Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 30 of 195
Found at i:6844359 original size:24 final size:25
Alignment explanation
Indices: 6844323--6844369 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
6844313 TTAATTATCC
6844323 AATGATGAAATTTTTAAAAATTTCA
1 AATGATGAAATTTTTAAAAATTTCA
*
6844348 AATGAT-AAATTTTTATAAATTT
1 AATGATGAAATTTTTAAAAATTT
6844370 TTTAAGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
AATGATGAAATTTTTAAAAATTTCA
Found at i:6844383 original size:26 final size:24
Alignment explanation
Indices: 6844323--6844387 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
6844313 TTAATTATCC
6844323 AATGATGAAATTTTTAAAAATTTCA
1 AATGA-GAAATTTTTAAAAATTTCA
* * *
6844348 AATGATAAATTTTTATAAATTTTTTA
1 AATGAGAAATTTTTA-AAA-ATTTCA
*
6844374 AGTGAGAAATTTTT
1 AATGAGAAATTTTT
6844388 TCTAAATTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 9 0.27
25 8 0.24
26 16 0.48
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (24 bp):
AATGAGAAATTTTTAAAAATTTCA
Found at i:6844474 original size:9 final size:8
Alignment explanation
Indices: 6844458--6844486 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6844448 TCTATTTTTG
6844458 ATAAAAAA
1 ATAAAAAA
6844466 ATAAAAAA
1 ATAAAAAA
6844474 AT-AAAAA
1 ATAAAAAA
6844481 ATAAAA
1 ATAAAA
6844487 TTTTGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:6844807 original size:6 final size:6
Alignment explanation
Indices: 6844793--6844881 Score: 72
Period size: 6 Copynumber: 13.8 Consensus size: 6
6844783 TTTTATTTCA
* * *
6844793 TTTTGT TTTTAT TTTTAT TTTTAT TTTTAT TTTTGAT GTTTAT TTCTAATT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TT-TTA-T
*
6844844 TTTTAT TAATTTA- TTTTAT TTTTCT TGATTTAT TTTTA
1 TTTTAT T--TTTAT TTTTAT TTTTAT T--TTTAT TTTTA
6844882 GTCTTTTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
5 4 0.06
6 42 0.62
7 10 0.15
8 12 0.18
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:6844820 original size:13 final size:13
Alignment explanation
Indices: 6844798--6844866 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
6844788 TTTCATTTTG
6844798 TTTTTATTTTTA-
1 TTTTTATTTTTAT
6844810 TTTTTATTTTTAT
1 TTTTTATTTTTAT
* *
6844823 TTTTGATGTTTAT
1 TTTTTATTTTTAT
* *
6844836 TTCTAATTTTTTAT
1 TTTTTA-TTTTTAT
*
6844850 TAATTTA-TTTTAT
1 T-TTTTATTTTTAT
6844863 TTTT
1 TTTT
6844867 CTTGATTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
12 14 0.31
13 22 0.49
14 7 0.16
15 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:6844874 original size:19 final size:18
Alignment explanation
Indices: 6844799--6844879 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 18
6844789 TTCATTTTGT
6844799 TTTTATTTTTATT-TTTA
1 TTTTATTTTTATTGTTTA
6844816 TTTTTATTTTTGA-TGTTTA
1 -TTTTATTTTT-ATTGTTTA
*
6844835 TTTCTAATTTTTTATTAATTTA
1 TTT-T-A-TTTTTATT-GTTTA
*
6844857 TTTTATTTTTCTTGATTTA
1 TTTTATTTTTATTG-TTTA
6844876 TTTT
1 TTTT
6844880 TAGTCTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
18 14 0.27
19 21 0.40
20 3 0.06
21 7 0.13
22 7 0.13
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATTGTTTA
Found at i:6844876 original size:41 final size:42
Alignment explanation
Indices: 6844804--6844894 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
6844794 TTTGTTTTTA
*
6844804 TTTTTATT--TTTATTTTTATTTTTGATGTTTATTTCTAAT-
1 TTTTTATTAATTTATTTTTATTTTTCATGTTTATTTCTAATC
* * *
6844843 TTTTTATTAATTTA-TTTTATTTTTCTTGATTTATTTTTAGTC
1 TTTTTATTAATTTATTTTTATTTTTCATG-TTTATTTCTAATC
6844885 TTTTTATTAA
1 TTTTTATTAA
6844895 GATAATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 8 0.18
40 12 0.27
41 14 0.32
42 10 0.23
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (42 bp):
TTTTTATTAATTTATTTTTATTTTTCATGTTTATTTCTAATC
Found at i:6845363 original size:45 final size:44
Alignment explanation
Indices: 6845267--6845354 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
6845257 GGAAAAAGAG
*
6845267 AAAAAAAATTTTAAATAGGTCCAAATGGTGAAAAATTTAGAAAT
1 AAAAAAAATTTTAAAGAGGTCCAAATGGTGAAAAATTTAGAAAT
*
6845311 AAAAAAAATTTCTAAAGAGG-CCTAAATGGTGAAAATTTTA-AAAT
1 AAAAAAAATTT-TAAAGAGGTCC-AAATGGTGAAAAATTTAGAAAT
6845355 TTTAAAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 17 0.43
45 23 0.57
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (44 bp):
AAAAAAAATTTTAAAGAGGTCCAAATGGTGAAAAATTTAGAAAT
Found at i:6849383 original size:11 final size:11
Alignment explanation
Indices: 6849367--6849402 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
6849357 CTAATGGATG
6849367 AAAAAAATAAA
1 AAAAAAATAAA
6849378 AAAAAAATAAA
1 AAAAAAATAAA
6849389 AAATGAAAATAAA
1 AAA--AAAATAAA
6849402 A
1 A
6849403 GAAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.61
13 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:6850726 original size:23 final size:22
Alignment explanation
Indices: 6850671--6850728 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6850661 ATTATGAATC
6850671 TTTAAATGAGAATCTTTGAGAT
1 TTTAAATGAGAATCTTTGAGAT
* *
6850693 CTCAAATGAGAATCTTTGA-ATTT
1 TTTAAATGAGAATCTTTGAGA--T
6850716 TTTAAATGAGAAT
1 TTTAAATGAGAAT
6850729 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 17 0.57
23 12 0.40
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (22 bp):
TTTAAATGAGAATCTTTGAGAT
Found at i:6850922 original size:108 final size:108
Alignment explanation
Indices: 6850792--6851068 Score: 437
Period size: 108 Copynumber: 2.6 Consensus size: 108
6850782 GATTTATTGC
* * *
6850792 ATGTGAGCCTTTGAACTTGAATGAGAAGCTTTAAACTTTTGGATGTGAATCTCCAAAATTCAAAC
1 ATGTGAACCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAATCTCCAAAATTCAAAC
*
6850857 AAAAAATCTTAAACTTTTTGAATGTGAACCCCAAATTTGTCAA
66 AAAAAAGCTTAAACTTTTTGAATGTGAACCCCAAATTTGTCAA
* *
6850900 ATGTGAACCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGTTGTGAATCTCCAAAGTTCAAAC
1 ATGTGAACCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAATCTCCAAAATTCAAAC
* *
6850965 CAAAAAGCTTAAACTTTTTGGATGTGAACCCCAAATTTGTCAA
66 AAAAAAGCTTAAACTTTTTGAATGTGAACCCCAAATTTGTCAA
* * * * *
6851008 ATATGAACATTTGAACTCGAATTAGAAGCTTTGAACTTTTGGATATGAATCTTCAAAATTC
1 ATGTGAACCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAATCTCCAAAATTC
6851069 GAATGAGAAT
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 154 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (108 bp):
ATGTGAACCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAATCTCCAAAATTCAAAC
AAAAAAGCTTAAACTTTTTGAATGTGAACCCCAAATTTGTCAA
Found at i:6851367 original size:41 final size:41
Alignment explanation
Indices: 6851304--6851616 Score: 296
Period size: 41 Copynumber: 7.7 Consensus size: 41
6851294 CATGATTGTC
*
6851304 GATGAGCC-TTTATTTTTTAAAATTGTTGTGCCTCTACTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
* * * *
6851344 AATGAGCCTTTTATTTTTTAAAATTATTATGCCTCTACTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
* * * *
6851385 GAGGAGCCTTTTATTTTTCAAAGTTATTGTGCCTCTGCTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
* * *
6851426 GATGAGCCCTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
** * * *
6851467 GAAAAACTTTTTATTTTTTAAAGTCGTTGTGCCT-TAACTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCT-ACTTA
* * ** * *
6851508 GAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTA
1 GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
* **
6851549 GA--AGTCCATTTTATTTTTCT-AAGTTGTTGAGTTTCTACTTA
1 GATGAG-CC-TTTTATTTTT-TAAAGTTGTTGTGCCTCTACTTA
*
6851590 GAGGAGCC-TTTATTTTTTCAAAGTTGT
1 GATGAGCCTTTTATTTTTT-AAAGTTGT
6851617 GAACCTCTGT
Statistics
Matches: 229, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.01
40 19 0.08
41 202 0.88
42 3 0.01
43 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (41 bp):
GATGAGCCTTTTATTTTTTAAAGTTGTTGTGCCTCTACTTA
Found at i:6851453 original size:123 final size:122
Alignment explanation
Indices: 6851304--6851607 Score: 357
Period size: 123 Copynumber: 2.5 Consensus size: 122
6851294 CATGATTGTC
* *
6851304 GATGAG-CCTTTATTTTTTAAAATTGTTGTGCCTCTACTTAAATGAGCCTTTTATTTTTTAAAAT
1 GATGAGCCCTTTATTTTTCAAAGTTGTTGTGCCTCTACTTAAA-GAGCCTTTTATTTTTTAAAAT
* * *
6851368 TATTATGCCTCT-ACTTAGAGGAGCCTTTTATTTTTCAAAGTTATTGTGCCTCTGCTTA
65 CATTATGCCT-TAACTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTA
* * * * *
6851426 GATGAGCCCTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAAAAACTTTTTATTTTTTAAAGT
1 GATGAGCCCTTTATTTTTCAAAGTTGTTGTGCCTCTACTTA-AAGAGCCTTTTATTTTTTAAAAT
* *
6851491 CGTTGTGCCTTAACTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTA
65 CATTATGCCTTAACTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTA
* * * ** *
6851549 GA--AGTCCATTTTATTTTTCTAAGTTGTTGAGTTTCTACTTAGAGGAGCC-TTTATTTTTT
1 GATGAG-CC-CTTTATTTTTCAAAGTTGTTGTGCCTCTACTTA-AAGAGCCTTTTATTTTTT
6851608 CAAAGTTGTG
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
121 2 0.01
122 19 0.12
123 132 0.85
124 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (122 bp):
GATGAGCCCTTTATTTTTCAAAGTTGTTGTGCCTCTACTTAAAGAGCCTTTTATTTTTTAAAATC
ATTATGCCTTAACTTAGAGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTA
Found at i:6851980 original size:19 final size:20
Alignment explanation
