Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 59 of 318
Found at i:21121299 original size:11 final size:11
Alignment explanation
Indices: 21121283--21121317 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
21121273 CTTTATATAC
21121283 TAATAAAATAA
1 TAATAAAATAA
*
21121294 TAATAAAATAT
1 TAATAAAATAA
21121305 TAATAAAATAA
1 TAATAAAATAA
21121316 TA
1 TA
21121318 TTTATCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:21123574 original size:28 final size:27
Alignment explanation
Indices: 21123532--21123596 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 27
21123522 TGTTCGAGTT
*
21123532 AATTTTTAAAAAAATGATTTTCTTTAA
1 AATTTTTAAAAAAATAATTTTCTTTAA
21123559 AATTTTTCAAAAAAATAATTTTCTTTAA
1 AATTTTT-AAAAAAATAATTTTCTTTAA
*
21123587 AATTTCTAAA
1 AATTTTTAAA
21123597 CATGATCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 10 0.29
28 25 0.71
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (27 bp):
AATTTTTAAAAAAATAATTTTCTTTAA
Found at i:21126403 original size:24 final size:25
Alignment explanation
Indices: 21126375--21126431 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
21126365 TTTTAACATG
* * *
21126375 TATTTATAATTAA-TTATTTAATTT
1 TATTTATAATAAAGTTATTAAAATT
21126399 TATTTA-AATAAAGTTATTAAAATT
1 TATTTATAATAAAGTTATTAAAATT
21126423 TATTTATAA
1 TATTTATAA
21126432 GTCTTCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 21 0.75
25 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTTATAATAAAGTTATTAAAATT
Found at i:21126524 original size:16 final size:16
Alignment explanation
Indices: 21126503--21126533 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21126493 TTATATCCCG
21126503 AGAATATATTAAATAA
1 AGAATATATTAAATAA
21126519 AGAATATATTAAATA
1 AGAATATATTAAATA
21126534 TTCTCTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AGAATATATTAAATAA
Found at i:21139636 original size:6 final size:6
Alignment explanation
Indices: 21139625--21139699 Score: 79
Period size: 6 Copynumber: 12.7 Consensus size: 6
21139615 CCAATCTTTC
21139625 TTTTTA TTTTTA TTTTTA TTTTTA --TTTA TTTTT- TCTTTTA TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TT-TTTA
21139672 TTATTT- TCTTTTA TTTTTA -TTTTA TTTT
1 TT-TTTA T-TTTTA TTTTTA TTTTTA TTTT
21139700 AGTTAAATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.07
5 6 0.10
6 38 0.62
7 13 0.21
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:21139689 original size:31 final size:31
Alignment explanation
Indices: 21139625--21139697 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
21139615 CCAATCTTTC
21139625 TTTTTA-TTT-TTATTTTTATTTTTATTTAT
1 TTTTTATTTTATTATTTTTATTTTTATTTAT
*
21139654 TTTTTCTTTTATTATTTATTATTTTCT-TTTA-
1 TTTTTATTTTATTATTT-TTATTTT-TATTTAT
21139685 TTTTTATTTTATT
1 TTTTTATTTTATT
21139698 TTAGTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 5 0.13
30 3 0.08
31 18 0.47
32 11 0.29
33 1 0.03
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (31 bp):
TTTTTATTTTATTATTTTTATTTTTATTTAT
Found at i:21139699 original size:16 final size:15
Alignment explanation
Indices: 21139631--21139700 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 15
21139621 TTTCTTTTTA
21139631 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
21139646 TTATTTATTTTT-TCTT
1 TT-TTTATTTTTAT-TT
*
21139662 TTATTATTTATTATTT
1 TTTTTATTT-TTATTT
21139678 TCTTTTATTTTTATTT
1 T-TTTTATTTTTATTT
21139694 TATTTTA
1 T-TTTTA
21139701 GTTAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 9 0.19
16 30 0.64
17 8 0.17
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:21139876 original size:42 final size:42
Alignment explanation
Indices: 21139807--21139898 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
21139797 TATCCATGCT
* * * *
21139807 GCCAAACAGTTCTATTCCAGCCCAGAAT-GCCATATCTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCCAAAAC-CTGCA
**
21139849 GCCAAACAGTCCTATTCCAGCTTAGAATCCCCAAAACCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCCAAAACCTGCA
21139891 GCCAAACA
1 GCCAAACA
21139899 CCCCTTTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 38 0.88
43 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.20
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCCAAAACCTGCA
Found at i:21141693 original size:27 final size:26
Alignment explanation
Indices: 21141633--21141694 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
21141623 ATTTTATTTT
21141633 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
21141659 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
21141687 ATTTTATT
1 ATTTTATT
21141695 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:21143225 original size:17 final size:17
Alignment explanation
Indices: 21143203--21143253 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
21143193 CAAGTTGGAA
21143203 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
21143220 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
21143237 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
21143253 T
1 T
21143254 CAAGTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 10 0.38
18 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:21144145 original size:43 final size:43
Alignment explanation
Indices: 21144080--21144419 Score: 470
Period size: 43 Copynumber: 8.0 Consensus size: 43
21144070 AATGTGACAT
*
21144080 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
** * *
21144123 TCGGGCTTCGAGCCTAATAGGCTATAATGCTGGTGAGATGGTA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
21144166 TCGGGCTTC-AGGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGA-GCCTAGCAGGCTATAATGCCGGTGAGATGATA
* *
21144209 TCGGGCTTCGAGCCTAGCAGGCTATAATGTCAGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * * *
21144252 TTGGGCTTCGGGCCTAGTAGGTTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* *
21144295 TCGGGCTTCGAGCCTAGCAGGCTATAATGTCGGTAAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * *
21144338 TCGGGCTTCGGGCCTAGCAGACGATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * * *
21144381 TCAGGCTTTGAGCCTAGCAGGCGA-AATACCGGTGA-ATGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
21144420 GTTCAGACTT
Statistics
Matches: 262, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
41 4 0.02
42 11 0.04
43 246 0.94
44 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
Found at i:21145011 original size:16 final size:18
Alignment explanation
Indices: 21144980--21145012 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
21144970 TACTCGTCAC
21144980 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
21144998 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
21145013 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:21147669 original size:20 final size:21
Alignment explanation
Indices: 21147644--21147682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21147634 CTGACTTCGA
*
21147644 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGCT
21147664 CTTTAAAAAAATAATTTGG
1 CTTTAAAAAAATAATTTGG
21147683 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGCT
Found at i:21147689 original size:21 final size:21
Alignment explanation
Indices: 21147644--21147690 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21147634 CTGACTTCGA
* *
21147644 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGAT
21147664 CTTTAAAAAAATAATTTGGAT
1 CTTTAAAAAAATAATTTGGAT
*
21147685 TTTTAA
1 CTTTAA
21147691 TTTATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGAT
Found at i:21147872 original size:49 final size:49
Alignment explanation
Indices: 21147818--21147924 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
21147808 GAAATTAATT
* * * *
21147818 AAATTAAATTAGAAACAATTTGATA-TTGTTCTTAACTTAATCAAAACCA
1 AAATTAAATTAGAAACAAATT-AAAGTTGATCTTAACTTAATCAAAACAA
** * *
21147867 AAATTATTTTAGAAACAAATTAAAGTTGATCTTAATTTAATTAAAACAA
1 AAATTAAATTAGAAACAAATTAAAGTTGATCTTAACTTAATCAAAACAA
21147916 AAATTAAAT
1 AAATTAAAT
21147925 CGAAATTCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 2 0.04
49 45 0.96
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (49 bp):
AAATTAAATTAGAAACAAATTAAAGTTGATCTTAACTTAATCAAAACAA
Found at i:21168276 original size:17 final size:19
Alignment explanation
Indices: 21168254--21168298 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
21168244 TTTAACATGT
21168254 CTTAAA-AAAAAT-TGACA
1 CTTAAACAAAAATCTGACA
*
