Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011945.1 Kokia drynarioides strain JFW-HI SEQ_126943, 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: 301141
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 61 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2332 original size:25 final size:25
Alignment explanation
Indices: 2298--2348 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2288 GAAAAAAAAA
2298 GAAAACCAAAGCAGCCTCTGCATTG
1 GAAAACCAAAGCAGCCTCTGCATTG
2323 GAAAACCAAAGCAGCCTCTGCATTG
1 GAAAACCAAAGCAGCCTCTGCATTG
2348 G
1 G
2349 TTGCTGCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (25 bp):
GAAAACCAAAGCAGCCTCTGCATTG
Found at i:6352 original size:53 final size:53
Alignment explanation
Indices: 6262--6752 Score: 577
Period size: 53 Copynumber: 9.5 Consensus size: 53
6252 TAAATGCAAA
* * * * *
6262 AGGTCCGATGAGTCTGTGTCA-CGTAAGTTACATGAATCCTATTACGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCT-TTACGGATTATG
* * * * *
6314 AGGTCCGATGACTCTATGTTATCGTGAGTTACATGAATCCTATTACGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCT-TTACGGATTATG
* * * *
6367 AGGTCCGATTACTCTGTGTCATCGTGAGTTATATGAATCCTTTACGAATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
* *
6420 AGGTCCGTTGACTATGTGTCATCGTGAGTTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
6473 A-G---G-T--C----TGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
*
6515 AGGTCCGATGACTATGTGTCATCATGAGTTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
* * * * *
6568 AGGTCCGATGACTATGTGTTATCGTGAG-TATCTAAATCCTTTATGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
*
6620 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCTTTTACGGATT-TCG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTAT-G
* * * *
6672 AGGTTCGATGACTATATGTCATTGTGAG-TATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
*
6724 AGGTCTGATGACTATGTGTCATCGTGAGT
1 AGGTCCGATGACTATGTGTCATCGTGAGT
6753 ATTAAATGAG
Statistics
Matches: 385, Mismatches: 38, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
42 37 0.10
43 1 0.00
46 2 0.01
47 1 0.00
48 1 0.00
49 2 0.01
51 1 0.00
52 161 0.42
53 179 0.46
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (53 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTTTACGGATTATG
Found at i:6495 original size:42 final size:42
Alignment explanation
Indices: 6436--6519 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
6426 GTTGACTATG
*
6436 TGTCATCGTGAGTTATATGAATCTTTTACGGATTATGAGGTC
1 TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTC
6478 TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTC
1 TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTC
6520 CGATGACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (42 bp):
TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTC
Found at i:6546 original size:95 final size:97
Alignment explanation
Indices: 6383--6752 Score: 428
Period size: 104 Copynumber: 3.7 Consensus size: 97
6373 GATTACTCTG
* *
6383 TGTCATCGTGAGTTATATGAATCCTTTACGAATTATAAGGTCCGTTGACTATGTGTCATCGTGAG
1 TGTCATCGTGAGTTATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGTCATCGTGAG
6448 TTATATGAATCTTTTACGGATTATGAGGT-C-
66 TTATATGAATCTTTTACGGATTATGAGGTACA
* *
6478 TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATCATGAG
1 TGTCATCGTGAGTTATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGTCATCGTGAG
*
6543 TTATATGAATCCTTTACGGATTATGAGGTCCGATGACTA
66 TTATATGAATCTTTTACGGATTATGA-G---G-T-AC-A
* * * *
6582 TGTGTTATCGTGAG-TATCTAAATCCTTTATGAATTATGAGGTCCGATGACTATGTGTCATCGTG
1 --TGTCATCGTGAGTTATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGTCATCGTG
6646 AG-TATATGAATCTTTTACGGATT-TCGAGGTTCGATGACTATA
64 AGTTATATGAATCTTTTACGGATTAT-GA-G---G-T-AC---A
* *
6688 TGTCATTGTGAG-TATATGAATCCTTTACGAATTATGAGGTCTGATGACTATGTGTCATCGTGAG
1 TGTCATCGTGAGTTATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGTCATCGTGAG
6752 T
66 T
6753 ATTAAATGAG
Statistics
Matches: 241, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
95 86 0.36
96 1 0.00
99 1 0.00
100 1 0.00
102 1 0.00
103 1 0.00
104 90 0.37
105 47 0.20
106 13 0.05
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (97 bp):
TGTCATCGTGAGTTATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGTCATCGTGAG
TTATATGAATCTTTTACGGATTATGAGGTACA
Found at i:6628 original size:52 final size:52
Alignment explanation
Indices: 6478--6754 Score: 412
Period size: 52 Copynumber: 5.3 Consensus size: 52
6468 TTATGAGGTC
6478 TGTCATCGTGAGTTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
1 TGTCATCGTGAG-TATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
*
6531 TGTCATCATGAGTTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
1 TGTCATCGTGAG-TATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
* * * * *
6584 TGTTATCGTGAGTATCTAAATCCTTTATGAATTATGAGGTCCGATGACTATG
1 TGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
* * *
6636 TGTCATCGTGAGTATATGAATCTTTTACGGATT-TCGAGGTTCGATGACTATA
1 TGTCATCGTGAGTATATGAATCCTTTACGGATTAT-GAGGTCCGATGACTATG
* * *
6688 TGTCATTGTGAGTATATGAATCCTTTACGAATTATGAGGTCTGATGACTATG
1 TGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
6740 TGTCATCGTGAGTAT
1 TGTCATCGTGAGTAT
6755 TAAATGAGAA
Statistics
Matches: 200, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.00
52 136 0.68
53 63 0.31
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (52 bp):
TGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATG
Found at i:8484 original size:23 final size:23
Alignment explanation
Indices: 8418--8724 Score: 308
Period size: 23 Copynumber: 13.3 Consensus size: 23
8408 ATATTAATTT
* *
8418 TTTAAGCACAAACCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
8441 TTTAATCATAAAATCATATTAATA
1 TTTAAGCAT-AAATCACATTAATA
*
8465 TTTAAGCACAAATCACATTAAATA
1 TTTAAGCATAAATCACATT-AATA
8489 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * * *
8512 TTTGAGCACAAACCATATTAATA
1 TTTAAGCATAAATCACATTAATA
8535 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
8558 TTTAAGCATAAATCACATTTATA
1 TTTAAGCATAAATCACATTAATA
*
8581 TTTAAGCATAAATCACATTTATA
1 TTTAAGCATAAATCACATTAATA
* *
8604 TTTAAGAATAAATTACATTAATATTTAATA
1 TTTAAGCATAAA-T-C----ACA-TTAATA
*
8634 TTTAAG-AAAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
*
8656 TTTGAA-CACAAAT--C----ATA
1 TTT-AAGCATAAATCACATTAATA
8673 -TTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
8695 TTTAAACATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
8718 TTTAAGC
1 TTTAAGC
8725 TTAGATATAA
Statistics
Matches: 238, Mismatches: 27, Indels: 38
0.79 0.09 0.13
Matches are distributed among these distances:
15 2 0.01
16 8 0.03
17 3 0.01
18 1 0.00
21 1 0.00
22 12 0.05
23 149 0.63
24 42 0.18
25 1 0.00
27 1 0.00
28 1 0.00
29 6 0.03
30 11 0.05
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
TTTAAGCATAAATCACATTAATA
Found at i:8629 original size:29 final size:29
Alignment explanation
Indices: 8597--8658 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
8587 CATAAATCAC
*
8597 ATTT-ATATTTAAGAATAAATTACATTAAT
1 ATTTAATATTTAAGAA-AAATCACATTAAT
8626 ATTTAATATTTAAGAAAAATCACATTAAT
1 ATTTAATATTTAAGAAAAATCACATTAAT
8655 ATTT
1 ATTT
8659 GAACACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTAATATTTAAGAAAAATCACATTAAT
Found at i:9870 original size:85 final size:85
Alignment explanation
Indices: 9727--9901 Score: 341
Period size: 85 Copynumber: 2.1 Consensus size: 85
9717 TTCATAAAAC
*
9727 TCTAAGCTTTGACCCTTTTACAAGTAAGTTTTATTTTCAAAATTAAAGGTCTTTAAAACTATTTT
1 TCTAAGCTTTGACCCTTTTACAAGTAAGTATTATTTTCAAAATTAAAGGTCTTTAAAACTATTTT
9792 TCAAAAAATTGATTTAATTT
66 TCAAAAAATTGATTTAATTT
9812 TCTAAGCTTTGACCCTTTTACAAGTAAGTATTATTTTCAAAATTAAAGGTCTTTAAAACTATTTT
1 TCTAAGCTTTGACCCTTTTACAAGTAAGTATTATTTTCAAAATTAAAGGTCTTTAAAACTATTTT
9877 TCAAAAAATTGATTTAATTT
66 TCAAAAAATTGATTTAATTT
9897 TCTAA
1 TCTAA
9902 AAGTCAGAGT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (85 bp):
TCTAAGCTTTGACCCTTTTACAAGTAAGTATTATTTTCAAAATTAAAGGTCTTTAAAACTATTTT
TCAAAAAATTGATTTAATTT
Found at i:12887 original size:19 final size:19
Alignment explanation
Indices: 12852--12889 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12842 AAAATCAAAA
*
12852 TTTTACATTTAATATATAT
1 TTTTACATTTAAAATATAT
12871 TTTTA-ATTTCAAAATATAT
1 TTTTACATTT-AAAATATAT
12890 AGTGACAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTACATTTAAAATATAT
Found at i:20079 original size:26 final size:26
Alignment explanation
Indices: 20050--20107 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
20040 AGTTTTCAAA
*
20050 AAAATTTCAATTTAATCCTTTTAACC
1 AAAATTCCAATTTAATCCTTTTAACC
*
20076 AAAATTCCAATTTAATCCTTTTAATC
1 AAAATTCCAATTTAATCCTTTTAACC
20102 AAAATT
1 AAAATT
20108 AGGGTGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATTCCAATTTAATCCTTTTAACC
Found at i:20710 original size:30 final size:30
Alignment explanation
Indices: 20674--20736 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
20664 CTATTTCTAG
20674 GATTGCATGCAACTCCACTCAATTATACTA
1 GATTGCATGCAACTCCACTCAATTATACTA
20704 GATTGCATGCAACTCCACTCAATTATACTA
1 GATTGCATGCAACTCCACTCAATTATACTA
20734 GAT
1 GAT
20737 CTACTCTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (30 bp):
GATTGCATGCAACTCCACTCAATTATACTA
Found at i:33312 original size:17 final size:17
Alignment explanation
Indices: 33292--33332 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33282 TTTCTTGACT
*
33292 TTTAACATTTCATCTTC
1 TTTAACATTTCATATTC
*
33309 TTTAACCTTTCATATTC
1 TTTAACATTTCATATTC
33326 TTATAAC
1 TT-TAAC
33333 TACTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAACATTTCATATTC
Found at i:39304 original size:14 final size:16
Alignment explanation
Indices: 39276--39312 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
39266 TAGTTTTTAA
*
39276 AATTTTTAATCATATT
1 AATTTTTAATAATATT
39292 -ATTTTTAA-AATATT
1 AATTTTTAATAATATT
39306 AATTTTT
1 AATTTTT
39313 TTAAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTTAATAATATT
Found at i:39557 original size:14 final size:13
Alignment explanation
Indices: 39540--39591 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
39530 AATAATTACA
39540 TTTTTAAGAAATAG
1 TTTTTAA-AAATAG
39554 TTTTTCAAAAATAG
1 TTTTT-AAAAATAG
39568 TTTTTAAAAATAG
1 TTTTTAAAAATAG
*
39581 ATATTTAAAAA
1 -TTTTTAAAAA
39592 ATAACAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
13 8 0.23
14 25 0.71
15 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (13 bp):
TTTTTAAAAATAG
Found at i:39571 original size:13 final size:14
Alignment explanation
Indices: 39541--39594 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
39531 ATAATTACAT
* *
39541 TTTTAAGAAATAGT
1 TTTTAAAAAATAGA
*
39555 TTTTCAAAAATAG-
1 TTTTAAAAAATAGA
*
39568 TTTTTAAAAATAGA
1 TTTTAAAAAATAGA
39582 TATTTAAAAAATA
1 T-TTTAAAAAATA
39595 ACAAACATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.35
14 12 0.35
15 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTTAAAAAATAGA
Found at i:44676 original size:35 final size:35
Alignment explanation
Indices: 44629--44751 Score: 156
Period size: 35 Copynumber: 3.5 Consensus size: 35
44619 TGTTATTCTT
* *
44629 ATTCGCATGTTAAGCATGTCATTATATTGATTTTG
1 ATTCGCATGTAAAGCATGTCATTATACTGATTTTG
* * * *
44664 ATTCGCACGTTAAGCATGTCATTTTACTGATTCTG
1 ATTCGCATGTAAAGCATGTCATTATACTGATTTTG
* * * *
44699 ATTCGCATGTAAAGTATGCCACTATACTGATTTTT
1 ATTCGCATGTAAAGCATGTCATTATACTGATTTTG
44734 ATTCGCATGTAAAGCATG
1 ATTCGCATGTAAAGCATG
44752 CCACTGTGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (35 bp):
ATTCGCATGTAAAGCATGTCATTATACTGATTTTG
Found at i:47640 original size:27 final size:27
Alignment explanation
Indices: 47553--47672 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
47543 TTGTTAAAAA
*
47553 ATGCCTTTGTGACAATCTCTGTAAAGG
1 ATGCCTTTGTGACAATCTCTATAAAGG
** * *
47580 ACACATTTGTGGCAATCTCTATAAAGG
1 ATGCCTTTGTGACAATCTCTATAAAGG
** *
47607 ACACCTTTGTGACAATCTATATAAAGG
1 ATGCCTTTGTGACAATCTCTATAAAGG
* * * *
47634 ATGCCTTAGTGGCAATCTCTAGATATGG
1 ATGCCTTTGTGACAATCTCTATA-AAGG
47662 ATGCCTTTGTG
1 ATGCCTTTGTG
47673 GCTACTTCAA
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 63 0.83
28 13 0.17
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (27 bp):
ATGCCTTTGTGACAATCTCTATAAAGG
