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 55 of 195
Found at i:11463578 original size:17 final size:17
Alignment explanation
Indices: 11463558--11463624 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
11463548 ATTTTTTTGA
11463558 TTTTGATTTTATTTTAT
1 TTTTGATTTTATTTTAT
* **
11463575 TTTTAAGCTTATTTTAT
1 TTTTGATTTTATTTTAT
11463592 TTTT-ATATTT-TTTTAT
1 TTTTGAT-TTTATTTTAT
*
11463608 TTTACTGGTTTTATTTT
1 TTT--TGATTTTATTTT
11463625 TATATGAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.26
17 20 0.51
18 4 0.10
19 5 0.13
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTGATTTTATTTTAT
Found at i:11463624 original size:5 final size:5
Alignment explanation
Indices: 11463544--11463611 Score: 50
Period size: 5 Copynumber: 13.0 Consensus size: 5
11463534 ATCGTAGGTT
* **
11463544 TTTTA TTTT- TTTGA TTTTGA TTTTA TTTTA TTTTTAA GCTTA TTTTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA -TTTT-A TTTTA TTTTA
11463591 TTTTTA TATTT- TTTTA TTTTA
1 -TTTTA T-TTTA TTTTA TTTTA
11463612 CTGGTTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 6 0.12
5 24 0.48
6 19 0.38
7 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:11463727 original size:17 final size:17
Alignment explanation
Indices: 11463707--11463764 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
11463697 AAAAACAAAT
11463707 ATAAAAAATCTTTCCAA
1 ATAAAAAATCTTTCCAA
*
11463724 ATAAAAAAATCTTTTTCAA
1 AT-AAAAAATC-TTTCCAA
*
11463743 AT-AAAAATCTTTACAAA
1 ATAAAAAATCTTT-CCAA
11463760 ATAAA
1 ATAAA
11463765 TTCATGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 3 0.09
17 13 0.38
18 10 0.29
19 8 0.24
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAATCTTTCCAA
Found at i:11463732 original size:18 final size:19
Alignment explanation
Indices: 11463702--11463749 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
11463692 TTAAAAAAAA
11463702 CAAATATAAAAAATC-TTTC
1 CAAATA-AAAAAATCTTTTC
*
11463721 CAAATAAAAAAATCTTTTT
1 CAAATAAAAAAATCTTTTC
11463740 CAAATAAAAA
1 CAAATAAAAA
11463750 TCTTTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.29
Consensus pattern (19 bp):
CAAATAAAAAAATCTTTTC
Found at i:11472734 original size:25 final size:27
Alignment explanation
Indices: 11472705--11472756 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
11472695 TTATTTTGTA
*
11472705 TTATTTTTTTTA-TATT-TTAGGTATT
1 TTATTTTATTTATTATTATTAGGTATT
*
11472730 TTATTTTATTTATTATTATTATGTATT
1 TTATTTTATTTATTATTATTAGGTATT
11472757 AATATATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (27 bp):
TTATTTTATTTATTATTATTAGGTATT
Found at i:11472741 original size:9 final size:10
Alignment explanation
Indices: 11472729--11472861 Score: 62
Period size: 11 Copynumber: 12.6 Consensus size: 10
11472719 TTTTAGGTAT
11472729 TTTATT-TTA
1 TTTATTATTA
11472738 TTTATTATTA
1 TTTATTATTA
11472748 -TTATGTATTAA
1 TTTAT-TATT-A
*
11472759 TATATGTA-TA
1 TTTAT-TATTA
11472769 CTTTA-T-TTA
1 -TTTATTATTA
* *
11472778 TTTATTTTTT
1 TTTATTATTA
*
11472788 TGTTAATATTA
1 T-TTATTATTA
11472799 TATATATT-TTA
1 T-T-TATTATTA
11472810 TTTATATAGTTA
1 TTTAT-TA-TTA
*
11472822 TATATTATTA
1 TTTATTATTA
11472832 TTATATTATATA
1 TT-TATTAT-TA
11472844 TTTATTTATTA
1 TTTA-TTATTA
11472855 TTATATT
1 TT-TATT
11472862 TAATTTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
8 4 0.04
9 17 0.18
10 17 0.18
11 33 0.34
12 26 0.27
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTATTATTA
Found at i:11472786 original size:74 final size:74
Alignment explanation
Indices: 11472708--11472853 Score: 174
Period size: 77 Copynumber: 2.0 Consensus size: 74
11472698 TTTTGTATTA
* * * *
11472708 TTTTTT-TT-ATATTTTAGGTATTTTATTTTATTTA-TTAT-TATTATGTATTAATATATGTATA
1 TTTTTTGTTAATATTATAGATATTTTA-TTTATATAGTTATATATTAT-TATT-ATAT-TATATA
11472769 CTTTATTTATTTAT
62 -TTTATTTATTTAT
*
11472783 TTTTTTGTTAATATTATATATATTTTATTTATATAGTTATATATTATTATTATATTATATATTTA
1 TTTTTTGTTAATATTATAGATATTTTATTTATATAGTTATATATTATTATTATATTATATATTTA
11472848 TTTATT
66 TTTATT
11472854 ATTATATTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
74 10 0.16
75 11 0.18
76 13 0.21
77 22 0.35
78 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (74 bp):
TTTTTTGTTAATATTATAGATATTTTATTTATATAGTTATATATTATTATTATATTATATATTTA
TTTATTTAT
Found at i:11472810 original size:36 final size:36
Alignment explanation
Indices: 11472731--11472861 Score: 117
Period size: 36 Copynumber: 3.7 Consensus size: 36
11472721 TTAGGTATTT
* *
11472731 TATTTTATTTA-TTATTATTATGTATTAATA-TATGTA
1 TATTTTATTTATTTATT-TT-TATATTAATATTATATA
* * *
11472767 TACTTTATTTATTTATTTTTTTGTTAATATTATATA
1 TATTTTATTTATTTATTTTTATATTAATATTATATA
* * * *
11472803 TATTTTATTTATATAGTTATATATTATTATTATAT-
1 TATTTTATTTATTTATTTTTATATTAATATTATATA
* *
11472838 TA-TATATTTATTTATTATTATATT
1 TATTTTATTTATTTATTTTTATATT
11472862 TAATTTTTTA
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
34 17 0.22
35 10 0.13
36 45 0.58
37 5 0.06
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (36 bp):
TATTTTATTTATTTATTTTTATATTAATATTATATA
Found at i:11472846 original size:34 final size:33
Alignment explanation
Indices: 11472794--11472861 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 33
11472784 TTTTTGTTAA
11472794 TATTATATATATTTTATTTATATAGTTA-TATAT
1 TATTATATATATTTTATTTATATA-TTATTATAT
*
11472827 TATTAT-TATATTATATATTTATTTATTATTATAT
1 TATTATATATATT-T-TATTTATATATTATTATAT
11472861 T
1 T
11472862 TAATTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 6 0.19
33 10 0.32
34 15 0.48
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (33 bp):
TATTATATATATTTTATTTATATATTATTATAT
Found at i:11472848 original size:26 final size:25
Alignment explanation
Indices: 11472796--11472863 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
11472786 TTTGTTAATA
11472796 TTATATA-TATT-TTATTTATATAG
1 TTATATATTATTATTATTTATATAG
*
11472819 TTATATATTATTATTATATTATATAT
1 TTATATATTATTATTAT-TTATATAG
*
11472845 TTATTTATTATTA-TATTTA
1 TTATATATTATTATTATTTA
11472864 ATTTTTTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.17
24 7 0.17
25 7 0.17
26 19 0.47
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (25 bp):
TTATATATTATTATTATTTATATAG
Found at i:11472892 original size:45 final size:42
Alignment explanation
Indices: 11472843--11472936 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
11472833 TATATTATAT
**
11472843 ATTTATTTATTATTATATTTAATTTTTTATCTGTAATTTTTTTGG
1 ATTTATTTATTATTATATTT--TTAATTATCTGTAATTTTTTT-G
* * * *
11472888 ATTTATTTCTTATTTTATTTTTAATTATCTGTTATTTTTTTT
1 ATTTATTTATTATTATATTTTTAATTATCTGTAATTTTTTTG
11472930 ATTTATT
1 ATTTATT
11472937 CGTTTATCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 7 0.16
43 18 0.42
45 18 0.42
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.70
Consensus pattern (42 bp):
ATTTATTTATTATTATATTTTTAATTATCTGTAATTTTTTTG
Found at i:11472951 original size:43 final size:43
Alignment explanation
Indices: 11472869--11472952 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
11472859 ATTTAATTTT
* *
11472869 TTATCTGTAATTTTTTTGGATTTATTTCTTATTTTATTTTTAA
1 TTATCTGTAATTTTTTTGGATTTATTTCTTATCTGATTTTTAA
* *
11472912 TTATCTGTTATTTTTTT-TATTTA-TTCGTTTATCTGATTTTT
1 TTATCTGTAATTTTTTTGGATTTATTTC--TTATCTGATTTTT
11472953 TTGTTTATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 3 0.09
42 5 0.14
43 27 0.77
ACGTcount: A:0.18, C:0.06, G:0.07, T:0.69
Consensus pattern (43 bp):
TTATCTGTAATTTTTTTGGATTTATTTCTTATCTGATTTTTAA
Found at i:11472968 original size:25 final size:23
Alignment explanation
Indices: 11472923--11472977 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
11472913 TATCTGTTAT
*
11472923 TTTTTTTATTTATTCGTTTATCTGA
1 TTTTTTTATTTATTCGATTAT-T-A
*
11472948 TTTTTTTGTTTA-TCTGATTATTA
1 TTTTTTTATTTATTC-GATTATTA
11472971 TTTTTTT
1 TTTTTTT
11472978 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.30
24 3 0.11
25 16 0.59
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTTATTCGATTATTA
Found at i:11485791 original size:8 final size:8
Alignment explanation
Indices: 11485771--11485837 Score: 91
Period size: 8 Copynumber: 8.0 Consensus size: 8
11485761 ATACTATGCT
11485771 TGAAAAAA
1 TGAAAAAA
11485779 T-AAAAAA
1 TGAAAAAA
11485786 TGAAAAAAA
1 TG-AAAAAA
11485795 TGAAAAAAA
1 TG-AAAAAA
11485804 TGAAAAATGA
1 TGAAAAA--A
11485814 TGAAAAAA
1 TGAAAAAA
11485822 TGAAAAAA
1 TGAAAAAA
11485830 TGAAAAAA
1 TGAAAAAA
11485838 AAGAAAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.13
8 23 0.42
9 17 0.31
10 8 0.15
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (8 bp):
TGAAAAAA
Found at i:11485844 original size:8 final size:8
Alignment explanation
Indices: 11485773--11485847 Score: 60
Period size: 8 Copynumber: 8.8 Consensus size: 8
11485763 ACTATGCTTG
*
11485773 AAAAAATA
1 AAAAAAGA
*
11485781 AAAAATGA
1 AAAAAAGA
11485789 AAAAAATGA
1 AAAAAA-GA
11485798 AAAAAATGA
1 AAAAAA-GA
*
11485807 AAAATGATGA
1 AAAA--AAGA
*
11485817 AAAAATGA
1 AAAAAAGA
*
11485825 AAAAATGAA
1 AAAAAAG-A
11485834 AAAAAAGA
1 AAAAAAGA
11485842 AAAAAA
1 AAAAAA
11485848 AGTGAATGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
8 29 0.50
9 22 0.38
10 6 0.10
11 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAAGA
Found at i:11485849 original size:9 final size:9
Alignment explanation
Indices: 11485780--11485847 Score: 95
Period size: 9 Copynumber: 7.7 Consensus size: 9
11485770 TTGAAAAAAT
11485780 AAAAAATGA
1 AAAAAATGA
11485789 AAAAAATGA
1 AAAAAATGA
11485798 AAAAAATGA
1 AAAAAATGA
*
11485807 AAAATGATG-
1 AAAA-AATGA
11485816 AAAAAATG-
1 AAAAAATGA
11485824 AAAAAATGA
1 AAAAAATGA
*
11485833 AAAAAAAGA
1 AAAAAATGA
11485842 AAAAAA
1 AAAAAA
11485848 AGTGAATGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
8 11 0.20
9 40 0.74
10 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:11486919 original size:49 final size:50
Alignment explanation
Indices: 11486863--11486976 Score: 151
Period size: 52 Copynumber: 2.3 Consensus size: 50
11486853 ATTGTCAAGG
* * *
11486863 AGCAATTTACTTTCCA-A-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGA
1 AGCAATTTACTTTCAATACTTTTC-AAAGTCATGGTGCCTCCGTTTAGAGA
*
11486912 AGCAATTTACTTTTCAATTACTTTTCAAAGTCATGGTGCCTCCGTTTAGAGG
1 AGCAATTTAC-TTTCAA-TACTTTTCAAAGTCATGGTGCCTCCGTTTAGAGA
11486964 AGCAATTTACTTT
1 AGCAATTTACTTT
11486977 TCAAATCGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
49 10 0.18
50 5 0.09
51 3 0.05
52 34 0.60
53 5 0.09
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (50 bp):
AGCAATTTACTTTCAATACTTTTCAAAGTCATGGTGCCTCCGTTTAGAGA
Found at i:11486959 original size:52 final size:53
Alignment explanation
Indices: 11486880--11486980 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 53
11486870 TACTTTCCAA
* *
11486880 TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAATTAC
1 TTTTCAAAAGTCATGGTGCCTCCGTTTAGAGAAGCAATTTACTTTTCAATTAC
*
11486933 TTTTC-AAAGTCATGGTGCCTCCGTTTAGAGGAGCAATTTACTTTTCAA
1 TTTTCAAAAGTCATGGTGCCTCCGTTTAGAGAAGCAATTTACTTTTCAA
11486981 ATCGTGGGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 40 0.89
53 5 0.11
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (53 bp):
TTTTCAAAAGTCATGGTGCCTCCGTTTAGAGAAGCAATTTACTTTTCAATTAC
Found at i:11487187 original size:41 final size:41
Alignment explanation
Indices: 11487140--11487278 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 41