21168271 CTTAAACACAAATCTGACA
1 CTTAAACAAAAATCTGACA
*
21168290 CTTGAACAA
1 CTTAAACAA
21168299 TCATTGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 12 0.52
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (19 bp):
CTTAAACAAAAATCTGACA
Found at i:21171438 original size:20 final size:20
Alignment explanation
Indices: 21171400--21171447 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
21171390 TAAATTCTAA
* **
21171400 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAAATAATT
21171420 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAATT
21171440 AAA-ATAAA
1 AAAGATAAA
21171448 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:21171472 original size:27 final size:26
Alignment explanation
Indices: 21171442--21171504 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
21171432 AAATAATTAA
21171442 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
21171469 AATAATTATCTTAATATTAATGATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
21171496 AATATAAAT
1 AATA-AAAT
21171505 AAAATAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:21178100 original size:20 final size:21
Alignment explanation
Indices: 21178053--21178100 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
21178043 CCATAAAATT
*
21178053 TATTTAAAAAATCATAAATAA
1 TATTAAAAAAATCATAAATAA
*
21178074 T-TATAAAAAAAT-ATAAATAC
1 TAT-TAAAAAAATCATAAATAA
21178094 TATTAAA
1 TATTAAA
21178101 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TATTAAAAAAATCATAAATAA
Found at i:21178202 original size:19 final size:19
Alignment explanation
Indices: 21178157--21178203 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
21178147 ATATAATTTT
21178157 TTTATAAAATAATAAAACA
1 TTTATAAAATAATAAAACA
* * *
21178176 TATT-TAAAATATTTAAACC
1 T-TTATAAAATAATAAAACA
21178195 TTTATAAAA
1 TTTATAAAA
21178204 ATGTATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTATAAAATAATAAAACA
Found at i:21178223 original size:10 final size:10
Alignment explanation
Indices: 21178197--21178243 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 10
21178187 TTTAAACCTT
*
21178197 TATAAAAATG
1 TATAAAAATC
21178207 TATTAAAAATC
1 TA-TAAAAATC
21178218 TATAAAAATC
1 TATAAAAATC
21178228 -ATAAAAAT-
1 TATAAAAATC
21178236 TATAAAAA
1 TATAAAAA
21178244 AAAACTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.44
10 10 0.29
11 9 0.26
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TATAAAAATC
Found at i:21178290 original size:12 final size:12
Alignment explanation
Indices: 21178273--21178298 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21178263 ATAAGCTTAT
21178273 AAAAATTATAAA
1 AAAAATTATAAA
21178285 AAAAATTATAAA
1 AAAAATTATAAA
21178297 AA
1 AA
21178299 CTTGAAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:21178839 original size:17 final size:17
Alignment explanation
Indices: 21178812--21178870 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
21178802 TTTAAATAAG
21178812 TTTTATGAATTTTATATT
1 TTTTAT-AATTTTATATT
* *
21178830 TTTTATAATTTCTTAGAAT
1 TTTTATAA-TT-TTATATT
* *
21178849 TTTTAAAATTTTATGTT
1 TTTTATAATTTTATATT
21178866 TTTTA
1 TTTTA
21178871 AATACTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 11 0.33
18 10 0.30
19 12 0.36
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTATATT
Found at i:21178887 original size:18 final size:18
Alignment explanation
Indices: 21178866--21178900 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21178856 ATTTTATGTT
*
21178866 TTTTAAATACTTTTTATA
1 TTTTAAAAACTTTTTATA
*
21178884 TTTTAAAAATTTTTTAT
1 TTTTAAAAACTTTTTAT
21178901 GATATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAAAAACTTTTTATA
Found at i:21178897 original size:29 final size:29
Alignment explanation
Indices: 21178864--21178929 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
21178854 AAATTTTATG
21178864 TTTTTTA-AATACTTTTTATATTTTAAAAA
1 TTTTTTATAATACTTTTTAT-TTTTAAAAA
* * *
21178893 TTTTTTATGATATTTTTTATTTTTAAATA
1 TTTTTTATAATACTTTTTATTTTTAAAAA
21178922 TTTTTTAT
1 TTTTTTAT
21178930 GGAAAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTTTATAATACTTTTTATTTTTAAAAA
Found at i:21178915 original size:17 final size:17
Alignment explanation
Indices: 21178847--21178929 Score: 63
Period size: 17 Copynumber: 5.1 Consensus size: 17
21178837 ATTTCTTAGA
21178847 ATTTTTAAA-ATTTTATGT
1 ATTTTTAAATATTTT-T-T
*
21178865 -TTTTTAAATACTTTTT
1 ATTTTTAAATATTTTTT
*
21178881 ATATTTTAAAAATTTTTT
1 AT-TTTTAAATATTTTTT
*
21178899 A----T-GATATTTTTT
1 ATTTTTAAATATTTTTT
21178911 ATTTTTAAATATTTTTT
1 ATTTTTAAATATTTTTT
21178928 AT
1 AT
21178930 GGAAAAACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
12 9 0.18
13 1 0.02
16 2 0.04
17 21 0.41
18 18 0.35
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTTAAATATTTTTT
Found at i:21178920 original size:27 final size:25
Alignment explanation
Indices: 21178793--21178926 Score: 63
Period size: 27 Copynumber: 4.8 Consensus size: 25
21178783 CAATATGTTT
* *
21178793 TTTTTTAATTTTAAATAAGTTTTATGAA
1 TTTTTTATTTTTAAAT--TTTTTA-GAA
* *
21178821 TTTTATATTTTTTATAATTTCTTAGAA
1 TTTTTTA-TTTTTA-AATTTTTTAGAA
* * **
21178848 TTTTTAAAATTTTATGTTTTTTA-AA
1 TTTTT-TATTTTTAAATTTTTTAGAA
21178873 TACTTTTTATATTTTAAAAATTTTTTATGATA
1 T--TTTTTAT-TTTT--AAATTTTTTA-GA-A
21178905 TTTTTTATTTTTAAATATTTTT
1 TTTTTTATTTTTAAAT-TTTTT
21178927 TATGGAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
25 3 0.04
26 7 0.09
27 24 0.30
28 16 0.20
29 17 0.21
30 10 0.12
31 1 0.01
32 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTATTTTTAAATTTTTTAGAA
Found at i:21190456 original size:42 final size:43
Alignment explanation
Indices: 21190366--21190509 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 43
21190356 GTCCCGGATG
* *
21190366 TGGTCTTACATGTAATCAAATATCGATGTCATTGTCCCAAATA
1 TGGTCTTACATGAAATCAAATATCGATGTCATTGTCCCAAACA
* * * *
21190409 GGGTCTTACATGAAATTAAATA-CGATGTCGA-TGTCCTAGACA
1 TGGTCTTACATGAAATCAAATATCGATGTC-ATTGTCCCAAACA
* * * *** *
21190451 TGGTCTTACACGTAAATCATAA-GTCGATGCCAAAATCCCAAACG
1 TGGTCTTACATG-AAATCA-AATATCGATGTCATTGTCCCAAACA
*
21190495 TGGTCTTACACGAAA
1 TGGTCTTACATGAAA
21190510 ACACATGTCG
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
42 25 0.31
43 29 0.36
44 26 0.32
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGTCATTGTCCCAAACA
Found at i:21201019 original size:24 final size:24
Alignment explanation
Indices: 21200986--21201049 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
21200976 AGTTAGGGTT
*
21200986 TAGGTTTTAGGGTTTA-AAGTTTTA
1 TAGGGTTTAGGGTTTAGAA-TTTTA
* *
21201010 TATGGTTTAGGGTTTAGTATTTTA
1 TAGGGTTTAGGGTTTAGAATTTTA
21201034 TAGGGTTTAGGGTTTA
1 TAGGGTTTAGGGTTTA
21201050 TGTCTTTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (24 bp):
TAGGGTTTAGGGTTTAGAATTTTA
Found at i:21201057 original size:24 final size:22
Alignment explanation
Indices: 21200986--21201074 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 22
21200976 AGTTAGGGTT
*
21200986 TAGGTTTTAGGGTTTAAAGTTTTA
1 TAGGGTTTAGGGTTT--AGTTTTA
*
21201010 TATGGTTTAGGGTTTAGTATTTTA
1 TAGGGTTTAGGGTTTAG--TTTTA
21201034 TAGGGTTTAGGGTTTATGTCTTTA
1 TAGGGTTTAGGGTTTA-GT-TTTA
*
21201058 T-GAGGTTTAGGATTTAG
1 TAG-GGTTTAGGGTTTAG
21201075 GGTTTATGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.04
23 3 0.05
24 50 0.89
25 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (22 bp):
TAGGGTTTAGGGTTTAGTTTTA
Found at i:21201089 original size:38 final size:39
Alignment explanation
Indices: 21201034--21201125 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 39
21201024 TAGTATTTTA
21201034 TAGGGTTTAGGGTTTAT-GTCTTTATGAGGTTT-AGG-ATT
1 TAGGGTTTAGGG-TTATGGT-TTTATGAGGTTTAAGGTATT
*
21201072 TAGGGTTTATGGGTTATGGTTTTATGAGGTTTAAGGTTTT
1 TAGGGTTTA-GGGTTATGGTTTTATGAGGTTTAAGGTATT
21201112 TAGGGTTTAGGGTT
1 TAGGGTTTAGGGTT
21201126 TAGGGTTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
38 25 0.51
39 13 0.27
40 11 0.22
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (39 bp):
TAGGGTTTAGGGTTATGGTTTTATGAGGTTTAAGGTATT
Found at i:21201139 original size:21 final size:21
Alignment explanation
Indices: 21201035--21201550 Score: 323
Period size: 21 Copynumber: 24.0 Consensus size: 21
21201025 AGTATTTTAT
*
21201035 AGGGTTTAGGGTTTATGTCTTT
1 AGGGTTTAGGGTTTATG-GTTT
* *
21201057 ATGAGGTTTAGGATTTAGGGTTT
1 A-G-GGTTTAGGGTTTATGGTTT
*
21201080 ATGGG-TTATGGTTTTATGAGGTTT
