTCTTCCACCGATCAAAG-CCCAAACCCCGTGCCCTCCTC
50633225 TGATCAAAGC
Statistics
Matches: 57, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
60 30 0.53
61 6 0.11
62 21 0.37
ACGTcount: A:0.18, C:0.49, G:0.06, T:0.27
Consensus pattern (62 bp):
ATTTCCCCATTCCCATTTCCCTTCTTCCACCGATCAAAGCCCAAACCCCGTGCCCTCCTCCC
Found at i:50633507 original size:23 final size:22
Alignment explanation
Indices: 50633475--50633517 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
50633465 GCAAATTCCC
50633475 ATTTTTGTTTGATCATTTGGGT
1 ATTTTTGTTTGATCATTTGGGT
50633497 ATTTTTCGTTTGATCATTTGG
1 ATTTTT-GTTTGATCATTTGG
50633518 ATATCTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.58
Consensus pattern (22 bp):
ATTTTTGTTTGATCATTTGGGT
Found at i:50636613 original size:21 final size:22
Alignment explanation
Indices: 50636577--50636661 Score: 111
Period size: 21 Copynumber: 4.0 Consensus size: 22
50636567 CCAAGAACAA
*
50636577 AGCAAAAAAGAGGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
*
50636599 AGCAAAAACGA-GGGACAAACC
1 AGCAAAAACGAGGGGAGAAACC
* *
50636620 AGCAAGAAC-AAGGGAGAAACC
1 AGCAAAAACGAGGGGAGAAACC
*
50636641 AGCAAGAACGAGGGGAGAAAC
1 AGCAAAAACGAGGGGAGAAAC
50636662 TGTTGTTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.02
21 35 0.62
22 20 0.36
ACGTcount: A:0.52, C:0.18, G:0.31, T:0.00
Consensus pattern (22 bp):
AGCAAAAACGAGGGGAGAAACC
Found at i:50638433 original size:16 final size:16
Alignment explanation
Indices: 50638414--50638445 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50638404 ATCATTATCG
*
50638414 TTTTAGATCATTTTGA
1 TTTTAGATAATTTTGA
50638430 TTTTAGATAATTTTGA
1 TTTTAGATAATTTTGA
50638446 GTTCGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (16 bp):
TTTTAGATAATTTTGA
Found at i:50646158 original size:28 final size:28
Alignment explanation
Indices: 50646090--50646211 Score: 102
Period size: 28 Copynumber: 4.4 Consensus size: 28
50646080 ATACAACATG
* * * *
50646090 CAGTAGCAGTCTGGGCCTGAGCCCTATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
**
50646118 CAACAAC-GATGTGGGCCTTAGCCCAATA
1 CAGTAACAG-TGTGGGCCTTAGCCCAATA
* * * *
50646146 TAGTAACAGTGTGCGCATGAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * * *
50646174 CAGTAACAATGTAGGCCTTAGCCTATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
50646202 CAGTAACAGT
1 CAGTAACAGT
50646212 ACAATGCAGT
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
27 1 0.01
28 69 0.97
29 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:50646359 original size:26 final size:26
Alignment explanation
Indices: 50646317--50646393 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
50646307 ACACCAATAT
* * * *
50646317 CGCAGCAAAGCTGCCAGTAATAGTGA
1 CGCAACAAAGCTACCAGTAACAGTAA
*
50646343 TGCAACAAAGCTACCAGTAACAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
50646369 CGCAGCAAAGCTTCCAGTAACAGTA
1 CGCAACAAAGCTACCAGTAACAGTA
50646394 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:50646589 original size:27 final size:27
Alignment explanation
Indices: 50646566--50646764 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
50646556 AGAGGTATAA
*
50646566 CAGTCATTTTACTCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
* *
50646593 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
* * *
50646620 CAATCATTTTACCCTCCAGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
* * * *
50646647 CGGTCATTTTACCTTTTGGGAGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
**
50646674 CAGTCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
* * ** *
50646701 CGGTCATTTTACTCTTCAAGGATATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
* *
50646728 CGGTCA-TTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTATTT
50646754 CAGTCATTTTA
1 CAGTCATTTTA
50646765 GGCCCATTAA
Statistics
Matches: 143, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.15
27 121 0.85
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGGGGGTATTT
Found at i:50646627 original size:54 final size:54
Alignment explanation
Indices: 50646566--50646764 Score: 249
Period size: 54 Copynumber: 3.7 Consensus size: 54
50646556 AGAGGTATAA
* **
50646566 CAGTCATTTTACTCTTCGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTT
* * * * *
50646620 CAATCATTTTACCCTCCAGGGGTATTTCGGTCATTTTACCTTTTG-GGAGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTCGAGG-GTATTT
* * *
50646674 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACTCTTCAAGGATATTT
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTT
* * *
50646728 CGGTCA-TTTACCCTTCGAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTA
50646765 GGCCCATTAA
Statistics
Matches: 126, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
53 31 0.25
54 93 0.74
55 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (54 bp):
CAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTT
Found at i:50646680 original size:81 final size:80
Alignment explanation
Indices: 50646568--50646764 Score: 254
Period size: 81 Copynumber: 2.4 Consensus size: 80
50646558 AGGTATAACA
* *
50646568 GTCATTTTA-CTCTTCGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAATCATTTTAC
1 GTCATTTTACCT-TTC-GGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAATCATTTTAC
* *
50646632 CCTCCAGGGGTATTTCG
64 CCTCCAAGGATATTTCG
* ** *
50646649 GTCATTTTACCTTTTGGGAGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACT
1 GTCATTTTACCTTTCGGG-GTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAATCATTTTACC
*
50646714 CTTCAAGGATATTTCG
65 CTCCAAGGATATTTCG
*
50646730 GTCA-TTTACCCTTCGAGGGTATTTCAGTCATTTTA
1 GTCATTTTACCTTTCG-GGGTATTTCAGTCATTTTA
50646765 GGCCCATTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 29 0.28
81 71 0.70
82 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (80 bp):
GTCATTTTACCTTTCGGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAATCATTTTACCC
TCCAAGGATATTTCG
Found at i:50649967 original size:25 final size:26
Alignment explanation
Indices: 50649933--50649981 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
50649923 AGTTGTAAAT
50649933 TAGAAAAATATCTCTAGA-AATTTTC
1 TAGAAAAATATCTCTAGAGAATTTTC
* *
50649958 TAGAATAATATCTTTAGAGAATTT
1 TAGAAAAATATCTCTAGAGAATTT
50649982 CCTCTCTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (26 bp):
TAGAAAAATATCTCTAGAGAATTTTC
Found at i:50650224 original size:20 final size:20
Alignment explanation
Indices: 50650195--50650248 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
50650185 AACATTAAAT
50650195 TAAATTTAATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
* *
50650215 TCACTTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
50650235 TAAATTTAATATTA
1 TAAATTTAATATTA
50650249 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:50651817 original size:16 final size:16
Alignment explanation
Indices: 50651796--50651826 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50651786 CTATGCAGGC
*
50651796 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
50651812 AAAATACAAAAGACA
1 AAAATACAAAAGACA
50651827 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:50656519 original size:21 final size:21
Alignment explanation
Indices: 50656493--50656533 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50656483 AGACGAGCAA
* *
50656493 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50656514 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50656534 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:50677004 original size:89 final size:90
Alignment explanation
Indices: 50676847--50677046 Score: 250
Period size: 89 Copynumber: 2.3 Consensus size: 90
50676837 ATTTTTTTAA
* *
50676847 AAAAAAAAAGCAATTAAGCCCCTCTTTTTTTTGCACGCAATTAAGCACTTGAACTTTCAAAATAC
1 AAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTCAAAATAC
*
50676912 ATCAAAAAGATCC-TC-AAATTTCTTC
66 ATCAAAAAGA-CCTTCAAAAATT-TTC
* ** * * *
50676937 AAAAAAAAAGCAATTAAGCCCCTATTTTTTTT-CAATCAATTGGGTACTTGAACTTTTAAAATGC
1 AAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTCAAAATAC
50677001 ATCAAAAAGACCTTCAAAAATTTTC
66 ATCAAAAAGACCTTCAAAAATTTTC
*
50677026 ---AAAAAAGTAATTAAGCCCCTA
1 AAAAAAAAAGCAATTAAGCCCCTA
50677047 CTCTTATTAA
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
86 20 0.20
88 2 0.02
89 40 0.41
90 36 0.37
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (90 bp):
AAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTCAAAATAC
ATCAAAAAGACCTTCAAAAATTTTC
Found at i:50677031 original size:90 final size:90
Alignment explanation
Indices: 50676841--50677031 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 90
50676831 CTATCAATTT
* * *
50676841 TTTTAAAAAAAAAAAGCAATTAAGCCCCTCTTTTTTTTGCACGCAATTAAGCACTTGAACTTTCA