Indices: 6851948--6851986 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6851938 AACTGTGATT
*
6851948 TTTTTATTATTTTAT-TTTA
1 TTTTTATTAATTTATCTTTA
*
6851967 TTTTTCTTAATTTATCTTTA
1 TTTTTATTAATTTATCTTTA
6851987 GTCTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTAATTTATCTTTA
Found at i:6853049 original size:13 final size:13
Alignment explanation
Indices: 6853031--6853061 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6853021 ATAAAGTTTC
6853031 AATAACAATATGT
1 AATAACAATATGT
6853044 AATAACAATATGT
1 AATAACAATATGT
6853057 AATAA
1 AATAA
6853062 TAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (13 bp):
AATAACAATATGT
Found at i:6853323 original size:53 final size:54
Alignment explanation
Indices: 6853266--6853419 Score: 177
Period size: 53 Copynumber: 2.9 Consensus size: 54
6853256 AAAAAAGAGA
* * *
6853266 AAAAAATATCTAAATAGGCCCAAATTGTGAAAAATTTAGAAATAAAAAAAAATA
1 AAAAAATATCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATAAAAAAAAATG
* ***
6853320 AAAAAAT-TCTAAATAGGCCCAAATGGTGAAAATTTTAAAAAT-TTCAAAAATG
1 AAAAAATATCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATAAAAAAAAATG
* * * * * *
6853372 AAAATATTTTTAAATTGACCCAAATGGTGAAAAATTTATAAATAAAAA
1 AAAAAATATCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATAAAAA
6853420 GAATTTCTAA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 12 0.15
53 62 0.76
54 8 0.10
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.27
Consensus pattern (54 bp):
AAAAAATATCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATAAAAAAAAATG
Found at i:6854666 original size:25 final size:25
Alignment explanation
Indices: 6854629--6854676 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6854619 AACTAAAATG
* *
6854629 ATTATAATGCCTCTCTTAACATATA
1 ATTAAAATACCTCTCTTAACATATA
*
6854654 ATTAAAATACCTCTCTTACCATA
1 ATTAAAATACCTCTCTTAACATA
6854677 ATTGGTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAAAATACCTCTCTTAACATATA
Found at i:6855958 original size:12 final size:12
Alignment explanation
Indices: 6855932--6855971 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
6855922 ATTTTCTTCC
*
6855932 TTTTTTTTTTC-
1 TTTTTTTTATCA
6855943 TTTTTTTTATCA
1 TTTTTTTTATCA
6855955 TTTTTTTTATCA
1 TTTTTTTTATCA
6855967 TTTTT
1 TTTTT
6855972 CTATGTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTTATCA
Found at i:6856037 original size:18 final size:18
Alignment explanation
Indices: 6855997--6856038 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6855987 TTCTTTTCTC
6855997 CTTTTTAAATATTTATAA
1 CTTTTTAAATATTTATAA
* *
6856015 ATTTTTACAATGTTT-TAA
1 CTTTTTA-AATATTTATAA
6856033 CTTTTT
1 CTTTTT
6856039 TAATGTTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
CTTTTTAAATATTTATAA
Found at i:6856098 original size:15 final size:16
Alignment explanation
Indices: 6856074--6856111 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6856064 TGACTAAAAA
6856074 TTAT-TTTTAT-TTTT
1 TTATATTTTATGTTTT
*
6856088 TTTTATTTTATGTTTT
1 TTATATTTTATGTTTT
6856104 TTATATTT
1 TTATATTT
6856112 GATAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 6 0.30
16 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTATATTTTATGTTTT
Found at i:6856221 original size:18 final size:19
Alignment explanation
Indices: 6856200--6856244 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
6856190 TTTATTTTGC
6856200 TTTTTGTCTT-TTT-TTTAT
1 TTTTTGT-TTCTTTCTTTAT
6856218 TTTTT-TTTCTTTCTTTAT
1 TTTTTGTTTCTTTCTTTAT
6856236 TTTTTGTTT
1 TTTTTGTTT
6856245 TCTAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 4 0.17
18 15 0.62
19 3 0.12
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTTTGTTTCTTTCTTTAT
Found at i:6856238 original size:27 final size:27
Alignment explanation
Indices: 6856183--6856240 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
6856173 TCAATTTCTC
*
6856183 TTTTTTATTTATTTTGCTTTTTGTCTT
1 TTTTTTATTTATTTTGCTTTTTGTATT
* *
6856210 TTTTTTATTTTTTTTTCTTTCTT-TATT
1 TTTTTTATTTATTTTGCTTT-TTGTATT
6856237 TTTT
1 TTTT
6856241 GTTTTCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.83
Consensus pattern (27 bp):
TTTTTTATTTATTTTGCTTTTTGTATT
Found at i:6858511 original size:15 final size:16
Alignment explanation
Indices: 6858491--6858520 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6858481 GTGTATGCTT
6858491 TATTTTTAT-TATTTC
1 TATTTTTATATATTTC
6858506 TATTTTTATATATTT
1 TATTTTTATATATTT
6858521 AAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTATATATTTC
Found at i:6858694 original size:19 final size:18
Alignment explanation
Indices: 6858652--6858692 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6858642 TCTTTTCTCC
6858652 TTTTTAAATATTTATAAA
1 TTTTTAAATATTTATAAA
*
6858670 TTTTTACAATATTT-TAAC
1 TTTTTA-AATATTTATAAA
6858688 TTTTT
1 TTTTT
6858693 TAATGTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAAATATTTATAAA
Found at i:6860721 original size:5 final size:5
Alignment explanation
Indices: 6860711--6860780 Score: 70
Period size: 5 Copynumber: 13.8 Consensus size: 5
6860701 ATAATTTTAT
* * * *
6860711 TAATA TAATA TAATA TAATA TAATA TAATA TAGTG TAATG TAATG TAATATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-A-ATA
*
6860763 TAATT TAATA T-ATA TAAT
1 TAATA TAATA TAATA TAAT
6860781 CAATGTAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.07
5 47 0.84
6 2 0.04
7 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:6861091 original size:16 final size:17
Alignment explanation
Indices: 6861072--6861108 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
6861062 AAAATTATCT
6861072 AATTAAAA-AA-CAAAGA
1 AATTAAAAGAAGCAAA-A
6861088 AATTAAAAGAAGCAAAA
1 AATTAAAAGAAGCAAAA
6861105 AATT
1 AATT
6861109 TAGAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.70, C:0.05, G:0.08, T:0.16
Consensus pattern (17 bp):
AATTAAAAGAAGCAAAA
Found at i:6863899 original size:13 final size:14
Alignment explanation
Indices: 6863881--6863913 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6863871 CTTTTTTGCC
6863881 TTTTTATATATT-T
1 TTTTTATATATTAT
*
6863894 TTTTTATATTTTAT
1 TTTTTATATATTAT
6863908 TTTTTA
1 TTTTTA
6863914 ATTGGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATATATTAT
Found at i:6864161 original size:24 final size:27
Alignment explanation
Indices: 6864119--6864179 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 27
6864109 GCCCTGACTA
*
6864119 TATTTAAATTATATTTTTA-AT-TGT-T
1 TATTT-AATTATATATTTATATATGTAT
*
6864144 TATTTAATTTTATATTTATATATGTAT
1 TATTTAATTATATATTTATATATGTAT
6864171 TATATTAAT
1 TAT-TTAAT
6864180 AAATATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 11 0.37
25 7 0.23
26 3 0.10
27 4 0.13
28 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATTTAATTATATATTTATATATGTAT
Found at i:6865674 original size:2 final size:2
Alignment explanation
Indices: 6865667--6865693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6865657 ATTATTTAAA
6865667 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6865694 ATTTCATTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6866353 original size:19 final size:20
Alignment explanation
Indices: 6866329--6866373 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6866319 ATTGATCCTT
*
6866329 TTATAT-ATATAATAGTTGA
1 TTATATAATATAATAGTTAA
*
6866348 TTATATAAATGTAATAGTTAA
1 TTATAT-AATATAATAGTTAA
6866369 TTATA
1 TTATA
6866374 ATTATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
21 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (20 bp):
TTATATAATATAATAGTTAA
Found at i:6866928 original size:16 final size:16
Alignment explanation
Indices: 6866895--6866928 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6866885 TCAAGAAATA
*
6866895 AAAAACAAAGGCAAAG
1 AAAAACAAAGACAAAG
*
6866911 AAAAACAAAGACAGAG
1 AAAAACAAAGACAAAG
6866927 AA
1 AA
6866929 CGAGATAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.12, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAACAAAGACAAAG
Found at i:6869922 original size:22 final size:22
Alignment explanation
Indices: 6869888--6869962 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 22
6869878 AATTTTATTT
* *
6869888 ATAAGTAATATTATATTAATAA
1 ATAAATAAAATTATATTAATAA
6869910 ATAAATAAAATTATATTAATATAA
1 ATAAATAAAATTATATT-A-ATAA
6869934 TATATTAATAAATATTATATTAATAA
1 -ATA--AATAAA-ATTATATTAATAA
6869960 ATA
1 ATA
6869963 GTATTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 15 0.33
23 1 0.02
24 4 0.09
25 6 0.13
26 4 0.09
27 7 0.16
28 8 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (22 bp):
ATAAATAAAATTATATTAATAA
Found at i:6869954 original size:15 final size:15
Alignment explanation
Indices: 6869913--6869976 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
6869903 TTAATAAATA
6869913 AATAAA-ATTATATT
1 AATAAATATTATATT
*
6869927 AAT--ATAATATATT
1 AATAAATATTATATT
6869940 AATAAATATTATATT
1 AATAAATATTATATT
*
6869955 AATAAATAGTAT-TAT
1 AATAAATATTATAT-T
6869970 AATAAAT
1 AATAAAT
6869977 TAATAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 4 0.09
15 28 0.65
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AATAAATATTATATT
Found at i:6869978 original size:23 final size:20
Alignment explanation
Indices: 6869952--6870004 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
