Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 49 of 147
Found at i:9713588 original size:16 final size:16
Alignment explanation
Indices: 9713554--9713601 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9713544 TCCAGGTTTT
*
9713554 TTTTTTTTTCTTTGAA
1 TTTTTTTTTATTTGAA
**
9713570 TTTTTTTTTATTTTCA
1 TTTTTTTTTATTTGAA
9713586 TTTATTTGTTTATTTG
1 TTT-TTT-TTTATTTG
9713602 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 16 0.62
17 3 0.12
18 7 0.27
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTTTTTATTTGAA
Found at i:9713667 original size:17 final size:16
Alignment explanation
Indices: 9713608--9713672 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
9713598 TTTGTTTTTT
*
9713608 TATTTTTTTTATTTATTA
1 TATTATTTTTATTTA--A
**
9713626 TATTAGGTTTATTTAA
1 TATTATTTTTATTTAA
*
9713642 TATTCTTTTTATCTTAA
1 TATTATTTTTAT-TTAA
*
9713659 TTTTATTTTTATTT
1 TATTATTTTTATTT
9713673 TTGTTTTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 12 0.32
17 14 0.37
18 12 0.32
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATTTAA
Found at i:9713672 original size:11 final size:11
Alignment explanation
Indices: 9713569--9713715 Score: 65
Period size: 11 Copynumber: 13.0 Consensus size: 11
9713559 TTTTCTTTGA
9713569 ATTTT-TTTTT
1 ATTTTATTTTT
9713579 ATTTTCATTTATT
1 ATTTT-ATTT-TT
9713592 -TGTTTATTTGTT
1 AT-TTTATTT-TT
*
9713604 TTTTTA-TTTT
1 ATTTTATTTTT
9713614 -TTTTATTTATT
1 ATTTTATTT-TT
* **
9713625 ATATTAGGTTT
1 ATTTTATTTTT
* *
9713636 ATTTAATATTCT
1 ATTTTAT-TTTT
* *
9713648 -TTTTATCTTA
1 ATTTTATTTTT
9713658 ATTTTATTTTT
1 ATTTTATTTTT
9713669 ATTTT-TGTTTT
1 ATTTTAT-TTTT
*
9713680 ACTTTTCTTTATT
1 A-TTTTATTT-TT
9713693 -TTTTATTATTT
1 ATTTTATT-TTT
9713704 ATTTATATTTTT
1 ATTT-TATTTTT
9713716 TATTATTCTA
Statistics
Matches: 104, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
9 5 0.05
10 11 0.11
11 41 0.39
12 34 0.33
13 13 0.12
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:9713712 original size:20 final size:21
Alignment explanation
Indices: 9713689--9713728 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
9713679 TACTTTTCTT
9713689 TATTTTTTATTATT-TATTTA
1 TATTTTTTATTATTCTATTTA
9713709 TATTTTTTATTATTCTATTT
1 TATTTTTTATTATTCTATTT
9713729 TCTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTTTATTATTCTATTTA
Found at i:9713894 original size:120 final size:122
Alignment explanation
Indices: 9713745--9713988 Score: 411
Period size: 121 Copynumber: 2.0 Consensus size: 122
9713735 AATAAAAATC
*
9713745 AAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAATAAATT
*
9713810 TTC-AAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACCA
66 TTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACCA
* * *
9713866 AAATTTTTGAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATT
1 AAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAATAAATT
* *
9713930 TTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCA
66 TTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACCA
9713987 AA
1 AA
9713989 GTTTCAAAAA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 49 0.43
121 66 0.57
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (122 bp):
AAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAATAAATT
TTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACCA
Found at i:9713967 original size:60 final size:59
Alignment explanation
Indices: 9713737--9714001 Score: 311
Period size: 61 Copynumber: 4.4 Consensus size: 59
9713727 TTTCTTCAAA
* * *
9713737 TAAAAATCAAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCT
1 TAAAAAT-AAA-TTTTCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
* **
9713798 TAGAAATAAATTTTCAAAAAAGGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAAGATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
** * *
9713857 TGAAAACCA-AAATTTTTGAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 T-AAAA--ATAAATTTTCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
9713918 TAAAAATAAATTTTCAAAAAAAAGGATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAA-GATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT
** *
9713978 TGGAAATCAAAGTTTCAAAAAAAA
1 TAAAAAT-AAATTTTCAAAAAAAA
9714002 AAAATTTCCA
Statistics
Matches: 176, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
58 2 0.01
59 59 0.34
60 47 0.27
61 66 0.38
62 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (59 bp):
TAAAAATAAATTTTCAAAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:9713999 original size:120 final size:119
Alignment explanation
Indices: 9713739--9714001 Score: 409
Period size: 120 Copynumber: 2.2 Consensus size: 119
9713729 TCTTCAAATA
* *
9713739 AAAATCAAATTTTTCAAAAAATATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAGAAA
1 AAAATCAAA-TTTTCAAAAAAAATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAA
*
9713804 TAAATTTTCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
65 TAAATTTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* ** * *
9713859 AAAACCAAAATTTTTGAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
1 AAAATC-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAA
9713924 TAAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
65 TAAATTTTC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
9713980 GAAATCAAAGTTTCAAAAAAAA
1 AAAATCAAATTTTCAAAAAAAA
9714002 AAAATTTCCA
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 76 0.59
121 52 0.41
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (119 bp):
AAAATCAAATTTTCAAAAAAAATATTTTTAGGGAAAAGTAGAAAGTATCAATTTTCCTTAAAAAT
AAATTTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:9717889 original size:9 final size:9
Alignment explanation
Indices: 9717889--9717921 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9717879 AAAAATGAAA
9717889 AAAAAAAAG
1 AAAAAAAAG
9717898 AAAAAAAAG
1 AAAAAAAAG
*
9717907 AAAAAAAGG
1 AAAAAAAAG
9717916 AAAAAA
1 AAAAAA
9717922 TGAGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:9717891 original size:12 final size:12
Alignment explanation
Indices: 9717865--9717905 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9717855 ACAATGGATG
*
9717865 AAAAAATGAGCAA
1 AAAAAATGA-AAA
9717878 AAAAAATGAAAA
1 AAAAAATGAAAA
*
9717890 AAAAAAAGAAAA
1 AAAAAATGAAAA
9717902 AAAA
1 AAAA
9717906 GAAAAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:9719279 original size:42 final size:42
Alignment explanation
Indices: 9719162--9719582 Score: 615
Period size: 42 Copynumber: 10.1 Consensus size: 42
9719152 ATGATTGTCA
* * *
9719162 AGGAGAAATTTAC-TTTCCAAAGTCGTGGCGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
9719203 AGGAGCAATTTACTTTT-CAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
9719244 AGGAGCAATTTACTTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9719286 AGGAGTAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
9719328 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9719370 AGGAGCAATTTAATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
9719412 AGGAGCAATTTACTTTTTCAAAGTCGTGGTG---CTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9719451 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
9719492 AGGAGCAATTTAC-TTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
* * *
9719534 AGGAGTAATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
9719577 AGGAGC
1 AGGAGC
9719583 TTTGGTCAAA
Statistics
Matches: 348, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
38 18 0.05
39 20 0.06
41 72 0.21
42 206 0.59
43 32 0.09
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:9719612 original size:18 final size:18
Alignment explanation
Indices: 9719589--9719631 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9719579 GAGCTTTGGT
9719589 CAAAAACAA-AAAAAAAAA
1 CAAAAA-AACAAAAAAAAA
9719607 CAAAAAAACAAAAAAAAA
1 CAAAAAAACAAAAAAAAA
*
9719625 TAAAAAA
1 CAAAAAA
9719632 TGACAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.02
Consensus pattern (18 bp):
CAAAAAAACAAAAAAAAA
Found at i:9719763 original size:20 final size:21
Alignment explanation
Indices: 9719726--9719766 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9719716 TGTAGACACC
9719726 CAATTGGGTCCAGGCCCAAAT
1 CAATTGGGTCCAGGCCCAAAT
*
9719747 CAATTGGG-CCTGGCCCAAAT
1 CAATTGGGTCCAGGCCCAAAT
9719767 GGGTAAGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (21 bp):
CAATTGGGTCCAGGCCCAAAT
Found at i:9719834 original size:9 final size:9
Alignment explanation
Indices: 9719820--9719859 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
9719810 CTCTTTCTTT
9719820 TGTATTTTA
1 TGTATTTTA
9719829 TGTATTTTA
1 TGTATTTTA
9719838 T-TA-TTTA
1 TGTATTTTA
9719845 T-TATTATTA
1 TGTATT-TTA
9719854 TGTATT
1 TGTATT
9719860 AATATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 3 0.11
9 14 0.50
10 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (9 bp):
TGTATTTTA
Found at i:9719879 original size:37 final size:37
Alignment explanation
Indices: 9719838--9719954 Score: 93
Period size: 37 Copynumber: 3.2 Consensus size: 37
9719828 ATGTATTTTA
9719838 TTATTTATTA-TTATTATGTATTAATATATGTATATAT
1 TTATTTATTAGTTATTATGTATTAATATAT-TATATAT
* * *
9719875 TTATTTATTTATTTATTA-G-ATTAGATTTA-TATGTATT
1 TTATTTA-TTAGTTATTATGTATTA-ATATATTATATA-T
* *
9719912 TTATTTATATAGTTATATATTTATTATTATATTAT-TA-
1 TTATTTAT-TAGTTAT-TATGTATTAATATATTATATAT
9719949 TTATTT
1 TTATTT
9719955 TTTTTGTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
36 6 0.09
37 31 0.48
38 10 0.15
39 11 0.17
40 7 0.11
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (37 bp):
TTATTTATTAGTTATTATGTATTAATATATTATATAT
Found at i:9719880 original size:45 final size:45
Alignment explanation
Indices: 9719820--9719949 Score: 114
Period size: 45 Copynumber: 2.9 Consensus size: 45
9719810 CTCTTTCTTT
* *
9719820 TGTATTTTATGTATTTTATTATTTATTATTATTATGTATTAATATA
1 TGTATTATATTTATTTTATTATTTATTATTATTATGTATT-ATATA
*
9719866 TGTA-TATATTTA-TTTATTTATTTATTA-GATTA-G-ATT-TATA
1 TGTATTATATTTATTTTA-TTATTTATTATTATTATGTATTATATA
*
9719906 TGTATTTTATTTATATAGTTATATATTTATTATTA-TAT-TATTAT
1 TGTATTATATTTAT-T--TTAT-TATTTATTATTATTATGTATTAT
9719950 TATTTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 21
0.72 0.05 0.22
Matches are distributed among these distances:
40 8 0.12
41 7 0.10
42 3 0.04
43 2 0.03
44 9 0.13
45 30 0.44
46 8 0.12
47 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (45 bp):
TGTATTATATTTATTTTATTATTTATTATTATTATGTATTATATA