11487130 CTGTTTAAAG
11487140 GAGCAA-TTACTTTTCCCAAAGTCCTGGTGCCTCTGTTAAGA
1 GAGCAATTTAC-TTTCCCAAAGTCCTGGTGCCTCTGTTAAGA
* *
11487181 GAGCAATTTACTTT--CAAAGTCGTGGTGCCTCTGTTTAGAGG
1 GAGCAATTTACTTTCCCAAAGTCCTGGTGCCTCTG-TTA-AGA
*
11487222 GAGCAATTTTACTTTCCCAAAGTCCTGGGCTGCCATCTGTCTTAGA
1 GAGCAA-TTTACTTTCCCAAAGTCCT-GG-TGCC-TCTGT-TAAGA
11487268 GGAGCAATTTA
1 -GAGCAATTTA
11487279 TTTTTTCATA
Statistics
Matches: 82, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
39 18 0.22
40 3 0.04
41 17 0.21
42 12 0.15
44 8 0.10
45 2 0.02
46 11 0.13
47 11 0.13
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
GAGCAATTTACTTTCCCAAAGTCCTGGTGCCTCTGTTAAGA
Found at i:11487292 original size:47 final size:43
Alignment explanation
Indices: 11486933--11487357 Score: 224
Period size: 42 Copynumber: 9.8 Consensus size: 43
11486923 TTTCAATTAC
* * *
11486933 TTTTCAAAGTCATGG-TGCCTCCGTTTAGAGGAGCAATTTA-C
1 TTTTCAAAGTCCTGGCTGCCTCTGTTTAGAGGAGCAATTTATT
* * *
11486974 TTTTCAAA-TCGTGGGGCT-CTTCTGTTTAGAGGAGTCAATGTTA-C
1 TTTTCAAAGTCCT--GGCTGCCTCTGTTTAGAGGAG-CAAT-TTATT
* * *
11487018 TTTTCAAAGTCGTGGCTTACCTCTGCTTTAGAGGAGCAATGTTA-C
1 TTTTCAAAGTCCTGGC-TGCCTCTG-TTTAGAGGAGCAAT-TTATT
* * **
11487063 TTTTCAAAGT-CGGGCCTGCC-CTCGTTT-G-GCGAGCAATGGTAAA
1 TTTTCAAAGTCCTGG-CTGCCTCT-GTTTAGAG-GAGCAAT-TTATT
* * *
11487106 CTTTCAAAAGTGCGTGG-TGCCCTCCTGTTTAAAGGAGCAA-TTACTT
1 TTTTC-AAAGT-CCTGGCTG-CCT-CTGTTTAGAGGAGCAATTTA-TT
** *
11487152 TTCCCAAAGTCCTGG-TGCCTCTGTTAAGA-GAGCAATTTA--
1 TTTTCAAAGTCCTGGCTGCCTCTGTTTAGAGGAGCAATTTATT
* * *
11487191 CTTTCAAAGTCGTGG-TGCCTCTGTTTAGAGGGAGCAATTTTACT
1 TTTTCAAAGTCCTGGCTGCCTCTGTTTAGA-GGAGCAA-TTTATT
**
11487235 TTCCCAAAGTCCTGGGCTGCCATCTGTCTTAGAGGAGCAATTTATT
1 TTTTCAAAGTCCT-GGCTGCC-TCTGT-TTAGAGGAGCAATTTATT
* * * *
11487281 TTTTCATAAGTCGTTGCAG-CTCTGTTTAGAAGA-CAATTTATT
1 TTTTCA-AAGTCCTGGCTGCCTCTGTTTAGAGGAGCAATTTATT
* * *
11487323 TTTTCAAAGTCGTTG-AGCCTTCTGTTTAGAGGAGC
1 TTTTCAAAGTCCTGGCTGCC-TCTGTTTAGAGGAGC
11487358 TTTGGTTAAA
Statistics
Matches: 309, Mismatches: 39, Indels: 70
0.74 0.09 0.17
Matches are distributed among these distances:
39 24 0.08
40 5 0.02
41 31 0.10
42 68 0.22
43 28 0.09
44 46 0.15
45 41 0.13
46 34 0.11
47 26 0.08
48 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (43 bp):
TTTTCAAAGTCCTGGCTGCCTCTGTTTAGAGGAGCAATTTATT
Found at i:11487381 original size:12 final size:12
Alignment explanation
Indices: 11487364--11487435 Score: 63
Period size: 12 Copynumber: 5.6 Consensus size: 12
11487354 GAGCTTTGGT
11487364 TAAAAAAAAAAA
1 TAAAAAAAAAAA
*
11487376 TAAAAACAAAAA
1 TAAAAAAAAAAA
*
11487388 CAAAAGCAAACAAAA
1 TAAAA--AAA-AAAA
*
11487403 AAAAAACAAAAAA
1 TAAAAA-AAAAAA
*
11487416 TATAAAAAAAAA
1 TAAAAAAAAAAA
11487428 TCAAAAAA
1 T-AAAAAA
11487436 TGAAAATGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 22 0.46
13 14 0.29
14 4 0.08
15 8 0.17
ACGTcount: A:0.83, C:0.08, G:0.01, T:0.07
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:11487398 original size:16 final size:15
Alignment explanation
Indices: 11487367--11487435 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 15
11487357 CTTTGGTTAA
*
11487367 AAAAAAAAATAAAAAC
1 AAAAAAAAA-ACAAAC
*
11487383 AAAAACAAAAGCAAAC
1 AAAAA-AAAAACAAAC
11487399 AAAAAAAAAACAAA-
1 AAAAAAAAAACAAAC
11487413 AAATATAAAAAA-AAATC
1 AAA-A-AAAAAACAAA-C
11487430 AAAAAA
1 AAAAAA
11487436 TGAAAATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.07
15 14 0.31
16 21 0.47
17 7 0.16
ACGTcount: A:0.84, C:0.09, G:0.01, T:0.06
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:11487413 original size:10 final size:10
Alignment explanation
Indices: 11487367--11487435 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
11487357 CTTTGGTTAA
*
11487367 AAAAAAAAATA
1 AAAAAAAAA-C
11487378 AAAACAAAAAC
1 AAAA-AAAAAC
**
11487389 AAAAGCAAAC
1 AAAAAAAAAC
11487399 AAAAAAAAAAC
1 -AAAAAAAAAC
*
11487410 AAAAAATATA-
1 AAAAAA-AAAC
*
11487420 AAAAAAAATC
1 AAAAAAAAAC
11487430 AAAAAA
1 AAAAAA
11487436 TGAAAATGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
9 1 0.02
10 22 0.48
11 18 0.39
12 5 0.11
ACGTcount: A:0.84, C:0.09, G:0.01, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:11487600 original size:8 final size:8
Alignment explanation
Indices: 11487583--11487615 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
11487573 GTGAGTCCAA
11487583 TTTTATTT
1 TTTTATTT
11487591 TTTT-TATT
1 TTTTAT-TT
11487599 TTTTATTT
1 TTTTATTT
11487607 TTTTATTT
1 TTTTATTT
11487615 T
1 T
11487616 ATTCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:11487607 original size:15 final size:16
Alignment explanation
Indices: 11487583--11487615 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
11487573 GTGAGTCCAA
11487583 TTTTATTTTTTTTATT
1 TTTTATTTTTTTTATT
11487599 TTTTA-TTTTTTTATT
1 TTTTATTTTTTTTATT
11487614 TT
1 TT
11487616 ATTCTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTATTTTTTTTATT
Found at i:11487625 original size:20 final size:21
Alignment explanation
Indices: 11487582--11487629 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
11487572 GGTGAGTCCA
* * *
11487582 ATTTTATTTTTTTTATTTTTT
1 ATTTTATTTATTTTATTCTAT
11487603 ATTTT-TTTATTTTATTCTAT
1 ATTTTATTTATTTTATTCTAT
11487623 ATTTTAT
1 ATTTTAT
11487630 GTATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTTATTTATTTTATTCTAT
Found at i:11487669 original size:4 final size:4
Alignment explanation
Indices: 11487656--11487757 Score: 58
Period size: 4 Copynumber: 25.8 Consensus size: 4
11487646 ATATCCTATG
* *
11487656 TATT TA-T TATT TATT TA-T TATT ACTATT TATT AATATA TATA TATT
1 TATT TATT TATT TATT TATT TATT --TATT TATT --TATT TATT TATT
*
11487702 TATT T-TT ATTTT TATT T-TT TATT T-TT TATTT TATT TATT T-TT GTA-T
1 TATT TATT -TATT TATT TATT TATT TATT TA-TT TATT TATT TATT -TATT
11487748 T-TT TATT TAT
1 TATT TATT TAT
11487758 CTAATTATAT
Statistics
Matches: 80, Mismatches: 3, Indels: 30
0.71 0.03 0.27
Matches are distributed among these distances:
3 19 0.24
4 48 0.60
5 6 0.08
6 7 0.09
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:11487709 original size:6 final size:6
Alignment explanation
Indices: 11487700--11487755 Score: 62
Period size: 6 Copynumber: 9.2 Consensus size: 6
11487690 TATATATATA
*
11487700 TTTATT TTTATT TTTATTT TTTATT TTT-TAT TTTATT TATT-TT TGTATT
1 TTTATT TTTATT TTTA-TT TTTATT TTTAT-T TTTATT T-TTATT TTTATT
11487749 TTTATT T
1 TTTATT T
11487756 ATCTAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 2 0.05
6 32 0.74
7 9 0.21
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:11487727 original size:8 final size:8
Alignment explanation
Indices: 11487710--11487751 Score: 52
Period size: 7 Copynumber: 5.4 Consensus size: 8
11487700 TTTATTTTTA
11487710 TTTTTA-T
1 TTTTTATT
11487717 TTTTTA-T
1 TTTTTATT
11487724 TTTTTATT
1 TTTTTATT
11487732 TTATTTATT
1 TT-TTTATT
*
11487741 TTTGTATT
1 TTTTTATT
11487749 TTT
1 TTT
11487752 ATTTATCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 13 0.41
8 11 0.34
9 8 0.25
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:11487796 original size:14 final size:14
Alignment explanation
Indices: 11487656--11487796 Score: 76
Period size: 14 Copynumber: 9.5 Consensus size: 14
11487646 ATATCCTATG
11487656 TATTTATTATTTATT
1 TATTTATTATTT-TT
* *
11487671 TA-TTATTACTATT
1 TATTTATTATTTTT
*
11487684 TATTAATATATATATATT
1 TATT--TAT-TAT-TTTT
11487702 TATTT-TTA-TTTT
1 TATTTATTATTTTT
*
11487714 TATTTTTTATTTTT
1 TATTTATTATTTTT
11487728 TATTTTATTTATTTTT
1 TA-TTTA-TTATTTTT
*
11487744 GTATTT-TTATTTATC
1 -TATTTATTATTT-TT
*
11487759 TAATTATATATCTGTTAT
1 TATTTAT-TAT-T-TT-T
11487777 TA-TTATTATTTTT
1 TATTTATTATTTTT
11487790 TATTTAT
1 TATTTAT
11487797 CCTATAATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 35
0.70 0.06 0.24
Matches are distributed among these distances:
12 8 0.08
13 10 0.10
14 32 0.32
15 9 0.09
16 21 0.21
17 10 0.10
18 11 0.11
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (14 bp):
TATTTATTATTTTT
Found at i:11488402 original size:3 final size:3
Alignment explanation
Indices: 11488394--11488434 Score: 55
Period size: 3 Copynumber: 12.7 Consensus size: 3
11488384 GAAACGAGAG
11488394 AGA AGA AGA AGA AGA AGA AGA AGA AGA GAGA GAGAA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA -AG-A AGA AG
11488435 GAGCTTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 27 0.75
4 8 0.22
5 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11488715 original size:15 final size:15
Alignment explanation
Indices: 11488691--11488828 Score: 78
Period size: 15 Copynumber: 8.6 Consensus size: 15
11488681 GCTCTAGGTT
11488691 TTTTTTTTTTAATTTA
1 TTTTTTTTTT-ATTTA
* *
11488707 TTTTGTTTTTGTTTA
1 TTTTTTTTTTATTTA
11488722 TTTATTTTTTTATTTA
1 TTT-TTTTTTTATTTA
***
11488738 TTAGATTAGGTTTATTTAA
1 TT---TTTTTTTTATTT-A
*
11488757 TATTCTTTTTATATTTA
1 T-TT-TTTTTTTATTTA
**
11488774 TTTTACTTTTATTTA
1 TTTTTTTTTTATTTA
** **
11488789 TTTTACTTTCCTTTA
1 TTTTTTTTTTATTTA
*
11488804 TTTTTTATTTATTTTA
1 TTTTTTTTTTA-TTTA
11488820 TTTTTTTTT
1 TTTTTTTTT
11488829 CACTTTTATT
Statistics
Matches: 92, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
15 35 0.38
16 35 0.38
17 3 0.03
18 15 0.16
19 3 0.03
20 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTTTTTTTTATTTA
Found at i:11488715 original size:16 final size:14
Alignment explanation
Indices: 11488692--11488849 Score: 73
Period size: 15 Copynumber: 9.9 Consensus size: 14
11488682 CTCTAGGTTT
11488692 TTTTTTTTTAATTTA
1 TTTTTTTTT-ATTTA
*
11488707 TTTTGTTTTTGTTTA
1 TTTT-TTTTTATTTA
11488722 TTTATTTTTTTATTTA
1 -TT-TTTTTTTATTTA
**
11488738 TTAGATTAGGTTTATTTAA
1 TT---TT-TTTTTATTT-A
11488757 TATTCTTTTTATATTTA
1 T-TT-TTTTT-TATTTA
*
11488774 TTTTACTTTTATTTA
1 TTTT-TTTTTATTTA
* **
11488789 TTTTACTTTCCTTTA
1 TTTT-TTTTTATTTA
11488804 TTTTTTATTTATTTTA
1 TTTTTT-TTTA-TTTA
11488820 TTTTTTTTTCACTTTTA
1 TTTTTTTTT-A--TTTA
*
11488837 TTTTGTTTTATTT
1 TTTTTTTTTATTT
11488850 TTTCTCTAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 31
0.72 0.08 0.19
Matches are distributed among these distances:
14 4 0.03
15 39 0.34
16 33 0.29
17 23 0.20
18 13 0.11
19 2 0.02
20 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTTTTTTATTTA
Found at i:11488724 original size:19 final size:18
Alignment explanation
Indices: 11488689--11488732 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
11488679 TAGCTCTAGG
11488689 TTTTTTTTTTTTAATTTA
1 TTTTTTTTTTTTAATTTA
11488707 TTTTGTTTTTGTTT-ATTTA
1 TTTT-TTTTT-TTTAATTTA
11488726 TTTTTTT
1 TTTTTTT
11488733 ATTTATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 14 0.58
20 3 0.12
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTAATTTA
Found at i:11488792 original size:26 final size:25
Alignment explanation
Indices: 11488763--11488850 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
11488753 TTAATATTCT
11488763 TTTTATATTTATTTTACTTTTATTTA
1 TTTTAT-TTTATTTTACTTTTATTTA
* ** *
11488789 TTTTACTTTCCTTTATTTTTTATTTA
1 TTTTATTTTATTTTA-CTTTTATTTA
* *
11488815 TTTTATTTTTTTTTCACTTTTATTTTG
1 TTTTATTTTATTTT-ACTTTTA-TTTA
11488842 TTTTATTTT
1 TTTTATTTT
11488851 TTCTCTAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 7 0.14
26 30 0.60
27 13 0.26
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTATTTTATTTTACTTTTATTTA
Found at i:11488793 original size:5 final size:5
Alignment explanation
Indices: 11488763--11488850 Score: 70
Period size: 5 Copynumber: 16.8 Consensus size: 5
11488753 TTAATATTCT
* * * *
11488763 TTTTA TATTTA TTTTA CTTTTA -TTTA TTTTA CTTTC CTTTA TTTTT TATTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA
* *
11488815 TTTTA TTTTT TTTTCA CTTTTA TTTTG TTTTA TTTT
1 TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
11488851 TTCTCTAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
4 4 0.06
5 44 0.66
6 15 0.22
7 4 0.06
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:11488948 original size:59 final size:59
Alignment explanation
Indices: 11488856--11489274 Score: 461
Period size: 59 Copynumber: 6.9 Consensus size: 59
11488846 ATTTTTTCTC
*
11488856 TAAAAATAAAATTTC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAATAAAATTTCAAAAAAAAGG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
11488915 TAAAAAATAAAATTTCAAAAAAGA-GTTTTTGAGGAAATGTTGAAAGTATCAATTTTCCT
1 T-AAAAATAAAATTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * * *
11488974 TAAAAATAAATTTTC-AAAAAAGGGTTTCTAAGGAAAAATTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** ** *
11489032 TAAAAACTAAAATTAAAAAAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAA-TAAAATT-TCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * ** *
11489093 TGAAAATCAAAGTTTTCTAAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAA-ATTTC-AAAAAAAAGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCT
*
11489155 TAAAAATAAAATTTC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATGAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAAGG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * ** *
11489214 TGAAAATCAAAGTTTTCTAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TAAAAAT-AAA-ATTTC---AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11489275 TCCTGCACAA
Statistics
Matches: 304, Mismatches: 38, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
57 5 0.02
58 57 0.19
59 75 0.25
60 25 0.08
61 59 0.19
62 47 0.15
64 29 0.10
65 7 0.02
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.33
Consensus pattern (59 bp):
TAAAAATAAAATTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:11497811 original size:49 final size:49
Alignment explanation
Indices: 11497758--11498143 Score: 386
Period size: 48 Copynumber: 8.0 Consensus size: 49
11497748 TTTCGAGAAC
* *
11497758 AGATAAGATTTTTAAAATTGTTGAGCCTTTGCTTAGAGGAGC-TTTTCTA
1 AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTC-A
* * * *
11497807 AGATAAAATTTTTAAAGTTATTGAGCCTTTACTTATATGAGCTTTTTCA
1 AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTCA
* *
11497856 AGAT-GGATTTTTAAAGTTATTGAGCCTTTACTTAGAGGAGCTTTTTCA
1 AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTCA
* * *
11497904 AGATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA
1 AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTCA
* * *
11497952 TGAT--GAATTTTAAAGTTGTTGAGCC-TT--TGA-AGGAG-TTTTTCCA
1 AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTT-CA
* *
11497995 AGATAATGGATTTTTAAAGTTGTTGAG-CTTCTGCTTAGAGAAGCTTTTTCA
1 AGATAA--GATTTTTAAAGTTGTTGAGCCTT-TACTTAGAGGAGCTTTTTCA
* * * *
11498046 AGATGAA-TTTTTTAAAGTTGTTGAGCCTCTACTTGGAAGAGCTTTTTCA
1 AGAT-AAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTCA
* *
11498095 GGATGATAA-A-TTTTAAAGTTGTTGAACCCTTACTTAGAGGAGCCTTTTT
1 --A-GATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAG-CTTTTT
11498144 AAAATTTTAA
Statistics
Matches: 283, Mismatches: 34, Indels: 38
0.80 0.10 0.11
Matches are distributed among these distances:
42 5 0.02
43 10 0.04
44 2 0.01
46 2 0.01
47 38 0.13
48 87 0.31
49 74 0.26
50 36 0.13
51 19 0.07
52 10 0.04
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (49 bp):
AGATAAGATTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTTCA
Found at i:11498157 original size:143 final size:141
Alignment explanation
Indices: 11497765--11498225 Score: 425
Period size: 143 Copynumber: 3.2 Consensus size: 141
11497755 AACAGATAAG
* * * *
11497765 ATTTTTAAAATTGTTGAGCCTTTGCTTAGAGGAGCTTTTCTAAGAT-A-AAATTTTTAAAGTTAT
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTT-TCAGATGATAAA-TTTTAAAGTTGT
* * * *
11497828 TGAGCCTTTACTTATATGAGCTTTTTCAAGATGGATTTTTAAAGTTATTGAGCCTT-TACTTAGA
64 TGAACCCTTACTTA-AGGAGCTTTTTCAA-A--GATTTTTAAAGTTATTGAG-CTTCTGCTTAGA
*
11497892 GGAGCTTTTTCAAGATGA
124 GAAGCTTTTTCAAGATGA
*
11497910 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC--ATGATGAATTTTAAAGTTGTTG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAGATGATAAATTTTAAAGTTGTTG
* * *
11497973 -AGCCTT--TGAAGGAG-TTTTTCCAAGATAATGGATTTTTAAAGTTGTTGAGCTTCTGCTTAGA
66 AACCCTTACTTAAGGAGCTTTTT-C---A-AA--GATTTTTAAAGTTATTGAGCTTCTGCTTAGA
11498034 GAAGCTTTTTCAAGATGA
124 GAAGCTTTTTCAAGATGA
* * *
11498052 ATTTTTTAAAGTTGTTGAGCCTCTACTTGGAAGAGCTTTTTCAGGATGATAAATTTTAAAGTTGT
1 A-TTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA-GATGATAAATTTTAAAGTTGT
* *
11498117 TGAACCCTTACTTAGAGGAGCCTTTTT-AAA-ATTTTAAAAGTTATTGAGCCTCTGCTTAGA-AG
64 TGAACCCTTACTTA-AGGAG-CTTTTTCAAAGATTTTTAAAGTTATTGAGCTTCTGCTTAGAGA-
*
11498179 AGCCTCTTT-AA-AT--
126 AG-CTTTTTCAAGATGA
* * *
11498192 -TTTTAAAAGTTGTTGAACCTCTGCTTAGATGAGC
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC
11498226 CTCTTTAAAT
Statistics
Matches: 268, Mismatches: 28, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
138 34 0.13
139 5 0.02
140 2 0.01
141 3 0.01
142 55 0.21
143 83 0.31
144 8 0.03
145 37 0.14
146 23 0.09
147 6 0.02
149 2 0.01
150 5 0.02
152 5 0.02
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (141 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAGATGATAAATTTTAAAGTTGTTG
AACCCTTACTTAAGGAGCTTTTTCAAAGATTTTTAAAGTTATTGAGCTTCTGCTTAGAGAAGCTT
TTTCAAGATGA
Found at i:11498175 original size:44 final size:44
Alignment explanation
Indices: 11498102--11498356 Score: 284
Period size: 44 Copynumber: 5.8 Consensus size: 44
11498092 TCAGGATGAT
*
11498102 AAATTTT-AAAGTTGTTGAACC-CTTACTTAGAGGAGCCTTTTTA
1 AAATTTTAAAAGTTGTTGAACCTC-TACTTAGAGGAGCCTCTTTA
* * * *
11498145 AAATTTTAAAAGTTATTGAGCCTCTGCTTAGAAGAGCCTCTTTA
1 AAATTTTAAAAGTTGTTGAACCTCTACTTAGAGGAGCCTCTTTA
* * *
11498189 AATTTTTAAAAGTTGTTGAACCTCTGCTTAGATGAGCCTCTTTA
1 AAATTTTAAAAGTTGTTGAACCTCTACTTAGAGGAGCCTCTTTA
* ** * *
11498233 AATTTTTAAAAGTCATTGAACCTCTACTTAGAAGAGCCT-TTTT
1 AAATTTTAAAAGTTGTTGAACCTCTACTTAGAGGAGCCTCTTTA
* * *
11498276 AAATTTTCAAAAGTCGTT-AAGCCTCTGCTAAGAGGAGCCTCTTTA
1 AAATTTT-AAAAGTTGTTGAA-CCTCTACTTAGAGGAGCCTCTTTA
* * *
11498321 AAATTTCAAAAGTTGTTGAGCCTCTACTCAGAGGAG
1 AAATTTTAAAAGTTGTTGAACCTCTACTTAGAGGAG
11498357 TTTTTTTAAT
Statistics
Matches: 181, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
43 18 0.10
44 152 0.84
45 11 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (44 bp):
AAATTTTAAAAGTTGTTGAACCTCTACTTAGAGGAGCCTCTTTA
Found at i:11498226 original size:88 final size:88
Alignment explanation
Indices: 11498101--11498348 Score: 333
Period size: 88 Copynumber: 2.8 Consensus size: 88
11498091 TTCAGGATGA
* *
11498101 TAAA-TTTT-AAAGTTGTTGAACC-CTTACTTAGAGGAGCCTTTTTAAAATTTTAAAAGTTATTG
1 TAAATTTTTAAAAGTTGTTGAACCTC-TGCTTAGAGGAGCCTCTTTAAAATTTTAAAAGTTATTG
*
11498163 AGCCTCTGCTTAGAAGAGCCTCTT
65 AGCCTCTACTTAGAAGAGCCTCTT
* * *
11498187 TAAATTTTTAAAAGTTGTTGAACCTCTGCTTAGATGAGCCTCTTTAAATTTTTAAAAGTCATTGA
1 TAAATTTTTAAAAGTTGTTGAACCTCTGCTTAGAGGAGCCTCTTTAAAATTTTAAAAGTTATTGA
* *
11498252 ACCTCTACTTAGAAGAGCCTTTT
66 GCCTCTACTTAGAAGAGCCTCTT
* * * * *
11498275 TAAATTTTCAAAAGTCGTT-AAGCCTCTGCTAAGAGGAGCCTCTTTAAAATTTCAAAAGTTGTTG
1 TAAATTTTTAAAAGTTGTTGAA-CCTCTGCTTAGAGGAGCCTCTTTAAAATTTTAAAAGTTATTG
11498339 AGCCTCTACT
65 AGCCTCTACT
11498349 CAGAGGAGTT
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
86 4 0.03
87 6 0.04
88 130 0.92
89 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (88 bp):
TAAATTTTTAAAAGTTGTTGAACCTCTGCTTAGAGGAGCCTCTTTAAAATTTTAAAAGTTATTGA
GCCTCTACTTAGAAGAGCCTCTT
Found at i:11498365 original size:132 final size:131
Alignment explanation
Indices: 11498116--11498374 Score: 333
Period size: 132 Copynumber: 2.0 Consensus size: 131
11498106 TTTAAAGTTG
* * * *
11498116 TTGAACCCTTACTTAGAGGAGCCTTTTTAAAATTTTAAAAGTTATTGAGCCTCTGCTTAGAAGAG
1 TTGAACCCTTACTTAGAAGAGCCTTTTTAAAATTTTAAAAGTCATTAAGCCTCTGCTAAGAAGAG
* * * * * *
11498181 CCTCTTTAAATTTTTAAAAGTTGTTGAACCTCTGCTTAGATGAGCCTCTTTAAATTTTTAAAAGT
66 CCTCTTTAAAATTTCAAAAGTTGTTGAACCTCTACTCAGAGGAGCCTCTTT-AATTTTCAAAAGT
11498246 CA
130 CA
* *
11498248 TTGAA-CCTCTACTTAGAAGAGCCTTTTT-AAATTTTCAAAAGTCGTTAAGCCTCTGCTAAGAGG
1 TTGAACCCT-TACTTAGAAGAGCCTTTTTAAAATTTT-AAAAGTCATTAAGCCTCTGCTAAGAAG
* ** *
11498311 AGCCTCTTTAAAATTTCAAAAGTTGTTGAGCCTCTACTCAGAGGAGTTTTTTTAATTTTCAAAA
64 AGCCTCTTTAAAATTTCAAAAGTTGTTGAACCTCTACTCAGAGGAGCCTCTTTAATTTTCAAAA
11498375 ATATTGTTGA
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
131 20 0.18
132 89 0.82
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (131 bp):
TTGAACCCTTACTTAGAAGAGCCTTTTTAAAATTTTAAAAGTCATTAAGCCTCTGCTAAGAAGAG
CCTCTTTAAAATTTCAAAAGTTGTTGAACCTCTACTCAGAGGAGCCTCTTTAATTTTCAAAAGTC
A
Found at i:11504689 original size:2 final size:2
Alignment explanation
Indices: 11504682--11504707 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11504672 ATGCTTAAAA
11504682 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11504708 TAATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11505529 original size:13 final size:13
Alignment explanation
Indices: 11505513--11505537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11505503 CCTATATAGG
11505513 AAAATAAAATAAT
1 AAAATAAAATAAT
11505526 AAAATAAAATAA
1 AAAATAAAATAA
11505538 AAGACAGTCT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:11507927 original size:20 final size:19
Alignment explanation
Indices: 11507903--11507951 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
11507893 AATTGATTTA
11507903 AAATAATAATTTATATTATT
1 AAATAATAATTTAT-TTATT
* *
11507923 TAATAAAAATTTATTTATT
1 AAATAATAATTTATTTATT
11507942 AAATATATAA
1 AAATA-ATAA
11507952 ATATATATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATAATTTATTTATT
Found at i:11509079 original size:21 final size:21
Alignment explanation
Indices: 11509053--11509106 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
11509043 AACGGTTAGC
11509053 AGCAGCGGAGCTCGTGATGGA
1 AGCAGCGGAGCTCGTGATGGA
11509074 AGCAGCGGAGCTCGTGATGGA
1 AGCAGCGGAGCTCGTGATGGA
*
11509095 AGCAGCGAAGCT
1 AGCAGCGGAGCT
11509107 TTACCTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.41, T:0.13
Consensus pattern (21 bp):
AGCAGCGGAGCTCGTGATGGA
Found at i:11511800 original size:10 final size:10
Alignment explanation
Indices: 11511773--11511801 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11511763 AGCGCTGTAA
11511773 TTTTTTTT-T
1 TTTTTTTTAT
11511782 TTTTTTTTAT
1 TTTTTTTTAT
11511792 TTTTTTTTAT
1 TTTTTTTTAT
11511802 GTTCATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:11513424 original size:22 final size:22
Alignment explanation
Indices: 11513399--11513440 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11513389 GATTATACTT
11513399 GGAGGT-TTTAAAGATTATGCAC
1 GGAGGTCTTT-AAGATTATGCAC
*
11513421 GGAGGTCTTTGAGATTATGC
1 GGAGGTCTTTAAGATTATGC
11513441 CTAAAAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (22 bp):