Found at i:48791 original size:19 final size:19
Alignment explanation
Indices: 48767--48820 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
48757 AACATGTGTA
48767 ATATTCACATCAATATCAC
1 ATATTCACATCAATATCAC
* *
48786 ATATTCAAATCAATTTCAC
1 ATATTCACATCAATATCAC
*
48805 ATGTTTTCACATCAAT
1 A--TATTCACATCAAT
48821 CACATATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 18 0.62
21 11 0.38
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATTCACATCAATATCAC
Found at i:50275 original size:26 final size:28
Alignment explanation
Indices: 50215--50270 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
50205 AAACTGGAAT
* *
50215 CAATTTGAGTGATAAGGGGGATTACATAAC
1 CAATTTGAGTAAAAAGGGGGATTAC--AAC
50245 CAATTTGAGTAAAAAGGGGGATTACA
1 CAATTTGAGTAAAAAGGGGGATTACA
50271 CAATTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
30 23 0.96
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.25
Consensus pattern (28 bp):
CAATTTGAGTAAAAAGGGGGATTACAAC
Found at i:57778 original size:30 final size:29
Alignment explanation
Indices: 57722--57785 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
57712 TTGGTAAATT
* * * *
57722 ACAATCATTTGAGTGATAAGAGGGATTAC
1 ACAATCATGTGAGTAAAAAGAAGGATTAC
57751 ACAATCAATGTGAGTAAAAAGAAGGATTAC
1 ACAATC-ATGTGAGTAAAAAGAAGGATTAC
57781 ACAAT
1 ACAAT
57786 TAAAGGGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (29 bp):
ACAATCATGTGAGTAAAAAGAAGGATTAC
Found at i:57796 original size:30 final size:30
Alignment explanation
Indices: 57739--57806 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
57729 TTTGAGTGAT
* * *
57739 AAGAGGGATTACACAATCAATGTGAGTAAA
1 AAGAAGGATTACACAATCAAAGGGAGTAAA
*
57769 AAGAAGGATTACACAATTAAAGGGAGTAAA
1 AAGAAGGATTACACAATCAAAGGGAGTAAA
*
57799 TAG-AGGAT
1 AAGAAGGAT
57807 CATAAAAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.19
Consensus pattern (30 bp):
AAGAAGGATTACACAATCAAAGGGAGTAAA
Found at i:58955 original size:2 final size:2
Alignment explanation
Indices: 58948--58988 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
58938 TTATAGTAAT
58948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58989 AAATATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59066 original size:19 final size:20
Alignment explanation
Indices: 59020--59069 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
59010 TGTTATTTTG
* *
59020 AAATTAAAAAAATCTATAAA
1 AAATTAAAAAAATCAACAAA
*
59040 AATTTTAAAAAAAT-AACAAA
1 AA-ATTAAAAAAATCAACAAA
59060 AAATTAAAAA
1 AAATTAAAAA
59070 TTTAGAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATTAAAAAAATCAACAAA
Found at i:64994 original size:29 final size:29
Alignment explanation
Indices: 64953--65050 Score: 162
Period size: 29 Copynumber: 3.4 Consensus size: 29
64943 GAGTGAGAAA
*
64953 ATTATTTTAAAAAATTAAATTAAATTTTT
1 ATTATTTTTAAAAATTAAATTAAATTTTT
64982 ATTATTTTTAAAAATTAAATTAAATTTTT
1 ATTATTTTTAAAAATTAAATTAAATTTTT
*
65011 ATTATTTTTAAAAATTAAAATATAA-TTTT
1 ATTATTTTTAAAAATTAAATTA-AATTTTT
65040 ATTATTTTTAA
1 ATTATTTTTAA
65051 TTTATAATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 64 0.97
30 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTATTTTTAAAAATTAAATTAAATTTTT
Found at i:65359 original size:24 final size:26
Alignment explanation
Indices: 65332--65381 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
65322 CACGGTATTT
65332 AACTATAACTGTATT-AT-ATTAAAA
1 AACTATAACTGTATTAATAATTAAAA
*
65356 AACTATAATTGTATTAATAATTAAAA
1 AACTATAACTGTATTAATAATTAAAA
65382 TAAATTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.61
25 2 0.09
26 7 0.30
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (26 bp):
AACTATAACTGTATTAATAATTAAAA
Found at i:65795 original size:14 final size:14
Alignment explanation
Indices: 65776--65804 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65766 ATAGTCATAT
65776 ATTTACCCATAAAA
1 ATTTACCCATAAAA
65790 ATTTACCCATAAAA
1 ATTTACCCATAAAA
65804 A
1 A
65805 AGGCGCTGTC
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:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (14 bp):
ATTTACCCATAAAA
Found at i:65899 original size:30 final size:30
Alignment explanation
Indices: 65863--65922 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
65853 AATTAGTAAA
65863 AATAAAATTGT-ATTTTAA-CTCTTTAAAAAT
1 AATAAAATTGTGA-TTTAATC-CTTTAAAAAT
*
65893 AATAAAATTTTGATTTAATCCTTTAAAAAT
1 AATAAAATTGTGATTTAATCCTTTAAAAAT
65923 TACATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (30 bp):
AATAAAATTGTGATTTAATCCTTTAAAAAT
Found at i:70488 original size:30 final size:31
Alignment explanation
Indices: 70452--70519 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
70442 ATGTTTGAAA
70452 TGTTACG-TTTAGTTATTTATGTTGTTATTT
1 TGTTACGTTTTAGTTATTTATGTTGTTATTT
*
70482 TGTTACGTTTTATTTATTTATGTTGTTATTT
1 TGTTACGTTTTAGTTATTTATGTTGTTATTT
70513 TGTTACG
1 TGTTACG
70520 AAGTGATCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.63
Consensus pattern (31 bp):
TGTTACGTTTTAGTTATTTATGTTGTTATTT
Found at i:71223 original size:137 final size:138
Alignment explanation
Indices: 70976--71285 Score: 410
Period size: 137 Copynumber: 2.3 Consensus size: 138
70966 GATCTTTCAC
* **
70976 GGTTCTTGAATAATTGGTTTCTCAATTCGATTTTTTCTAATTTGAATAGACTTGTTTGTTCAGAA
1 GGTTCTTGAATAATTGGTTTCTCAATTCGATTTTTTCTAATCTGAATAGACTTGTTTGACCAGAA
** ** *
71041 TCCCTTTGTGGGTATTCTTGATTTTTCTTTCTTATTGCTGATTTTGTGTTGATTTACCTTAGTGG
66 TCCCTTTGTCAGTATTCCAGATTTTTCTTTCTTATTACTGATTTTGTGTTGATTTACCTTAGTGG
71106 GTATTCCA
131 GTATTCCA
* * * *
71114 GGTTCTTGAATAATTGGTTTCCCAATTCGATTTTTT-TAATCTGAATCGTCTTGTTT-ACCCGCA
1 GGTTCTTGAATAATTGGTTTCTCAATTCGATTTTTTCTAATCTGAATAGACTTGTTTGACCAG-A
* * * *
71177 ATCTCTTTGTCAGTATTCCAGATTTTTCTTTCTTATTATTGATTTTGTGTTTATTTACCTTTGTG
65 ATCCCTTTGTCAGTATTCCAGATTTTTCTTTCTTATTACTGATTTTGTGTTGATTTACCTTAGTG
**
71242 GGTATTCTG
130 GGTATTCCA
*
71251 GGTTCTTGAATAATTGATTTCTC-ATTCCGATTTTT
1 GGTTCTTGAATAATTGGTTTCTCAATT-CGATTTTT
71286 CTTGTAACAG
Statistics
Matches: 150, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
136 5 0.03
137 110 0.73
138 35 0.23
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (138 bp):
GGTTCTTGAATAATTGGTTTCTCAATTCGATTTTTTCTAATCTGAATAGACTTGTTTGACCAGAA
TCCCTTTGTCAGTATTCCAGATTTTTCTTTCTTATTACTGATTTTGTGTTGATTTACCTTAGTGG
GTATTCCA
Found at i:72765 original size:25 final size:25
Alignment explanation
Indices: 72736--72806 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
72726 AACCTTTCTA
72736 GGCTCGTAAGAGCTAATTCTATCTG
1 GGCTCGTAAGAGCTAATTCTATCTG
* *
72761 GGCTCGTAAGAGCTAAATCTATTTG
1 GGCTCGTAAGAGCTAATTCTATCTG
* *
72786 GGCTCATATGAGCTAAATTCT
1 GGCTCGTAAGAGCT-AATTCT
72807 GTAGGACCGG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (25 bp):
GGCTCGTAAGAGCTAATTCTATCTG
Found at i:73386 original size:21 final size:23
Alignment explanation
Indices: 73360--73413 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
73350 GCTTGAGTTA
73360 TATCGATAG-T-TGCA-TAGTAGG
1 TATCGATAGTTCTGCATTAG-AGG
73381 TATCGATAGTTCTGCATTTAGAGG
1 TATCGATAGTTCTGCA-TTAGAGG
73405 TATCGATAG
1 TATCGATAG
73414 AAATTGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.31
22 1 0.03
23 4 0.14
24 12 0.41
25 3 0.10
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (23 bp):
TATCGATAGTTCTGCATTAGAGG
Found at i:75887 original size:91 final size:91
Alignment explanation
Indices: 75732--75911 Score: 351
Period size: 91 Copynumber: 2.0 Consensus size: 91
75722 TTAGGTATCC
*
75732 ATTTAGAAAAGATATCCTTGTCTTTAGTAGTACTATATCCTTTAGGGACTCATACACTTCTAACA
1 ATTTAGAAAAGATATCCTTGTCTTTAGAAGTACTATATCCTTTAGGGACTCATACACTTCTAACA
75797 AGTTTTTCCTTATAGATTTTTTAGGG
66 AGTTTTTCCTTATAGATTTTTTAGGG
75823 ATTTAGAAAAGATATCCTTGTCTTTAGAAGTACTATATCCTTTAGGGACTCATACACTTCTAACA
1 ATTTAGAAAAGATATCCTTGTCTTTAGAAGTACTATATCCTTTAGGGACTCATACACTTCTAACA
75888 AGTTTTTCCTTATAGATTTTTTAG
66 AGTTTTTCCTTATAGATTTTTTAG
75912 AGACCTCTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (91 bp):
ATTTAGAAAAGATATCCTTGTCTTTAGAAGTACTATATCCTTTAGGGACTCATACACTTCTAACA
AGTTTTTCCTTATAGATTTTTTAGGG
Found at i:81959 original size:22 final size:22
Alignment explanation
Indices: 81934--81994 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
81924 TAAAAATGAT
**
81934 AAAATTTTAATTTAATCTTTTA
1 AAAATTTTAATTTAATCTCGTA
*
81956 AAAATTATCT-TTTTAATCTCGTA
1 AAAATT-T-TAATTTAATCTCGTA
*
81979 AAAATTATAATTTAAT
1 AAAATTTTAATTTAAT
81995 TTAGATCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.03
22 12 0.39
23 17 0.55
24 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATTTTAATTTAATCTCGTA
Found at i:82769 original size:14 final size:14
Alignment explanation
Indices: 82721--82772 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
82711 GGTGAAACAG
*
82721 AAAAAAAAAACTGA
1 AAAAAAAAAATTGA
* * *
82735 AAAGAAACATTTGA
1 AAAAAAAAAATTGA
82749 AATAAAAAAAATTGA
1 AA-AAAAAAAATTGA
82764 AAAAAAAAA
1 AAAAAAAAA
82773 TAAAGGGGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (14 bp):
AAAAAAAAAATTGA
Found at i:82898 original size:40 final size:40
Alignment explanation
Indices: 82832--82921 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
82822 AAAACCCCGT
* * *
82832 AAAAAGTAAAGCAATAGCCGCATTTTTTCATAAACGTTAC
1 AAAAGGTAAAGCAATAGCCGCATTTTTCCATAAACGTCAC
* * * *
82872 AAAAGGTAAAG-AACTAGCGGCGTTTTTCCATAAATGTCGC
1 AAAAGGTAAAGCAA-TAGCCGCATTTTTCCATAAACGTCAC
82912 AAAAGGTAAA
1 AAAAGGTAAA
82922 AGCATTAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.05
40 40 0.95
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (40 bp):
AAAAGGTAAAGCAATAGCCGCATTTTTCCATAAACGTCAC
Found at i:82952 original size:41 final size:41
Alignment explanation
Indices: 82871--83142 Score: 189
Period size: 41 Copynumber: 6.7 Consensus size: 41
82861 ATAAACGTTA
* * ** *
82871 CAAAAGGT-AAAGAACTAGCGGCGTTT-TTCCATAAATGTCG
1 CAAAAGGTAAAAGCATTAGCGGCGTTTATGACA-AAACGTCG
*
82911 CAAAAGGTAAAAGCATTAGTGGCGTTTATGACAAAACGTCG
1 CAAAAGGTAAAAGCATTAGCGGCGTTTATGACAAAACGTCG
* * *
82952 CAAAAGG-AAAGAGCATTAGCGGCGTTTATGATAAAA-ATCCA
1 CAAAAGGTAAA-AGCATTAGCGGCGTTTATGACAAAACGT-CG
* * * *
82993 CAAAAAGTAAGAGCATTAGCGGCGTTT-TGTCATAAACGCCG
1 CAAAAGGTAAAAGCATTAGCGGCGTTTATGACA-AAACGTCG
* ** ** *
83034 CAAAAAGT-ATGGCATTAGCGGTATTTATGAAAAAACGTCG
1 CAAAAGGTAAAAGCATTAGCGGCGTTTATGACAAAACGTCG
* * * * **
83074 CTAAAGGTAAGAGCATTAGCGACATTTATGGGA-AAAACCCCG
1 CAAAAGGTAAAAGCATTAGCGGCGTTTAT--GACAAAACGTCG
* * *
83116 CAAAATGTAAGAGCATTAACGGCGTTT
1 CAAAAGGTAAAAGCATTAGCGGCGTTT
83143 TCCCATAACG
Statistics
Matches: 184, Mismatches: 37, Indels: 20
0.76 0.15 0.08
Matches are distributed among these distances:
40 42 0.23
41 106 0.58
42 34 0.18
43 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (41 bp):
CAAAAGGTAAAAGCATTAGCGGCGTTTATGACAAAACGTCG
Found at i:83087 original size:122 final size:124
Alignment explanation
Indices: 82886--83150 Score: 320
Period size: 123 Copynumber: 2.2 Consensus size: 124
82876 GGTAAAGAAC
* * * * * *
82886 TAGCGGCGTTTTTCCATAAATGTCGCAAAAGGTAAAAGCATTAGTGGCGTTTATGACAAAACGTC
1 TAGCGGCGTTTTTCCATAAACGCCGCAAAAAGTAAAAGCATTAGCGGCATTTATGAAAAAACGTC
* * * *
82951 GCAAAAGGAAAGAGCATTAGCGGCGTTTATGATAAAAA-TCCACAAAAAGTAAGAGCAT
66 GCAAAAGGAAAGAGCATTAGCGACATTTATGAGAAAAACCCCACAAAAAGTAAGAGCAT
** *
83009 TAGCGGCGTTTTGT-CATAAACGCCGCAAAAAGT-ATGGCATTAGCGGTATTTATGAAAAAACGT
1 TAGCGGCGTTTT-TCCATAAACGCCGCAAAAAGTAAAAGCATTAGCGGCATTTATGAAAAAACGT
* * * * *
83072 CGCTAAAGGTAAGAGCATTAGCGACATTTATGGGAAAAACCCCGCAAAATGTAAGAGCAT
65 CGCAAAAGGAAAGAGCATTAGCGACATTTATGAGAAAAACCCCACAAAAAGTAAGAGCAT
* *
83132 TAACGGCGTTTTCCCATAA
1 TAGCGGCGTTTTTCCATAA
83151 CGCTGCTAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
122 57 0.48
123 61 0.51
124 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (124 bp):
TAGCGGCGTTTTTCCATAAACGCCGCAAAAAGTAAAAGCATTAGCGGCATTTATGAAAAAACGTC
GCAAAAGGAAAGAGCATTAGCGACATTTATGAGAAAAACCCCACAAAAAGTAAGAGCAT
Found at i:83354 original size:15 final size:13
Alignment explanation
Indices: 83334--83378 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
83324 TTTTTTATTT
83334 TATGATTTATACTGG
1 TATGA-TTATA-TGG
83349 TATGATTATATTGTG
1 TATGATTATA-TG-G
83364 TATGATTATATGG
1 TATGATTATATGG
83377 TA
1 TA
83379 CCAGGAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
15 16 0.57
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (13 bp):