6869942 TAAATATTAT
*
6869952 ATTAATAAATAGTATTATAATAA
1 ATTAATAAATAATA-TA-AAT-A
6869975 ATTAATAAATAATATAAATA
1 ATTAATAAATAATATAAATA
6869995 A-TAATAAATA
1 ATTAATAAATA
6870005 CTTATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.31
20 2 0.07
21 3 0.10
22 2 0.07
23 13 0.45
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTAATAAATAATATAAATA
Found at i:6869986 original size:15 final size:15
Alignment explanation
Indices: 6869902--6869998 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 15
6869892 GTAATATTAT
6869902 ATTAATAAATAAATAAA
1 ATTAATAAAT-AAT-AA
*
6869919 ATTATATTAATATAATAT
1 ATTA-A-TAA-ATAATAA
* *
6869937 ATTAATAAATATTAT
1 ATTAATAAATAATAA
*
6869952 ATTAATAAATAGT-A
1 ATTAATAAATAATAA
*
6869966 TTATAATAAATTAATAA
1 AT-TAATAAA-TAATAA
*
6869983 ATAATATAAATAATAA
1 ATTA-ATAAATAATAA
6869999 TAAATACTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.02
15 25 0.38
16 13 0.20
17 12 0.18
18 6 0.09
19 6 0.09
20 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (15 bp):
ATTAATAAATAATAA
Found at i:6869993 original size:9 final size:10
Alignment explanation
Indices: 6869968--6870004 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
6869958 AAATAGTATT
6869968 ATAATAAAT-
1 ATAATAAATA
6869977 -TAATAAATA
1 ATAATAAATA
6869986 AT-ATAAATA
1 ATAATAAATA
6869995 ATAATAAATA
1 ATAATAAATA
6870005 CTTATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.32
9 9 0.36
10 8 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAATAAATA
Found at i:6870084 original size:16 final size:17
Alignment explanation
Indices: 6870053--6870101 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
6870043 AATATTAAAT
6870053 ATTATTATTAAAATA-TA
1 ATTATT-TTAAAATATTA
*
6870070 ATTATTTTTAAATATTA
1 ATTATTTTAAAATATTA
*
6870087 ATAATTTTAATAATA
1 ATTATTTTAA-AATA
6870102 AATAATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATTTTAAAATATTA
Found at i:6870105 original size:16 final size:16
Alignment explanation
Indices: 6870038--6870114 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 16
6870028 TTAGTATAAT
*
6870038 ATTTTAATATTAAATA
1 ATTTTAATAATAAATA
6870054 TTATTATTAA-AATATAATTA
1 --ATT-TTAATAATA-AA-TA
* *
6870074 TTTTTAA-ATATTAATA
1 ATTTTAATA-ATAAATA
6870090 ATTTTAATAATAAATA
1 ATTTTAATAATAAATA
*
6870106 ATTTCAATA
1 ATTTTAATA
6870115 TAATTTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 22 0.46
17 8 0.17
18 10 0.21
19 6 0.12
20 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAATAATAAATA
Found at i:6870187 original size:17 final size:19
Alignment explanation
Indices: 6870154--6870188 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
6870144 TTAATAGTTA
6870154 TATTAATGTTATTTAAAAT
1 TATTAATGTTATTTAAAAT
6870173 TATTAAT-TT-TTTAAAA
1 TATTAATGTTATTTAAAA
6870189 ACTAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATTAATGTTATTTAAAAT
Found at i:6870662 original size:23 final size:23
Alignment explanation
Indices: 6870628--6870671 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
6870618 TATATTTATT
*
6870628 TAATTTTATATTTATATTAAAAA
1 TAATTTTATATTAATATTAAAAA
*
6870651 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATATTAAA
6870672 TCGAATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTTTATATTAATATTAAAAA
Found at i:6870754 original size:15 final size:15
Alignment explanation
Indices: 6870734--6870764 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6870724 AATTTAAAAA
6870734 TAAATCAAATTAAAT
1 TAAATCAAATTAAAT
*
6870749 TAAATCAGATTAAAT
1 TAAATCAAATTAAAT
6870764 T
1 T
6870765 CAGAACGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
TAAATCAAATTAAAT
Found at i:6875222 original size:227 final size:226
Alignment explanation
Indices: 6874828--6875282 Score: 883
Period size: 227 Copynumber: 2.0 Consensus size: 226
6874818 TTAAGTTTCA
6874828 TGATACCAAAAGCATGCTCTAAATACTTACTAAGAAAAAAATTTTACTTTTGCTTTTTCAACATA
1 TGATACCAAAAGCATGCTCTAAATACTTACTAAGAAAAAAATTTTACTTTTGCTTTTTCAACATA
*
6874893 TTATAATATTATTATTATAAAATAACTAATATCTTATGAAAGTATACTTGATTTAGTAAGTATTT
66 TTATAATAATATTATTATAAAATAACTAATATCTTATGAAAGTATACTTGATTTAGTAAGTATTT
6874958 TGTAACAGTAAAAGATTTTAAAATCTAGTCTAGCAATTTATGTGAACCAAATTTACTATGCAATT
131 TGTAACAGTAAAAGATTTTAAAATCTAGTCTAGCAATTTATGTGAACCAAATTTACTATGCAATT
6875023 ATTTAATACATGTTATTTCCTAAAACGTAAT
196 ATTTAATACATGTTATTTCCTAAAACGTAAT
*
6875054 TGATACCAAAAGCATGCTCTAAATACTTACTAAGAAAAAAATTTTACTTTTTGTTTTTTCAACAT
1 TGATACCAAAAGCATGCTCTAAATACTTACTAAGAAAAAAATTTTAC-TTTTGCTTTTTCAACAT
6875119 ATTATAATAATATTATTATAAAATAACTAATATCTTATGAAAGTATACTTGATTTAGTAAGTATT
65 ATTATAATAATATTATTATAAAATAACTAATATCTTATGAAAGTATACTTGATTTAGTAAGTATT
6875184 TTGTAACAGTAAAAGATTTTAAAATCTAGTCTAGCAATTTATGTGAACCAAATTTACTATGCAAT
130 TTGTAACAGTAAAAGATTTTAAAATCTAGTCTAGCAATTTATGTGAACCAAATTTACTATGCAAT
6875249 TATTTAATACATGTTATTTCCTAAAACGTAAT
195 TATTTAATACATGTTATTTCCTAAAACGTAAT
6875281 TG
1 TG
6875283 CATAACTTTA
Statistics
Matches: 226, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
226 47 0.21
227 179 0.79
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (226 bp):
TGATACCAAAAGCATGCTCTAAATACTTACTAAGAAAAAAATTTTACTTTTGCTTTTTCAACATA
TTATAATAATATTATTATAAAATAACTAATATCTTATGAAAGTATACTTGATTTAGTAAGTATTT
TGTAACAGTAAAAGATTTTAAAATCTAGTCTAGCAATTTATGTGAACCAAATTTACTATGCAATT
ATTTAATACATGTTATTTCCTAAAACGTAAT
Found at i:6884811 original size:24 final size:24
Alignment explanation
Indices: 6884783--6884830 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6884773 AATAAAATTT
*
6884783 ATCCGAATATAGGA-TTCTAAAAAA
1 ATCCGAATAGA-GATTTCTAAAAAA
*
6884807 ATCCGAGTAGAGATTTCTAAAAAA
1 ATCCGAATAGAGATTTCTAAAAAA
6884831 TCCCTAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCCGAATAGAGATTTCTAAAAAA
Found at i:6893152 original size:2 final size:2
Alignment explanation
Indices: 6893145--6893179 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6893135 ATGTGATAAA
6893145 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6893180 ATAATTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6894451 original size:21 final size:20
Alignment explanation
Indices: 6894413--6894451 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6894403 CTACGAATCA
*
6894413 AATTTCTTTTAAGTTCTTGC
1 AATTTCTTTTAAGCTCTTGC
*
6894433 AATTTACTTTTAGGCTCTT
1 AATTT-CTTTTAAGCTCTT
6894452 TAAATTTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
AATTTCTTTTAAGCTCTTGC
Found at i:6894710 original size:15 final size:15
Alignment explanation
Indices: 6894690--6894737 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 15
6894680 CTGTTTTAGA
6894690 TACTGCATTTAATTT
1 TACTGCATTTAATTT
6894705 TACTGCACTATTTAATTT
1 TACTG--C-ATTTAATTT
*
6894723 TTCTGCA-TTAATTT
1 TACTGCATTTAATTT
6894737 T
1 T
6894738 GAGTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 1 0.03
17 1 0.03
18 13 0.45
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (15 bp):
TACTGCATTTAATTT
Found at i:6895162 original size:10 final size:10
Alignment explanation
Indices: 6895129--6895207 Score: 53
Period size: 10 Copynumber: 8.1 Consensus size: 10
6895119 TTAATTGCAT
*
6895129 AATTATATAA
1 AATTATATAC
* *
6895139 AAAT-TATGC
1 AATTATATAC
6895148 AATTATATAC
1 AATTATATAC
6895158 AA-T-TATAC
1 AATTATATAC
6895166 AATTATATAC
1 AATTATATAC
6895176 --TTAT-TAC
1 AATTATATAC
6895183 TATATTACTTATAC
1 -A-ATTA--TATAC
6895197 AATTATATAC
1 AATTATATAC
6895207 A
1 A
6895208 CTTGCAGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 20
0.68 0.06 0.25
Matches are distributed among these distances:
7 3 0.06
8 11 0.20
9 8 0.15
10 20 0.37
11 3 0.06
12 4 0.07
13 2 0.04
14 3 0.06
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (10 bp):
AATTATATAC
Found at i:6895163 original size:18 final size:18
Alignment explanation
Indices: 6895129--6895207 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
6895119 TTAATTGCAT
* *
6895129 AATTATATAAAAATTATGC
1 AATTATAT-ACAATTATAC
6895148 AATTATATACAATTATAC
1 AATTATATACAATTATAC
6895166 AATTATATAC--TTATTAC
1 AATTATATACAATTA-TAC
*
6895183 TA-TAT-TAC--TTATAC
1 AATTATATACAATTATAC
6895197 AATTATATACA
1 AATTATATACA
6895208 CTTGCAGATC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 4 0.08
15 9 0.17
16 9 0.17
17 4 0.08
18 18 0.35
19 8 0.15
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (18 bp):
AATTATATACAATTATAC
Found at i:6899335 original size:26 final size:26
Alignment explanation
Indices: 6899300--6899351 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6899290 TTAAGCCTTA
* *
6899300 AATTTTATTTGTATTTTAATTTTTTT
1 AATTTAATTTGTAGTTTAATTTTTTT
* *
6899326 AATTTAATTTTTGGTTTAATTTTTTT
1 AATTTAATTTGTAGTTTAATTTTTTT
6899352 TAGTTAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
AATTTAATTTGTAGTTTAATTTTTTT
Found at i:6899402 original size:16 final size:15
Alignment explanation
Indices: 6899379--6899417 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
6899369 GTCAATCGAT
6899379 AAAAAAATAAAAAATG
1 AAAAAAATAAAAAA-G
*
6899395 ATAAAAATAAAAAAG
1 AAAAAAATAAAAAAG
6899410 AAAAAAAT
1 AAAAAAAT
6899418 GTGAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAAAAATAAAAAAG
Found at i:6899406 original size:15 final size:16