1 A-GGGTTTA-GGGTTTAT--GGTTT
* *
21201104 AAGGTTTTTAGGGTTTAGGGTTT
1 -AGG-GTTTAGGGTTTATGGTTT
* *
21201127 AGGGTTTATGGTTTGTGGTTT
1 AGGGTTTAGGGTTTATGGTTT
*
21201148 -GTGGTTTAGGG-TAATGGTTT
1 AG-GGTTTAGGGTTTATGGTTT
*
21201168 AAGGTTTTAGGGTTTATGGTTT
1 -AGGGTTTAGGGTTTATGGTTT
*
21201190 AGAGTTTAGGGTTTATGGTTT
1 AGGGTTTAGGGTTTATGGTTT
*
21201211 -GTGGTTTAGGG-TAATGGTTT
1 AG-GGTTTAGGGTTTATGGTTT
*
21201231 AAGGTTTTAGGGTTTATGGTTT
1 -AGGGTTTAGGGTTTATGGTTT
* * *
21201253 AGAGTTTAGTGTTTTTAGGTTTT
1 AGGGTTTAGGGTTTAT-GG-TTT
* * *
21201276 ATGGTTTAGTGTTTTTGGGTTT
1 AGGGTTTAGGGTTTAT-GGTTT
* *
21201298 AAGGTTTAAGGTTTA-GGATTT
1 AGGGTTTAGGGTTTATGG-TTT
* * *
21201319 ATGGTTTATGG-TTAAGGTTT
1 AGGGTTTAGGGTTTATGGTTT
* *
21201339 --GGCTTAGGGTTTAGGGTTT
1 AGGGTTTAGGGTTTATGGTTT
* *
21201358 AGTGTTTAAGGTTTATGGTTT
1 AGGGTTTAGGGTTTATGGTTT
* * *
21201379 ATGGTTTCATGGTTTA-AGTTT
1 AGGGTTT-AGGGTTTATGGTTT
**
21201400 AGGGTTTAAAGTTTATGGGTTT
1 AGGGTTTAGGGTTTAT-GGTTT
* *
21201422 GGGGTTTAGGGTTTATGCTTTT
1 AGGGTTTAGGGTTTATG-GTTT
* *
21201444 AGAGTTTAGGGTTTTTGGTTTT
1 AGGGTTTAGGGTTTATGG-TTT
* *
21201466 AGGGTTTAGGTTTTAGTGTTTT
1 AGGGTTTAGGGTTTA-TGGTTT
* * * * *
21201488 ATGGTTTAAGGTCTAGGGTCT
1 AGGGTTTAGGGTTTATGGTTT
** *
21201509 AGGGTCCAAGGTTTATGGTTT
1 AGGGTTTAGGGTTTATGGTTT
* *
21201530 ATGGTTTAGGGTTTAAGGTTT
1 AGGGTTTAGGGTTTATGGTTT
21201551 TATAAGGTTT
Statistics
Matches: 384, Mismatches: 81, Indels: 59
0.73 0.15 0.11
Matches are distributed among these distances:
18 7 0.02
19 8 0.02
20 31 0.08
21 159 0.41
22 116 0.30
23 33 0.09
24 20 0.05
25 7 0.02
26 3 0.01
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.49
Consensus pattern (21 bp):
AGGGTTTAGGGTTTATGGTTT
Found at i:21201296 original size:52 final size:49
Alignment explanation
Indices: 21201232--21201550 Score: 158
Period size: 50 Copynumber: 6.4 Consensus size: 49
21201222 TAATGGTTTA
* *
21201232 AGGTTTTAGGGTTTATGGTTTAGAGTTTAGTGTTTTTAGGTTTTATGGTTT
1 AGGTTTTTGGGTTTAAGGTTTAGAGTTTAGTG-TTTTAGG-TTTATGGTTT
* *
21201283 AGTGTTTTTGGGTTTAAGGTTTA-AGGTTTAG-GATTTATGGTTTATGGTTA
1 AG-GTTTTTGGGTTTAAGGTTTAGA-GTTTAGTGTTTTA-GGTTTATGGTTT
* * * *
21201333 AGG--TTT-GGCTTAGGGTTTAGGGTTTAGTGTTTAAGGTTTATGGTTT
1 AGGTTTTTGGGTTTAAGGTTTAGAGTTTAGTGTTTTAGGTTTATGGTTT
* * ** * **
21201379 ATGGTTTCAT-GGTTTAA-GTTTAGGGTTTAAAGTTTATGGGTTTGGGGTTT
1 A-GGTTT-TTGGGTTTAAGGTTTAGAGTTTAGTGTTT-TAGGTTTATGGTTT
* * * * *
21201429 AGGGTTTAT-GCTTTTAGAGTTTAGGGTTT-TTGGTTTTAGGGTTTA-GGTTTT
1 A-GGTTTTTGGGTTTAAG-GTTTAGAGTTTAGT-GTTTTA-GGTTTATGG-TTT
* * * * ***
21201480 AGTGTTTTAT-GGTTTAAGGTCTAGGGTCTAGGGTCCAAGGTTTATGGTTT
1 AG-GTTTT-TGGGTTTAAGGTTTAGAGTTTAGTGTTTTAGGTTTATGGTTT
*
21201530 ATGG-TTTAGGGTTTAAGGTTT
1 A-GGTTTTTGGGTTTAAGGTTT
21201551 TATAAGGTTT
Statistics
Matches: 209, Mismatches: 38, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
46 29 0.14
47 9 0.04
49 39 0.19
50 52 0.25
51 49 0.23
52 31 0.15
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (49 bp):
AGGTTTTTGGGTTTAAGGTTTAGAGTTTAGTGTTTTAGGTTTATGGTTT
Found at i:21201465 original size:22 final size:22
Alignment explanation
Indices: 21201425--21201488 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
21201415 TGGGTTTGGG
* *
21201425 GTTTAGGGTTTATGCTTTTAGA
1 GTTTAGGGTTTTTGGTTTTAGA
*
21201447 GTTTAGGGTTTTTGGTTTTAGG
1 GTTTAGGGTTTTTGGTTTTAGA
*
21201469 GTTTA-GGTTTTAGTGTTTTA
1 GTTTAGGGTTTTTG-GTTTTA
21201489 TGGTTTAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.14, C:0.02, G:0.30, T:0.55
Consensus pattern (22 bp):
GTTTAGGGTTTTTGGTTTTAGA
Found at i:21201477 original size:6 final size:7
Alignment explanation
Indices: 21200978--21201550 Score: 275
Period size: 7 Copynumber: 79.3 Consensus size: 7
21200968 CGCAACTAAG
21200978 TTAGGGT
1 TTAGGGT
*
21200985 TTAGGTT
1 TTAGGGT
21200992 TTAGGGT
1 TTAGGGT
**
21200999 TTAAAGTTT
1 TT--AGGGT
*
21201008 TATATGGT
1 T-TAGGGT
21201016 TTAGGGT
1 TTAGGGT
**
21201023 TTAGTATTT
1 TTAG--GGT
21201032 TATAGGGT
1 T-TAGGGT
21201040 TTAGGGT
1 TTAGGGT
**
21201047 TTATGTCT
1 TTA-GGGT
21201055 TTATGAGGT
1 TTA-G-GGT
*
21201064 TTAGGAT
1 TTAGGGT
21201071 TTAGGGT
1 TTAGGGT
21201078 TTATGGG-
1 TTA-GGGT
*
21201085 TTATGGTT
1 TTA-GGGT
21201093 TTATGAGGT
1 TTA-G-GGT
*
21201102 TTAAGGTTT
1 TT-AGG-GT
21201111 TTAGGGT
1 TTAGGGT
21201118 TTAGGGT
1 TTAGGGT
21201125 TTAGGGT
1 TTAGGGT
*
21201132 TTATGGT
1 TTAGGGT
21201139 TT-GTGGT
1 TTAG-GGT
21201146 TT-GTGGT
1 TTAG-GGT
21201153 TTAGGG-
1 TTAGGGT
* *
21201159 TAATGGT
1 TTAGGGT
*
21201166 TTAAGGTT
1 TT-AGGGT
21201174 TTAGGGT
1 TTAGGGT
*
21201181 TTATGGT
1 TTAGGGT
*
21201188 TTAGAGT
1 TTAGGGT
21201195 TTAGGGT
1 TTAGGGT
*
21201202 TTATGGT
1 TTAGGGT
21201209 TT-GTGGT
1 TTAG-GGT
21201216 TTAGGG-
1 TTAGGGT
* *
21201222 TAATGGT
1 TTAGGGT
*
21201229 TTAAGGTT
1 TT-AGGGT
21201237 TTAGGGT
1 TTAGGGT
*
21201244 TTATGGT
1 TTAGGGT
*
21201251 TTAGAGT
1 TTAGGGT
*
21201258 TTAGTGTTT
1 TTAG-G-GT
*
21201267 TTAGGTT
1 TTAGGGT
*
21201274 TTATGGT
1 TTAGGGT
*
21201281 TTAGTGTT
1 TTAG-GGT
*
21201289 TTTGGGT
1 TTAGGGT
*
21201296 TTAAGGT
1 TTAGGGT
*
21201303 TTAAGGT
1 TTAGGGT
*
21201310 TTAGGAT
1 TTAGGGT
*
21201317 TTATGGT
1 TTAGGGT
*
21201324 TTATGG-
1 TTAGGGT
*
21201330 TTAAGGT
1 TTAGGGT
*
21201337 TT--GGC
1 TTAGGGT
21201342 TTAGGGT
1 TTAGGGT
21201349 TTAGGGT
1 TTAGGGT
*
21201356 TTAGTGT
1 TTAGGGT
*
21201363 TTAAGGT
1 TTAGGGT
*
21201370 TTATGGT
1 TTAGGGT
*
21201377 TTATGGT
1 TTAGGGT
*
21201384 TTCATGGT
1 TT-AGGGT
*
21201392 TTA-AGT
1 TTAGGGT
21201398 TTAGGGT
1 TTAGGGT
**
21201405 TTAAAGT
1 TTAGGGT
21201412 TTATGGGT
1 TTA-GGGT
*
21201420 TTGGGGT
1 TTAGGGT
21201427 TTAGGGT
1 TTAGGGT
**
21201434 TTATGCTT
1 TTA-GGGT
*
21201442 TTAGAGT
1 TTAGGGT
21201449 TTAGGGTT
1 TTAGGG-T
* *
21201457 TTTGGTT
1 TTAGGGT
21201464 TTAGGGT
1 TTAGGGT
*
21201471 TTAGGTT
1 TTAGGGT
*
21201478 TTAGTGTT
1 TTAG-GGT
*
21201486 TTATGGT
1 TTAGGGT
*
21201493 TTAAGGT
1 TTAGGGT
*
21201500 CTAGGGT
1 TTAGGGT
*
21201507 CTAGGGT
1 TTAGGGT
** *
21201514 CCAAGGT
1 TTAGGGT
*
21201521 TTATGGT
1 TTAGGGT
*
21201528 TTATGGT
1 TTAGGGT
21201535 TTAGGGT
1 TTAGGGT
*
21201542 TTAAGGT
1 TTAGGGT
21201549 TT
1 TT
21201551 TATAAGGTTT
Statistics
Matches: 437, Mismatches: 96, Indels: 66
0.73 0.16 0.11
Matches are distributed among these distances:
5 4 0.01
6 18 0.04
7 317 0.73
8 70 0.16
9 23 0.05
10 5 0.01
ACGTcount: A:0.17, C:0.01, G:0.32, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:21201488 original size:15 final size:15
Alignment explanation
Indices: 21201426--21201494 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 15
21201416 GGGTTTGGGG
*
21201426 TTTAGGGTTTA-TGCT
1 TTTAGGTTTTAGTG-T
*
21201441 TTTAGAG-TTTAGGGT
1 TTTAG-GTTTTAGTGT
* *
21201456 TTTTGGTTTTAG-GG
1 TTTAGGTTTTAGTGT
21201470 TTTAGGTTTTAGTGT
1 TTTAGGTTTTAGTGT
21201485 TTTATGGTTT
1 TTTA-GGTTT
21201495 AAGGTCTAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 13 0.30
15 24 0.55
16 7 0.16
ACGTcount: A:0.13, C:0.01, G:0.29, T:0.57
Consensus pattern (15 bp):
TTTAGGTTTTAGTGT
Found at i:21201493 original size:22 final size:21
Alignment explanation
Indices: 21201424--21201495 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
21201414 ATGGGTTTGG
*
21201424 GGTTTAGGGTTTA-TGCTTTTA
1 GGTTTAGGTTTTAGTG-TTTTA
*
21201445 GAGTTTAGGGTTTTTG-GTTTTA
1 G-GTTTA-GGTTTTAGTGTTTTA
21201467 GGGTTTAGGTTTTAGTGTTTTA
1 -GGTTTAGGTTTTAGTGTTTTA
21201489 TGGTTTA
1 -GGTTTA
21201496 AGGTCTAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 8 0.19
22 27 0.64
23 7 0.17
ACGTcount: A:0.14, C:0.01, G:0.31, T:0.54
Consensus pattern (21 bp):
GGTTTAGGTTTTAGTGTTTTA
Found at i:21202037 original size:23 final size:25
Alignment explanation
Indices: 21202011--21202057 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21202001 TATCATTCAT
*
21202011 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
21202034 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
21202058 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:21202424 original size:46 final size:46
Alignment explanation
Indices: 21202318--21202490 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
21202308 TTTGACGTGA
* * * *
21202318 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TG-CATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
21202363 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * * * *
21202409 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * *
21202455 TGCCATGG--T-TATCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCAT
21202491 ATCAGAGAGC
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
43 25 0.22
44 6 0.05
45 30 0.27
46 52 0.46
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:21202856 original size:16 final size:16
Alignment explanation
Indices: 21202835--21202867 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21202825 TCTTCTCCTT
21202835 TTATCAAATTTATCAA
1 TTATCAAATTTATCAA
21202851 TTATCAAATTTATCAA
1 TTATCAAATTTATCAA
21202867 T
1 T
21202868 GTTTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATCAAATTTATCAA
Found at i:21202860 original size:8 final size:9
Alignment explanation
Indices: 21202834--21202866 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
21202824 TTCTTCTCCT
21202834 TTTATCAAA
1 TTTATCAAA
21202843 TTTATC-AA
1 TTTATCAAA
21202851 -TTATCAAA
1 TTTATCAAA
21202859 TTTATCAA
1 TTTATCAA
21202867 TGTTTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.23
8 4 0.18
9 13 0.59
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (9 bp):
TTTATCAAA
Found at i:21207505 original size:4 final size:4
Alignment explanation
Indices: 21207496--21207523 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21207486 ACTCTTATAT
21207496 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
21207524 AGCGAGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:21212444 original size:16 final size:17
Alignment explanation
Indices: 21212423--21212455 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
21212413 ATTCGTGATT
21212423 TTATTTTTT-AATAATA
1 TTATTTTTTAAATAATA
21212439 TTATTTTTTAAATAATA
1 TTATTTTTTAAATAATA
21212456 AAGTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTTTTAAATAATA
Found at i:21224580 original size:49 final size:48
Alignment explanation
Indices: 21224468--21224580 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
21224458 TTAGTTTACG
* * * *
21224468 GTGGTTATACGATCACGGGTTGAAGTATAACTAGGGCTTCTAGTTGACA
1 GTGGTTATATGATCACGAGTTGAAGCATAACTAGGGC-TCTAGTTGAAA
* *
21224517 --GGTTATATGGTCACGAGTTGGAGCATAACTCAGGAGC-CTAGTTGAAA
1 GTGGTTATATGATCACGAGTTGAAGCATAACT-AGG-GCTCTAGTTGAAA
21224564 GTGGTTATATGATCACG
1 GTGGTTATATGATCACG
21224581 GATTTAAGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 34 0.64
48 3 0.06
49 16 0.30
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGGTTATATGATCACGAGTTGAAGCATAACTAGGGCTCTAGTTGAAA
Found at i:21229904 original size:19 final size:20
Alignment explanation
Indices: 21229823--21229907 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
21229813 TTATAAATTT
*
21229823 TTTTTAAAAATAAGGTTTTGAAA
1 TTTTTAAAAATTA--TTTTG-AA
*
21229846 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
21229865 -ATTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
21229884 TTTTTAAAAATTATTTT-AA
1 TTTTTAAAAATTATTTTGAA
21229903 TTTTT
1 TTTTT
21229908 TTGTAATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.13
19 18 0.33
20 20 0.36
22 1 0.02
23 9 0.16
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:21230528 original size:31 final size:31
Alignment explanation
Indices: 21230493--21230551 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21230483 AAATATATAA
*
21230493 TTGAATCAAAA-CTAAAGTTTCATGTATACGT
1 TTGAACCAAAATC-AAAGTTTCATGTATACGT
*
21230524 TTGAACCACAATCAAAGTTTCATGTATA
1 TTGAACCAAAATCAAAGTTTCATGTATA
21230552 AAATTGCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (31 bp):
TTGAACCAAAATCAAAGTTTCATGTATACGT
Found at i:21230569 original size:30 final size:31
Alignment explanation
Indices: 21230506--21230580 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
21230496 AATCAAAACT
***
21230506 AAAGTTTCATGTATACGTTTGAACCACAATC
1 AAAGTTTCATGTATAAAATTGAACCACAATC
* *
21230537 AAAGTTTCATGTATAAAATTGCACTA-AATC
1 AAAGTTTCATGTATAAAATTGAACCACAATC
*
21230567 AAAG-TTCATATATA
1 AAAGTTTCATGTATA
21230581 TATCAAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 9 0.24
30 8 0.21
31 21 0.55
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (31 bp):
AAAGTTTCATGTATAAAATTGAACCACAATC
Found at i:21231342 original size:12 final size:12
Alignment explanation
Indices: 21231325--21231356 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21231315 TGACCTGTCC
21231325 ATATTAATTTTT
1 ATATTAATTTTT
21231337 ATATT-ATTTTT
1 ATATTAATTTTT
21231348 ATA-TAATTT
1 ATATTAATTT
21231357 AAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:21231513 original size:30 final size:30
Alignment explanation
Indices: 21231479--21231540 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
21231469 TAACTTAACA
*
21231479 AACAAATGCCTCTAAAATAATAACAAATTT
1 AACAAATGCCTCTAAAATAATAACAAAATT
* * *
21231509 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
21231539 AA
1 AA
21231541 TAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:21231543 original size:12 final size:12
Alignment explanation
Indices: 21231521--21231549 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21231511 CAAATGTCTT
21231521 TAAAA-TAATAA
1 TAAAATTAATAA
21231532 TAAAATTAATAA
1 TAAAATTAATAA
21231544 TAAAAT
1 TAAAAT
21231550 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:21232205 original size:30 final size:29
Alignment explanation
Indices: 21232169--21232228 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
21232159 TAATTTAACA
*
21232169 AGCAAATGCCTCTAAAATAAAAACAAAATT
1 AGCAAATACCTCTAAAATAAAAA-AAAATT
* * *
21232199 AGCAAATATCTTTAAAATAATAAAAAATT
1 AGCAAATACCTCTAAAATAAAAAAAAATT
21232228 A
1 A
21232229 ACAATAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (29 bp):
AGCAAATACCTCTAAAATAAAAAAAAATT
Found at i:21232284 original size:11 final size:11
Alignment explanation
Indices: 21232270--21232297 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21232260 CAATAACAAC
21232270 AAAATAGGGAG
1 AAAATAGGGAG
21232281 AAAATAGGGAG
1 AAAATAGGGAG
21232292 AAAATA
1 AAAATA
21232298 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:21233737 original size:20 final size:20
Alignment explanation
Indices: 21233704--21233742 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21233694 TCTATTCTTC
*
21233704 TCTTTTATTCTTATTATAAT
1 TCTTTTATTCTTATAATAAT
21233724 TCTTTTAGTT-TTATAATAA
1 TCTTTTA-TTCTTATAATAA
21233743 ATACAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
TCTTTTATTCTTATAATAAT
Found at i:21240122 original size:24 final size:24
Alignment explanation
Indices: 21240094--21240179 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
21240084 AGTCAATAAT
21240094 TTAAATTATATAAAATTTTATTTA
1 TTAAATTATATAAAATTTTATTTA
** *
21240118 TTAAATTATATTACCATTTTCCCTTTAA
1 TTAAATTATA-TAAAATTTT--ATTT-A
* *
21240146 TTTAAATTAAAT-AATTTTTATTTA
1 -TTAAATTATATAAAATTTTATTTA
21240170 TTAAATTATA
1 TTAAATTATA
21240180 CACTATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
23 9 0.19
24 11 0.23
25 10 0.21
27 7 0.15
28 2 0.04
29 9 0.19
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAATTATATAAAATTTTATTTA
Found at i:21240419 original size:13 final size:14
Alignment explanation
Indices: 21240401--21240434 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21240391 ACTTTTAAAT
21240401 CTTGAAC-TCGAAC
1 CTTGAACATCGAAC
21240414 CTTGAACATCGAAC
1 CTTGAACATCGAAC
*
21240428 CTAGAAC
1 CTTGAAC
21240435 CCCAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (14 bp):
CTTGAACATCGAAC
Found at i:21243924 original size:12 final size:12
Alignment explanation
Indices: 21243909--21243938 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
21243899 TTCTCTTTTA
21243909 TTTTTCTTTC-C
1 TTTTTCTTTCTC
21243920 TTTTTCTTTCTC
1 TTTTTCTTTCTC
21243932 TTTTTCT
1 TTTTTCT
21243939 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:21244039 original size:16 final size:16
Alignment explanation
Indices: 21244018--21244048 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21244008 TTTATTATTT
21244018 TATTAACATAATATAA
1 TATTAACATAATATAA
*
21244034 TATTAATATAATATA
1 TATTAACATAATATA
21244049 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:21250833 original size:30 final size:29
Alignment explanation
Indices: 21250764--21250821 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
21250754 TTTTAATAAC
21250764 AATATTTTTTAGTAAAGATAGAAATAAGT
1 AATATTTTTTAGTAAAGATAGAAATAAGT
21250793 AATATTTTTTAGTAAAGATAGAAATAAGT
1 AATATTTTTTAGTAAAGATAGAAATAAGT
