Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold125
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: 3608436
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 9 of 18
Found at i:1368483 original size:34 final size:35
Alignment explanation
Indices: 1368423--1368488 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
1368413 TTTATATCAT
1368423 ATTTATATATTTTATATTATTAAAATTATATTTAA
1 ATTTATATATTTTATATTATTAAAATTATATTTAA
*
1368458 ATTTAATATATTTT-TA-TATTTAAATTATATT
1 ATTT-ATATATTTTATATTATTAAAATTATATT
1368489 ATTATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 14 0.48
35 6 0.21
36 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
ATTTATATATTTTATATTATTAAAATTATATTTAA
Found at i:1368504 original size:36 final size:35
Alignment explanation
Indices: 1368421--1368527 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 35
1368411 TATTTATATC
*
1368421 ATATTTATATATTTTATATTATTAAAATTATA-T-TT
1 ATATTTATATATTTT-TA-TATTTAAATTATATTATT
*
1368456 AAATTTAATATATTTTTATATTTAAATTATATTATT
1 ATATTT-ATATATTTTTATATTTAAATTATATTATT
* * * *
1368492 ATTATTTTTATATCTTTT-TAATTAATTTTTATTATT
1 A-TATTTATATAT-TTTTATATTTAAATTATATTATT
1368528 TTAATAACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
34 12 0.20
35 8 0.13
36 32 0.53
37 8 0.13
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (35 bp):
ATATTTATATATTTTTATATTTAAATTATATTATT
Found at i:1370784 original size:2 final size:2
Alignment explanation
Indices: 1370779--1370803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1370769 GCTAACTTTA
1370779 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1370804 CTAATTATGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1370994 original size:21 final size:23
Alignment explanation
Indices: 1370961--1371013 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
1370951 TATATGCATC
1370961 TATATATGCATAT-C-ATATATA
1 TATATATGCATATACAATATATA
1370982 TATATAT-CAATATAACCAATATATA
1 TATATATGC-ATAT-A-CAATATATA
1371007 TATATAT
1 TATATAT
1371014 ATATATAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
24 1 0.04
25 14 0.52
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (23 bp):
TATATATGCATATACAATATATA
Found at i:1371829 original size:21 final size:21
Alignment explanation
Indices: 1371791--1371831 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1371781 TTAATAAGAT
* **
1371791 AATATAATTTAATTTATATTA
1 AATATAAATTAAAATATATTA
1371812 AATATAAATTAAAATATATT
1 AATATAAATTAAAATATATT
1371832 TGTTCAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATAAATTAAAATATATTA
Found at i:1372452 original size:2 final size:2
Alignment explanation
Indices: 1372445--1372476 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1372435 TTATCAATTG
*
1372445 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1372477 TTCAAGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1382209 original size:14 final size:15
Alignment explanation
Indices: 1382190--1382218 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1382180 CACCTTTAAG
1382190 ATTTAAAA-TAAAAA
1 ATTTAAAAGTAAAAA
1382204 ATTTAAAAGTAAAAA
1 ATTTAAAAGTAAAAA
1382219 TCTTTTCGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
ATTTAAAAGTAAAAA
Found at i:1383855 original size:48 final size:48
Alignment explanation
Indices: 1383763--1383857 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
1383753 AAAACAAACG
* * * *
1383763 TATAATAATTTATTAACATGATATTTATTCTTAGAGTGAGTGTAGTGC
1 TATAATAATTAATTAACATAACATTTATTCTTAGAGTGAATGTAGTGC
1383811 TATAATAATTCAATT-ACATAACATTTATTCTTAGAGT-ATATGTAGTG
1 TATAATAATT-AATTAACATAACATTTATTCTTAGAGTGA-ATGTAGTG
1383858 GTTGAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 1 0.02
48 37 0.90
49 3 0.07
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (48 bp):
TATAATAATTAATTAACATAACATTTATTCTTAGAGTGAATGTAGTGC
Found at i:1396586 original size:24 final size:22
Alignment explanation
Indices: 1396543--1396586 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
1396533 CCTGTGCTAA
*
1396543 CATATTGGAGAATCTGTTAAAG
1 CATATTGGAGAAGCTGTTAAAG
*
1396565 CATATTAGGAAGAAGCTTTTAA
1 CATATT-GG-AGAAGCTGTTAA
1396587 GTTTGTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 2 0.11
24 10 0.56
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (22 bp):
CATATTGGAGAAGCTGTTAAAG
Found at i:1397187 original size:3 final size:3
Alignment explanation
Indices: 1397179--1397226 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
1397169 TAGTAGCAAT
*
1397179 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1397225 TT
1 TT
1397227 TTTGGTAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1397546 original size:24 final size:25
Alignment explanation
Indices: 1397519--1397570 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1397509 TTAAAATGTA
* *
1397519 AAAAATATATATAT-TTAAAATAAT
1 AAAAATATAGATATATAAAAATAAT
* *
1397543 AAAAGTTTAGATATATAAAAATAAT
1 AAAAATATAGATATATAAAAATAAT
1397568 AAA
1 AAA
1397571 GTTATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAAATATAGATATATAAAAATAAT
Found at i:1403348 original size:2 final size:2
Alignment explanation
Indices: 1403337--1403369 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1403327 AGGCGGAGAT
1403337 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1403370 AGGCCAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1408270 original size:21 final size:20
Alignment explanation
Indices: 1408246--1408313 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
1408236 TGCTGCTGAG
* *
1408246 GCTGCTGCTGTTGTTGTAATT
1 GCTGCTGCTGCTGTTGT-GTT
*
1408267 GCTGCTGTTGCTGTTGCTGTT
1 GCTGCTGCTGCTGTTG-TGTT
*
1408288 GCTGCTGCAGCTGTTGTTGTT
1 GCTGCTGCTGCTGTTG-TGTT
1408309 GCTGC
1 GCTGC
1408314 AAAAATTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.04, C:0.19, G:0.32, T:0.44
Consensus pattern (20 bp):
GCTGCTGCTGCTGTTGTGTT
Found at i:1408860 original size:3 final size:3
Alignment explanation
Indices: 1408852--1408916 Score: 67
Period size: 3 Copynumber: 21.7 Consensus size: 3
1408842 TGCTGTTGTG
* * * * * * *
1408852 GCT GCT GCT GCT GTT GTT GCA GTT GCT GCT GCT GCT GTT GCT GTT GTT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
1408900 GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GC
1408917 AACATCTGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.02, C:0.25, G:0.34, T:0.40
Consensus pattern (3 bp):
GCT
Found at i:1408878 original size:21 final size:21
Alignment explanation
Indices: 1408854--1408909 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1408844 CTGTTGTGGC
*
1408854 TGCTGCTGCTGTTGTTGCAGT
1 TGCTGCTGCTGCTGTTGCAGT
*
1408875 TGCTGCTGCTGCTGTTGCTGT
1 TGCTGCTGCTGCTGTTGCAGT
*
1408896 TGTTGCTGCTGCTG
1 TGCTGCTGCTGCTG
1408910 CTGCTGCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.02, C:0.21, G:0.34, T:0.43
Consensus pattern (21 bp):
TGCTGCTGCTGCTGTTGCAGT
Found at i:1408879 original size:24 final size:24
Alignment explanation
Indices: 1408852--1408912 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
1408842 TGCTGTTGTG
*
1408852 GCTGCTGCTGCTGTTGTTGCAGTT
1 GCTGCTGCTGCTGTTGCTGCAGTT
**
1408876 GCTGCTGCTGCTGTTGCTGTTGTT
1 GCTGCTGCTGCTGTTGCTGCAGTT
1408900 GCTGCTGCTGCTG
1 GCTGCTGCTGCTG
1408913 CTGCAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.02, C:0.23, G:0.34, T:0.41
Consensus pattern (24 bp):
GCTGCTGCTGCTGTTGCTGCAGTT
Found at i:1408915 original size:21 final size:21
Alignment explanation
Indices: 1408841--1408912 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
1408831 GCATTTGTGC
*
1408841 CTGCTGTTGTGGCTGCTGCTG
1 CTGCTGTTGTTGCTGCTGCTG
*
1408862 CTGTTGTTGCAGTTGCTGCTGCTG
1 CTGCTGTT---GTTGCTGCTGCTG
* * *
1408886 CTGTTGCTGTTGTTGCTGCTG