Found at i:9719929 original size:8 final size:7
Alignment explanation
Indices: 9719836--9719953 Score: 52
Period size: 8 Copynumber: 16.6 Consensus size: 7
9719826 TTATGTATTT
*
9719836 TATTATT
1 TATTATA
9719843 TATTAT-
1 TATTATA
*
9719849 TATTATG
1 TATTATA
9719856 TATTAATA
1 TATT-ATA
9719864 TATGTATA
1 TAT-TATA
9719872 TATT-TA
1 TATTATA
*
9719878 T-TTATT
1 TATTATA
9719884 TATTTATTA
1 TA-TTA-TA
* *
9719893 GATTAGA
1 TATTATA
9719900 T-TTATA
1 TATTATA
*
9719906 TGTATTTTA
1 --TATTATA
9719915 T-TTATA
1 TATTATA
9719921 TAGTTATA
1 TA-TTATA
9719929 TATT-TA
1 TATTATA
9719935 TTATTATA
1 -TATTATA
9719943 TTATTAT-
1 -TATTATA
9719950 TATT
1 TATT
9719954 TTTTTTGTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 29
0.70 0.07 0.23
Matches are distributed among these distances:
5 2 0.02
6 26 0.30
7 19 0.22
8 34 0.39
9 7 0.08
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:9720598 original size:19 final size:20
Alignment explanation
Indices: 9720574--9720620 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9720564 TTCCGGCGAA
9720574 ATTCCGACG-AAATTTCCAG
1 ATTCCGACGCAAATTTCCAG
* *
9720593 ATTCCGACGCCATTTTCCAG
1 ATTCCGACGCAAATTTCCAG
*
9720613 AATCCGAC
1 ATTCCGAC
9720621 AAAAATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTCCGACGCAAATTTCCAG
Found at i:9720917 original size:17 final size:17
Alignment explanation
Indices: 9720881--9720930 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9720871 GCTCCAGGTT
*
9720881 TTTTTTTTTTCTTTGAA
1 TTTTTTTTTTATTTGAA
**
9720898 TTTTTTTTTTATTTTCA
1 TTTTTTTTTTATTTGAA
*
9720915 TTTATTTGTTTATTTG
1 TTT-TTTTTTTATTTG
9720931 TTTTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTTATTTGAA
Found at i:9720997 original size:17 final size:16
Alignment explanation
Indices: 9720943--9721002 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
9720933 TTTTTATTTT
9720943 TTTTTATTTATTATATTA
1 TTTTTATTTA--ATATTA
** *
9720961 GGTTTATTTAATATTC
1 TTTTTATTTAATATTA
*
9720977 TTTTTATCTTAATTTTA
1 TTTTTAT-TTAATATTA
9720994 TTTTTATTT
1 TTTTTATTT
9721003 TTGTTTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 12 0.35
17 14 0.41
18 8 0.24
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTATTTAATATTA
Found at i:9721042 original size:20 final size:21
Alignment explanation
Indices: 9721019--9721058 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
9721009 TACTTTTCTT
9721019 TATTTTTTATTATT-TATTTA
1 TATTTTTTATTATTCTATTTA
9721039 TATTTTTTATTATTCTATTT
1 TATTTTTTATTATTCTATTT
9721059 TCTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTTTATTATTCTATTTA
Found at i:9721238 original size:61 final size:61
Alignment explanation
Indices: 9721067--9721396 Score: 399
Period size: 61 Copynumber: 5.4 Consensus size: 61
9721057 TTTCTTCAAA
*
9721067 TAAAAATCAAATTTT-GCAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAATTTTCGAAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCT
* ***
9721128 TAGAAATAAATTTTC--AAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
*
9721187 TAAAAATAAAGTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
9721248 TGAAAACCA-AAATTTTTG--AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCT
1 T-AAAA--ATAAATTTTCGAAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
** *
9721309 TAAAAATAAATTTTC-AAAAAAAAGGATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** * *
9721369 TGGAAATCAAAGTTTCAAAAAAAAAATA
1 TAAAAAT-AAATTTTCGAAAAAAAAATA
9721397 AATTTCCAAA
Statistics
Matches: 233, Mismatches: 22, Indels: 27
0.83 0.08 0.10
Matches are distributed among these distances:
58 1 0.00
59 57 0.24
60 57 0.24
61 97 0.42
62 13 0.06
63 7 0.03
64 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (61 bp):
TAAAAATAAATTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:9721392 original size:121 final size:119
Alignment explanation
Indices: 9721067--9721392 Score: 433
Period size: 120 Copynumber: 2.7 Consensus size: 119
9721057 TTTCTTCAAA
*
9721067 TAAAAATCAAATTTTGCAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAG
1 TAAAAAT-AAATTTT-CAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGG
* **
9721131 AAAT-AAATTTTCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
63 AAATCAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
9721187 TAAAAATAAAGTTTCGAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 TAAAAATAAATTTTC--AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGA
* ** * *
9721252 AACCAAAATTTTTGAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCT
64 AATCAAAA-TTTCAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
9721309 TAAAAATAAATTTTCAAAAAAAAGGATTTTTGAGGAAAATTTGAAAGTATCAATTTTCCTTGGAA
1 TAAAAATAAATTTTCAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAA
*
9721374 ATCAAAGTTTCAAAAAAAA
65 ATCAAAATTTCAAAAAAAA
9721393 AATAAATTTC
Statistics
Matches: 180, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
118 1 0.01
119 6 0.03
120 69 0.38
121 50 0.28
122 54 0.30
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (119 bp):
TAAAAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAA
TCAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:9722660 original size:13 final size:13
Alignment explanation
Indices: 9722642--9722675 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9722632 ATAATATTTT
* *
9722642 TATTAAGTTAATA
1 TATTAAATTAAAA
9722655 TATTAAATTAAAA
1 TATTAAATTAAAA
9722668 TATTAAAT
1 TATTAAAT
9722676 AATAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TATTAAATTAAAA
Found at i:9723447 original size:23 final size:22
Alignment explanation
Indices: 9723403--9723457 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9723393 ATTTATGTTC
9723403 ATTTATATATTTATAAAAAATTT
1 ATTTA-ATATTTATAAAAAATTT
* **
9723426 GTTTAATATTTATGAATGAATTT
1 ATTTAATATTTAT-AAAAAATTT
*
9723449 ATTTGATAT
1 ATTTAATAT
9723458 AAATGAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTTAATATTTATAAAAAATTT
Found at i:9724040 original size:2 final size:2
Alignment explanation
Indices: 9724029--9724058 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9724019 GTTACAAGAG
9724029 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9724059 ATGAAGGCAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9727123 original size:34 final size:35
Alignment explanation
Indices: 9727070--9727135 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
9727060 AGTGTTAATA
* *
9727070 TTTTTATTTTTTGATAATTTTTTATAGATTTTGAG
1 TTTTTATTTTTTGAAAATTTTTTATAAATTTTGAG
*
9727105 TTTTTATTTTTT-AAAATTTTTTTTAAATTTT
1 TTTTTATTTTTTGAAAATTTTTTATAAATTTT
9727136 TCATTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (35 bp):
TTTTTATTTTTTGAAAATTTTTTATAAATTTTGAG
Found at i:9729152 original size:31 final size:30
Alignment explanation
Indices: 9729105--9729196 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 30
9729095 ATAATGATTT
9729105 AGGTTCAAGA-CTTATTTAGATACAAATTAA
1 AGGTT-AAGAGCTTATTTAGATACAAATTAA
* * *
9729135 ACGTTTAATAGCTTATTTGGATACAAATTAA
1 A-GGTTAAGAGCTTATTTAGATACAAATTAA
* * *
9729166 AGGTTAAGAGATTATTTTGATGCAAATTAA
1 AGGTTAAGAGCTTATTTAGATACAAATTAA
9729196 A
1 A
9729197 AATTAATGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
30 29 0.56
31 23 0.44
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (30 bp):
AGGTTAAGAGCTTATTTAGATACAAATTAA
Found at i:9729211 original size:30 final size:30
Alignment explanation
Indices: 9729115--9729212 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
9729105 AGGTTCAAGA
* *
9729115 CTTATTTAGATACAAATTAAACGTTTAATAG
1 CTTATTTAGATACAAATTAAA-GATTAATGG
* *
9729146 CTTATTTGGATACAAATTAAAGGTTAA-GAG
1 CTTATTTAGATACAAATTAAAGATTAATG-G
* * * *
9729176 ATTATTTTGATGCAAATTAAAAATTAATGG
1 CTTATTTAGATACAAATTAAAGATTAATGG
9729206 CTTATTT
1 CTTATTT
9729213 GAATATAACA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
30 35 0.62
31 21 0.38
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (30 bp):
CTTATTTAGATACAAATTAAAGATTAATGG
Found at i:9729597 original size:113 final size:113
Alignment explanation
Indices: 9729473--9729705 Score: 430
Period size: 113 Copynumber: 2.1 Consensus size: 113
9729463 AAACTTCTAT
*
9729473 TTTTTTTATATAATAACATTACAATATTAATAGAAATAAATAAATAAAGTTGAAAGTATCAATTT
1 TTTTTTTATATAATAACATTACAATATTAATAGAAATAAATAAAAAAAGTTGAAAGTATCAATTT
** *
9729538 TTTTAATGTTGAAAGTATCAACATGTGAAATGCAGTAATTGTGGATTA
66 TCCTAATGTTGAAAGTATCAACATGTGAAACGCAGTAATTGTGGATTA
9729586 TTTTTTTATATAATAACATTACAATATTAATAGAAATAAATAAAAAAAGTTGAAAGTATCAATTT
1 TTTTTTTATATAATAACATTACAATATTAATAGAAATAAATAAAAAAAGTTGAAAGTATCAATTT
9729651 TCCTAATGTTGAAAGTATCAACATGTGAAACGCAGTAATTGTGGATTA
66 TCCTAATGTTGAAAGTATCAACATGTGAAACGCAGTAATTGTGGATTA
9729699 TTTTTTT
1 TTTTTTT
9729706 GACAAATACA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (113 bp):
TTTTTTTATATAATAACATTACAATATTAATAGAAATAAATAAAAAAAGTTGAAAGTATCAATTT
TCCTAATGTTGAAAGTATCAACATGTGAAACGCAGTAATTGTGGATTA
Found at i:9732827 original size:14 final size:14
Alignment explanation
Indices: 9732805--9732839 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9732795 CTAACACCAC
9732805 AAAATAACAT-ATA
1 AAAATAACATAATA
9732818 AAATATAACATAATA
1 AAA-ATAACATAATA
9732833 AAAATAA
1 AAAATAA
9732840 ACAATCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 11 0.55
15 6 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAACATAATA
Found at i:9732977 original size:13 final size:13
Alignment explanation
Indices: 9732959--9732989 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9732949 ATTTGTTTAT
9732959 TAAAAGAAAATAA
1 TAAAAGAAAATAA
*
9732972 TAAAAGTAAATAA
1 TAAAAGAAAATAA
9732985 TAAAA
1 TAAAA
9732990 TTAGATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
TAAAAGAAAATAA
Found at i:9733125 original size:18 final size:18
Alignment explanation
Indices: 9733094--9733138 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9733084 ATGTAAGTAA
* *
9733094 AATATATTAAATTAATTT
1 AATATATTTAATTAAATT
*
9733112 AATATATTTTATTAAATT
1 AATATATTTAATTAAATT
9733130 -ATATATTTA
1 AATATATTTA
9733139 TATATGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATATTTAATTAAATT
Found at i:9744092 original size:42 final size:41
Alignment explanation
Indices: 9744060--9744152 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
9744050 ATACATAAAT
*
9744060 ATAATATTTTTATTAAGT-TAATATTTTAAATTAAAATATTAA
1 ATAATAATTTTATTAA-TATAATATTTTAAATTAAAATA-TAA
* *
9744102 ATAATAATTTTATTAATATAATATATATAAATATAAACT-TAA
1 ATAATAATTTTATTAATATAATAT-TTTAAAT-TAAAATATAA