TATGATTATATGG
Found at i:84054 original size:66 final size:66
Alignment explanation
Indices: 83945--84076 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
83935 TCATATTTTG
** * * * *
83945 AAGTTGTAGCTGCAGTTCGTCATACTTTCTTGTTGCCTTTGCTTCCCTCGCTGCTGCCTCCGCTT
1 AAGTTGTAGCTAAAGTTCATCATACTTTCTTGATGCCTCTGCTTCCCTCGCTGCTGCCTCCCCTT
84010 T
66 T
* * *
84011 AAGTTGTAGCTAAAGTTCATCATATTTTCTTTGAT-CCTCTGCTTCTCTCGCTGTTGCCTCCCCT
1 AAGTTGTAGCTAAAGTTCATCATACTTTC-TTGATGCCTCTGCTTCCCTCGCTGCTGCCTCCCCT
84075 TT
65 TT
84077 TGAGTAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.12, C:0.29, G:0.17, T:0.42
Consensus pattern (66 bp):
AAGTTGTAGCTAAAGTTCATCATACTTTCTTGATGCCTCTGCTTCCCTCGCTGCTGCCTCCCCTT
T
Found at i:89813 original size:16 final size:16
Alignment explanation
Indices: 89792--89826 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89782 TTTAGGGTTT
89792 AATAAATAACTAATTA
1 AATAAATAACTAATTA
* *
89808 AATAAATAATTATTTA
1 AATAAATAACTAATTA
89824 AAT
1 AAT
89827 TATTTGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAATAACTAATTA
Found at i:89873 original size:75 final size:75
Alignment explanation
Indices: 89732--89875 Score: 168
Period size: 75 Copynumber: 1.9 Consensus size: 75
89722 ACATAGTTGC
* ** *
89732 AAATAATTAAATAATTAAATATTTGGGTTTTTAATAATTAAATAGTTTGATTTAGGGTTTAATAA
1 AAATAAATAAATAATTAAATATTTGGGTTTTTAATAATTAAATAGTTTGATTTAGAATATAATAA
89797 ATAACTAATT
66 ATAACTAATT
* * * *
89807 AAATAAATAATTATTTAAATTATTTGGTTTTTTTAATAATTTAATA-TTT-ATTTA-AATATAAT
1 AAATAAATAAATAATTAAA-TATTTGG-GTTTTTAATAATTAAATAGTTTGATTTAGAATATAA-
89869 TAAATAA
63 TAAATAA
89876 TTTAATATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
74 4 0.07
75 28 0.48
76 10 0.17
77 16 0.28
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (75 bp):
AAATAAATAAATAATTAAATATTTGGGTTTTTAATAATTAAATAGTTTGATTTAGAATATAATAA
ATAACTAATT
Found at i:89874 original size:63 final size:63
Alignment explanation
Indices: 89802--90248 Score: 188
Period size: 63 Copynumber: 7.3 Consensus size: 63
89792 AATAAATAAC
*
89802 TAATTAAATAA-ATAATTATTTAAATTATTTGGTTTTTTTAATAATTTAATATTTATTTAAATA
1 TAATTAAATAACTTAATTATTTAAATTATTT-GTTTTTTTAATAATTTAATATTTATTTAAATA
* * * ** * * * *
89865 TAATTAAATAATTTAATATTTTTGAATTAAATATTTGGGTTTAA-GATTTAATA---A-AT-AA-
1 TAATTAAATAACTTAAT-TATTTAAATTATTTGTTT--TTTTAATAATTTAATATTTATTTAAAT
*
89923 C
63 A
*
89924 TAATTAAATAA-TTAATTATTTAAA-TAGTTCAGTTTTTTTAATAATTTAATATTTATTTAAATA
1 TAATTAAATAACTTAATTATTTAAATTA-TT-TGTTTTTTTAATAATTTAATATTTATTTAAATA
** * * * *
89987 TAATTAAATAACTTAA-TATTTTAAATTAAATATTTTGATTT-AGAGTTTAATA---A-AT-AA-
1 TAATTAAATAACTTAATTA-TTTAAATTATTTGTTTT--TTTAATAATTTAATATTTATTTAAAT
*
90044 C
63 A
* *
90045 TAATTAAATAA-TTAATT-TTTTAA-TATTTGTTCTGTTTTTAATAATTTAATATTTATTT-ATT
1 TAATTAAATAACTTAATTATTTAAATTATTTG-T-T-TTTTTAATAATTTAATATTTATTTAAAT
90106 A
63 A
* * ** * * ** *
90107 TAATTAAATAATTTAA-TATTTTGAATTAAATATTTTAGGTTAA-GGTTTAATA---A-AT-AA-
1 TAATTAAATAACTTAATTA-TTTAAATTATTTGTTTT--TTTAATAATTTAATATTTATTTAAAT
*
90164 C
63 A
* *
90165 TAATTAAATAA-TTAATTATTTTAA-TATTTGTTCTATTTTTAATAATTTAATATTTATTT-ATT
1 TAATTAAATAACTTAATTATTTAAATTATTTG-T-T-TTTTTAATAATTTAATATTTATTTAAAT
90227 A
63 A
*
90228 TAATTAAATAATTTAA-TATTT
1 TAATTAAATAACTTAATTATTT
90249 TGAATTAAAT
Statistics
Matches: 282, Mismatches: 57, Indels: 90
0.66 0.13 0.21
Matches are distributed among these distances:
55 3 0.01
56 19 0.07
57 42 0.15
58 43 0.15
59 17 0.06
60 6 0.02
61 6 0.02
62 19 0.07
63 56 0.20
64 40 0.14
65 26 0.09
66 5 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (63 bp):
TAATTAAATAACTTAATTATTTAAATTATTTGTTTTTTTAATAATTTAATATTTATTTAAATA
Found at i:89877 original size:30 final size:30
Alignment explanation
Indices: 89841--90007 Score: 94
Period size: 30 Copynumber: 5.5 Consensus size: 30
89831 TGGTTTTTTT
89841 AATAATTTAATATTTATTTAAATATAATTA
1 AATAATTTAATATTTATTTAAATATAATTA
* *
89871 AATAATTTAATA-TT-TTTGAAT-TAAATA
1 AATAATTTAATATTTATTTAAATATAATTA
** ** * *
89898 TTTGGGTTTAAGATTTA-ATAAATAACTAATTA
1 AAT-AATTTAATATTTATTTAAAT-A-TAATTA
* * ** *
89930 AATAA-TTAATTATTTAAATAGTTCAGT-TTTTTT
1 AATAATTTAA-TATTT--AT--TTAAATATAATTA
89963 AATAATTTAATATTTATTTAAATATAATTA
1 AATAATTTAATATTTATTTAAATATAATTA
*
89993 AATAACTTAATATTT
1 AATAATTTAATATTT
90008 TAAATTAAAT
Statistics
Matches: 96, Mismatches: 27, Indels: 28
0.64 0.18 0.19
Matches are distributed among these distances:
27 6 0.06
28 12 0.12
29 12 0.12
30 33 0.34
31 6 0.06
32 6 0.06
33 14 0.15
34 4 0.04
36 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (30 bp):
AATAATTTAATATTTATTTAAATATAATTA
Found at i:90067 original size:121 final size:120
Alignment explanation
Indices: 89767--90300 Score: 765
Period size: 121 Copynumber: 4.4 Consensus size: 120
89757 GGTTTTTAAT
* * * *
89767 AATTAAATAGTTTGATTTAGGGTTTAATAAATAACTAATTAAATAAATAATTATTTAA-ATTATT
1 AATTAAATATTTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAATATTAGT
*
89831 TGGTTTTTTTAATAATTTAATATTTATTTAAATATAATTAAATAATTTAATATTTTTG
66 T-CTTTTTTTAATAATTTAATATTTATTT-AATATAATTAAATAATTTAATA-TTTTG
* *
89889 AATTAAATATTTGGGTTTA-AGATTTAATAAATAACTAATTAAATAATTAATTATTTAA-A-TAG
1 AATTAAATATTTTGATTTAGAG-TTTAATAAATAACTAATTAAATAATTAATTATTTAATATTAG
* *
89951 TTCAGTTTTTTTAATAATTTAATATTTATTTAAATATAATTAAATAACTTAATATTTTA
65 TTC--TTTTTTTAATAATTTAATATTTATTT-AATATAATTAAATAATTTAATATTTTG
* *
90010 AATTAAATATTTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTTTTTAATATTTGT
1 AATTAAATATTTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAATATTAGT
* *
90075 TCTGTTTTTAATAATTTAATATTTATTTATTATAATTAAATAATTTAATATTTTG
66 TCTTTTTTTAATAATTTAATATTTATTTAATATAATTAAATAATTTAATATTTTG
* * *
90130 AATTAAATATTTTAGGTTAAG-GTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTT
1 AATTAAATATTTT-GATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTA-TTTAATATTA
* *
90194 GTTCTATTTTTAATAATTTAATATTTATTTATTATAATTAAATAATTTAATATTTTG
64 GTTCTTTTTTTAATAATTTAATATTTATTTAATATAATTAAATAATTTAATATTTTG
*
90251 AATTAAATA-TTTGAGTTTAGAATTTAATAAATAACTAATTAAATAATTAA
1 AATTAAATATTTTGA-TTTAGAGTTTAATAAATAACTAATTAAATAATTAA
90301 ATATATGTAT
Statistics
Matches: 378, Mismatches: 24, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
119 1 0.00
120 75 0.20
121 194 0.51
122 103 0.27
123 5 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTAAATATTTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAATATTAGT
TCTTTTTTTAATAATTTAATATTTATTTAATATAATTAAATAATTTAATATTTTG
Found at i:90126 original size:21 final size:22
Alignment explanation
Indices: 90085--90143 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
90075 TCTGTTTTTA
* *
90085 ATAATTTAAT-ATTTATTTATT
1 ATAATTAAATAATTTATATATT
90106 ATAATTAAATAATTTA-ATATT
1 ATAATTAAATAATTTATATATT
* *
90127 TTGAATTAAATATTTTA
1 AT-AATTAAATAATTTA
90144 GGTTAAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTAAATAATTTATATATT
Found at i:90222 original size:21 final size:22
Alignment explanation
Indices: 90198--90259 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
90188 ATATTTGTTC
*
90198 TATTT-TTAATAATTTAAT-ATT
1 TATTTATT-ATAATTAAATAATT
90219 TATTTATTATAATTAAATAATT
1 TATTTATTATAATTAAATAATT
* *
90241 TA-ATATTTTGAATTAAATA
1 TATTTATTAT-AATTAAATA
90260 TTTGAGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTATTATAATTAAATAATT
Found at i:90246 original size:241 final size:241
Alignment explanation
Indices: 89767--90300 Score: 812
Period size: 241 Copynumber: 2.2 Consensus size: 241
89757 GGTTTTTAAT
* *
89767 AATTAAATAGTTTGATTTAGGGTTTAATAAATAACTAATTAAATAAATAATTATTTAAATTATTT
1 AATTAAATA-TTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAAATTATTT
89832 GGTTTTTTTAATAATTTAATATTTATTTAAATATAATTAAATAATTTAATATTTTTGAATTAAAT
65 GGTTTTTTTAATAATTTAATATTTATTTAAATATAATTAAATAATTTAATATTTTTGAATTAAAT
* *
89897 ATTTGGGTTTAAGATTTAATAAATAACTAATTAAATAATTAATTATTTAAATAGTTCAGTTTTTT
130 ATTTAGGTTTAAGATTTAATAAATAACTAATTAAATAATTAATTATTTAAATAGTTCA-TATTTT
89962 TAATAATTTAATATTTATTTAAATATAATTAAATAACTTAATATTTTA
194 TAATAATTTAATATTTATTTAAATATAATTAAATAACTTAATATTTTA
*
90010 AATTAAATATTTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATT-TTTTAA-TATTT
1 AATTAAATA-TTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAAATTATTT
* *
90073 GTTCTGTTTTTAATAATTTAATATTTATTT-ATTATAATTAAATAATTTAATA-TTTTGAATTAA
65 GGT-T-TTTTTAATAATTTAATATTTATTTAAATATAATTAAATAATTTAATATTTTTGAATTAA
* *
90136 ATATTTTAGG-TTAAGGTTTAATAAATAACTAATTAAATAATTAATTATTTTAATATTTGTTC-T
128 ATA-TTTAGGTTTAAGATTTAATAAATAACTAATTAAATAATTAATTA-TTTAA-A-TAGTTCAT
* * *
90199 ATTTTTAATAATTTAATATTTATTT-ATTATAATTAAATAATTTAATATTTTG
189 ATTTTTAATAATTTAATATTTATTTAAATATAATTAAATAACTTAATATTTTA
*
90251 AATTAAATATTTGAGTTTAGAATTTAATAAATAACTAATTAAATAATTAA
1 AATTAAATATTTGA-TTTAGAGTTTAATAAATAACTAATTAAATAATTAA
90301 ATATATGTAT
Statistics
Matches: 270, Mismatches: 14, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
240 5 0.02
241 124 0.46
242 62 0.23
243 74 0.27
244 5 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (241 bp):
AATTAAATATTTGATTTAGAGTTTAATAAATAACTAATTAAATAATTAATTATTTAAATTATTTG
GTTTTTTTAATAATTTAATATTTATTTAAATATAATTAAATAATTTAATATTTTTGAATTAAATA
TTTAGGTTTAAGATTTAATAAATAACTAATTAAATAATTAATTATTTAAATAGTTCATATTTTTA
ATAATTTAATATTTATTTAAATATAATTAAATAACTTAATATTTTA
Found at i:90413 original size:28 final size:28
Alignment explanation
Indices: 90360--90434 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
90350 AGAGAGTTTC
90360 AATTATTGTATATATTATTAACTTATAATA
1 AATTATTG--TATATTATTAACTTATAATA
* *
90390 TATTATTGTATATTATTAATTTATAATA
1 AATTATTGTATATTATTAACTTATAATA
90418 AATTATTGTATATTATT
1 AATTATTGTATATTATT
90435 GGTGCTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 35 0.83
30 7 0.17
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (28 bp):
AATTATTGTATATTATTAACTTATAATA
Found at i:91924 original size:50 final size:50
Alignment explanation
Indices: 91849--91960 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
91839 TCGGTCGGTG
* *
91849 GGTGTTGATGGAGATTGGAGTGGAGAAGGAAATGAAGGAGGTAGACGATA
1 GGTGTTGGTGGAGATTGGAGTGGAGAAGGAAATGAAGGAGGTAAACGATA
* * * *
91899 GGTGTTGGTGTAGATTGGAGTGGAGAATGAAATGGAGGAGGTAAACGATG
1 GGTGTTGGTGGAGATTGGAGTGGAGAAGGAAATGAAGGAGGTAAACGATA
*
91949 GGTATTGGTGGA
1 GGTGTTGGTGGA
91961 AATTAGGGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.30, C:0.02, G:0.45, T:0.23
Consensus pattern (50 bp):
GGTGTTGGTGGAGATTGGAGTGGAGAAGGAAATGAAGGAGGTAAACGATA
Found at i:91985 original size:19 final size:19
Alignment explanation
Indices: 91961--92000 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
91951 TATTGGTGGA
* *
91961 AATTAGGGATTTAGAAATG
1 AATTAGGAATTTAAAAATG
91980 AATTAGGAATTTAAAAATG
1 AATTAGGAATTTAAAAATG
91999 AA
1 AA
92001 AGAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
AATTAGGAATTTAAAAATG
Found at i:94558 original size:41 final size:41
Alignment explanation
Indices: 94508--94737 Score: 216
Period size: 41 Copynumber: 5.6 Consensus size: 41
94498 TAGCGGCGTA
* * **
94508 AAACACCGCTAATGCTCTGACATTTAGCAGCGTTTTCTCAT
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTTCGGAT
* * * * ** **
94549 AAACGCCGCTATTACTTTGACCTTTAGCGGCACTTTCCCAT
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTTCGGAT
* * * *
94590 AAGCACCGTTAATGCTCTGACCTTTAGCGGCGCTTATGGGA-
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCG-TTTTCGGAT
* *
94631 AAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGA-
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCG-TTTTCGGAT
*
94672 AAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTAT-GG-T
1 AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTT-TCGGAT
*
94712 AAAGCACCGCTAATGCTCTGAACTTT
1 AAA-CACCGCTAATGCTCTGACCTTT
94738 TGTGGTGCTT
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
40 7 0.04
41 148 0.94
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
AAACACCGCTAATGCTCTGACCTTTAGCGGCGTTTTCGGAT
Found at i:94652 original size:82 final size:82
Alignment explanation
Indices: 94507--94737 Score: 241
Period size: 82 Copynumber: 2.8 Consensus size: 82
94497 TTAGCGGCGT
* * * *** * * * *
94507 AAAACACCGCTAATGCTCTGACATTTAGCAGCG-TTTTCTCATAAACGCCGCTATTACTTTGACC
1 AAAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGA-AAACACCGCTAATGCTCTGACC