1 TTTTCAAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTCA
*
50676906 AAATACATCAAAAAGATCCTCAAAT
66 AAATACATCAAAAAGATCCTCAAAA
* ** * *
50676931 TTCTTC-AAAAAAAAAGCAATTAAGCCCCTATTTTTTTT-CAATCAATTGGGTACTTGAACTTTT
1 TT-TTCAAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTC
*
50676994 AAAATGCATCAAAAAGA-CCTTCAAAAA
65 AAAATACATCAAAAAGATCC-TC-AAAA
50677021 TTTTCAAAAAA
1 TTTTCAAAAAA
50677032 GTAATTAAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
88 2 0.02
89 40 0.46
90 43 0.49
91 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (90 bp):
TTTTCAAAAAAAAAAGCAATTAAGCCCCTATTTTTTTTGCAAGCAATTAAGCACTTGAACTTTCA
AAATACATCAAAAAGATCCTCAAAA
Found at i:50677105 original size:18 final size:19
Alignment explanation
Indices: 50677084--50677119 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50677074 TTAAAAAATT
50677084 AAAAA-TAATAAATTTTAG
1 AAAAATTAATAAATTTTAG
*
50677102 AAAAATTATTAAATTTTA
1 AAAAATTAATAAATTTTA
50677120 ATATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAAATTAATAAATTTTAG
Found at i:50677382 original size:24 final size:24
Alignment explanation
Indices: 50677355--50677443 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 24
50677345 TTTATATTTC
50677355 TTTAT-ATTTTGTATTTTATAAAAT
1 TTTATAATTTT-TATTTTATAAAAT
* * *
50677379 TTTATAATTTTT-TTATATTCATAT
1 TTTATAATTTTTATTTTA-TAAAAT
50677403 TTTATAATTTTTTAATATTGTTATAAAAT
1 TTTATAA--TTTT--TATT-TTATAAAAT
*
50677432 TTTATATTTTTT
1 TTTATAATTTTT
50677444 TACTATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
23 4 0.08
24 17 0.34
25 6 0.12
26 4 0.08
27 4 0.08
28 1 0.02
29 12 0.24
30 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATAATTTTTATTTTATAAAAT
Found at i:50677452 original size:11 final size:10
Alignment explanation
Indices: 50677378--50677463 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
50677368 TTTTATAAAA
50677378 TTTTATAATTT
1 TTTTAT-ATTT
50677389 TTTTATATTCAT
1 TTTTATATT--T
*
50677401 ATTTTATAATT
1 -TTTTATATTT
*
50677412 TTTTA-ATAT
1 TTTTATATTT
* ***
50677421 TGTTATAAAA
1 TTTTATATTT
50677431 TTTTATATTT
1 TTTTATATTT
50677441 TTTTACTA--T
1 TTTTA-TATTT
50677450 TTTTATATTT
1 TTTTATATTT
50677460 TTTT
1 TTTT
50677464 CTAATTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
8 2 0.03
9 12 0.21
10 26 0.45
11 9 0.16
12 1 0.02
13 8 0.14
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTATATTT
Found at i:50677453 original size:19 final size:19
Alignment explanation
Indices: 50677431--50677473 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
50677421 TGTTATAAAA
50677431 TTTTATATTTTTTTACT-AT
1 TTTTATATTTTTTT-CTAAT
50677450 TTTTATATTTTTTTCTAAT
1 TTTTATATTTTTTTCTAAT
50677469 TTTTA
1 TTTTA
50677474 ATAAAAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTTTCTAAT
Found at i:50677463 original size:29 final size:29
Alignment explanation
Indices: 50677376--50677476 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
50677366 TATTTTATAA
* *
50677376 AATTTTATAATTTTTTTATATTCATATTTTAT
1 AATTTTTTAATATTTTTATATT--T-TTTTAT
* ***
50677408 AATTTTTTAATATTGTTATAAAATTTTAT
1 AATTTTTTAATATTTTTATATTTTTTTAT
* * *
50677437 ATTTTTTTACTATTTTTATATTTTTTTCT
1 AATTTTTTAATATTTTTATATTTTTTTAT
50677466 AA-TTTTTAATA
1 AATTTTTTAATA
50677477 AAAGTAGGGG
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
28 8 0.15
29 29 0.54
32 17 0.31
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (29 bp):
AATTTTTTAATATTTTTATATTTTTTTAT
Found at i:50679481 original size:29 final size:30
Alignment explanation
Indices: 50679439--50679495 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
50679429 AAAATTGGGG
50679439 GTTAAAATTAAATTAT-AT-ATTTTATTAGA
1 GTTAAAATTAAATT-TCATCATTTTATTAGA
50679468 GTTAAAATGT-AATTTCATCATTTTATTA
1 GTTAAAAT-TAAATTTCATCATTTTATTA
50679496 ACTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 1 0.04
29 14 0.56
30 10 0.40
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (30 bp):
GTTAAAATTAAATTTCATCATTTTATTAGA
Found at i:50680351 original size:16 final size:17
Alignment explanation
Indices: 50680321--50680354 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
50680311 TTAATCAAAA
50680321 TAATTAAATTAATTTTC
1 TAATTAAATTAATTTTC
50680338 TAATTAAA-TAATTTTC
1 TAATTAAATTAATTTTC
50680354 T
1 T
50680355 TAACCCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTAAATTAATTTTC
Found at i:50682554 original size:3 final size:3
Alignment explanation
Indices: 50682546--50682588 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
50682536 TGCATAATAG
50682546 AAT AAT AAT AAT AAT GAA- AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT
50682589 CTAATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:50682755 original size:17 final size:18
Alignment explanation
Indices: 50682735--50682770 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50682725 AATGATAAGT
50682735 AAATAAAT-AAAATAAAA
1 AAATAAATAAAAATAAAA
*
50682752 AAATACATAAAAATAAAA
1 AAATAAATAAAAATAAAA
50682770 A
1 A
50682771 TCTAGACAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAATAAAAATAAAA
Found at i:50684371 original size:95 final size:95
Alignment explanation
Indices: 50684208--50684406 Score: 285
Period size: 95 Copynumber: 2.1 Consensus size: 95
50684198 ATTTGCAACT
* * *
50684208 TAAGATTTGTAACTTGTGGCCTTAATCCGTTCCACTGCGACTTCGGAGAAATAAGGTTCGCATCT
1 TAAGATTTGTAACTTGTAGCCTTAATCCGTTCCACTGCAACTTCGGAGAAATAAGATTCGCATCT
50684273 TCAATCTACTCCACTACAACTTTAAG-GAGA
66 TCAATCTACTCCACTACAAC-TTAAGAGAGA
* * *
50684303 TAAGATTTGTAATTTGTAGCCTTAATCTGTTCTACTGCAACTTCAGG-GAAATAAGATTCGCATC
1 TAAGATTTGTAACTTGTAGCCTTAATCCGTTCCACTGCAACTTC-GGAGAAATAAGATTCGCATC
* * *
50684367 TTCAATCTGCTCCACTACATCTTCAGAGAGA
65 TTCAATCTACTCCACTACAACTTAAGAGAGA
50684398 TAAGATTTG
1 TAAGATTTG
50684407 CTATCTTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 4 0.04
95 87 0.94
96 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (95 bp):
TAAGATTTGTAACTTGTAGCCTTAATCCGTTCCACTGCAACTTCGGAGAAATAAGATTCGCATCT
TCAATCTACTCCACTACAACTTAAGAGAGA
Found at i:50684422 original size:45 final size:44
Alignment explanation
Indices: 50684326--50684450 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
50684316 TTGTAGCCTT
* * * * *
50684326 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCATCTTC
* *
50684370 AATCTGCTCCACTACATCTTCAGAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC-ATCTTC
* *
50684415 AATCTGCTCCACTGCAACTTTAGGGAGAT-AGATTTG
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
50684451 TAACTTATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
44 38 0.55
45 31 0.45
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCATCTTC
Found at i:50684574 original size:45 final size:45
Alignment explanation
Indices: 50684523--50685684 Score: 796
Period size: 45 Copynumber: 25.9 Consensus size: 45
50684513 GGTTCTCATA
* * * * *
50684523 TTCAATCTACTTCACTACATCTTTAGAGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
** * * *
50684568 TTCAATCTGCTCCACTTTAACTTTAGGGAGATAAGATTTGTAACTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG---C---TATC
* * * * *
50684619 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGC-ATA
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * *
50684663 TTCAATTTGCTCCACTGTAACTTCA-AGGAGATAAGATTTG-TGGT-
1 TTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCT-ATC
** * *
50684707 TTTGA-CATGCTCTACTGCAAC-TCTAGAGAGATAAGATTTG-TAGC
1 TTCAATC-TGCTCCACTGCAACTTC-AGAGAGATAAGATTTGCTATC
* * * * *
50684751 TTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCCATT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * * *
50684796 TTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTG-TAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * * * *
50684840 TTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTGCTATT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * *
50684885 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGTTATC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * * **
50684930 CTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTG-TGGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * ***
50684974 TTTAATCTACTCCACTGCAACTTCAAAGAGATAA-A-AACCTATAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT--C
* * * * *
50685019 TTTAATCTGCTCTACTGGAACTTTAGAGAGATAAGATTTCCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * *
50685064 TTCAATCTGCTCCACTGCAACTTCAGAGAAAGAA-ATTTTGTTATC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGCTATC
* * * **
50685109 CTCAATCTGCTCCACTACAACTTCA-AGGAGATAAGATTT-TTGGC
1 TTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCTATC
* * * * *
50685153 TTTAATCTACTCCACTACAACTTCAGGGAGATAAAGATTTG-TAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AAGATTTGCTATC
