Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 17
Found at i:106361 original size:17 final size:17
Alignment explanation
Indices: 106335--106404 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
106325 AAATTGTTAA
* *
106335 ATTAATTATATTTGAAT
1 ATTAAATATATTTAAAT
106352 ATTAAATATATTTAAAT
1 ATTAAATATATTTAAAT
* * *
106369 A-TATTATGTAATTAAAT
1 ATTA-AATATATTTAAAT
*
106386 ATTAATTATATTTAAAT
1 ATTAAATATATTTAAAT
106403 AT
1 AT
106405 GTTATATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.90
18 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAAATATATTTAAAT
Found at i:106371 original size:27 final size:27
Alignment explanation
Indices: 106336--106387 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
106326 AATTGTTAAA
*
106336 TTAATTATATT-TGAATATTAAATATAT
1 TTAAATATATTATGAA-ATTAAATATAT
*
106363 TTAAATATATTATGTAATTAAATAT
1 TTAAATATATTATGAAATTAAATAT
106388 TAATTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
TTAAATATATTATGAAATTAAATATAT
Found at i:106411 original size:15 final size:15
Alignment explanation
Indices: 106339--106412 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 15
106329 TGTTAAATTA
*
106339 ATTATATTTGAATATT
1 ATTATATTTAAATA-T
*
106355 AAATATATTTAAATAT
1 -ATTATATTTAAATAT
*
106371 ATTATGTAATTAAATATT
1 ATTA--TATTTAAATA-T
106389 AATTATATTTAAATAT
1 -ATTATATTTAAATAT
*
106405 GTTATATT
1 ATTATATT
106413 ATGTTTATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 30 0.64
18 1 0.02
19 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATATTTAAATAT
Found at i:106693 original size:31 final size:30
Alignment explanation
Indices: 106658--106728 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 30
106648 AACACATGTT
106658 TTTTTAAATAATTACTGAAATAGAAATATAA
1 TTTTT-AATAATTACTGAAATAGAAATATAA
*
106689 -TTTT--TAATTATTGAAATAGAAATATAA
1 TTTTTAATAATTACTGAAATAGAAATATAA
106716 TTTTTAATTAATT
1 TTTTTAA-TAATT
106729 TATTTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 22 0.63
28 4 0.11
30 4 0.11
31 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTTTAATAATTACTGAAATAGAAATATAA
Found at i:106697 original size:27 final size:27
Alignment explanation
Indices: 106666--106725 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
106656 TTTTTTTAAA
106666 TAATTACTGAAATAGAAATATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
*
106693 TAATTATTGAAATAGAAATATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
106720 TAATTA
1 TAATTA
106726 ATTTATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (27 bp):
TAATTACTGAAATAGAAATATAATTTT
Found at i:107318 original size:28 final size:28
Alignment explanation
Indices: 107278--107333 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
107268 ATAAATTTTC
107278 AATGATGGGAAACTTAAGCACCAGTTGA
1 AATGATGGGAAACTTAAGCACCAGTTGA
107306 AATGATGGGAAACTTAAGCACCAGTTGA
1 AATGATGGGAAACTTAAGCACCAGTTGA
107334 TGGTGAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (28 bp):
AATGATGGGAAACTTAAGCACCAGTTGA
Found at i:109962 original size:21 final size:20
Alignment explanation
Indices: 109936--110014 Score: 77
Period size: 21 Copynumber: 3.9 Consensus size: 20
109926 CTAACCCTCG
*
109936 ATTGTATCGATACATGTTGAA
1 ATTGTATCGATACAT-TTAAA
* *
109957 ATTGTATTGATACATTTTAAG
1 ATTGTATCGATACA-TTTAAA
* * **
109978 ATTGGATCGATACCTCAAAA
1 ATTGTATCGATACATTTAAA
109998 ATTGTATCGATACATTT
1 ATTGTATCGATACATTT
110015 GGCCCAACGG
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
20 16 0.36
21 27 0.61
22 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (20 bp):
ATTGTATCGATACATTTAAA
Found at i:119882 original size:2 final size:2
Alignment explanation
Indices: 119875--119927 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
119865 TCTTATTATT
*
119875 TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119915 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
119928 CAATGGAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:122613 original size:23 final size:25
Alignment explanation
Indices: 122587--122649 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 25
122577 GTGGTATCAG
*
122587 ATTATATTTAAATT-GTTATA-TTA
1 ATTATATTTAAATTAATTATATTTA
122610 ATTATATTTGAATATTAATTATATTTA
1 ATTATATTT-AA-ATTAATTATATTTA
*
122637 AATATATTTAAAT
1 ATTATATTTAAAT
122650 ATATTATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 9 0.26
24 2 0.06
25 5 0.15
26 7 0.21
27 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
ATTATATTTAAATTAATTATATTTA
Found at i:122626 original size:17 final size:17
Alignment explanation
Indices: 122604--122685 Score: 74
Period size: 17 Copynumber: 5.2 Consensus size: 17
122594 TTAAATTGTT
*
122604 ATATTAATTATATTTGA
1 ATATTAATTATATTTAA
122621 ATATTAATTATATTTAA
1 ATATTAATTATATTTAA
122638 ATA-T-ATT-TA---AA
1 ATATTAATTATATTTAA
122649 TATATT-ATGTA-A-TTAA
1 -ATATTAAT-TATATTTAA
122665 ATATTAATTATATTTAA
1 ATATTAATTATATTTAA
122682 ATAT
1 ATAT
122686 GTTATATTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
11 2 0.04
12 3 0.05
13 3 0.05
14 4 0.07
15 10 0.18
16 6 0.11
17 27 0.49
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATATTAATTATATTTAA
Found at i:122642 original size:10 final size:10
Alignment explanation
Indices: 122624--122654 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
122614 TATTTGAATA
*
122624 TTAATTATAT
1 TTAAATATAT
122634 TTAAATATAT
1 TTAAATATAT
122644 TTAAATATAT
1 TTAAATATAT
122654 T
1 T
122655 ATGTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TTAAATATAT
Found at i:122682 original size:34 final size:33
Alignment explanation
Indices: 122625--122690 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
122615 ATTTGAATAT
*
122625 TAATTATATTTAAATATATTTAAATATATTATG
1 TAATTAAATTTAAATATATTTAAATATATTATG
* *
122658 TAATTAAATATTAATTATATTTAAATATGTTAT
1 TAATTAAAT-TTAAATATATTTAAATATATTAT
122691 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TAATTAAATTTAAATATATTTAAATATATTATG
Found at i:122692 original size:15 final size:15
Alignment explanation
Indices: 122639--122693 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
122629 TATATTTAAA
122639 TATATTTAAATATAT
1 TATATTTAAATATAT
*
122654 TATGTAATTAAATATTAAT
1 TA--TATTTAAATA-T-AT
*
122673 TATATTTAAATATGT
1 TATATTTAAATATAT
122688 TATATT
1 TATATT
122694 ATTTTTATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.27
16 1 0.03
17 18 0.55
18 1 0.03
19 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
TATATTTAAATATAT
Found at i:122722 original size:26 final size:26
Alignment explanation
Indices: 122693--122757 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
122683 TATGTTATAT
122693 TATTTTTATCAAATACACCAAACATG
1 TATTTTTATCAAATACACCAAACATG
122719 TATTTTTATCAAATACACCAAACATG
1 TATTTTTATCAAATACACCAAACATG
*
122745 TATTTGTATCAAA
1 TATTTTTATCAAA
122758 ATTTTGACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (26 bp):