21250822 TTACTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (29 bp):
AATATTTTTTAGTAAAGATAGAAATAAGT
Found at i:21251654 original size:17 final size:17
Alignment explanation
Indices: 21251603--21251657 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
21251593 ATTGATTAAA
21251603 ATTTAAAAAATATTTATATT
1 ATTT-AAAAAT-TTTATA-T
*
21251623 ATTT-TAAA-TTT-TAT
1 ATTTAAAAATTTTATAT
21251637 ATTTAAAAATTTTATAT
1 ATTTAAAAATTTTATAT
21251654 ATTT
1 ATTT
21251658 TTCTTGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 6 0.20
17 7 0.23
18 3 0.10
20 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAAAAATTTTATAT
Found at i:21260609 original size:15 final size:16
Alignment explanation
Indices: 21260589--21260618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21260579 CATCATACAA
21260589 TTATTC-TCTTCTTTC
1 TTATTCTTCTTCTTTC
21260604 TTATTCTTCTTCTTT
1 TTATTCTTCTTCTTT
21260619 GCAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTCTTCTTCTTTC
Found at i:21261345 original size:37 final size:37
Alignment explanation
Indices: 21261304--21261376 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
21261294 ACTGGTACAG
21261304 CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
1 CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
21261341 CTAGTACCAATTGAAAATTCACATCATAACAAAACA
1 CTAGTACCAATTGAAAATTCACATCATAACAAAACA
21261377 GAAATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (37 bp):
CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
Found at i:21266704 original size:45 final size:45
Alignment explanation
Indices: 21266640--21266731 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
21266630 AAGGTGCGGA
* *
21266640 CTCAGCTAACAATATTCGTCAGTACATAACACTTAATTTACCACC
1 CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
*
21266685 CTCAGCTAACAATATTCGTCCCTACATAACAATTAATTTACCACC
1 CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
21266730 CT
1 CT
21266732 ATGTAAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.29
Consensus pattern (45 bp):
CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
Found at i:21272634 original size:18 final size:17
Alignment explanation
Indices: 21272587--21272638 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
21272577 ATAAAAATTG
*
21272587 ATTATATTAAAATTAAA
1 ATTAAATTAAAATTAAA
21272604 ATTAAAATTAAAATTAAA
1 ATT-AAATTAAAATTAAA
*
21272622 ATGT-AATTAAAAATAAA
1 AT-TAAATTAAAATTAAA
21272639 TATATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.48
18 15 0.48
19 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTAAATTAAAATTAAA
Found at i:21272638 original size:6 final size:6
Alignment explanation
Indices: 21272592--21272623 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
21272582 AATTGATTAT
21272592 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA AT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA AT
21272624 GTAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATTAAA
Found at i:21273811 original size:59 final size:60
Alignment explanation
Indices: 21273730--21273843 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 60
21273720 ACTTTTCTCA
*
21273730 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
21273790 ACTAGCCACTC-TTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
21273844 CTTGTACCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
59 42 0.79
60 11 0.21
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (60 bp):
ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:21273813 original size:29 final size:30
Alignment explanation
Indices: 21273730--21273843 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
21273720 ACTTTTCTCA
* *
21273730 ACTAGCCACTCATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
21273760 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
21273790 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
21273819 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
21273844 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 28 0.36
30 50 0.64
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:21274430 original size:25 final size:25
Alignment explanation
Indices: 21274402--21274559 Score: 90
Period size: 25 Copynumber: 6.1 Consensus size: 25
21274392 ATATTACGTA
*
21274402 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
21274427 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
* *
21274452 TATATATATTTT-TTCTACATGTTATCT
1 TATATATATTTTATACT--ATATTAT-T
* *
21274479 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATT
* * *
21274505 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATT
* *
21274530 TACATAT-TTTTAATATTATCATGTATT
1 TATATATATTTT-ATACTAT-AT-TATT
21274557 TAT
1 TAT
21274560 TTTTTATATA
Statistics
Matches: 102, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.03
24 7 0.07
25 57 0.56
26 10 0.10
27 14 0.14
29 11 0.11
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:21274430 original size:27 final size:27
Alignment explanation
Indices: 21274391--21274528 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 27
21274381 TTTTAAATTT
**
21274391 TATATTACGTATATATATATTTTATAC
1 TATATTATTTATATATATATTTTATAC
* * * *
21274418 TATTTTA-TT-TATATATCTTTAATAT
1 TATATTATTTATATATATATTTTATAC
* *
21274443 TATATTATTTATATATATTTTTTCTAC
1 TATATTATTTATATATATATTTTATAC
* * *
21274470 -ATGTTATCTTATGTATATATCTTA-AC
1 TATATTAT-TTATATATATATTTTATAC
* * * *
21274496 TATATTATGTATGTAT-T-TTTAACAC
1 TATATTATTTATATATATATTTTATAC
21274521 TATATTAT
1 TATATTAT
21274529 GTACATATTT
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
24 3 0.03
25 30 0.34
26 18 0.21
27 36 0.41
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (27 bp):
TATATTATTTATATATATATTTTATAC
Found at i:21274560 original size:23 final size:24
Alignment explanation
Indices: 21274480--21274570 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
21274470 ATGTTATCTT
*
21274480 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
21274502 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
21274527 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
21274550 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
21274571 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:21274717 original size:16 final size:15
Alignment explanation
Indices: 21274693--21274740 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
21274683 TAATTATTAT
*
21274693 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
21274709 TATTTTAATATTTTA
1 TATTTTAATATTTTA
21274724 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
21274740 T
1 T
21274741 TATTCCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:21274728 original size:7 final size:8
Alignment explanation
Indices: 21274693--21274744 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
21274683 TAATTATTAT
*
21274693 TATTCTAA
1 TATTTTAA
*
21274701 TATTTTGA
1 TATTTTAA
21274709 TATTTTAA
1 TATTTTAA
21274717 TATTTT-A
1 TATTTTAA
21274724 TATTTTATA
1 TATTTTA-A
*
21274733 TATTTTAT
1 TATTTTAA
21274741 TATT
1 TATT
21274745 CCCATTATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:21283306 original size:75 final size:74
Alignment explanation
Indices: 21283183--21283598 Score: 559
Period size: 75 Copynumber: 5.5 Consensus size: 74
21283173 TTTATTTTTC
* **
21283183 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
21283248 GTTGTTAAAA
66 GTT-TTAAAA
21283258 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
21283323 GTTGTTAAAA
66 GTT-TTAAAA
21283333 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
21283398 GTTTT--CA
66 GTTTTAAAA
* * * * * *
21283405 AAATTCAACTTATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
21283470 GTTTTCAAAAA
66 GTTTT--AAAA
* ** * *
21283481 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
21283545 TCTGTTTTTAGAAAA
63 TCTG-TTTT--AAAA
** *
21283560 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
21283599 ATTACACACT
Statistics
Matches: 310, Mismatches: 22, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
72 65 0.21
74 2 0.01
75 141 0.45
76 34 0.11
78 24 0.08
79 43 0.14
80 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:21283868 original size:72 final size:73
Alignment explanation
Indices: 21283751--21283892 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
21283741 TCAAAATCAG
* * *