9744144 ATAAATAAT
1 AT-AATAAT
9744153 AAAAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 26 0.59
43 12 0.27
44 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
ATAATAATTTTATTAATATAATATTTTAAATTAAAATATAA
Found at i:9744985 original size:20 final size:22
Alignment explanation
Indices: 9744960--9744999 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9744950 TATCCAATAC
*
9744960 AAAT-AATTTTAAAA-ATAAAT
1 AAATAAATTATAAAATATAAAT
9744980 AAATAAATTATAAAATATAA
1 AAATAAATTATAAAATATAA
9745000 CAAAACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAATTATAAAATATAAAT
Found at i:9746731 original size:24 final size:24
Alignment explanation
Indices: 9746703--9746751 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9746693 TGAAACTAGC
*
9746703 TTAAAATTGATAATGAAAGCCATA
1 TTAAAATTGAAAATGAAAGCCATA
9746727 TTAAAATTGAAAATGAAAGCCATA
1 TTAAAATTGAAAATGAAAGCCATA
9746751 T
1 T
9746752 CTTCCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAAAATTGAAAATGAAAGCCATA
Found at i:9747105 original size:22 final size:21
Alignment explanation
Indices: 9747077--9747124 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9747067 ATTTTTTATT
*
9747077 TTATTAAATTTATAAATAATAA
1 TTATTAAAATTATAAATAAT-A
* *
9747099 TTATTAAAATTCTAAATCATA
1 TTATTAAAATTATAAATAATA
9747120 TTATT
1 TTATT
9747125 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTAAAATTATAAATAATA
Found at i:9748146 original size:26 final size:25
Alignment explanation
Indices: 9748063--9748143 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 25
9748053 GACAAATCCG
9748063 ATTTAATATATTTATATATAATTATT-T
1 ATTTAATATA-TT-TATATAATT-TTAT
* *
9748090 -TTTAATA-AATTATTTAATTTTAT
1 ATTTAATATATTTATATAATTTTAT
9748113 ATTTATATATATTTATATAATTTTAT
1 ATTTA-ATATATTTATATAATTTTAT
9748139 ATTTA
1 ATTTA
9748144 TATTAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.04
23 9 0.20
24 5 0.11
25 4 0.09
26 26 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTAATATATTTATATAATTTTAT
Found at i:9748406 original size:33 final size:32
Alignment explanation
Indices: 9748359--9748423 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
9748349 ATGTTTTAAA
*
9748359 AAAATTTAATAATTTATGTATTTATATAATAT
1 AAAATTTAAAAATTTATGTATTTATATAATAT
*
9748391 AAAATATTAAAAATTTATGTATTTATATCATAT
1 AAAAT-TTAAAAATTTATGTATTTATATAATAT
9748424 TTTATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
AAAATTTAAAAATTTATGTATTTATATAATAT
Found at i:9749010 original size:10 final size:10
Alignment explanation
Indices: 9748995--9749032 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9748985 TAACATAAAT
9748995 ATTTTTTTTA
1 ATTTTTTTTA
9749005 ATTTTTTTTA
1 ATTTTTTTTA
*
9749015 A-TTATTTTA
1 ATTTTTTTTA
9749024 ATTATTTTT
1 ATT-TTTTT
9749033 GAGTTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 12 0.50
11 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:9758199 original size:52 final size:51
Alignment explanation
Indices: 9758120--9758266 Score: 213
Period size: 52 Copynumber: 2.8 Consensus size: 51
9758110 TATAACCATA
* *
9758120 CAAACTTGCCCATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAAT-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
9758172 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-TTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
9758224 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCCT-TTCCTCTTAGAATTCTTCT
9758267 TTTACAAGTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 3 0.03
52 83 0.97
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:9758578 original size:23 final size:25
Alignment explanation
Indices: 9758539--9758603 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
9758529 GGACTTGCTT
**
9758539 CTTCTCATGTCTCAAACC-AT-GCA
1 CTTCTCACATCTCAAACCTATAGCA
* * *
9758562 CTTCTCACATCTGAAACCTTTAGCT
1 CTTCTCACATCTCAAACCTATAGCA
9758587 CTTCTCACATCTCAAAC
1 CTTCTCACATCTCAAAC
9758604 TTTTAGCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 15 0.44
24 1 0.03
25 18 0.53
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.32
Consensus pattern (25 bp):
CTTCTCACATCTCAAACCTATAGCA
Found at i:9758623 original size:24 final size:25
Alignment explanation
Indices: 9758562--9758615 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
9758552 AAACCATGCA
*
9758562 CTTCTCACATCTGAAACCTTTAGCT
1 CTTCTCACATCTCAAACCTTTAGCT
*
9758587 CTTCTCACATCTCAAACTTTTAGCT
1 CTTCTCACATCTCAAACCTTTAGCT
9758612 CTTC
1 CTTC
9758616 CATGTCTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (25 bp):
CTTCTCACATCTCAAACCTTTAGCT
Found at i:9758716 original size:31 final size:31
Alignment explanation
Indices: 9758681--9758765 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
9758671 TTCGAACCTT
* *
9758681 CAGCTCTAATACCACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
* *
9758712 CAGCTCTGATACCATTTGTTTGGGATCACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
9758743 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
9758766 CTAAAAGCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGGAACACCA
Found at i:9759328 original size:52 final size:51
Alignment explanation
Indices: 9759249--9759405 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 51
9759239 TATAACCATA
*
9759249 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAAT-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
9759301 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-TTTCCTCTTAGAATTCTTCTCCTGCAAGT
** * * **
9759353 CAAACTTATCTATTAAGAATCCTCTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCT-TTCCTCTTAGAATTCTTCTCCTGCAAGT
9759405 C
1 C
9759406 TTCTTATCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.03
52 91 0.97
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:9759445 original size:11 final size:11
Alignment explanation
Indices: 9759429--9759460 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
9759419 AGCAATATCT
9759429 AACAAATCTCA
1 AACAAATCTCA
9759440 AACAAATCTCA
1 AACAAATCTCA
9759451 AACAAATCTC
1 AACAAATCTC
9759461 TTATGGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:9760589 original size:25 final size:25
Alignment explanation
Indices: 9760561--9760611 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9760551 GTGTTGCTTT
*
9760561 TAGGTGATAGGTGAATGATTGATAA
1 TAGGTAATAGGTGAATGATTGATAA
9760586 TAGGTAATAGGTGAATGATTGATAA
1 TAGGTAATAGGTGAATGATTGATAA
9760611 T
1 T
9760612 GGCTGGGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.33
Consensus pattern (25 bp):
TAGGTAATAGGTGAATGATTGATAA
Found at i:9761831 original size:91 final size:93
Alignment explanation
Indices: 9761721--9761908 Score: 274
Period size: 91 Copynumber: 2.0 Consensus size: 93
9761711 CAGCAAAGAA
*
9761721 TCAATCGTGCTTTAGGGAATATGCATTGCTGTTTCCACATCCAT-ATGAAGAAACGAAGAAACCA
1 TCAATCGTGCTTTAAGGAATATGCATTGCTGTTTCCACATCC-TGATGAAGAAACGAAGAAACCA
**
9761785 CTAATTTTCCTAC-GAGTAAACAAAATGC
65 CTAACATTCCTACTGAGTAAACAAAATGC
* *
9761813 TCAAT-GTGCTTTAAGGAATATGCCTTGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCAC
1 TCAATCGTGCTTTAAGGAATATGCATTGCTGTTTCCACATCCTGATGAAGAAACGAAGAAACCAC
*
9761877 TAACATTCCTACTTTGAGTAAACAAAGTGC
66 TAACATTCCTAC--TGAGTAAACAAAATGC
9761907 TC
1 TC
9761909 TATTTGTGGT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
90 1 0.01
91 64 0.74
92 5 0.06
94 16 0.19
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (93 bp):
TCAATCGTGCTTTAAGGAATATGCATTGCTGTTTCCACATCCTGATGAAGAAACGAAGAAACCAC
TAACATTCCTACTGAGTAAACAAAATGC
Found at i:9773977 original size:22 final size:22
Alignment explanation
Indices: 9773946--9774018 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
9773936 TTAAGTACAA
*
9773946 AAAAAATATATTTAAATATATG
1 AAAAATTATATTTAAATATATG
*
9773968 AAAAATTATA-TTAAATAATATT
1 AAAAATTATATTTAAAT-ATATG
*
9773990 AAAAATTTAAAATTTAAA-ATATG
1 AAAAA-TT-ATATTTAAATATATG
*
9774013 ATAAAT
1 AAAAAT
9774019 CGAATTGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.14
22 19 0.45
23 10 0.24
24 2 0.05
25 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AAAAATTATATTTAAATATATG
Found at i:9775762 original size:14 final size:14
Alignment explanation
Indices: 9775743--9775771 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9775733 ACAGAGAATT
9775743 TGATTAGTCTTAAA
1 TGATTAGTCTTAAA
9775757 TGATTAGTCTTAAA
1 TGATTAGTCTTAAA
9775771 T
1 T
9775772 CGCAATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
TGATTAGTCTTAAA
Found at i:9776491 original size:49 final size:49
Alignment explanation
Indices: 9776432--9777079 Score: 768
Period size: 49 Copynumber: 13.1 Consensus size: 49
9776422 ATTGGAGCTT
9776432 TTTTTC-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* ** *
9776480 TTTTTGAAGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCCAAGAGTAGC
1 TTTTTCAAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
9776530 TTTTTCAAGATGAGATTTTTTAAGTTGTTGAGTCTCTGCTGAGAGGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * *
9776579 TCTTTTCAAGATGAGAATTTTTAAAGTTGTCGAGCCTCTACTAAGAGGAGC
1 T-TTTTCAAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
9776630 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * *
9776680 CTTTTCAAGATGAGGGTTTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCC
1 TTTTTCAAGATGA--GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * *
9776732 CTTTTCAAAATGAGAATTTTCAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1 TTTTTCAAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* **
9776782 TTTTTCAA-ATGAGAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * * * ** *
9776830 TTTTTCCAGATAAAATTTTTAAAGTTGTTAAGCCTCAACTGAGATGAGCC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
* * * *
9776880 TTTTTCAAGATAAAATTTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * *
9776929 TTTTTCAAGATG-GA-TTTTAAAGTTGTTGAACCTCTACTGAGATGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* ** * * * *
9776976 TTTTTCAAGATAAGATTTCAAAAATTGTTAAGCCTTTGCTGAGATGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * * * *
9777025 TTTTTCAAAATGA-A-TTTTGAAGTTATTGAGCCTCTACTGAGATGAGCC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C
9777073 TTTTTCA
1 TTTTTCA
9777080 GATTTTAAAT
Statistics
Matches: 519, Mismatches: 68, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
47 63 0.12
48 55 0.11
49 155 0.30
50 137 0.26
51 62 0.12
52 47 0.09
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (49 bp):
TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