94571 TTTAGCGGCACTT-TCCC
65 TTTAGCGGCACTTATCCC
* *
94588 ATAAGCACCGTTAATGCTCTGACCTTTAGCGGCGCTTATGGGAAAACACCGCTAATGCTCTGACC
1 A-AAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGAAAACACCGCTAATGCTCTGACC
* ***
94653 TTTAGCGGCGCTTATGGG
65 TTTAGCGGCACTTATCCC
* * * * *
94671 AAAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTATGGTAAAGCACCGCTAATGCTCTGAACT
1 AAAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGAAAACACCGCTAATGCTCTGACCT
94736 TT
66 TT
94738 TGTGGTGCTT
Statistics
Matches: 124, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
81 1 0.01
82 117 0.94
83 6 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (82 bp):
AAAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGAAAACACCGCTAATGCTCTGACCT
TTAGCGGCACTTATCCC
Found at i:94726 original size:123 final size:123
Alignment explanation
Indices: 94507--94737 Score: 286
Period size: 123 Copynumber: 1.9 Consensus size: 123
94497 TTAGCGGCGT
* * * *
94507 AAAACACCGCTAATGCTCTGACATTTAGCAGCGTTTTCTCATAAACGCCGCTATTACTTTGACCT
1 AAAACACCGCTAATGCTCTGACATTTAGCAGCGTTATCGCATAAACGCCGCTAATACTCTGACCT
* *
94572 TTAGCGGCACTTTCCCATAAGCACCGTTAATGCTCTGACCTTTAGCGGCGCTTATGGG
66 TTAGCGGCACTTTCCCATAAGCACCGCTAATGCTCTGAACTTTAGCGGCGCTTATGGG
* * * * *
94630 AAAACACCGCTAATGCTCTGACCTTTAGCGGCGCTTATGGGA-AAACGCCGCTAATGCTCTGACC
1 AAAACACCGCTAATGCTCTGACATTTAGCAGCG-TTATCGCATAAACGCCGCTAATACTCTGACC
* ****
94694 TTTAGCGGC-GTTTATGGTAAAGCACCGCTAATGCTCTGAACTTT
65 TTTAGCGGCACTTTCCCAT-AAGCACCGCTAATGCTCTGAACTTT
94738 TGTGGTGCTT
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
122 4 0.04
123 82 0.91
124 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (123 bp):
AAAACACCGCTAATGCTCTGACATTTAGCAGCGTTATCGCATAAACGCCGCTAATACTCTGACCT
TTAGCGGCACTTTCCCATAAGCACCGCTAATGCTCTGAACTTTAGCGGCGCTTATGGG
Found at i:104490 original size:8 final size:8
Alignment explanation
Indices: 104477--104554 Score: 75
Period size: 8 Copynumber: 9.5 Consensus size: 8
104467 ATAATCAAAA
104477 TATTTAAT
1 TATTTAAT
*
104485 TATTTAAA
1 TATTTAAT
104493 TATTTAAT
1 TATTTAAT
*
104501 TATTTAAA
1 TATTTAAT
104509 TATTTAAT
1 TATTTAAT
*
104517 TATTAAAAT
1 TATT-TAAT
* ** *
104526 CAACCTAAA
1 -TATTTAAT
104535 TATTTAAT
1 TATTTAAT
104543 TATTTAAT
1 TATTTAAT
104551 TATT
1 TATT
104555 AAAAACAATC
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
8 48 0.89
9 5 0.09
10 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTTAAT
Found at i:104537 original size:42 final size:40
Alignment explanation
Indices: 104489--104598 Score: 126
Period size: 34 Copynumber: 2.8 Consensus size: 40
104479 TTTAATTATT
104489 TAAATATTTAATTATTTAAATATTTAATTATTAAAATCAA-CC
1 TAAATATTTAATTATTTAAATATTTAATTA--AAAA-CAATCC
104531 TAAATATTTAATTATTT--A-A-TT-ATTAAAAACAATCC
1 TAAATATTTAATTATTTAAATATTTAATTAAAAACAATCC
104566 -AAATATTTAATTATTTAATTATATTTAATTAAA
1 TAAATATTTAATTATTTAA--ATATTTAATTAAA
104599 TTAAATTTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
34 19 0.32
35 6 0.10
37 4 0.07
38 3 0.05
39 2 0.03
40 3 0.05
41 6 0.10
42 17 0.28
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (40 bp):
TAAATATTTAATTATTTAAATATTTAATTAAAAACAATCC
Found at i:104547 original size:34 final size:34
Alignment explanation
Indices: 104501--104671 Score: 155
Period size: 34 Copynumber: 5.3 Consensus size: 34
104491 AATATTTAAT
*
104501 TATTTAAATATTTAATTATTAAAATCAACCTAAA
1 TATTTAATTATTTAATTATTAAAATCAACCTAAA
*
104535 TATTTAATTATTTAATTATTAAAAACAATCC-AAA
1 TATTTAATTATTTAATTATTAAAATCAA-CCTAAA
* * *
104569 TATTTAATTATTTAATTA-T--ATTTAA--TTAA
1 TATTTAATTATTTAATTATTAAAATCAACCTAAA
* * * *
104598 -A-TTAAAT-TTTAATTATTAAAAACAATCTAAG
1 TATTTAATTATTTAATTATTAAAATCAACCTAAA
*
104629 TATTTAATTATTTAATTAATAAAAAT-AACCTAAA
1 TATTTAATTATTTAATT-ATTAAAATCAACCTAAA
*
104663 AATTTAATT
1 TATTTAATT
104672 TAAAATATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
26 8 0.07
27 6 0.06
28 1 0.01
29 5 0.05
31 5 0.05
32 1 0.01
33 6 0.06
34 68 0.63
35 8 0.07
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (34 bp):
TATTTAATTATTTAATTATTAAAATCAACCTAAA
Found at i:104609 original size:94 final size:92
Alignment explanation
Indices: 104469--104696 Score: 293
Period size: 94 Copynumber: 2.5 Consensus size: 92
104459 TTTTAGAAAT
* * *
104469 AATCAAAATATTTAATTATTTAAATATTTAATTATTTAAATATTTAATTATTAAAATCAACCTAA
1 AATCCAAATATTTAATTATTTAAATATTTAATTAATTAAATATTTAATTATTAAAAACAACCTAA
*
104534 ATATTTAATTATTTAATTATTAAAAAC
66 ATATTTAATTATTTAATTAATAAAAAC
*
104561 AATCCAAATATTTAATTATTTAATTATATTTAATTAAATTAAAT-TTTAATTATTAAAAACAATC
1 AATCCAAATATTTAATTATTTAA--ATATTTAATT-AATTAAATATTTAATTATTAAAAACAACC
* *
104625 TAAGTATTTAATTATTTAATTAATAAAAAT
63 TAAATATTTAATTATTTAATTAATAAAAAC
* * * *
104655 AA-CCTAAAAATTTAA-T-TTAAAATATTTAATTATTTAATTATT
1 AATCC-AAATATTTAATTATTTAAATATTTAATTAATTAAATATT
104697 AAAAAAACCC
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
89 6 0.05
90 12 0.10
92 26 0.22
93 3 0.03
94 66 0.55
95 7 0.06
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (92 bp):
AATCCAAATATTTAATTATTTAAATATTTAATTAATTAAATATTTAATTATTAAAAACAACCTAA
ATATTTAATTATTTAATTAATAAAAAC
Found at i:104669 original size:60 final size:60
Alignment explanation
Indices: 104544--104671 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
104534 ATATTTAATT
** * *
104544 ATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATTTAATTAAATTAAA
1 ATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAAATAAATAAAA
* * * *
104604 TTTTAATTATTAAAAACAATCTAAGTATTTAATTATTTAATTA-ATAAAAATAACCTAAAA
1 ATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAAATAA-ATAAAA
104664 ATTTAATT
1 ATTTAATT
104672 TAAAATATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 7 0.12
60 51 0.88
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (60 bp):
ATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAATTATATAAAAATAAATAAAA
Found at i:110489 original size:43 final size:43
Alignment explanation
Indices: 110328--110564 Score: 208
Period size: 43 Copynumber: 5.5 Consensus size: 43
110318 TCTATTAATG
** * * *
110328 TTAGCGGGGTTTGTGAGAAAAACACCGCTAAAGAAT-ATGTTCT
1 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAG-ATCATGTTCT
* * * ** *
110371 ATAGTGGCGTTTGTGGGAAAAATATCGCTAAA-TTCAATGTTCT
1 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGATC-ATGTTCT
* * * * *
110414 TTAGCGGCGTTTGTGGTAAAAGCGTCGTTAAAGATCATGTTTT
1 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGATCATGTTCT
* * *
110457 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGACCACGTTCC
1 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGATCATGTTCT
* * * * *
110500 TTAGTGGCATTTGTTGGAAAAGCGTCGCTAAAGACCACGTTCT
1 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGATCATGTTCT
* *
110543 TTAGTGGCATTTGTTGGAAAAG
1 TTAGCGGCATTTGTGGGAAAAG
110565 TGTCGTTAAA
Statistics
Matches: 163, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
43 160 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGATCATGTTCT
Found at i:110505 original size:129 final size:129
Alignment explanation
Indices: 110328--110576 Score: 286
Period size: 129 Copynumber: 1.9 Consensus size: 129
110318 TCTATTAATG
** * * *
110328 TTAGCGGGGTTTGTGAGAAAAACACCGCTAAAGAATATGTTCTATAGTGGCGTTTGTGGGAAAAA
1 TTAGCGGCATTTGTGAGAAAAACACCGCTAAAGAACACGTTCTATAGTGGCATTTGTGGGAAAAA
* ** * *
110393 TATCGCTAAATTCAATGTTCTTTAGCGGCGTTTG-TGGTAAAAGCGTCGTTAAAGATCATGTTTT
66 CATCGCTAAAGACAACGTTCTTTAGCGGCATTTGTTGG-AAAAGCGTCGTTAAAGATCATGTTTT
* * * * *
110457 TTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGACCACGTTCCT-TAGTGGCATTTGTTGGAAAA
1 TTAGCGGCATTTGTGAGAAAAACACCGCTAAAGAACACGTT-CTATAGTGGCATTTGTGGGAAAA
* * * * *
110521 GCGTCGCTAAAGACCACGTTCTTTAGTGGCATTTGTTGGAAAAGTGTCGTTAAAGA
65 ACATCGCTAAAGACAACGTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGTTAAAGA
110577 CCATTGTCTA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
129 93 0.95
130 5 0.05
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (129 bp):
TTAGCGGCATTTGTGAGAAAAACACCGCTAAAGAACACGTTCTATAGTGGCATTTGTGGGAAAAA
CATCGCTAAAGACAACGTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGTTAAAGATCATGTTTT
Found at i:110564 original size:86 final size:86
Alignment explanation
Indices: 110366--110579 Score: 241
Period size: 86 Copynumber: 2.5 Consensus size: 86
110356 TAAAGAATAT
* * * ** * * * *
110366 GTTCTATAGTGGCGTTTGTGGGAAAAATATCGCTAAATTCAATGTTCTTTAGCGGCGTTTGTGGT
1 GTTCTTTAGTGGCATTTGTGGGAAAAGTATCGCTAAAGACCACGTTCCTTAGCGGCATTTGTGGT
* * *
110431 AAAAGCGTCGTTAAAGATCAT
66 AAAAGCGTCGCTAAAGACCAC
* * * *
110452 GTTTTTTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGACCACGTTCCTTAGTGGCATTTGTTGG
1 GTTCTTTAGTGGCATTTGTGGGAAAAGTATCGCTAAAGACCACGTTCCTTAGCGGCATTTG-TGG
110517 -AAAAGCGTCGCTAAAGACCAC
65 TAAAAGCGTCGCTAAAGACCAC
* * *
110538 GTTCTTTAGTGGCATTTGTTGGAAAAGTGTCGTTAAAGACCA
1 GTTCTTTAGTGGCATTTGTGGGAAAAGTATCGCTAAAGACCA
110580 TTGTCTATAG
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
86 102 0.97
87 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (86 bp):
GTTCTTTAGTGGCATTTGTGGGAAAAGTATCGCTAAAGACCACGTTCCTTAGCGGCATTTGTGGT
AAAAGCGTCGCTAAAGACCAC
Found at i:110575 original size:43 final size:43
Alignment explanation
Indices: 110409--110579 Score: 218
Period size: 43 Copynumber: 4.0 Consensus size: 43
110399 TAAATTCAAT
* * * *
110409 GTTCTTTAGCGGCGTTTG-TGGTAAAAGCGTCGTTAAAGATCAT
1 GTTCTTTAGCGGCATTTGTTGG-AAAAGCGTCGCTAAAGACCAC
* * *
110452 GTTTTTTAGCGGCATTTGTGGGAAAAGCATCGCTAAAGACCAC
1 GTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGCTAAAGACCAC
* *
110495 GTTCCTTAGTGGCATTTGTTGGAAAAGCGTCGCTAAAGACCAC
1 GTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGCTAAAGACCAC
* * *
110538 GTTCTTTAGTGGCATTTGTTGGAAAAGTGTCGTTAAAGACCA
1 GTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGCTAAAGACCA
110580 TTGTCTATAG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
43 110 0.98
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GTTCTTTAGCGGCATTTGTTGGAAAAGCGTCGCTAAAGACCAC
Found at i:111586 original size:3 final size:3
Alignment explanation
Indices: 111578--111603 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
111568 ATATCCATAA
111578 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
111604 AAATCAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:114257 original size:35 final size:37
Alignment explanation
Indices: 114218--114294 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
114208 TTAATAATAA
*
114218 TAAAT-AATTTAATCATATT-TTAACATAATTATTAT
1 TAAATAAATTTAATAATATTCTTAACATAATTATTAT
* *
114253 TAAATACAATTTAATAATATTCTTAATATGATTATTAT
1 TAAATA-AATTTAATAATATTCTTAACATAATTATTAT
114291 TAAA
1 TAAA
114295 ATATGAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 5 0.14
37 13 0.36
38 18 0.50
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (37 bp):
TAAATAAATTTAATAATATTCTTAACATAATTATTAT
Found at i:114319 original size:39 final size:38
Alignment explanation
Indices: 114245--114319 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
114235 TTTTAACATA
* * *
114245 ATTATTATTAAATACAATTTAATAATATTCTTAATATG
1 ATTATTATTAAATACAATTTAATAAAAATCATAATATG
*
114283 ATTATTATTAAAATATGAA-TTAATAAAAATCATAATA
1 ATTATTATT-AAATA-CAATTTAATAAAAATCATAATA
114320 CATAATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 9 0.29
39 20 0.65
40 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (38 bp):
ATTATTATTAAATACAATTTAATAAAAATCATAATATG
Found at i:117948 original size:20 final size:20
Alignment explanation
Indices: 117923--117962 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
117913 AAAAAATAAT
* *
117923 ATTTTACAAGATGATAAATA
1 ATTTTACAAAATAATAAATA
*
117943 ATTTTATAAAATAATAAATA
1 ATTTTACAAAATAATAAATA
117963 TTATAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTTTACAAAATAATAAATA
Found at i:128611 original size:82 final size:80
Alignment explanation
Indices: 128471--128848 Score: 399
Period size: 82 Copynumber: 4.7 Consensus size: 80
128461 TAGTTCCTTT
* * * * * *
128471 AATTCATGGCACTTAGTGCCTAGTGGATAAACTGCAATAAGTGAGCCCACCTCAAGTTGGATTAA
1 AATTCCTGGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGATTAA
*
128536 CCAACGGTAGTTTCATC
66 CCAAC--TAATTTCATC
* * * *
128553 AATTCCTAGCACCTAGTGCCTAGCGGATAAACTGCGATAAGTAAGCCTAGTTCTAGTTGGATTAA