TATTTTTATCAAATACACCAAACATG
Found at i:123000 original size:31 final size:30
Alignment explanation
Indices: 122965--123035 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 30
122955 AACACATGTT
*
122965 TTTTTAAATAATTACTGAAATAGAACTATAA
1 TTTTT-AATAATTACTGAAATAGAAATATAA
*
122996 -TTTT--TAATTATTGAAATAGAAATATAA
1 TTTTTAATAATTACTGAAATAGAAATATAA
123023 TTTTTAATTAATT
1 TTTTTAA-TAATT
123036 TATTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
27 21 0.62
28 4 0.12
30 4 0.12
31 5 0.15
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTTTAATAATTACTGAAATAGAAATATAA
Found at i:123004 original size:27 final size:27
Alignment explanation
Indices: 122973--123032 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
122963 TTTTTTTAAA
*
122973 TAATTACTGAAATAGAACTATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
*
123000 TAATTATTGAAATAGAAATATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
123027 TAATTA
1 TAATTA
123033 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (27 bp):
TAATTACTGAAATAGAAATATAATTTT
Found at i:126238 original size:21 final size:21
Alignment explanation
Indices: 126212--126285 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
126202 CTAACCCTCG
*
126212 ATTGTATCGATACATGTTGAA
1 ATTGTATCGATACATGTTAAA
* *
126233 ATTGTATTGATACATTTTAAA
1 ATTGTATCGATACATGTTAAA
* **
126254 ATTGTATCGATACCT-CAAAA
1 ATTGTATCGATACATGTTAAA
126274 ATTGTATCGATA
1 ATTGTATCGATA
126286 TATTTGGCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 15 0.33
21 31 0.67
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATGTTAAA
Found at i:127510 original size:18 final size:18
Alignment explanation
Indices: 127483--127519 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
127473 GAATATGAAT
*
127483 ATGATTATGAAAAAGATG
1 ATGATGATGAAAAAGATG
*
127501 ATGATGATGAAAATGATG
1 ATGATGATGAAAAAGATG
127519 A
1 A
127520 GAATTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (18 bp):
ATGATGATGAAAAAGATG
Found at i:130453 original size:13 final size:13
Alignment explanation
Indices: 130435--130465 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
130425 ACATTTCTTC
130435 ATGTATCGATACA
1 ATGTATCGATACA
130448 ATGTATCGATACA
1 ATGTATCGATACA
*
130461 TTGTA
1 ATGTA
130466 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130453 original size:33 final size:33
Alignment explanation
Indices: 130415--130481 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
130405 GTTACAAGCT
130415 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
130448 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
130481 A
1 A
130482 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:130536 original size:20 final size:20
Alignment explanation
Indices: 130511--130565 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
130501 TGCCAGTTTT
**
130511 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
130531 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
130550 ATGTATCGATACAATT
1 ATGTATCGATACAATT
130566 ATCGATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:130591 original size:32 final size:31
Alignment explanation
Indices: 130534--130594 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
130524 ATTGTCCATG
*
130534 TATCGATACAATGAACATGTATCGATACAAT
1 TATCGATACAAAGAACATGTATCGATACAAT
*
130565 TATCGATACAAAGCAAGATGTATCGATACA
1 TATCGATACAAAG-AACATGTATCGATACA
130595 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (31 bp):
TATCGATACAAAGAACATGTATCGATACAAT
Found at i:131261 original size:13 final size:14
Alignment explanation
Indices: 131238--131266 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
131228 TTCTCCCCCT
131238 TTATAAAAAATTTA
1 TTATAAAAAATTTA
131252 TTAT-AAAAATTTA
1 TTATAAAAAATTTA
131265 TT
1 TT
131267 TTCACTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAAAAAATTTA
Found at i:132955 original size:20 final size:23
Alignment explanation
Indices: 132930--132976 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
132920 TTCTATTGAT
132930 GATTTTG-A-TGAAAAA-TGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
132950 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
132973 -ATTT
1 GATTT
132977 GTGGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTTTGAAGTGAAAAAGTGAAA
Found at i:133114 original size:13 final size:13
Alignment explanation
Indices: 133096--133121 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
133086 AAATAGTACC
133096 CAATGTATCGATA
1 CAATGTATCGATA
133109 CAATGTATCGATA
1 CAATGTATCGATA
133122 TAAGGAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:136938 original size:13 final size:13
Alignment explanation
Indices: 136920--136947 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
136910 ATACAAAGAT
136920 CAATGTATCGATA
1 CAATGTATCGATA
136933 CAATGTATCGATA
1 CAATGTATCGATA
136946 CA
1 CA
136948 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:136944 original size:33 final size:33
Alignment explanation
Indices: 136902--137074 Score: 105
Period size: 32 Copynumber: 5.4 Consensus size: 33
136892 AAATTTCCAG
136902 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
136935 ATGTATCGATACATTGAGTAATGTATCGATAC-
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
** * *
136967 AT-T-TCCTTGGC--AGTAGCT--TCGTAGCGATACA
1 ATGTATCGAT-ACAAAG-AG-TAAT-GTATCGATACA
* * *
136998 TTGTATCGATACAAA-ACTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
* * * *
137030 TTGTATCGATAC-AACACTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
*
137062 TTGTATCGATACA
1 ATGTATCGATACA
137075 GTTACTGTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
29 2 0.02
30 14 0.12
31 7 0.06
32 56 0.50
33 32 0.28
34 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:137009 original size:13 final size:13
Alignment explanation
Indices: 136991--137074 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
136981 AGCTTCGTAG
136991 CGATACATTGTAT
1 CGATACATTGTAT
137004 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
137023 CGATACATTGTAT
1 CGATACATTGTAT
137036 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
137055 CGATACATTGTAT
1 CGATACATTGTAT
137068 CGATACA
1 CGATACA
137075 GTTACTGTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:137023 original size:19 final size:18
Alignment explanation
Indices: 136999--137061 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
136989 AGCGATACAT
136999 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
137018 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
137031 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
137050 TGTATCGATACA
1 TGTATCGATACA
137062 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:137032 original size:32 final size:32
Alignment explanation
Indices: 136991--137074 Score: 159
Period size: 32 Copynumber: 2.6 Consensus size: 32
136981 AGCTTCGTAG
136991 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