1 CTGCTGTTGTTGCTGCTGCTG
1408907 CTGCTG
1 CTGCTG
1408913 CTGCAACATC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 24 0.56
24 19 0.44
ACGTcount: A:0.01, C:0.22, G:0.35, T:0.42
Consensus pattern (21 bp):
CTGCTGTTGTTGCTGCTGCTG
Found at i:1409108 original size:6 final size:6
Alignment explanation
Indices: 1409109--1409135 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1409099 TTGTGGTTGT
1409109 TGTGGC TGTGGC TGTGGC TGTGGC TGT
1 TGTGGC TGTGGC TGTGGC TGTGGC TGT
1409136 AGTGGTTGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.48, T:0.37
Consensus pattern (6 bp):
TGTGGC
Found at i:1415589 original size:5 final size:5
Alignment explanation
Indices: 1415579--1415607 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1415569 TAAAACTACG
1415579 TGGGT TGGGT TGGGT TGGGT TGGGT TGGG
1 TGGGT TGGGT TGGGT TGGGT TGGGT TGGG
1415608 GTTGAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (5 bp):
TGGGT
Found at i:1435037 original size:18 final size:18
Alignment explanation
Indices: 1434993--1435037 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1434983 ATATATTTAT
*
1434993 ATATATTTTATTAAATTA
1 ATATTTTTTATTAAATTA
* *
1435011 ATAATTTTTATTATATTA
1 ATATTTTTTATTAAATTA
1435029 ATATTTTTT
1 ATATTTTTT
1435038 CGTGCCACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTTTATTAAATTA
Found at i:1435350 original size:24 final size:23
Alignment explanation
Indices: 1435313--1435359 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1435303 ATAAATTTAA
*
1435313 TATTTATATTAAATATATAATAT
1 TATTTAAATTAAATATATAATAT
*
1435336 TATTTAAATTTAAATATATCATAT
1 TATTTAAA-TTAAATATATAATAT
1435360 AATATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTAAATTAAATATATAATAT
Found at i:1439769 original size:34 final size:34
Alignment explanation
Indices: 1439726--1439791 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
1439716 AATCTCAGCC
1439726 GAAATAGTATGACAAGAAGTAAAATAAGGGTGCT
1 GAAATAGTATGACAAGAAGTAAAATAAGGGTGCT
*
1439760 GAAATAGTATGACAAGAAGTAATATAAGGGTG
1 GAAATAGTATGACAAGAAGTAAAATAAGGGTG
1439792 AAGCAAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.27, T:0.21
Consensus pattern (34 bp):
GAAATAGTATGACAAGAAGTAAAATAAGGGTGCT
Found at i:1441744 original size:10 final size:10
Alignment explanation
Indices: 1441710--1441764 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
1441700 TATTTTATTA
1441710 TAATTT-TAT
1 TAATTTATAT
*
1441719 TAAATTTATAAA
1 T-AATTTAT-AT
1441731 TAATTTATAT
1 TAATTTATAT
1441741 TAATATTAT-T
1 TAAT-TTATAT
*
1441751 TAATATATAT
1 TAATTTATAT
1441761 TAAT
1 TAAT
1441765 ATGATAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.11
10 20 0.53
11 12 0.32
12 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTTATAT
Found at i:1441749 original size:22 final size:22
Alignment explanation
Indices: 1441709--1441776 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 22
1441699 TTATTTTATT
1441709 ATAATTT-TATTAA-ATTTATAA
1 ATAATTTATATTAATA-TTATAA
1441730 ATAATTTATATTAATATTAT--
1 ATAATTTATATTAATATTATAA
* * *
1441750 TTAATATATATTAATATGATAA
1 ATAATTTATATTAATATTATAA
*
1441772 TTAAT
1 ATAAT
1441777 ATTAAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 17 0.43
21 7 0.17
22 15 0.38
23 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
ATAATTTATATTAATATTATAA
Found at i:1441774 original size:12 final size:10
Alignment explanation
Indices: 1441731--1441778 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
1441721 AATTTATAAA
*
1441731 TAATTTATAT
1 TAATATATAT
1441741 TAATAT-TATT
1 TAATATATA-T
1441751 TAATATATAT
1 TAATATATAT
1441761 TAATATGATAAT
1 TAATAT-AT-AT
1441773 TAATAT
1 TAATAT
1441779 TAAATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 2 0.06
10 19 0.58
11 4 0.12
12 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TAATATATAT
Found at i:1441778 original size:22 final size:21
Alignment explanation
Indices: 1441716--1441778 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1441706 ATTATAATTT
* * *
1441716 TATTAAATTTATAAATAATTTA
1 TATT-AATATATAATTAATATA
*
1441738 TATTAATAT-TATTTAATATA
1 TATTAATATATAATTAATATA
1441758 TATTAATATGATAATTAATAT
1 TATTAATAT-ATAATTAATAT
1441779 TAAATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 4 0.12
22 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTAATATATAATTAATATA
Found at i:1441900 original size:13 final size:14
Alignment explanation
Indices: 1441867--1441906 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1441857 AATTATATCT
*
1441867 TAATATTTATTTAA
1 TAATATTTATATAA
*
1441881 TAATATTAATATAA
1 TAATATTTATATAA
1441895 -AATATTTATATA
1 TAATATTTATATA
1441907 TTTAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTTATATAA
Found at i:1441921 original size:28 final size:29
Alignment explanation
Indices: 1441890--1441959 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
1441880 ATAATATTAA
1441890 TATAAAATATTTATATA-TTTAATAAAAT
1 TATAAAATATTTATATATTTTAATAAAAT
* * * *
1441918 TATAATATAATTATTTATTTTAATAAATT
1 TATAAAATATTTATATATTTTAATAAAAT
*
1441947 TTTAAAATATTTA
1 TATAAAATATTTA
1441960 ATTTAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 14 0.41
29 20 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TATAAAATATTTATATATTTTAATAAAAT
Found at i:1443133 original size:21 final size:21
Alignment explanation
Indices: 1443085--1443147 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1443075 AATTCGATGT
** *
1443085 TATTTAAATTATAATAT-AAT
1 TATTTAAAAAATAATATAAAA
*
1443105 TA-TT-AAAATTAATTATAAAA
1 TATTTAAAAAATAA-TATAAAA
1443125 TATTTAAAAAATAATATAAAA
1 TATTTAAAAAATAATATAAAA
1443146 TA
1 TA
1443148 AAATTTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.15
19 5 0.15
20 6 0.18
21 11 0.32
22 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTTAAAAAATAATATAAAA
Found at i:1443146 original size:10 final size:11
Alignment explanation
Indices: 1443091--1443148 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
1443081 ATGTTATTTA
*
1443091 AATTATAATAT
1 AATTATAAAAT
1443102 AATTATTAAAATT
1 AATTA-TAAAA-T
1443115 AATTATAAAAT
1 AATTATAAAAT
* *
1443126 ATTTAAAAAAT
1 AATTATAAAAT
1443137 AA-TATAAAAT
1 AATTATAAAAT
1443147 AA
1 AA
1443149 AATTTATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 9 0.22
11 16 0.40
12 9 0.22
13 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:1443228 original size:28 final size:28
Alignment explanation
Indices: 1443184--1443239 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1443174 TATTAATATT
*
1443184 AATATTAAATTTAATAAATTAAATTTAA
1 AATATTAAATTTAATAAATTAAAATTAA
* *
1443212 AATA-TAAATTTTTATAATTTAAAATTAA
1 AATATTAAA-TTTAATAAATTAAAATTAA
1443240 TTTAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATTAAATTTAATAAATTAAAATTAA
Found at i:1444370 original size:14 final size:15
Alignment explanation
Indices: 1444351--1444388 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1444341 TTTTTAGCTG
1444351 ATAATTATA-AATTA
1 ATAATTATATAATTA
*
1444365 ATAATTAAATAATTA
1 ATAATTATATAATTA
1444380 AT-ATTATAT
1 ATAATTATAT
1444389 TTATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTATATAATTA
Found at i:1450257 original size:13 final size:13
Alignment explanation
Indices: 1450239--1450263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1450229 TAATATTTTT
1450239 ATGTATTTATATC
1 ATGTATTTATATC
1450252 ATGTATTTATAT
1 ATGTATTTATAT
1450264 TTTATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGTATTTATATC
Found at i:1450687 original size:23 final size:22
Alignment explanation
Indices: 1450655--1450717 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
1450645 TTTTATTAAA
1450655 AAAATTAAATTAAATATTTTTT
1 AAAATTAAATTAAATATTTTTT
1450677 AAAATTAAAATTAAAATTTATTTTTT