* * * * *
50685198 TTTAATCTACTCTACTGTAACTTCAGAGAGATAAGATTTGCTATT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * *
50685243 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATTTG-TAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * * *
50685287 TTGAATCTGTTCTACTGCAACTTCAGAGAAATAAGATTTG-TAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * ** * * * *
50685331 TTTAATCTACTTTACTGTAATTTCAAAGAGATAAGATTTGCTATT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * * * **
50685376 TTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTT-ATGGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
* * * *
50685420 -TCAATCTACTGCATTGCAACTTCAGGGAGATAAGATTTGTAACTTGAT-
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG---C-T-ATC
* * * **
50685468 TT-AATC-GAC-CCATTGTAACTTCAGAG-GTATAGGATTTG-TCGC
1 TTCAATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTGCTATC
* * * * *
50685510 TTTAATATGCTTCTCTGCAACTTCA-AGGAGATAAGATTTGTTATC
1 TTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCTATC
* * * * *
50685555 TTTAACCTGCTCCATTACAACTTCAGAGAGATAA-AGTTTG-TAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGCTATC
* * * *
50685599 TTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGGTTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
*
50685644 TTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATTTGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGC
50685685 CACGATTACT
Statistics
Matches: 878, Mismatches: 189, Indels: 100
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.00
43 43 0.05
44 328 0.37
45 426 0.49
46 4 0.00
47 28 0.03
48 8 0.01
49 1 0.00
51 37 0.04
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (45 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATC
Found at i:50684590 original size:156 final size:157
Alignment explanation
Indices: 50684305--50684613 Score: 485
Period size: 156 Copynumber: 2.0 Consensus size: 157
50684295 TAAGGAGATA
* * *
50684305 AGATTTGTAATTTGTAGCCTTAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
1 AGATTTGTAACTTGTAGCCTTAATCTGTTCTACTGCAACTTCAAGGAAATAAGATTCGCATATTC
*
50684370 AATCTGCTCCACTACATCTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
66 AATCTACTCCACTACATCTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
50684435 TAGGGAGAT-AGATTTGTAACTTATAC
131 TAGGGAGATAAGATTTGTAACTTATAC
** * * * *
50684461 AGATTTGTAACTTGTAGTTTTAATCTGTTCTACTGCAACTTTAAGGAAATACGGTTCTCATATTC
1 AGATTTGTAACTTGTAGCCTTAATCTGTTCTACTGCAACTTCAAGGAAATAAGATTCGCATATTC
* * **
50684526 AATCTACTTCACTACATCTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTTTAACTT
66 AATCTACTCCACTACATCTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
50684591 TAGGGAGATAAGATTTGTAACTT
131 TAGGGAGATAAGATTTGTAACTT
50684614 GTAGCTTTAA
Statistics
Matches: 138, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
156 125 0.91
157 13 0.09
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (157 bp):
AGATTTGTAACTTGTAGCCTTAATCTGTTCTACTGCAACTTCAAGGAAATAAGATTCGCATATTC
AATCTACTCCACTACATCTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
TAGGGAGATAAGATTTGTAACTTATAC
Found at i:50684836 original size:89 final size:88
Alignment explanation
Indices: 50684619--50685686 Score: 757
Period size: 89 Copynumber: 12.0 Consensus size: 88
50684609 AACTTGTAGC
* * * ** * * *
50684619 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCATATTCAATTTGCTCCACTGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAAC
***
50684684 TTCA-AGGAGATAAGATTTGTGGT
66 TTCAGA-GAGATAAGATTTGCCAT
* * * * *
50684707 TTTGA-CATGCTCTACTGCAAC-TCTAGAGAGATAAGATTTGTAGCTTTAATCTACTCTACTGCA
1 TTTAATC-TGCTCCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
50684770 ACTTCAGAGAGATAAGATTTGCCAT
64 ACTTCAGAGAGATAAGATTTGCCAT
* * * * *
50684795 TTTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAACCTGCTCAACTGCAA
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAA
* * *
50684860 CTTCAAAGAGATAAAATTTGCTAT
65 CTTCAGAGAGATAAGATTTGCCAT
* * * * * *
50684884 TTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACA
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCA
* * ****
50684949 ACTTTAGGGAGATAAGATTTGTGGC
64 ACTTCAGAGAGATAAGATTTGCCAT
* ** * ** * * *
50684974 TTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCTATAGCTTTAATCTGCTCTACTGGAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTTAATCTGCTCCACTGCAA
*
50685039 CTTTAGAGAGATAAGATTT-CCTAT
65 CTTCAGAGAGATAAGATTTGCC-AT
* * * * * * * *
50685063 CTTCAATCTGCTCCACTGCAACTTCAGAGAAAGAA-ATTTTGTTATCCTCAATCTGCTCCACTAC
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTG-TAGCTTTAATCTGCTCCACTGC
*
50685127 AACTTCA-AGGAGATAAGATTTTTGGC--
63 AACTTCAGA-GAGATAAGA--TTTGCCAT
* * * * *
50685153 TTTAATCTACTCCACTACAACTTCAGGGAGATAAAGATTTGTAGCTTTAATCTACTCTACTGTAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTTAATCTGCTCCACTGCAA
*
50685218 CTTCAGAGAGATAAGATTTGCTAT
65 CTTCAGAGAGATAAGATTTGCCAT
* * * * *
50685242 TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATTTGTAACTTGAATCTGTTCTACTGCAA
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAA
* * *
50685307 CTTCAGAGAAATAAGATTTG-TAGC
65 CTTCAGAGAGATAAGATTTGCCA-T
* ** * * ** ** * *
50685331 TTTAATCTACTTTACTGTAATTTCAAAGAGATAAGATTTGCTATTTTTAATCTACTCCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAA
*
50685396 CTTCAGGGAGATAAGATTT---AT
65 CTTCAGAGAGATAAGATTTGCCAT
* * * * * *
50685417 GGCTCAATCTACTGCATTGCAACTTCAGGGAGATAAGATTTGTAACTTGATTTAATC-GAC-CCA
1 --TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-A---GCTTTAATCTG-CTCCA
* * * * **
50685480 TTGTAACTTCAGAG-GTATAGGATTTGTCGC
59 CTGCAACTTCAGAGAG-ATAAGATTTGCCAT
* * * * * * * *
50685510 TTTAATATGCTTCTCTGCAACTTCAAGGAGATAAGATTTGTTATCTTTAACCTGCTCCATTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAA
* *
50685575 CTTCAGAGAGATAA-AGTTTG-TAGC
65 CTTCAGAGAGATAAGA-TTTGCCA-T
* ** * * * *
50685599 TTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGGTTTGCTATCTTCAATATGCTCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAA
50685664 CTTCAGAGAGATAAGATTTGCCA
65 CTTCAGAGAGATAAGATTTGCCA
50685687 CGATTACTTC
Statistics
Matches: 767, Mismatches: 170, Indels: 84
0.75 0.17 0.08
Matches are distributed among these distances:
87 9 0.01
88 140 0.18
89 412 0.54
90 159 0.21
91 42 0.05
92 4 0.01
93 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (88 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATTTGCCAT
Found at i:50684951 original size:134 final size:133
Alignment explanation
Indices: 50684619--50685684 Score: 563
Period size: 134 Copynumber: 8.0 Consensus size: 133
50684609 AACTTGTAGC
* * * * * *
50684619 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGC-ATATTCAATTTGCTCCACTGTAA
1 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
* * * * * * * *
50684683 CTTCAAGGAGATAAGATTTGTGGTTTTGACATGCTCTACTGCAAC-TCTAGAGAGATAAGATTTG
66 CTTTAGGGAGATAAGATTTGTGGCTTTAACCTGCTCAACTGCAACTTC-AAAGAGATAAAATTTG
*
50684747 -TAGC
130 CTA-T
* * * * *
50684751 TTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAATTTGCTCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
* *
50684816 CTTTAGGGAGATAAGGTTTGTAGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTGC
66 CTTTAGGGAGATAAGATTTGTGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTGC
50684881 TAT
131 TAT
* * * * * *
50684884 TTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACA
1 TTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
* * * **
50684949 ACTTTAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAA--AC
65 ACTTTAGGGAGATAAGATTTGTGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTG
50685012 CTAT
130 CTAT
* * * *
50685016 AGCTTTAATCTGCTCTACTGGAACTTTAGAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTG
1 ---TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * ** * * * * * * *
50685081 CAACTTCAGAGAAAGAA-ATTTTGTTATCCTCAATCTGCTCCACTACAACTTCAAGGAGATAAGA
63 CAACTTTAGGGAGATAAGA-TTTG-TGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAA
* **
50685145 TTT-TTGGC
126 TTTGCT-AT
* * * * * * * *
50685153 TTTAATCTACTCCACTACAACTTCAGGGAGATAAAGATTTG-TAGCTTTAATCTACTCTACTGTA
1 TTTAATCTGCTCCACTGCAACTTCAGAGAGAT-AAGATTTGCTATCTTCAATCTGCTCCACTGCA
* * ** * * ** *
50685217 ACTTCAGAGAGATAAGATTTGCT-ATTTTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATT
65 ACTTTAGGGAGATAAGATTTG-TGGCTTT-AACCTGCTCAACTGCAACTTCAAAGAGATAAAATT
*
50685281 TG-TAAC
128 TGCT-AT
* * * * * * * ** *
50685287 TTGAATCTGTTCTACTGCAACTTCAGAGAAATAAGATTTG-TAGCTTTAATCTACTTTACTGTAA
1 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
** *** * * * * ** *
50685351 -TTTCAAAGAGATAAGATTTGCTATTTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