Found at i:9776546 original size:99 final size:99
Alignment explanation
Indices: 9776432--9777079 Score: 783
Period size: 99 Copynumber: 6.6 Consensus size: 99
9776422 ATTGGAGCTT
*
9776432 TTTTTC-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTGAAGATGAGAA
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAA
* *
9776496 TTTTTAAAGTTGTTGAGCCTCTGCCAAGAGTAGC
66 TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
* *
9776530 TTTTTCAAGATGAGATTTTTTAAGTTGTTGAGTCTCTGCTGAGAGGAGCTCTTTTCAAGATGAGA
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTTCAAGATGAGA
* *
9776595 ATTTTTAAAGTTGTCGAGCCTCTACTAAGAGGAGC
65 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
*
9776630 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAGG
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGA-G
**
9776695 GTTTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCC
64 AATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG-C
* * *
9776732 CTTTTCAAAATGAGAATTTTCAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAA-ATGAGA
1 TTTTTCAAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA
** *
9776796 A-TTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGC
65 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
* * * * ** * *
9776830 TTTTTCCAGATAAAATTTTTAAAGTTGTTAAGCCTCAACTGAGATGAGCCTTTTTCAAGAT-AAA
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGA
* * *
9776894 ATTTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGC
65 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
* * * *
9776929 TTTTTCAAGATG-GA-TTTTAAAGTTGTTGAACCTCTACTGAGATGAGCTTTTTCAAGATAAG-A
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAA
** * * * * *
9776991 TTTCAAAAATTGTTAAGCCTTTGCTGAGATGAGC
66 TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
* * * * *
9777025 TTTTTCAAAATGA-A-TTTTGAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCA
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
9777080 GATTTTAAAT
Statistics
Matches: 485, Mismatches: 53, Indels: 25
0.86 0.09 0.04
Matches are distributed among these distances:
96 82 0.17
97 67 0.14
98 29 0.06
99 113 0.23
100 103 0.21
101 37 0.08
102 21 0.04
103 33 0.07
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (99 bp):
TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAA
TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
Found at i:9779021 original size:21 final size:20
Alignment explanation
Indices: 9778979--9779022 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9778969 TTAGAATTTT
* **
9778979 TTTTAATATTATTTTTGTTA
1 TTTTAATATTATTCTTAATA
9778999 TTTTAATTATTATTCTTAATA
1 TTTTAA-TATTATTCTTAATA
9779020 TTT
1 TTT
9779023 ATGCATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTAATATTATTCTTAATA
Found at i:9781956 original size:52 final size:51
Alignment explanation
Indices: 9781814--9781958 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 51
9781804 TATAACCATA
* * * *
9781814 CAAACTTGCCCATTAAAAATCCCTCTCATCTTAGAATTCTTCTCCCGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTC-TCTTAGAATTCTTCTCCCGCAAGT
* **
9781866 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCCCGCAAGT
*
9781918 CAAACTTACCTATTAAGAATCCTCTTTCTCTT-GAAATTCTT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTAG-AATTCTT
9781959 AATTTGCAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
51 1 0.01
52 75 0.93
53 5 0.06
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.38
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCCCGCAAGT
Found at i:9781966 original size:52 final size:52
Alignment explanation
Indices: 9781862--9781970 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 52
9781852 CTTCTCCCGT
* * *
9781862 AAGTCAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGC
1 AAGTCAAACTTACCTATTAAGAATCCCTTTCCTTTGAGAATTCTTATCTTGC
9781914 AAGTCAAACTTACCTATTAAGAATCCTCTTT-CTCTTGA-AATTCTTAAT-TTGC
1 AAGTCAAACTTACCTATTAAGAATCC-CTTTCCT-TTGAGAATTCTT-ATCTTGC
9781966 AAGTC
1 AAGTC
9781971 TTCTTGTCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
52 43 0.84
53 8 0.16
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (52 bp):
AAGTCAAACTTACCTATTAAGAATCCCTTTCCTTTGAGAATTCTTATCTTGC
Found at i:9782272 original size:23 final size:25
Alignment explanation
Indices: 9782233--9782297 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
9782223 GGACTTACTT
**
9782233 CTTCCCATGTCTCAAACC-AT-GCA
1 CTTCCCACATCTCAAACCTATAGCA
* * *
9782256 CTTCCCACATCTGAAACCTTTAGCT
1 CTTCCCACATCTCAAACCTATAGCA
9782281 CTTCCCACATCTCAAAC
1 CTTCCCACATCTCAAAC
9782298 TTTCAACTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 15 0.44
24 1 0.03
25 18 0.53
ACGTcount: A:0.26, C:0.40, G:0.06, T:0.28
Consensus pattern (25 bp):
CTTCCCACATCTCAAACCTATAGCA
Found at i:9782307 original size:25 final size:25
Alignment explanation
Indices: 9782256--9782317 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
9782246 AAACCATGCA
* *
9782256 CTTCCCACATCTGAAACCTTTAGCT
1 CTTCCCACATCTCAAACCTTTAACT
9782281 CTTCCCACATCTCAAA-CTTTCAACT
1 CTTCCCACATCTCAAACCTTT-AACT
*
9782306 CTT-TCACATCTC
1 CTTCCCACATCTC
9782318 TTTCACATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.24, C:0.39, G:0.03, T:0.34
Consensus pattern (25 bp):
CTTCCCACATCTCAAACCTTTAACT
Found at i:9782977 original size:52 final size:52
Alignment explanation
Indices: 9782873--9782977 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
9782863 TATAACCATA
* *
9782873 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCCGTAAGT
1 CAAACTTGCCCATTAAGAATCCCTCTCATCTTAGAATTCTTCTCCCGCAAGT
* * * **
9782925 CAAACTTGCCTATTAAGAATCCCTTTCATTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCCATTAAGAATCCCTCTCATCTTAGAATTCTTCTCCCGCAAGT
9782977 C
1 C
9782978 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.36
Consensus pattern (52 bp):
CAAACTTGCCCATTAAGAATCCCTCTCATCTTAGAATTCTTCTCCCGCAAGT
Found at i:9784205 original size:23 final size:23
Alignment explanation
Indices: 9784171--9784215 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9784161 GAATGGATAA
*
9784171 AGACGGTTTGAGAGAGTGTGCGT
1 AGACGGTCTGAGAGAGTGTGCGT
9784194 AGACGGTCTGAGAGAGTGTGCG
1 AGACGGTCTGAGAGAGTGTGCG
9784216 CTTTAAGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (23 bp):
AGACGGTCTGAGAGAGTGTGCGT
Found at i:9784802 original size:154 final size:155
Alignment explanation
Indices: 9784484--9784867 Score: 440
Period size: 154 Copynumber: 2.5 Consensus size: 155
9784474 TTTTAAATTT
* * * * *
9784484 TTAA-TTCAAAAGTATTAAAAGTGATTGACTAAAATA-TACTTAGTAAATGTTTTTAAAATTTTT
1 TTAATTTCAAAAATGTTAAAAGTGATTAACTAAAATACCA-TTAGTAAATG-TTTTATAA-TTTT
* *
9784547 AATTTAAATGAAATTTATTATTATTAGACTGTTTTTTTATATAATTAGACTAAGAAAGTATTAAA
63 AATATAAATGAAATTTATTATTATTAGAC--TTTTTTTATATAATTAGACTAAGAAAGTACTAAA
* *
9784612 AATAATTGACTAAAATATCCTTAATAAATT
126 AATAATTGACTAAAAGATCCTTAATAAATA
* ** *
9784642 TTAATTTCAAAAATGTTAAAATTGATTAACTAAGTTACCGTTAGTAAATGTTTTATGAATTTTAA
1 TTAATTTCAAAAATGTTAAAAGTGATTAACTAAAATACCATTAGTAAATGTTTTAT-AATTTTAA
* * * *
9784707 TATAACTGAATTTTATTATTATTAGA-TTTTTTT-TATAATTAGACTAA-AAAGGTGCTAAAAGT
65 TATAAATGAAATTTATTATTATTAGACTTTTTTTATATAATTAGACTAAGAAA-GTACTAAAAAT
*
9784769 AATTGACTAAAAGATTC-TACATAAATA
129 AATTGACTAAAAGATCCTTA-ATAAATA
* * * *
9784796 TTAATTTCAAAAATTTTAAAAGTGATTGACTAAAATACCATTAG-AATTTTTTTATAATTTTAAT
1 TTAATTTCAAAAATGTTAAAAGTGATTAACTAAAATACCATTAGTAAATGTTTTATAATTTTAAT
*
9784860 TTAAATGA
66 ATAAATGA
9784868 CTTTTTTTTT
Statistics
Matches: 193, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
152 15 0.08
153 14 0.07
154 81 0.42
155 7 0.04
158 38 0.20
159 38 0.20
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (155 bp):
TTAATTTCAAAAATGTTAAAAGTGATTAACTAAAATACCATTAGTAAATGTTTTATAATTTTAAT
ATAAATGAAATTTATTATTATTAGACTTTTTTTATATAATTAGACTAAGAAAGTACTAAAAATAA
TTGACTAAAAGATCCTTAATAAATA
Found at i:9795464 original size:2 final size:2
Alignment explanation
Indices: 9795457--9795495 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9795447 TCTAGTATTT
* * *
9795457 TA TA TA TA TA TA CA TA CA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9795496 TATCAATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9808427 original size:12 final size:12
Alignment explanation
Indices: 9808407--9808438 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9808397 GCAAACACAT
*
9808407 GATTCATATCAG
1 GATTTATATCAG
9808419 GATTTATATCAG
1 GATTTATATCAG
9808431 GATTTATA
1 GATTTATA
9808439 CGAAACAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (12 bp):
GATTTATATCAG
Found at i:9811622 original size:19 final size:20
Alignment explanation
Indices: 9811585--9811624 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9811575 CAATTATCAA
*
9811585 AAATTAAATCTTCATATTTT
1 AAATTAAATCTTAATATTTT
9811605 AAATTAAAT-TTAATATTTT
1 AAATTAAATCTTAATATTTT
9811624 A
1 A
9811625 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTAAATCTTAATATTTT
Found at i:9811877 original size:16 final size:17
Alignment explanation
Indices: 9811858--9811893 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9811848 CGATGCATTT
9811858 TAATTATA-TTAAAATA
1 TAATTATATTTAAAATA
9811874 TAA-TATATTTAAAATA
1 TAATTATATTTAAAATA
9811890 -AATT
1 TAATT
9811894 TTCATATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATATTTAAAATA
Found at i:9815087 original size:94 final size:90
Alignment explanation
Indices: 9814945--9815250 Score: 334
Period size: 94 Copynumber: 3.5 Consensus size: 90
9814935 GAATAAACCA
* *
9814945 TGCTTTTTCCACATCCTGATGAAGAAACAAAGAAACCACTAACATTCCTATCTTGAGTAAACAAA
1 TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTAACTTTCCTA-C--GAGTAAACAAA
9815010 ATGGTCAATGTGCTTTAAGGATTATGTCT
63 ATGGTCAATGT-CTTTAAGGATTATGTCT
9815039 TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTAACTTTCCTACGAGTAAAACAAAAA
1 TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTAACTTTCCTACGAGT-AAAC-AAAA
*
9815104 TGGTTCAAGGTCTTTAAGGATTATGTCTT
64 TGG-TCAATGTCTTTAAGGATTATGTC-T
* * *
9815133 TGC-TTTTCCACATCCT--T----AAA--AAGAAACCACTAACTTCCCAACGAG-AAATAAAAAT
1 TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTAACTTTCCTACGAGTAAA-CAAAAT
* * * * *
9815188 GCTCAATTTCTTTAAAGAATATGCCT
65 GGTCAATGTCTTTAAGGATTATGTCT
9815214 TG-TTTTTCCACAT-CTGA-GAAG-AACGAAGAAACCACTA
1 TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTA
9815251 GCATTTCTAC
Statistics
Matches: 186, Mismatches: 12, Indels: 36
0.79 0.05 0.15
Matches are distributed among these distances:
80 2 0.01
81 13 0.07
82 18 0.10
83 9 0.05
84 2 0.01
85 23 0.12
86 12 0.06
87 3 0.02
91 5 0.03
92 4 0.02
93 37 0.20
94 58 0.31
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (90 bp):
TGCTTTTTCCACATCCTGATGAAGAAACGAAGAAACCACTAACTTTCCTACGAGTAAACAAAATG
GTCAATGTCTTTAAGGATTATGTCT
Found at i:9818303 original size:2 final size:2
Alignment explanation
Indices: 9818296--9818329 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9818286 CATTTCTTAA
* *
9818296 AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9818330 TGTATGGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9822970 original size:23 final size:22
Alignment explanation
Indices: 9822941--9823016 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
9822931 TATTACTATG
*
9822941 TATTAATATCTTTATTTATTTAT
1 TATTAATAT-TTTATATATTTAT
*
9822964 TATTAATA-TTTATATGTATT-T
1 TATTAATATTTTATATAT-TTAT
* *
9822985 TATTTATATAGTTATATATTTAT
1 TATTAATAT-TTTATATATTTAT
9823008 TATT-ATATT
1 TATTAATATT
9823017 ATAATTTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 15 0.35
22 8 0.19
23 20 0.47
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTAATATTTTATATATTTAT
Found at i:9822975 original size:17 final size:17
Alignment explanation
Indices: 9822920--9822976 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
9822910 TTATGTATTT
*
9822920 TATTTATTTATTATTAC
1 TATTTATTTATTATTAA
* * *
9822937 TATGTA-TTAATATCT-T
1 TATTTATTTATTAT-TAA
9822953 TATTTATTTATTATTAA
1 TATTTATTTATTATTAA
9822970 TATTTAT
1 TATTTAT
9822977 ATGTATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTATTTATTATTAA
Found at i:9823018 original size:19 final size:20
Alignment explanation
Indices: 9822952--9823030 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 20
9822942 ATTAATATCT
* *
9822952 TTATTTATTTATTATTAATAT
1 TTATATATTTATTATT-ATAG
9822973 TTATATGTATTTTATT-TATATAG
1 TTATA--TA-TTTATTAT-TATAG
9822996 TTATATATTTATTATTATA-
1 TTATATATTTATTATTATAG
9823015 TTATA-ATTTATGTATT
1 TTATATATTTAT-TATT
9823031 TTTTTTCTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 10 0.20
21 7 0.14
23 11 0.22
24 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATATATTTATTATTATAG
Found at i:9823031 original size:74 final size:74
Alignment explanation
Indices: 9822904--9823048 Score: 163
Period size: 74 Copynumber: 2.0 Consensus size: 74
9822894 TTCTTTCTTT
* * *
9822904 TGTATTTTATGTATTTTATTTATTTATTATTACTATGTATTAATATCTTTA-TTTATTTATTATT
1 TGTATTTTATGTATTTTATATATTTATTATTACTATGTATTAATATATGTATTTTATTTATTA-T
9822968 AATATTTATA
65 AATATTTATA
* * * *
9822978 TGTATTTTATTTATATAGTTATATATTTATTATTA-TAT-TA-TAATTTATGTATTTTTTTTCTT
1 TGTATTTTATGTAT-T--TTATATATTTATTATTACTATGTATTAATATATGTATTTTATTTATT
9823040 ATAATATTT
63 ATAATATTT
9823049 TTTTTTAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
74 29 0.48
75 12 0.20
76 3 0.05
77 16 0.27
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (74 bp):
TGTATTTTATGTATTTTATATATTTATTATTACTATGTATTAATATATGTATTTTATTTATTATA
ATATTTATA
Found at i:9824044 original size:22 final size:21
Alignment explanation
Indices: 9824019--9824097 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
9824009 ATTTTTTATC
9824019 TTTATCTTATTTTTATTTTTGT
1 TTTAT-TTATTTTTATTTTTGT
*
9824041 TTTAATTT-TCTTTATTTTTTGT
1 TTT-ATTTATTTTTA-TTTTTGT
* * *
9824063 CTTTATTGATTTTCATTTTTAT
1 -TTTATTTATTTTTATTTTTGT
*
9824085 TTTGTTCTATTTT
1 TTTATT-TATTTT
9824098 CTTTAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.22
22 26 0.58
23 9 0.20
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTTTATTTTTGT
Found at i:9824095 original size:26 final size:26
Alignment explanation
Indices: 9824045--9824095 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
9824035 TTTTGTTTTA
*
9824045 ATTTTCTTTATTTTTTGTCTTTATTG
1 ATTTTCTTTATTTTTTGTCTCTATTG
9824071 ATTTTCATTT-TTATTTTGT-TCTATT
1 ATTTTC-TTTATT-TTTTGTCTCTATT
9824096 TTCTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.73
Consensus pattern (26 bp):
ATTTTCTTTATTTTTTGTCTCTATTG
Found at i:9824186 original size:58 final size:58
Alignment explanation
Indices: 9824111--9824568 Score: 625
Period size: 58 Copynumber: 7.8 Consensus size: 58
9824101 TAAATAAAGA
9824111 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
9824169 TCAAAATAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTT
* *
9824229 TC-GAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * ** *
9824286 TCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTT
1 TC--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
* *
9824347 TCAAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAATAAA-TT
1 TC--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTT
* *
9824407 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * * *
9824465 TCAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTT
1 TC-AAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTT
* *
9824526 TCAAAAGAATATTTTT-GGGAAAAGTTGAAAGTGTCAATTTTCC
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9824569 CTGCACAAAA
Statistics
Matches: 360, Mismatches: 29, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
57 17 0.05
58 120 0.33
59 57 0.16
60 96 0.27
61 66 0.18
62 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:9824342 original size:119 final size:118
Alignment explanation
Indices: 9824111--9824568 Score: 651
Period size: 119 Copynumber: 3.9 Consensus size: 118
9824101 TAAATAAAGA
*
9824111 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTCAAAA
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAAAA
*
9824175 TAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
66 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA-TT
*
9824229 TC-GAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTCAAA
1 TCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTC--A
* * * *
9824291 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTT
63 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
* *
9824347 TCAAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAAATAAA-TTTCCA
1 TC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAA
*
9824411 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATT
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
* * * *
9824465 TCAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTTCAA
1 TC-AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAA
* *
9824530 AAGAATATTTTT-GGGAAAAGTTGAAAGTGTCAATTTTCC
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9824569 CTGCACAAAA
Statistics
Matches: 308, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
117 63 0.20
118 81 0.26
119 111 0.36
121 43 0.14
122 10 0.03
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (118 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAAAA
AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATT
Found at i:9824453 original size:179 final size:174
Alignment explanation
Indices: 9824113--9824568 Score: 689
Period size: 179 Copynumber: 2.6 Consensus size: 174
9824103 AATAAAGATC
* * * * *
9824113 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAATAA
1 AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCAAAAAAA
* * *
9824178 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCGAAAAATATTTT
66 TATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCCAAAAAATATTTT
*
9824243 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
129 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCA
*
9824289 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAA
1 AAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTC--AAA
*
9824354 AAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAA-ATAAATTTCCAAAAAATA
62 AAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AAATTTCCAAAAAATA
*
9824418 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCA
125 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCA
*
9824468 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTTCAAAAG
1 AAAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAGTTTCAAAAA
*
9824533 AATATTTTTGGGAAAAGTTGAAAGTGTCAATTTTCC
64 AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
9824569 CTGCACAAAA
Statistics
Matches: 256, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
176 31 0.12
177 53 0.21
178 9 0.04
179 118 0.46
180 45 0.18
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (174 bp):
AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCAAAAAAA
TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCCAAAAAATATTTTTA
GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCA
Found at i:9828515 original size:27 final size:26
Alignment explanation
Indices: 9828485--9828553 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 26
9828475 ATCAACAATG
9828485 GATGAAAAATGAGAAAAAAAAGAAGA
1 GATGAAAAATGAGAAAAAAAAGAAGA
9828511 TGATGAAAAA--A-AAAAAAAAG--GA
1 -GATGAAAAATGAGAAAAAAAAGAAGA
9828533 -A--AAAAATGAGAAAAAAAAGAA
1 GATGAAAAATGAGAAAAAAAAGAA
9828554 AAAAAATGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
18 5 0.14
20 2 0.05
21 9 0.24
22 2 0.05
24 9 0.24
25 1 0.03
27 9 0.24
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (26 bp):
GATGAAAAATGAGAAAAAAAAGAAGA
Found at i:9828537 original size:11 final size:10
Alignment explanation
Indices: 9828516--9828559 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
9828506 GAAGATGATG
9828516 AAAAA-AAAA
1 AAAAAGAAAA
*
9828525 AAAAAGGAAA
1 AAAAAGAAAA
*
9828535 AAAATGAGAAA
1 AAAAAGA-AAA
9828546 AAAAAGAAAA
1 AAAAAGAAAA
9828556 AAAA
1 AAAA
9828560 TGAGAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 5 0.17
10 15 0.52
11 9 0.31
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9828553 original size:9 final size:9
Alignment explanation
Indices: 9828516--9828559 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
9828506 GAAGATGATG
9828516 AAAAAAA-A
1 AAAAAAAGA
*
9828524 AAAAAAGGA
1 AAAAAAAGA
9828533 AAAAAATGAGA
1 AAAAAA--AGA
9828544 AAAAAAAGA
1 AAAAAAAGA
9828553 AAAAAAA
1 AAAAAAA
9828560 TGAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
11 8 0.26
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:9828567 original size:11 final size:11
Alignment explanation
Indices: 9828522--9828567 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 11
9828512 GATGAAAAAA
9828522 AAAAAAAAG-G
1 AAAAAAAAGAG
*
9828532 AAAAAAATGAG
1 AAAAAAAAGAG
9828543 AAAAAAAAGA-
1 AAAAAAAAGAG
*
9828553 AAAAAAATGAG
1 AAAAAAAAGAG
9828564 AAAA
1 AAAA