Alignment explanation
Indices: 6899379--6899417 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6899369 GTCAATCGAT
*
6899379 AAAAAAATAAAAAATG
1 AAAAAAATAAAAAAAG
*
6899395 ATAAAAAT-AAAAAAG
1 AAAAAAATAAAAAAAG
6899410 AAAAAAAT
1 AAAAAAAT
6899418 GTGAGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAAAAAG
Found at i:6899966 original size:17 final size:17
Alignment explanation
Indices: 6899938--6899972 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6899928 CTTATTTTTA
6899938 TATTTATTGCATGATATT
1 TATTTATTGCATGA-ATT
6899956 TATTT-TTGCATGAATT
1 TATTTATTGCATGAATT
6899972 T
1 T
6899973 GTATGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTTATTGCATGAATT
Found at i:6900009 original size:16 final size:20
Alignment explanation
Indices: 6899969--6900006 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6899959 TTTTGCATGA
6899969 ATTTGTATGACTAATATTAT
1 ATTTGTATGACTAATATTAT
6899989 ATTTGTATGA-TAAT-TTAT
1 ATTTGTATGACTAATATTAT
6900007 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTTGTATGACTAATATTAT
Found at i:6900038 original size:21 final size:21
Alignment explanation
Indices: 6900012--6900134 Score: 68
Period size: 21 Copynumber: 5.5 Consensus size: 21
6900002 TTTATTTGCC
6900012 TAATATATTTGTTTGCATGAT
1 TAATATATTTGTTTGCATGAT
* * *
6900033 TAATATATTTATTTGTGTAATTTAT
1 TAATATATTT-GTT-TG-CA-TGAT
** *
6900058 TAATATATTTGCATG-ATTAT
1 TAATATATTTGTTTGCATGAT
* *
6900078 TAATATATTTATTTGTATGAT
1 TAATATATTTGTTTGCATGAT
* *
6900099 TATATTTAATTTGATTGCATGAGTAT
1 TA-ATAT-ATTTGTTTGCAT--G-AT
6900125 TAATATATTT
1 TAATATATTT
6900135 AATTACTTGA
Statistics
Matches: 77, Mismatches: 15, Indels: 17
0.71 0.14 0.16
Matches are distributed among these distances:
20 16 0.21
21 17 0.22
22 5 0.06
23 13 0.17
24 5 0.06
25 17 0.22
26 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (21 bp):
TAATATATTTGTTTGCATGAT
Found at i:6900087 original size:45 final size:47
Alignment explanation
Indices: 6900012--6900135 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
6900002 TTTATTTGCC
** * *
6900012 TAATATATTTGTTTGCATGATTAATATATTTATTTGTGTAATT-TA-T
1 TAATATATTTGCATG-ATTATTAATATATTTATTTGTATAATTATATT
*
6900058 TAATATATTTGCATGATTATTAATATATTTATTTGTATGATTATATT
1 TAATATATTTGCATGATTATTAATATATTTATTTGTATAATTATATT
* *
6900105 TAATTTGA-TTGCATGAGTATTAATATATTTA
1 TAATAT-ATTTGCATGATTATTAATATATTTA
6900136 ATTACTTGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 24 0.35
46 15 0.22
47 28 0.41
48 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (47 bp):
TAATATATTTGCATGATTATTAATATATTTATTTGTATAATTATATT
Found at i:6900092 original size:24 final size:24
Alignment explanation
Indices: 6900012--6900172 Score: 126
Period size: 24 Copynumber: 7.0 Consensus size: 24
6900002 TTTATTTGCC
*
6900012 TAATATATTTGTTTGCATG---AT
1 TAATATATTTATTTGCATGATTAT
*
6900033 TAATATATTTATTTG--TG-TAAT
1 TAATATATTTATTTGCATGATTAT
* *
6900054 TTAT-TAATATATTTGCATGATTAT
1 TAATAT-ATTTATTTGCATGATTAT
*
6900078 TAATATATTTATTTGTATGATTA-
1 TAATATATTTATTTGCATGATTAT
* *
6900101 T-ATTTAATTTGA-TTGCATGAGTAT
1 TAATAT-ATTT-ATTTGCATGATTAT
* * *
6900125 TAATATATTTAATTACTTGATTAT
1 TAATATATTTATTTGCATGATTAT
*
6900149 TAATATATTTATTTGTATGATTAT
1 TAATATATTTATTTGCATGATTAT
6900173 AAATTTAATT
Statistics
Matches: 110, Mismatches: 18, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.02
20 1 0.01
21 27 0.25
22 3 0.03
23 17 0.15
24 56 0.51
25 4 0.04
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:6900329 original size:23 final size:23
Alignment explanation
Indices: 6900302--6900372 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
6900292 AATCGTATGT
6900302 TTATTTGCATGATTTTTATATTA
1 TTATTTGCATGATTTTTATATTA
* *
6900325 TTATTTGCATGATTGGTTAT-TAA
1 TTATTTGCATGATT-TTTATATTA
*
6900348 TATATTTGCATGGTATTTTATATTA
1 T-TATTTGCATGAT-TTTTATATTA
6900373 CTACATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 17 0.44
24 19 0.49
25 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (23 bp):
TTATTTGCATGATTTTTATATTA
Found at i:6900353 original size:24 final size:23
Alignment explanation
Indices: 6900302--6900359 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
6900292 AATCGTATGT
* *
6900302 TTATTTGCATGATTTTTATATTA
1 TTATTTGCATGATTGTTATAATA
6900325 TTATTTGCATGATTGGTTATTAATA
1 TTATTTGCATGATT-GTTA-TAATA
6900350 -TATTTGCATG
1 TTATTTGCATG
6900360 GTATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 14 0.45
24 13 0.42
25 4 0.13
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (23 bp):
TTATTTGCATGATTGTTATAATA
Found at i:6900412 original size:34 final size:35
Alignment explanation
Indices: 6900345--6900412 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
6900335 GATTGGTTAT
* *
6900345 TAATATATTTGCATGGTATTTTATATTACTACATTA
1 TAATATATTTGCATGATATTATATATTA-TACATTA
6900381 TAATATATTTGCATGATATTATATATT-TACAT
1 TAATATATTTGCATGATATTATATATTATACAT
6900413 GATTGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
36 25 0.83
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (35 bp):
TAATATATTTGCATGATATTATATATTATACATTA
Found at i:6900449 original size:20 final size:18
Alignment explanation
Indices: 6900342--6900451 Score: 75
Period size: 18 Copynumber: 6.0 Consensus size: 18
6900332 CATGATTGGT
*
6900342 TATTAATATATTTGCATGG
1 TATT-ATATATTTGCATGA
* *
6900361 TATTTTATATTACTACAT--
1 TATTATATATT--TGCATGA
*
6900379 TATAATATATTTGCATGA
1 TATTATATATTTGCATGA
*
6900397 TATTATATATTTACATGA
1 TATTATATATTTGCATGA
* *
6900415 TTGTTAT-TA-TTGCATAA
1 -TATTATATATTTGCATGA
6900432 TAATTAATATATTTGCATGA
1 T-ATT-ATATATTTGCATGA
6900452 CATTCTTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.07
17 8 0.11
18 35 0.50
19 11 0.16
20 11 0.16
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:6900585 original size:38 final size:39
Alignment explanation
Indices: 6900491--6900603 Score: 108
Period size: 38 Copynumber: 2.9 Consensus size: 39
6900481 AGGCATTATA
* * *
6900491 TTATTACATGATATGATTTATAATATATT-T-GCATGATAAT
1 TTATTGCATGACATGA-TT-TAATAT-TTATGGCATGAAAAT
*
6900531 TTATTGCATGACATGATTTTATATTTATGGCATGAAAAT
1 TTATTGCATGACATGATTTAATATTTATGGCATGAAAAT
* *
6900570 TT-TTGCATTG-TATGATTTAATATTTATTGCATGA
1 TTATTGCA-TGACATGATTTAATATTTATGGCATGA
6900604 TTGCTTGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.03
38 32 0.51
39 15 0.24
40 14 0.22
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (39 bp):
TTATTGCATGACATGATTTAATATTTATGGCATGAAAAT
Found at i:6908695 original size:17 final size:17
Alignment explanation
Indices: 6908673--6908714 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6908663 AATTTGACTT
6908673 TTATTTTGTA-TTTTATA
1 TTATTTT-TATTTTTATA
*
6908690 TTATTTTTATTTTTATT
1 TTATTTTTATTTTTATA
6908707 TTATTTTT
1 TTATTTTT
6908715 TCCCTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (17 bp):
TTATTTTTATTTTTATA
Found at i:6908745 original size:4 final size:4
Alignment explanation
Indices: 6908726--6908924 Score: 65
Period size: 4 Copynumber: 49.2 Consensus size: 4
6908716 CCCTTTGTAT
* * * *
6908726 TTTA TATA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * * * * *
6908774 TGTA TATC TTTA TTTA TTTT TTTC TGTTA -ATA TTTA TATA TATA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA
* * *
6908823 TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA TTTA
* * *
6908871 -TTA -TTA TTTTA TTTA TCTTG TAATA TTT- TTTA TTTA TCTTA TTTT
1 TTTA TTTA -TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA T-TTA TTTA
*
6908916 TTTA ATTA T
1 TTTA TTTA T
6908925 CTGTTAATTT
Statistics
Matches: 146, Mismatches: 34, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
3 26 0.18
4 90 0.62
5 24 0.16
6 6 0.04
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:6908820 original size:32 final size:32
Alignment explanation
Indices: 6908799--6908898 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 32
6908789 ATTTTTTTCT
6908799 GTTAATATTTATATATATATTTTATTTATCTA
1 GTTAATATTTATATATATATTTTATTTATCTA
* * *
6908831 GTTATATATTTAT-TAT-TATATTA-TAATTTA
1 GTTA-ATATTTATATATATATTTTATTTATCTA
* * *
6908861 TTTATTA-TTAT-TAT-TATTTTATTTATCTT
1 GTTAATATTTATATATATATTTTATTTATCTA
6908890 G-TAATATTT
1 GTTAATATTT
6908899 TTTATTTATC
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
28 17 0.31
29 8 0.15
30 8 0.15
31 6 0.11
32 7 0.13
33 8 0.15
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
GTTAATATTTATATATATATTTTATTTATCTA
Found at i:6908838 original size:21 final size:20
Alignment explanation
Indices: 6908812--6908909 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 20
6908802 AATATTTATA
6908812 TATATATTTTATTTATCTAGT
1 TATATATTTTATTTATCTA-T
6908833 TATATA-TTTA-TTAT-TA-
1 TATATATTTTATTTATCTAT
*
6908849 TATTATAATTTATTTAT-TAT
1 TA-TATATTTTATTTATCTAT
6908869 TATTATTATTTTATTTATCT-T
1 TA-TA-TATTTTATTTATCTAT
*
6908890 GTAATATTTTTTATTTATCT
1 -T-ATATATTTTATTTATCT
6908910 TATTTTTTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.06
18 6 0.09
19 10 0.15
20 9 0.13
21 31 0.46
22 4 0.06
23 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATATTTTATTTATCTAT
Found at i:6908884 original size:25 final size:26
Alignment explanation