GGAGGTCTTTAAGATTATGCAC
Found at i:11513681 original size:125 final size:124
Alignment explanation
Indices: 11513447--11513682 Score: 287
Period size: 125 Copynumber: 1.9 Consensus size: 124
11513437 ATGCCTAAAA
* * *
11513447 GTCTTACGAATCTTGACATCTTTGAATGCTCCTTATATCAGAAATGTTGAAACTTTGAAAATTTA
1 GTCTTACAAATCTTGACATCTTTGAATGCTCCTTATAT-AGAAAGGTTGAAACTTTCAAAATTTA
* * ** * *
11513512 AAATGTTTTGCCTAGAGGTCTTAGTGATTATGCTCAAAGGTTTTAAGGATTATACTAGAG
65 AAATATTTTACCTAGAGGTCTTAGAAATTATGCCCAAAGATTTTAAGGATTATACTAGAG
* * * *
11513572 GTCTTACAAATCTTGACATCTTTGAATGCTCTTTGTAT-TAAAGGCATTGAAACTTTCAAACTTT
1 GTCTTACAAATCTTGACATCTTTGAATGCTCCTTATATAGAAAGG--TTGAAACTTTCAAAATTT
* *
11513636 AAAATATTTTACTTAGAGGTCTT-GAAAATTATGCCCGAAGATTTTAA
64 AAAATATTTTACCTAGAGGTCTTAG-AAATTATGCCCAAAGATTTTAA
11513683 AAATTATGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
123 4 0.04
124 1 0.01
125 88 0.95
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (124 bp):
GTCTTACAAATCTTGACATCTTTGAATGCTCCTTATATAGAAAGGTTGAAACTTTCAAAATTTAA
AATATTTTACCTAGAGGTCTTAGAAATTATGCCCAAAGATTTTAAGGATTATACTAGAG
Found at i:11513783 original size:273 final size:272
Alignment explanation
Indices: 11513296--11513816 Score: 584
Period size: 273 Copynumber: 1.9 Consensus size: 272
11513286 ATTATGCCTG
* * * *
11513296 GAGGTCTTATAAAACTCGACATCTTTGAATGCTTCTCATATCAAAGACGTTGAAACTTTGAAATT
1 GAGGTCTTACAAAACTCGACATCTTTGAATGCTTCTCATATCAAAGACATTGAAACTTTCAAACT
* ** * * * * *
11513361 TTAAAATATTTCATCTAGACGTCTTAGAGATTATACTTGGAGGTTTTAAAGATTATGCACGGAGG
66 TTAAAATATTTCATCTAGACGTCTTAGAAATTATACCCGAAGATTTTAAAAATTATGCACGAAAG
* * *
11513426 TCTTTGAGATTATGCCTAAAAGTCTTACGAATCTTGACATCTTTGAATGCTCCTTATATCAGAAA
131 TCTTAGAGATTATGCCTAAAAGTCTTAAGAATCTTGACATCTTTGAATGCTCCTCATATCAGAAA
** * * * * * * *
11513491 TGTTGAAACTTTGAAAATTTAAAATGTTTTGCCTAGAGGTCTTAGTGATTATGCTCAAAGGTTTT
196 CATAGAAACTTTAAAAATTTAAAATATTTTACCCAGAAGTCTTA-CGATTATGCTCAAAGGTTTT
11513556 AAGGATTATACTA
260 AAGGATTATACTA
* * ** * *
11513569 GAGGTCTTACAAATCTTGACATCTTTGAATGC-TCTTTGTATTAAAGGCATTGAAACTTTCAAAC
1 GAGGTCTTACAAAACTCGACATCTTTGAATGCTTC-TCATATCAAAGACATTGAAACTTTCAAAC
* * * **
11513633 TTTAAAATATTTTA-CTTAGAGGTCTT-GAAAATTATGCCCGAAGATTTTAAAAATTATGCTTGA
65 TTTAAAATATTTCATC-TAGACGTCTTAG-AAATTATACCCGAAGATTTTAAAAATTATGCACGA
* * *
11513696 AAGTCTTAGAGATTATGTCTAGAAGTCTTATAG-ATCTTGACATC-TTGAAATGTTCCTCATATC
128 AAGTCTTAGAGATTATGCCTAAAAGTCTTA-AGAATCTTGACATCTTTG-AATGCTCCTCATATC
* **
11513759 ATAGGCATAGAAACTTTAAAAATTTAAAATATTTTACCCAGAAGTCTTACGATTATGC
191 AGAAACATAGAAACTTTAAAAATTTAAAATATTTTACCCAGAAGTCTTACGATTATGC
11513817 CCAGAAGATC
Statistics
Matches: 202, Mismatches: 41, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
272 15 0.07
273 186 0.92
274 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (272 bp):
GAGGTCTTACAAAACTCGACATCTTTGAATGCTTCTCATATCAAAGACATTGAAACTTTCAAACT
TTAAAATATTTCATCTAGACGTCTTAGAAATTATACCCGAAGATTTTAAAAATTATGCACGAAAG
TCTTAGAGATTATGCCTAAAAGTCTTAAGAATCTTGACATCTTTGAATGCTCCTCATATCAGAAA
CATAGAAACTTTAAAAATTTAAAATATTTTACCCAGAAGTCTTACGATTATGCTCAAAGGTTTTA
AGGATTATACTA
Found at i:11515366 original size:15 final size:16
Alignment explanation
Indices: 11515346--11515382 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11515336 CAACTTTAGC
11515346 ATTCTACTC-TCTTGA-
1 ATTCTA-TCATCTTGAG
11515361 ATTCTATCATCTTGAG
1 ATTCTATCATCTTGAG
11515377 ATTCTA
1 ATTCTA
11515383 ACAAATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (16 bp):
ATTCTATCATCTTGAG
Found at i:11515658 original size:38 final size:38
Alignment explanation
Indices: 11515580--11515657 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 38
11515570 AGTACATATC
11515580 TTTCTTTTTCTGCATTGTTTTTTCCTCTTTTTTTTTTT
1 TTTCTTTTTCTGCATTGTTTTTTCCTCTTTTTTTTTTT
*
11515618 TTTCTTTTT-TGGCATT-TTTTTTCCTTTTTTTTTTTTT
1 TTTCTTTTTCT-GCATTGTTTTTTCCTCTTTTTTTTTTT
11515655 TTT
1 TTT
11515658 TTGGAAACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
37 24 0.63
38 14 0.37
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (38 bp):
TTTCTTTTTCTGCATTGTTTTTTCCTCTTTTTTTTTTT
Found at i:11519190 original size:57 final size:57
Alignment explanation
Indices: 11519102--11519241 Score: 219
Period size: 57 Copynumber: 2.5 Consensus size: 57
11519092 TCTTATGCAG
* *
11519102 ATCTTCTAATAGTTTTGTGAGATTTATTTATAAATTCT-TTTTTAGAAACTATACTAA
1 ATCTTCTAATAGTTTGGTGAGATTTATTTATAAATT-TGTTTTTAGAAAATATACTAA
* *
11519159 ATCTTCCAATAGTTTGGTGAGATTTCTTTATAAATTTGTTTTTAGAAAATATACTAA
1 ATCTTCTAATAGTTTGGTGAGATTTATTTATAAATTTGTTTTTAGAAAATATACTAA
*
11519216 ATCTTCTAATAGTTTGGTAAGATTTA
1 ATCTTCTAATAGTTTGGTGAGATTTA
11519242 AGCTGCAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
56 1 0.01
57 74 0.99
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (57 bp):
ATCTTCTAATAGTTTGGTGAGATTTATTTATAAATTTGTTTTTAGAAAATATACTAA
Found at i:11519592 original size:10 final size:10
Alignment explanation
Indices: 11519549--11519596 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
11519539 TAAAACAAGT
11519549 AAAATGAAATA
1 AAAAT-AAATA
*
11519560 AAAATAATTA
1 AAAATAAATA
*
11519570 AGAAAAAATATA
1 A-AAATAA-ATA
11519582 AAAATAAATA
1 AAAATAAATA
11519592 AAAAT
1 AAAAT
11519597 GTAATTGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 13 0.42
11 15 0.48
12 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAATAAATA
Found at i:11519996 original size:11 final size:10
Alignment explanation
Indices: 11519945--11519995 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
11519935 AAACCTAGAC
11519945 TTTTCCAAAA
1 TTTTCCAAAA
*
11519955 TTTTTCAAAA
1 TTTTCCAAAA
*
11519965 TTTTCTAGAAA
1 TTTTCCA-AAA
*
11519976 -TTCCCTAAAA
1 TTTTCC-AAAA
11519986 TTTTCCAAAA
1 TTTTCCAAAA
11519996 AATTGCCCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (10 bp):
TTTTCCAAAA
Found at i:11520403 original size:3 final size:3
Alignment explanation
Indices: 11520397--11520452 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
11520387 ATAATAATAA
* *
11520397 TAG TAG TAG TAA TAG TAG TAG TAA TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
11520445 TAG TAG TA
1 TAG TAG TA
11520453 CAAAATGGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:11527024 original size:35 final size:34
Alignment explanation
Indices: 11526958--11527024 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
11526948 TGCAATGATG
*
11526958 AAAATTCTTGCGAACATGAAATTCTTACAAACCT
1 AAAACTCTTGCGAACATGAAATTCTTACAAACCT
* * *
11526992 AAAACTCTTGCGAAACTTGGAATTCTTGCAAAC
1 AAAACTCTTGCG-AACATGAAATTCTTACAAAC
11527025 TTTTGCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (34 bp):
AAAACTCTTGCGAACATGAAATTCTTACAAACCT
Found at i:11527026 original size:17 final size:17
Alignment explanation
Indices: 11526959--11527026 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
11526949 GCAATGATGA
* *
11526959 AAATTCTTGCGAACATG
1 AAATTCTTGCAAACTTG
* * *
11526976 AAATTCTTACAAACCTA
1 AAATTCTTGCAAACTTG
*
11526993 AAACTCTTGCGAAACTTG
1 AAATTCTTGC-AAACTTG
*
11527011 GAATTCTTGCAAACTT
1 AAATTCTTGCAAACTT
11527027 TTGCAAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (17 bp):
AAATTCTTGCAAACTTG
Found at i:11527523 original size:191 final size:194
Alignment explanation
Indices: 11527160--11527621 Score: 465
Period size: 191 Copynumber: 2.4 Consensus size: 194
11527150 GAAATTTGGA
* * * * * * *
11527160 ATTTTATTTTTTCGACTTGCAATTCAATCCCTGTCACTTATCTTCGATCTTGGTTTAGTCCAGAT
1 ATTTTATTTTTT-AACCTGCAGTTCAATCCCAGTCACTCATCTTTGATCTTGGTTCAGTCCAGAT
* ** **
11527225 CATTTATTTTTTGACCTATGGTTTAATCTTGTTGACTCATCTTCAATCTCGATTCGGCCCAAATC
65 CATTTATTTTTTGACCTATGGTTCAATCCGGTTGACTCATCTTCAATCTCGATTAAGCCCAAATC
* * ** * *
11527290 ATTTATTATTCTGACTTGCGATTCAGTCCTAGTTGCTCATTTTTTACCTTGACTC-GATCCATGT
130 ATTTATTATTCTAACTTGCGATTCAGTCCTAGATGCTCATTTTCGACCTTAACTCAG-TCCAGGT
11527354 C
194 C
* *
11527355 A-TTT-TTTTTT-ACCTGCAGTTCAATCCCAATCACTCATCTTTGATCTTGGTTCATTCCAGATC
1 ATTTTATTTTTTAACCTGCAGTTCAATCCCAGTCACTCATCTTTGATCTTGGTTCAGTCCAGATC
* ** * * *
11527417 ATTTATTTTTTGACCTATGGTTCAATCCCGGTT-ATTCATCTTTGATCTTGATTAAGCCTATATC
66 ATTTATTTTTTGACCTATGGTTCAAT-CCGGTTGACTCATCTTCAATCTCGATTAAGCCCAAATC
* * *
11527481 ATTTATTATTCTAACTTGTGGA-TCAGT-CTCGAT-CATTCATTTTCGACCTTAACTCAGTCTAG
130 ATTTATTATTCTAACTTG-CGATTCAGTCCTAGATGC--TCATTTTCGACCTTAACTCAGTCCAG
11527543 GTC
192 GTC
* * * * * * *
11527546 ATTTTATTTTTTAACCTACAGTTCAAACCTAGTCATTCATCTTTGACCTTGGCTCGGTCCA-ATC
1 ATTTTATTTTTTAACCTGCAGTTCAATCCCAGTCACTCATCTTTGATCTTGGTTCAGTCCAGATC
*
11527610 GTTTTATTTTTT
66 -ATTTATTTTTT
11527622 TGACTTGCAA
Statistics
Matches: 220, Mismatches: 38, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
189 1 0.00
190 4 0.02
191 137 0.62
192 10 0.05
193 15 0.07
194 52 0.24
195 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (194 bp):
ATTTTATTTTTTAACCTGCAGTTCAATCCCAGTCACTCATCTTTGATCTTGGTTCAGTCCAGATC
ATTTATTTTTTGACCTATGGTTCAATCCGGTTGACTCATCTTCAATCTCGATTAAGCCCAAATCA
TTTATTATTCTAACTTGCGATTCAGTCCTAGATGCTCATTTTCGACCTTAACTCAGTCCAGGTC
Found at i:11528069 original size:66 final size:66
Alignment explanation
Indices: 11527938--11528091 Score: 184
Period size: 66 Copynumber: 2.3 Consensus size: 66
11527928 TTTGATCCAA
* * * * *
11527938 ATCATTTTATTTTTTAGACTTGCATTTCAATCCTGGTCACTCAGTTTCGATTTTAGTTCAATCTA
1 ATCATTTTATTTTTTAAACTTGCAGTTCAATCCTGGTCACTCAGTTTCAATCTCAGTTCAATCTA
11528003 G
66 G
* * * * **
11528004 ATCCTTTTATTTTTTAAACTTGCAGTTCAATCCTGGTCACTTAGTTTTAATCTCGGCTT-GGTCT
1 ATCATTTTATTTTTTAAACTTGCAGTTCAATCCTGGTCACTCAGTTTCAATCTCAG-TTCAATCT
11528068 AG
65 AG
*
11528070 ATCATTTTATTTTTCAAACTTG
1 ATCATTTTATTTTTTAAACTTG
11528092 TGGTCAATCC
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 72 0.97
67 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (66 bp):
ATCATTTTATTTTTTAAACTTGCAGTTCAATCCTGGTCACTCAGTTTCAATCTCAGTTCAATCTA
G
Found at i:11528236 original size:67 final size:66
Alignment explanation
Indices: 11528164--11528295 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 66
11528154 TCATAATTTG
* * * * * *
11528164 ATCTCGATTATTCATCTTCGACCTTAGCTCGATCTAGGACATTTTAGTTTTTTTTACCTACGATT
1 ATCTCGATCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTA-TATTTTTGACCTACGATT
11528229 CC
65 CC
* * * *
11528231 ATCTCGGTCATTCATCTTAGACTTTGGCTCAATCTAGGTCAATTTATATTTTTGACCTACGATTC
1 ATCTCGATCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTATATTTTTGACCTACGATTC
11528296 AATCCTGGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
66 17 0.31
67 38 0.69
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (66 bp):
ATCTCGATCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTATATTTTTGACCTACGATTC
C
Found at i:11528306 original size:66 final size:67
Alignment explanation
Indices: 11528164--11528326 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 67
11528154 TCATAATTTG
* * * * * * *
11528164 ATCTCGATTATTCATCTTCGACCTTAGCTCGATCTAGGACATTTTAGTTTTTTTTACCTACGATT
1 ATCTCGGTCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTAGTATTTTTGACCTACGATT
*
11528229 CC
66 CA
* * *
11528231 ATCTCGGTCATTCATCTTAGACTTTGGCTCAATCTAGGTCAATTTA-TATTTTTGACCTACGATT
1 ATCTCGGTCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTAGTATTTTTGACCTACGATT
11528295 CA
66 CA
* *
11528297 ATC-CTGGTCACTCATTTTCA-ACCTTAGCTC
1 ATCTC-GGTCATTCATCTT-AGACCTTAGCTC