1 AATTCCTGGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGATTAA
* *
128618 CCAAGGGTAGTTTCATC
66 CCAA--CTAATTTCATC
* * * * * *
128635 AATTCTTGGGATCC-AGTGCCTAGAGGATAAATTGCAATAAGTGAGCACAGCTCTAGTTGGATTA
1 AATTCCTGGCA-CCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGATTA
* *
128699 ACCAACAAATCT-ATC
65 ACCAACTAATTTCATC
*
128714 AATTCTTGGCACGC-AGTGCCTAGCGGATAAA-TCGCAATAAGTAAGCCCAGCTCTAGTTGGATT
1 AATTCCTGGCAC-CTAGTGCCTAGCGGATAAACT-GCAATAAGTAAGCCCAGCTCTAGTTGGATT
* * *
128777 AACCAAC-AAATCCGTC
64 AACCAACTAATTTCATC
* * *
128793 AATTCCTGACACCTAGTGCCTAGCGGATAAACTACAA-AAGTGAGCCCAGCTCTAGT
1 AATTCCTGGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGT
128849 CAGTTGAACT
Statistics
Matches: 251, Mismatches: 37, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
78 23 0.09
79 97 0.39
80 4 0.02
82 125 0.50
83 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (80 bp):
AATTCCTGGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGATTAA
CCAACTAATTTCATC
Found at i:128774 original size:161 final size:163
Alignment explanation
Indices: 128485--128782 Score: 424
Period size: 161 Copynumber: 1.8 Consensus size: 163
128475 CATGGCACTT
* * * * *
128485 AGTGCCTAGTGGATAAACTGCAATAAGTGAGCCCACCTCAAGTTGGATTAACCAACGGTAGTTTC
1 AGTGCCTAGAGGATAAACTGCAATAAGTGAGCACACCTCAAGTTGGATTAACCAAC-GAAATCTC
* * *
128550 ATCAATTCCTAGCACCTAGTGCCTAGCGGATAAACTGCGATAAGTAAGCCTAGTTCTAGTTGGAT
65 ATCAATTCCTAGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGAT
128615 TAACCAAGGGTAGTTTCATCAATTCTTGGGATCC
130 TAACCAAGGGTAGTTTCATCAATTCTTGGGATCC
* * *
128649 AGTGCCTAGAGGATAAATTGCAATAAGTGAGCACAGCTCTAGTTGGATTAACCAAC-AAATCT-A
1 AGTGCCTAGAGGATAAACTGCAATAAGTGAGCACACCTCAAGTTGGATTAACCAACGAAATCTCA
* *
128712 TCAATTCTTGGCACGC-AGTGCCTAGCGGATAAA-TCGCAATAAGTAAGCCCAGCTCTAGTTGGA
66 TCAATTCCTAGCAC-CTAGTGCCTAGCGGATAAACT-GCAATAAGTAAGCCCAGCTCTAGTTGGA
128775 TTAACCAA
129 TTAACCAA
128783 CAAATCCGTC
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
160 1 0.01
161 63 0.53
162 4 0.03
164 51 0.43
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (163 bp):
AGTGCCTAGAGGATAAACTGCAATAAGTGAGCACACCTCAAGTTGGATTAACCAACGAAATCTCA
TCAATTCCTAGCACCTAGTGCCTAGCGGATAAACTGCAATAAGTAAGCCCAGCTCTAGTTGGATT
AACCAAGGGTAGTTTCATCAATTCTTGGGATCC
Found at i:136445 original size:82 final size:81
Alignment explanation
Indices: 136298--136606 Score: 317
Period size: 82 Copynumber: 3.8 Consensus size: 81
136288 TGTCATAGCC
* * * *
136298 TAATTCCGTCAATTCATGGCACCTAGTGCCTAG-CAAGTAAACCGCAATAAGTGAACCTAGCTCT
1 TAATTTCGTCAATTCATGGCACCTAGTGCCTAGTGAA-TAAACCGCAATAAGTGAGCCCAGCTCT
136362 AGTTGGATTAACCAATCG
65 AGTTGGATTAACCAA-CG
* * * * * *
136380 TACTTTTGTCAATTTC-TGGCACCGAGTGCCTAGTGGATAAACCACAATAAGTGAGCCCAGTTCT
1 TAATTTCGTCAA-TTCATGGCACCTAGTGCCTAGTGAATAAACCGCAATAAGTGAGCCCAGCTCT
*
136444 AGTTGGATTAACGAACG
65 AGTTGGATTAACCAACG
* * * * *
136461 ATAGTTTCGTCAATTCTTGGCACCTAGTGCCTAGCGAATTAACCGTAATAAGTGAG-CCATGCTC
1 -TAATTTCGTCAATTCATGGCACCTAGTGCCTAGTGAATAAACCGCAATAAGTGAGCCCA-GCTC
136525 TAGTTGGATTAACCAAC-
64 TAGTTGGATTAACCAACG
* * * * * *
136542 -AAATCCATCAATTTC-TGGCACCTAGTGCCTAGTGGATAAACTGCAA-AAGTGAGCCCAGCTTT
1 TAATTTCGTCAA-TTCATGGCACCTAGTGCCTAGTGAATAAACCGCAATAAGTGAGCCCAGCTCT
136604 AGT
65 AGT
136607 CAGTTGAACT
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
78 14 0.07
79 36 0.19
80 3 0.02
81 8 0.04
82 124 0.66
83 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (81 bp):
TAATTTCGTCAATTCATGGCACCTAGTGCCTAGTGAATAAACCGCAATAAGTGAGCCCAGCTCTA
GTTGGATTAACCAACG
Found at i:136622 original size:164 final size:163
Alignment explanation
Indices: 136304--136622 Score: 405
Period size: 164 Copynumber: 1.9 Consensus size: 163
136294 AGCCTAATTC
136304 CGTCAATTCATGGCACCTAGTGCCTAGCAAGTAAACCGCAATAAGTGAACCTAGCTCTAGTTGGA
1 CGTCAATTCATGGCACCTAGTGCCTAGCAAGTAAACCGCAATAAGTGAACCTAGCTCTAGTTGGA
** ***
136369 TTAACCAATCGTACTTTTGTCAATTTCTGGCACCGAGTGCCTAGTGGATAAACCACAATAAGTGA
66 TTAACCAATCG-AAATCCATCAATTTCTGGCACCGAGTGCCTAGTGGATAAACCACAATAAGTGA
* *
136434 GCCCAGTTCTAGTTGGATTAACGAACGATAGTTT
130 GCCCAGTTCTAGTTGAACTAACGAACGATAGTTT
* * * *
136468 CGTCAATTCTTGGCACCTAGTGCCTAGCGAA-TTAACCGTAATAAGTGAGCC-ATGCTCTAGTTG
1 CGTCAATTCATGGCACCTAGTGCCTAGC-AAGTAAACCGCAATAAGTGAACCTA-GCTCTAGTTG
* **
136531 GATTAACCAA-C-AAATCCATCAATTTCTGGCACCTAGTGCCTAGTGGATAAACTGCAA-AAGTG
64 GATTAACCAATCGAAATCCATCAATTTCTGGCACCGAGTGCCTAGTGGATAAACCACAATAAGTG
*
136593 AGCCCAGCTTTAGTCAGTTGAACTAACGAA
129 AGCCCAG--TT-CT-AGTTGAACTAACGAA
136623 TATTAAGTGA
Statistics
Matches: 134, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
160 12 0.09
161 38 0.28
162 2 0.01
163 3 0.02
164 77 0.57
165 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (163 bp):
CGTCAATTCATGGCACCTAGTGCCTAGCAAGTAAACCGCAATAAGTGAACCTAGCTCTAGTTGGA
TTAACCAATCGAAATCCATCAATTTCTGGCACCGAGTGCCTAGTGGATAAACCACAATAAGTGAG
CCCAGTTCTAGTTGAACTAACGAACGATAGTTT
Found at i:148938 original size:36 final size:36
Alignment explanation
Indices: 148889--148957 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
148879 ATAGGAAATT
* *
148889 TACTCCTAGTCGCCCTCTACT-TCTTATAATATAAAC
1 TACTCATAGTCGCCCACTACTCTC-TATAATATAAAC
*
148925 TACTCATATTCGCCCACTACTCTCTATAATATA
1 TACTCATAGTCGCCCACTACTCTCTATAATATA
148958 GAAAACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 27 0.93
37 2 0.07
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.36
Consensus pattern (36 bp):
TACTCATAGTCGCCCACTACTCTCTATAATATAAAC
Found at i:171499 original size:20 final size:20
Alignment explanation
Indices: 171470--171523 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
171460 TTGGAGCTGT
*
171470 GGTATAGATACTTGATAAAA
1 GGTATCGATACTTGATAAAA
* **
171490 GGTATCGATAATTTTTTAAAA
1 GGTATCGAT-ACTTGATAAAA
*
171511 GATATCGATACTT
1 GGTATCGATACTT
171524 TTTGTCATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
GGTATCGATACTTGATAAAA
Found at i:171511 original size:21 final size:21
Alignment explanation
Indices: 171485--171526 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
171475 AGATACTTGA
*
171485 TAAAAGGTATCGATAATTTTT
1 TAAAAGATATCGATAATTTTT
*
171506 TAAAAGATATCGATACTTTTT
1 TAAAAGATATCGATAATTTTT
171527 GTCATTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (21 bp):
TAAAAGATATCGATAATTTTT
Found at i:171884 original size:159 final size:159
Alignment explanation
Indices: 171595--171913 Score: 611
Period size: 159 Copynumber: 2.0 Consensus size: 159
171585 ATAAACTATC
*
171595 TATACTTAGATAAAGAGTATCGATACTCTTTGTCCTTGAGCAATTCCAACTTATTTGAAAATGGT
1 TATACTTAGATAAAGAGTATCGATACTCTTTGTCCTGGAGCAATTCCAACTTATTTGAAAATGGT
171660 TAAAACATATTTGAAAATGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAATTTGTTT
66 TAAAACATATTTGAAAATGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAATTTGTTT
171725 AACTTTACTTTTATTCAAAAACACTTTAA
131 AACTTTACTTTTATTCAAAAACACTTTAA
171754 TATACTTAGATAAAGAGTATCGATACTCTTTGTCCTGGAGCAATTCCAACTTATTTGAAAATGGT
1 TATACTTAGATAAAGAGTATCGATACTCTTTGTCCTGGAGCAATTCCAACTTATTTGAAAATGGT
*
171819 TAAACCATATTTGAAAATGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAATTTGTTT
66 TAAAACATATTTGAAAATGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAATTTGTTT
*
171884 AACTTTACTTTTATTCAAAAATACTTTAA
131 AACTTTACTTTTATTCAAAAACACTTTAA
171913 T
1 T
171914 TTGTTATATC
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 157 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (159 bp):
TATACTTAGATAAAGAGTATCGATACTCTTTGTCCTGGAGCAATTCCAACTTATTTGAAAATGGT
TAAAACATATTTGAAAATGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAATTTGTTT
AACTTTACTTTTATTCAAAAACACTTTAA
Found at i:172947 original size:26 final size:26
Alignment explanation
Indices: 172875--172947 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 26
172865 AACACAATTT
172875 TAAAA-AAAAATTAA-TAATAATAAA
1 TAAAATAAAAATTAATTAATAATAAA
*
172899 TAAAATAAAAATACAATTGTAATAAT-AA
1 TAAAATAAAAAT-TAA-T-TAATAATAAA
*
172927 TGATAATAAAAATTAATTAAT
1 T-AAAATAAAAATTAATTAAT
172948 TACGTAAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 5 0.12
25 6 0.15
26 6 0.15
27 1 0.03
28 5 0.12
29 17 0.43
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (26 bp):
TAAAATAAAAATTAATTAATAATAAA
Found at i:173163 original size:21 final size:18
Alignment explanation
Indices: 173137--173184 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
173127 TATAAATGGC
173137 ATAAAAATAGCAAATAAATAA
1 ATAAAAATA-CAAAT-AAT-A
173158 ATAAAATAATACAAATAATA
1 AT-AAA-AATACAAATAATA
173178 ATAAAAA
1 ATAAAAA
173185 AATAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 3 0.12
21 5 0.20
22 8 0.32
23 4 0.16
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
ATAAAAATACAAATAATA
Found at i:173350 original size:6 final size:5
Alignment explanation
Indices: 173321--173367 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
173311 GTACAAACTA
* *
173321 AAAAT AGAAAT AAAAT AAAAT AAAACT AAATT AAAAT AAAAT GAAAT
1 AAAAT A-AAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT
173368 TACAAGGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 28 0.76
6 9 0.24
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:173368 original size:16 final size:15
Alignment explanation
Indices: 173321--173369 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
173311 GTACAAACTA
*
173321 AAAATAGAAATAAAAT
1 AAAATA-AAATAAATT
173337 AAAATAAAACTAAATT
1 AAAATAAAA-TAAATT
173353 AAAATAAAATGAAATT
1 AAAATAAAAT-AAATT
173369 A
1 A
173370 CAAGGACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (15 bp):
AAAATAAAATAAATT
Found at i:173451 original size:24 final size:24
Alignment explanation
Indices: 173419--173464 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
173409 TGTCATTCCC
*
173419 TAAAAGGTGAAATGAAATTAAAAT
1 TAAAAGGTGAAATGAAAATAAAAT
173443 TAAAAGGTGAAATGAAAATAAA
1 TAAAAGGTGAAATGAAAATAAA
173465 TAAAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (24 bp):
TAAAAGGTGAAATGAAAATAAAAT
Found at i:173471 original size:24 final size:24
Alignment explanation
Indices: 173420--173470 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
173410 GTCATTCCCT
* *
173420 AAAAGGTGAAATGAAATTAAAATT
1 AAAAGGTGAAATGAAAATAAAATA
173444 AAAAGGTGAAATGAAAAT-AAATA
1 AAAAGGTGAAATGAAAATAAAATA
173467 AAAA
1 AAAA
173471 ATGAAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.20
Consensus pattern (24 bp):
AAAAGGTGAAATGAAAATAAAATA
Found at i:174454 original size:19 final size:19
Alignment explanation
Indices: 174427--174463 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
174417 GTAAAAATTA
174427 GGTTGGAATATTGGGTTTG
1 GGTTGGAATATTGGGTTTG
*
174446 GGTTTGAATATTGGGTTT
1 GGTTGGAATATTGGGTTT
174464 TGCATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (19 bp):
GGTTGGAATATTGGGTTTG
Found at i:181470 original size:34 final size:34
Alignment explanation
Indices: 181405--181492 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
181395 TTAAATGAGT
* * *
181405 AAATCAATCCAACATACCAAGCACTCGTAAGAGC
1 AAATCCATCCAACACACCAAGCACTCATAAGAGC
* * * **
181439 TAGTCCCTCCAACACACCAAGTGCTCATAAGAGC
1 AAATCCATCCAACACACCAAGCACTCATAAGAGC
*
181473 AAATCCAACCAACACACCAA
1 AAATCCATCCAACACACCAA
181493 ATACACTGTA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.42, C:0.34, G:0.10, T:0.14
Consensus pattern (34 bp):
AAATCCATCCAACACACCAAGCACTCATAAGAGC
Found at i:183388 original size:17 final size:16
Alignment explanation
Indices: 183368--183412 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
183358 ATATTGACTA
183368 AACTATTATTATGC-ATG
1 AACTATTATT-T-CAATG
183385 AACTATTATTTCATATG
1 AACTATTATTTCA-ATG
183402 AACTATTATTT
1 AACTATTATTT
183413 TATGAGAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 24 0.92
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (16 bp):
AACTATTATTTCAATG
Found at i:184793 original size:81 final size:82
Alignment explanation
Indices: 184693--184855 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
184683 TTCTTTATAG
*
184693 AACAATCTAAGATTATAACAGATGGTTAGAGATT-ACAAAAAACTTTTTTCTATGTTTCTAGGTA
1 AACAATCTAAGATTATAACAGATGGTTAGAGATTAAAAAAAAACTTTTTTCTATGTTTCTAGGTA
184757 TATCCAACAAATGAAAT
66 TATCCAACAAATGAAAT
*
184774 AACAATCTAAGATTATAACAGATGGTTGGAGATTAAAAAAAAACTTTTTTCTATGTTTCTAGGTA
1 AACAATCTAAGATTATAACAGATGGTTAGAGATTAAAAAAAAACTTTTTTCTATGTTTCTAGGTA