137023 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
137055 CGATACATTGTATCGATACA
1 CGATACATTGTATCGATACA
137075 GTTACTGTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:142912 original size:20 final size:20
Alignment explanation
Indices: 142887--142939 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
142877 GTTACAAGCT
*
142887 ATGTATCGATACATT-TCTTC
1 ATGTATCGATACATTGT-ATC
142907 ATGTATCGATACATTGTATC
1 ATGTATCGATACATTGTATC
142927 ATGTATCGATACA
1 ATGTATCGATACA
142940 AATAGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTGTATC
Found at i:143013 original size:19 final size:19
Alignment explanation
Indices: 142969--143024 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
142959 CTACCGGTTT
**
142969 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
142989 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
143008 CATGTATCGATACAATG
1 CATGTATCGATACAATG
143025 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:143027 original size:13 final size:13
Alignment explanation
Indices: 143009--143035 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
142999 TACAATGAAC
143009 ATGTATCGATACA
1 ATGTATCGATACA
143022 ATGTATCGATACA
1 ATGTATCGATACA
143035 A
1 A
143036 AGCAAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:143051 original size:33 final size:32
Alignment explanation
Indices: 142990--143054 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
142980 ACAATTGTCC
*
142990 ATGTATCAATACAATGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
* *
143022 ATGTATCGATACAAAGCAAGATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
143055 TCTAGGTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:149949 original size:2 final size:2
Alignment explanation
Indices: 149942--149979 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
149932 CTTATTGTTA
149942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149980 CAATGGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150148 original size:19 final size:20
Alignment explanation
Indices: 150126--150168 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
150116 TTTTATGATT
* *
150126 TAATTTTAT-TTAATCTAAA
1 TAATTATATATTAATCAAAA
150145 TAATTATATATTAATCAAAA
1 TAATTATATATTAATCAAAA
150165 TAAT
1 TAAT
150169 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTATATATTAATCAAAA
Found at i:151824 original size:16 final size:16
Alignment explanation
Indices: 151787--151826 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
151777 ATCATTCTAA
151787 ATTT-AAATTATTTTG
1 ATTTCAAATTATTTTG
**
151802 AAATCAAATTATTTTG
1 ATTTCAAATTATTTTG
151818 ATTTCAAAT
1 ATTTCAAAT
151827 CACTTTAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTTCAAATTATTTTG
Found at i:155326 original size:28 final size:28
Alignment explanation
Indices: 155270--155361 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
155260 GTTTATTTAA
* *
155270 TTAATTACTGAAATAAAAATTTAA-TTT
1 TTAATTATTGAAATAAAAATATAATTTT
*
155297 TTAATTATTAAAATAAAAATATAATTTT
1 TTAATTATTGAAATAAAAATATAATTTT
* * *
155325 TTAACTATTGAAATAGAAATATAATTAT
1 TTAATTATTGAAATAAAAATATAATTTT
*
155353 TTATTTATT
1 TTAATTATT
155362 TATTTGTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
27 21 0.38
28 34 0.62
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAATTATTGAAATAAAAATATAATTTT
Found at i:162890 original size:21 final size:21
Alignment explanation
Indices: 162865--162908 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
162855 CACCATCATA
* *
162865 AAATTTGTGATAGA-ATTACTT
1 AAATTTATGACAGACATTA-TT
162886 AAATTTATGACAGACATTATT
1 AAATTTATGACAGACATTATT
162907 AA
1 AA
162909 TGAGGGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATTTATGACAGACATTATT
Found at i:165511 original size:2 final size:2
Alignment explanation
Indices: 165504--165551 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
165494 TTTATTGTTA
165504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165546 AT AT AT
1 AT AT AT
165552 CAATGGAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167125 original size:22 final size:22
Alignment explanation
Indices: 167097--167140 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
167087 TATTACGAAC
167097 TCAAGTTAATCAAATTTAATAT
1 TCAAGTTAATCAAATTTAATAT
*
167119 TCAAGTTAATTAAATTTAATAT
1 TCAAGTTAATCAAATTTAATAT
167141 CAATCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
TCAAGTTAATCAAATTTAATAT
Found at i:167175 original size:38 final size:38
Alignment explanation
Indices: 167104--167176 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
167094 AACTCAAGTT
* *
167104 AATCAAATTTAATATTCAAGTTAATTAAATTTAATATC
1 AATCAAATTTAACATTCAAGTTAATCAAATTTAATATC
* * *
167142 AATCAAATTTAACATTTAAGTTTATCAAGTTTAAT
1 AATCAAATTTAACATTCAAGTTAATCAAATTTAAT
167177 CATTTTAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.42
Consensus pattern (38 bp):
AATCAAATTTAACATTCAAGTTAATCAAATTTAATATC
Found at i:168294 original size:23 final size:23
Alignment explanation
Indices: 168268--168344 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 23
168258 GTGGTATCAG
*
168268 ATTATATTTAAATTGTTATATTA
1 ATTATATTTAAATTATTATATTA
168291 ATTATATTTGAATATTAATTATATCTA
1 ATTATATTT-AA-ATT-ATTATAT-TA
*
168318 AATATATTTAAATATATTATA-TA
1 ATTATATTTAAAT-TATTATATTA
168341 ATTA
1 ATTA
168345 AATATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 14 0.30
24 2 0.04
25 11 0.24
26 9 0.20
27 10 0.22
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (23 bp):
ATTATATTTAAATTATTATATTA
Found at i:168321 original size:17 final size:17
Alignment explanation
Indices: 168285--168322 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
168275 TTAAATTGTT
* *
168285 ATATTAATTATATTTGA
1 ATATTAATTATATCTAA
168302 ATATTAATTATATCTAA
1 ATATTAATTATATCTAA
168319 ATAT
1 ATAT
168323 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATTAATTATATCTAA
Found at i:168339 original size:17 final size:16
Alignment explanation
Indices: 168319--168373 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 16
168309 TTATATCTAA
168319 ATATATTTAAATATATT
1 ATATATTTAAATAT-TT
*
168336 ATATAATTAAATATTT
1 ATATATTTAAATATTT
168352 ATTATATTTAAATATGTT
1 A-TATATTTAAATAT-TT
168370 ATAT
1 ATAT
168374 TATATTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 28 0.82
18 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTAAATATTT
Found at i:168340 original size:27 final size:26
Alignment explanation
Indices: 168283--168349 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
168273 ATTTAAATTG
* *
168283 TTATATTAATTATATTTGAATATTAA
1 TTATATTAAATATATTTAAATATTAA
*
168309 TTATATCTAAATATATTTAAATA-TAT
1 TTATAT-TAAATATATTTAAATATTAA
168335 TATATAATTAAATAT
1 T-TAT-ATTAAATAT
168350 TTATTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.26
27 24 0.69
28 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TTATATTAAATATATTTAAATATTAA