11528327 GGTCAAAGTC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
65 1 0.01
66 39 0.49
67 39 0.49
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (67 bp):
ATCTCGGTCATTCATCTTAGACCTTAGCTCAATCTAGGACAATTTAGTATTTTTGACCTACGATT
CA
Found at i:11534696 original size:30 final size:29
Alignment explanation
Indices: 11534635--11534730 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
11534625 TTTGTTCATT
* *
11534635 TTTTA-TTAATAA-TTTAGTTAATTTCTA
1 TTTTATTTAATAATTTTAGTTATTTTTTA
11534662 TTTTATTTAATAATTTTAGTTGATTTTTTA
1 TTTTATTTAATAATTTTAGTT-ATTTTTTA
* *
11534692 TTTTATTTAACCATTTTTAGTTAATTTTCTT-
1 TTTTATTTAA-TAATTTTAGTT-ATTTT-TTA
11534723 TTTTATTT
1 TTTTATTT
11534731 TATAGAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.08
28 7 0.12
29 7 0.12
30 16 0.27
31 22 0.37
32 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTTATTTAATAATTTTAGTTATTTTTTA
Found at i:11535148 original size:3 final size:3
Alignment explanation
Indices: 11535142--11535166 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11535132 TTATTTCTTC
11535142 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
11535167 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:11535304 original size:25 final size:25
Alignment explanation
Indices: 11535253--11535307 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11535243 ACTTAAAATG
*
11535253 ATAAAAATAAAAATTAAATCAAAAA
1 ATAAAAAAAAAAATTAAATCAAAAA
11535278 ATAAAAAAAACAAATT-AAT-AAAGAA
1 ATAAAAAAAA-AAATTAAATCAAA-AA
11535303 ATAAA
1 ATAAA
11535308 TATATGAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 19 0.70
26 5 0.19
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (25 bp):
ATAAAAAAAAAAATTAAATCAAAAA
Found at i:11536067 original size:18 final size:19
Alignment explanation
Indices: 11536044--11536081 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
11536034 GACAATATTG
11536044 TTTTTTT-CTTTGTT-TTT
1 TTTTTTTACTTTGTTGTTT
*
11536061 TTTTTTTAGTTTGTTGTTT
1 TTTTTTTACTTTGTTGTTT
11536080 TT
1 TT
11536082 GTAATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (19 bp):
TTTTTTTACTTTGTTGTTT
Found at i:11544413 original size:46 final size:46
Alignment explanation
Indices: 11544346--11544439 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
11544336 TATTAGAGGC
*
11544346 TATGATCACACATCTTTGTTACCTCTATATCTTTTACCAAGTAAGA
1 TATGATCACACATCTTTGTTACCTCTATATCTTTTACCAAGAAAGA
*
11544392 TATGATCATACATCTTTGTTACCTCTATATCTTTTACCAAGAAAGA
1 TATGATCACACATCTTTGTTACCTCTATATCTTTTACCAAGAAAGA
11544438 TA
1 TA
11544440 AACTAAGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (46 bp):
TATGATCACACATCTTTGTTACCTCTATATCTTTTACCAAGAAAGA
Found at i:11547429 original size:18 final size:18
Alignment explanation
Indices: 11547408--11547453 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
11547398 TAAGGTTTGT
*
11547408 TTTAGGGTTTGAGTAGGA
1 TTTAGGGTTTGACTAGGA
* *
11547426 TTTAGGGCTTGACTAGGG
1 TTTAGGGTTTGACTAGGA
11547444 TTTAGGGTTT
1 TTTAGGGTTT
11547454 AGTTTAAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.37, T:0.41
Consensus pattern (18 bp):
TTTAGGGTTTGACTAGGA
Found at i:11547541 original size:12 final size:12
Alignment explanation
Indices: 11547526--11547551 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11547516 AAGGTTTGTT
11547526 TTAGGGTTAGGG
1 TTAGGGTTAGGG
11547538 TTAGGGTTAGGG
1 TTAGGGTTAGGG
11547550 TT
1 TT
11547552 TAAAGTTTGT
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (12 bp):
TTAGGGTTAGGG
Found at i:11547578 original size:19 final size:19
Alignment explanation
Indices: 11547506--11547589 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
11547496 TGGTTTAAGG
* *
11547506 TTTAGGTTTTAAGGTTTGT
1 TTTAGGGTTTAGGGTTTGT
* *
11547525 TTTAGGG-TTAGGGTTAGG
1 TTTAGGGTTTAGGGTTTGT
* **
11547543 GTTAGGGTTTAAAGTTTGT
1 TTTAGGGTTTAGGGTTTGT
* *
11547562 TTTAGGGTTTTGGGTTTGAC
1 TTTAGGGTTTAGGGTTTG-T
11547582 TTTAGGGT
1 TTTAGGGT
11547590 ACAAGGTATA
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.29
19 27 0.55
20 8 0.16
ACGTcount: A:0.15, C:0.01, G:0.35, T:0.49
Consensus pattern (19 bp):
TTTAGGGTTTAGGGTTTGT
Found at i:11549364 original size:144 final size:141
Alignment explanation
Indices: 11548896--11549354 Score: 404
Period size: 144 Copynumber: 3.2 Consensus size: 141
11548886 GTTTTTCATG
* *
11548896 AAAAACTGACCTCAAAAAA-GTCAAATTATAAAAATATCACTAAATGGTATTTTGGTAATTTAAC
1 AAAAACTGACCT-AAAAAAGGTCAAATTATAAAAATATCACTAAAT-GTATTTTAGTAATTTCAC
* * * *
11548960 TCATTTTTAGGTTTAATCAAGATTTTTAATGCAAAAAAATTCAT-AACATAGTATTTAGATTTGA
64 TC--TTTTAGGTGTAATCAAGATTTTCAATGCATAAAAATTCATGAA-ATAATATTTAGATTTGA
11549024 TTTGGAGCTTTTCACAA
126 TTTGGAGCTTTTCAC-A
* ** ** * * * * * *
11549041 AAAAATTGACCCCAAATTGGCCAAATTATGAAAATAACTCTAAATGCCATTTTAATAATTTCTCA
1 AAAAACTGACCTAAAAAAGGTCAAATTATAAAAATATCACTAAATG-TATTTTAGTAA-TT-TCA
* ** * * * * **
11549106 C-CGTTTAGGGTGCGATCAAGATTTTCAAAGCATCAAATTTCATGAAATAATATTTGGACATGAT
63 CTCTTTTA-GGTGTAATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTTAGATTTGAT
* *
11549170 TTGGAGCTGTTCACT
127 TTGGAGCTTTTCACA
* ** * ** *
11549185 AAAATCCAATCTCGAAAAGGTCAAATTACAAAAATATTC-CTAAAATGTATTTTAGTAATTTCAC
1 AAAAACTGACCTAAAAAAGGTCAAATTATAAAAATA-TCACT-AAATGTATTTTAGTAATTTCAC
* * *
11549249 TTCTTTTGAGATGTAATCAAGATTTTCAATGCATAAAAGTTCATGAAATAATATTTAAATTTGAT
64 -TCTTTT-AGGTGTAATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTTAGATTTGAT
*
11549314 ATGGAGCTTTTCACA
127 TTGGAGCTTTTCACA
*
11549329 AAAAACTGACCTAAAAAAGGTTAAAT
1 AAAAACTGACCTAAAAAAGGTCAAAT
11549355 GTTGAAAATA
Statistics
Matches: 239, Mismatches: 64, Indels: 23
0.73 0.20 0.07
Matches are distributed among these distances:
142 4 0.02
143 2 0.01
144 124 0.52
145 101 0.42
146 5 0.02
147 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (141 bp):
AAAAACTGACCTAAAAAAGGTCAAATTATAAAAATATCACTAAATGTATTTTAGTAATTTCACTC
TTTTAGGTGTAATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTTAGATTTGATTTGG
AGCTTTTCACA
Found at i:11549940 original size:35 final size:35
Alignment explanation
Indices: 11549870--11549942 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
11549860 TTGAATTGTG
* * *
11549870 AGTCGAAAAATAAAGATGATTGGAATTGAACCGTA
1 AGTCAAAAAATAAAGATGATTGGAACTAAACCGTA
*
11549905 AGTCAAAAAATAAAGATGATT-GAGACTAAATCGTA
1 AGTCAAAAAATAAAGATGATTGGA-ACTAAACCGTA
11549940 AGT
1 AGT
11549943 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (35 bp):
AGTCAAAAAATAAAGATGATTGGAACTAAACCGTA
Found at i:11550001 original size:35 final size:35
Alignment explanation
Indices: 11549962--11550056 Score: 104
Period size: 34 Copynumber: 2.7 Consensus size: 35
11549952 TGACTAAGAA
* *
11549962 TAAACCATGAGTTAGGAAATAAAGATGATTAGGAC
1 TAAACCATGAGTTAGGAAATAAAAATGATCAGGAC
* *
11549997 TAAACACA--AGTCAAGAAATAAAAATGATCAGGAC
1 TAAAC-CATGAGTTAGGAAATAAAAATGATCAGGAC
** *
11550031 TAAACTGTGAGTTAGAAAATAAAAAT
1 TAAACCATGAGTTAGGAAATAAAAAT
11550057 AACCGTGACT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
34 27 0.56
35 19 0.40
36 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (35 bp):
TAAACCATGAGTTAGGAAATAAAAATGATCAGGAC
Found at i:11550114 original size:35 final size:35
Alignment explanation
Indices: 11550075--11550172 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
11550065 CTGAACTGCG
*
11550075 AGTCAAAAAATAAAAATTATCGGGATTGATCTA-TA
1 AGTCAAAAAATAAAAATTATCGGGATTGAAC-AGTA
* *
11550110 AGTCAAAAAATAAAAATTATC-GAAATGAACAGTA
1 AGTCAAAAAATAAAAATTATCGGGATTGAACAGTA
* *
11550144 AGTCAAAAAAT-AAAATGATCGAGATTGAA
1 AGTCAAAAAATAAAAATTATCGGGATTGAA
11550173 TTGCAAGTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
33 9 0.17
34 24 0.44
35 21 0.39
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.23
Consensus pattern (35 bp):
AGTCAAAAAATAAAAATTATCGGGATTGAACAGTA
Found at i:11550561 original size:65 final size:63
Alignment explanation
Indices: 11550471--11550743 Score: 237
Period size: 65 Copynumber: 4.2 Consensus size: 63
11550461 TGCCAGTTAA
* * * * * *
11550471 ATTGGACTTAAATCTTCTCACCTTGTACCAACTTAACTAGGCTTAAAAATGTCAATGCTAGCTAG
1 ATTGG-CTTAAATCTTCTCA-TTTGTGCCAACTTAACTAGGCTTAACAATCTCAATACTAACTAG
* * * * * *
11550536 ATTAGGCTTAAATATTCTCATCTTGTGTCAATTTAATTGGGCTTAACAATCTCAATGC-AGA-TA
1 ATT-GGCTTAAATCTTCTCAT-TTGTGCCAACTTAACTAGGCTTAACAATCTCAATACTA-ACTA
11550599 G
63 G
* * * * * *
11550600 ATTGGTTTTACATC-TCTTATTGAGTGCCAATTTAACTAGGCTTAACAATCTCAATACCAACTAG
1 ATTGG-CTTAAATCTTCTCATT-TGTGCCAACTTAACTAGGCTTAACAATCTCAATACTAACTAG
* * * *
11550664 ATTTGGCTTAAATCTTTTCATTTAGTGTCAACTTAACTGGGCTTAACAATCTTAATACTAACTAG
1 A-TTGGCTTAAATCTTCTCATTT-GTGCCAACTTAACTAGGCTTAACAATCTCAATACTAACTAG
11550729 ATTGGGCTTAAATCT
1 ATT-GGCTTAAATCT
11550744 CTTATCTAGT
Statistics
Matches: 168, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 38 0.23
64 25 0.15
65 102 0.61
66 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (63 bp):
ATTGGCTTAAATCTTCTCATTTGTGCCAACTTAACTAGGCTTAACAATCTCAATACTAACTAG
Found at i:11550643 original size:63 final size:65
Alignment explanation
Indices: 11550498--11550773 Score: 217
Period size: 65 Copynumber: 4.3 Consensus size: 65
11550488 TCACCTTGTA
* * * * * * * * * *
11550498 CCAACTTAACTAGGCTTAAAAATGTCAATGCTAGCTAGATTAGGCTTAAATAT-TCTCATCT-TG
1 CCAATTTAACTGGGCTTAACAATCTCAATACCAACTAGATTTGGCTTAAATCTCT-TCAT-TGAG
11550561 TG
64 TG
* * * * *
11550563 TCAATTTAATTGGGCTTAACAATCTCAAT-GCAGA-TAGA-TTGGTTTTACATCTCTT-ATTGAG
1 CCAATTTAACTGGGCTTAACAATCTCAATACCA-ACTAGATTTGG-CTTAAATCTCTTCATTGAG
11550624 TG
64 TG
* * *
11550626 CCAATTTAACTAGGCTTAACAATCTCAATACCAACTAGATTTGGCTTAAATCTTTTCATTTAGTG
1 CCAATTTAACTGGGCTTAACAATCTCAATACCAACTAGATTTGGCTTAAATCTCTTCATTGAGTG
* * * * *
11550691 TCAACTTAACTGGGCTTAACAATCTTAATACTAACTAGATTGGGCTTAAATCTCTT-ATCT-AGT
1 CCAATTTAACTGGGCTTAACAATCTCAATACCAACTAGATTTGGCTTAAATCTCTTCAT-TGAGT
*
11550754 A
65 G
* *
11550755 CTAATTTAATTGGGCTTAA
1 CCAATTTAACTGGGCTTAA
11550774 ATCTCTTATC
Statistics
Matches: 168, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 35 0.21
64 47 0.28
65 85 0.51
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (65 bp):
CCAATTTAACTGGGCTTAACAATCTCAATACCAACTAGATTTGGCTTAAATCTCTTCATTGAGTG
Found at i:11550747 original size:30 final size:32
Alignment explanation
Indices: 11550719--11550782 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
11550709 ACAATCTTAA
11550719 TACTAA-CTAGATTGGGCTTAAATCTCTTATCTAG
1 TACTAATCTA-ATTGGGCTTAAATCTCTTA--TAG
*
11550753 TACTAATTTAATTGGGCTTAAATCTCTTAT
1 TACTAATCTAATTGGGCTTAAATCTCTTAT
11550783 CTAGTGCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
34 25 0.89
35 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (32 bp):
TACTAATCTAATTGGGCTTAAATCTCTTATAG
Found at i:11550767 original size:34 final size:34
Alignment explanation
Indices: 11550729--11550807 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
11550719 TACTAACTAG
*
11550729 ATTGGGCTTAAATCTCTTATCTAGTACTAATTTA
1 ATTGGGCTTAAATCTCTTATCTAGTACCAATTTA
*
11550763 ATTGGGCTTAAATCTCTTATCTAGTGCCAATTTA
1 ATTGGGCTTAAATCTCTTATCTAGTACCAATTTA
* *
11550797 ACTGGGTTTAA
1 ATTGGGCTTAA
11550808 CAATTTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (34 bp):
ATTGGGCTTAAATCTCTTATCTAGTACCAATTTA
Found at i:11551093 original size:22 final size:22
Alignment explanation
Indices: 11551052--11551096 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