9828568 TGAAAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 17 0.55
11 14 0.45
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:9828576 original size:9 final size:9
Alignment explanation
Indices: 9828513--9828576 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
9828503 AAAGAAGATG
9828513 ATGAAAAAA
1 ATGAAAAAA
9828522 A--AAAAAA
1 ATGAAAAAA
*
9828529 AGGAAAAAA
1 ATGAAAAAA
9828538 ATGAGAAAAAA
1 AT--GAAAAAA
*
9828549 AAGAAAAAAA
1 ATG-AAAAAA
*
9828559 ATG-AGAAA
1 ATGAAAAAA
9828567 ATGAAAAAA
1 ATGAAAAAA
9828576 A
1 A
9828577 GAGATTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
7 7 0.16
8 7 0.16
9 14 0.32
10 8 0.18
11 8 0.18
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:9828576 original size:21 final size:21
Alignment explanation
Indices: 9828522--9828567 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9828512 GATGAAAAAA
*
9828522 AAAAAAAAGGAAAAAAATGAG
1 AAAAAAAAGAAAAAAAATGAG
9828543 AAAAAAAAGAAAAAAAATGAG
1 AAAAAAAAGAAAAAAAATGAG
9828564 AAAA
1 AAAA
9828568 TGAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAAATGAG
Found at i:9830316 original size:41 final size:41
Alignment explanation
Indices: 9830216--9830721 Score: 691
Period size: 41 Copynumber: 12.1 Consensus size: 41
9830206 GATCCTCAGA
* *
9830216 GAGCAATTTACTTTCCAAAAGTCGTCGGTG-CTCTATTTAGAGG
1 GAGCAATTTACTTTTC-AAAGTCGT-GGTGCCTCTGTTTAGA-G
9830259 GAGGCAATTTACTTTTC-AAGTCGTGGGTGCCTCTGTTTAGAG
1 GA-GCAATTTACTTTTCAAAGTCGT-GGTGCCTCTGTTTAGAG
*
9830301 GAGCAATTTATTTTTCAAAGTCGTGGT-CCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
9830341 GAGCAATTTAC-TTTCAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
* *
9830382 GAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
9830423 GAACAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
9830463 GAGCAATTTA-TTTTCAAAAGTCATGGTGCCTCTGTTTAAAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
9830504 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA-G
9830546 AGTAACGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 -G--A-GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
9830591 GAGCAATTTATTTTTCAAAGTCGTGGTGTCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
9830632 GAGCAATTTACTTTCCCAAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTT-TC-AAAGTCGTGGTGCCTCTGTTTAGAG
* * *
9830675 GAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTA-CTT-TTCAAAGTCGTGGTGCCTCTGTTTAGAG
9830718 GAGC
1 GAGC
9830722 TTTGGTAAAA
Statistics
Matches: 419, Mismatches: 26, Indels: 36
0.87 0.05 0.07
Matches are distributed among these distances:
39 4 0.01
40 74 0.18
41 178 0.42
42 33 0.08
43 72 0.17
44 17 0.04
45 3 0.01
46 38 0.09
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:9830369 original size:81 final size:82
Alignment explanation
Indices: 9830216--9830721 Score: 675
Period size: 81 Copynumber: 6.0 Consensus size: 82
9830206 GATCCTCAGA
* *
9830216 GAGCAATTTACTTTCCAAAAGTCGTCGGTG-CTCTATTTAGAGGGAGGCAATTTACTTTTC-AAG
1 GAGCAATTTACTTTTCAAAAGTCGT-GGTGCCTCTGTTTAGA-GGA-GCAATTTAC-TTTCAAAG
9830279 TCGTGGGTGCCTCTGTTTAGAG
62 TCGT-GGTGCCTCTGTTTAGAG
*
9830301 GAGCAATTTATTTTTC-AAAGTCGTGGT-CCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTCG
1 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-AAAGTCG
9830364 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTGTTTAGAG
* * *
9830382 GAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAAGAACAATTTACTTTCAAAGTCGT
1 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTCGT
9830446 GGTGCCTCTGTTTAGAG
66 GGTGCCTCTGTTTAGAG
* *
9830463 GAGCAATTTA-TTTTCAAAAGTCATGGTGCCTCTGTTTAAAGGAGCAATTTACTTTTCAAAGTCG
1 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTCG
9830527 TGGTGCCTCTGTTTAGAGG
65 TGGTGCCTCTGTTTAGA-G
*
9830546 AGTAACGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAA
1 -G--A-GCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCAAA
*
9830610 GTCGTGGTGTCTCTGTTTAGAG
61 GTCGTGGTGCCTCTGTTTAGAG
* * *
9830632 GAGCAATTTACTTTCCCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTGTTCAAAG
1 GAGCAATTTACTTT-TCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA--CT-TTCAAAG
* *
9830697 TCGTTGAGCCTCTGTTTAGAG
62 TCGTGGTGCCTCTGTTTAGAG
9830718 GAGC
1 GAGC
9830722 TTTGGTAAAA
Statistics
Matches: 383, Mismatches: 21, Indels: 33
0.88 0.05 0.08
Matches are distributed among these distances:
80 9 0.02
81 117 0.31
82 76 0.20
83 16 0.04
84 43 0.11
85 18 0.05
86 31 0.08
87 68 0.18
88 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (82 bp):
GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTCGT
GGTGCCTCTGTTTAGAG
Found at i:9830454 original size:122 final size:123
Alignment explanation
Indices: 9830216--9830721 Score: 673
Period size: 122 Copynumber: 4.0 Consensus size: 123
9830206 GATCCTCAGA
*
9830216 GAGCAATTTACTTTCCAAAAGTCGTCGGTG-CTCTATTTAGAGGGAGGCAATTTACTTTTC-AAG
1 GAGCAATTTACTTT-CAAAAGTCGT-GGTGCCTCTGTTTAGA-GGA-GCAATTTACTTTTCAAAG
* * *
9830279 TCGTGGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGT-CCTCTGTTTAGAG
62 TCGT-GGTGCCTCTGTTTAGAAGAACAATTTATCTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
9830341 GAGCAATTTACTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTGT
1 GAGCAATTTACTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
9830406 GGTGCCTCTGTTTAGAAGAACAATTTA-CTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
66 GGTGCCTCTGTTTAGAAGAACAATTTATCTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
9830463 GAGCAATTTATTTTCAAAAGTCATGGTGCCTCTGTTTAAAGGAGCAATTTACTTTTCAAAGTCGT
1 GAGCAATTTACTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
9830528 GGTGCCTCTGTTTAGAGGAGTAACGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
66 GGTGCCTCTGTTTAGA--AG-AA--CAATTTATC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
9830591 GAGCAATTTATTTTTC-AAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAAGT
1 GAGCAATTTA-CTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TC-AAAGT
* * * * * *
9830655 TGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTTTAGAG
63 CGTGGTGCCTCTGTTTAGAAGAACAATTTA-TCT-TTCAAAGTCGTGGTGCCTCTGTTTAGAG
9830718 GAGC
1 GAGC
9830722 TTTGGTAAAA
Statistics
Matches: 347, Mismatches: 19, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
121 15 0.04
122 129 0.37
123 13 0.04
124 22 0.06
125 23 0.07
126 1 0.00
127 39 0.11
128 76 0.22
129 6 0.02
130 23 0.07
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (123 bp):
GAGCAATTTACTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GGTGCCTCTGTTTAGAAGAACAATTTATCTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:9830734 original size:1 final size:1
Alignment explanation
Indices: 9830728--9830794 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
9830718 GAGCTTTGGT
* * * * * ** * *
9830728 AAAAAAAAAAACAAAAAATAAAAAACAAAAAAAACAAAAACAAAAGCAAAAAAAACACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9830793 AA
1 AA
9830795 TGAAAATGTT
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:9830761 original size:23 final size:22
Alignment explanation
Indices: 9830731--9830794 Score: 85
Period size: 21 Copynumber: 2.9 Consensus size: 22
9830721 CTTTGGTAAA
9830731 AAAAAAAACAAAAAATAAAAAAC
1 AAAAAAAACAAAAAA-AAAAAAC
* *
9830754 AAAAAAAAC-AAAAACAAAAGC
1 AAAAAAAACAAAAAAAAAAAAC
*
9830775 AAAAAAAACACAAAAAAAAA
1 AAAAAAAACAAAAAAAAAAA
9830795 TGAAAATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 14 0.39
22 13 0.36
23 9 0.25
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAAAAAAAAAAAC
Found at i:9830793 original size:15 final size:14
Alignment explanation
Indices: 9830728--9830794 Score: 89
Period size: 15 Copynumber: 4.6 Consensus size: 14
9830718 GAGCTTTGGT
9830728 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
9830742 AAAATAAAAAACAA
1 AAAAAAAAAAACAA
9830756 AAAAAACAAAAACAA
1 AAAAAA-AAAAACAA
*
9830771 AAGCAAAAAAAACACA
1 AA-AAAAAAAAACA-A
9830787 AAAAAAAA
1 AAAAAAAA
9830795 TGAAAATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
14 18 0.39
15 22 0.48
16 6 0.13
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:9830800 original size:21 final size:20
Alignment explanation
Indices: 9830728--9830800 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 20
9830718 GAGCTTTGGT
9830728 AAAA-AAAAAAACA-AAAAA
1 AAAAGAAAAAAACACAAAAA
* *
9830746 TAAAAAACAAAAAAAACAAAAA
1 -AAAAGA-AAAAAACACAAAAA
9830768 CAAAAGCAAAAAAAACACAAAAA
1 -AAAAG--AAAAAAACACAAAAA
9830791 AAAATGAAAA
1 AAAA-GAAAA
9830801 TGTTGAGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.09
20 1 0.02
21 11 0.25
22 13 0.30
23 14 0.32
24 1 0.02
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAAACACAAAAA
Found at i:9831013 original size:4 final size:4
Alignment explanation
Indices: 9831004--9831125 Score: 52
Period size: 4 Copynumber: 28.8 Consensus size: 4
9830994 ATTTTATGAT
* * * * *
9831004 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTCA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
9831053 TTTA -TTA TTAATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA TTTA
1 TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA TTTA
*
9831101 -TTA TTATA TTATAA TTTA TGTA TTT
1 TTTA TT-TA TT-T-A TTTA TTTA TTT
9831126 TTTTCTTGCA
Statistics
Matches: 88, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
3 9 0.10
4 55 0.62
5 10 0.11
6 13 0.15
7 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (4 bp):
TTTA
Found at i:9831112 original size:19 final size:20
Alignment explanation
Indices: 9831046--9831124 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 20
9831036 CTTCATTTAT
* *
9831046 TTATTTATTTATTATTAATAT
1 TTATATATTTATTATT-ATAG
9831067 TTATATGTATTTTATT-TATATAG
1 TTATA--TA-TTTATTAT-TATAG
9831090 TTATATATTTATTATTATA-
1 TTATATATTTATTATTATAG
9831109 TTATA-ATTTATGTATT
1 TTATATATTTAT-TATT
9831125 TTTTTCTTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 10 0.20
21 7 0.14
23 11 0.22
24 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATATATTTATTATTATAG
Found at i:9832057 original size:26 final size:25
Alignment explanation
Indices: 9832012--9832060 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
9832002 CCAGGTTTTT
*
9832012 TTTTTTAATTTATTTAATTTATTCC
1 TTTTTTAATTTAATTAATTTATTCC
9832037 TTTTTTAA-TTAGATTAGATTTATT
1 TTTTTTAATTTA-ATTA-ATTTATT
9832061 TAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 11 0.52
26 7 0.33
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTTAATTTAATTAATTTATTCC
Found at i:9832319 original size:59 final size:56
Alignment explanation
Indices: 9832163--9832614 Score: 409
Period size: 58 Copynumber: 7.7 Consensus size: 56
9832153 AAATAAAAAT
9832163 AAAAAAATATTTTTGGGAAAAAAGTTGAAAG-ATCAATTTTCCTTAAAAAT-AATTTTCA
1 AAAAAAAT-TTTTTGGG---AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* * * *
9832221 AAAAAATATTTTTGGGGAAAATTGAAAGTATCAAATTTTCCTTGAAAATCAAAATTTTCG
1 AAAAAA-ATTTTTTGGGAAAGTTGAAAGTATC-AATTTTCCTTAAAAAT--AAATTTTCA
* *
9832281 AAAAATATTTTTTAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAA
1 AAAAAAATTTTTT-GGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* ** *
9832338 AAAAAAAGATTTTTGAGGAAAAGTTGAGAAGTATC-ATTTTCCTT-GGAATCAAAGTTTCAAA
1 AAAAAAA-TTTTTTG-GG-AAAGTTGA-AAGTATCAATTTTCCTTAAAAAT-AAATTTTC--A
* * *
9832399 AAAAAAATATTTTGAGGAAAGTTGGGAAG-ATC-ATTTTCCTTAAAAATAAGA-TTTCC
1 AAAAAAATTTTTTG-GGAAAGTT-GAAAGTATCAATTTTCCTTAAAAATAA-ATTTTCA
*
9832455 AAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
1 AAAAAAATTTTTTGGG--AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC----A
* *
9832516 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTC-
1 AAAAAAATTTTTTG-GG-AAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAATTTTCA
* *
9832574 AAAAGAATATTTTTGGGAAAAGTTGAAAGTGTCAATTTTCC
1 AAAAAAAT-TTTTTGGG-AAAGTTGAAAGTATCAATTTTCC
9832615 CAGCACAAAA
Statistics
Matches: 333, Mismatches: 31, Indels: 60
0.79 0.07 0.14
Matches are distributed among these distances:
54 2 0.01
55 19 0.06
56 19 0.06
57 50 0.15
58 72 0.22
59 65 0.20
60 45 0.14
61 14 0.04
62 37 0.11
63 10 0.03
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (56 bp):
AAAAAAATTTTTTGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
Found at i:9832400 original size:58 final size:58
Alignment explanation
Indices: 9832163--9832614 Score: 473
Period size: 59 Copynumber: 7.7 Consensus size: 58
9832153 AAATAAAAAT
*
9832163 AAAAAAATATTTTTG-GGAAAAAAGTTGAAAG-ATCAATTTTCCTTAAAAAT-AATTTTC
1 AAAAAAATATTTTTGAGG--AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * *
9832220 AAAAAAATATTTTTGGGGAAAA-TTGAAAGTATCAAATTTTCCTTGAAAATCAAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCTTAAAAAT--AAAGTTTC
* * * * *
9832280 -GAAAAATATTTTTTAGGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTT-C
* **
9832338 AAAAAAAGATTTTTGAGGAAAAGTTGAGAAGTATC-ATTTTCCTT-GGAATCAAAGTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGA-AAGTATCAATTTTCCTTAAAAAT-AAAGTTTC
* *
9832396 AAAAAAAAAATATTTTGAGG-AAAGTTGGGAAG-ATC-ATTTTCCTTAAAAAT-AAGATTTC
1 -AAAAAAATAT-TTTTGAGGAAAAGTT-GAAAGTATCAATTTTCCTTAAAAATAAAG-TTTC
* *
9832454 -CAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
*
9832511 AAAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTC
1 ---AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAAGTTTC
* *
9832574 AAAAGAATATTTTTG-GGAAAAGTTGAAAGTGTCAATTTTCC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
9832615 CAGCACAAAA
Statistics
Matches: 338, Mismatches: 29, Indels: 55
0.80 0.07 0.13
Matches are distributed among these distances:
54 2 0.01
55 16 0.05
56 23 0.07
57 59 0.17
58 48 0.14
59 96 0.28
60 41 0.12
61 6 0.02
62 37 0.11
63 10 0.03
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
Found at i:9832655 original size:6 final size:6
Alignment explanation
Indices: 9832644--9832671 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9832634 TTTTCCTTCC
9832644 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
9832672 TCTTTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:9833232 original size:30 final size:30
Alignment explanation
Indices: 9833162--9833270 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
9833152 ATAATGATTT
*
9833162 AGGTTAA-AGGCTTATTTAGATACAAATTAA
1 AGGTTAAGA-GCTTATTTGGATACAAATTAA
*
9833192 ACGTTTAAGAGCTTATTTGGATACAAATTAA
1 A-GGTTAAGAGCTTATTTGGATACAAATTAA
* * *
9833223 AGGTTAAGAGTTTATTTTGATGCAAATTAA
1 AGGTTAAGAGCTTATTTGGATACAAATTAA
**
9833253 AAATTAATG-GCTTATTTG
1 AGGTTAA-GAGCTTATTTG
9833271 AATATAACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
30 38 0.58
31 27 0.41
32 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (30 bp):
AGGTTAAGAGCTTATTTGGATACAAATTAA
Found at i:9835270 original size:18 final size:19
Alignment explanation
Indices: 9835247--9835283 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9835237 AAGAAAACTA
9835247 TTAATTATAACATT-TTTT
1 TTAATTATAACATTCTTTT
9835265 TTAATTATAACATTCTTTT
1 TTAATTATAACATTCTTTT
9835284 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTATAACATTCTTTT
Found at i:9835913 original size:12 final size:12
Alignment explanation
Indices: 9835896--9835924 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9835886 ATGCAAAGAA
9835896 AAGCAAAGGATT
1 AAGCAAAGGATT
9835908 AAGCAAAGGATT
1 AAGCAAAGGATT
9835920 AAGCA
1 AAGCA
9835925 TCCATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.24, T:0.14
Consensus pattern (12 bp):
AAGCAAAGGATT
Found at i:9839899 original size:14 final size:14
Alignment explanation
Indices: 9839877--9839911 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9839867 CTAAGACCAC
9839877 AAAATAACAT-ATA
1 AAAATAACATAATA
9839890 AAATATAACATAATA
1 AAA-ATAACATAATA
9839905 AAAATAA
1 AAAATAA
9839912 ACAATCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 11 0.55
15 6 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAACATAATA
Found at i:9840049 original size:13 final size:13
Alignment explanation
Indices: 9840031--9840061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9840021 ATTTATTTAT
9840031 TAAAAGAAAATAA
1 TAAAAGAAAATAA
*
9840044 TAAAAGTAAATAA
1 TAAAAGAAAATAA
9840057 TAAAA
1 TAAAA
9840062 TTAGATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
TAAAAGAAAATAA
Found at i:9840197 original size:18 final size:18
Alignment explanation
Indices: 9840166--9840210 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9840156 ATGTAAGTAA
* *
9840166 AATATATTAAATTAATTT
1 AATATATTTAATTAAATT
*
9840184 AATATATTTTATTAAATT
1 AATATATTTAATTAAATT
9840202 -ATATATTTA
1 AATATATTTA
9840211 TATATGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATATTTAATTAAATT
Found at i:9851188 original size:42 final size:41
Alignment explanation
Indices: 9851156--9851248 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
9851146 ATACATAAAT
*
9851156 ATAATATTTTTATTAAGT-TAATATTTTAAATTAAAATATTAA
1 ATAATAATTTTATTAA-TATAATATTTTAAATTAAAATA-TAA
* *
9851198 ATAATAATTTTATTAATATAATATATATAAATATAAACT-TAA
1 ATAATAATTTTATTAATATAATAT-TTTAAAT-TAAAATATAA
9851240 ATAAATAAT
1 AT-AATAAT
9851249 AAAAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 26 0.59
43 12 0.27
44 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
ATAATAATTTTATTAATATAATATTTTAAATTAAAATATAA
Found at i:9851363 original size:13 final size:14
Alignment explanation
Indices: 9851345--9851375 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9851335 GACCTAATCC
9851345 AAAAACAAATTT-T
1 AAAAACAAATTTAT
9851358 AAAAACAAATTTAT
1 AAAAACAAATTTAT
9851372 AAAA
1 AAAA
9851376 TCGGTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAACAAATTTAT
Found at i:9852083 original size:20 final size:22
Alignment explanation
Indices: 9852058--9852097 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9852048 TATCCAATAC
*
9852058 AAAT-AATTTTAAAA-ATAAAT
1 AAATAAATTATAAAATATAAAT
9852078 AAATAAATTATAAAATATAA
1 AAATAAATTATAAAATATAA
9852098 CAAAACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAATTATAAAATATAAAT
Found at i:9853813 original size:24 final size:24
Alignment explanation
Indices: 9853785--9853833 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9853775 TGAAACTAGT
* *
9853785 TTAAAATTGATAATGAAAGCCATA
1 TTAAAATTCAAAATGAAAGCCATA
9853809 TTAAAATTCAAAATGAAAGCCATA
1 TTAAAATTCAAAATGAAAGCCATA
9853833 T
1 T
9853834 CTTCAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (24 bp):
TTAAAATTCAAAATGAAAGCCATA
Found at i:9854182 original size:22 final size:21
Alignment explanation
Indices: 9854154--9854201 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9854144 ATTTTTTATT
*
9854154 TTATTAAATTTATAAATAATAA
1 TTATTAAAATTATAAATAAT-A
* *
9854176 TTATTAAAATTCTAAATCATA
1 TTATTAAAATTATAAATAATA
9854197 TTATT
1 TTATT
9854202 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTAAAATTATAAATAATA
Found at i:9861109 original size:28 final size:30
Alignment explanation
Indices: 9861064--9861130 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
9861054 ATAATTTTAT
* *
9861064 ATTATAATAAAATGTTTAATGTGATAT-TAA
1 ATTATAA-AAAATGTTTAATATCATATATAA
*
9861094 ATT-TAAAAAATTTTTAATATCATATATAA
1 ATTATAAAAAATGTTTAATATCATATATAA
9861123 ATTATAAA
1 ATTATAAA
9861131 TTTATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 16 0.50
29 9 0.28
30 7 0.22
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
ATTATAAAAAATGTTTAATATCATATATAA
Found at i:9862340 original size:14 final size:14
Alignment explanation
Indices: 9862317--9862367 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
9862307 TAAAGTGTTA
9862317 AATTTAATTAATATT
1 AATTT-ATTAATATT
9862332 AATTTATTAATA-T
1 AATTTATTAATATT
9862345 ATATTTA-TAA-ATT
1 A-ATTTATTAATATT
*
9862358 AATCTATTAA
1 AATTTATTAA
9862368 AAATTTGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 5 0.16
13 10 0.31
14 12 0.38
15 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTATTAATATT
Found at i:9862768 original size:21 final size:21
Alignment explanation
Indices: 9862729--9862768 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9862719 ATTGAAAAAT
*
9862729 TATTTTTATATTAATATTTTA
1 TATTTTTAAATTAATATTTTA
9862750 TATTTTTAGAATTAA-ATTT
1 TATTTTTA-AATTAATATTT
9862769 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTAATATTTTA
Found at i:9871967 original size:175 final size:175
Alignment explanation
Indices: 9871676--9872025 Score: 621
Period size: 175 Copynumber: 2.0 Consensus size: 175
9871666 CATAATTTTT
* * * * *
9871676 GTGCAAAACACGATTGAAATGCATGAATTGTTAGCGTTTTTATGAAACGAATACATTGAGACACT
1 GTGCAAAACACAATTAAAATACATGAATTGTTAGCATTTTTACGAAACGAATACATTGAGACACT
9871741 TAGGTTACTTGTTGCTTTAAGCTCACAGATGCCTTTCCACAGCTCAACTGGAGCAGCCCCCTCAG
66 TAGGTTACTTGTTGCTTTAAGCTCACAGATGCCTTTCCACAGCTCAACTGGAGCAGCCCCCTCAG
*
9871806 GATTTTGGATTTTTCAACAAGTT-TGACAGGAGAACCACCTGCTTC
131 GATTTTGGATTTTTCAACAA-TTGTCACAGGAGAACCACCTGCTTC
9871851 GTGCAAAACACAATTAAAATACATGAATTGTTAGCATTTTTACGAAACGAATACATTGAGACACT
1 GTGCAAAACACAATTAAAATACATGAATTGTTAGCATTTTTACGAAACGAATACATTGAGACACT