21283751 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTTTGTTGTTTT
21283815 AATTTCAA
66 AATTTCAA
** *
21283823 CTCATATTGGGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTTTGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTTTGTTGTTTT
21283888 AATTT
66 AATTT
21283893 ATGTTTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 53 0.84
73 10 0.16
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTTTGTTGTTTT
AATTTCAA
Found at i:21284148 original size:148 final size:148
Alignment explanation
Indices: 21283884--21284239 Score: 479
Period size: 148 Copynumber: 2.4 Consensus size: 148
21283874 ATTTTTGTTT
* * * * *
21283884 TTTTAATTTATGTTTCA-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-T--C-AAGA
1 TTTTAATTTATG-TTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA
*
21283944 CGATGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 CGATGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
**
21284009 TCAGGACACGCTGAGGTGG
130 TCAGGACACGCTGAGGTAA
* *
21284028 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACAC
1 TTTTAATTTATGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACAC
* * * * *
21284093 GCTGAGGTATTTTTAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT
66 GATGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
21284158 CGGGACACGCTGAGGTAA
131 CAGGACACGCTGAGGTAA
* * ** *
21284176 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTAATTTATGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA
21284240 TTGCTAGAGG
Statistics
Matches: 184, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
143 4 0.02
144 44 0.24
145 1 0.01
147 1 0.01
148 134 0.73
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (148 bp):
TTTTAATTTATGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACAC
GATGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCTGAGGTAA
Found at i:21284232 original size:73 final size:73
Alignment explanation
Indices: 21283902--21284233 Score: 434
Period size: 73 Copynumber: 4.5 Consensus size: 73
21283892 TATGTTTCAA
* * * * *
21283902 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC--AAGACGATGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
21283965 TGTTTGTC
66 TGTTTGTC
* ** * *
21283973 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
**
21284038 TGTTCATC
66 TGTTTGTC
* * * * * * *
21284046 AAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTCAATT
*
21284111 TCTGTTTTTC
64 TCTGTTTGTC
*
21284121 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
21284186 TGTTTGTC
66 TGTTTGTC
*
21284194 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
21284234 CTCACATTGC
Statistics
Matches: 225, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
71 37 0.16
73 126 0.56
75 62 0.28
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:21284249 original size:31 final size:31
Alignment explanation
Indices: 21284203--21284262 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
21284193 CAAAAATTAA
*
21284203 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCGG
*
21284234 CTCACATTGCTAGAGGTGAGTTGAGCCTC
1 CTCACATTGCGAGAGGTGAGTTGAGCCTC
21284263 AGGACACGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (31 bp):
CTCACATTGCGAGAGGTGAGTTGAGCCTCGG
Found at i:21284378 original size:75 final size:74
Alignment explanation
Indices: 21284245--21284410 Score: 253
Period size: 75 Copynumber: 2.2 Consensus size: 74
21284235 TCACATTGCT
*
21284245 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAATCAAC
1 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTCTGTTGTT-AAAAAAATCAAC
21284310 TCATACTGCG
65 TCATACTGCG
* **
21284320 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTT-TTTCAAAAATCAAC
1 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTAAATTTCTGTTGTTAAAAAAATCAAC
*
21284384 TCATATTGCG
65 TCATACTGCG
*
21284394 AGATGTGAGTTGAGCCT
1 AGAGGTGAGTTGAGCCT
21284411 TGGGTTCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
74 35 0.42
75 36 0.43
76 13 0.15
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (74 bp):
AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTCTGTTGTTAAAAAAATCAACT
CATACTGCG
Found at i:21285117 original size:30 final size:30
Alignment explanation
Indices: 21285081--21285255 Score: 296
Period size: 30 Copynumber: 5.8 Consensus size: 30
21285071 ACTTTTCTCA
*
21285081 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
21285111 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
21285141 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
21285171 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
21285201 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
21285231 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
21285256 CTTGTACCTA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:21285146 original size:60 final size:60
Alignment explanation
Indices: 21285081--21285255 Score: 332
Period size: 60 Copynumber: 2.9 Consensus size: 60
21285071 ACTTTTCTCA
*
21285081 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
21285141 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
21285201 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
21285256 CTTGTACCTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 113 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:21285775 original size:23 final size:23
Alignment explanation
Indices: 21285738--21285867 Score: 81
Period size: 23 Copynumber: 5.5 Consensus size: 23
21285728 CTTTTTTTGT
21285738 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
21285761 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
21285783 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
* *
21285806 TATTACGTATATATATATTATACTATTT
1 TATTA--TATATAT-TCTTA-A-TATTA
21285834 TATT-TATATA-TCTTTAATATTA
1 TATTATATATATTC-TTAATATTA
*
21285856 TATTATTTATAT
1 TATTATATATAT
21285868 ATATATTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
21 2 0.02
22 23 0.28
23 26 0.32
24 7 0.09
25 11 0.14
26 2 0.02
27 3 0.04
28 7 0.09
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:21285843 original size:27 final size:26
Alignment explanation
Indices: 21285804--21285874 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
21285794 TTTTAAATTT
**
21285804 TATATTACGTATATATATATT-ATAC
1 TATATTATTTATATATATATTAATAC
* * *
21285829 TATTTTATTTATATATCT-TTAATAT
1 TATATTATTTATATATATATTAATAC
21285854 TATATTATTTATATATATATT
1 TATATTATTTATATATATATT
21285875 TTTTCTACAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATTATTTATATATATATTAATAC
Found at i:21285856 original size:16 final size:14
Alignment explanation
Indices: 21285758--21285876 Score: 66
Period size: 14 Copynumber: 8.1 Consensus size: 14
21285748 TTTCTTAATA
*
21285758 TTATATTATATATA
1 TTATATTATATATT
* *
21285772 TTCTTTTAATATATT
1 TTATATT-ATATATT
* * *
21285787 AGGTATATTTTAAATT
1 --TTATATTATATATT
21285803 TTATATTACGTATA-T
1 TTATATTA--TATATT
*
21285818 ATATATTATACTATT
1 TTATATTATA-TATT
21285833 TTAT-TTATATATCT
1 TTATATTATATAT-T
21285847 TTAATATTATAT-TAT
1 TT-ATATTATATAT-T
21285862 TTATA-TATATATT
1 TTATATTATATATT
21285875 TT
1 TT
21285877 TTCTACATGT
Statistics
Matches: 80, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
13 13 0.16
14 25 0.31
15 24 0.30
16 14 0.17
17 4 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
TTATATTATATATT
Found at i:21285939 original size:25 final size:25
Alignment explanation
Indices: 21285891--21285976 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
21285881 ACATGTTATC
*
21285891 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
21285913 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
21285938 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
21285961 TCATGTATTTATTTTT
1 TTATGTATATATTTTT
21285977 TATATATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.19
23 18 0.34
24 2 0.04
25 23 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:21285973 original size:23 final size:24
Alignment explanation
Indices: 21285893--21285983 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
21285883 ATGTTATCTT
*
21285893 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
21285915 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
21285940 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
21285963 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