11551042 TTTTCCTTTG
11551052 ACAAACTTTTTTTTCATTTTTTT
1 ACAAACTTTTTTTT-ATTTTTTT
11551075 ACAAACTTTTTATTT-TTTTTTT
1 ACAAACTTTTT-TTTATTTTTTT
11551097 CTTAATGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (22 bp):
ACAAACTTTTTTTTATTTTTTT
Found at i:11551458 original size:20 final size:20
Alignment explanation
Indices: 11551435--11551481 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
11551425 TCCCATTATG
*
11551435 CAAATGCCTTTCTATGAATA
1 CAAATGCCTTTATATGAATA
11551455 CAAATGCCTTTATATGAATA
1 CAAATGCCTTTATATGAATA
11551475 CAAATGC
1 CAAATGC
11551482 AAATACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (20 bp):
CAAATGCCTTTATATGAATA
Found at i:11556610 original size:21 final size:21
Alignment explanation
Indices: 11556586--11556625 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11556576 AAAAAGACCG
*
11556586 AAAGA-TAGAATCACAAATTAT
1 AAAGATTAAAATC-CAAATTAT
11556607 AAAGATTAAAATCCAAATT
1 AAAGATTAAAATCCAAATT
11556626 GACTGTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAGATTAAAATCCAAATTAT
Found at i:11557734 original size:21 final size:20
Alignment explanation
Indices: 11557709--11557769 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
11557699 TAATGTGATA
11557709 AAGAATCATCTAAAAATCATT
1 AAGAATCATC-AAAAATCATT
* * *
11557730 AAGAATCTTCAAGAATCTTT
1 AAGAATCATCAAAAATCATT
* * *
11557750 AAGAATTACCAAGAATCATT
1 AAGAATCATCAAAAATCATT
11557770 CTTTTCTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.30
Consensus pattern (20 bp):
AAGAATCATCAAAAATCATT
Found at i:11557751 original size:20 final size:21
Alignment explanation
Indices: 11557709--11557755 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
11557699 TAATGTGATA
11557709 AAGAATCATCTAAAAATCATT
1 AAGAATCATCTAAAAATCATT
* * *
11557730 AAGAATCTTC-AAGAATCTTT
1 AAGAATCATCTAAAAATCATT
11557750 AAGAAT
1 AAGAAT
11557756 TACCAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (21 bp):
AAGAATCATCTAAAAATCATT
Found at i:11558725 original size:16 final size:16
Alignment explanation
Indices: 11558704--11558753 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
11558694 AATTCATGAA
11558704 TTTATTTTGAAAGATT
1 TTTATTTTGAAAGATT
*
11558720 TTTA-TTAGAAAAGA-T
1 TTTATTTTG-AAAGATT
11558735 TTT-TTTTGAAAGGATT
1 TTTATTTTGAAA-GATT
11558751 TTT
1 TTT
11558754 CGTTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (16 bp):
TTTATTTTGAAAGATT
Found at i:11558753 original size:15 final size:14
Alignment explanation
Indices: 11558703--11558753 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
11558693 GAATTCATGA
*
11558703 ATTTATTTTGAAAG
1 ATTTTTTTTGAAAG
*
11558717 ATTTTTATTAGAAAAG
1 ATTTTT-TTTG-AAAG
11558733 ATTTTTTTTGAAAGG
1 ATTTTTTTTGAAA-G
11558748 ATTTTT
1 ATTTTT
11558754 CGTTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 8 0.26
15 13 0.42
16 10 0.32
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (14 bp):
ATTTTTTTTGAAAG
Found at i:11559785 original size:3 final size:3
Alignment explanation
Indices: 11559758--11559873 Score: 111
Period size: 3 Copynumber: 40.7 Consensus size: 3
11559748 AAGAAACAAA
* * * *
11559758 AAT AAA AAT AA- AAA AAT AA- ATAT AAT AAT AAT AAT AAT AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
11559802 AAT AAT AAT AAT AAT AAT -AT AAT -AC AAT -AT AAT -AT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11559845 AAT AAT AAC AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11559874 CATACCATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
2 12 0.13
3 81 0.86
4 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11559886 original size:55 final size:55
Alignment explanation
Indices: 11559772--11559914 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
11559762 AAAATAAAAA
* * *
11559772 AATA-AATATAATAATAATAATAATAACAACAATAATAATAATAATAATATAATAC
1 AATATAATATAATAAT-ATAATAATAACAATAATAATAATAATAATAACATAACAC
* * *
11559827 AATATAATATAATAATATAATAATAACAATAATACTAATAATAATAACATACCAT
1 AATATAATATAATAATATAATAATAACAATAATAATAATAATAATAACATAACAC
* * *
11559882 AATATTATGTTATAATAT-ATACTATAACAATAA
1 AATATAATATAATAATATAATA--ATAACAATAA
11559915 CAAAAATACT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 3 0.04
55 52 0.68
56 21 0.28
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (55 bp):
AATATAATATAATAATATAATAATAACAATAATAATAATAATAATAACATAACAC
Found at i:11560827 original size:16 final size:14
Alignment explanation
Indices: 11560794--11560822 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11560784 AAATAAAAAT
11560794 TATCATGCTAATAA
1 TATCATGCTAATAA
11560808 TATCATGC-AATAA
1 TATCATGCTAATAA
11560821 TA
1 TA
11560823 ATATCTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
TATCATGCTAATAA
Found at i:11560836 original size:18 final size:17
Alignment explanation
Indices: 11560802--11560844 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11560792 ATTATCATGC
*
11560802 TAATAATA-TCATGCAA
1 TAATAATATTCATACAA
11560818 TAATAATATCTCATACAA
1 TAATAATAT-TCATACAA
*
11560836 TTATAATAT
1 TAATAATAT
11560845 AGTCATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
18 15 0.65
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (17 bp):
TAATAATATTCATACAA
Found at i:11560910 original size:21 final size:21
Alignment explanation
Indices: 11560884--11560950 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
11560874 CAATATAATT
11560884 TATAAATTATCATGCAATTAA
1 TATAAATTATCATGCAATTAA
*
11560905 TATAAAATATCATGCAATT-A
1 TATAAATTATCATGCAATTAA
* * *
11560925 T-TTAATAATCATGCAA-AAA
1 TATAAATTATCATGCAATTAA
11560944 TATAAAT
1 TATAAAT
11560951 AAAAAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.37
20 6 0.16
21 18 0.47
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (21 bp):
TATAAATTATCATGCAATTAA
Found at i:11560956 original size:14 final size:15
Alignment explanation
Indices: 11560939--11560967 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11560929 ATAATCATGC
11560939 AAAAAT-ATAAATAA
1 AAAAATCATAAATAA
11560953 AAAAATCATAAATAA
1 AAAAATCATAAATAA
11560968 TATTATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATCATAAATAA
Found at i:11561884 original size:29 final size:31
Alignment explanation
Indices: 11561830--11561905 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
11561820 TAAAATAATA
* *
11561830 AAAACTAAATTAAAAACCAAAAATTAAAAGT
1 AAAATTAAATTAAAAACCAAAAATTAAAACT
11561861 AAAATTAAA-TAAAAACC-AAAATTAAAACT
1 AAAATTAAATTAAAAACCAAAAATTAAAACT
*
11561890 AAAATTGGAATTAAAA
1 AAAATT-AAATTAAAA
11561906 TTTTTGGGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.43
30 10 0.25
31 13 0.32
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (31 bp):
AAAATTAAATTAAAAACCAAAAATTAAAACT
Found at i:11562528 original size:34 final size:34
Alignment explanation
Indices: 11562490--11562570 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
11562480 AGTTTTGTAG
* **
11562490 AGATTTCAAATTTGCAAGGTTCCAAGTTTCACAT
1 AGATTCCAAATTCACAAGGTTCCAAGTTTCACAT
* * * *
11562524 AGATTCCAAGTTCACAAGGTTCTAAGTTTCATAA
1 AGATTCCAAATTCACAAGGTTCCAAGTTTCACAT
*
11562558 AGGTTCCAAATTC
1 AGATTCCAAATTC
11562571 GTAAAGATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (34 bp):
AGATTCCAAATTCACAAGGTTCCAAGTTTCACAT
Found at i:11562532 original size:18 final size:17
Alignment explanation
Indices: 11562504--11562554 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
11562494 TTCAAATTTG
*
11562504 CAAGGTTCCAAGTTTCA
1 CAAGATTCCAAGTTTCA
11562521 CATAGATTCCAAG-TTCA
1 CA-AGATTCCAAGTTTCA
* *
11562538 CAAGGTTCTAAGTTTCA
1 CAAGATTCCAAGTTTCA
11562555 TAAAGGTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.28
17 12 0.41
18 9 0.31
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (17 bp):
CAAGATTCCAAGTTTCA
Found at i:11563176 original size:25 final size:26
Alignment explanation
Indices: 11563148--11563211 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
11563138 AAGTTTTTAC
* *
11563148 TTTCAATTTTGTGTTTC-TAGTTGAT
1 TTTCAATTTTGTGTTGCATAATTGAT
*
11563173 TTTCAAGTTTT-TGTTGCATTAATTGTT
1 TTTCAA-TTTTGTGTTGCA-TAATTGAT
11563200 TTTCAATTTTGT
1 TTTCAATTTTGT
11563212 TTTAATCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 11 0.34
26 8 0.25
27 13 0.41
ACGTcount: A:0.17, C:0.08, G:0.14, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTGTGTTGCATAATTGAT
Found at i:11566758 original size:17 final size:16
Alignment explanation
Indices: 11566736--11566775 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11566726 ACAAAAGGAT
*
11566736 AAAAAATTGACAAGAAA
1 AAAAAACTGA-AAGAAA
11566753 AAAAAACTGAAAGAAA
1 AAAAAACTGAAAGAAA
11566769 AAGAAAA
1 AA-AAAA
11566776 AAAAAAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.75, C:0.05, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAAACTGAAAGAAA
Found at i:11573973 original size:13 final size:14
Alignment explanation
Indices: 11573955--11573983 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11573945 AACTGTATTA
11573955 TTTTCATATC-TTT
1 TTTTCATATCATTT
11573968 TTTTCATATCATTT
1 TTTTCATATCATTT
11573982 TT
1 TT
11573984 GTGTCGTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCATATCATTT
Found at i:11581425 original size:15 final size:16
Alignment explanation
Indices: 11581405--11581434 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11581395 AATACTATAT
11581405 ATATATGT-TAAATAC
1 ATATATGTATAAATAC
11581420 ATATATGTATAAATA
1 ATATATGTATAAATA
11581435 ATTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (16 bp):
ATATATGTATAAATAC
Found at i:11583132 original size:2 final size:2
Alignment explanation
Indices: 11583127--11583152 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11583117 ATATATATAC
11583127 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
11583153 GATGGATCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11583895 original size:19 final size:19
Alignment explanation
Indices: 11583859--11583895 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11583849 GTTTCTTACA
*
11583859 CTTTGATCCAAGCTACAAG
1 CTTTGATCCAAGCAACAAG
*
11583878 CTTTGATCCAGGCAACAA
1 CTTTGATCCAAGCAACAA
11583896 TCTTGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
CTTTGATCCAAGCAACAAG
Found at i:11587299 original size:14 final size:14
Alignment explanation
Indices: 11587269--11587310 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
11587259 AGATAAATAG
11587269 ATAGATTATATAGATT
1 ATAGATTATA-A-ATT
11587285 ATAGATTATAAATT
1 ATAGATTATAAATT
*
11587299 ATAAATT-TAAAT
1 ATAGATTATAAAT
11587311 AAGTTGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 1 0.04
16 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
ATAGATTATAAATT
Found at i:11587968 original size:2 final size:2
Alignment explanation
Indices: 11587961--11587990 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11587951 TATGACCTAG
11587961 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11587991 GAGTAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11597767 original size:2 final size:2
Alignment explanation
Indices: 11597760--11597793 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11597750 ATTACAAGTT
*
11597760 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11597794 ACCAAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11597903 original size:22 final size:22
Alignment explanation