Found at i:168378 original size:44 final size:42
Alignment explanation
Indices: 168268--168379 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 42
168258 GTGGTATCAG
*
168268 ATTATATTTAAAT-TGTTATATTA-ATTATATTTGAATATTA
1 ATTATATTTAAATATGTTATATTATATTATATTTAAATATTA
* * * *
168308 ATTATATCTAAATATATT-TAAATATATTATATAATTAAATATTT
1 ATTATATTTAAATATGTTAT-ATTATATTATAT--TTAAATATTA
168352 ATTATATTTAAATATGTTATATTATATT
1 ATTATATTTAAATATGTTATATTATATT
168380 TATCAAATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 13 0.22
41 6 0.10
42 7 0.12
44 31 0.53
45 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (42 bp):
ATTATATTTAAATATGTTATATTATATTATATTTAAATATTA
Found at i:168655 original size:31 final size:30
Alignment explanation
Indices: 168620--168690 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 30
168610 AACACATGTT
*
168620 TTTTTAAATAATTACTGAAATAGAACTATAA
1 TTTTT-AATAATTACTGAAATAGAAATATAA
*
168651 -TTTT--TAATTATTGAAATAGAAATATAA
1 TTTTTAATAATTACTGAAATAGAAATATAA
168678 TTTTTAATTAATT
1 TTTTTAA-TAATT
168691 TATTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
27 21 0.62
28 4 0.12
30 4 0.12
31 5 0.15
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTTTAATAATTACTGAAATAGAAATATAA
Found at i:168659 original size:27 final size:27
Alignment explanation
Indices: 168628--168687 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
168618 TTTTTTTAAA
*
168628 TAATTACTGAAATAGAACTATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
*
168655 TAATTATTGAAATAGAAATATAATTTT
1 TAATTACTGAAATAGAAATATAATTTT
168682 TAATTA
1 TAATTA
168688 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (27 bp):
TAATTACTGAAATAGAAATATAATTTT
Found at i:171898 original size:21 final size:21
Alignment explanation
Indices: 171871--171926 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
171861 ACTAACCCTC
171871 GATTGTATCGATACATGTTGAA
1 GATTGTATCGATACAT-TTGAA
* * *
171893 -ATTGTATTGATATATTTTAA
1 GATTGTATCGATACATTTGAA
*
171913 GATTGGATCGATAC
1 GATTGTATCGATAC
171927 CTCAAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (21 bp):
GATTGTATCGATACATTTGAA
Found at i:172829 original size:45 final size:45
Alignment explanation
Indices: 172777--172864 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
172767 AAATAGGGTC
172777 AAGGTGTACCCTCATTATGGTCTTGTTGAAGTGAAATACAAGTCT
1 AAGGTGTACCCTCATTATGGTCTTGTTGAAGTGAAATACAAGTCT
172822 AAGGTGTACCCTCATTATGGTCTTGTTGAAGTGAAATACAAGT
1 AAGGTGTACCCTCATTATGGTCTTGTTGAAGTGAAATACAAGT
172865 TGAAAGCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (45 bp):
AAGGTGTACCCTCATTATGGTCTTGTTGAAGTGAAATACAAGTCT
Found at i:173557 original size:20 final size:22
Alignment explanation
Indices: 173527--173570 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
173517 TGACTTCCCG
173527 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
173548 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
173569 TG
1 TG
173571 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:173647 original size:19 final size:20
Alignment explanation
Indices: 173604--173654 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
173594 TACAAGCCAA
**
173604 TGTATCGATACATTTTTTGG
1 TGTATCGATACATACTTTGG
173624 TGTATCGATACATACTTT-G
1 TGTATCGATACATACTTTGG
173643 TGTATCGATACA
1 TGTATCGATACA
173655 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATACTTTGG
Found at i:176211 original size:13 final size:13
Alignment explanation
Indices: 176193--176231 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
176183 ATAATCCCCC
* *
176193 TGTATCGATATAG
1 TGTATCGATACAA
176206 TGTATCGATACAA
1 TGTATCGATACAA
176219 TGTATCGATACAA
1 TGTATCGATACAA
176232 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:182339 original size:20 final size:22
Alignment explanation
Indices: 182309--182352 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
182299 TGATTTCCCG
182309 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
182330 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
182351 TG
1 TG
182353 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:182424 original size:13 final size:13
Alignment explanation
Indices: 182406--182431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
182396 CATTTTTTGG
182406 TGTATCGATACAT
1 TGTATCGATACAT
182419 TGTATCGATACAT
1 TGTATCGATACAT
182432 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:182446 original size:32 final size:33
Alignment explanation
Indices: 182386--182449 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
182376 TATAAGCCAA
**
182386 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
182419 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
182450 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:191340 original size:24 final size:25
Alignment explanation
Indices: 191313--191364 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
191303 GTATCATATT
* * *
191313 TATTATGATTATTAA-TATAATTAA
1 TATTATCATAATTAATTATAATAAA
191337 TATTATCATAATTAATTATAATAAA
1 TATTATCATAATTAATTATAATAAA
191362 TAT
1 TAT
191365 CAATTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTATCATAATTAATTATAATAAA
Found at i:194981 original size:14 final size:14
Alignment explanation
Indices: 194962--194992 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
194952 TGACCATAAA
194962 ATTTGCTATCAATG
1 ATTTGCTATCAATG
194976 ATTTGCTATCAATG
1 ATTTGCTATCAATG
194990 ATT
1 ATT
194993 ACTTCTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (14 bp):
ATTTGCTATCAATG
Found at i:196225 original size:27 final size:27
Alignment explanation
Indices: 196191--196279 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
196181 GTTTATTTAA
* *
196191 TTAATTACTGAAATAAAAATTTAATTT
1 TTAATTACTGAAATAGAAATATAATTT
*
196218 TTAATTACTAAAATAGAAATATAATTTTT
1 TTAATTACTGAAATAGAAATATAA--TTT
* *
196247 TTAACTATTGAAATAGAAATATAATTT
1 TTAATTACTGAAATAGAAATATAATTT
196274 TTAATT
1 TTAATT
196280 TATTTATTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.55
29 24 0.45
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (27 bp):
TTAATTACTGAAATAGAAATATAATTT
Found at i:199500 original size:18 final size:18
Alignment explanation
Indices: 199460--199512 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
199450 AGAGGGTGAC
*
199460 GAAGAAGATGAATATGATTAT
1 GAAGAAGATG-ATA--ATGAT
199481 GAAGAAGATGATAATGAT
1 GAAGAAGATGATAATGAT
* *
199499 GAAAAAAATGATAA
1 GAAGAAGATGATAA
199513 ACATTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
20 3 0.10
21 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
GAAGAAGATGATAATGAT
Found at i:200897 original size:18 final size:18
Alignment explanation
Indices: 200874--200913 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
200864 AAACAAATGC
* *
200874 TCATCATTTTCTTCATCA
1 TCATCATCTTCTTCATAA
200892 TCATCATCTTCTTCATAA
1 TCATCATCTTCTTCATAA