*
9871916 TAGGTTACTTGTTGCTTTAAGCTCACAGATGCTTTTCCACAGCTCAACTGGAGCAGCCCCCTCAG
66 TAGGTTACTTGTTGCTTTAAGCTCACAGATGCCTTTCCACAGCTCAACTGGAGCAGCCCCCTCAG
9871981 GATTTTGGATTTTTCAACAATTGTCACAGGAGAACCACCTGCTTC
131 GATTTTGGATTTTTCAACAATTGTCACAGGAGAACCACCTGCTTC
9872026 AATAGGCAAT
Statistics
Matches: 167, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
174 2 0.01
175 165 0.99
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (175 bp):
GTGCAAAACACAATTAAAATACATGAATTGTTAGCATTTTTACGAAACGAATACATTGAGACACT
TAGGTTACTTGTTGCTTTAAGCTCACAGATGCCTTTCCACAGCTCAACTGGAGCAGCCCCCTCAG
GATTTTGGATTTTTCAACAATTGTCACAGGAGAACCACCTGCTTC
Found at i:9876272 original size:22 final size:22
Alignment explanation
Indices: 9876237--9876901 Score: 247
Period size: 22 Copynumber: 30.1 Consensus size: 22
9876227 AATCATAAAG
* *
9876237 AACTTAATAATAAATTAATGAT
1 AACTTAATAGTAAATCAATGAT
* * * *
9876259 AATTTAGTAGTAAAT-AATTTAG
1 AACTTAATAGTAAATCAA-TGAT
*
9876281 AACTTAGTAGTAATTAAT-AATTGA-
1 AACTTAATAGT-A--AATCAA-TGAT
* *
9876305 AAATTAAAAGTAAATCAAT-AT
1 AACTTAATAGTAAATCAATGAT
9876326 AACTTAATAGTAATCATCAAT-A-
1 AACTTAATAGTAA--ATCAATGAT
* * * *
9876348 AA-TTAATACTTAATTAGTGAT
1 AACTTAATAGTAAATCAATGAT
* *
9876369 AATTCTGT-ATAGTAAATTAGTGAT
1 AA--CT-TAATAGTAAATCAATGAT
* * *
9876393 AACTTAATAATATATCAATAAT
1 AACTTAATAGTAAATCAATGAT
*
9876415 AATTTAATAGTAAAT-AATTGAT
1 AACTTAATAGTAAATCAA-TGAT
* *
9876437 AACTTAGTAGTAAATCAATAAT
1 AACTTAATAGTAAATCAATGAT
*
9876459 AA-TATAATAGTAAATGC-ATAAT
1 AACT-TAATAGTAAAT-CAATGAT
*
9876481 AACTTAATAGTAAATCAATTAT
1 AACTTAATAGTAAATCAATGAT
* * *
9876503 AACATAATTGTAAATGC-ATAAT
1 AACTTAATAGTAAAT-CAATGAT
* * *
9876525 AGCATAGTAGTAAATCAATGAT
1 AACTTAATAGTAAATCAATGAT
**
9876547 AACTTAATAAAAAAAAT-AAGTGAT
1 AACTTAAT--AGTAAATCAA-TGAT
* *
9876571 AACTTAATAGTTAATCATTGAT
1 AACTTAATAGTAAATCAATGAT
* *
9876593 AATTTAATAGTAAATCAATGAA
1 AACTTAATAGTAAATCAATGAT
* *
9876615 AATTTAATAATAAATTACAA--AT
1 AACTTAATAGTAAA-T-CAATGAT
** **
9876637 AACTTAATAGTAAATCTGTTTT
1 AACTTAATAGTAAATCAATGAT
** * * *
9876659 AGTTTAATAGTAATTAAATTAT
1 AACTTAATAGTAAATCAATGAT
** * *
9876681 AAACTTAGCAATAAATC-ATAAAT
1 -AACTTAATAGTAAATCAAT-GAT
* *
9876704 AACTTAAAAATAAATCAATGAT
1 AACTTAATAGTAAATCAATGAT
* * * * *
9876726 AATTTAGTAGTTAATCACT-AA
1 AACTTAATAGTAAATCAATGAT
*
9876747 AACTCAATAGTAAATCAATGAT
1 AACTTAATAGTAAATCAATGAT
* ** * *
9876769 AACATGGTAGCAAATGC-ATAAT
1 AACTTAATAGTAAAT-CAATGAT
* * *
9876791 AGCAT-ATAGTAAATCATTGAT
1 AACTTAATAGTAAATCAATGAT
* * *
9876812 AATTTTATAGTAAAGT-ATTGAT
1 AACTTAATAGTAAA-TCAATGAT
* * * *
9876834 AATTTAGTAGTAAATCACTAAT
1 AACTTAATAGTAAATCAATGAT
* * *
9876856 AA-TGTTATAGTAAATTATTGAT
1 AACT-TAATAGTAAATCAATGAT
* * * *
9876878 AACTTAGTTGTAAATTAGTGAT
1 AACTTAATAGTAAATCAATGAT
9876900 AA
1 AA
9876902 TTTAGTATAA
Statistics
Matches: 484, Mismatches: 117, Indels: 84
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.01
20 4 0.01
21 63 0.13
22 325 0.67
23 34 0.07
24 45 0.09
25 9 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
AACTTAATAGTAAATCAATGAT
Found at i:9876906 original size:11 final size:11
Alignment explanation
Indices: 9876866--9876915 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9876856 AATGTTATAG
*
9876866 TAAATTATTGA
1 TAAATTAGTGA
*
9876877 TAACTTAGTTG-
1 TAAATTAG-TGA
9876888 TAAATTAGTGA
1 TAAATTAGTGA
*
9876899 TAATTTAGT-A
1 TAAATTAGTGA
9876909 TAAATTA
1 TAAATTA
9876916 ATAATGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.28
11 21 0.66
12 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (11 bp):
TAAATTAGTGA
Found at i:9876906 original size:22 final size:22
Alignment explanation
Indices: 9876797--9876937 Score: 135
Period size: 22 Copynumber: 6.5 Consensus size: 22
9876787 TAATAGCATA
*
9876797 TAGTAAATCATTGATAATTTTA-
1 TAGTAAATTATTGATAA-TTTAG
*
9876819 TAGTAAAGTATTGATAATTTAG
1 TAGTAAATTATTGATAATTTAG
* * *
9876841 TAGTAAATCACTAATAATGTTA-
1 TAGTAAATTATTGATAAT-TTAG
*
9876863 TAGTAAATTATTGATAACTTAG
1 TAGTAAATTATTGATAATTTAG
* *
9876885 TTGTAAATTAGTGATAATTTAG
1 TAGTAAATTATTGATAATTTAG
* * *
9876907 TA-TAAATTAATAATGATTTAG
1 TAGTAAATTATTGATAATTTAG
*
9876928 TTGTAAATTA
1 TAGTAAATTA
9876938 GTTAATTATT
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
21 24 0.25
22 70 0.72
23 3 0.03
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.43
Consensus pattern (22 bp):
TAGTAAATTATTGATAATTTAG
Found at i:9876995 original size:22 final size:21
Alignment explanation
Indices: 9876936--9877013 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
9876926 AGTTGTAAAT
* *
9876936 TAGTTAATTATTAACAACTTCT-
1 TAGTAAATTA-TAATAACTT-TA
*
9876958 TAGTAAATCATCAATAACTTTA
1 TAGTAAATTAT-AATAACTTTA
*
9876980 TAGTAAATTAGTAATAATTTTA
1 TAGTAAATTA-TAATAACTTTA
*
9877002 TAATAAATTATA
1 TAGTAAATTATA
9877014 GTAAATTAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.09
22 42 0.89
23 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (21 bp):
TAGTAAATTATAATAACTTTA
Found at i:9877007 original size:11 final size:10
Alignment explanation
Indices: 9876977--9877086 Score: 67
Period size: 11 Copynumber: 10.2 Consensus size: 10
9876967 ATCAATAACT
*
9876977 TTATAGTAAA
1 TTATAATAAA
*
9876987 TTAGTAATAATT
1 TTA-TAATAA-A
9876999 TTATAATAAA
1 TTATAATAAA
*
9877009 TTATAGTAAA
1 TTATAATAAA
*
9877019 TTAGTAATAACT
1 TTA-TAATAA-A
9877031 TTATAATAAA
1 TTATAATAAA
* *
9877041 TTATCTATAAC
1 TTAT-AATAAA
*
9877052 TTAATAGTAAA
1 TT-ATAATAAA
*
9877063 TTATTAATAAT
1 TTA-TAATAAA
*
9877074 TTAGTAGTAAA
1 TTA-TAATAAA
9877085 TT
1 TT
9877087 GTTCATAACT
Statistics
Matches: 76, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
10 20 0.26
11 48 0.63
12 8 0.11
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (10 bp):
TTATAATAAA
Found at i:9877015 original size:32 final size:32
Alignment explanation
Indices: 9876977--9877044 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
9876967 ATCAATAACT
*
9876977 TTATAGTAAATTAGTAATAATTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
9877009 TTATAGTAAATTAGTAATAACTTTATAATAAA
1 TTATAGTAAATTAGTAATAACTTTATAATAAA
9877041 TTAT
1 TTAT
9877045 CTATAACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (32 bp):
TTATAGTAAATTAGTAATAACTTTATAATAAA
Found at i:9877085 original size:76 final size:75
Alignment explanation
Indices: 9876909--9877086 Score: 200
Period size: 76 Copynumber: 2.4 Consensus size: 75
9876899 TAATTTAGTA
* * * * *
9876909 TAAATTAATAATGATTTAGTTGTAAA-TTAGTTAATTATTAACAACTTCTTAGTAAATCATCAAT
1 TAAATTAATAATAATTTAGTAGTAAATTTAGTAAATTAGTAACAACTTCTTAATAAATCATCAAT
*
9876973 AACTTTATAG
66 AACTTAATAG
* * * *
9876983 TAAATTAGTAATAATTTTA-TAATAAATTATAGTAAATTAGTAATAACTT-TATAATAAATTATC
1 TAAATTAATAATAA-TTTAGTAGTAAATT-TAGTAAATTAGTAACAACTTCT-TAATAAATCATC
*
9877046 TATAACTTAATAG
63 AATAACTTAATAG
*
9877059 TAAATTATTAATAATTTAGTAGTAAATT
1 TAAATTAATAATAATTTAGTAGTAAATT
9877087 GTTCATAACT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
74 17 0.20
75 10 0.12
76 59 0.69
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (75 bp):
TAAATTAATAATAATTTAGTAGTAAATTTAGTAAATTAGTAACAACTTCTTAATAAATCATCAAT
AACTTAATAG
Found at i:9877095 original size:66 final size:66
Alignment explanation
Indices: 9877001--9877149 Score: 189
Period size: 66 Copynumber: 2.3 Consensus size: 66
9876991 TAATAATTTT
* *
9877001 ATAATAAATTA-TAGTAAATTAGTAATAACTTTA-TAATAAATTATCTATAACTTAAT-AGTAAA
1 ATAATAATTTAGTAGTAAATTAGTAATAAC-TTAGTAATAAATCATCTATAACTTAATGA-TAAA
9877063 TTA
64 TTA
* *
9877066 TTAATAATTTAGTAGTAAATT-GTTCATAACTTAGTAATAAATCATCTATAACTTAATGATAAAT
1 ATAATAATTTAGTAGTAAATTAG-TAATAACTTAGTAATAAATCATCTATAACTTAATGATAAAT
9877130 TA
65 TA
* *
9877132 ATGATAATTTAGAAGTAA
1 ATAATAATTTAGTAGTAA
9877150 TAAGTGATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
65 13 0.18
66 59 0.81
67 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (66 bp):
ATAATAATTTAGTAGTAAATTAGTAATAACTTAGTAATAAATCATCTATAACTTAATGATAAATT
A
Found at i:9877106 original size:22 final size:21
Alignment explanation
Indices: 9877025--9877130 Score: 70
Period size: 22 Copynumber: 4.9 Consensus size: 21
9877015 TAAATTAGTA
*
9877025 ATAACTTTA-TAATAAATTATC
1 ATAAC-TTAGTAATAAATTTTC
* * *
9877046 TATAACTTAATAGTAAATTATTA
1 -ATAACTTAGTAATAAATT-TTC
* *
9877069 ATAATTTAGTAGTAAATTGTTC
1 ATAACTTAGTAATAAATT-TTC
**
9877091 ATAACTTAGTAATAAATCATC
1 ATAACTTAGTAATAAATTTTC
* *
9877112 TATAACTTAATGATAAATT
1 -ATAACTTAGTAATAAATT
9877131 AATGATAATT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 5 0.07
22 61 0.91
23 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (21 bp):
ATAACTTAGTAATAAATTTTC
Found at i:9877107 original size:44 final size:44
Alignment explanation
Indices: 9877015--9877107 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
9877005 TAAATTATAG
*
9877015 TAAATTAGTAATAACTTTATAATAAATTATCTATAACTTAATAG
1 TAAATTAGTAATAACTTTATAATAAATTATCTATAACTTAATAA
* * * *
9877059 TAAATTATTAATAA-TTTAGTAGTAAATTGT-TCATAACTTAGTAA
1 TAAATTAGTAATAACTTTA-TAATAAATTATCT-ATAACTTAATAA
9877103 TAAAT
1 TAAAT
9877108 CATCTATAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 5 0.12
44 37 0.88
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (44 bp):
TAAATTAGTAATAACTTTATAATAAATTATCTATAACTTAATAA
Found at i:9877472 original size:22 final size:22
Alignment explanation
Indices: 9877413--9877461 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9877403 TTGATAAAGC
* *
9877413 AATAGTAAATCATAAATAACTT
1 AATAGTAAATAATTAATAACTT
*
9877435 AGTAGTAAATAATTAATAACTT
1 AATAGTAAATAATTAATAACTT
9877457 AATAG
1 AATAG
9877462 CTAATTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (22 bp):
AATAGTAAATAATTAATAACTT
Found at i:9877658 original size:22 final size:21
Alignment explanation
Indices: 9877612--9877761 Score: 95
Period size: 22 Copynumber: 6.9 Consensus size: 21
9877602 AGTAATAAAT
* * *
9877612 TAGTTAATCATTGATAATTTTA
1 TAGTAAATCATTAATAA-CTTA
*
9877634 TAGTAAATCATTTATAACTTCA
1 TAGTAAATCATTAATAACTT-A
* *
9877656 TAGAAAATTAGTT-ATAACTTTA
1 TAGTAAATCA-TTAATAAC-TTA
* * * *
9877678 AACTAAATTATCAATAACTTA
1 TAGTAAATCATTAATAACTTA
*
9877699 GTAGTAAATCATTCATAACTTA
1 -TAGTAAATCATTAATAACTTA
* *
9877721 GTAGTAAATCATTCATAATTTAA
1 -TAGTAAATCATTAATAACTT-A
* *
9877744 TAATAAGTCATTAATAAC
1 TAGTAAATCATTAATAAC
9877762 ATAATAATAA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.06
22 92 0.89
23 5 0.05
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (21 bp):
TAGTAAATCATTAATAACTTA
Done.