1 AAAATT-AAATT-AAA--TATTTTTT
*
1450703 -ATATTAAATTAAATA
1 AAAATTAAATTAAATA
1450718 ATTAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 8 0.22
24 8 0.22
25 4 0.11
26 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATTAAATTAAATATTTTTT
Found at i:1450698 original size:26 final size:24
Alignment explanation
Indices: 1450656--1450736 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 24
1450646 TTTATTAAAA
1450656 AAATTAAATT-AAA--TATTTTTT
1 AAATTAAATTAAAATTTATTTTTT
1450677 AAAATTAAAATTAAAATTTATTTTTT
1 -AAATT-AAATTAAAATTTATTTTTT
* *
1450703 ATATTAAATTAAATAATTAATTTTTT
1 AAATTAAATT-AA-AATTTATTTTTT
1450729 AAATTAAA
1 AAATTAAA
1450737 AAATTTTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.10
23 5 0.10
24 8 0.16
25 6 0.12
26 26 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTAAATTAAAATTTATTTTTT
Found at i:1450810 original size:58 final size:58
Alignment explanation
Indices: 1450677--1450810 Score: 132
Period size: 59 Copynumber: 2.3 Consensus size: 58
1450667 AATATTTTTT
* * *
1450677 AAAATTAAAATTAAAATTTATTTTTTATATTAAATTAAATAATTAATTTTTTAAATTAA
1 AAAATTAAAATT-AATTTTAATTTTTATATTAAATTAAAAAATTAATTTTTTAAATTAA
* * *
1450736 AAAATTTTATAA-TAATTTTAATTTTT-TATTAATTTAAAAATATTTA-TTTTTATAA-TATA
1 AAAA--TTAAAATTAATTTTAATTTTTATATTAAATTAAAAA-ATTAATTTTTTA-AATTA-A
1450795 AAAATTAAAATTAATT
1 AAAATTAAAATTAATT
1450811 AAAAAATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
57 5 0.08
58 25 0.40
59 26 0.42
60 1 0.02
61 5 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (58 bp):
AAAATTAAAATTAATTTTAATTTTTATATTAAATTAAAAAATTAATTTTTTAAATTAA
Found at i:1454119 original size:182 final size:183
Alignment explanation
Indices: 1453593--1454145 Score: 1000
Period size: 183 Copynumber: 3.0 Consensus size: 183
1453583 TTAATGATAT
*
1453593 GAAGAAGCATAATTTTTTTTACCATTTAAATCAGTTAATCTAAATATGCAAATTGGGTAACTCTC
1 GAAGAAGCAT-ATTTTTTTTACCATTTAAATCAGTTAATCTAAATATACAAATTGGGTAACTCTC
*
1453658 ACAAGCTCCATTATAGACAATTGACATAAAATTCATCCAGGAAAGTTCCACAAATCCCAGAAAAA
65 AAAAGCTCCATTATAGACAATTGACATAAAATTCATCCAGGAAAGTTCCACAAATCCCAGAAAAA
*
1453723 GAAAGAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
130 GAAAAAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
1453777 GAAGAAGCATATTTTTTTTACCATTTAAATCAGTTAATCTAAATATACAAATTGGGTAACTCTCA
1 GAAGAAGCATATTTTTTTTACCATTTAAATCAGTTAATCTAAATATACAAATTGGGTAACTCTCA
* *
1453842 AAAGCTCCATCATAGACAATTGACATAAAATTCTTCCAGGAAAGTTCCACAAATCCCAGAAAAAG
66 AAAGCTCCATTATAGACAATTGACATAAAATTCATCCAGGAAAGTTCCACAAATCCCAGAAAAAG
1453907 AAAAAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
131 AAAAAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
* *
1453960 GAAGAGGCATATTTTTTTTACCATTTAAATCAGTTAAGCTAAATATACAAATTGGGTAACTCTCA
1 GAAGAAGCATATTTTTTTTACCATTTAAATCAGTTAATCTAAATATACAAATTGGGTAACTCTCA
*
1454025 AAAGCTCCATTATAGACAATTGACATAAAATTCATACAGGAAAGTTCCAC-AATCCCAGAAAAAG
66 AAAGCTCCATTATAGACAATTGACATAAAATTCATCCAGGAAAGTTCCACAAATCCCAGAAAAAG
* *
1454089 AAAAAGAAAAAAGCCGTCTTATAATTTAGAAAACAATGATCAGCCCAGTTTGG
131 AAAAAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
1454142 GAAG
1 GAAG
1454146 GATTAGTTAG
Statistics
Matches: 357, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 69 0.19
183 278 0.78
184 10 0.03
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (183 bp):
GAAGAAGCATATTTTTTTTACCATTTAAATCAGTTAATCTAAATATACAAATTGGGTAACTCTCA
AAAGCTCCATTATAGACAATTGACATAAAATTCATCCAGGAAAGTTCCACAAATCCCAGAAAAAG
AAAAAGAAAAAAGCCATCTTATAATTTAGAAAACAATGATCAGCCCAGTGTGG
Found at i:1455125 original size:43 final size:43
Alignment explanation
Indices: 1455064--1455148 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
1455054 ACACAGTTGT
1455064 AAGGTGCAACAGGTTTGGCAACTATGCCGTTTTCTAAAAATAA
1 AAGGTGCAACAGGTTTGGCAACTATGCCGTTTTCTAAAAATAA
1455107 AAGGTGCAACAGGTTTGGCAACTATGCCGTTTTCTAAAAATA
1 AAGGTGCAACAGGTTTGGCAACTATGCCGTTTTCTAAAAATA
1455149 TTACATTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (43 bp):
AAGGTGCAACAGGTTTGGCAACTATGCCGTTTTCTAAAAATAA
Found at i:1458239 original size:25 final size:25
Alignment explanation
Indices: 1458188--1458240 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
1458178 TATATAAATA
* *
1458188 ATTTTATTTTTAAATATTATATCAT
1 ATTTTATATTTAAATATAATATCAT
*
1458213 ATTTTATATTTATATATAAATAT-AT
1 ATTTTATATTTAAATAT-AATATCAT
1458238 ATT
1 ATT
1458241 AAACATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTATATTTAAATATAATATCAT
Found at i:1460402 original size:2 final size:2
Alignment explanation
Indices: 1460395--1460422 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1460385 AATTATTCTG
1460395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1460423 ATTGCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1462132 original size:203 final size:204
Alignment explanation
Indices: 1461755--1462156 Score: 770
Period size: 203 Copynumber: 2.0 Consensus size: 204
1461745 AATTTACAGC
*
1461755 GCTGATAAAAACGACTATCAATAATCAAGCAACTGGCCAATCACTTGAAAATTGAAAATTTTTCA
1 GCTGATAAAAACGACTATCAATAATCAAGCAACTGGCCAATCACTTGAAAATTGAAAAATTTTCA
*
1461820 GTTTTCTTCCTCGTGAAATCTCAAAAGACGTATCCATCTACAACTCCTACTTGAAACTTTATAGA
66 GTTTTCTTCCACGTGAAATCTCAAAAGACGTATCCATCTACAACTCCTACTTGAAACTTTATAGA
1461885 ATCAAATCAAACTTCTAACTGATAACTTCCCCTAATTATTGGCTGATTATTAACTAATACATGGA
131 ATCAAATCAAACTTCTAACTGATAACTTCCCCTAATTATTGGCTGATTATTAACTAATACATGGA
1461950 TCCGCCAGT
196 TCCGCCAGT
*
1461959 GCTGATAAAAACGACTATCATTAATCAAGCAACTGGCCAATCACTTGAAAATTGAAAAATTTTCA
1 GCTGATAAAAACGACTATCAATAATCAAGCAACTGGCCAATCACTTGAAAATTGAAAAATTTTCA
1462024 GTTTTCTTCCACGTGAAATCTC-AAAGACGTATCCATCTACAACTCCTACTTGAAACTTTATAGA
66 GTTTTCTTCCACGTGAAATCTCAAAAGACGTATCCATCTACAACTCCTACTTGAAACTTTATAGA
1462088 ATCAAATCAAACTTCTAACTGATAACTTCCCCTAATTATTGGCTGATTATTAACTAATACATGGA
131 ATCAAATCAAACTTCTAACTGATAACTTCCCCTAATTATTGGCTGATTATTAACTAATACATGGA
1462153 TCCG
196 TCCG
1462157 TCCTAAAAGA
Statistics
Matches: 195, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
203 111 0.57
204 84 0.43
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (204 bp):
GCTGATAAAAACGACTATCAATAATCAAGCAACTGGCCAATCACTTGAAAATTGAAAAATTTTCA
GTTTTCTTCCACGTGAAATCTCAAAAGACGTATCCATCTACAACTCCTACTTGAAACTTTATAGA
ATCAAATCAAACTTCTAACTGATAACTTCCCCTAATTATTGGCTGATTATTAACTAATACATGGA
TCCGCCAGT
Found at i:1463102 original size:32 final size:31
Alignment explanation
Indices: 1463066--1463199 Score: 126
Period size: 32 Copynumber: 4.2 Consensus size: 31
1463056 TAAAAAAATT
* *
1463066 AATAATTCAAATTCAAATTGATTCGAACTTGA
1 AATAATTCGAATTCAAA-TGATTCGAATTTGA
* * *
1463098 AATAATTCGAATTTAAAATGATCCGAATTTAA
1 AATAATTCGAA-TTCAAATGATTCGAATTTGA
*
1463130 AATAATTCGAATCTGAAATGATTCGAATTTGA
1 AATAATTCGAAT-TCAAATGATTCGAATTTGA
* * * *
1463162 AATGACTCGAATTCGAAAT-AATCTGAATTTAA
1 AATAATTCGAATTC-AAATGATTC-GAATTTGA
1463194 AATAAT
1 AATAAT
1463200 ACAAATAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
31 5 0.06
32 73 0.88
33 5 0.06
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (31 bp):
AATAATTCGAATTCAAATGATTCGAATTTGA
Found at i:1463105 original size:16 final size:16
Alignment explanation
Indices: 1463086--1463199 Score: 113
Period size: 16 Copynumber: 7.1 Consensus size: 16
1463076 ATTCAAATTG
*
1463086 ATTCGAACTTGAAATA
1 ATTCGAATTTGAAATA
* *
1463102 ATTCGAATTTAAAATG
1 ATTCGAATTTGAAATA
* *
1463118 ATCCGAATTTAAAATA
1 ATTCGAATTTGAAATA
* *
1463134 ATTCGAATCTGAAATG
1 ATTCGAATTTGAAATA
*
1463150 ATTCGAATTTGAAATG
1 ATTCGAATTTGAAATA
* *
1463166 ACTCGAATTCGAAATA
1 ATTCGAATTTGAAATA
*
1463182 A-TCTGAATTTAAAATA
1 ATTC-GAATTTGAAATA
1463198 AT
1 AT
1463200 ACAAATAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
15 2 0.02
16 79 0.98
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (16 bp):