200910 TCAT
1 TCAT
200914 ATTCATCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (18 bp):
TCATCATCTTCTTCATAA
Found at i:209760 original size:2 final size:2
Alignment explanation
Indices: 209753--209784 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
209743 CTTATTGTTA
209753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209785 GGAAGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:210245 original size:12 final size:12
Alignment explanation
Indices: 210207--210267 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
210197 TGATTATAGA
210207 TATAATAAATAT
1 TATAATAAATAT
* *
210219 TATCATAATTAAT
1 TATAATAAAT-AT
210232 TATAATAAATAT
1 TATAATAAATAT
*
210244 TAATTATAAAT-T
1 T-ATAATAAATAT
*
210256 TAACAATAAATA
1 T-ATAATAAATA
210268 AAATGAAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 21 0.54
13 18 0.46
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (12 bp):
TATAATAAATAT
Found at i:210585 original size:2 final size:2
Alignment explanation
Indices: 210578--210602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
210568 ATTAAAATGT
210578 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
210603 TGAAAACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:211195 original size:16 final size:16
Alignment explanation
Indices: 211151--211203 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
211141 TTTTTGAATC
211151 ATTTTGAATTCAAATT
1 ATTTTGAATTCAAATT
* **
211167 ATTTCGAGCTCAAATT
1 ATTTTGAATTCAAATT
* *
211183 ATTTTGATTTCAAATC
1 ATTTTGAATTCAAATT
211199 ATTTT
1 ATTTT
211204 AAGTTTGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (16 bp):
ATTTTGAATTCAAATT
Found at i:211215 original size:32 final size:32
Alignment explanation
Indices: 211143--211215 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 32
211133 CTTCAGTTTT
* * *
211143 TTTGAATCATTTTGAATTCAAATTATTTCGAG
1 TTTGAATTATTTTGAATTCAAATCATTTCAAG
* ** * *
211175 CTCAAATTATTTTGATTTCAAATCATTTTAAG
1 TTTGAATTATTTTGAATTCAAATCATTTCAAG
211207 TTTGAATTA
1 TTTGAATTA
211216 ATCAAGTTTA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (32 bp):
TTTGAATTATTTTGAATTCAAATCATTTCAAG
Found at i:214632 original size:34 final size:35
Alignment explanation
Indices: 214589--214669 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 35
214579 ATTATATTTT
*
214589 AATATGTTATATTAATTATAT-TTAAAAATAATTA
1 AATATGTTATATTAATTAAATATTAAAAATAATTA
* ** *
214623 AATATGTTAT-GTAATTAAATATTAATTATATTTA
1 AATATGTTATATTAATTAAATATTAAAAATAATTA
214657 AATAT-TTATATTA
1 AATATGTTATATTA
214670 TATTTATCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 12 0.31
34 27 0.69
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (35 bp):
AATATGTTATATTAATTAAATATTAAAAATAATTA
Found at i:214657 original size:17 final size:19
Alignment explanation
Indices: 214637--214675 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
214627 TGTTATGTAA
214637 TTAAATA-TTA-ATTATAT
1 TTAAATATTTATATTATAT
214654 TTAAATATTTATATTATAT
1 TTAAATATTTATATTATAT
214673 TTA
1 TTA
214676 TCAAACACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 3 0.15
19 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATATTTATATTATAT
Found at i:214955 original size:27 final size:27
Alignment explanation
Indices: 214923--214982 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
214913 ATTTATTTAA
* * * *
214923 TTAATTGCTGGAATATAAATATAATTT
1 TTAATTGCTGAAATAGAAATAAAAATT
214950 TTAATTGCTGAAATAGAAATAAAAATT
1 TTAATTGCTGAAATAGAAATAAAAATT
214977 TTAATT
1 TTAATT
214983 TATTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (27 bp):
TTAATTGCTGAAATAGAAATAAAAATT
Found at i:222062 original size:23 final size:22
Alignment explanation
Indices: 222030--222072 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
222020 ATATTTTTAT
* *
222030 TTAATTTTAATTATAAGAATATA
1 TTAATATTAA-TATAAAAATATA
222053 TTAATATTAATATAAAAATA
1 TTAATATTAATATAAAAATA
222073 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:223486 original size:43 final size:43
Alignment explanation
Indices: 223421--223506 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
223411 AAATCACTTC
*
223421 AGTTTTTGAATCATTTTTAATTTAAGTTATTTTGAACTCAAAT
1 AGTTTTTGAATCATTTTCAATTTAAGTTATTTTGAACTCAAAT
223464 AGTTTTTGAATCATTTTCAATTTAAGTTATTTTGAACTCAAAT
1 AGTTTTTGAATCATTTTCAATTTAAGTTATTTTGAACTCAAAT
223507 TATTTTGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (43 bp):
AGTTTTTGAATCATTTTCAATTTAAGTTATTTTGAACTCAAAT
Found at i:227367 original size:18 final size:18
Alignment explanation
Indices: 227346--227392 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
227336 CTCATCATTT
*
227346 TCATCATCTTCATGATCA
1 TCATCATCTTCATAATCA
227364 TCAT-ATTCTTCATAATCA
1 TCATCA-TCTTCATAATCA
227382 T-ATTCATCTTC
1 TCA-TCATCTTC
227393 TTCGTCACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 22 0.88
19 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.45
Consensus pattern (18 bp):
TCATCATCTTCATAATCA
Found at i:232920 original size:20 final size:19
Alignment explanation
Indices: 232895--232932 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
232885 TTAATTGGAT
*
232895 TTAATTCAAATAATTATTTA
1 TTAATTAAAATAA-TATTTA
232915 TTAATTAAAATAATATTT
1 TTAATTAAAATAATATTT
232933 TTATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATTAAAATAATATTTA
Found at i:233954 original size:14 final size:14
Alignment explanation
Indices: 233931--233965 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
233921 TTTGAAGTGT
233931 TATATA-TATTATA
1 TATATATTATTATA
233944 TATATATTATTATA
1 TATATATTATTATA
233958 TATATATT
1 TATATATT
233966 GAAAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATATTATTATA
Found at i:238015 original size:17 final size:17
Alignment explanation
Indices: 237993--238061 Score: 102
Period size: 17 Copynumber: 3.9 Consensus size: 17
237983 TAAATATGTT
237993 ATATTAATTATATTTGA
1 ATATTAATTATATTTGA
238010 ATATTAATTATATTTGA
1 ATATTAATTATATTTGA
*
238027 ATATTAATTATATTTAA
1 ATATTAATTATATTTGA
238044 ATATGTTATATTATATTT
1 ATA--TTA-ATTATATTT
238062 ATCAAACACA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
17 36 0.75
19 3 0.06
20 9 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
ATATTAATTATATTTGA
Found at i:244560 original size:136 final size:134
Alignment explanation
Indices: 244318--244585 Score: 412
Period size: 136 Copynumber: 2.0 Consensus size: 134
244308 TTTGTATTAA
* *
244318 CCGGTTCAGTAGGCTCGACAGTAGTGGGTGGATCAAAGTCACTCAAGAACTGAAGGGTTAGTACA
1 CCGGTTCAGTAGGCTCGACAGCAGTGGGTGGATCAAAGTCACTCAAGAACTGAAGAGTTAGTACA
* *
244383 GGATTCATCTGTTATATGTCCGTGATCAATAGGAGTTTGTGATTGAGGTGGATTAAAAGATAGAC
66 GGATTCATCTATTATATGTCCGTGATCAATAGGAGTTTGTGATGGAGGTGGATTAAAAGATAGAC
244448 CTGG
131 CTGG
* **
244452 CCGGTTCAGTAGGCTCGATAGCAGTGGGTGGATCAAAGTCACACTTGAGAACTGAAGAGTTAGTA
1 CCGGTTCAGTAGGCTCGACAGCAGTGGGTGGATCAAAGT--CACTCAAGAACTGAAGAGTTAGTA