Indices: 6908804--6908886 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 26
6908794 TTTCTGTTAA
*
6908804 TATTTATATATATATT-TTA-TTTATC
1 TATTTATATAT-TATTATTATTTTATT
*
6908829 TAGTTATATATTTATTATTATATTATAATT
1 TATTTATATA-TTATTATTAT-TT-T-ATT
6908859 TATTTAT-TATTATTATTATTTTATT
1 TATTTATATATTATTATTATTTTATT
6908884 TAT
1 TAT
6908887 CTTGTAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
25 19 0.39
26 5 0.10
27 2 0.04
28 12 0.24
29 3 0.06
30 8 0.16
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
TATTTATATATTATTATTATTTTATT
Found at i:6908886 original size:12 final size:12
Alignment explanation
Indices: 6908671--6908886 Score: 73
Period size: 12 Copynumber: 17.8 Consensus size: 12
6908661 TCAATTTGAC
6908671 TTTTATTT-TGTA
1 TTTTATTTAT-TA
6908683 TTTTA--TATTA
1 TTTTATTTATTA
6908693 TTTTTATTT-TTA
1 -TTTTATTTATTA
* *
6908705 TTTTATTTTTTCCC
1 TTTTATTTATT--A
6908719 TTTGTATTT-TATA
1 TTT-TATTTAT-TA
6908732 TATTTA-TTATT-
1 T-TTTATTTATTA
6908743 TATTTATTTATTA
1 T-TTTATTTATTA
* *
6908756 TTACTATGTATTA
1 TT-TTATTTATTA
* * *
6908769 ATATATGTA-TA
1 TTTTATTTATTA
*
6908780 TCTTTATTTATTT
1 T-TTTATTTATTA
* *
6908793 TTTTCTGTTAATA
1 TTTTAT-TTATTA
*
6908806 -TTTATATATATA
1 TTTTATTTAT-TA
6908818 TTTTATTTATCTA
1 TTTTATTTAT-TA
6908831 GTTATATATTTATTA
1 -TT-T-TATTTATTA
*
6908846 TTATA-TTA-TA
1 TTTTATTTATTA
*
6908856 ATTTATTTATTA
1 TTTTATTTATTA
6908868 --TTA-TTATTA
1 TTTTATTTATTA
6908877 TTTTATTTAT
1 TTTTATTTAT
6908887 CTTGTAATAT
Statistics
Matches: 156, Mismatches: 21, Indels: 54
0.68 0.09 0.23
Matches are distributed among these distances:
9 6 0.04
10 11 0.07
11 33 0.21
12 49 0.31
13 31 0.20
14 10 0.06
15 9 0.06
16 7 0.04
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:6908903 original size:38 final size:36
Alignment explanation
Indices: 6908856--6908949 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 36
6908846 TTATATTATA
*
6908856 ATTTATTTATTATTATTATTATTTTATTTATCT-TGTAAT
1 ATTT-TTTATT-TT-TTATTATTTTAATTATCTGT-TAAT
*
6908895 ATTTTTTATTTATCTTATTTTTTTAATTATCTGTTAAT
1 ATTTTTTATTT-T-TTATTATTTTAATTATCTGTTAAT
*
6908933 TTTTTTTATTTTTTATT
1 ATTTTTTATTTTTTATT
6908950 CGTTTATCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
36 5 0.10
37 2 0.04
38 37 0.76
39 5 0.10
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (36 bp):
ATTTTTTATTTTTTATTATTTTAATTATCTGTTAAT
Found at i:6908910 original size:21 final size:20
Alignment explanation
Indices: 6908872--6908943 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
6908862 TTATTATTAT
6908872 TATTATTTTATTTATCTTGTAA
1 TATT-TTTTATTTATC-TGTAA
6908894 TATTTTTTATTTATCT-T-A
1 TATTTTTTATTTATCTGTAA
*
6908912 T-TTTTTTAATTATCTGTTAA
1 TATTTTTTATTTATCTG-TAA
*
6908932 TTTTTTTTATTT
1 TATTTTTTATTT
6908944 TTTATTCGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 13 0.30
18 2 0.05
19 2 0.05
20 3 0.07
21 20 0.45
22 4 0.09
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (20 bp):
TATTTTTTATTTATCTGTAA
Found at i:6908916 original size:17 final size:17
Alignment explanation
Indices: 6908871--6908926 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
6908861 TTTATTATTA
*
6908871 TTATTATTTTATTTATC
1 TTATTTTTTTATTTATC
6908888 TTGTAATATTTTTTATTTATC
1 -T-T-AT-TTTTTTATTTATC
*
6908909 TTATTTTTTTAATTATC
1 TTATTTTTTTATTTATC
6908926 T
1 T
6908927 GTTAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 13 0.39
18 3 0.09
19 2 0.06
20 3 0.09
21 12 0.36
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTTTTTATTTATC
Found at i:6908935 original size:19 final size:17
Alignment explanation
Indices: 6908895--6908937 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
6908885 ATCTTGTAAT
*
6908895 ATTTTTTATTTATCTTA
1 ATTTTTTAATTATCTTA
*
6908912 TTTTTTTAATTATCTGTTA
1 ATTTTTTAATTATC--TTA
6908931 ATTTTTT
1 ATTTTTT
6908938 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTTAATTATCTTA
Found at i:6908969 original size:12 final size:12
Alignment explanation
Indices: 6908932--6908991 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 12
6908922 TATCTGTTAA
*
6908932 TTTTTTTTATTT
1 TTTTTTTTATCT
6908944 TTTATTCGTTTATCT
1 TTT-TT--TTTATCT
6908959 TTTTTTTTATCT
1 TTTTTTTTATCT
*
6908971 AATTTTTTTT-CCT
1 --TTTTTTTTATCT
6908984 TTTTTTTT
1 TTTTTTTT
6908992 GGGGTTGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 8 0.20
12 10 0.24
13 4 0.10
14 10 0.24
15 9 0.22
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTTATCT
Found at i:6909887 original size:5 final size:5
Alignment explanation
Indices: 6909857--6909951 Score: 63
Period size: 5 Copynumber: 18.6 Consensus size: 5
6909847 TTAGATTAGG
* * *
6909857 TTTAT TTAAT GTT-T TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* *
6909905 TTTCT TTT-T TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6909952 TTTAAATAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
3 3 0.04
4 7 0.10
5 37 0.51
6 21 0.29
7 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:6909890 original size:6 final size:6
Alignment explanation
Indices: 6909869--6909952 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
6909859 TATTTAATGT
* * *
6909869 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTCTTT TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TTT-TTA TTTTTA
* *
6909918 TTTTCA CTTTTA TTTTGT- TTTATTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTT-TA TTT-TTA TTTTTA TTTTT
6909953 TTAAATAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
5 11 0.19
6 39 0.66
7 5 0.08
8 2 0.03
9 2 0.03
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:6909891 original size:17 final size:17
Alignment explanation
Indices: 6909869--6909951 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 17
6909859 TATTTAATGT
6909869 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
6909886 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
* *
6909903 -CTTT-TCTTTTTTTTA
1 TTTTTATCTTTATTTTA
* *
6909918 TTTTCA-CTTTTATTTTGT
1 TTTTTATC-TTTATTTT-A
6909936 TTTATTAT-TTTATTTT
1 TTT-TTATCTTTATTTT
6909952 TTTAAATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 22 0.44
18 11 0.22
19 2 0.04
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:6909926 original size:21 final size:20
Alignment explanation
Indices: 6909868--6909954 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 20
6909858 TTATTTAATG
6909868 TTTTTTATCTTTA-TTTTATTTT
1 TTTTTTAT-TTTACTTTTA--TT
* *
6909890 TATTTTTGTTTTACTTTTCTT
1 T-TTTTTATTTTACTTTTATT
6909911 TTTTTTATTTTCACTTTTATT
1 TTTTTTATTTT-ACTTTTATT
6909932 TTGTTTTA--TTA-TTTTATT
1 TT-TTTTATTTTACTTTTATT
6909950 TTTTT
1 TTTTT
6909955 AAATAAAATC
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 1 0.02
20 11 0.19
21 13 0.23
22 10 0.18
23 10 0.18
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTTACTTTTATT
Found at i:6910094 original size:119 final size:118
Alignment explanation
Indices: 6909963--6910535 Score: 723
Period size: 118 Copynumber: 4.9 Consensus size: 118
6909953 TTAAATAAAA
6909963 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
* *
6910028 AGGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTT
66 A-GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
*
6910082 TTCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
* * ** *
6910147 AGTTTTTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTTAAAACCAAAGTT
66 AGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
6910200 TCCAAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAA
1 TCCAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAA
**** * *
6910264 GAAAAGGTTTTCGAGGAACAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
65 -AAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
* * ** *
6910319 TCCAAAAAATATTTTCGGA-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCCAAA
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAA
* * * *
6910383 AAA-TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TT
64 AAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
* * ** * *
6910434 TTCAAAAAATAAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAA
1 TCCAAAAAAT--ATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
* *
6910498 AATAA--TATTTTTGAGGAAAAGTTGAAAGTATTAATTTT
63 AA-AAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
6910536 TCCTGCACAA
Statistics
Matches: 403, Mismatches: 40, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
115 11 0.03
116 18 0.04
117 63 0.16
118 173 0.43
119 130 0.32
120 8 0.02
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (118 bp):
TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
AGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTT
Found at i:6910109 original size:59 final size:58
Alignment explanation
Indices: 6909965--6910535 Score: 656
Period size: 59 Copynumber: 9.7 Consensus size: 58
6909955 AAATAAAATC
*
6909965 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
1 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
* * **
6910022 CAAAAAAGGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTT
1 CAAAAAA--TATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTT
*
6910084 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