66 CTTT-AGGGAGATAAGATTTG-TGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTT
* **
50685415 -ATGG
129 GCTAT
* * * * * *
50685419 CTCAATCTACTGCATTGCAACTTCAGGGAGATAAGATTTGTAACTTGAT-TT-AATC-GAC-CCA
1 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG---C-T-ATCTTCAATCTG-CTCCA
* * * * * * ** * *
50685480 TTGTAACTTCAGAGG-TATAGGATTTGTCGCTTTAATATGCTTC-TCTGCAACTTCAAGGAGATA
60 CTGCAACTTTAG-GGAGATAAGATTTGTGGCTTTAACCTGC-TCAACTGCAACTTCAAAGAGATA
* *
50685543 AGATTTGTTAT
123 AAATTTGCTAT
* * * * * *
50685554 CTTTAACCTGCTCCATTACAACTTCAGAGAGATAA-AGTTTG-TAGCTTTAATCTGCTCTACTGC
1 -TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGCTATCTTCAATCTGCTCCACTGC
* ** * ** * ** * * *
50685617 AACTTCAAAGAGATAAGGTTTGCTATCTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATT
64 AACTTTAGGGAGATAAGATTTG-TGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATT
50685682 TGC
128 TGC
50685685 CACGATTACT
Statistics
Matches: 742, Mismatches: 153, Indels: 76
0.76 0.16 0.08
Matches are distributed among these distances:
130 1 0.00
131 3 0.00
132 79 0.11
133 181 0.24
134 371 0.50
135 63 0.08
136 40 0.05
137 3 0.00
138 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (133 bp):
TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
CTTTAGGGAGATAAGATTTGTGGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTGC
TAT
Found at i:50685070 original size:179 final size:179
Alignment explanation
Indices: 50684836--50685683 Score: 714
Period size: 179 Copynumber: 4.7 Consensus size: 179
50684826 ATAAGGTTTG
* * * *
50684836 TAGCTTTAACCTGCTCAACTGCAACTTCAAAGAGATAAAATTTGCTATTTTCAATCTGCTCCACT
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACT
* *
50684901 GCAACTTTAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTTAGGGAGATAAGA
66 GCAACTTCAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
50684966 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCTA
131 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCTA
* * * *
50685015 TAGCTTTAATCTGCTCTACTGGAACTTTAGAGAGATAAGATTTCCTATCTTCAATCTGCTCCACT
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACT
* * * * *
50685080 GCAACTTCAGAGAAAGAAATTTTGTTATCCTCAATCTGCTCCACTACAACTTCAAGGAGATAAGA
66 GCAACTTCAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
* * ** * ** *
50685145 TTTTTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAAGATTTG
131 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCTA
* *
50685194 TAGCTTTAATCTACTCTACTGTAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACT
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACT
* * * * * * * * *
50685259 GCAACTTCAGGGAGATAATATTTG-TAACTTGAATCTGTTCTACTGCAACTTCAGAGAAATAAGA
66 GCAACTTCAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
* ** * * ***
50685323 TTTGTAGCTTTAATCTACTTTACTGTAATTTCAAAGAGATAAGATTTGCTA
131 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAA-A-AACCTA
* * * * * ** * * *
50685374 T--TTTTAATCTACTCCACTACAACTTCAGGGAGATAAGA-TT--TATGGCTCAATCTACTGCAT
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-TTTCAATCTGCTCCAC
* * ** * * ** *
50685434 TGCAACTTCAGGGAGATAAGATTTGTAACTTGATTTAATC-GAC-CCATTGTAACTTCAGAGG-T
65 TGCAACTTCAGGGAGATAAAATTTGTTA--T-CCTCAATCTG-CTCCACTACAACTTCAG-GGAG
* * * * * * * * ** *
50685496 ATAGGATTTGTCGCTTTAATATGCTTCTCTGCAACTTCAAGGAGAT-AAGATTTGT
125 ATAAGATTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCT-A
* * * * * * *
50685551 TATCTTTAACCTGCTCCATTACAACTTCAGAGAGATAA-AGTTTG-TAGCTTT-AATCTGCTCTA
1 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTTGCTA-TTTTCAATCTGCTCCA
** ** * * * * *
50685613 CTGCAACTTCAAAGAGATAAGGTTTGCTATCTTCAATATGCTCCACTGCAACTTCAGAGAGATAA
64 CTGCAACTTCAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTCAGGGAGATAA
50685678 GATTTG
129 GATTTG
50685684 CCACGATTAC
Statistics
Matches: 534, Mismatches: 116, Indels: 39
0.78 0.17 0.06
Matches are distributed among these distances:
175 3 0.01
176 36 0.07
177 12 0.02
178 122 0.23
179 316 0.59
180 42 0.08
181 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (179 bp):
TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACT
GCAACTTCAGGGAGATAAAATTTGTTATCCTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
TTTGTGGCTTTAATCTACTCCACTGCAACTTCAAAGAGATAAAAACCTA
Found at i:50696115 original size:3 final size:3
Alignment explanation
Indices: 50696107--50696186 Score: 56
Period size: 3 Copynumber: 26.0 Consensus size: 3
50696097 TGCATAATAG
* * * *
50696107 AAT AAT AAT AAT GAA- AAT GAA- AAT GAT AAT AAT ACT AAT AAA AAC
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
50696152 AAC AAT AAT AAT AAAT AGT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT
50696187 CTAATTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.06
3 48 0.77
4 10 0.16
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:50696223 original size:15 final size:14
Alignment explanation
Indices: 50696205--50696253 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 14
50696195 TTAAAGTAAA
50696205 AATAAATAAATAAG
1 AATAAATAAATAAG
50696219 TAATAAAT-AAT-AG
1 -AATAAATAAATAAG
*
50696232 AATAAA-AAATAAC
1 AATAAATAAATAAG
50696245 AAT-AATAAA
1 AATAAATAAA
50696254 GGGAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
14 3 0.10
15 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (14 bp):
AATAAATAAATAAG
Found at i:50696365 original size:16 final size:16
Alignment explanation
Indices: 50696330--50696364 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
50696320 AATGATAAGT
50696330 AAATAAATAAAATAAA
1 AAATAAATAAAATAAA
*
50696346 AAATACATATAAATAAA
1 AAATAAATA-AAATAAA
50696363 AA
1 AA
50696365 TCTAGACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAAATAAA
Found at i:50700509 original size:14 final size:15
Alignment explanation
Indices: 50700485--50700515 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
50700475 AATCATGATT
50700485 TGATATAACCTTTTA
1 TGATATAACCTTTTA
50700500 TGAT-TAACCTTTTA
1 TGATATAACCTTTTA
50700514 TG
1 TG
50700516 CAATAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (15 bp):
TGATATAACCTTTTA
Found at i:50704336 original size:7 final size:7
Alignment explanation
Indices: 50704324--50704351 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50704314 AGAAGTATCT
50704324 GTTAGTA
1 GTTAGTA
50704331 GTTAGTA
1 GTTAGTA
50704338 GTTAGTA
1 GTTAGTA
50704345 GTTAGTA
1 GTTAGTA
50704352 TCAGTTGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GTTAGTA
Found at i:50707645 original size:11 final size:11
Alignment explanation
Indices: 50707623--50707682 Score: 84
Period size: 11 Copynumber: 5.4 Consensus size: 11
50707613 AACTAATCCT
50707623 CTCTCGAATTTC
1 CTCTC-AATTTC
50707635 CTCTCAATTTC
1 CTCTCAATTTC
*
50707646 CTCTAAATTTC
1 CTCTCAATTTC
*
50707657 CTCTCAATTTG
1 CTCTCAATTTC
*
50707668 CTCTCAAGTTC
1 CTCTCAATTTC
50707679 CTCT
1 CTCT
50707683 TAAATTTCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
11 38 0.88
12 5 0.12
ACGTcount: A:0.18, C:0.33, G:0.05, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:50707672 original size:33 final size:35
Alignment explanation
Indices: 50707623--50707690 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 35
50707613 AACTAATCCT
*
50707623 CTCTCGAATTTCCTCTCAATTTCCTC-TAAATTTC
1 CTCTCGAATTTCCTCTCAAGTTCCTCTTAAATTTC
*
50707657 CTCTC-AATTTGCTCTCAAGTTCCTCTTAAATTTC
1 CTCTCGAATTTCCTCTCAAGTTCCTCTTAAATTTC
50707691 TCTTAAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.21, C:0.31, G:0.04, T:0.44
Consensus pattern (35 bp):
CTCTCGAATTTCCTCTCAAGTTCCTCTTAAATTTC
Found at i:50708860 original size:7 final size:7
Alignment explanation
Indices: 50708848--50708873 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50708838 TAGTCGATTG
50708848 GTATTTA
1 GTATTTA
50708855 GTATTTA
1 GTATTTA
50708862 GTATTTA
1 GTATTTA
50708869 GTATT
1 GTATT
50708874 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:50709549 original size:18 final size:18
Alignment explanation
Indices: 50709522--50709561 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50709512 CCGGTGCATT
* *
50709522 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
50709540 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
50709558 TCCT
1 TCCT
50709562 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:50710046 original size:7 final size:8
Alignment explanation
Indices: 50710018--50710046 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50710008 AACTAATTTA
50710018 TTATAAAT
1 TTATAAAT
50710026 TTATAAAT
1 TTATAAAT
50710034 TTATAAA-
1 TTATAAAT
50710041 TTATAA
1 TTATAA
50710047 TTAAATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAAAT
Found at i:50710102 original size:21 final size:21
Alignment explanation
Indices: 50710098--50710202 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 21
50710088 TAAAAACCCT
50710098 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
50710119 AATCGTAACTCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
50710140 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
50710162 AACCGTAACCTTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
50710182 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
50710203 TATAATTTGA
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
20 16 0.24
21 33 0.50
22 17 0.26
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:50710154 original size:43 final size:41
Alignment explanation
Indices: 50710098--50710202 Score: 158
Period size: 43 Copynumber: 2.5 Consensus size: 41
50710088 TAAAAACCCT
*
50710098 AACCCTAACCCTTAACTTAAAAATCGTAA-CTCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCGTAACCT-TTAAA-TAAA
*
50710140 AACCCTAAACCCTTAACTTTAAAACCGTAACCTTTAAATAAA
1 AACCCT-AACCCTTAACTTAAAAACCGTAACCTTTAAATAAA
50710182 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
50710203 TATAATTTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
41 14 0.24
42 16 0.28
43 26 0.45
44 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (41 bp):
AACCCTAACCCTTAACTTAAAAACCGTAACCTTTAAATAAA
Found at i:50713645 original size:127 final size:126
Alignment explanation
Indices: 50713356--50714051 Score: 1008
Period size: 126 Copynumber: 5.5 Consensus size: 126
50713346 CCCAAACATG
* * *
50713356 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCCTCTCA-AATCGCATCCCG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
*
50713420 CTAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
50713480 CTACTGTAGCAAAAGCGTGTCCACGAGGGCACGTTTTCACAATTTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * **
50713544 CTTGAAGTGGTTTTTTAAACTATTTGCTCAGAAACGTCAACTTAAAATTATTTCTTCCAGGAC
65 CTTGAAG-CGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
50713607 CTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCCA-ATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCT-CATAAAGCATCCTG
*
50713671 CTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * *
50713734 CTGCTGTAGCAAAAGCACATCCACGAGGGCGCGATTTTAAAAATTCTTCTCATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
50713799 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * *
50713860 CTGCTGTAGCAAAAGCACATCCACGAGGGCGCGATTTTAAAAATTCTTCTCATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
50713925 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * *
50713985 CTACTGTAGCAAAAGCGCGTCCACGCGGGCACGACTTCAGAAATCCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
50714050 TT
66 TT
50714052 TGATTTTATC
Statistics
Matches: 525, Mismatches: 41, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
124 63 0.12
125 66 0.13
126 210 0.40
127 183 0.35
128 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:50713829 original size:253 final size:252
Alignment explanation
Indices: 50713356--50714051 Score: 1024
Period size: 253 Copynumber: 2.8 Consensus size: 252
50713346 CCCAAACATG
* * * *
50713356 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCCTCTCAAATCGCATCCCGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCCAATAGCATCCTGC
*
50713421 TAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACT
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACT
* * *
50713485 GTAGCAAAAGCGTGTCCACGAGGGCACG-TTTTCACAATTTCTTCTCA-AATAGCATCCTGCTTG
131 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTT-AAAAATTCTTCTCATAA-AGCATCCTGCTTG
* *
50713548 AAGTGGTTTTTTAAACTATTTGCTCAGAAACGTCAACTTAAAATTATTTCTTCCAGGAC
194 AAGTCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
*
50713607 CTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCCAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCCAATAGCATCCTGC
* *
50713672 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTG
66 TTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCTA
* * * *
50713737 CTGTAGCAAAAGCACATCCACGAGGGCGCGATTTTAAAAATTCTTCTCATAAAACATCCTGCTTG
129 CTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTAAAAATTCTTCTCATAAAGCATCCTGCTTG
* *
50713802 AAG-CGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
194 AAGTCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
* * * * * * *
50713860 CTGCTGTAGCAAAAGCACATCCACGAGGGCGCGATTTTAAAAATTCTTCT-CATAAAACATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCCA-ATAGCATCCTG
50713924 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* * * * * *
50713989 TGTAGCAAAAGCGCGTCCACGCGGGCACGACTTCAGAAATCCTTCTGATAAAGCATCCTGCTT
130 TGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTAAAAATTCTTCTCATAAAGCATCCTGCTT
50714052 TGATTTTATC
Statistics
Matches: 400, Mismatches: 39, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
251 132 0.33
252 44 0.11
253 154 0.38
254 64 0.16
255 6 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (252 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCCAATAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACT
GTAGCAAAAGCGCGTCCACGAGGGCACGATTTTAAAAATTCTTCTCATAAAGCATCCTGCTTGAA
GTCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
Found at i:50714187 original size:8 final size:8
Alignment explanation
Indices: 50714176--50714216 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
50714166 CAAAACCCTA
50714176 AAAATCCT
1 AAAATCCT
50714184 AAAATTCCT
1 AAAA-TCCT
50714193 -AAATCCT
1 AAAATCCT
50714200 AAAATCC-
1 AAAATCCT
*
50714207 AAAAACCT
1 AAAATCCT
50714215 AA
1 AA
50714217 CGTGGGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
7 10 0.34
8 15 0.52
9 4 0.14
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATCCT
Found at i:50715835 original size:18 final size:17
Alignment explanation
Indices: 50715812--50715846 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
50715802 TGTTTTCTTG
50715812 AAATTTTTAGAAAATTTT
1 AAATTTTTAG-AAATTTT
50715830 AAATTTTTAGAAATTTT
1 AAATTTTTAGAAATTTT
50715847 CATTTCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
AAATTTTTAGAAATTTT
Found at i:50715964 original size:32 final size:32
Alignment explanation
Indices: 50715864--50715968 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
50715854 CCTTTAAAGT
**
50715864 TTTTAGAAAATTTTAATTAGGTTGCTC--AAAT-
1 TTTT-GAAAATTTTAATTAAATT-CTCTTAAATC
* * * * **
50715895 TTTTGAAAAATTTCATTATA-TCTTTTATTTC
1 TTTTGAAAATTTTAATTAAATTCTCTTAAATC
50715926 TTTTGAAAATTTTAATTAAATTCTCTTAAATC
1 TTTTGAAAATTTTAATTAAATTCTCTTAAATC
50715958 TTTTGAAAATT
1 TTTTGAAAATT
50715969 ATCATTAATG
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
28 2 0.04
29 1 0.02
30 14 0.25
31 21 0.37
32 19 0.33
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (32 bp):
TTTTGAAAATTTTAATTAAATTCTCTTAAATC
Found at i:50715976 original size:32 final size:30
Alignment explanation
Indices: 50715891--50715976 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
50715881 TAGGTTGCTC
* *
50715891 AAAT-TTTTGAAAAATTTCATTATATCTTTT
1 AAATCTTTTG-AAAATTTCATTAAATCTCTT
** *
50715921 ATTTCTTTTGAAAATTTTAATTAAATTCTCTT
1 AAATCTTTTGAAAA-TTTCATTAAA-TCTCTT
50715953 AAATCTTTTGAAAATTATCATTAA
1 AAATCTTTTGAAAATT-TCATTAA
50715977 TGTTAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
30 6 0.14
31 15 0.34
32 23 0.52
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (30 bp):
AAATCTTTTGAAAATTTCATTAAATCTCTT
Found at i:50717665 original size:16 final size:16
Alignment explanation
Indices: 50717646--50717688 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50717636 ATTTTTGTAC
**
50717646 CTTTTTTTGTTTCTTT
1 CTTTTTTTGTTTCCAT
*
50717662 CTTTGTTTGTTTCCAT
1 CTTTTTTTGTTTCCAT
50717678 CTTTTGTTTGT
1 CTTTT-TTTGT
50717689 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.72
Consensus pattern (16 bp):
CTTTTTTTGTTTCCAT
Found at i:50730350 original size:40 final size:41
Alignment explanation
Indices: 50730288--50730364 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
50730278 AGATTAAAAT
*
50730288 ATGTGTAAGTTTATTATATATATTATAAT-ATAAAATCTTA
1 ATGTGTAAGTATATTATATATATTATAATAATAAAATCTTA
*
50730328 ATGTTTAAGTATATGTAT-TATATTATAATAATAAAAT
1 ATGTGTAAGTATAT-TATATATATTATAATAATAAAAT
50730365 AAGTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 23 0.70
41 10 0.30
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (41 bp):
ATGTGTAAGTATATTATATATATTATAATAATAAAATCTTA
Found at i:50730408 original size:28 final size:29
Alignment explanation
Indices: 50730371--50730431 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
50730361 AAATAAGTAA
* *
50730371 TAAAAAGAAATAGAAA-AAGGAAACAAAG