ATTCGAATTTGAAATA
Found at i:1463147 original size:48 final size:48
Alignment explanation
Indices: 1463075--1463183 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
1463065 TAATAATTCA
* *
1463075 AATTCAAATTGATTCGAACTTGAAATAATTCGAATTTAAAATGA-TCCG
1 AATTCAAAATAATTCGAACTTGAAATAATTCGAATTTAAAATGACT-CG
* * *
1463123 AATTTAAAATAATTCGAA-TCTGAAATGATTCGAATTTGAAATGACTCG
1 AATTCAAAATAATTCGAACT-TGAAATAATTCGAATTTAAAATGACTCG
*
1463171 AATTCGAAATAAT
1 AATTCAAAATAAT
1463184 CTGAATTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 1 0.02
48 50 0.96
49 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (48 bp):
AATTCAAAATAATTCGAACTTGAAATAATTCGAATTTAAAATGACTCG
Found at i:1463851 original size:14 final size:15
Alignment explanation
Indices: 1463831--1463881 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
1463821 ATAATTTAAG
1463831 ATATATTTTAATATT
1 ATATATTTTAATATT
*
1463846 -TATATTATAATATT
1 ATATATTTTAATATT
* *
1463860 ATATATGTTAAATAAT
1 ATATAT-TTTAATATT
1463876 ATATAT
1 ATATAT
1463882 AAATATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 13 0.43
15 5 0.17
16 12 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATATATTTTAATATT
Found at i:1463907 original size:9 final size:9
Alignment explanation
Indices: 1463877--1463909 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1463867 TTAAATAATA
1463877 TATATAAA-
1 TATATAAAT
*
1463885 TATAAAAAT
1 TATATAAAT
1463894 TATATAAAT
1 TATATAAAT
1463903 TATATAA
1 TATATAA
1463910 TTAAAAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAT
Found at i:1463986 original size:17 final size:18
Alignment explanation
Indices: 1463951--1463988 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1463941 ACTCAACATA
1463951 TTTTATAAAAGTTTAATT
1 TTTTATAAAAGTTTAATT
1463969 TTTTATATAAA-TTT-ATT
1 TTTTATA-AAAGTTTAATT
1463986 TTT
1 TTT
1463989 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 10 0.53
19 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTATAAAAGTTTAATT
Found at i:1464001 original size:16 final size:16
Alignment explanation
Indices: 1463948--1464005 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
1463938 TATACTCAAC
1463948 ATATTTTATAAAAGTTTA
1 ATATTTT-TAAAA-TTTA
*
1463966 AT-TTTTTATATAAATT-
1 ATATTTTTA-A-AATTTA
1463982 -TATTTTTAAAATTTA
1 ATATTTTTAAAATTTA
1463997 ATATTTTTA
1 ATATTTTTA
1464006 TCTAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 16 0.48
17 7 0.21
18 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATATTTTTAAAATTTA
Found at i:1464004 original size:32 final size:29
Alignment explanation
Indices: 1463948--1464028 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 29
1463938 TATACTCAAC
1463948 ATATTTTATAAAAGTTTAATTTTTTATATAA
1 ATATTTT-TAAAA-TTTAATTTTTTATATAA
*
1463979 ATTTATTTTTAAAATTTAATATTTTTATCTAA
1 A--TATTTTTAAAATTTAAT-TTTTTATATAA
1464011 ATATTTTTAAAATATTAA
1 ATATTTTTAAAAT-TTAA
1464029 ATAAATATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
30 12 0.27
31 11 0.24
32 16 0.36
33 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (29 bp):
ATATTTTTAAAATTTAATTTTTTATATAA
Found at i:1467379 original size:2 final size:2
Alignment explanation
Indices: 1467372--1467399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1467362 AGGCGCATAG
1467372 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
1467400 CAAAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1470578 original size:26 final size:26
Alignment explanation
Indices: 1470549--1470631 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
1470539 TAATGATTGT
1470549 ATTTTATTAAATATAATAAATAAAAA
1 ATTTTATTAAATATAATAAATAAAAA
** * * *
1470575 ATTTTATTATTTTTAATATATAATGAAG
1 ATTTTATTAAATATAATAAATAA--AAA
* *
1470603 ATATTATTAAATATAATAATTTAAAAA
1 ATTTTATTAAATATAATAA-ATAAAAA
1470630 AT
1 AT
1470632 ATTTTTCGAA
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
26 19 0.45
27 4 0.10
28 16 0.38
29 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTTATTAAATATAATAAATAAAAA
Found at i:1472295 original size:17 final size:17
Alignment explanation
Indices: 1472273--1472306 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1472263 TTAATAATAT
1472273 TATTAAAATATTTTTTA
1 TATTAAAATATTTTTTA
*
1472290 TATTAATATATTTTTTA
1 TATTAAAATATTTTTTA
1472307 AATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTAAAATATTTTTTA
Found at i:1472297 original size:29 final size:29
Alignment explanation
Indices: 1472247--1472310 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
1472237 AAATAATTTA
1472247 AAAATATGTTTTATTATTAATAATATTATT
1 AAAATATGTTTTATTATTAAT-ATATTATT
* *
1472277 AAAATATTTTTTA-TATTAATATATTTTT
1 AAAATATGTTTTATTATTAATATATTATT
*
1472305 TAAATA
1 AAAATA
1472311 AATTTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
AAAATATGTTTTATTATTAATATATTATT
Found at i:1472343 original size:25 final size:22
Alignment explanation
Indices: 1472294--1472346 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 22
1472284 TTTTTATATT
1472294 AATATATTTTTTAAATAAATTTA
1 AATA-ATTTTTTAAATAAATTTA
1472317 AATAATTTTATTAAATATTAATTTA
1 AATAATTTT-TTAAATA--AATTTA
1472342 AATAA
1 AATAA
1472347 AATAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
25 11 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATTTTTTAAATAAATTTA
Found at i:1472359 original size:36 final size:35
Alignment explanation
Indices: 1472290--1472360 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
1472280 ATATTTTTTA
* * *
1472290 TATTAATATATTTTTTAAATAAATTTAAATAATTT
1 TATTAATATATTATTTAAATAAAATAAAATAATTT
1472325 TATTAA-ATATTAATTTAAATAAAATAAAATTAATTT
1 TATTAATATATT-ATTTAAATAAAATAAAA-TAATTT
1472361 AAATTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.16
35 20 0.65
36 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
TATTAATATATTATTTAAATAAAATAAAATAATTT
Found at i:1472372 original size:40 final size:41
Alignment explanation
Indices: 1472306--1472384 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
1472296 TATATTTTTT
* *
1472306 AAATAAATTTAAATAATTTTATTAAATA-TTAATTTAAATA
1 AAATAAAATTAAATAAATTTATTAAATATTTAATTTAAATA
* *
1472346 AAATAAAATTAATTTAAATTTA-TAAATATTTTATTTAAA
1 AAATAAAATTAA-ATAAATTTATTAAATATTTAATTTAAA
1472385 ACTCAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.52
41 16 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (41 bp):
AAATAAAATTAAATAAATTTATTAAATATTTAATTTAAATA
Found at i:1472706 original size:3 final size:3
Alignment explanation
Indices: 1472700--1472735 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
1472690 AATAATAATA
1472700 ATT ATT ATT ATT ATT ATAT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT
1472736 AATAGTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1472723 original size:16 final size:16
Alignment explanation
Indices: 1472702--1472732 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1472692 TAATAATAAT
1472702 TATTATTATTATTATA
1 TATTATTATTATTATA
1472718 TATTATTATTATTAT
1 TATTATTATTATTAT
1472733 TATAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATTATTATTATA
Found at i:1472724 original size:19 final size:19
Alignment explanation
Indices: 1472700--1472736 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1472690 AATAATAATA
1472700 ATTATTATTATTATTATAT
1 ATTATTATTATTATTATAT
1472719 ATTATTATTATTATTATA
1 ATTATTATTATTATTATA
1472737 ATAGTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTATTATTATTATTATAT
Found at i:1487671 original size:17 final size:17
Alignment explanation
Indices: 1487649--1487683 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1487639 ATTCATATAC
1487649 TTGGAACATGTCTTTAT
1 TTGGAACATGTCTTTAT
1487666 TTGGAACATGTCTTTAT
1 TTGGAACATGTCTTTAT
1487683 T
1 T