1 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
* ** * ** *
6910141 CAAAAAAGTTTTTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTTAAAACCAAAGTTTC
1 CAAAAAA-TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCC-TTAAAAATAAAGTTTT
*
6910202 CAAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
1 CAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
* * * * * *
6910259 CAAAAGAAAAGGTTTTCGAGGAACAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTTTC
1 CAAAA-AATA-TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTT
* ** *
6910321 CAAAAAATATTTTCGGA-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTC
1 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTT
*
6910379 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
1 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
** *
6910436 CAAAAAATAAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTT
1 CAAAAAAT--ATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
*
6910495 CAAAATAATATTTTT-GAGGAAAAGTTGAAAGTATTAATTTT
1 CAAAA-AATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTT
6910536 TCCTGCACAA
Statistics
Matches: 442, Mismatches: 50, Indels: 43
0.83 0.09 0.08
Matches are distributed among these distances:
57 37 0.08
58 113 0.26
59 163 0.37
60 90 0.20
61 20 0.05
62 19 0.04
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (58 bp):
CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTT
Found at i:6910451 original size:16 final size:17
Alignment explanation
Indices: 6910413--6910451 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
6910403 TGAAAGTATC
*
6910413 AATTTTTCTTAAAAATA
1 AATTTTTCTAAAAAATA
6910430 AA-TTTTC-AAAAAATA
1 AATTTTTCTAAAAAATA
6910445 AATTTTT
1 AATTTTT
6910452 GAGGAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 9 0.45
17 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTTCTAAAAAATA
Found at i:6910534 original size:27 final size:27
Alignment explanation
Indices: 6910445--6910536 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
6910435 TCAAAAAATA
*
6910445 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATT
* * * *
6910472 AATTTTCCTCGA-AATTAAAGTTTCAAAATAAT
1 AATTTT--T-GAGGA--AAAG-TTGAAAGTATT
6910504 -ATTTTTGAGGAAAAGTTGAAAGTATT
1 AATTTTTGAGGAAAAGTTGAAAGTATT
6910530 AATTTTT
1 AATTTTT
6910537 CCTGCACAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
26 8 0.17
27 16 0.33
28 2 0.04
29 4 0.08
30 2 0.04
31 9 0.19
32 7 0.15
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTTTTGAGGAAAAGTTGAAAGTATT
Found at i:6911292 original size:17 final size:17
Alignment explanation
Indices: 6911270--6911311 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6911260 AATTTGACTT
6911270 TTATTTTGTA-TTTTATA
1 TTATTTT-TATTTTTATA
*
6911287 TTATTTTTATTTTTATT
1 TTATTTTTATTTTTATA
6911304 TTATTTTT
1 TTATTTTT
6911312 TTCCCTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (17 bp):
TTATTTTTATTTTTATA
Found at i:6911342 original size:15 final size:15
Alignment explanation
Indices: 6911324--6911365 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6911314 CCCTTTGTAT
6911324 TTTATGTATTTATTA
1 TTTATGTATTTATTA
*
6911339 TTTATTTATTTATTA
1 TTTATGTATTTATTA
6911354 TTACTATGTATT
1 TT--TATGTATT
6911366 AATATATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
17 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTATGTATTTATTA
Found at i:6911343 original size:4 final size:4
Alignment explanation
Indices: 6911324--6911555 Score: 53
Period size: 4 Copynumber: 59.2 Consensus size: 4
6911314 CCCTTTGTAT
* * * *
6911324 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * * * *
6911372 TGTA TATC TTTA TTTA TTT- TTTC TGTTA -ATA TTT- TATA TATA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA
* * *
6911419 TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA TTTA
* * *
6911466 -TTA -TTA TTT- TTTA TTTA TCTT- GTAA TTTT TTTA TTTA TCTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA T-TTA TTTA
* * * * * * *
6911511 TTATT TTTA ATTA TCTG TTAA TTTT TTTA TTT- TTTA TTTG TTTA T
1 TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
6911556 CTGATTTTTT
Statistics
Matches: 166, Mismatches: 42, Indels: 40
0.67 0.17 0.16
Matches are distributed among these distances:
3 40 0.24
4 100 0.60
5 20 0.12
6 6 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:6911444 original size:3 final size:3
Alignment explanation
Indices: 6911436--6911473 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
6911426 AGTTATATAT
*
6911436 TTA TTA TTA -TA TTA TAA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
6911474 TTTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6911495 original size:20 final size:20
Alignment explanation
Indices: 6911472--6911542 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
6911462 ATTATTATTA
6911472 TTTTTTATTTATCTTGTAAT
1 TTTTTTATTTATCTTGTAAT
* **
6911492 TTTTTTATTTATCTTATTTT
1 TTTTTTATTTATCTTGTAAT
*
6911512 TATTTTTAATTATC-TGTTAAT
1 T-TTTTTATTTATCTTG-TAAT
6911533 TTTTTTATTT
1 TTTTTTATTT
6911543 TTTATTTGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTTTATTTATCTTGTAAT
Found at i:6911533 original size:41 final size:40
Alignment explanation
Indices: 6911453--6911549 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 40
6911443 TATATTATAA
* *
6911453 TTTATTATTATTATTATTATTTTTTATTTATCTTGTAATTTT
1 TTTATT-TT-TTATTTTTATTTTTTAATTATCTTGTAATTTT
6911495 TTTATTTATCTTATTTTTA-TTTTTAATTATC-TGTTAATTTT
1 TTTATTT-T-TTATTTTTATTTTTTAATTATCTTG-TAATTTT
6911536 TTTATTTTTTATTT
1 TTTATTTTTTATTT
6911550 GTTTATCTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
39 6 0.12
40 3 0.06
41 26 0.52
42 15 0.30
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (40 bp):
TTTATTTTTTATTTTTATTTTTTAATTATCTTGTAATTTT
Found at i:6911589 original size:21 final size:20
Alignment explanation
Indices: 6911539--6911589 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
6911529 TAATTTTTTT
6911539 ATTTTTTATTT-GTTTATCTG
1 ATTTTTT-TTTCGTTTATCTG
6911559 ATTTTTTTTTCGTTTATCTG
1 ATTTTTTTTTCGTTTATCTG
6911579 ATTTCTTTTTT
1 ATTT-TTTTTT
6911590 TTTTGGGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.10
20 20 0.69
21 6 0.21
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (20 bp):
ATTTTTTTTTCGTTTATCTG
Found at i:6912381 original size:4 final size:4
Alignment explanation
Indices: 6912374--6912399 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6912364 AGGTTTTTTT
6912374 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
6912400 TTTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:6912451 original size:17 final size:17
Alignment explanation
Indices: 6912431--6912512 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
6912421 TTTAATGTTC
6912431 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
6912448 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
* *
6912464 CTTT-TCTTTTTTTTAT
1 TTTTATCTTTATTTTAT
* *
6912480 TTTCA-CGTTTATTTTGTT
1 TTTTATC-TTTATTTT-AT
6912498 TTATTAT-TTTATTTT
1 TT-TTATCTTTATTTT
6912513 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 21 0.43
18 11 0.22
19 2 0.04
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:6912468 original size:6 final size:5
Alignment explanation
Indices: 6912417--6912512 Score: 54
Period size: 5 Copynumber: 18.6 Consensus size: 5
6912407 TTAGATTAGG
* * * *
6912417 TTTAT TTAAT GTTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* * *
6912466 TTTCT TTT-T TTTAT TTTCACG TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6912513 CTTTAAATAA
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 39 0.56
6 21 0.30
7 3 0.04
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:6912692 original size:59 final size:58
Alignment explanation
Indices: 6912525--6912984 Score: 432
Period size: 59 Copynumber: 7.7 Consensus size: 58
6912515 TTAAATAAAA
* *
6912525 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTT
* * ** **
6912583 TCAAAAAAATTTTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACCAAAGTT
1 TCCAAAAAA-----TATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTT
* *
6912648 TCCAAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTT
* * * * **
6912706 TCAAAAAAAAAAGTTTTT-GAGGAACAGTTGAAAGTATCAATTTTTCTCGAAAATCAAAGTT
1 TC-CAAAAAATA-TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTT
*
6912767 TCCAAAAAATATTTTCGGA-AAAAGTTGAAAGTATCAATTTT-CTTAAAAAAATAAA-TT
1 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTT--AAAAATAAAGTT
** ** * **
6912824 TTTAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAAGTT
1 TCCAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTT
* *
6912883 TCCAAAAAATATTTTTGG-GAAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAA-TT
1 TCCAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTT
* * *
6912940 TTCAAAAAATAAATTTTT-GAGAAAAAATTAAAAGTATCAATTTTC
1 TCCAAAAAAT--ATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTC
6912985 TCTGCATAAG
Statistics
Matches: 328, Mismatches: 50, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
56 2 0.01
57 31 0.09
58 73 0.22
59 115 0.35
60 50 0.15
61 7 0.02
63 6 0.02
64 27 0.08
65 17 0.05