* * *
244517 CAGGATTCATCTATTGTATGTCTGTGATCAAT-GAGAGTTTGTGATGGAGGTGGATTGAAAGATA
64 CAGGATTCATCTATTATATGTCCGTGATCAATAG-GAGTTTGTGATGGAGGTGGATTAAAAGATA
244581 GACCT
128 GACCT
244586 AGTATGGAAC
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 37 0.31
135 1 0.01
136 83 0.69
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (134 bp):
CCGGTTCAGTAGGCTCGACAGCAGTGGGTGGATCAAAGTCACTCAAGAACTGAAGAGTTAGTACA
GGATTCATCTATTATATGTCCGTGATCAATAGGAGTTTGTGATGGAGGTGGATTAAAAGATAGAC
CTGG
Found at i:250541 original size:69 final size:69
Alignment explanation
Indices: 250451--250580 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
250441 TCAAATTATT
* * * * *
250451 TTAATTTCAAATCACTTCAAATTTGAATTGATTAAATTTAATAATCGAATTAATTAAATTTGAAT
1 TTAAATTCAAATCACTTCAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTTGAAT
250516 CACC
66 CACC
* *
250520 TTAAATTCAAATTA-TTACAAATTTAAATTAATCAAATTTAATATTCAAATTAATTAAATTT
1 TTAAATTCAAATCACTT-CAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTT
250581 AAAATTAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
68 2 0.04
69 51 0.96
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (69 bp):
TTAAATTCAAATCACTTCAAATTTAAATTAATCAAATTTAATAATCAAATTAATTAAATTTGAAT
CACC
Found at i:250566 original size:38 final size:37
Alignment explanation
Indices: 250520--250620 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 37
250510 TTGAATCACC
*
250520 TTAAATTCAAATT-ATTACAAATTT-AAATTAATCAAAT
1 TTAAATTCAAATTAATT--AAATTTAAAATTAATAAAAT
250557 TTAATATTCAAATTAATTAAATTTAAAATTAATAAAAT
1 TTAA-ATTCAAATTAATTAAATTTAAAATTAATAAAAT
*
250595 TTAACACTT-AAATTTATTAAATTTAA
1 TTAA-A-TTCAAATTAATTAAATTTAA
250621 TTATTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
37 10 0.18
38 42 0.74
39 5 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (37 bp):
TTAAATTCAAATTAATTAAATTTAAAATTAATAAAAT
Found at i:250567 original size:13 final size:15
Alignment explanation
Indices: 250522--250570 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
250512 GAATCACCTT
*
250522 AAATTCAAATTATTAC
1 AAATTTAAATTATT-C
*
250538 AAATTTAAATTAATC
1 AAATTTAAATTATTC
250553 AAATTT-AA-TATTC
1 AAATTTAAATTATTC
250566 AAATT
1 AAATT
250571 AATTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
15 7 0.23
16 12 0.40
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTTAAATTATTC
Found at i:250585 original size:16 final size:16
Alignment explanation
Indices: 250566--250598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
250556 TTTAATATTC
*
250566 AAATTAATTAAATTTA
1 AAATTAATAAAATTTA
250582 AAATTAATAAAATTTA
1 AAATTAATAAAATTTA
250598 A
1 A
250599 CACTTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTAATAAAATTTA
Found at i:253829 original size:2 final size:2
Alignment explanation
Indices: 253822--253848 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
253812 CCTTTCCAAA
253822 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
253849 TACATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:259364 original size:117 final size:112
Alignment explanation
Indices: 259163--259390 Score: 350
Period size: 117 Copynumber: 2.0 Consensus size: 112
259153 CTCATGAGCA
259163 ATTCATAACTAAAGTAACCATATCCATAATGCTAAAAGAATCACCAAAAACTACTAAACATATCT
1 ATTCATAACTAAAGTAACCATATCCATAATGCTAAAAGAATCACCAAAAACTACTAAACATATCT
* **
259228 GCAATTTCATAACTTACAAATTTGATTTGGCCT-AGCCATTGCTTACG
66 GCAATTCCATAACTTACAAATTTGATTCAGCCTCA-CCATTGCTTACG
*
259275 ATTCATAACTAAAGTAACCATAAGTTATCCATAATGTTAAAAGAATCACCAAAAACTACTAAACA
1 ATTCATAACTAAAGTAACC---A--TATCCATAATGCTAAAAGAATCACCAAAAACTACTAAACA
*
259340 TATCTGCAATTCCATGACTTACAAATTTGATTCAGCCTCACCATTGCTTAC
61 TATCTGCAATTCCATAACTTACAAATTTGATTCAGCCTCACCATTGCTTAC
259391 AATTTAGATT
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
112 19 0.18
115 1 0.01
117 84 0.80
118 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (112 bp):
ATTCATAACTAAAGTAACCATATCCATAATGCTAAAAGAATCACCAAAAACTACTAAACATATCT
GCAATTCCATAACTTACAAATTTGATTCAGCCTCACCATTGCTTACG
Found at i:260229 original size:6 final size:6
Alignment explanation
Indices: 260220--260250 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
260210 TCCATTATCA
*
260220 TTGCCG TTGCCG TTGCCG TTGCCA TTGCCG T
1 TTGCCG TTGCCG TTGCCG TTGCCG TTGCCG T
260251 CTAGTCTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.32, G:0.29, T:0.35
Consensus pattern (6 bp):
TTGCCG
Found at i:260614 original size:20 final size:20
Alignment explanation
Indices: 260584--260635 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
260574 ATAATGTTAA
*
260584 AAATTTTAATTATTTTATGT
1 AAATTTAAATTATTTTATGT
*
260604 ACATTTAAATTATTTTATGT
1 AAATTTAAATTATTTTATGT
260624 AAATTTAAATTA
1 AAATTTAAATTA
260636 AATCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
AAATTTAAATTATTTTATGT
Found at i:261403 original size:11 final size:11
Alignment explanation
Indices: 261387--261453 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
261377 ATTAAAAATT
261387 TATTAAATTAA
1 TATTAAATTAA
*
261398 TTTTAAATTAA
1 TATTAAATTAA
*
261409 TATAAAATTAA
1 TATTAAATTAA
*
261420 -ATAAAAATTAAA
1 TAT-TAAATT-AA
*
261432 TATAAAATTAAA
1 TATTAAATT-AA
261444 TATTTAAATT
1 TA-TTAAATT
261454 TATTCTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.04
11 25 0.52
12 13 0.27
13 8 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TATTAAATTAA
Found at i:261437 original size:23 final size:22
Alignment explanation
Indices: 261402--261445 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
261392 AATTAATTTT
261402 AAATTAATATAAAATTAAATAA
1 AAATTAATATAAAATTAAATAA
261424 AAATTAAATATAAAATTAAATA
1 AAATT-AATATAAAATTAAATA
261446 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATTAATATAAAATTAAATAA
Found at i:261438 original size:12 final size:12
Alignment explanation
Indices: 261402--261446 Score: 76
Period size: 11 Copynumber: 3.9 Consensus size: 12
261392 AATTAATTTT
261402 AAATT-AATATA
1 AAATTAAATATA
261413 AAATTAAATA-A
1 AAATTAAATATA
261424 AAATTAAATATA
1 AAATTAAATATA
261436 AAATTAAATAT
1 AAATTAAATAT
261447 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:261856 original size:25 final size:26
Alignment explanation
Indices: 261788--261856 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
261778 TTATATATTT
* *
261788 TTATTATTA-AATTAAAATAAAAATA
1 TTATTTTTATAATTAAAATTAAAATA
261813 TTATTTTTATAATT-AAATTAAAATA
1 TTATTTTTATAATTAAAATTAAAATA
261838 -TATTTTTATAATTAAAATT
1 TTATTTTTATAATTAAAATT
261857 TTGACAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.32
25 23 0.57
26 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATTTTTATAATTAAAATTAAAATA
Found at i:262354 original size:22 final size:21
Alignment explanation
Indices: 262315--262359 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
262305 TTAATATTTT
262315 ATTTAAAATTTAATTATAAAA
1 ATTTAAAATTTAATTATAAAA
262336 ATTTATAAATATTAA-TATAAAA