184839 TATCCAACAAATGAAAT
66 TATCCAACAAATGAAAT
184856 TCCTCTTCTA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
81 33 0.42
82 46 0.58
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (82 bp):
AACAATCTAAGATTATAACAGATGGTTAGAGATTAAAAAAAAACTTTTTTCTATGTTTCTAGGTA
TATCCAACAAATGAAAT
Found at i:194233 original size:36 final size:37
Alignment explanation
Indices: 194137--194239 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 37
194127 ATTAAATTAT
* * *
194137 TTATATTTTATAATTTTTAAAAGATTAAATTAATTTTTA
1 TTATA-TTTAAAATTTTTAAAA-TTTAAATTAATTTTCA
* * * * * *
194176 TTATTTTTAAGAGTGTCAAAATTTAATTTAATTTTCA
1 TTATATTTAAAATTTTTAAAATTTAAATTAATTTTCA
194213 TTA-ATTTAAAATTTTTAAAATTTAAAT
1 TTATATTTAAAATTTTTAAAATTTAAAT
194240 GATTAAAATA
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 11 0.22
39 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (37 bp):
TTATATTTAAAATTTTTAAAATTTAAATTAATTTTCA
Found at i:206175 original size:156 final size:158
Alignment explanation
Indices: 205876--206196 Score: 403
Period size: 156 Copynumber: 2.0 Consensus size: 158
205866 ATTTTGGGAT
** * *
205876 TTACATGTTATATAGGTGCTAGTCTTAGATGTCCTACCGATGGTTGAGATTTGGCATTTGTTACG
1 TTACATGTTATATAGGTGCTAGTCTTAGATGTCCTACAAATGGCTGAGATTCGGCATTTGTTACG
* * **
205941 GATTCTCCATAGCACATGTGAGCAACATCGTGTAGCTTAAAATCTCGAACTACAGTTAGTGTGAG
66 GATTCTCCACAGCACATGTGAGCAACATCGTGTAGCTTAAAATCTCGAACCACAACTAGTGTGAG
*
206006 CAAGCCTACTTCACAACTCGTGTGAGCA
131 CAAGCCGACTTCACAACTCGTGTGAGCA
* * *
206034 TTACATGTTA-A-GGGTGCTGGTCTTAGATGTCCTACAAATGGCTGAGATTCGGCATTTGTTGCG
1 TTACATGTTATATAGGTGCTAGTCTTAGATGTCCTACAAATGGCTGAGATTCGGCATTTGTTACG
* * * ** * * * *
206097 GATTCTTCACAGCTCGTGTGAGCAGTATCGTGTAGCTTAACATCTCGACCCATAACTCGTGTGAG
66 GATTCTCCACAGCACATGTGAGCAACATCGTGTAGCTTAAAATCTCGAACCACAACTAGTGTGAG
* * *
206162 CAGGCCGATTTCACAGCTCGTGTGAGCA
131 CAAGCCGACTTCACAACTCGTGTGAGCA
*
206190 ATACATG
1 TTACATG
206197 ATACATGAAT
Statistics
Matches: 138, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
156 127 0.92
157 1 0.01
158 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (158 bp):
TTACATGTTATATAGGTGCTAGTCTTAGATGTCCTACAAATGGCTGAGATTCGGCATTTGTTACG
GATTCTCCACAGCACATGTGAGCAACATCGTGTAGCTTAAAATCTCGAACCACAACTAGTGTGAG
CAAGCCGACTTCACAACTCGTGTGAGCA
Found at i:208128 original size:18 final size:18
Alignment explanation
Indices: 208105--208139 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
208095 ATCAATGGTG
*
208105 CTCCAAGGGCGGCAACAC
1 CTCCAAGGGCGACAACAC
*
208123 CTCCAATGGCGACAACA
1 CTCCAAGGGCGACAACA
208140 AAGGGATCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.09
Consensus pattern (18 bp):
CTCCAAGGGCGACAACAC
Found at i:223007 original size:14 final size:14
Alignment explanation
Indices: 222988--223016 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
222978 TACAGAGTAA
222988 TCTCCGGAGTTTCC
1 TCTCCGGAGTTTCC
223002 TCTCCGGAGTTTCC
1 TCTCCGGAGTTTCC
223016 T
1 T
223017 TTTTGCTACA
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:0.07, C:0.34, G:0.21, T:0.38
Consensus pattern (14 bp):
TCTCCGGAGTTTCC
Found at i:226827 original size:24 final size:24
Alignment explanation
Indices: 226799--226849 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
226789 AGAAATAATC
* *
226799 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAGTTG
226823 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTGTTTAGTTG
226847 TTT
1 TTT
226850 GAGTCAAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAGTTG
Found at i:228822 original size:24 final size:23
Alignment explanation
Indices: 228780--228843 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
228770 AATCATTTAG
*
228780 TTAAACTCTATTTATTTGTTTCAA
1 TTAAACTCTA-TTAGTTGTTTCAA
* *
228804 TTAAACTCTGATTAGTTGTTTGAG
1 TTAAACTCT-ATTAGTTGTTTCAA
*
228828 TCAAACTCTTATTAGT
1 TTAAACTC-TATTAGT
228844 CTAAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (23 bp):
TTAAACTCTATTAGTTGTTTCAA
Found at i:229741 original size:20 final size:20
Alignment explanation
Indices: 229716--229755 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
229706 GAATATAATT
229716 ATATTG-TTTTATAAAAATAA
1 ATATTGATTTTA-AAAAATAA
229736 ATATTGATTTTAAAAAATAA
1 ATATTGATTTTAAAAAATAA
229756 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
ATATTGATTTTAAAAAATAA
Found at i:233367 original size:20 final size:20
Alignment explanation
Indices: 233342--233381 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
233332 ATTTTTTTTT
*
233342 TGAAAAAAATCAAATTCAAA
1 TGAAAAAAATAAAATTCAAA
* *
233362 TGAAAATATTAAAATTCAAA
1 TGAAAAAAATAAAATTCAAA
233382 ATAAAAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
TGAAAAAAATAAAATTCAAA
Found at i:240791 original size:49 final size:50
Alignment explanation
Indices: 240734--240831 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 50
240724 CAAATTTTTA
*
240734 ATTATGTG-TTTTGCTTGATTAAATGCATCTTTGTTT-AATGTTTTACATC
1 ATTATGTGTTTTTGCTTG-TTAAATGCATCTTTATTTAAATGTTTTACATC
*
240783 ATTATGTGTTTTTGTTTGTTAAATGCATCTTTATTTAAATGTTTTACAT
1 ATTATGTGTTTTTGCTTGTTAAATGCATCTTTATTTAAATGTTTTACAT
240832 TAATACAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 25 0.56
50 20 0.44
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.55
Consensus pattern (50 bp):
ATTATGTGTTTTTGCTTGTTAAATGCATCTTTATTTAAATGTTTTACATC
Found at i:240868 original size:60 final size:60
Alignment explanation
Indices: 240782--240897 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
240772 TGTTTTACAT
* * *
240782 CATTATGTGTTTTTGTTTGTTAAATGCATCTTTATTTAAATGTTTTACATTAATACAATTG
1 CATTATGTGTTCTTGTTTATTAAATGCATCTTTATTT-AATGTCTTACATTAATACAATTG
* *
240843 CATTATGTG-TCTTGTTTATTGAATGCATCTTTATTTAATGTCTTGCATTAATACA
1 CATTATGTGTTCTTGTTTATTAAATGCATCTTTATTTAATGTCTTACATTAATACA
240898 TTAGCATCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 17 0.34
60 24 0.48
61 9 0.18
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (60 bp):
CATTATGTGTTCTTGTTTATTAAATGCATCTTTATTTAATGTCTTACATTAATACAATTG
Found at i:242111 original size:28 final size:28
Alignment explanation
Indices: 242080--242142 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
242070 AAAATGTGAT
* *
242080 TTTTGGATACTCGGGGGTAAAATGGTAA
1 TTTTGGACACTCGAGGGTAAAATGGTAA
* *
242108 TTTTAGACACTCGAGGGTAAAATGGTAC
1 TTTTGGACACTCGAGGGTAAAATGGTAA
242136 TTTTGGA
1 TTTTGGA
242143 AAAAACGAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (28 bp):
TTTTGGACACTCGAGGGTAAAATGGTAA
Found at i:242202 original size:29 final size:28
Alignment explanation
Indices: 242170--242496 Score: 150
Period size: 29 Copynumber: 11.1 Consensus size: 28
242160 TAGAATGTTA
242170 GGAAGTTCGAGGGTAAAAATGTAATTTTT
1 GGAAGTTCGAGGGTAAAAATGTAA-TTTT
** *
242199 GGAAAAATCG-GGGTAAAAAATGGAATTTT
1 GG-AAGTTCGAGGGT-AAAAATGTAATTTT
* *
242228 GGAAAGTTTAGCGGGT-AAAATGGTAATTTT
1 GG-AAG-TTCGAGGGTAAAAAT-GTAATTTT
* *
242258 GGTGAAATT--AGGGTTAAAAATATAATTTT
1 -G-GAAGTTCGAGGG-TAAAAATGTAATTTT
* *
242287 GGAAAGTT-TAGGGGTAAAAAGGTAATTTTT
1 GG-AAGTTCGA-GGGTAAAAATGTAA-TTTT
* * *
242317 GGTGAAATT-GAGGTTAAAAATGGAATTTT
1 -G-GAAGTTCGAGGGTAAAAATGTAATTTT
* *
242346 GGAAAGTTCGGGGGT-AAAATGGTAGTTTTT
1 GG-AAGTTCGAGGGTAAAAAT-GTA-ATTTT
* * * *
242376 GGTGAA-ATCAAGGTTAAAAATGGAATTTT
1 -G-GAAGTTCGAGGGTAAAAATGTAATTTT
242405 GGAAAGTTCGAGGGTAAAAATGTAATTTTT
1 GG-AAGTTCGAGGGTAAAAATGTAA-TTTT
* * *
242435 GGTGAAATT-GAGGTTAAAAATGGAATTTT
1 -G-GAAGTTCGAGGGTAAAAATGTAATTTT
* * * *
242464 GAATAGTTTGAGGGTTAAAATTTAATTTT
1 GGA-AGTTCGAGGGTAAAAATGTAATTTT
242493 GGAA
1 GGAA
242497 AAGTTTAGTG
Statistics
Matches: 226, Mismatches: 43, Indels: 59
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.02
28 26 0.12
29 89 0.39
30 77 0.34
31 26 0.12
32 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.34
Consensus pattern (28 bp):
GGAAGTTCGAGGGTAAAAATGTAATTTT
Found at i:242214 original size:59 final size:58
Alignment explanation
Indices: 242118--242492 Score: 375
Period size: 59 Copynumber: 6.4 Consensus size: 58
242108 TTTTAGACAC
* ** * * * *
242118 TCGAGGGTAAAATGGT-ACTTTTGGAAAAAACGAGGTAAAAAATAGAATGTTAGG-AAGT
1 TCGAGGGTAAAAT-GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAAT-TTTGGAAAGT
** * *
242176 TCGAGGGTAAAAATGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGAAAGTT
1 TCGAGGGT-AAAATGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-T
* * * **
242236 TAGCGGGTAAAATGGTAA-TTTTGGTGAAAT-TAGGGTTAAAAATATAATTTTGGAAAGT
1 TCGAGGGTAAAAT-GTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGT
* * *
242294 T-TAGGGGTAAAAAGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGT
1 TCGA-GGGT-AAAATGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
* * *
242353 TCGGGGGTAAAATGGTAGTTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAAT-GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
*
242412 TCGAGGGTAAAAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTT-GAATAGT
1 TCGAGGGT-AAAATGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAA-AGT
* *
242471 TTGAGGGTTAAAATTTAATTTT
1 TCGAGGG-TAAAATGTAATTTT
242493 GGAAAAGTTT
Statistics
Matches: 270, Mismatches: 32, Indels: 29
0.82 0.10 0.09
Matches are distributed among these distances:
58 31 0.11
59 221 0.82
60 18 0.07
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (58 bp):
TCGAGGGTAAAATGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
Found at i:242278 original size:118 final size:117
Alignment explanation
Indices: 242122--242494 Score: 457
Period size: 118 Copynumber: 3.2 Consensus size: 117
242112 AGACACTCGA
* ** * * * *
242122 GGGTAAAATGGTACTTTTGGAAAAAACGAGGTAAAAAATAGAATGTTAGG-AAGTTCGAGGGTAA
1 GGGTAAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATAGAAT-TTTGGAAAGTTCGAGGGTAA
** * * *
242186 AAATGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGAAAGTTTAG
65 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
* * * *
242239 CGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATATAATTTTGGAAAGTT-TAGGGGTA
1 -GGGTAAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAGTTCGA-GGGTA
* **
242303 AAAAGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTCGG
64 AAAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
242357 GGGTAAAATGGTAGTTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAA
1 GGGTAAAATGGTA-ATTTTGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAA
242422 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTT-GAATAGTTTGAG
65 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAA-AGTTT-AG
* *
242476 GGTTAAAAT-TTAATTTTGG
1 GGGTAAAATGGTAATTTTGG
242495 AAAAGTTTAG
Statistics
Matches: 218, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
117 27 0.12
118 181 0.83
119 10 0.05
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (117 bp):
GGGTAAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAA
AATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTAG
Found at i:242480 original size:30 final size:29
Alignment explanation
Indices: 242387--242605 Score: 107
Period size: 30 Copynumber: 7.4 Consensus size: 29
242377 GTGAAATCAA
*
242387 GGTTAAAAATGGAATTTTGGAA-AGTTCGAG
1 GGTTAAAAATGGAATTTT-GAATAGTT-TAG
* *
242417 GG-TAAAAATGTAATTTTTGGTGAA-A-TTGA-
1 GGTTAAAAATGGAA--TTT--TGAATAGTTTAG
242446 GGTTAAAAATGGAATTTTGAATAGTTTGAG
1 GGTTAAAAATGGAATTTTGAATAGTTT-AG
** *
242476 GGTT-AAAATTTAATTTTGGAAAAGTTTAG
1 GGTTAAAAATGGAATTTT-GAATAGTTTAG
* * *
242505 TGTTTAAAATAT-G-ATGTTGGAAAAGTTTAG
1 -GGTTAAAA-ATGGAAT-TTTGAATAGTTTAG
* *
242535 GGTTTAAAATGTAATTTTGTAATAGTTTAGG
1 GGTTAAAAATGGAATTTTG-AATAGTTTA-G
*
242566 GGTTAAAATAT-G-ATCTTTGAAAAGTTTAG
1 GGTTAAAA-ATGGAAT-TTTGAATAGTTTAG
* *
242595 GGGTCAAAATG
1 GGTTAAAAATG
242606 TGATTTCTTG
Statistics
Matches: 149, Mismatches: 19, Indels: 43
0.71 0.09 0.20
Matches are distributed among these distances:
26 4 0.03
27 1 0.01
28 9 0.06
29 42 0.28
30 62 0.42
31 22 0.15
32 8 0.05
33 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (29 bp):
GGTTAAAAATGGAATTTTGAATAGTTTAG
Found at i:242514 original size:59 final size:57
Alignment explanation
Indices: 242172--242574 Score: 196
Period size: 59 Copynumber: 6.8 Consensus size: 57
242162 GAATGTTAGG
* * * *** **
242172 AAGTTCGAGGGTAAAAATGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGA
1 AAGTTTGAGGGTTAAAATGTAA-TTTTGGAAAAGTTTAGGTTTAAAATGGAATTTT-GA
* * * **
242231 AAGTTT-AGCGGGTAAAATGGTAATTTTGGTGAAA--TTAGGGTTAAAAATATAATTTTGGA
1 AAGTTTGAG-GGTTAAAAT-GTAATTTTGG-AAAAGTTTA-GGTTTAAAATGGAATTTT-GA
* * * * *
242290 AAGTTT-AGGGGTAAAAAGGTAATTTTTGGTGAAA-TTGAGGTTAAAAATGGAATTTTGGA
1 AAGTTTGA-GGGTTAAAATGTAA-TTTTGG-AAAAGTTTAGGTTTAAAATGGAATTTT-GA
* * * * ** *
242349 AAGTTCG-GGGGTAAAATGGTAGTTTTTGGTGAAA-TCAAGGTTAAAAATGGAATTTTGGA
1 AAGTTTGAGGGTTAAAAT-GTA-ATTTTGG-AAAAGTTTAGGTTTAAAATGGAATTTT-GA
* * * * *
242408 AAGTTCGAGGGTAAAAATGTAATTTTTGGTGAAA-TTGAGGTTAAAAATGGAATTTTGA
1 AAGTTTGAGGGTTAAAATGTAA-TTTTGG-AAAAGTTTAGGTTTAAAATGGAATTTTGA
* * *
242466 ATAGTTTGAGGGTTAAAATTTAATTTTGGAAAAGTTTAGTGTTTAAAATATG-ATGTTGGAA
1 A-AGTTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTAG-GTTTAAAAT-GGAAT-TTTG-A
* * *
242527 AAGTTT-AGGGTTTAAAATGTAATTTTGTAATAGTTTAGGGGTTAAAAT
1 AAGTTTGAGGG-TTAAAATGTAATTTTGGAAAAGTTTA-GGTTTAAAAT
242575 ATGATCTTTG
Statistics
Matches: 284, Mismatches: 40, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
57 3 0.01
58 26 0.09
59 194 0.68
60 58 0.20
61 3 0.01
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.35
Consensus pattern (57 bp):
AAGTTTGAGGGTTAAAATGTAATTTTGGAAAAGTTTAGGTTTAAAATGGAATTTTGA
Found at i:242514 original size:118 final size:118
Alignment explanation
Indices: 242122--242552 Score: 441
Period size: 118 Copynumber: 3.6 Consensus size: 118
242112 AGACACTCGA
* ** *** * *
242122 GGGTAAAATGGTACTTTTGGAAAAAACGAGGTAAAAAATAGAATGTTAGG-AAGTTCGAGGGTAA
1 GGGTAAAATGGTAATTTTGGTGAAATTTAGGTTAAAAATAGAAT-TTTGGAAAGTTCGAGGGTAA
** * * *
242186 AAATGTAATTTTTGGAAAAATCGGGGTAAAAAATGGAATTTTGGAAAGTTT-AG
65 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTGAG
* *
242239 CGGGTAAAATGGTAATTTTGGTGAAA-TTAGGGTTAAAAATATAATTTTGGAAAGTT-TAGGGGT
1 -GGGTAAAATGGTAATTTTGGTGAAATTTA-GGTTAAAAATAGAATTTTGGAAAGTTCGA-GGGT
* *
242302 AAAAAGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTCG-G
63 AAAAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTGAG
* ** *
242357 GGGTAAAATGGTAGTTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAA
1 GGGTAAAATGGTA-ATTTTGGTGAAATTTAGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAA
242422 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTT-GAATAGTTTGAG
65 AAATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAA-AGTTTGAG
* * * * * *
242476 GGTTAAAAT-TTAATTTTGG-AAAAGTTTAGTGTTTAAAATATG-ATGTTGGAAAAGTT-TAGGG
1 GGGTAAAATGGTAATTTTGGTGAAA-TTTAG-GTTAAAAATA-GAATTTTGG-AAAGTTCGAGGG
*
242537 TTTAAAATGTAATTTT
62 -TAAAAATGTAATTTT
242553 GTAATAGTTT
Statistics
Matches: 264, Mismatches: 35, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
116 3 0.01
117 31 0.12
118 198 0.75
119 32 0.12
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (118 bp):
GGGTAAAATGGTAATTTTGGTGAAATTTAGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAA
AATGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTGAG
Found at i:242527 original size:177 final size:177
Alignment explanation
Indices: 242156--242552 Score: 415
Period size: 177 Copynumber: 2.2 Consensus size: 177
242146 AACGAGGTAA
**
242156 AAAATA-GAATGTTAGG-AAGTTCGAGGGTAAAAATGTAATTTTTGGAAAAATCGGGGTAAAAAA
1 AAAATATGAATGTT-GGAAAGTTCGAGGGTAAAAATGTAATTTTTGGAAAAATCAAGGTAAAAAA
* *
242219 TGGAATTTTGGAAAGTTTAGCGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATATAAT
65 TGGAATTTTGGAAAGTTTAGAGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATAGAAT
*
242284 TTTGGAAAGTTTAGGGGTAAAAAGGTAATTTTTGGTGAAATTGAGGTT
130 TTTGGAAAGTTTAGGGGTAAAAAGGTAATTTTTGGTAAAATTGAGGTT
* * * ** *
242332 AAAA-ATGGAATTTTGGAAAGTTCGGGGGT-AAAATGGTAGTTTTTGGTGAAATCAAGGTTAAAA
1 AAAATAT-GAATGTTGGAAAGTTCGAGGGTAAAAAT-GTAATTTTTGGAAAAATCAAGGTAAAAA
* *
242395 ATGGAATTTTGGAAAG-TTCGAGGGTAAAAAT-GTAATTTTTGGTGAAATT-GAGGTTAAAAATG
64 ATGGAATTTTGGAAAGTTTAGAGGGT-AAAATGGTAA-TTTTGGTGAAATTAG-GGTTAAAAATA
* ** *
242457 GAATTTT-GAATAGTTT-GAGGGTTAAAATTTAA-TTTTGG-AAAAGTTTAGTGTTT
126 GAATTTTGGAA-AGTTTAG-GGGTAAAAAGGTAATTTTTGGTAAAA-TTGAG-G-TT
* *
242510 AAAATATG-ATGTTGGAAAAGTT-TAGGGTTTAAAATGTAATTTT
1 AAAATATGAATGTTGG-AAAGTTCGAGGG-TAAAAATGTAATTTT
242553 GTAATAGTTT
Statistics
Matches: 184, Mismatches: 21, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
175 4 0.02
176 37 0.20
177 115 0.62
178 21 0.11
179 7 0.04
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.35
Consensus pattern (177 bp):
AAAATATGAATGTTGGAAAGTTCGAGGGTAAAAATGTAATTTTTGGAAAAATCAAGGTAAAAAAT
GGAATTTTGGAAAGTTTAGAGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATAGAATT
TTGGAAAGTTTAGGGGTAAAAAGGTAATTTTTGGTAAAATTGAGGTT
Found at i:242542 original size:60 final size:59
Alignment explanation
Indices: 242468--242611 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
242458 AATTTTGAAT
* * * *
242468 AGTTTGAGGGTTAAAATTTAATTTTGGAAAAGTTTAGTGTTTAAAATATGATGTTGGAAA
1 AGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATATGATCTTGGAAA
* * *
242528 AGTTTAGGGTTTAAAATGTAATTTTGTAATAGTTTAGGGGTTAAAATATGATCTTTGAAA
1 AGTTTAGGG-TTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATATGATCTTGGAAA
* *
242588 AGTTTAGGGGTCAAAATGTGATTT
1 AGTTTA-GGGTTAAAATGTAATTT
242612 CTTGACTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
59 4 0.05
60 66 0.90
61 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.24, T:0.40
Consensus pattern (59 bp):
AGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATATGATCTTGGAAA
Found at i:242626 original size:90 final size:89
Alignment explanation
Indices: 242446--242609 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 89
242436 GTGAAATTGA
* * * *
242446 GGTTAAAAATGGAATTTTGAATAGTTTGAGGGTTAAAATTTAATTTTGGAAAAGTTTAGTGTTTA
1 GGTTAAAAATGGAATTTTGAATAGTTTGAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTCA
242511 AAATATGATGTTGGAAAAGTTTAG
66 AAATATGATGTTGGAAAAGTTTAG
* * *
242535 GGTTTAAAATGTAATTTTGTAATAGTTT-AGGGGTTAAAATATGATCTTT-GAAAAGTTTAGGGG
1 GGTTAAAAATGGAATTTTG-AATAGTTTGA-GGGTTAAAATATAAT-TTTGGAAAAGTTTAGGGG
*
242598 TCAAAATGTGAT
63 TCAAAATATGAT
242610 TTCTTGACTG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
89 18 0.28
90 43 0.67
91 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (89 bp):
GGTTAAAAATGGAATTTTGAATAGTTTGAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTCA
AAATATGATGTTGGAAAAGTTTAG
Found at i:243688 original size:3 final size:3
Alignment explanation
Indices: 243571--243672 Score: 100
Period size: 3 Copynumber: 33.0 Consensus size: 3
243561 TATTTCTTTT
*
243571 TTA TTA TTA TTAA ATA TTA -TA GTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
243617 TTA TGA TTA TTA TTA ATA CTA TTA TTA TTA TTGA -TA TTTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA
243663 TTAA TTA TTA
1 TT-A TTA TTA
243673 CTACTGTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
2 3 0.04
3 71 0.86
4 9 0.11
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:244446 original size:35 final size:34
Alignment explanation
Indices: 244405--244516 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 34
244395 TATAATAAGT
* *
244405 TTTAAATTTAAATATAAATCTAAATTTATATTAAA
1 TTTAAATTTAAA-ATAAATCTAAATTTAAAATAAA
* *
244440 TTTAAATTTTAAAACAAATTTAAATTTAAAATAAA
1 TTTAAA-TTTAAAATAAATCTAAATTTAAAATAAA
* * * **
244475 TTTATATTCAAAATAAATTTAACCTTAAAATAAA
1 TTTAAATTTAAAATAAATCTAAATTTAAAATAAA
244509 TTTTAAAT
1 -TTTAAAT
244517 GAGTTTAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
34 24 0.37
35 35 0.54
36 6 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTAAATTTAAAATAAATCTAAATTTAAAATAAA
Found at i:244452 original size:7 final size:6
Alignment explanation
Indices: 244405--244496 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
244395 TATAATAAGT
* * *
244405 TTTAAA TTTAAA TATAAA TCTAAA TTTATA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** * * * *
244453 -ACAAA TTTAAA TTTAAA -ATAAA TTTATA TTCAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
244497 CCTTAAAATA
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
5 14 0.22
6 44 0.69
7 6 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:244458 original size:29 final size:29
Alignment explanation
Indices: 244406--244461 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
244396 ATAATAAGTT
*
244406 TTAAATTTAAATATAAATCTAAATTTATA
1 TTAAATTTAAATATAAAACTAAATTTATA
*
244435 TTAAATTTAAATTTTAAAAC-AAATTTA
1 TTAAATTTAAA-TATAAAACTAAATTTA
244462 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAATTTAAATATAAAACTAAATTTATA
Found at i:244487 original size:17 final size:17
Alignment explanation
Indices: 244405--244516 Score: 125
Period size: 17 Copynumber: 6.4 Consensus size: 17
244395 TATAATAAGT
244405 TTTAAATTTAAATATAAA
1 TTTAAATTTAAA-ATAAA
* * *
244423 TCTAAATTTATATTAAA
1 TTTAAATTTAAAATAAA
*
244440 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
244458 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
244475 TTTATATTCAAAATAAA
1 TTTAAATTTAAAATAAA
**
244492 TTTAACCTTAAAATAAA
1 TTTAAATTTAAAATAAA
244509 TTTTAAAT
1 -TTTAAAT
244517 GAGTTTAGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
17 47 0.62
18 29 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:245304 original size:194 final size:193
Alignment explanation
Indices: 244836--245602 Score: 1104
Period size: 194 Copynumber: 3.9 Consensus size: 193
244826 CTATTTCTTA
* * *
244836 GTATCTTATCAGGAAGATGACCGCATCGA-TTGTTTCAATCCGCTTCTCTGTACCTAATCAGGAA
1 GTATCTCATCAGGAAGATGACCGCCTC-ACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAA
* * * * *
244900 GACGAATTTGGTCTACTTCTAAGTATTTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
65 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGCTTCG-CCCGCT
* * **
244965 CCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCCTGAGTTGGTATA
129 TCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTG-T----TC--GCATTGAGTTGGTATA
245030 CTTCTCT
187 CTTCTCT
* * *
245037 GTATATCATCAGGAAGATGATCGCCTCATTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
** * *
245102 GTGAATTTGATCCACTTCTCAGTATCTCATCAGAAAGCTAACCTTTTTATTGCTTCGCTCCGCTT
66 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGCTTCGC-CCGCTT
*
245167 CTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTTGTTCGCATTGAGTTGGTATACTTCTCT
130 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGAGTTGGTATACTTCTCT
* *
245231 GTATCTCACCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
* * * *
245296 ACGAATTTGGCCCACTTTTCAGTATCTCATCTGGAAGCTAACCTTTTTATTGCTTCTCCCCGCTT
66 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGCTTC-GCCCGCTT
* * *
245361 CTCAGTATCTCATTAGGAAGTTGGGGTTCGAAGATTTCTTCGCATTGAGTTGGTATACTTCTCT
130 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGAGTTGGTATACTTCTCT
*
245425 GTATCTCATCAGGAAGATGATCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
* **
245490 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGTTTCGCCTTACTT
66 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGCTTCGCC-CGCTT
* *
245555 ATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGTATTGA
130 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGA
245603 ACCTTGATTT
Statistics
Matches: 511, Mismatches: 51, Indels: 15
0.89 0.09 0.03
Matches are distributed among these distances:
193 2 0.00
194 356 0.70
195 1 0.00
196 2 0.00
200 3 0.01
201 147 0.29
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (193 bp):
GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATCAGGAAG
ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTGCTTCGCCCGCTTC
TCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGCATTGAGTTGGTATACTTCTCT
Found at i:245645 original size:395 final size:395
Alignment explanation
Indices: 244816--245655 Score: 1178
Period size: 395 Copynumber: 2.1 Consensus size: 395
244806 TTTGGTGTCG
* * * *
244816 TTGATTTGGTCTATTTCT-TAGTATCTTATCAGGAAGATGACCGCATCGA-TTGTTTCAATCCGC
1 TTGATTTGGTATACTTCTCT-GTATCTTATCAGGAAGATGACCACCTC-ACTTGTTTCAATCCGC
* * *
244879 TTCTCTGTACCTAATCAGGAAGACGAATTTGGTCTACTTCTAAGTATTTCATCAGGAAGCTAACC
64 TTCTCTGTACCTAATCAGGAAGACGAATTTGGCCCACTTCTAAGTATCTCATCAGGAAGCTAACC
*
244944 ATTTTATTGCTTCGACCTGCTCCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTCAC
129 ATTTTATTGCTTCGACCCGCTCCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCT---