1487684 CTTTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (17 bp):
TTGGAACATGTCTTTAT
Found at i:1490429 original size:77 final size:77
Alignment explanation
Indices: 1490346--1490505 Score: 259
Period size: 77 Copynumber: 2.1 Consensus size: 77
1490336 TAATATAATA
**
1490346 TTTTTTAGTAAAAACGATTCTTATAATTTAAATTTCGAG-GATCAAAAGTTTAGAAATCATCACA
1 TTTTTTAGTAAAAACGATTCTTATAACCTAAATTTCGAGAG-TCAAAAGTTTAGAAATCATCACA
1490410 AACTGTCTAGAAT
65 AACTGTCTAGAAT
* *
1490423 TTTTTTAGTAAAAACGATTCTTATAACCTAAGTTTCGAGAGTCAAAGGTTTAGAAATCATCACAA
1 TTTTTTAGTAAAAACGATTCTTATAACCTAAATTTCGAGAGTCAAAAGTTTAGAAATCATCACAA
*
1490488 ACTGTTTAGAAT
66 ACTGTCTAGAAT
1490500 TTTTTT
1 TTTTTT
1490506 TAGGTTTTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
77 76 0.99
78 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (77 bp):
TTTTTTAGTAAAAACGATTCTTATAACCTAAATTTCGAGAGTCAAAAGTTTAGAAATCATCACAA
ACTGTCTAGAAT
Found at i:1492084 original size:19 final size:19
Alignment explanation
Indices: 1492046--1492104 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
1492036 AATAAAAATC
*
1492046 TATTCATATTATATTTATATA
1 TATTTATATTA-A-TTATATA
*
1492067 TATTTATATTAATTATATT
1 TATTTATATTAATTATATA
* * *
1492086 TATATAAATTTATTATATA
1 TATTTATATTAATTATATA
1492105 AAATTAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 21 0.66
20 1 0.03
21 10 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTATATTAATTATATA
Found at i:1492103 original size:13 final size:15
Alignment explanation
Indices: 1492065--1492106 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1492055 TATATTTATA
*
1492065 TATATTTATATTAAT
1 TATATTTATATAAAT
1492080 TATATTTATATAAAT
1 TATATTTATATAAAT
1492095 T-TA-TTATATAAA
1 TATATTTATATAAA
1492107 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTTATATAAAT
Found at i:1492198 original size:22 final size:21
Alignment explanation
Indices: 1492170--1492217 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1492160 ATTTAAAATT
* *
1492170 TTTTTTATAAAATGTAAATAAA
1 TTTTTTAAAAAAT-AAAATAAA
*
1492192 TTTTTTAAAAAATAAAATTAA
1 TTTTTTAAAAAATAAAATAAA
1492213 TTTTT
1 TTTTT
1492218 ATAGATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTTTAAAAAATAAAATAAA
Found at i:1492264 original size:30 final size:30
Alignment explanation
Indices: 1492207--1492264 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
1492197 TAAAAAATAA
*
1492207 AATTAATTTTTATAGATAATTTTTTAAAAT
1 AATTAATTTTTATAGATAATTTATTAAAAT
1492237 AATTAATTTTT-TA-ATAAATTATATTAAA
1 AATTAATTTTTATAGAT-AATT-TATTAAA
1492265 TTATATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 6 0.24
30 17 0.68
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
AATTAATTTTTATAGATAATTTATTAAAAT
Found at i:1492292 original size:30 final size:32
Alignment explanation
Indices: 1492272--1492352 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 32
1492262 AAATTATATT
*
1492272 TATATTTATATTTTATTATTAGATATTATAAA
1 TATAATTATATTTTATTATTAGATATTATAAA
* * *
1492304 TATAATTATTTTTTATAAATTTA-ATAAT-TAAA
1 TATAATTATATTTTAT-TA-TTAGATATTATAAA
1492336 T-TAATTAT-TTTTATTAT
1 TATAATTATATTTTATTAT
1492353 AATAATGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 6 0.14
31 7 0.17
32 19 0.45
33 5 0.12
34 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
TATAATTATATTTTATTATTAGATATTATAAA
Found at i:1499094 original size:3 final size:3
Alignment explanation
Indices: 1499086--1499110 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1499076 AACATCAATA
1499086 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1499111 TGCGTAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1499364 original size:26 final size:25
Alignment explanation
Indices: 1499328--1499381 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
1499318 AATTATAGAA
1499328 TATTATTTTAATATTTATAAT-TTTTT
1 TATTATTTTAA-A-TTATAATATTTTT
* *
1499354 TATTTTTTTAAATTATGATATTTTT
1 TATTATTTTAAATTATAATATTTTT
1499379 TAT
1 TAT
1499382 GATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 9 0.36
26 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TATTATTTTAAATTATAATATTTTT
Found at i:1501920 original size:148 final size:148
Alignment explanation
Indices: 1501758--1502041 Score: 444
Period size: 148 Copynumber: 1.9 Consensus size: 148
1501748 AATTATTTAA
** *
1501758 GTTTAATGCATTTGTAAATTAAAAATGCTGCTAAGTTAAACGTTTAGTAAGGTTTATTTAGTTAA
1 GTTTAATGCATTTGTAAATTAAAAATGCCACTAAGTTAAACATTTAGTAAGGTTTATTTAGTTAA
* *
1501823 ATACCAC-TAATTGCGCTTTTAAATATTCATAAAATGCCATTTTAACATTGACATTTTATTATTG
66 ATACCACTTAA-TACGCTTTTAAATATTCATAAAATGCCATTTTAACAGTGACATTTTATTATTG
1501887 AAATGTCACTAAGTTAAAC
130 AAATGTCACTAAGTTAAAC
* * * *
1501906 GTTTAGTGCATTTGTAGATTAAAAATGCCACTAAGTTAAATATTTAGTAAGGTTTATTTGGTTAA
1 GTTTAATGCATTTGTAAATTAAAAATGCCACTAAGTTAAACATTTAGTAAGGTTTATTTAGTTAA
** *
1501971 ATGTCACTTAATACGCTTTTAAATATTCATAAAATGTCATTTTAACAGTGACATTTTATTATTGA
66 ATACCACTTAATACGCTTTTAAATATTCATAAAATGCCATTTTAACAGTGACATTTTATTATTGA
1502036 AATGTC
131 AATGTC
1502042 GCTTAGTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
148 120 0.98
149 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (148 bp):
GTTTAATGCATTTGTAAATTAAAAATGCCACTAAGTTAAACATTTAGTAAGGTTTATTTAGTTAA
ATACCACTTAATACGCTTTTAAATATTCATAAAATGCCATTTTAACAGTGACATTTTATTATTGA
AATGTCACTAAGTTAAAC
Found at i:1503060 original size:2 final size:2
Alignment explanation
Indices: 1503055--1503120 Score: 72
Period size: 2 Copynumber: 35.5 Consensus size: 2
1503045 AAGAAACAAC
*
1503055 AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT AT AT A- ACT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
1503095 AT -T A- AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1503121 ATAAAGCTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
1 6 0.11
2 49 0.89
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1503083 original size:22 final size:22
Alignment explanation
Indices: 1503055--1503123 Score: 97
Period size: 22 Copynumber: 3.1 Consensus size: 22
1503045 AAGAAACAAC
1503055 ATATATATATATATATATATTA
1 ATATATATATATATATATATTA
*
1503077 ATATATATATA-ACTTTATATTA
1 ATATATATATATA-TATATATTA
1503099 ATATATATATATATATA-ATATA
1 ATATATATATATATATATAT-TA
1503121 ATA
1 ATA
1503124 AAGCTATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.07
22 38 0.90
23 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATATATATATATATATTA
Found at i:1509015 original size:2 final size:2
Alignment explanation
Indices: 1509008--1509042 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1508998 CAATTGGCCG
1509008 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1509043 TTTAGTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1509736 original size:2 final size:2
Alignment explanation
Indices: 1509729--1509754 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1509719 TTTAGCTGGC
1509729 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1509755 CAAATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1510093 original size:167 final size:165
Alignment explanation
Indices: 1509758--1510069 Score: 536
Period size: 167 Copynumber: 1.9 Consensus size: 165
1509748 ATATATACAA
* *
1509758 ATTTGAATCGAATTGTCATTAAAGTATAGCCTCTCTTGCTTCCTGTCACCTAGAAGAACGACAAA
1 ATTTGAATCAAATTGTCATTAAAGTATAGCCCCTCTTGCTTCCTGTCACCTAGAAGAACGACAAA
1509823 TCTCTCCCTTTCAATAGACTGAGAGACTGCATTTATCCTTAAGCTGCAGTGGTATATCTAAACCA
66 TCTCTCCCTTTCAATAGA--GAGAGACTGCATTTATCCTTAAGCTGCAGTGGTATATCTAAACCA
1509888 AGGCCGCAGTTTGAATGACAGCTAGATATAAATATAT
129 AGGCCGCAGTTTGAATGACAGCTAGATATAAATATAT
** *
1509925 ATTTGAATCAAATTGTCATTAATTTATAGCCCCTCTTGCTTCCTGTCACCTAGAAGAATGACAAA
1 ATTTGAATCAAATTGTCATTAAAGTATAGCCCCTCTTGCTTCCTGTCACCTAGAAGAACGACAAA
* *