1 ATTTA-AAAT-TTAATTATAAAA
262358 AT
1 AT
262360 AATATTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAAAATTTAATTATAAAA
Found at i:262477 original size:14 final size:14
Alignment explanation
Indices: 262453--262482 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
262443 TTAATTTAAC
262453 TTAATTAATTATAT
1 TTAATTAATTATAT
262467 TTAATTAATTATAT
1 TTAATTAATTATAT
262481 TT
1 TT
262483 TATGTGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTAATTATAT
Found at i:262776 original size:11 final size:11
Alignment explanation
Indices: 262760--262821 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
262750 TTATATGATT
262760 ATATAATATAA
1 ATATAATATAA
262771 ATATAATATAA
1 ATATAATATAA
*
262782 AAATAAT-TAAA
1 ATATAATAT-AA
*
262793 ATATTATATAAA
1 ATATAATAT-AA
262805 ATATAATATAA
1 ATATAATATAA
*
262816 AAATAA
1 ATATAA
262822 AATTATTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
10 1 0.02
11 31 0.70
12 12 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATATAATATAA
Found at i:262835 original size:34 final size:33
Alignment explanation
Indices: 262765--262845 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
262755 TGATTATATA
*
262765 ATAT-AAATATAATATAAAAATAATTAAAATATT
1 ATATAAAATATAATATAAAAATAATT-AAATACT
*
262798 ATATAAAATATAATATAAAAATAAAATT-ATTACT
1 ATATAAAATATAATATAAAAAT--AATTAAATACT
262832 ATATAAATATATAA
1 ATATAAA-ATATAA
262846 ATTTATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 4 0.10
34 28 0.67
35 6 0.14
36 4 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
ATATAAAATATAATATAAAAATAATTAAATACT
Found at i:262856 original size:33 final size:32
Alignment explanation
Indices: 262832--262909 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
262822 AATTATTACT
262832 ATATAAATATATAAATT-TATTAAAATTTATATA
1 ATATAAAT-TAT-AATTATATTAAAATTTATATA
*
262865 ATATAAATTATTATTATATTAAAA-TT-TATA
1 ATATAAATTATAATTATATTAAAATTTATATA
262895 A-ATAAA-TATAATTAT
1 ATATAAATTATAATTAT
262910 TAATCTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 8 0.19
29 5 0.12
30 5 0.12
31 5 0.12
32 11 0.26
33 8 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATATAAATTATAATTATATTAAAATTTATATA
Found at i:263282 original size:2 final size:2
Alignment explanation
Indices: 263275--263344 Score: 76
Period size: 2 Copynumber: 36.5 Consensus size: 2
263265 AACCAAAAAT
*
263275 TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* *
263318 TA -A T- TA AA TA TA -A T- TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
263345 TACACACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
1 4 0.07
2 51 0.89
3 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:263559 original size:14 final size:15
Alignment explanation
Indices: 263557--263587 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
263547 TATTTAATAA
263557 AATATAAATATATTT
1 AATATAAATATATTT
263572 AATA-AAATATATTT
1 AATATAAATATATTT
263586 AA
1 AA
263588 AACTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAAATATATTT
Found at i:263567 original size:20 final size:20
Alignment explanation
Indices: 263542--263582 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
263532 TTAATATTTA
263542 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
263562 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
263582 A
1 A
263583 TTTAAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATATTTAATAAAATAT
Found at i:263799 original size:33 final size:29
Alignment explanation
Indices: 263762--263863 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 29
263752 ATTAAAATAG
263762 AATAT-AATATAAATATATATTTTAAATTT
1 AATATAAATATAAATA-ATATTTTAAATTT
* *
263791 -ATAT-AATATAATTTATTAATATATTAAAATT
1 AATATAAATATAA---A-TAATATTTTAAATTT
*
263822 AATATAAATAT-AA-AATATTTTAAATAT
1 AATATAAATATAAATAATATTTTAAATTT
263849 AATATAAATATAAAT
1 AATATAAATATAAAT
263864 GTAAAATTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
27 22 0.37
28 13 0.22
29 1 0.02
31 12 0.20
32 7 0.12
33 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATATAAATATAAATAATATTTTAAATTT
Found at i:263810 original size:13 final size:14
Alignment explanation
Indices: 263763--263813 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
263753 TTAAAATAGA
*
263763 ATATAATATAA-AT
1 ATATAATATAATTT
* *
263776 ATATATTTTAAATTT
1 ATATAATAT-AATTT
263791 ATATAATATAATTT
1 ATATAATATAATTT
263805 AT-TAATATA
1 ATATAATATA
263814 TTAAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 14 0.45
14 9 0.29
15 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATATAATTT
Found at i:264675 original size:27 final size:28
Alignment explanation
Indices: 264645--264704 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
264635 CAAAAGAAGC
* * *
264645 AACTTCTAATAAGAAAAACGGATGC-TT
1 AACTTCTAATAACAAAAACAGAAGCTTT
* *
264672 AACTTTTAGTAACAAAAACAGAAGCTTT
1 AACTTCTAATAACAAAAACAGAAGCTTT
264700 AACTT
1 AACTT
264705 AATGGATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (28 bp):
AACTTCTAATAACAAAAACAGAAGCTTT
Found at i:265134 original size:17 final size:17
Alignment explanation
Indices: 265112--265149 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
265102 TATCGATACA
265112 TCACTGTTCATAACTGT
1 TCACTGTTCATAACTGT
265129 TCACTGTTCATAACTGT
1 TCACTGTTCATAACTGT
265146 TCAC
1 TCAC
265150 GTATCACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (17 bp):
TCACTGTTCATAACTGT
Found at i:265181 original size:13 final size:13
Alignment explanation
Indices: 265163--265189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
265153 TCACTATTCA
265163 TGTATCGATACAG
1 TGTATCGATACAG
265176 TGTATCGATACAG
1 TGTATCGATACAG
265189 T
1 T
265190 ATAAATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:266044 original size:28 final size:28
Alignment explanation
Indices: 265992--266060 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
265982 AAAAAATAAT
* *
265992 TTTTAAAGACGA--TTTTATTTTAAAAC
1 TTTTAGAGACGATTTTTTATCTTAAAAC
*
266018 TTTTAGAGACGATTTTTTATCTTAAAAT
1 TTTTAGAGACGATTTTTTATCTTAAAAC
* *
266046 TTTTAGGGATGATTT
1 TTTTAGAGACGATTT
266061 CTTTTTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 11 0.31
28 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (28 bp):
TTTTAGAGACGATTTTTTATCTTAAAAC
Found at i:267330 original size:49 final size:48
Alignment explanation
Indices: 267269--267368 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
267259 AAAATTAAAG
* *
267269 AAATTCACATAAAAAAGTGATTAACAATAACTAAACCTAAAATAAACAA
1 AAATCCACATAAAAAA-TGATTAACAACAACTAAACCTAAAATAAACAA
* * *
267318 AAATCCACATAAAAAATGATTAACAACAACTAAACTTAGAATAAATAA
1 AAATCCACATAAAAAATGATTAACAACAACTAAACCTAAAATAAACAA
267366 AAA
1 AAA
267369 GGCAACAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 31 0.67
49 15 0.33
ACGTcount: A:0.62, C:0.14, G:0.04, T:0.20
Consensus pattern (48 bp):
AAATCCACATAAAAAATGATTAACAACAACTAAACCTAAAATAAACAA