Indices: 11597864--11597907 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11597854 TGCTCATAAT
*
11597864 TATCAATAGATAAGATAATATCA
1 TATCAATAGATAAAATAA-ATCA
*
11597887 TATCATTA-ATAAAATAAATCA
1 TATCAATAGATAAAATAAATCA
11597908 AATGATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (22 bp):
TATCAATAGATAAAATAAATCA
Found at i:11598018 original size:22 final size:21
Alignment explanation
Indices: 11597955--11598019 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
11597945 TTTATTAATT
11597955 ATTATA-TTTTAATTT-TAAAA
1 ATTATATTTTTAATTTAT-AAA
* *
11597975 ATTGATATTTATTCATTAATAAA
1 ATT-ATATTT-TTAATTTATAAA
11597998 ATTATATTATTTAATTTATAAA
1 ATTATATT-TTTAATTTATAAA
11598020 TAGTATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 17 0.47
23 12 0.33
24 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTATATTTTTAATTTATAAA
Found at i:11602148 original size:161 final size:161
Alignment explanation
Indices: 11601452--11603749 Score: 1744
Period size: 161 Copynumber: 14.3 Consensus size: 161
11601442 CTTATTCATG
* * * *
11601452 CATATCAACTGT-AGAAACCAAGTTCAATCATTCGGACAAATTTAATATCATGTATTAAAGCTAT
1 CATATCAACTATGA-AAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTAT
* * * ** ** *
11601516 CCAAACTGTTAAAATAGCACAATAATAGCAATTTTTCATTTTTGTCTTTTAATGGCA-AGAAAAG
65 CCAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATA-AAAAA
* * * * *
11601580 TCTTAAACAAATGTAAACAATAACTTTTTCATA
129 TCTTAAACAGACGTAAATAGTAACTTTTTCACA
* * * * * * * * *
11601613 GATTTCAATTGTGAAAACCAAGTTCAATCATTTGCACAAATTTAATACCATGTATTGAAGCCATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * ** * * * *
11601678 CAAACTGTT-AAACAGAACAATAATAGCAAATTTGCATTTTTGGCTTTTAACGGTAAAAAAAAAC
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAATC
** *
11601742 TTAATTAGAGGTAAATAGTAACTTTTTCACA
131 TTAAACAGACGTAAATAGTAACTTTTTCACA
* * * *
11601773 CATATCAACTGTGAAAACCAAGTTCAATCATTC-AGACGAGTTTAATATCCTGTATTGAAGCCAT
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCTAT
* * * ** * *
11601837 CCAAACTATTAAAATAGAATAATAATAATAATAATCACAAATTTGTATTTTTGCCTTTTAA-TGA
65 CCAAACTGTTAAAATAG------AACAATAAT-A--GCAAATTTACATTTTTACCTTTTAACAG-
* * * *
11601901 CATAAAAAATCTTAAATAAAAGGTAAATAGCAACTTTTTCACA
120 CATAAAAAATCTTAAA-CAGACGTAAATAGTAACTTTTTCACA
* * * * *
11601944 CATATCAACTGTGGAAACTAAGTTCAATCATTCAAACAAGTTTAATATCTTGTATTGAAGCTATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * *
11602009 CAAACTATTAAAATAGAACAATAATAGCAAATTTACAATTTTACCTTTTAACAGCACAAAAAATC
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAATC
* *
11602074 TTAAACAGAGGTAAATAGCAACTTTTTCACA
131 TTAAACAGACGTAAATAGTAACTTTTTCACA
* * *
11602105 CATATCAACTATGAAAACCAAGTTCAATCATTCGAAGAAGTTTAATATCATGTAGTGAAACTATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * *
11602170 CAAACTGTTAAAATAGCACAATAACAACAATTTTGCATTTTTACCTTTTAA-TG-A-AACAAATA
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAA-AAA-A
* * * * *
11602232 GTCTTAAACAGATGCAAA-CGATAGCTTTTTCAAA
129 -TCTTAAACAGACGTAAATAG-TAACTTTTTCACA
* * * * * *
11602266 CATTTCAACTATGGAAACCAAGCTCAATCATTCGAACAAGTTTAACATCATGTAATGAAGCCATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * * * * *
11602331 TAAACTGTTAAAATAGAAAAATAATAGCAATTTTGCAATTTTGCCTTTTAACAACACAAAGAATC
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAATC
* ** * *
11602396 TTAAACAGA-GATAAACAACAATTTTTTCATA
131 TTAAACAGACG-TAAATAGTAACTTTTTCACA
* * * *
11602427 TATATCAACTATGGAAACCAAGTTCAATCATTCGGACAAGTTTAATATAATGTATTGAAGCTATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * ** * * * **
11602492 TAAACTATTAAATTAGCACAATAATAGCAATTTTGTATTTTTTCCTTTTAACAGTACAAAAGCTC
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAATC
* ** * *
11602557 TTAAACATATATAAA-CGATAACTTTGTCACA
131 TTAAACAGACGTAAATAG-TAACTTTTTCACA
* * * * * *
11602588 CATTTCAATTATGGAAACCAAGTTCAATCATTCAAACAAATTTAATATCATGTATTGAAACTATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * * * *
11602653 AAAACTATTAAAATAGAACAACAATAGCAAATTTCCATTTTTGCCTTTTAA-AGACATAAGAAAA
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAG-CATAA-AAAA
* * * ** *
11602717 GTCCTAAACAAACATAAGCAATAACTTTTTCACA
129 -TCTTAAACAGACGTAAATAGTAACTTTTTCACA
* * * * *
11602751 CATATCAGTCGT-TG-AAGCCAAGTTCAATTATTC-AGACAAGTTTAACATCATGTATTGAAACT
1 CATATCA-AC-TATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCT
** * * * * *
11602813 ATTAAAACTGTTAAAATAGAACAATAATTGTAAATTTACACTTTT-CCTACTTAAC-GACACAAA
63 ATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCT-TTTAACAG-CATAAA
* * *
11602876 AAATCTTAAACAGAGGTAAAAAGCAACTTTTTCACA
126 AAATCTTAAACAGACGTAAATAGTAACTTTTTCACA
* * * ** *
11602912 CATATCAACTATGGAAACTAAGTTTAATCATTC-AGACAAGTTTAATATCGCGTATTAAAGCTAT
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCTAT
* * * **
11602976 CCAAAC---T--ATTAGAACAATAATAGCAATTTTACA--TTTGCCTTTTAATGGCATAAAAAAT
65 CCAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAAT
* * * * *
11603034 TTTAAACAAATGTAAA-CGATAGCTTTTTCACA
130 CTTAAACAGACGTAAATAG-TAACTTTTTCACA
* * * ** *
11603066 CATATTAACTATGAAAACCAAGCTCAATCATTC-AGGCAAGTTTAATATCATAAATTGAAGTTAT
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCTAT
* * *** * * *
11603130 CCAAATTGCTAAAATAGAACAATAATAGCAAATTTGTGTTTTTACCCTTTAACGGCATAAAAAGT
65 CCAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAAT
* * *
11603195 CTTAAACAAACTTAAATTA-TAACTTTTTCATA
130 CTTAAACAGACGTAAA-TAGTAACTTTTTCACA
* * * * * * * * * * * *
11603227 TATATTAATTGTGGAAACTAAGCTCAATCATTTGGACAATTTTACTATCATGTATTAAAGCTATC
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
* * * * *
11603292 CAAATTGTTAAAATAG--C-A-AAT------TTGTAC--TTTTGCCTTTTAATAGAATAAAAAGT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATT-TACATTTTTACCTTTTAACAGCATAAAAAAT
* ** * *
11603345 CATT-AACAGACATAAACGGTAGCTTTTTCATA
130 C-TTAAACAGACGTAAATAGTAACTTTTTCACA
* *
11603377 CATATCAACTATGGAAACTAAGTTCAATCATTC-AGACAAGTTTAATATCATGTATTGAAGCTAT
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCTAT
* * * * ** *
11603441 CTAAATTGTTAAAACAGAACAATAATAGCCAATTTGTATTTTTACCTTTTAACAGCATAAAAAGT
65 CCAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAAT
* * * *
11603506 -TCTAAACAAACATAAACAAG-AAC-ATTTCACA
130 CT-TAAACAGACGTAAA-TAGTAACTTTTTCACA
* * *
11603537 CATATCAA-TCAT-AGAAACCAAGTTCAATTATGTAG-ACAAGTTTAATATCATGTATTGAAACT
1 CATATCAACT-ATGA-AAACCAAGTTCAATCAT-TCGAACAAGTTTAATATCATGTATTGAAGCT
* * * * *
11603599 ATCAAAATTGTTAAAAAAGAACAATAACT-GTAAATTTACCTTTTTACCTTTTAACAGCATAAAA
63 ATCCAAACTGTTAAAATAGAACAATAA-TAGCAAATTTACATTTTTACCTTTTAACAGCATAAAA
* * * *
11603663 AAGTCTTAAATAGACATAAATTGTAATTTTTTCACA
127 AA-TCTTAAACAGACGTAAATAGTAACTTTTTCACA
* * * * * *
11603699 AATATCAACAATGAAAACCAATTTTAGTCATTC-AGATAAGTTTAATATCAT
1 CATATCAACTATGAAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCAT
11603750 AAACTTACTT
Statistics
Matches: 1735, Mismatches: 318, Indels: 167
0.78 0.14 0.08
Matches are distributed among these distances:
150 112 0.06
151 4 0.00
152 2 0.00
153 2 0.00
154 100 0.06
155 4 0.00
156 22 0.01
157 4 0.00
158 4 0.00
159 30 0.02
160 257 0.15
161 819 0.47
162 93 0.05
163 126 0.07
164 5 0.00
165 9 0.01
167 8 0.00
168 1 0.00
169 1 0.00
170 34 0.02
171 97 0.06
172 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (161 bp):
CATATCAACTATGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC
CAAACTGTTAAAATAGAACAATAATAGCAAATTTACATTTTTACCTTTTAACAGCATAAAAAATC
TTAAACAGACGTAAATAGTAACTTTTTCACA
Found at i:11602518 original size:483 final size:480
Alignment explanation
Indices: 11601452--11603749 Score: 1987
Period size: 483 Copynumber: 4.8 Consensus size: 480
11601442 CTTATTCATG
* * * * * *
11601452 CATATCAACTGTAGAAACCAAGTTCAATCATTCGGACAAATTTAATATCATGTATTAAAGCTATC
1 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * ** ** *
11601517 CAAACTGTTAAAATAGCACAATAATAGCAATTTTTCATTTTTGTCTTTTAATGGCA-AGAAAAGT
66 CAAACTATTAAAATAGAACAATAATAGCAATTTTACATTTTTACCTTTTAACAGCACA-AAAAAT
* * * * * * *
11601581 CTTAAACAAATGTAAACAATAACTTTTTCATAGATTTCAATTGTGAAAACCAAGTTCAATCATTT
130 CTTAAACAAATGT-AA-AAGAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTC
* * * * * *
11601646 GCACAAATTTAATACCATGTATTGAAGCCATCCAAACTGTT-AAACAGAACAATAATAGCAAATT
193 GAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAATAGCAAATT
** * * ** * *
11601710 TGCATTTTTGGCTTTTAACGGTAAAAAAAA-ACTTAATTAGAGGTAAA-TAGTAACTTTTTCACA
258 TGCATTTTTACCTTTTAA-AG-AAAAAAAAGTCTTAAACAGATGCAAACTA-TAACTTTTTCACA
* * * * *
11601773 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACGAGTTTAATATCCTGTATTGAAGCCATC
320 CATATCAACTGTGGAAACCAAGCTCAATCATTCAGACAAGTTTAACATCATGTATTGAAGCCATC
* * * * **
11601838 CAAACTATTAAAATAGAATAATAATAATAATAATCACAAATTTGTATTTTTGCCTTTTAATGACA
385 CAAACTGTTAAAATAG----A-AA-AATAAT-A--GCAAATTTGCACTTTTGCCTTTTAACAACA
* * * * * *
11601903 TAAAAAATCTTAAATAAAAGGTAAATAGCAACTTTTTCACA
441 CAAAAAATCTTAAA-CAGAGATAAACAACAACTTTTTCACA
* * *
11601944 CATATCAACTGTGGAAACTAAGTTCAATCATTCAAACAAGTTTAATATCTTGTATTGAAGCTATC
1 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* *
11602009 CAAACTATTAAAATAGAACAATAATAGCAAATTTACAATTTTACCTTTTAACAGCACAAAAAATC
66 CAAACTATTAAAATAGAACAATAATAGCAATTTTACATTTTTACCTTTTAACAGCACAAAAAATC
* *
11602074 TTAAACAGAGGTAAATAGCAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTCG
131 TTAAACAAATGTAAA-AG-AACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTCG
* * * * * *
11602139 AAGAAGTTTAATATCATGTAGTGAAACTATCCAAACTGTTAAAATAGCACAATAACAACAATTTT
194 AACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTT
* * * * *
11602204 GCATTTTTACCTTTTAATGAAACAAATAGTCTTAAACAGATGCAAACGATAGCTTTTTCAAACAT
259 GCATTTTTACCTTTTAAAGAAA-AAAAAGTCTTAAACAGATGCAAACTATAACTTTTTCACACAT
* * * *
11602269 TTCAACTATGGAAACCAAGCTCAATCATTC-GAACAAGTTTAACATCATGTAATGAAGCCATCTA
323 ATCAACTGTGGAAACCAAGCTCAATCATTCAG-ACAAGTTTAACATCATGTATTGAAGCCATCCA
* * *
11602333 AACTGTTAAAATAGAAAAATAATAGCAATTTTGCAATTTTGCCTTTTAACAACACAAAGAATCTT
387 AACTGTTAAAATAGAAAAATAATAGCAAATTTGCACTTTTGCCTTTTAACAACACAAAAAATCTT
* *
11602398 AAACAGAGATAAACAACAATTTTTTCATA
452 AAACAGAGATAAACAACAACTTTTTCACA
* * * *
11602427 TATATCAACTATGGAAACCAAGTTCAATCATTCGGACAAGTTTAATATAATGTATTGAAGCTATC
1 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * ** * * **
11602492 TAAACTATTAAATTAGCACAATAATAGCAATTTTGTATTTTTTCCTTTTAACAGTACAAAAGCTC
66 CAAACTATTAAAATAGAACAATAATAGCAATTTTACATTTTTACCTTTTAACAGCACAAAAAATC
* * * * * * * *
11602557 TTAAACATATATAAACGATAACTTTGTCACACATTTCAATTATGGAAACCAAGTTCAATCATTCA
131 TTAAACAAATGTAAA--AGAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTCG
* * * *
11602622 AACAAATTTAATATCATGTATTGAAACTATCAAAACTATTAAAATAGAACAACAATAGCAAATTT
194 AACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTT
* * * * *
11602687 CCATTTTTGCCTTTTAAAGACATAAGAAAAGTCCTAAACA-A-ACATAAGCAATAACTTTTTCAC
259 GCATTTTTACCTTTTAAAGA-A-AA-AAAAGTCTTAAACAGATGCA-AA-CTATAACTTTTTCAC
* * * * * * *
11602750 ACATATC-AGTCGTTGAAGCCAAGTTCAATTATTCAGACAAGTTTAACATCATGTATTGAAACTA
319 ACATATCAACT-GTGGAAACCAAGCTCAATCATTCAGACAAGTTTAACATCATGTATTGAAGCCA
** * * * * * *
11602814 TTAAAACTGTTAAAATAGAACAATAATTGTAAATTTACACTTTT-CCTACTTAACGACACAAAAA
383 TCCAAACTGTTAAAATAGAAAAATAATAGCAAATTTGCACTTTTGCCT-TTTAACAACACAAAAA
*
11602878 ATCTTAAACAGAGGTAAA-AAGCAACTTTTTCACA
447 ATCTTAAACAGAGATAAACAA-CAACTTTTTCACA
* ** *