1509990 TCTCTCGCTTTCAATAG-GAGAGACTGCATTTATCCTTAAGCTGCAGTGGTATATCTAAACTAAG
66 TCTCTCCCTTTCAATAGAGAGAGACTGCATTTATCCTTAAGCTGCAGTGGTATATCTAAACCAAG
1510054 GCCGCAGTTTGAATGA
131 GCCGCAGTTTGAATGA
1510070 GTAGGTTATT
Statistics
Matches: 138, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
164 62 0.45
167 76 0.55
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (165 bp):
ATTTGAATCAAATTGTCATTAAAGTATAGCCCCTCTTGCTTCCTGTCACCTAGAAGAACGACAAA
TCTCTCCCTTTCAATAGAGAGAGACTGCATTTATCCTTAAGCTGCAGTGGTATATCTAAACCAAG
GCCGCAGTTTGAATGACAGCTAGATATAAATATAT
Found at i:1514888 original size:27 final size:25
Alignment explanation
Indices: 1514851--1514900 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
1514841 ATCCTCTCTC
1514851 ATTTTACAATAA-AAATTAGTCATCA
1 ATTTTACAATAACAAATTA-TCATCA
1514876 ATTTTGACAAATAACAAATTATCAT
1 ATTTT-AC-AATAACAAATTATCAT
1514901 TTTTGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 9 0.41
28 6 0.27
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (25 bp):
ATTTTACAATAACAAATTATCATCA
Found at i:1516017 original size:2 final size:2
Alignment explanation
Indices: 1516012--1516037 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1516002 AAGGTCAAAC
1516012 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
1516038 TATGTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1517914 original size:19 final size:19
Alignment explanation
Indices: 1517892--1517953 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 19
1517882 TTATTTAAAA
1517892 TATATTAAAATATATATTT
1 TATATTAAAATATATATTT
*
1517911 TATATTAATATTAATATATTT
1 TATATTAA-AAT-ATATATTT
*
1517932 TATA-TAAAATTTA-ATTT
1 TATATTAAAATATATATTT
1517949 T-TATT
1 TATATT
1517954 GAATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.05
17 6 0.16
18 2 0.05
19 10 0.27
20 5 0.14
21 12 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTAAAATATATATTT
Found at i:1520982 original size:16 final size:16
Alignment explanation
Indices: 1520957--1520993 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1520947 CATATTACCA
1520957 ATAT-ATAAATT-ATAT
1 ATATAATAAATTAAT-T
1520972 ATATAATAAATTAATT
1 ATATAATAAATTAATT
1520988 ATATAA
1 ATATAA
1520994 CTTACTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 14 0.70
17 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATAAATTAATT
Found at i:1522270 original size:5 final size:6
Alignment explanation
Indices: 1522232--1522269 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
1522222 AATTTAAAAA
1522232 AAATTT AAATTTT AAATTT AAATTT AAATTT -AATTT AA
1 AAATTT AAA-TTT AAATTT AAATTT AAATTT AAATTT AA
1522270 TCAGTCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:1522928 original size:27 final size:26
Alignment explanation
Indices: 1522895--1522961 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
1522885 AATAAAATAA
1522895 TTTATATTTATATAAATTTAATTTAAT
1 TTTATATTTATATAAATTT-ATTTAAT
* * *
1522922 TTTATATATAATTTATATTTATTTAAT
1 TTTATAT-TTATATAAATTTATTTAAT
* *
1522949 TTAATAATTATAT
1 TTTATATTTATAT
1522962 TTTATTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 4 0.12
27 19 0.59
28 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATATTTATATAAATTTATTTAAT
Found at i:1522941 original size:23 final size:22
Alignment explanation
Indices: 1522894--1522969 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
1522884 AAATAAAATA
1522894 ATTTATATTTATATA-AATTTA-
1 ATTTAT-TTTATATATAATTTAT
1522915 ATTTAATTTTATATATAATTTAT
1 ATTT-ATTTTATATATAATTTAT
* *
1522938 ATTTATTTAATTTAATAA-TTAT
1 ATTTATTTTATAT-ATAATTTAT
1522960 ATTTTATTTT
1 A-TTTATTTT
1522970 TTATTTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.26
22 20 0.43
23 15 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATTTTATATATAATTTAT
Found at i:1522967 original size:27 final size:28
Alignment explanation
Indices: 1522890--1522977 Score: 83
Period size: 32 Copynumber: 3.1 Consensus size: 28
1522880 TATAAAATAA
**
1522890 AATAATTTATATTTATATAAATTTAATTT
1 AATAA-TTATATTTATATTTATTTAATTT
*
1522919 AATTTTATATATAATTTATATTTATTTAATTT
1 AA--TAAT-TAT-ATTTATATTTATTTAATTT
1522951 AATAATTATATTT-TATTT-TTT-ATTT
1 AATAATTATATTTATATTTATTTAATTT
1522976 AA
1 AA
1522978 ATAAATAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 6 0.12
26 3 0.06
27 5 0.10
28 4 0.08
29 5 0.10
30 4 0.08
31 5 0.10
32 19 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AATAATTATATTTATATTTATTTAATTT
Found at i:1522989 original size:29 final size:29
Alignment explanation
Indices: 1522939--1523016 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
1522929 ATAATTTATA
* * * **
1522939 TTTATTTAATTTAATAATTATATTTTATTT
1 TTTATTTAAATAAATAA-TATATATTAAAT
1522969 TTTATTTAAATAAATAATATATATTAAAT
1 TTTATTTAAATAAATAATATATATTAAAT
**
1522998 TTTAAATAAATAAA-AATAT
1 TTTATTTAAATAAATAATAT
1523017 TGAATAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.12
29 21 0.51
30 15 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTATTTAAATAAATAATATATATTAAAT
Found at i:1523022 original size:17 final size:17
Alignment explanation
Indices: 1523002--1523049 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
1522992 TTAAATTTTA
1523002 AATAAATAAAAATATTG
1 AATAAATAAAAATATTG
*
1523019 AATAAATAAAAAT-TTT
1 AATAAATAAAAATATTG
* *
1523035 AATAATTAAATATAT
1 AATAAATAAAAATAT
1523050 ATTAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AATAAATAAAAATATTG
Found at i:1523038 original size:16 final size:16
Alignment explanation
Indices: 1522994--1523044 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
1522984 AATATATATT
1522994 AAATTTTAAATAAATAA
1 AAATTTT-AATAAATAA
*
1523011 AAATATTGAATAAATAA
1 AAAT-TTTAATAAATAA
*
1523028 AAATTTTAATAATTAA
1 AAATTTTAATAAATAA
1523044 A
1 A
1523045 TATATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 11 0.37
17 17 0.57
18 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATTTTAATAAATAA
Found at i:1523059 original size:33 final size:36
Alignment explanation
Indices: 1522994--1523069 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 36
1522984 AATATATATT
1522994 AAATTTTAAATAAATAAAAATATTGAATAAAT-A-A
1 AAATTTTAAATAAATAAAAATATTGAATAAATAATA
*
1523028 AAATTTT-AATAATTAAATATATATT-AA-AAATAATA
1 AAATTTTAAATAAATAAA-A-ATATTGAATAAATAATA
1523063 AAATTTT
1 AAATTTT
1523070 TTATCAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 13 0.35
34 11 0.30
35 13 0.35
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
AAATTTTAAATAAATAAAAATATTGAATAAATAATA
Found at i:1523061 original size:21 final size:21
Alignment explanation
Indices: 1523035--1523090 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1523025 TAAAAATTTT
1523035 AATAATTAAATATATATTA-AA
1 AATAATTAAA-ATATATTACAA
* *
1523056 AATAA-TAAAATTTTTTATCAA
1 AATAATTAAAATATATTA-CAA
1523077 AATAATTAAAATAT
1 AATAATTAAAATAT
1523091 CGATCGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 12 0.41
22 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAATTAAAATATATTACAA
Found at i:1523149 original size:21 final size:20
Alignment explanation
Indices: 1523097--1523150 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
1523087 ATATCGATCG
1523097 ATTTAAAAATTATATGTATA
1 ATTTAAAAATTATATGTATA
* *
1523117 ATTATTATAATTATAT-TATTTA
1 ATT-TAAAAATTATATGTA--TA
1523139 ATTTAAAAATTA
1 ATTTAAAAATTA
1523151 ATTTATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTAAAAATTATATGTATA
Found at i:1523290 original size:21 final size:21
Alignment explanation
Indices: 1523266--1523308 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1523256 TTTTATATGA
1523266 TAAAAATATATATAAA-TATTT
1 TAAAAATATATA-AAACTATTT
1523287 TAAAAATATATAAAACTATTT
1 TAAAAATATATAAAACTATTT
1523308 T
1 T
1523309 TATACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATATATAAAACTATTT
Found at i:1523753 original size:3 final size:3
Alignment explanation
Indices: 1523745--1523777 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1523735 TAAGAGACAG
1523745 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1523778 TTCTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1529061 original size:23 final size:23
Alignment explanation
Indices: 1529035--1529079 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1529025 TGACTTTCAT
* *
1529035 CGTATTTTGTGTTGAATTTTAAC
1 CGTATTTTGTGCTAAATTTTAAC
1529058 CGTATTTTGTGCTAAATTTTAA
1 CGTATTTTGTGCTAAATTTTAA
1529080 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (23 bp):
CGTATTTTGTGCTAAATTTTAAC
Found at i:1532905 original size:2 final size:2
Alignment explanation
Indices: 1532898--1532937 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1532888 CCACTATTGC
* *
1532898 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1532938 CTATCACAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1534919 original size:19 final size:20
Alignment explanation
Indices: 1534895--1534935 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1534885 TTTAATTTAA
1534895 TTTATAATTTTT-T-ATTATT
1 TTTAT-ATTTTTATAATTATT
1534914 TTTATATTTTTATAATTATT
1 TTTATATTTTTATAATTATT
1534934 TT
1 TT
1534936 ATCTAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATATTTTTATAATTATT
Found at i:1536759 original size:2 final size:2
Alignment explanation
Indices: 1536752--1536776 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1536742 GAAACATACG
1536752 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1536777 GATCATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1538091 original size:15 final size:16
Alignment explanation
Indices: 1538066--1538108 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1538056 TTTAATATTT
*
1538066 ATTAAATATAAATA-A
1 ATTAAAAATAAATATA
*
1538081 TTTAAAAATAAATATA
1 ATTAAAAATAAATATA
1538097 ATTAAAATATAA
1 ATTAAAA-ATAA
1538109 TTAAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
16 7 0.30
17 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAAAATAAATATA
Found at i:1538104 original size:11 final size:11
Alignment explanation
Indices: 1538090--1538114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1538080 ATTTAAAAAT
1538090 AAATATAATTA
1 AAATATAATTA
1538101 AAATATAATTA
1 AAATATAATTA
1538112 AAA
1 AAA
1538115 AATGGTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATAATTA
Found at i:1538113 original size:21 final size:21
Alignment explanation
Indices: 1538066--1538113 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
1538056 TTTAATATTT
**
1538066 ATTAAATATAAATAATTTAAA
1 ATTAAATATAAATAAAATAAA
* * *
1538087 AATAAATATAATTAAAATATA
1 ATTAAATATAAATAAAATAAA
1538108 ATTAAA
1 ATTAAA
1538114 AAATGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAATATAAATAAAATAAA
Found at i:1539419 original size:34 final size:33
Alignment explanation
Indices: 1539380--1539449 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 33
1539370 TTAAATTTAA
*
1539380 TTATTTTAAAATATT-ATTTAAATAATA-AACTTTT
1 TTATTTT-AAATATTAATATAAA-AATATAA-TTTT
1539414 TTA-TTTAAATATTAATATAAAAATATAATTTT
1 TTATTTTAAATATTAATATAAAAATATAATTTT
1539446 TTAT
1 TTAT
1539450 ATAATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
32 18 0.56
33 11 0.34
34 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TTATTTTAAATATTAATATAAAAATATAATTTT
Found at i:1539453 original size:20 final size:20
Alignment explanation
Indices: 1539428--1539468 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1539418 TTAAATATTA
*
1539428 ATATAAAAATATAATTTTTT
1 ATATAAAAATATAAATTTTT
*
1539448 ATATAATAATATAAATTTTT
1 ATATAAAAATATAAATTTTT
1539468 A
1 A
1539469 AACTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAAAAATATAAATTTTT
Found at i:1540710 original size:36 final size:36
Alignment explanation
Indices: 1540639--1540710 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
1540629 TGAATTTAGG
* *
1540639 TCAATTATATTTAACACTTGAGTTAATAAGTTTTAA
1 TCAATTAAATTTAACACTTGAGTTAATAAGATTTAA
* * * *
1540675 TCAATTAAATTTAACATTTGGGTTTATTAGATTTAA
1 TCAATTAAATTTAACACTTGAGTTAATAAGATTTAA
1540711 GTTATTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (36 bp):
TCAATTAAATTTAACACTTGAGTTAATAAGATTTAA
Found at i:1546870 original size:23 final size:22
Alignment explanation
Indices: 1546819--1546871 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
1546809 AATATTTAAG
* *
1546819 ATAATTTTTTAAAATTAATATT
1 ATAATTTTTTAAAATTAAAATA
* *
1546841 TTGATTTTTTAAATATTAAAATA
1 ATAATTTTTTAAA-ATTAAAATA
1546864 ATAATTTT
1 ATAATTTT
1546872 GTGCTGAACC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATTTTTTAAAATTAAAATA
Found at i:1547021 original size:36 final size:38
Alignment explanation
Indices: 1546967--1547084 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 38
1546957 ATAAATATAA
*
1546967 TATA-AATAAAATTAAAATATTATAAA-ATA-AAAAATT
1 TATACAATATAATTAAAATATT-TAAATATATAAAAATT
* *
1547003 TAT-CAATATAATTTAAATATTTAAATATATTAAAATT
1 TATACAATATAATTAAAATATTTAAATATATAAAAATT
* * * * *
1547040 TATATAATATAACTTATTAATATATTAAATTTATATAAATA
1 TATACAATATAA-TTA-AAATAT-TTAAATATATAAAAATT
1547081 TATA
1 TATA
1547085 ATACTTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
35 4 0.06
36 21 0.32
37 9 0.14
38 7 0.11
39 2 0.03
40 5 0.08
41 17 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (38 bp):
TATACAATATAATTAAAATATTTAAATATATAAAAATT
Found at i:1547038 original size:10 final size:9
Alignment explanation
Indices: 1547015--1547083 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 9
1547005 TCAATATAAT
1547015 TTAAATAT-
1 TTAAATATA
1547023 TTAAATATA
1 TTAAATATA
1547032 TTAAA-AT-
1 TTAAATATA
*
1547039 TTATATA-A
1 TTAAATATA
*
1547047 TATAACT-TA
1 T-TAAATATA
1547056 TT-AATATA
1 TTAAATATA
*
1547064 TTAAATTTA
1 TTAAATATA
1547073 TATAAATATA
1 T-TAAATATA
1547083 T
1 T
1547084 AATACTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
7 6 0.13
8 17 0.36
9 16 0.34
10 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAATATA
Found at i:1547081 original size:17 final size:17
Alignment explanation
Indices: 1546950--1547081 Score: 52
Period size: 17 Copynumber: 7.8 Consensus size: 17
1546940 CGATATAATT
1546950 ATTTGATATAAATA-T-A
1 ATTT-ATATAAATATTAA
* *
1546966 ATATAAATAAA-ATTAAA
1 ATTTATATAAATATT-AA
**
1546983 ATATTATA-AAATAAAAA
1 AT-TTATATAAATATTAA
1547000 ATTTATCAATATAAT-TTAA
1 ATTTAT--ATA-AATATTAA
1547019 ATATT-TA-AATATATTAAA
1 AT-TTATATAA-ATATT-AA
1547037 ATTTATAT-AATA-T-A
1 ATTTATATAAATATTAA
*
1547051 ACTTAT-TAATATATTAA
1 ATTTATATAA-ATATTAA
1547068 ATTTATATAAATAT
1 ATTTATATAAATAT
1547082 ATAATACTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 39
0.64 0.07 0.29
Matches are distributed among these distances:
13 1 0.01
14 8 0.09
15 11 0.13
16 12 0.14
17 28 0.33
18 15 0.17
19 6 0.07
20 5 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (17 bp):
ATTTATATAAATATTAA
Found at i:1547298 original size:26 final size:27
Alignment explanation
Indices: 1547276--1547326 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1547266 CAAAATATCA
1547276 AAAAATTAATA-AAATATATAATA-AT
1 AAAAATTAATATAAATATATAATATAT
* *
1547301 ATAAATTAATATGAATATATAATATA
1 AAAAATTAATATAAATATATAATATA
1547327 AATTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 11 0.50
27 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAAATTAATATAAATATATAATATAT
Found at i:1547370 original size:28 final size:29
Alignment explanation
Indices: 1547314--1547383 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
1547304 AATTAATATG
* *
1547314 AATATATAATATAAATTTATAAATTTAAA