* *
245009 ATCGAGCCCTGAGTTGGTATACTTCTCTGTATATCATCAGGAAGATGATCGCCTCATTTGTTTCA
191 ATC-AGCACTGAGTTGGTATACTTCTCTGTATATCATCAGGAAGATGATCGCCTCACTTGTTTCA
**
245074 ATCCGCTTCTCTGTACCTCATCAGGAAGGTGAATTTGATCCACTTCTCAGTATCTCATCAGAAAG
255 ATCCGCTTCTCTGTACCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGAAAG
* * *
245139 CTAACCTTTTTATTGCTTCGCTCCGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTT
320 CTAACCTTTTTATTGCTTCGCTCCACTTATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTT
245204 GTTCGCATTGA
385 GTTCGCATTGA
* *
245215 --G--TTGGTATACTTCTCTGTATCTCACCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTT
1 TTGATTTGGTATACTTCTCTGTATCTTATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTT
* * * * *
245276 CTCTGTACCTCATCAGGAAGACGAATTTGGCCCACTTTTCAGTATCTCATCTGGAAGCTAACCTT
66 CTCTGTACCTAATCAGGAAGACGAATTTGGCCCACTTCTAAGTATCTCATCAGGAAGCTAACCAT
** * * * *
245341 TTTATTGCTTCTCCCCGCTTCTCAGTATCTCATTAGGAAGTTGGGGTTCGAAGATTT-CT-TC-G
131 TTTATTGCTTCGACCCGCTCCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTATCAG
* *
245403 CATTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCACTTGTTTCAATCCGC
196 CACTGAGTTGGTATACTTCTCTGTATATCATCAGGAAGATGATCGCCTCACTTGTTTCAATCCGC
* *
245468 TTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC
261 TTCTCTGTACCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGAAAGCTAACC
* *
245533 TTTTTATTGTTTCGC-CTTACTTATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCG
326 TTTTTATTGCTTCGCTC-CACTTATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCG
*
245597 TATTGAA
390 CATTG-A
* * *
245604 CCTTGATTTGGTATACTTCTCTGTATCTTGTCATGAAGATGATCACCTCACT
1 --TTGATTTGGTATACTTCTCTGTATCTTATCAGGAAGATGACCACCTCACT
245656 CTTTGCGGAT
Statistics
Matches: 391, Mismatches: 40, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
387 1 0.00
388 184 0.47
389 1 0.00
390 2 0.01
393 1 0.00
394 3 0.01
395 197 0.50
396 1 0.00
397 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (395 bp):
TTGATTTGGTATACTTCTCTGTATCTTATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTT
CTCTGTACCTAATCAGGAAGACGAATTTGGCCCACTTCTAAGTATCTCATCAGGAAGCTAACCAT
TTTATTGCTTCGACCCGCTCCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGATTTGCTATCAG
CACTGAGTTGGTATACTTCTCTGTATATCATCAGGAAGATGATCGCCTCACTTGTTTCAATCCGC
TTCTCTGTACCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCTCATCAGAAAGCTAACC
TTTTTATTGCTTCGCTCCACTTATCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCGC
ATTGA
Found at i:257093 original size:27 final size:28
Alignment explanation
Indices: 257063--257124 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
257053 AAAATGTGAT
* *
257063 TTTTGGATAC-CGGGGGCAAAATGGTAA
1 TTTTGGATACTCGAGGGAAAAATGGTAA
*
257090 TTTTAGATACTCGAGGGAAAAATGGTAA
1 TTTTGGATACTCGAGGGAAAAATGGTAA
257118 TTTTGGA
1 TTTTGGA
257125 AAAATTATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (28 bp):
TTTTGGATACTCGAGGGAAAAATGGTAA
Found at i:257169 original size:29 final size:27
Alignment explanation
Indices: 257137--257547 Score: 104
Period size: 30 Copynumber: 14.0 Consensus size: 27
257127 AATTATGGTC
*
257137 AAAAATAGAATTTTAGGAAGTTTGGGGGT
1 AAAAAT-GAATTTT-GGAAGTTTGAGGGT
** *
257166 AAAAATGTAATTTTTGGAAAATTGAGGTT
1 AAAAATG-AA-TTTTGGAAGTTTGAGGGT
*
257195 AAAAATGGAATTTTGGAAAGTTTTAGGGT
1 AAAAAT-GAATTTTGG-AAGTTTGAGGGT
* *
257224 -AAAATGGTAATTTTGGTGAA--ATCAGGGT
1 AAAAAT-G-AATTTT-G-GAAGTTTGAGGGT
* *
257252 AAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 -AAAAAT-GAATTTTGG-AAGTTTGAGGGT
* * *
257282 -AAAATAGTAATTTTTGGTGAA-ATCGAGGTT
1 AAAAAT-G-AA-TTTT-G-GAAGTTTGAGGGT
*
257312 AAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAAAT-GAATTTTGG-AAGTTTGAGGGT
* ** *
257341 AAAAATGTAATTTTTGGGGAA-ATCAAGGCT
1 AAAAATG-AA-TTTT--GGAAGTTTGAGGGT
* *
257371 AAAAATGGAATTTTGAAAAATTT-AGGGGT
1 AAAAAT-GAATTTTG-GAAGTTTGA-GGGT
*
257400 AAAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAAATG-AATTTTGG--AAGTTTGAGGG-T
* *
257431 AAAATAT-TATTTTGGAAATGTTTAAGGGT
1 AAAA-ATGAATTTTGG-AA-GTTTGAGGGT
* * *
257460 TATAATGTAATTTTGGAAAAGTTTAAGGGT
1 AAAAATG-AATTTTGG--AAGTTTGAGGGT
* *
257490 CAAAATATG-ATTTTGGAAAAATTTAAGGGT
1 -AAAA-ATGAATTTTGG--AAGTTTGAGGGT
*
257520 CAAAATGAGATTTTTGGACAGTTT-AGGG
1 AAAAATGA-A-TTTTGGA-AGTTTGAGGG
257548 ACCTCCAGGG
Statistics
Matches: 300, Mismatches: 39, Indels: 86
0.71 0.09 0.20
Matches are distributed among these distances:
27 3 0.01
28 42 0.14
29 102 0.34
30 115 0.38
31 30 0.10
32 8 0.03
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.34
Consensus pattern (27 bp):
AAAAATGAATTTTGGAAGTTTGAGGGT
Found at i:257179 original size:58 final size:59
Alignment explanation
Indices: 257107--257419 Score: 304
Period size: 59 Copynumber: 5.4 Consensus size: 59
257097 TACTCGAGGG
* *
257107 AAAAATGGTAA-TTTTGGAAAAATTATGGTCAAAAATAGAATTTTAGG-AAGTTTGGGGGT
1 AAAAATGGTAATTTTTGGAAAAATCA-GGTCAAAAATGGAATTTT-GGAAAGTTTGGGGGT
* * * **
257166 AAAAAT-GTAATTTTTGGAAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTTAGGGT
1 AAAAATGGTAATTTTTGGAAAAATCAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
** * *
257224 -AAAATGGTAA-TTTTGGTGAAATCAGGGTAAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAAATGGTAATTTTTGGAAAAATCA-GGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
* ** * * *
257282 -AAAATAGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAAATGGTAATTTTTGGAAAAATC-AGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
** * * *
257341 AAAAAT-GTAATTTTTGGGGAAATCAAGG-CTAAAAATGGAATTTTGAAAAATTTAGGGGT
1 AAAAATGGTAATTTTTGGAAAAATC-AGGTC-AAAAATGGAATTTTGGAAAGTTTGGGGGT
257400 AAAAAT-GTAA-TTTTGGAAAA
1 AAAAATGGTAATTTTTGGAAAA
257420 GTTTAAGGGT
Statistics
Matches: 219, Mismatches: 27, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
57 17 0.08
58 80 0.37
59 116 0.53
60 6 0.03
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (59 bp):
AAAAATGGTAATTTTTGGAAAAATCAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
Found at i:257260 original size:30 final size:28
Alignment explanation
Indices: 257100--257415 Score: 171
Period size: 29 Copynumber: 10.9 Consensus size: 28
257090 TTTTAGATAC
*
257100 TCGAGGG-AAAAATGGTAATTTTGGAAAAA
1 TCGAGGGTAAAAATGG-AATTTTGG-GAAA
* * * * *
257129 T-TATGGTCAAAAATAGAATTTTAGGAAGT
1 TCGAGGGT-AAAAATGGAATTTTGGGAA-A
* * * *
257158 TTGGGGGTAAAAATGTAATTTTTGGAAAA
1 TCGAGGGTAAAAATGGAA-TTTTGGGAAA
* *
257187 TTGAGGTTAAAAATGGAATTTT-GGAAA
1 TCGAGGGTAAAAATGGAATTTTGGGAAA
**
257214 GTTTTAGGGT-AAAATGGTAATTTTGGTGAAA
1 --TCGAGGGTAAAAATGG-AATTTTGG-GAAA
257245 TC-AGGGTAAAAAATGGAATTTT-GGAAA
1 TCGAGGGT-AAAAATGGAATTTTGGGAAA
* *
257272 GTTCGGGGGT-AAAATAGTAATTTTTGGTGAAA
1 --TCGAGGGTAAAAAT-GGAA-TTTTGG-GAAA
*
257304 TCGAGGTTAAAAATGGAATTTT-GGAAA
1 TCGAGGGTAAAAATGGAATTTTGGGAAA
*
257331 GTTCGAGGGTAAAAATGTAATTTTTGGGGAAA
1 --TCGAGGGTAAAAATGGAA-TTTT-GGGAAA
* * **
257363 TCAAGGCTAAAAATGGAATTTTGAAAAA
1 TCGAGGGTAAAAATGGAATTTTGGGAAA
** *
257391 TTTAGGGGTAAAAATGTAATTTTGG
1 TCGA-GGGTAAAAATGGAATTTTGG
257416 AAAAGTTTAA
Statistics
Matches: 223, Mismatches: 38, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
27 12 0.05
28 34 0.15
29 97 0.43
30 61 0.27
31 10 0.04
32 9 0.04
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.32
Consensus pattern (28 bp):
TCGAGGGTAAAAATGGAATTTTGGGAAA
Found at i:257435 original size:30 final size:30
Alignment explanation
Indices: 257162--257526 Score: 197
Period size: 30 Copynumber: 12.4 Consensus size: 30
257152 GGAAGTTTGG
* *
257162 GGGTAAAAATGTAATTTTTGGAAAA--TTGA
1 GGGTTAAAATGTAA-TTTTGGAAAAGTTTAA
* *
257191 -GGTTAAAAATGGAATTTTGG-AAAGTTTTA
1 GGGTT-AAAATGTAATTTTGGAAAAGTTTAA
* *
257220 GGG-TAAAATGGTAATTTTGGTGAAA---TCA
1 GGGTTAAAAT-GTAATTTTGG-AAAAGTTTAA
* * **
257248 GGGTAAAAAATGGAATTTTGG-AAAG-TTCG
1 GGGT-TAAAATGTAATTTTGGAAAAGTTTAA
* * **
257277 GGGGTAAAATAGTAATTTTTGGTGAAA--TCGA
1 GGGTTAAAAT-GTAA-TTTTGG-AAAAGTTTAA
* **
257308 -GGTTAAAAATGGAATTTTGG-AAAGTTCGA
1 GGGTT-AAAATGTAATTTTGGAAAAGTTTAA
* * *
257337 GGGTAAAAATGTAATTTTTGGGGAAA--TCAA
1 GGGTTAAAATGTAA-TTTT-GGAAAAGTTTAA
* * * * *
257367 GGCTAAAAATGGAATTTT-GAAAAATTTAG
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAA
*
257396 GGGTAAAAATGTAATTTTGGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAA
* * *
257426 GGGTTAAAATATTATTTTGGAAATGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAA
*
257456 GGGTTATAATGTAATTTTGGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAA
* * * *
257486 GGGTCAAAATATGATTTTGGAAAAATTTAA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAA
*
257516 GGGTCAAAATG
1 GGGTTAAAATG
257527 AGATTTTTGG
Statistics
Matches: 269, Mismatches: 42, Indels: 49
0.75 0.12 0.14
Matches are distributed among these distances:
27 13 0.05
28 24 0.09
29 78 0.29
30 137 0.51
31 11 0.04
32 6 0.02
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.33
Consensus pattern (30 bp):
GGGTTAAAATGTAATTTTGGAAAAGTTTAA
Found at i:257435 original size:59 final size:59
Alignment explanation
Indices: 257161--257537 Score: 244
Period size: 59 Copynumber: 6.4 Consensus size: 59
257151 AGGAAGTTTG
* **
257161 GGGGTAAAAATGTAATTTTTGGAAAATTGA-GGTTAAAAATGGAATTTTGGAAAGTTTTA
1 GGGGTAAAAATGTAATTTTTGGAAAATTAAGGGTT-AAAATGGAATTTTGGAAAAATTTA
* * * * **
257220 -GGGT-AAAATGGTAA-TTTTGGTGAAA-TCAGGGTAAAAAATGGAATTTTGG-AAAGTTCG
1 GGGGTAAAAAT-GTAATTTTTGG-AAAATTAAGGGT-TAAAATGGAATTTTGGAAAAATTTA
* ** * *
257277 GGGGT-AAAATAGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGG--AAAGTTC
1 GGGGTAAAAAT-GTAATTTTTGG-AAAATTAAGGGTT-AAAATGGAATTTTGGAAAAATTTA
* * * *
257335 GAGGGTAAAAATGTAATTTTTGGGGAAATCAAGGCTAAAAATGGAATTTT-GAAAAATTTA
1 G-GGGTAAAAATGTAATTTTT-GGAAAATTAAGGGTTAAAATGGAATTTTGGAAAAATTTA
*** **
257395 GGGGTAAAAATGTAA-TTTTGGAAAAGTTTAAGGGTTAAAATATTATTTTGGAAATGTTTA
1 GGGGTAAAAATGTAATTTTTGGAAAA--TTAAGGGTTAAAATGGAATTTTGGAAAAATTTA
* * * * *
257455 AGGGTTATAATGTAA-TTTTGGAAAAGTTTAAGGGTCAAAATATG-ATTTTGGAAAAATTTA
1 GGGGTAAAAATGTAATTTTTGGAAAA--TTAAGGGTTAAAAT-GGAATTTTGGAAAAATTTA
* *
257515 AGGGTCAAAATG-AGATTTTTGGA
1 GGGGTAAAAATGTA-ATTTTTGGA
257538 CAGTTTAGGG
Statistics
Matches: 259, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
57 22 0.08
58 51 0.20
59 93 0.36
60 86 0.33
61 7 0.03
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (59 bp):
GGGGTAAAAATGTAATTTTTGGAAAATTAAGGGTTAAAATGGAATTTTGGAAAAATTTA
Found at i:258676 original size:3 final size:3
Alignment explanation
Indices: 258638--258753 Score: 74
Period size: 3 Copynumber: 37.0 Consensus size: 3
258628 GATTTCTTTT
* * *
258638 TTA TTT TTA TTAA ATA TTA TTAA ATA TTA -TA GTTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA
* * * *
258685 TTA TTA TTA TTA ATA CTA TTA TAA TTA TTGA -TA TTTA TTA TTG TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TT-A
* *
258732 TTA TTA CTA CTTT TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA
258754 ATGTCTTTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
2 3 0.03
3 72 0.83
4 12 0.14
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:258748 original size:23 final size:23
Alignment explanation
Indices: 258673--258755 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
258663 ATTATAGTTA
258673 TTATTATTATT-ATTATT-ATTAT
1 TTATTATTATTAATTATTGA-TAT
*
258695 TAATACTATTA-TAATTATTGATAT
1 T--TATTATTATTAATTATTGATAT
*
258719 TTATTATTGTTAATTATT-ACTACT
1 TTATTATTATTAATTATTGA-TA-T
258743 TT-TTATTATTAAT
1 TTATTATTATTAAT
258756 GTCTTTATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
22 8 0.16
23 21 0.42
24 20 0.40
25 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATTATTAATTATTGATAT
Found at i:259503 original size:35 final size:34
Alignment explanation
Indices: 259462--259568 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 34
259452 TATAATAAGT
* * *
259462 TTTAAATTTAAATATAAATCTCAATTTATATTAAA
1 TTTAAATTTAAA-ATAAATCTAAATTTAAAATAAA
* *
259497 TTTAAATTTTAAAACAAATTTAAATTTAAAATAAA
1 TTTAAA-TTTAAAATAAATCTAAATTTAAAATAAA
* * * **
259532 TTTATATTCAAAATAAATTTAACCTTAAAATAAA
1 TTTAAATTTAAAATAAATCTAAATTTAAAATAAA
259566 TTT
1 TTT
259569 TGAAATGAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 27 0.44
35 28 0.46
36 6 0.10
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTAAATTTAAAATAAATCTAAATTTAAAATAAA
Done.