Found at i:271501 original size:2 final size:2
Alignment explanation
Indices: 271496--271525 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
271486 ATGTGTGTAC
*
271496 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
271526 CGGATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:273476 original size:2 final size:2
Alignment explanation
Indices: 273469--273501 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
273459 CATACATCTT
273469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
273502 TTCATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:277441 original size:17 final size:16
Alignment explanation
Indices: 277421--277470 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
277411 TTTTTTTCAC
* *
277421 TTTTTTGTTTTTCTAAA
1 TTTTTTATTTTT-AAAA
277438 TTTTTTATTTTTAAAA
1 TTTTTTATTTTTAAAA
*
277454 TTTTTAATTATTTAAAA
1 TTTTTTATT-TTTAAAA
277471 AATAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTTTTATTTTTAAAA
Found at i:277496 original size:6 final size:6
Alignment explanation
Indices: 277468--277526 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
277458 TAATTATTTA
* *
277468 AAAAAT AATAAT AAATAATT AAAAAT AAAAAT AATAAT -AAAAT -AAAAT
1 AAAAAT AAAAAT AAA-AA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
277516 AAAAAAT AAAA
1 -AAAAAT AAAA
277527 TTAACACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 9 0.20
6 23 0.51
7 9 0.20
8 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:277503 original size:29 final size:28
Alignment explanation
Indices: 277467--277526 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
277457 TTAATTATTT
* *
277467 AAAAAATAATAATAA-ATAATTAAAAATA
1 AAAAAATAATAA-AATAAAATAAAAAATA
277495 AAAATAATAATAAAATAAAATAAAAAATA
1 AAAA-AATAATAAAATAAAATAAAAAATA
277524 AAA
1 AAA
277527 TTAACACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (28 bp):
AAAAAATAATAAAATAAAATAAAAAATA
Found at i:277504 original size:23 final size:22
Alignment explanation
Indices: 277468--277520 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 22
277458 TAATTATTTA
277468 AAAAATAATAATAAATAATTAAAAAT
1 AAAAATAATAAT-AA-AA-T-AAAAT
277494 AAAAATAATAATAAAATAAAAT
1 AAAAATAATAATAAAATAAAAT
277516 AAAAA
1 AAAAA
277521 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.37
23 1 0.04
24 2 0.07
25 2 0.07
26 12 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATAATAATAAAATAAAAT
Found at i:277506 original size:22 final size:23
Alignment explanation
Indices: 277466--277520 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
277456 TTTAATTATT
* *
277466 TAAAA-AATAATAATAAAT-AAT
1 TAAAATAAAAATAATAAATAAAA
277487 TAAAAATAAAAATAAT-AATAAAA
1 T-AAAATAAAAATAATAAATAAAA
277510 TAAAATAAAAA
1 TAAAATAAAAA
277521 ATAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 1 0.03
22 17 0.59
23 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATAAAAATAATAAATAAAA
Found at i:277509 original size:17 final size:17
Alignment explanation
Indices: 277474--277527 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
277464 TTTAAAAAAT
*
277474 AATAATAAATAATTA-AA
1 AATAA-AAATAATAATAA
277491 AATAAAAATAATAATAA
1 AATAAAAATAATAATAA
*
277508 AAT-AAAATAAAAAATAA
1 AATAAAAAT-AATAATAA
277525 AAT
1 AAT
277528 TAACACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAAATAATAATAA
Found at i:277521 original size:23 final size:26
Alignment explanation
Indices: 277466--277524 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 26
277456 TTTAATTATT
277466 TAAAAAATAATAATAAATAATTAAAA
1 TAAAAAATAATAATAAATAATTAAAA
277492 -ATAAAAATAATAAT-AA-AA-TAAAA
1 TA-AAAAATAATAATAAATAATTAAAA
277515 TAAAAAATAA
1 TAAAAAATAA
277525 AATTAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 13 0.42
24 3 0.10
25 3 0.10
26 12 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (26 bp):
TAAAAAATAATAATAAATAATTAAAA
Found at i:284953 original size:21 final size:20
Alignment explanation
Indices: 284923--284964 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
284913 AATTTAAAAA
* *
284923 ATATTTTTATATTAATATTT
1 ATATTTTTATAATAAAATTT
284943 ATATATTTTATAATAAAATTT
1 ATAT-TTTTATAATAAAATTT
284964 A
1 A
284965 AATAAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTATAATAAAATTT
Found at i:285135 original size:14 final size:14
Alignment explanation
Indices: 285100--285139 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
285090 TATTTATATA
*
285100 ATAAAAATATTATT
1 ATAAAAATATAATT
**
285114 ATTTAAATATAATT
1 ATAAAAATATAATT
285128 ATAAAAATATAA
1 ATAAAAATATAA
285140 AAATATTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAAATATAATT
Found at i:285152 original size:14 final size:13
Alignment explanation
Indices: 285103--285162 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
285093 TTATATAATA
285103 AAAATATTATTATT
1 AAAATATTATTA-T
* *
285117 TAAATATAATTAT
1 AAAATATTATTAT
285130 AAAA-A-TA-TA-
1 AAAATATTATTAT
285139 AAAATATTATTAT
1 AAAATATTATTAT
285152 AAAATATTATT
1 AAAATATTATT
285163 TTTAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 3 0.08
13 15 0.39
14 10 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATATTATTAT
Found at i:285802 original size:22 final size:22
Alignment explanation
Indices: 285763--285814 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
285753 ATATTAAAAT
285763 ATATATAAAATAAATTAT-TAA
1 ATATATAAAATAAATTATATAA
*
285784 CATAT-TAAATTAAATTTATATAA
1 -ATATATAAAATAAA-TTATATAA
285807 ATATATAA
1 ATATATAA
285815 TAATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATATAAAATAAATTATATAA
Found at i:286095 original size:19 final size:19
Alignment explanation
Indices: 286071--286109 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
286061 AACTTGTCTC
286071 TATAAATGTCAACTACACA
1 TATAAATGTCAACTACACA
286090 TATAAATGTCAACTACACA
1 TATAAATGTCAACTACACA
286109 T
1 T
286110 GATGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (19 bp):
TATAAATGTCAACTACACA
Found at i:286992 original size:44 final size:44
Alignment explanation
Indices: 286909--286992 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
286899 TATATAATCA
* **
286909 ATTATATTTATATATTTTTTAATAATATTAAAATTTTAATATAT
1 ATTATATTTATATATTTTTAAATAATATTAAAAAGTTAATATAT
*
286953 ATTAT-TTTATATATTTATCTAAAT-ATTTTAAAAAGTTAAT
1 ATTATATTTATATATTT-T-TAAATAATATTAAAAAGTTAAT
286993 TAACTATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 11 0.32
44 19 0.56
45 4 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (44 bp):
ATTATATTTATATATTTTTAAATAATATTAAAAAGTTAATATAT
Found at i:287287 original size:14 final size:14
Alignment explanation
Indices: 287265--287297 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
287255 TATTTTTATT
*
287265 ATATAAATATAAAA
1 ATATTAATATAAAA
287279 ATATTAATATAAAA
1 ATATTAATATAAAA
287293 ATATT
1 ATATT
287298 TTTTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATTAATATAAAA
Done.