1 AATATATAATATAAATTTAAAAATCTAAA
1547343 AATATAT-ATATAAA-TTAAAAAGTCTAAA
1 AATATATAATATAAATTTAAAAA-TCTAAA
* *
1547371 ATTATGTAATATA
1 AATATATAATATA
1547384 TACTTATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.17
28 17 0.49
29 12 0.34
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (29 bp):
AATATATAATATAAATTTAAAAATCTAAA
Found at i:1550468 original size:13 final size:13
Alignment explanation
Indices: 1550450--1550479 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1550440 TTTTAAAGAT
1550450 TTTAAAAGGGATA
1 TTTAAAAGGGATA
1550463 TTTAAAAGGGATA
1 TTTAAAAGGGATA
1550476 TTTA
1 TTTA
1550480 GATAGTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (13 bp):
TTTAAAAGGGATA
Found at i:1551262 original size:30 final size:30
Alignment explanation
Indices: 1551215--1551271 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1551205 TTTTTAAATT
1551215 TTTAAAATAAAAGTTTATTT-GTATAAAAA
1 TTTAAAATAAAAGTTTATTTGGTATAAAAA
1551244 TTTAAGAATAATAA-TTTATTTGGTATAA
1 TTTAA-AATAA-AAGTTTATTTGGTATAA
1551272 TAAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 5 0.20
30 12 0.48
31 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTAAAATAAAAGTTTATTTGGTATAAAAA
Found at i:1551639 original size:21 final size:21
Alignment explanation
Indices: 1551614--1551665 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1551604 TATTTTTATT
1551614 TAAATTTAATTAT-AAAATATA
1 TAAATTTAATTATAAAAATA-A
1551635 TAAATATTAA-TATAAAAATAA
1 TAAAT-TTAATTATAAAAATAA
*
1551656 TAATTTTAAT
1 TAAATTTAAT
1551666 ACTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTAATTATAAAAATAA
Found at i:1551666 original size:20 final size:23
Alignment explanation
Indices: 1551614--1551666 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
1551604 TATTTTTATT
1551614 TAAA-TTTAAT-TATAAAATATA
1 TAAATTTTAATATATAAAATATA
*
1551635 TAAATATTAATATA-AAAATA-A
1 TAAATTTTAATATATAAAATATA
1551656 T-AATTTTAATA
1 TAAATTTTAATA
1551667 CTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 9 0.32
21 6 0.21
22 11 0.39
23 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATTTTAATATATAAAATATA
Found at i:1562281 original size:106 final size:106
Alignment explanation
Indices: 1562096--1562415 Score: 597
Period size: 106 Copynumber: 3.0 Consensus size: 106
1562086 GCATGGGAGG
1562096 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTGAG
1 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTGAG
1562161 ATTGTATAATTGTAAGATACAAAATAGTTTTTCTTGATTGA
66 ATTGTATAATTGTAAGATACAAAATAGTTTTTCTTGATTGA
1562202 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTGAG
1 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTGAG
* *
1562267 ATTGTATAGTTGTAAGATACAAAATCGTTTTTCTTGATTGA
66 ATTGTATAATTGTAAGATACAAAATAGTTTTTCTTGATTGA
1562308 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATC-GAA
1 AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTG-A
1562372 GATTGTATAATTGTAAGATACAAAATAGTTTTTTCTTGATTGA
65 GATTGTATAATTGTAAGATACAAAATAG-TTTTTCTTGATTGA
1562415 A
1 A
1562416 GCCTTCCCAA
Statistics
Matches: 208, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
105 1 0.00
106 192 0.92
107 15 0.07
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (106 bp):
AAATTAATCTCCTCTTTTTCCTTTAATTTTTGACAAGAAATGCTTCCTGGTATTGAACATCTGAG
ATTGTATAATTGTAAGATACAAAATAGTTTTTCTTGATTGA
Found at i:1565377 original size:50 final size:50
Alignment explanation
Indices: 1565320--1565417 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
1565310 TTGAGATCAA
* * *
1565320 AGACACATTTTTAGCTTTGCAAAGTAGTGATCGG-AATGTTGTGTTGTAGG
1 AGACACATTTTTAGCCTTGAAAAGTAGTGAT-GGAAATGTTGCGTTGTAGG
1565370 AGACACATTTTTAGCCTTGAAAAGTAGTGATGGAAATGTTGCGTTGTA
1 AGACACATTTTTAGCCTTGAAAAGTAGTGATGGAAATGTTGCGTTGTA
1565418 ATGCTATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.35
Consensus pattern (50 bp):
AGACACATTTTTAGCCTTGAAAAGTAGTGATGGAAATGTTGCGTTGTAGG
Found at i:1565894 original size:24 final size:23
Alignment explanation
Indices: 1565867--1565919 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
1565857 AAAGGTGGTA
1565867 TTATAGAGTTTGATTTTAAAAAAT
1 TTATA-AGTTTGATTTTAAAAAAT
*
1565891 TTATAATTTTGATTTTAAAAAAT
1 TTATAAGTTTGATTTTAAAAAAT
1565914 TTATAA
1 TTATAA
1565920 TTTTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TTATAAGTTTGATTTTAAAAAAT
Found at i:1565924 original size:24 final size:23
Alignment explanation
Indices: 1565875--1565923 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1565865 TATTATAGAG
1565875 TTTGATTTTAAAAAATTTATAAT
1 TTTGATTTTAAAAAATTTATAAT
1565898 TTTGATTTTAAAAAATTTATAAT
1 TTTGATTTTAAAAAATTTATAAT
1565921 TTT
1 TTT
1565924 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTGATTTTAAAAAATTTATAAT
Found at i:1574520 original size:32 final size:32
Alignment explanation
Indices: 1574483--1574548 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
1574473 TTAATTTTAA
* *
1574483 AAATAAATTTTTATATATTAATA-ATTTATTAT
1 AAATAAATTTTAAAATATTAATATATTTA-TAT
*
1574515 AAATAAATTTTAAAATATTTATATATTTATAT
1 AAATAAATTTTAAAATATTAATATATTTATAT
1574547 AA
1 AA
1574549 TAATCCACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AAATAAATTTTAAAATATTAATATATTTATAT
Found at i:1579932 original size:3 final size:3
Alignment explanation
Indices: 1579926--1579964 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1579916 TTTTTTTTTA
1579926 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1579965 CTCTTGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1580452 original size:2 final size:2
Alignment explanation
Indices: 1580445--1580482 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1580435 GAACGTGCTA
1580445 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
1580483 TTCAACATGG
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:1587391 original size:17 final size:17
Alignment explanation
Indices: 1587369--1587456 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
1587359 AAATGAGTAA
*
1587369 TTTTTAAAATTTAAATT
1 TTTTTAATATTTAAATT
*
1587386 TTTTTAATATATAAATAT
1 TTTTTAATATTTAAAT-T
*
1587404 TTTTTAATA-TTATTATT
1 TTTTTAATATTTA-AATT
* *
1587421 TTAATTAAAATTTTAAATT
1 TT-TTTAATA-TTTAAATT
* *
1587440 ATTTTATTATTTAAATT
1 TTTTTAATATTTAAATT
1587457 AATATTTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
17 27 0.49
18 21 0.38
19 4 0.07
20 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATATTTAAATT
Found at i:1587449 original size:30 final size:30
Alignment explanation
Indices: 1587413--1587511 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 30
1587403 TTTTTTAATA
1587413 TTATTATTTTAATTAAAATTTTAAATTATT
1 TTATTATTTTAATTAAAATTTTAAATTATT
* * *
1587443 TTATTATTTAAATTAATA-TTT-AATTAAT
1 TTATTATTTTAATTAAAATTTTAAATTATT
* * * *
1587471 TTATGATATTAATTTAAATATTTAAAATATGT
1 TTATTATTTTAATTAAAAT-TTTAAATTAT-T
*
1587503 TTATAATTT
1 TTATTATTT
1587512 CTTAATTTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 19 0.36
29 3 0.06
30 19 0.36
31 4 0.08
32 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TTATTATTTTAATTAAAATTTTAAATTATT
Found at i:1587517 original size:58 final size:57
Alignment explanation
Indices: 1587399--1587511 Score: 129
Period size: 58 Copynumber: 1.9 Consensus size: 57
1587389 TTAATATATA
* * * * *
1587399 AATATTTTTTAATATTATTATTTTAATTAAAATTTTAAATTATTTTATTATTTAAATT
1 AATATTTATTAATATTATGATATTAATTAAAATTTTAAAATATTTTATAATTT-AATT
*
1587457 AATATTTAATTAAT-TTATGATATTAATTTAAATATTTAAAATATGTTTATAATTT
1 AATATTT-ATTAATATTATGATATTAATTAAAAT-TTTAAAATAT-TTTATAATTT
1587512 CTTAATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 23 0.50
59 14 0.30
60 9 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (57 bp):
AATATTTATTAATATTATGATATTAATTAAAATTTTAAAATATTTTATAATTTAATT
Done.