11602912 CATATCAACTATGGAAACTAAGTTTAATCATTCAGACAAGTTTAATATCGCGTATTAAAGCTATC
1 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* ** * *
11602977 CAAACTA-T----TAGAACAATAATAGCAATTTTACA--TTTGCCTTTTAATGGCATAAAAAATT
66 CAAACTATTAAAATAGAACAATAATAGCAATTTTACATTTTTACCTTTTAACAGCACAAAAAATC
* * *
11603035 TTAAACAAATGTAAACGATAGCTTTTTCACACATATTAACTATGAAAACCAAGCTCAATCATTC-
131 TTAAACAAATGTAAAAGA-A-CTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTCG
* ** ** * *
11603099 AGGCAAGTTTAATATCATAAATTGAAGTTATCCAAATTGCTAAAATAGAACAATAATAGCAAATT
194 A-ACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAATAGCAAATT
** * * * * * * * * *
11603164 TGTGTTTTTACCCTTTAACGGCATAAAAAGTCTTAAACAAACT-TAAATTATAACTTTTTCATAT
258 TGCATTTTTACCTTTTAA-AGAAAAAAAAGTCTTAAACAGA-TGCAAACTATAACTTTTTCACAC
* * * ** * * *
11603228 ATATTAATTGTGGAAACTAAGCTCAATCATTTGGACAA-TTTTACTATCATGTATTAAAGCTATC
321 ATATCAACTGTGGAAACCAAGCTCAATCATTCAGACAAGTTTAAC-ATCATGTATTGAAGCCATC
* * * * *
11603292 CAAATTG-T----T-----AA-AATAGCAAATTTGTACTTTTGCCTTTTAATAGA-ATAAAAAGT
385 CAAACTGTTAAAATAGAAAAATAATAGCAAATTTGCACTTTTGCCTTTTAACA-ACACAAAAAAT
* *** * *
11603345 CATT-AACAGACATAAACGGTAGCTTTTTCATA
449 C-TTAAACAGAGATAAACAACAACTTTTTCACA
11603377 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
1 CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * *
11603442 TAAATTGTTAAAACAGAACAATAATAGCCAATTTGT--ATTTTTACCTTTTAACAGCATAAAAAG
66 CAAACTATTAAAATAGAACAATAATAG-CAATTT-TACATTTTTACCTTTTAACAGCACAAAAAA
** * *
11603505 T-TCTAAACAAACATAAACAAGAAC-ATTTCACACATATCAA-TCAT-AGAAACCAAGTTCAATT
129 TCT-TAAACAAATGT-AA-AAGAACTTTTTCACACATATCAACT-ATGA-AAACCAAGTTCAATC
* * * *
11603566 ATGTAG-ACAAGTTTAATATCATGTATTGAAACTATCAAAATTGTTAAAAAAGAACAATAACT-G
189 AT-TCGAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAA-TAG
* * * * * *** * * *
11603629 TAAATTTACCTTTTTACCTTTTAACAGCATAAAAAAGTCTTAAATAGACATAAATTGTAATTTTT
252 CAAATTTGCATTTTTACCTTTTAA-AG-AAAAAAAAGTCTTAAACAGATGCAAACTATAACTTTT
* ** * ** * * * *
11603694 TCACAAATATCAACAATGAAAACCAATTTTAGTCATTCAGATAAGTTTAATATCAT
315 TCACACATATCAACTGTGGAAACCAAGCTCAATCATTCAGACAAGTTTAACATCAT
11603750 AAACTTACTT
Statistics
Matches: 1464, Mismatches: 291, Indels: 122
0.78 0.16 0.06
Matches are distributed among these distances:
465 113 0.08
466 9 0.01
470 16 0.01
471 107 0.07
472 96 0.07
473 7 0.00
474 3 0.00
475 6 0.00
476 74 0.05
477 8 0.01
478 135 0.09
479 1 0.00
480 21 0.01
483 258 0.18
484 50 0.03
485 214 0.15
486 2 0.00
487 6 0.00
488 2 0.00
489 1 0.00
490 1 0.00
491 6 0.00
492 200 0.14
493 127 0.09
494 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (480 bp):
CATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
CAAACTATTAAAATAGAACAATAATAGCAATTTTACATTTTTACCTTTTAACAGCACAAAAAATC
TTAAACAAATGTAAAAGAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTCGAA
CAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGC
ATTTTTACCTTTTAAAGAAAAAAAAGTCTTAAACAGATGCAAACTATAACTTTTTCACACATATC
AACTGTGGAAACCAAGCTCAATCATTCAGACAAGTTTAACATCATGTATTGAAGCCATCCAAACT
GTTAAAATAGAAAAATAATAGCAAATTTGCACTTTTGCCTTTTAACAACACAAAAAATCTTAAAC
AGAGATAAACAACAACTTTTTCACA
Found at i:11603584 original size:160 final size:161
Alignment explanation
Indices: 11603303--11603749 Score: 476
Period size: 160 Copynumber: 2.8 Consensus size: 161
11603293 AAATTGTTAA
* * * * * * * *
11603303 AATAGCAAATTTGTACTTTTGCCTTTTAATAGAATAAAAAGTCATTAACAGACATAAACGGTAGC
1 AATAGCAAATTTGTATTTTTACCTTTTAACAGCATAAAAAGTCATAAACAAACATAAACAGTAAC
* * * *
11603368 TTTTTCATACATATCAACTATGGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT
66 TATTTCACACATATCAACTATAGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT
* * *
11603433 GAAGCTATCTAAATTGTTAAAACAGAACAAT
131 GAAACTATCAAAATTGTTAAAAAAGAACAAT
*
11603464 AATAGCCAATTTGTATTTTTACCTTTTAACAGCATAAAAAGTTC-TAAACAAACATAAACAAG-A
1 AATAGCAAATTTGTATTTTTACCTTTTAACAGCATAAAAAG-TCATAAACAAACATAAAC-AGTA
*
11603527 AC-ATTTCACACATATCAA-TCATAGAAACCAAGTTCAATTATGT-AGACAAGTTTAATATCATG
64 ACTATTTCACACATATCAACT-ATAGAAACCAAGTTCAATCAT-TCAGACAAGTTTAATATCATG
11603589 TATTGAAACTATCAAAATTGTTAAAAAAGAACAAT
127 TATTGAAACTATCAAAATTGTTAAAAAAGAACAAT
* *** * * * **
11603624 AACT-GTAAATTTACCTTTTTACCTTTTAACAGCATAAAAAAGTCTTAAATAGACATAAATTGTA
1 AA-TAGCAAATTTGTATTTTTACCTTTTAACAGCAT-AAAAAGTCATAAACAAACATAAACAGTA
* * * * * * * *
11603688 ATTTTTTCACAAATATCAACAAT-GAAAACCAATTTTAGTCATTCAGATAAGTTTAATATCAT
64 ACTATTTCACACATATCAACTATAG-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
11603750 AAACTTACTT
Statistics
Matches: 239, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
159 1 0.00
160 114 0.48
161 75 0.31
162 49 0.21
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (161 bp):
AATAGCAAATTTGTATTTTTACCTTTTAACAGCATAAAAAGTCATAAACAAACATAAACAGTAAC
TATTTCACACATATCAACTATAGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT
GAAACTATCAAAATTGTTAAAAAAGAACAAT
Found at i:11604750 original size:13 final size:13
Alignment explanation
Indices: 11604734--11604770 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
11604724 ATAAAAGCGA
11604734 ATATATAAAGAAC
1 ATATATAAAGAAC
*
11604747 ATATGTAAAGAAC
1 ATATATAAAGAAC
11604760 ATATATAAAGA
1 ATATATAAAGA
11604771 TATTAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:11618574 original size:7 final size:7
Alignment explanation
Indices: 11618558--11618598 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
11618548 TGGACCCACG
*
11618558 AACCTTA
1 AACCTCA
11618565 AACCTCA
1 AACCTCA
11618572 AACCTCA
1 AACCTCA
11618579 AACCTCA
1 AACCTCA
11618586 AACCTCA
1 AACCTCA
11618593 AACCTC
1 AACCTC
11618599 GCTCTGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCTCA
Found at i:11620510 original size:37 final size:36
Alignment explanation
Indices: 11620469--11620545 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 36
11620459 TAGAAACACA
* * * *
11620469 TTAAATGTTCCTTTTAATTTTTTATATAATAGATCAT
1 TTAAATGATCATTTAAATTTTTTATA-AAAAGATCAT
*
11620506 TTAAATGATCATTTAAATTTTTTATAAAAAGATTAT
1 TTAAATGATCATTTAAATTTTTTATAAAAAGATCAT
11620542 TTAA
1 TTAA
11620546 GGCATTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 12 0.34
37 23 0.66
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (36 bp):
TTAAATGATCATTTAAATTTTTTATAAAAAGATCAT
Found at i:11620934 original size:96 final size:93
Alignment explanation
Indices: 11620777--11620971 Score: 275
Period size: 96 Copynumber: 2.1 Consensus size: 93
11620767 ATAAATGATC
* * *
11620777 ATTTAAGGTGTTTTTGTATAGAATGCCTTAAAGGATCCTTTTTTTATATTATGGATTATTTAAAT
1 ATTTAACGTGTTTTTGTATAAAATGCCTTAAAGGATCCTTTTTTTATATTATGGATCATTTAAAT
*
11620842 GATCATTTAATTTTTTTTTATAAAAGGATT
66 GATCATTTAA--TTTTTTTATAAAAGAATT
* * *
11620872 ATTTAACGTTTTTTTGTATAAAAATGCCTTAAATGAT-TTTTTTTATATATTATGGATCATTTAA
1 ATTTAACGTGTTTTTGTAT-AAAATGCCTTAAAGGATCCTTTTTT-TATATTATGGATCATTTAA
*
11620936 ATGATCCTTTAATTTTTTTATAAAAGAATT
64 ATGATCATTTAATTTTTTTATAAAAGAATT
11620966 ATTTAA
1 ATTTAA
11620972 GGCGTTAGAA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
94 23 0.26
95 23 0.26
96 44 0.49
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.51
Consensus pattern (93 bp):
ATTTAACGTGTTTTTGTATAAAATGCCTTAAAGGATCCTTTTTTTATATTATGGATCATTTAAAT
GATCATTTAATTTTTTTATAAAAGAATT
Found at i:11623313 original size:17 final size:17
Alignment explanation
Indices: 11623287--11623330 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11623277 GTCAATTTCA
*
11623287 CTTTTATTTTTCTTTTT
1 CTTTTATTTTGCTTTTT
*
11623304 CTTTTGTTTTGCTTTTT
1 CTTTTATTTTGCTTTTT
11623321 -TTTTCATTTT
1 CTTTT-ATTTT
11623331 TACTTCATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (17 bp):
CTTTTATTTTGCTTTTT
Found at i:11626893 original size:25 final size:26
Alignment explanation
Indices: 11626842--11626894 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
11626832 CTATGCACGC
*
11626842 AAACAAAGAAAAAGATTAAAATAGTTT
1 AAACAAAGAAAAAGA-TAAAAGAGTTT
* *
11626869 AAACAAATAAAAAG-TAAAAGGGTTT
1 AAACAAAGAAAAAGATAAAAGAGTTT
11626894 A
1 A
11626895 GATTACAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
27 13 0.57
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.21
Consensus pattern (26 bp):
AAACAAAGAAAAAGATAAAAGAGTTT
Found at i:11627982 original size:115 final size:116
Alignment explanation
Indices: 11627779--11627999 Score: 381
Period size: 115 Copynumber: 1.9 Consensus size: 116
11627769 CTTGATCTTT
* * *
11627779 CATGTGTCATGCCAATCTTGATCTTACAATCTTAAGGAAGGTTTGGCTAAACATGTTTATCTAAG
1 CATGTGGCATGCCAATCTTGACCTTACAATCTTAAGGAAGGTTTGGCTAAACATGTTTATCCAAG
11627844 ACCATGTAGTTGCTTTAAGTTCAAACTCTTAAAATAAACTTTAAAAAAATC
66 ACCATGTAGTTGCTTTAAGTTCAAACTCTTAAAATAAACTTTAAAAAAATC
** *
11627895 CATGTGGCATGCCAATCTTG-CCTTGTAATCTTAAGGAAGTTTTGGCTAAACATGTTTATCCAAG
1 CATGTGGCATGCCAATCTTGACCTTACAATCTTAAGGAAGGTTTGGCTAAACATGTTTATCCAAG
11627959 ACCATGTAGTTGCTTTAAGTTCAAACTCTTAAAATAAACTT
66 ACCATGTAGTTGCTTTAAGTTCAAACTCTTAAAATAAACTT
11628000 CCAAAAGTCC
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 80 0.81
116 19 0.19
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (116 bp):
CATGTGGCATGCCAATCTTGACCTTACAATCTTAAGGAAGGTTTGGCTAAACATGTTTATCCAAG
ACCATGTAGTTGCTTTAAGTTCAAACTCTTAAAATAAACTTTAAAAAAATC
Found at i:11637208 original size:19 final size:19
Alignment explanation
Indices: 11637184--11637229 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
11637174 TTGCCCTTTT
*
11637184 TTTTTCTTCTTTTTTTTGC
1 TTTTTCTTCATTTTTTTGC
**
11637203 TTTTTCACCATTTTTTTGC
1 TTTTTCTTCATTTTTTTGC
11637222 TTTTTCTT
1 TTTTTCTT
11637230 TTTCTTGCGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTTCTTCATTTTTTTGC
Found at i:11639140 original size:21 final size:21
Alignment explanation
Indices: 11639098--11639140 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11639088 ATAGCTTTGG
* *
11639098 CTAAGACTAAGAAGGACTTAT
1 CTAAAACTAAGAAGGACCTAT
11639119 CTAAAACTAAGATAGG-CCTAT
1 CTAAAACTAAGA-AGGACCTAT
11639140 C
1 C
11639141 CTTAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (21 bp):
CTAAAACTAAGAAGGACCTAT
Found at i:11639365 original size:21 final size:21
Alignment explanation
Indices: 11639339--11639386 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
11639329 CAGTTAATTG
11639339 TGTTCACACTATAGATTATTA
1 TGTTCACACTATAGATTATTA
*
11639360 TGTTCACACTATAGATTATTG
1 TGTTCACACTATAGATTATTA
11639381 TGTTCA
1 TGTTCA
11639387 TTTTCAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (21 bp):
TGTTCACACTATAGATTATTA
Found at i:11645760 original size:14 final size:15
Alignment explanation
Indices: 11645741--11645770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11645731 ACCCAAGCCC
11645741 AAATAG-AAAAGAAA
1 AAATAGCAAAAGAAA
11645755 AAATAGCAAAAGAAA
1 AAATAGCAAAAGAAA
11645770 A
1 A
11645771 GTACCAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (15 bp):
AAATAGCAAAAGAAA
Found at i:11646772 original size:10 final size:10
Alignment explanation
Indices: 11646753--11646806 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 10
11646743 GAAAATTATT
11646753 AAATAATAAA
1 AAATAATAAA
*
11646763 AAATATTAAA
1 AAATAATAAA
*
11646773 AGATAAATAAA
1 AAAT-AATAAA
11646784 ATAATAATAATA
1 A-AATAATAA-A
11646796 ATAATAATAAA
1 A-AATAATAAA
11646807 TTTTCAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.32
11 12 0.32
12 13 0.35
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
AAATAATAAA
Done.