1 TAAAAAGAAACAGAAAGAAAGAAACAAAG
* *
50730399 TAAAACGAAACAGAAAGAAAGAAAGAAAG
1 TAAAAAGAAACAGAAAGAAAGAAACAAAG
50730428 -AAAA
1 TAAAA
50730432 GGGAGAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (29 bp):
TAAAAAGAAACAGAAAGAAAGAAACAAAG
Found at i:50738438 original size:21 final size:21
Alignment explanation
Indices: 50738403--50738481 Score: 88
Period size: 21 Copynumber: 3.6 Consensus size: 21
50738393 AATTTAAATG
*
50738403 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TATTTTTTAATA
50738426 TTTTAAATATA-TTTTTAATTA
1 TTTTAAATATATTTTTTAA-TA
50738447 TTTTAAATATAATTTTTTAATA
1 TTTTAAATAT-ATTTTTTAATA
* *
50738469 TTATAAAAATATT
1 TTTTAAATATATT
50738482 ATAAAACAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.14
21 16 0.32
22 15 0.30
23 12 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAATA
Found at i:50738441 original size:22 final size:22
Alignment explanation
Indices: 50738403--50738481 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
50738393 AATTTAAATG
*
50738403 TTTTATAATAT-TATTTTTTAAAA
1 TTTTA-AATATAT-TTTTTTAATA
50738426 TTTTAAATATA--TTTTTAATTA
1 TTTTAAATATATTTTTTTAA-TA
*
50738447 TTTTAAATATAATTTTTTAATA
1 TTTTAAATATATTTTTTTAATA
* *
50738469 TTATAAAAATATT
1 TTTTAAATATATT
50738482 ATAAAACAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 7 0.15
21 12 0.25
22 17 0.35
23 12 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATATATTTTTTTAATA
Found at i:50738509 original size:72 final size:77
Alignment explanation
Indices: 50738423--50738582 Score: 240
Period size: 72 Copynumber: 2.1 Consensus size: 77
50738413 TTATTTTTTA
* * *
50738423 AAATTTTAAATATATTTTTAATTATTTTAAATAT-AATTTTT-TAATAT-TA-TAAAAATATTAT
1 AAATTTGAAATATATTTTTAATTATTTTAAATATAAATTTTTAAAATATACATTAAAAATATTAT
50738484 AAAAC-AATAAT
66 AAAACAAATAAT
*
50738495 AAATTTGAAATATATTTTTAATTATTTTAAATATAAAATTTTTAAAATATACATTTAAAATATTA
1 AAATTTGAAATATATTTTTAATTATTTTAAATAT-AAATTTTTAAAATATACATTAAAAATATTA
50738560 TAAAACAAATAAT
65 TAAAACAAATAAT
50738573 AAATTTGAAA
1 AAATTTGAAA
50738583 GGTCATATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
72 33 0.42
74 7 0.09
75 5 0.06
76 1 0.01
77 16 0.21
78 16 0.21
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (77 bp):
AAATTTGAAATATATTTTTAATTATTTTAAATATAAATTTTTAAAATATACATTAAAAATATTAT
AAAACAAATAAT
Found at i:50738639 original size:31 final size:33
Alignment explanation
Indices: 50738587--50738648 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
50738577 TTGAAAGGTC
*
50738587 ATATCATTAAAAATAATATATTTTAAATTTTTT
1 ATATCATTAAAAATAATATATTTAAAATTTTTT
*
50738620 ATATTATT-AAAA-AATATATTTAAAATTTT
1 ATATCATTAAAAATAATATATTTAAAATTTT
50738649 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 16 0.59
32 4 0.15
33 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (33 bp):
ATATCATTAAAAATAATATATTTAAAATTTTTT
Found at i:50738668 original size:24 final size:21
Alignment explanation
Indices: 50738626--50738676 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 21
50738616 TTTTATATTA
*
50738626 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAAAT
50738647 TTAAAAAATAATATTATAAAAAAT
1 TTAAAAAAT-ATATT-T-AAAAAT
50738671 TTAAAA
1 TTAAAA
50738677 TGTACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.35
22 5 0.19
23 1 0.04
24 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAAAT
Found at i:50738730 original size:20 final size:20
Alignment explanation
Indices: 50738705--50738766 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
50738695 TAAAACCAAT
*
50738705 AATAAAAAATAAATAAAATA
1 AATAAAAAACAAATAAAATA
**
50738725 AATAAAGGACAAATAAAA-A
1 AATAAAAAACAAATAAAATA
* * *
50738744 AACTTAAAAAGAAATTAAATA
1 AA-TAAAAAACAAATAAAATA
50738765 AA
1 AA
50738767 AAACTTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AATAAAAAACAAATAAAATA
Found at i:50738772 original size:24 final size:25
Alignment explanation
Indices: 50738735--50738781 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
50738725 AATAAAGGAC
50738735 AAATAAAAAAACTTAAAAAGAAATT
1 AAATAAAAAAACTTAAAAAGAAATT
50738760 AAAT-AAAAAACTTAAAAAGAAA
1 AAATAAAAAAACTTAAAAAGAAA
50738782 AACAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (25 bp):
AAATAAAAAAACTTAAAAAGAAATT
Found at i:50738782 original size:13 final size:13
Alignment explanation
Indices: 50738742--50738782 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
50738732 GACAAATAAA
50738742 AAAACTTAAAAAG
1 AAAACTTAAAAAG
50738755 -AAA-TTAAATAA-
1 AAAACTTAAA-AAG
50738766 AAAACTTAAAAAG
1 AAAACTTAAAAAG
50738779 AAAA
1 AAAA
50738783 ACAAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
11 5 0.21
12 10 0.42
13 9 0.38
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAACTTAAAAAG
Found at i:50740400 original size:2 final size:2
Alignment explanation
Indices: 50740393--50740417 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50740383 AATGAAGTAT
50740393 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50740418 GGATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50740723 original size:19 final size:19
Alignment explanation
Indices: 50740686--50740723 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50740676 TTGTGTATAA
*
50740686 TTTAAATTAAACTTTAAAT
1 TTTAAATTAAACTTAAAAT
50740705 TTTAAA-TAAATCTTAAAAT
1 TTTAAATTAAA-CTTAAAAT
50740724 ATAACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAAATTAAACTTAAAAT
Found at i:50749867 original size:3 final size:3
Alignment explanation
Indices: 50749848--50749906 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
50749838 TTATATTTAT
* *
50749848 TTA TTCA TTA TTA -TA TTA TTA -TA TTA -TA CTA TTA TTA TTA CTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50749891 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
50749907 ATTTCTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:50749869 original size:28 final size:28
Alignment explanation
Indices: 50749849--50749903 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
50749839 TATATTTATT
50749849 TATTCATTATTA-TATTATTATATTATAC
1 TATT-ATTATTACTATTATTATATTATAC
50749877 TATTATTATTACTATTATTATTATTAT
1 TATTATTATTACTATTATTA-TATTAT
50749904 TATATTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 7 0.28
28 12 0.48
29 6 0.24
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTATTATTACTATTATTATATTATAC
Found at i:50753093 original size:20 final size:20
Alignment explanation
Indices: 50753051--50753093 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50753041 TAAACTCTCA
* * *
50753051 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAAAT
50753071 AAAGATAAATAAATATAAAT
1 AAAGATAAATAAATATAAAT
50753091 AAA
1 AAA
50753094 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAATATAAAT
Found at i:50753383 original size:18 final size:18
Alignment explanation
Indices: 50753360--50753396 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50753350 TCAAATTAGC
50753360 AGGATCATACTCAGAATA
1 AGGATCATACTCAGAATA
50753378 AGGATCATACTCAGAATA
1 AGGATCATACTCAGAATA
50753396 A
1 A
50753397 ATACATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (18 bp):
AGGATCATACTCAGAATA
Found at i:50755237 original size:18 final size:18
Alignment explanation
Indices: 50755198--50755245 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
50755188 GAAACTGTCC
*
50755198 AAAATGATAAATACTTAA
1 AAAATGATAAAAACTTAA
* *
50755216 AAAATGATAAAAATTTAG
1 AAAATGATAAAAACTTAA
*
50755234 AAAATTATAAAA
1 AAAATGATAAAA
50755246 GAAACTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAATGATAAAAACTTAA
Found at i:50760184 original size:18 final size:18
Alignment explanation
Indices: 50760134--50760187 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
50760124 ATGATGATAG
50760134 TGATTCCGAGGATGGAAG-
1 TGATTCCGAGGAT-GAAGA
* * *
50760152 TGGTTCTGATGATGAAGA
1 TGATTCCGAGGATGAAGA
50760170 TGATTCCGAGGATGAAGA
1 TGATTCCGAGGATGAAGA
50760188 CGAAGAGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (18 bp):
TGATTCCGAGGATGAAGA
Found at i:50761251 original size:61 final size:61
Alignment explanation
Indices: 50761186--50761376 Score: 196
Period size: 61 Copynumber: 3.2 Consensus size: 61
50761176 ATTTTATAGT
* *
50761186 ATTATATATTATGATTTTAGTAAATTCATATAAAAAAATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
* * * * * * * *
50761247 ATTATATATTTTTA-TTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAA-TAAATTCATATAA-AAATAT-TTAATATTAAGAATTTTATTA-A
* *
50761306 ATTATATATTATGATTTTAATAAATTCATATAAGAATATCTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
50761367 ATTATATATT
1 ATTATATATT
50761377 TTTATTAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
58 5 0.05
59 31 0.31
60 17 0.17
61 41 0.41