21285984 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:21286121 original size:8 final size:8
Alignment explanation
Indices: 21286105--21286142 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
21286095 TAATTATTAT
*
21286105 TATTCTAA
1 TATTTTAA
21286113 TATTTTAA
1 TATTTTAA
21286121 TATTTTAA
1 TATTTTAA
21286129 TATTTT-A
1 TATTTTAA
21286136 TATTTTA
1 TATTTTA
21286143 TTTTATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:21286129 original size:16 final size:15
Alignment explanation
Indices: 21286105--21286161 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
21286095 TAATTATTAT
*
21286105 TATTCTAATATTTTAA
1 TATTTTAATATTTT-A
21286121 TATTTTAATATTTTA
1 TATTTTAATATTTTA
21286136 TATTTT-AT-TTTATA
1 TATTTTAATATTT-TA
*
21286150 TATTTTATTATT
1 TATTTTAATATT
21286162 CCCATCATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
13 3 0.08
14 10 0.28
15 8 0.22
16 15 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:21286140 original size:7 final size:7
Alignment explanation
Indices: 21286112--21286157 Score: 58
Period size: 8 Copynumber: 6.3 Consensus size: 7
21286102 TATTATTCTA
21286112 ATATTTT
1 ATATTTT
21286119 AATATTTT
1 -ATATTTT
21286127 AATATTTT
1 -ATATTTT
21286135 ATATTTT
1 ATATTTT
21286142 AT-TTTAT
1 ATATTT-T
21286149 ATATTTT
1 ATATTTT
21286156 AT
1 AT
21286158 TATTCCCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 3 0.08
7 15 0.42
8 18 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATATTTT
Found at i:21286153 original size:14 final size:14
Alignment explanation
Indices: 21286113--21286158 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
21286103 ATTATTCTAA
21286113 TATTTTA-ATATTT
1 TATTTTATATATTT
21286126 TAATATTT-TATATTT
1 T-AT-TTTATATATTT
21286141 TATTTTATATATTT
1 TATTTTATATATTT
21286155 TATT
1 TATT
21286159 ATTCCCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTATATATTT
Found at i:21287143 original size:13 final size:14
Alignment explanation
Indices: 21287127--21287162 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
21287117 CAATCTCATA
21287127 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
21287140 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
21287153 TCTC-ATTTCA
1 TCTCAATTTCA
21287163 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:21287152 original size:18 final size:19
Alignment explanation
Indices: 21287114--21287154 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
21287104 TGGTTCATGT
21287114 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
21287133 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
21287151 TTTC
1 TTTC
21287155 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:21287277 original size:23 final size:23
Alignment explanation
Indices: 21287247--21287295 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
21287237 TCTGATAGAT
21287247 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
21287270 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
21287293 ACC
1 ACC
21287296 CGGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.41, G:0.04, T:0.08
Consensus pattern (23 bp):
ACCAGAATATCCAACCCAAACAC
Found at i:21287681 original size:15 final size:15
Alignment explanation
Indices: 21287661--21287707 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
21287651 TATTATATAT
21287661 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
21287676 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
21287691 TTCAATCAATATAAA
1 TTCAATCAATATAAA
21287706 TT
1 TT
21287708 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:21288039 original size:31 final size:32
Alignment explanation
Indices: 21287981--21288044 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
21287971 CATACATTTG
*
21287981 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
21288013 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
21288044 T
1 T
21288045 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:21288576 original size:13 final size:14
Alignment explanation
Indices: 21288558--21288586 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21288548 GATTAACTTC
21288558 ATAAATATTTT-TA
1 ATAAATATTTTCTA
21288571 ATAAATATTTTCTA
1 ATAAATATTTTCTA
21288585 AT
1 AT
21288587 CCAGTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:21298985 original size:16 final size:16
Alignment explanation
Indices: 21298954--21298983 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21298944 TATGATTACC
21298954 TTTTATTTAATTTTTA
1 TTTTATTTAATTTTTA
21298970 TTTT-TTTAATTTTT
1 TTTTATTTAATTTTT
21298984 TAATTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTAATTTTTA
Found at i:21305372 original size:53 final size:53
Alignment explanation
Indices: 21305306--21305425 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
21305296 ATAAGTGCGC
* *
21305306 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
21305359 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
*
21305412 CCGTATGAGACCAT
1 CCGTATAAGACCAT
21305426 GTCGGGGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:21305438 original size:53 final size:53
Alignment explanation
Indices: 21305306--21305456 Score: 178
Period size: 53 Copynumber: 2.8 Consensus size: 53
21305296 ATAAGTGCGC
* * * **
21305306 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCGGGGATATGGCATCGGTATAATGTGATAATGTGACT
* * *
21305359 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCGGGGATATGGCATCGGTATAATGTGATAATGTGACT
* *
21305412 CCGTATGAGACCAT-GTCGGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CGGGGATATGGCATCGGTAT-A-ATGTGA
21305457 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCGGGGATATGGCATCGGTATAATGTGATAATGTGACT
Found at i:21311459 original size:41 final size:40
Alignment explanation
Indices: 21311358--21311462 Score: 108
Period size: 37 Copynumber: 2.7 Consensus size: 40
21311348 AGTTCAAAGC
*
21311358 AATAGTTGACACCCAGTGTCTCATCG-GCCAAGCCGAAGT
1 AATAGTTGACACCCAGTGTCTCATCGAACCAAGCCGAAGT
** ** * * *
21311397 -A-AGTTGGTACCCAGTACCTCATCGAATCTATCCGAAGT
1 AATAGTTGACACCCAGTGTCTCATCGAACCAAGCCGAAGT
21311435 AATAGTATGACACCCAGTGTCTCATCGA
1 AATAGT-TGACACCCAGTGTCTCATCGA
21311463 CTCAAGGTCG
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
37 19 0.38
38 10 0.20
39 1 0.02
40 3 0.06
41 17 0.34
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATAGTTGACACCCAGTGTCTCATCGAACCAAGCCGAAGT
Found at i:21312889 original size:40 final size:40
Alignment explanation
Indices: 21312827--21312921 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
21312817 CTTTTCTTTC
* *
21312827 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
21312868 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
21312908 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
21312922 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:21312947 original size:3 final size:3
Alignment explanation
Indices: 21312939--21312994 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
21312929 TCATATATAT
*
21312939 ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21312981 ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA
21312995 TAAAAACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
2 14 0.32
3 30 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:21312950 original size:8 final size:8
Alignment explanation
Indices: 21312937--21312997 Score: 67
Period size: 8 Copynumber: 7.8 Consensus size: 8
21312927 TGTCATATAT
21312937 ATATAATA
1 ATATAATA
21312945 ATATAATA
1 ATATAATA
21312953 ATATAAT-
1 ATATAATA
21312960 ATA-ATATA
1 ATATA-ATA
21312968 ATATAAT-
1 ATATAATA
21312975 ATATTAATA
1 ATA-TAATA
21312984 ATA-ATATA
1 ATATA-ATA
21312992 ATATAA
1 ATATAA
21312998 AAACATAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
6 1 0.02
7 9 0.20
8 31 0.67
9 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:21312952 original size:5 final size:5
Alignment explanation
Indices: 21312931--21312997 Score: 77
Period size: 5 Copynumber: 13.2 Consensus size: 5
21312921 TTTCTTTGTC
21312931 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATATA ATAT-
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
21312977 AT-TA ATAATA ATATA ATATA A
1 ATATA AT-ATA ATATA ATATA A
21312998 AAACATAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
3 1 0.02
4 5 0.09
5 36 0.65
6 12 0.22