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (58 bp):
TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTT
Found at i:6915474 original size:26 final size:26
Alignment explanation
Indices: 6915444--6915494 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6915434 ATATTTGTTT
*
6915444 ATTAAAAATAAATGATAAAACTAGAC
1 ATTAAAAATAAATAATAAAACTAGAC
* *
6915470 ATTAAAAGTAAATAATAAAATTAGA
1 ATTAAAAATAAATAATAAAACTAGA
6915495 AATATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (26 bp):
ATTAAAAATAAATAATAAAACTAGAC
Found at i:6915966 original size:56 final size:56
Alignment explanation
Indices: 6915847--6915954 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 56
6915837 GTTAATAGTT
* * * * *
6915847 AAGTTAGCTTAAATTAAGTTGTACTTTTCACATTATAGATATTGCAAATTGTTGGT
1 AAGTTGGCTTAAATTAAGTTATACTTTTCACATTATAGATATTGAAAATAGTTGGC
* *
6915903 AAGTTGGCTTAAATTATGTTATCCTTTTCACATT-TAGATATT-AAAATAGTTG
1 AAGTTGGCTTAAATTAAGTTATACTTTTCACATTATAGATATTGAAAATAGTTG
6915955 CAGAGCATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 8 0.17
55 8 0.17
56 30 0.65
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (56 bp):
AAGTTGGCTTAAATTAAGTTATACTTTTCACATTATAGATATTGAAAATAGTTGGC
Found at i:6916169 original size:17 final size:19
Alignment explanation
Indices: 6916137--6916174 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
6916127 ATTATAATAA
6916137 AAAATTTAATATAATATTT
1 AAAATTTAATATAATATTT
6916156 AAAATTTAA-A-AATATTT
1 AAAATTTAATATAATATTT
6916173 AA
1 AA
6916175 TATTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTAATATAATATTT
Found at i:6923878 original size:21 final size:21
Alignment explanation
Indices: 6923853--6923892 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6923843 ATGTCTCTAT
6923853 ATCAAGATAAC-TTTATGTCAA
1 ATCAAG-TAACTTTTATGTCAA
*
6923874 ATCAAGTTACTTTTATGTC
1 ATCAAGTAACTTTTATGTC
6923893 TAGTCTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
ATCAAGTAACTTTTATGTCAA
Found at i:6926085 original size:18 final size:18
Alignment explanation
Indices: 6926060--6926098 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6926050 AAAGCTAAAT
* *
6926060 TTTTTTTTTA-TTATTTC
1 TTTTCTTTTATTTATTTA
6926077 TTTTCTTTTATTTATTTA
1 TTTTCTTTTATTTATTTA
6926095 TTTT
1 TTTT
6926099 TAACAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTATTTATTTA
Found at i:6928040 original size:87 final size:87
Alignment explanation
Indices: 6927938--6928113 Score: 271
Period size: 87 Copynumber: 2.0 Consensus size: 87
6927928 CCTATGAGTA
* *
6927938 AAGTTTGAATTTATTATATATTCAAAAATGTTATGACCAATTAAAAGTGATAAATAACATAGATA
1 AAGTTTGAATTTATTATATATCCAAAAATGTTATGACCAATTAAAAGTGATAAATAACAGAGATA
* ** *
6928003 TATAGGCTGTACAATGGTGGAG
66 GATAGGCTACACAATGGTAGAG
* * *
6928025 AAGTTTGAATTTATTATATATCCAAAAATGTTATGGCTAATTAAAAGTGATAAATAATAGAGATA
1 AAGTTTGAATTTATTATATATCCAAAAATGTTATGACCAATTAAAAGTGATAAATAACAGAGATA
6928090 GATAGGCTACACAATGGTAGAG
66 GATAGGCTACACAATGGTAGAG
6928112 AA
1 AA
6928114 AATAAAGTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (87 bp):
AAGTTTGAATTTATTATATATCCAAAAATGTTATGACCAATTAAAAGTGATAAATAACAGAGATA
GATAGGCTACACAATGGTAGAG
Found at i:6931561 original size:12 final size:13
Alignment explanation
Indices: 6931538--6931570 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6931528 TTATATCTTG
6931538 TTTATCTTATTTA
1 TTTATCTTATTTA
6931551 TTTAT-TTATTTA
1 TTTATCTTATTTA
*
6931563 CTTATCTT
1 TTTATCTT
6931571 TTTTTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATCTTATTTA
Found at i:6932445 original size:46 final size:46
Alignment explanation
Indices: 6932388--6932530 Score: 171
Period size: 50 Copynumber: 3.0 Consensus size: 46
6932378 AATAATAATA
* * **
6932388 AAATTTTTAATCATACCAAACTATTGGAGGATTTAAA-ACTTAAATT
1 AAATTTATAATCATACCAAACTATTAGATTATTTAAATA-TTAAATT
*
6932434 AAATTTATAATCTTACCAAACTATTAGATTATTTAAATATTAATAATAAT
1 AAATTTATAATCATACCAAACTATTAGATTATTTAAATATT-A-AAT--T
* *
6932484 AAATTTATAATCCTACCAAGCTATTAGATTATTTAAATATTAAATT
1 AAATTTATAATCATACCAAACTATTAGATTATTTAAATATTAAATT
6932530 A
1 A
6932531 GATCTTACCA
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
46 36 0.42
47 2 0.02
48 6 0.07
49 1 0.01
50 40 0.47
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (46 bp):
AAATTTATAATCATACCAAACTATTAGATTATTTAAATATTAAATT
Found at i:6939155 original size:84 final size:84
Alignment explanation
Indices: 6939025--6939183 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
6939015 AGTCGTTCGG
* * * * *
6939025 GCAAGATTCGTAAGTCTTACGAGCTAAATTTATTTTAGAGTCAAGATTTGTAAGACCTTTGGGCT
1 GCAAGATTCGTAAGTCTTACGAGCTAAATTTATTTTAGAGTAAAGATTTATAAGACCTATGAGCA
6939090 TAATCTCTAAATCCTCCAA
66 TAATCTCTAAATCCTCCAA
* * * * * *
6939109 GCAAGATGT-GTAAGTTTTTCGAGTTAAATTTCTTTTTGTGTAAAGATTTATAAGACCTATGAGC
1 GCAAGAT-TCGTAAGTCTTACGAGCTAAATTTATTTTAGAGTAAAGATTTATAAGACCTATGAGC
6939173 ATAATCTCTAA
65 ATAATCTCTAA
6939184 TACTTTTATG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 62 0.98
85 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (84 bp):
GCAAGATTCGTAAGTCTTACGAGCTAAATTTATTTTAGAGTAAAGATTTATAAGACCTATGAGCA
TAATCTCTAAATCCTCCAA
Found at i:6940460 original size:100 final size:98
Alignment explanation
Indices: 6940334--6940656 Score: 350
Period size: 100 Copynumber: 3.2 Consensus size: 98
6940324 GAGAATTTTA
*
6940334 TAATGAATTTTTTGAAAAAAATAATAATAAAATTTTCAATCATACCAAACTATTGAAGGGTTTAA
1 TAATGAATTTTTT-AAAATAATAATAATAAAATTTT-AATC-TACCAAACTATTGAAGGGTTTAA
* *
6940399 ATCTTAGATTAAGTTTTATCACATTATTAGAGGACT
63 ATCTTAGATTAAGTTTTATCAAAATATTAGAGGACT
* *
6940435 TAATGAATTTTTTAAAATAATAATAATAAAATTGTTAATCTCACTAAACTATTGGAGGAG-TTAA
1 TAATGAATTTTTTAAAATAATAATAATAAAATT-TTAATCT-ACCAAACTATTGAAGG-GTTTAA
* * *
6940499 ATCTTAAATTAAGTATTATCAAAATATTTGAGGACT
63 ATCTTAGATTAAGTTTTATCAAAATATTAGAGGACT
*
6940535 TAATGAATTTTTTATAAA-AAGTAATAATAAAATTTTTAATCCTACCAAACTATTGGAA-GATTT
1 TAATGAATTTTTTA-AAATAA-TAATAATAAAA-TTTTAAT-CTACCAAACTATT-GAAGGGTTT
* * * * *
6940598 AAATATT-GAATT-AGATTTTATCAAACTATTGGAAGATT
61 AAATCTTAG-ATTAAG-TTTTATCAAAATATTAGAGGACT
*
6940636 TAATAAATTTTTTTAAAATAA
1 TAATGAA-TTTTTTAAAATAA
6940657 ATTTTGTACA
Statistics
Matches: 190, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
99 1 0.01
100 90 0.47
101 84 0.44
102 15 0.08
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (98 bp):
TAATGAATTTTTTAAAATAATAATAATAAAATTTTAATCTACCAAACTATTGAAGGGTTTAAATC
TTAGATTAAGTTTTATCAAAATATTAGAGGACT
Found at i:6940610 original size:101 final size:98
Alignment explanation
Indices: 6940334--6940653 Score: 358
Period size: 101 Copynumber: 3.2 Consensus size: 98
6940324 GAGAATTTTA
* * *
6940334 TAATGAATTTTTTGAAAAAAATAATAATAAAATTTTCAATCATACCAAACTATT-GAAGGGTTTA
1 TAATGAATTTTTT--AAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAA-GATTTA
* *
6940398 AATCTTAGATTAAGTTTTATCACATTATTAGAGGACT
63 AATCTTA-ATTAAGTTTTATCAAAATATTAGAGGACT
* * * *
6940435 TAATGAATTTTTTAAAATAATAATAATAAAATTGTTAAT-CTCACTAAACTATTGGAGGAGTTAA
1 TAATGAATTTTTTAAAA-AATAATAATAAAATTTTTAATCCT-ACCAAACTATTGGAAGATTTAA
* *
6940499 ATCTTAAATTAAGTATTATCAAAATATTTGAGGACT
64 ATCTT-AATTAAGTTTTATCAAAATATTAGAGGACT
6940535 TAATGAATTTTTTATAAAAAGTAATAATAAAATTTTTAATCCTACCAAACTATTGGAAGATTTAA
1 TAATGAATTTTTTA-AAAAA-TAATAATAAAATTTTTAATCCTACCAAACTATTGGAAGATTTAA
* * * * *
6940600 ATATTGAATT-AGATTTTATCAAACTATTGGAAGATT
64 ATCTT-AATTAAG-TTTTATCAAAATATTAGAGGACT
* *
6940636 TAATAAATTTTTTTAAAA
1 TAATGAATTTTTTAAAAA
6940654 TAAATTTTGT
Statistics
Matches: 187, Mismatches: 24, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
99 5 0.03
100 86 0.46
101 94 0.50
102 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (98 bp):
TAATGAATTTTTTAAAAAATAATAATAAAATTTTTAATCCTACCAAACTATTGGAAGATTTAAAT
CTTAATTAAGTTTTATCAAAATATTAGAGGACT
Found at i:6942121 original size:22 final size:22
Alignment explanation
Indices: 6942096--6942167 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
6942086 TATAGTTGTT
*
6942096 AATCATAAATAACTTAGTAATA
1 AATCATAAATAACTTAGTAGTA
* *
6942118 AATCA-ATGATAACTTTGTAGTA
1 AATCATA-AATAACTTAGTAGTA
* *
6942140 AATTAGT-AATAACTTAATAGTA
1 AATCA-TAAATAACTTAGTAGTA
6942162 AATCAT
1 AATCAT
6942168 TTTTATTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
22 37 0.95
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (22 bp):
AATCATAAATAACTTAGTAGTA
Found at i:6942331 original size:51 final size:51
Alignment explanation
Indices: 6942234--6942331 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
6942224 GTAAATTAGT
* * * * * * * * *
6942234 ATAACTTAGTAGTATATCATTAATAAGTTAATAGTTAATCAGTGATAATTG
1 ATAACTTAATAATAAATCATGAATAACTAAATAGTAAAACAATGATAATTG
6942285 ATAACTTAATAATAAATCATGAATAACTAAATAGTAAAACAATGATA
1 ATAACTTAATAATAAATCATGAATAACTAAATAGTAAAACAATGATA
6942332 GTTTAGTAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (51 bp):
ATAACTTAATAATAAATCATGAATAACTAAATAGTAAAACAATGATAATTG
Found at i:6942505 original size:22 final size:22
Alignment explanation
Indices: 6942433--6942505 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
6942423 AGTAATTTTA
* *
6942433 TAGTAAAT-AACTAAAAACTTAG
1 TAGTAAATCAA-TAATAACATAG
* *
6942455 TAGTAAATCAATGATAACATAA
1 TAGTAAATCAATAATAACATAG
* *
6942477 TAATAAAT-ACATAATAATATAG