62 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
Found at i:50761260 original size:120 final size:120
Alignment explanation
Indices: 50761136--50761449 Score: 574
Period size: 120 Copynumber: 2.6 Consensus size: 120
50761126 ATATTAAGAA
50761136 TTTTATTAAATTATATTTAATAATAATTATGTAAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTAAAATTATATTTTATAGTATTATATATTATGAT
*
50761201 TTTAGTAAATTCATATAAAAAAATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAAAAAATCTAATATTAAGAATTTTATTAAATTATATAT
*
50761256 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTAAAATTATATTTTATAGTATTATATATTATGAT
* * *
50761321 TTTAATAAATTCATATAAGAATATCTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAAAAAATCTAATATTAAGAATTTTATTAAATTATATAT
50761376 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATTATG-TAAAATTATATTTTATAGTATTATATATTATGA
50761441 TTTTAGTAA
65 TTTTAGTAA
50761450 TTTAATATTA
Statistics
Matches: 186, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
120 146 0.78
121 40 0.22
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATGTAAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAAAAAATCTAATATTAAGAATTTTATTAAATTATATAT
Found at i:50761457 original size:22 final size:22
Alignment explanation
Indices: 50761412--50761482 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
50761402 TTATGTTAAA
*
50761412 ATTAT-ATTTTATAGTATTATAT
1 ATTATGATTTTATAAT-TTATAT
50761434 ATTATGATTTTAGTAATTTA-AT
1 ATTATGATTTTA-TAATTTATAT
* *
50761456 ATTAAGAATTTTATTAAATTATAT
1 ATTATG-ATTTTA-TAATTTATAT
50761480 ATT
1 ATT
50761483 TTTATTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.29
23 21 0.51
24 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTATGATTTTATAATTTATAT
Found at i:50761702 original size:44 final size:45
Alignment explanation
Indices: 50761653--50761750 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
50761643 CTATTACACC
50761653 TCCATT-CTATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTAC-ATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* **
50761697 TCCATTACATTCAACCAAACAATTGAATTGTTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
50761742 TCCATTACA
1 TCCATTACA
50761751 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:50768481 original size:124 final size:125
Alignment explanation
Indices: 50768076--50768742 Score: 682
Period size: 126 Copynumber: 5.4 Consensus size: 125
50768066 TTTTTGTTCA
* * * * * *
50768076 ATCAGCAAAAGTACTAAAAAAAGCTTCCAGCTGAACACTATTTTTCTACAATAGTTTCT-AAAAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
*
50768140 ATAATTTTGAGAAGATTGTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTAAAAAAA-AGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * * *
50768201 GT--G---TAGT--T-AAAAAA-ATTCCACCTAGG-CGCTTTTTTTCTACAGTAATTTCTG-AAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACCT-GGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * * * * * * *
50768255 AATAATTTTGAGAAGATAGTTTTGAAAAAATAGGGTCAAAAATGATTTAAGCAGGATACACT
65 AATAATTTTGAGAAGATGGTTCT-AAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * *
50768317 TTCAGCAAAAGTACTAGAACAAA-CTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAA
1 ATCAGCAAAAGTACT-GAAAAAAGCTCCCACCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * *
50768381 AATAATTTTGAGAATATGGTTCTAAAAAAAAGTGTC-AAAACGCTTTAAGTAGGATGCACT
65 AATAATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * *
50768441 ATCAGCAAAAGTACTGAAAAAAGCTCCCCCCTGGATGCTATTTTTTTACGGTAGTTTCTGAAAAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
* * * *
50768506 ATAATTTTGAAAAAATGGTTCTAAGAAAATAA-TGTAAAAAACGCTTCAAACAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTAA-AAAA-AAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * ** *
50768567 GTCAGCAAAAGTACT-AAAACAAGCTCCAAGTTGGACGCTATTTTTCCACAGTAGTTTCTGAAAA
1 ATCAGCAAAAGTACTGAAAA-AAGCTCCCACCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * * * * *
50768631 AATAATTTTGAAAAGATGATTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACT
65 AATAATTTTGAGAAGATGGTTCT-AAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * *
50768693 ATCAGTAAAAGTACTGAAAAAAGCTCCCACATAGATGCTCTTTTTCTACA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTATTTTTCTACA
50768743 ATACATCATG
Statistics
Matches: 447, Mismatches: 73, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
116 78 0.17
117 13 0.03
118 2 0.00
120 3 0.01
121 3 0.01
123 8 0.02
124 93 0.21
125 58 0.13
126 183 0.41
127 6 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (125 bp):
ATCAGCAAAAGTACTGAAAAAAGCTCCCACCTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
ATAATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACT
Found at i:50768606 original size:250 final size:248
Alignment explanation
Indices: 50768077--50768742 Score: 728
Period size: 250 Copynumber: 2.7 Consensus size: 248
50768067 TTTTGTTCAA
* * * * *
50768077 TCAGCAAAAGTACTAAAAAAAGCTTCCAGCTGAACACTATTTTTCTACAATAGTTTCT-AAAAAA
1 TCAGCAAAAGTACTAAAACAAGC-TCCAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* *
50768141 TAATTTTGAGAAGATTGTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGT--G
65 TAATTTTGAGAAGATGGTTCTAAAAAAA-AGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG
* * *
50768204 --TAGT--T-AAAAAA-ATTCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTT
129 AAAAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTT
* * * * * * * * *
50768263 TGAGAAGATAGTTTTGAAAAAATAGGGTCAAAAATGATTTAAGCAGGATACACTT
194 TGAAAAAATAGTTCTGAAAAAATAAGGTAAAAAACGATTCAAACAGGATACACTG
* * * *
50768318 TCAGCAAAAGTACTAGAACAAACTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTAAAACAAGCT-CCAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* * *
50768383 TAATTTTGAGAATATGGTTCTAAAAAAAAGTGTC-AAAACGCTTTAAGTAGGATGCACTATCAGC
65 TAATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG-
* * * *
50768447 AAAAGTACTGAAAAAAGCTCCCCCCT-GGATGCTATTTTTT-TACGGTAGTTTCTGAAAAAATAA
129 AAAAGTACTGAAAAAAGCTCCCACCTAGG-CGCT-TTTTTTCTACAGTAATTTCTG-AAAAATAA
* * * *
50768510 TTTTGAAAAAATGGTTCT-AAGAAAATAATGTAAAAAACGCTTCAAACAGGATGCACTG
191 TTTTGAAAAAATAGTTCTGAA-AAAATAAGGTAAAAAACGATTCAAACAGGATACACTG
* *
50768568 TCAGCAAAAGTACTAAAACAAGCTCCAAGTTGGACGCTATTTTTCCACAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTAAAACAAGCTCC-AGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* * * * * *
50768633 TAATTTTGAAAAGATGATTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACTATCAG
65 TAATTTTGAGAAGATGGTTCT-AAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG
* ** *
50768698 TAAAAGTACTGAAAAAAGCTCCCACATAGATGCTCTTTTTCTACA
129 -AAAAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACA
50768743 ATACATCATG
Statistics
Matches: 350, Mismatches: 55, Indels: 29
0.81 0.13 0.07
Matches are distributed among these distances:
240 24 0.07
241 53 0.15
242 33 0.09
245 3 0.01
247 1 0.00
248 8 0.02
249 25 0.07
250 129 0.37
251 17 0.05
252 56 0.16
253 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (248 bp):
TCAGCAAAAGTACTAAAACAAGCTCCAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
AATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAGAA
AAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTTTG
AAAAAATAGTTCTGAAAAAATAAGGTAAAAAACGATTCAAACAGGATACACTG
Found at i:50768644 original size:14 final size:14
Alignment explanation
Indices: 50768625--50768662 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
50768615 CAGTAGTTTC
50768625 TGAAAAAATAATTT
1 TGAAAAAATAATTT
* *
50768639 TGAAAAGATGATTT
1 TGAAAAAATAATTT
50768653 TGAAAAAATA
1 TGAAAAAATA
50768663 GTGTCAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (14 bp):
TGAAAAAATAATTT
Found at i:50768842 original size:25 final size:25
Alignment explanation
Indices: 50768813--50768884 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
50768803 TTATAGCAAG
50768813 AGAAATT-AGAGAAGTTCAGAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAGAAT
*
50768838 AGAAATTGAAGGAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
* *
50768863 ATAAATTGAAGAAGTTGAGAAG
1 AGAAATTGAAGAAGTTCAGAAG
50768885 GTATAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:50768940 original size:13 final size:13
Alignment explanation
Indices: 50768922--50768946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50768912 TTATACGAAT
50768922 CATTATATTTTTG
1 CATTATATTTTTG
50768935 CATTATATTTTT
1 CATTATATTTTT
50768947 TGTTTTGAAT
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:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (13 bp):
CATTATATTTTTG
Found at i:50774871 original size:23 final size:24
Alignment explanation
Indices: 50774844--50774888 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