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:21315251 original size:24 final size:25
Alignment explanation
Indices: 21315215--21315261 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21315205 AGAGTACCAT
* *
21315215 TTTTTTTTATAATTTATAATATATA
1 TTTTTATTATAATTAATAATATATA
21315240 TTTTTATT-TAATTAATAATATA
1 TTTTTATTATAATTAATAATATA
21315262 AATCTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTATTATAATTAATAATATATA
Found at i:21315269 original size:24 final size:24
Alignment explanation
Indices: 21315224--21315269 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21315214 TTTTTTTTTA
* * *
21315224 TAATTTATAATATATATTTTTATT
1 TAATTAATAATATAAATCTTTATT
21315248 TAATTAATAATATAAATCTTTA
1 TAATTAATAATATAAATCTTTA
21315270 CTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTAATAATATAAATCTTTATT
Found at i:21315298 original size:16 final size:17
Alignment explanation
Indices: 21315266--21315298 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21315256 AATATAAATC
21315266 TTTACTGTTTATTTATT
1 TTTACTGTTTATTTATT
*
21315283 TTTACT-TTTTTTTATT
1 TTTACTGTTTATTTATT
21315299 AATGAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTACTGTTTATTTATT
Found at i:21315570 original size:28 final size:28
Alignment explanation
Indices: 21315513--21315572 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
21315503 CTATGAGAAT
*
21315513 AAATTATCAAAA-AAG-CTAATTTTTTAA
1 AAATTATAAAAATAAGTC-AATTTTTTAA
21315540 AAATTATAAAAATAAGTCAATTTTTTTAA
1 AAATTATAAAAATAAGTCAA-TTTTTTAA
21315569 AAAT
1 AAAT
21315573 ATACAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 11 0.38
28 5 0.17
29 13 0.45
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (28 bp):
AAATTATAAAAATAAGTCAATTTTTTAA
Found at i:21322765 original size:13 final size:13
Alignment explanation
Indices: 21322747--21322774 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21322737 GAAGATTATG
21322747 AGCTTAATGGTTA
1 AGCTTAATGGTTA
21322760 AGCTTAATGGTTA
1 AGCTTAATGGTTA
21322773 AG
1 AG
21322775 ACAACCGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (13 bp):
AGCTTAATGGTTA
Found at i:21340207 original size:19 final size:19
Alignment explanation
Indices: 21340183--21340221 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21340173 TCATATTTAG
21340183 CCCAAACTTCAATTAAACA
1 CCCAAACTTCAATTAAACA
21340202 CCCAAACTTCAATTAAACA
1 CCCAAACTTCAATTAAACA
21340221 C
1 C
21340222 GGACCTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (19 bp):
CCCAAACTTCAATTAAACA
Found at i:21351075 original size:23 final size:23
Alignment explanation
Indices: 21351031--21351076 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21351021 TACCCAAATT
* *
21351031 TAATTTTAGAAATTATTTTTATA
1 TAATTTTAAAAATTATTATTATA
21351054 TAATTTATAAAAATTA-TATTATA
1 TAATTT-TAAAAATTATTATTATA
21351077 ATCATGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATTTTAAAAATTATTATTATA
Found at i:21351177 original size:44 final size:45
Alignment explanation
Indices: 21351107--21351199 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
21351097 TTTGAGATGG
*
21351107 TTATAACAAAAAATTTCTTATATTAT-AAG-TACTAAAAAATTATA
1 TTATAACAAAAAATTTCTTATATTATAAAGTTA-TAAAAAAGTATA
* * *
21351151 TTATAA-AAATAATTTGTGTATTTTATAAAGTTATAAAAAAGTATA
1 TTATAACAAAAAATTTCT-TATATTATAAAGTTATAAAAAAGTATA
21351196 TTAT
1 TTAT
21351200 TTAAATCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 9 0.21
44 13 0.31
45 18 0.43
46 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (45 bp):
TTATAACAAAAAATTTCTTATATTATAAAGTTATAAAAAAGTATA
Found at i:21351826 original size:20 final size:20
Alignment explanation
Indices: 21351788--21351826 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21351778 TTTGGTTGAG
* *
21351788 AAGATATTTATTATTTTAAA
1 AAGATATTTATCATATTAAA
*
21351808 AAGATATTTCTCATATTAA
1 AAGATATTTATCATATTAA
21351827 CATCACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
AAGATATTTATCATATTAAA
Found at i:21356528 original size:43 final size:45
Alignment explanation
Indices: 21356481--21356571 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 45
21356471 TACTAAAGAC
*
21356481 TAAAAAAA-ATAACAT-TTTTAATTTATTTT-AAAT-TATATGAACT
1 TAAAAAAATATAA-ATATTTT-ATTTATTTTCAAATATAGATGAACT
* *
21356524 TAAAAAAATTTAAATATTTTATTTATTTTCAAATATAGATGAATT
1 TAAAAAAATATAAATATTTTATTTATTTTCAAATATAGATGAACT
21356569 TAA
1 TAA
21356572 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 19 0.46
44 11 0.27
45 11 0.27
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (45 bp):
TAAAAAAATATAAATATTTTATTTATTTTCAAATATAGATGAACT
Found at i:21356566 original size:45 final size:45
Alignment explanation
Indices: 21356496--21356583 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
21356486 AAAATAACAT
*
21356496 TTTTAATTTATTTTAAATTATATGAACTTAA-AAAAATTTAAATA
1 TTTTAATTTATTTTAAATTAGATGAACTTAATAAAAATTTAAATA
* *
21356540 TTTT-ATTTATTTTCAAATATAGATGAATTTAATTAAAATTTAAA
1 TTTTAATTTATTTT-AAAT-TAGATGAACTTAATAAAAATTTAAA
21356584 ATAACTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 9 0.24
44 8 0.21
45 11 0.29
46 10 0.26
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (45 bp):
TTTTAATTTATTTTAAATTAGATGAACTTAATAAAAATTTAAATA
Found at i:21360138 original size:47 final size:46
Alignment explanation
Indices: 21360087--21360219 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 46
21360077 GAATTATGAG
21360087 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-CTATGGATGCAA
* * *
21360134 GCATCTGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCAA
* * * * * *
21360180 ACACCCGAGCTTGTTAAGTTGCGTTCCGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGG
21360220 GTGAGATTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
46 44 0.58
47 32 0.42
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCAA
Found at i:21365426 original size:33 final size:33
Alignment explanation
Indices: 21365389--21365457 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
21365379 AAACCAGTCT
*
21365389 AAAATAGCCCTTAATTTCTTAATTTTTCAAGAA
1 AAAATAGCCCTTAATTTCTTAAATTTTCAAGAA
*
21365422 AAAATAGCCTTTAATTTCTTAAATTTTCAAGAA
1 AAAATAGCCCTTAATTTCTTAAATTTTCAAGAA
21365455 AAA
1 AAA
21365458 CCATGTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (33 bp):
AAAATAGCCCTTAATTTCTTAAATTTTCAAGAA
Found at i:21368142 original size:18 final size:20
Alignment explanation
Indices: 21368097--21368142 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
21368087 TATTATTACT
*
21368097 CTTAATATTATTAACTTTAAG
1 CTTAA-ATTATGAACTTTAAG
21368118 CTT-AATTATGAA-TTT-AG
1 CTTAAATTATGAACTTTAAG
21368135 CTTAAATT
1 CTTAAATT
21368143 CGAGCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 7 0.30
20 1 0.04
21 3 0.13
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (20 bp):
CTTAAATTATGAACTTTAAG
Found at i:21371181 original size:18 final size:19
Alignment explanation
Indices: 21371158--21371195 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21371148 ATAACTCAAT
*
21371158 TAAAAA-TAATTTTAAATA
1 TAAAAACTAATTTAAAATA
21371176 TAAAAACTAATTTAAAATA
1 TAAAAACTAATTTAAAATA
21371195 T
1 T
21371196 GAATATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAACTAATTTAAAATA
Found at i:21378005 original size:11 final size:11
Alignment explanation
Indices: 21377986--21378033 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
21377976 ATTTGATAAA
21377986 TAATATTTTAT
1 TAATATTTTAT
*
21377997 TATTATTTTAAT
1 TAATATTTT-AT
* *
21378009 GAGATATTTTAC
1 TA-ATATTTTAT
21378021 TAATATTTTAT
1 TAATATTTTAT
21378032 TA
1 TA
21378034 TAAATAGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 18 0.62
12 5 0.17
13 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:21380976 original size:16 final size:16
Alignment explanation
Indices: 21380951--21380983 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21380941 TTATTTATAT
*
21380951 TTATTCATATAATAAA
1 TTATTAATATAATAAA
21380967 TTATTAATATAATAAA
1 TTATTAATATAATAAA
21380983 T
1 T
21380984 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:21381050 original size:16 final size:14
Alignment explanation
Indices: 21381024--21381064 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
21381014 TTTTAACTTT
21381024 ATTTT-AATAATAA
1 ATTTTAAATAATAA
21381037 ATTTTGAAAATAAT-A
1 ATTTT--AAATAATAA
21381052 ATTTTAAATAATA
1 ATTTTAAATAATA
21381065 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTTAAATAATAA
Done.