1 TAGTAAATCA-ATAATAACATAG
6942499 TAGTAAA
1 TAGTAAA
6942506 CTATAGATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.03
22 37 0.93
23 2 0.05
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (22 bp):
TAGTAAATCAATAATAACATAG
Found at i:6942578 original size:22 final size:22
Alignment explanation
Indices: 6942448--6942591 Score: 93
Period size: 22 Copynumber: 6.7 Consensus size: 22
6942438 AATAACTAAA
* *
6942448 AACTTAGTAGTAAATCAATGAT
1 AACTTAGTAATAAATCAATAAT
* *
6942470 AACATAATAATAAAT-ACATAAT
1 AACTTAGTAATAAATCA-ATAAT
* *
6942492 AA-TATAGTAGTAAA-CTATAGAT
1 AACT-TAGTAATAAATCAATA-AT
* *
6942514 AACTTATTAA-AAA--AATGAT
1 AACTTAGTAATAAATCAATAAT
* * * *
6942533 AACTTAGTAATTAATTATTGAT
1 AACTTAGTAATAAATCAATAAT
*
6942555 AATTTAGTAATAAATCAATAAT
1 AACTTAGTAATAAATCAATAAT
*
6942577 AACTCAGTAATAAAT
1 AACTTAGTAATAAAT
6942592 TTGTGATAAC
Statistics
Matches: 92, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
19 11 0.12
20 4 0.04
21 7 0.08
22 69 0.75
23 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (22 bp):
AACTTAGTAATAAATCAATAAT
Found at i:6942586 original size:44 final size:44
Alignment explanation
Indices: 6942511--6942616 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
6942501 GTAAACTATA
* * * *
6942511 GATAACTTATTAA-AAA--AATGATAACTTAGTAATTAATTAT-T
1 GATAACTTAATAATAAATCAATAATAACTCAGTAATAAATT-TGT
* *
6942552 GATAATTTAGTAATAAATCAATAATAACTCAGTAATAAATTTGT
1 GATAACTTAATAATAAATCAATAATAACTCAGTAATAAATTTGT
*
6942596 GATAACTTAATAGTAAATCAA
1 GATAACTTAATAATAAATCAA
6942617 ATTTACTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 11 0.21
42 3 0.06
43 1 0.02
44 38 0.72
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (44 bp):
GATAACTTAATAATAAATCAATAATAACTCAGTAATAAATTTGT
Found at i:6942600 original size:22 final size:21
Alignment explanation
Indices: 6942529--6942613 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
6942519 ATTAAAAAAA
*
6942529 TGATAACTTAGTAATTAATTAT
1 TGATAACTTAGTAATAAATT-T
* **
6942551 TGATAATTTAGTAATAAATCAA
1 TGATAACTTAGTAATAAAT-TT
* *
6942573 TAATAACTCAGTAATAAATTT
1 TGATAACTTAGTAATAAATTT
* *
6942594 GTGATAACTTAATAGTAAAT
1 -TGATAACTTAGTAATAAAT
6942614 CAAATTTACT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (21 bp):
TGATAACTTAGTAATAAATTT
Found at i:6942699 original size:11 final size:11
Alignment explanation
Indices: 6942680--6942722 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6942670 CTTGGTAGTA
*
6942680 ATAAATTAATG
1 ATAACTTAATG
6942691 ATAACTTAATG
1 ATAACTTAATG
*
6942702 ATAA-ATAATTG
1 ATAACTTAA-TG
6942713 ATAACTTAAT
1 ATAACTTAAT
6942723 AGTTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.11
11 21 0.78
12 3 0.11
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (11 bp):
ATAACTTAATG
Found at i:6942714 original size:22 final size:21
Alignment explanation
Indices: 6942680--6942743 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
6942670 CTTGGTAGTA
6942680 ATAAATTAA-TGATAACTTAAT
1 ATAAA-TAATTGATAACTTAAT
6942701 GATAAATAATTGATAACTTAAT
1 -ATAAATAATTGATAACTTAAT
* *
6942723 AGTTAATAATTGAAAACTTAA
1 A-TAAATAATTGATAACTTAA
6942744 AAGTAAGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.11
22 34 0.89
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (21 bp):
ATAAATAATTGATAACTTAAT
Found at i:6942820 original size:29 final size:30
Alignment explanation
Indices: 6942779--6942842 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
6942769 GTAAATTATC
* *
6942779 AATAATTTAATAGTCAATCA-GTGATAAC-T
1 AATAACTTAATAGTAAATCATG-GATAACTT
6942808 AATAACTTAATAGTAAATCATGGATAACTT
1 AATAACTTAATAGTAAATCATGGATAACTT
6942838 AATAA
1 AATAA
6942843 TAAATCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (30 bp):
AATAACTTAATAGTAAATCATGGATAACTT
Found at i:6942825 original size:51 final size:53
Alignment explanation
Indices: 6942756--6942858 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 53
6942746 GTAAGTCCGT
* * * * *
6942756 ATAACTTATAGTAGTAAATTATCAATAATTTAATAGTCAATCAGTGATAACTA
1 ATAACTTATAGTAGTAAATCATCAATAACTTAATAATAAATCAATGATAACTA
**
6942809 ATAACTTA-A-TAGTAAATCATGGATAACTTAATAATAAATCAATGATAACT
1 ATAACTTATAGTAGTAAATCATCAATAACTTAATAATAAATCAATGATAACT
6942859 TAGTATTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 34 0.79
52 1 0.02
53 8 0.19
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.34
Consensus pattern (53 bp):
ATAACTTATAGTAGTAAATCATCAATAACTTAATAATAAATCAATGATAACTA
Found at i:6942837 original size:22 final size:22
Alignment explanation
Indices: 6942809--6942890 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
6942799 GTGATAACTA
6942809 ATAACTTAATAGTAAATCATGG
1 ATAACTTAATAGTAAATCATGG
*
6942831 ATAACTTAATAATAAATCAAT-G
1 ATAACTTAATAGTAAATC-ATGG
* * * *
6942853 ATAACTTAGTATTTAATTATGG
1 ATAACTTAATAGTAAATCATGG
* *
6942875 ATAATTTAGTAGTAAA
1 ATAACTTAATAGTAAA
6942891 CTAGTAACAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 2 0.04
22 46 0.92
23 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATGG
Found at i:6942986 original size:22 final size:22
Alignment explanation
Indices: 6942925--6943024 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
6942915 ATCGAAAACT
* * *
6942925 TAATAATAAATCAATGATAACA
1 TAATAATAAATTATTAATAACA
* *
6942947 TAATGATAAATGCA-TAATAACA
1 TAATAATAAAT-TATTAATAACA
* **
6942969 TAATAGTAAATTATTAATAATT
1 TAATAATAAATTATTAATAACA
* *
6942991 TAGTAATAAATTATTAATAACT
1 TAATAATAAATTATTAATAACA
*
6943013 TAGTAATAAATT
1 TAATAATAAATT
6943025 GATAAGTTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.02
22 63 0.95
23 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (22 bp):
TAATAATAAATTATTAATAACA
Found at i:6942999 original size:11 final size:11
Alignment explanation
Indices: 6942975--6943024 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
6942965 AACATAATAG
*
6942975 TAAATTATTAA
1 TAAATTAGTAA
*
6942986 TAATTTAGTAA
1 TAAATTAGTAA
*
6942997 TAAATTATTAA
1 TAAATTAGTAA
*
6943008 TAACTTAGTAA
1 TAAATTAGTAA
6943019 TAAATT
1 TAAATT
6943025 GATAAGTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:6943231 original size:22 final size:22
Alignment explanation
Indices: 6943183--6943232 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
6943173 AAAAATTATC
* * *
6943183 AATAACTTAGTAGTAATTCATT
1 AATAACTTAATAGTAAATAATT
* *
6943205 CATAACTTAATTGTAAATAATT
1 AATAACTTAATAGTAAATAATT
6943227 AATAAC
1 AATAAC
6943233 ATAGCAATTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
AATAACTTAATAGTAAATAATT
Found at i:6943254 original size:23 final size:22
Alignment explanation
Indices: 6943228--6943277 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
6943218 TAAATAATTA
*
6943228 ATAACATAGCAATTAAATCAATG
1 ATAACATAGCAA-AAAATCAATG
** *
6943251 ATAATTTAGCAAAAAATCATTG
1 ATAACATAGCAAAAAATCAATG
6943273 ATAAC
1 ATAAC
6943278 TTAATTATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (22 bp):
ATAACATAGCAAAAAATCAATG
Found at i:6943980 original size:13 final size:13
Alignment explanation
Indices: 6943962--6943986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6943952 ATTGAAATTT
6943962 CATCGATAAAATC
1 CATCGATAAAATC
6943975 CATCGATAAAAT
1 CATCGATAAAAT
6943987 TCATTGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CATCGATAAAATC
Found at i:6944194 original size:20 final size:20
Alignment explanation
Indices: 6944169--6944212 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6944159 ATATCCATCT
6944169 ATCCATAAAACATCAATAAC
1 ATCCATAAAACATCAATAAC
* *
6944189 ATCCATAAAGCATCCATAAC
1 ATCCATAAAACATCAATAAC
6944209 ATCC
1 ATCC
6944213 TTCAAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (20 bp):
ATCCATAAAACATCAATAAC
Found at i:6945242 original size:102 final size:102
Alignment explanation
Indices: 6945025--6945411 Score: 370
Period size: 102 Copynumber: 3.8 Consensus size: 102
6945015 ATATACTATT
* * * * *
6945025 TAGTTCATCAATAATTACAATACACAACTGTCATCATAATGCAAAATACACAATAGTTTTCACAT
1 TAGTTCATCAACAATCACAATACACAACTATCATCACAATGCAAAATACGCAATAGTTTTCACAT
* * ***
6945090 TTCACATATGTGATCCTA-T-CATGATATACTATTTGGA
66 TTCACAAATGTGATCTTATTGCA--ATATACTATAAAGA
* * * * *
6945127 TAATTCATCAACAA-CAATAATACACAA-TCATCATCATAATGCAAAATACGCAATAATTTTTAC
1 TAGTTCATCAACAATC-ACAATACACAACT-ATCATCACAATGCAAAATACGCAATAGTTTTCAC
***
6945190 ATTTTGTAAATGTGATCTTATTGCAATATACTATAAAGA
64 ATTTCACAAATGTGATCTTATTGCAATATACTATAAAGA
* * * * * ** *
6945229 TAGTTGATAAACAATCACAATATAAAACTATTATTGCAATGCAAAATACGCAATAGTTTTTACAT
1 TAGTTCATCAACAATCACAATACACAACTATCATCACAATGCAAAATACGCAATAGTTTTCACAT
* * * *
6945294 TTCACAAATATAAT-TTCATTGCATTATACTATAAAAA
66 TTCACAAATGTGATCTT-ATTGCAATATACTATAAAGA
* * * * *
6945331 TAGTTCATCAACAATCACAATACACAACTGTCATTACAATGCAAAATATGTAATAGTTTTCAAAT
1 TAGTTCATCAACAATCACAATACACAACTATCATCACAATGCAAAATACGCAATAGTTTTCACAT
*
6945396 TTCGCAAATGTGATCT
66 TTCACAAATGTGATCT
6945412 CATCATGATG
Statistics
Matches: 229, Mismatches: 48, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
101 3 0.01
102 220 0.96
103 4 0.02
104 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (102 bp):
TAGTTCATCAACAATCACAATACACAACTATCATCACAATGCAAAATACGCAATAGTTTTCACAT
TTCACAAATGTGATCTTATTGCAATATACTATAAAGA
Done.