50774834 TTATATCCCC
*
50774844 ACATGGAGTGTAG-GGTTGGATGG
1 ACATGGAGTGTAGAGGCTGGATGG
*
50774867 ACATGGTGTGTAGAGGCTGGAT
1 ACATGGAGTGTAGAGGCTGGAT
50774889 AGGTAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.22, C:0.07, G:0.44, T:0.27
Consensus pattern (24 bp):
ACATGGAGTGTAGAGGCTGGATGG
Found at i:50775444 original size:18 final size:18
Alignment explanation
Indices: 50775415--50775476 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
50775405 AAATAAATGT
*
50775415 TTTGAAATTGAATAACGA
1 TTTGAAAATGAATAACGA
* * *
50775433 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAACGA
*
50775451 TTTGAAAATGAACGACACGA
1 TTTGAAAATGAA-TA-ACGA
50775471 TTTGAA
1 TTTGAA
50775477 GTTAACATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 25 0.74
19 1 0.03
20 8 0.24
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (18 bp):
TTTGAAAATGAATAACGA
Found at i:50776503 original size:18 final size:17
Alignment explanation
Indices: 50776465--50776503 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50776455 GAGTCTTATT
*
50776465 TTTTTGCCCAAGCCTAT
1 TTTTTGCCCAAGCCTAC
*
50776482 TTTTTGCCCAAGGCTTAC
1 TTTTTGCCCAA-GCCTAC
50776500 TTTT
1 TTTT
50776504 CGGGAGGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (17 bp):
TTTTTGCCCAAGCCTAC
Found at i:50779393 original size:12 final size:12
Alignment explanation
Indices: 50779378--50779431 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
50779368 TAATTTTTCC
50779378 AAATTTCTCTCT
1 AAATTTCTCTCT
*
50779390 AAA-TT-TCTCA
1 AAATTTCTCTCT
***
50779400 AAAAAGCTCTC-
1 AAATTTCTCTCT
50779411 AAATTTCTCTCT
1 AAATTTCTCTCT
50779423 AAATTTCTC
1 AAATTTCTC
50779432 AAAGCTCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 7 0.21
11 10 0.30
12 16 0.48
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (12 bp):
AAATTTCTCTCT
Found at i:50779394 original size:22 final size:22
Alignment explanation
Indices: 50779348--50779395 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
50779338 CCCCCCGCCT
*
50779348 ATTTTTCACACAATTTCCTTTA
1 ATTTTTCACACAATTTCCTTAA
50779370 ATTTTTC-CA-AATTTCTCTCTAA
1 ATTTTTCACACAATTTC-CT-TAA
50779392 ATTT
1 ATTT
50779396 CTCAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTCACACAATTTCCTTAA
Found at i:50779440 original size:21 final size:21
Alignment explanation
Indices: 50779407--50779447 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50779397 TCAAAAAAGC
**
50779407 TCTCAAATTTCTCTCTAAATT
1 TCTCAAAGCTCTCTCTAAATT
*
50779428 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTCTAAAT
50779448 CACAATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.44
Consensus pattern (21 bp):
TCTCAAAGCTCTCTCTAAATT
Found at i:50781160 original size:25 final size:25
Alignment explanation
Indices: 50781123--50781205 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
50781113 TCAACAACTC
* * *
50781123 ACGAACTGTGAATCGATAAGCTCAT
1 ACGAGCTGAGAATCGGTAAGCTCAT
50781148 ACGAGCTGAGAATCGGTAAGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
50781172 CACGAGCT-ACAAATCGGTAAGCTCAT
1 -ACGAGCTGA-GAATCGGTAAGCTCAT
50781198 ACGAGCTG
1 ACGAGCTG
50781206 TGGTGTGTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCAT
Found at i:50785711 original size:27 final size:28
Alignment explanation
Indices: 50785674--50785732 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
50785664 AGGTTGGATT
50785674 TTGATATATGTCTTGAAC-TTGTTAGATA
1 TTGATATATGT-TTGAACATTGTTAGATA
* *
50785702 TTGAT-TATGTTTTAACATTGTTGGATA
1 TTGATATATGTTTGAACATTGTTAGATA
50785729 TTGA
1 TTGA
50785733 ATTGATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 18 0.64
28 5 0.18
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (28 bp):
TTGATATATGTTTGAACATTGTTAGATA
Found at i:50787133 original size:14 final size:14
Alignment explanation
Indices: 50787110--50787149 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50787100 TACAAAAACT
*
50787110 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
50787124 AAATCATTTTACGG
1 AAAACATTTTACAG
50787138 AAAACATTTTAC
1 AAAACATTTTAC
50787150 TGTCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:50793552 original size:25 final size:25
Alignment explanation
Indices: 50793522--50793576 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
50793512 AATTAATTTT
50793522 TATTTTTTATGATA-AAAAAATAAA
1 TATTTTTTATGATATAAAAAATAAA
50793546 TATTTTTTATGATATAAAAAATAAA
1 TATTTTTTATGATATAAAAAATAAA
50793571 TATTTT
1 TATTTT
50793577 ACATTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
TATTTTTTATGATATAAAAAATAAA
Found at i:50799746 original size:20 final size:20
Alignment explanation
Indices: 50799721--50799773 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
50799711 CTATCTAATT
50799721 TTTCCTTCTAATCCTCTCAA
1 TTTCCTTCTAATCCTCTCAA
* *
50799741 TTTCCTTCCAAAATTCTCTCAA
1 TTTCCTT-C-TAATCCTCTCAA
50799763 TTTCCTTCTAA
1 TTTCCTTCTAA
50799774 AATTCTCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCCTTCTAATCCTCTCAA
Found at i:50799759 original size:22 final size:22
Alignment explanation
Indices: 50799734--50799846 Score: 119
Period size: 22 Copynumber: 5.3 Consensus size: 22
50799724 CCTTCTAATC
50799734 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
50799756 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
** * **
50799778 CTCTCAAACTCATAT--TTAATT
1 CTCTCAATTTCCT-TCCAAAATT
50799799 -T-T-AATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
50799818 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
50799840 CTCTCAA
1 CTCTCAA
50799847 ACTCATATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.01
18 5 0.07
19 5 0.07
20 2 0.03
21 5 0.07
22 54 0.74
23 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:50799836 original size:62 final size:62
Alignment explanation
Indices: 50799739--50799886 Score: 296
Period size: 62 Copynumber: 2.4 Consensus size: 62
50799729 TAATCCTCTC
50799739 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCTAAAATTCTCTCAAACTCATATTTAATTTT
1 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCTAAAATTCTCTCAAACTCATATTTAATTTT
50799801 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCTAAAATTCTCTCAAACTCATATTTAATTTT
1 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCTAAAATTCTCTCAAACTCATATTTAATTTT
50799863 AATTTCCTTCCAAAATTCTCTCAA
1 AATTTCCTTCCAAAATTCTCTCAA
50799887 ATCTATTTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (62 bp):
AATTTCCTTCCAAAATTCTCTCAATTTCCTTCTAAAATTCTCTCAAACTCATATTTAATTTT
Found at i:50799928 original size:30 final size:31
Alignment explanation
Indices: 50799892--50799955 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
50799882 CTCAAATCTA
*
50799892 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTGTTTATAT
*
50799922 TTTTTTAAAATAATTTTAAATTTGTTTATAT
1 TTTTTTAAAATAATTATAAATTTGTTTATAT
50799953 TTT
1 TTT
50799956 CATCAATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTGTTTATAT
Found at i:50800097 original size:22 final size:22
Alignment explanation
Indices: 50800063--50800105 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50800053 AAGATTTTTT
*
50800063 TTATTTATATATT-TTTAGTTAA
1 TTATTAATATATTGTTT-GTTAA
*
50800085 TTATTAATTTATTGTTTGTTA
1 TTATTAATATATTGTTTGTTA
50800106 TAAAAGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (22 bp):
TTATTAATATATTGTTTGTTAA
Found at i:50801047 original size:7 final size:7
Alignment explanation
Indices: 50801035--50801059 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50801025 AGTGGATTGA
50801035 TATTTAG
1 TATTTAG
50801042 TATTTAG
1 TATTTAG
50801049 TATTTAG
1 TATTTAG
50801056 TATT
1 TATT
50801060 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:50802811 original size:124 final size:126
Alignment explanation
Indices: 50802492--50802829 Score: 547
Period size: 124 Copynumber: 2.7 Consensus size: 126
50802482 CCCAAACTTG
*
50802492 CTACTGTAGCAAAATTGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
** * *
50802557 TAGAAATTATTTTATACTATTTACTCAGAAACATCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
50802618 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
*
50802683 TAGAAACGATTTTATACTATTTGCTCAGAAAAAT-A-AAAAAAAATTATTTCTTACGTGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
* * * *
50802742 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCAATTTCACAATTTTTTCTCAAATAGCATCCT-G
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
*
50802806 TTAGAAGCGATTTTATACTATTTG
66 -TAGAAACGATTTTATACTATTTG
50802830 ACCAGAGACG
Statistics
Matches: 200, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
123 1 0.00
124 104 0.52
125 1 0.00
126 94 0.47
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
Done.