Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168477.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_76, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 122804
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.34
Warning! 2000 characters in sequence are not A, C, G, or T
Found at i:1238 original size:2 final size:2
Alignment explanation
Indices: 1233--1274 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1223 TGTGTGTGTG
1233 TA TA TA TA TA TA TA 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 TA TA TA TA
1275 ATCTATTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7460 original size:19 final size:19
Alignment explanation
Indices: 7406--7480 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
7396 AAAATTTTTA
*
7406 TTATAAAAATTTTTTAATC
1 TTATAAAAAATTTTTAATC
*
7425 TTATAAAAAATTATTAATC
1 TTATAAAAAATTTTTAATC
* ** *
7444 TTGTAAATTATTTTTAA-A
1 TTATAAAAAATTTTTAATC
*
7462 TTATAATAAAATATTTAAT
1 TTATAA-AAAATTTTTAAT
7481 GTGATATTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATAAAAAATTTTTAATC
Found at i:9857 original size:27 final size:26
Alignment explanation
Indices: 9826--9906 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 26
9816 AATTCAAAAC
*
9826 AAAAATTAAATATTTTGATTTAAATA-A
1 AAAAATTAAA-ATTTTGA-ATAAATACA
9853 AAAAAGTT-AAATTTTGAATAAATACAA
1 AAAAA-TTAAAATTTTGAATAAATAC-A
* *
9880 AAAAATAAAAATTTT-AATAGATA-A
1 AAAAATTAAAATTTTGAATAAATACA
9904 AAA
1 AAA
9907 TCTAGAAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 4 0.09
25 6 0.13
26 15 0.32
27 20 0.43
28 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAATTAAAATTTTGAATAAATACA
Found at i:9874 original size:25 final size:26
Alignment explanation
Indices: 9826--9906 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
9816 AATTCAAAAC
* * *
9826 AAAAATTAAATATTTTGATTTAAATAA
1 AAAAAATAAAAATTTTGA-ATAAATAA
* *
9853 AAAAAGT-TAAATTTTGAATAAATACA
1 AAAAAATAAAAATTTTGAATAAATA-A
*
9879 AAAAAATAAAAATTTT-AATAGATAA
1 AAAAAATAAAAATTTTGAATAAATAA
9904 AAA
1 AAA
9907 TCTAGAAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 10 0.22
26 22 0.49
27 13 0.29
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAAATAAAAATTTTGAATAAATAA
Found at i:10139 original size:9 final size:9
Alignment explanation
Indices: 10119--10159 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
10109 ATCAATTTTT
10119 AATATTTAA
1 AATATTTAA
*
10128 AAAAGTTTAA
1 AATA-TTTAA
10138 AATATTTAA
1 AATATTTAA
10147 AATATTTATA
1 AATATTTA-A
10157 AAT
1 AAT
10160 TTTTTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
AATATTTAA
Found at i:14101 original size:21 final size:22
Alignment explanation
Indices: 14055--14111 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
14045 GAGCTTAATC
*
14055 AATTTTTTTTA-TTTAAATATA
1 AATTTTTATTATTTTAAATATA
*
14076 TATTTTTATTATTTT-AAT-TA
1 AATTTTTATTATTTTAAATATA
* *
14096 AAATTTTATAATTTTA
1 AATTTTTATTATTTTA
14112 CCCTTATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
21 12 0.41
22 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTTTTATTATTTTAAATATA
Found at i:15619 original size:22 final size:22
Alignment explanation
Indices: 15583--15635 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
15573 TAAATATTTA
15583 TTTTAAT-A-AATTAATTAATT
1 TTTTAATAATAATTAATTAATT
15603 ATTTT-ATAATAATTAATTAATT
1 -TTTTAATAATAATTAATTAATT
15625 TTTTAATAATA
1 TTTTAATAATA
15636 TTATTATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAATAATAATTAATTAATT
Found at i:15669 original size:2 final size:2
Alignment explanation
Indices: 15662--15699 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
15652 TTTAAATGAA
* *
15662 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15700 TGACTTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16283 original size:13 final size:13
Alignment explanation
Indices: 16265--16290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16255 TAATTTATCG
16265 ATTTTAATTTTTA
1 ATTTTAATTTTTA
16278 ATTTTAATTTTTA
1 ATTTTAATTTTTA
16291 TTAAATCATT
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:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:16804 original size:17 final size:17
Alignment explanation
Indices: 16773--16815 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16763 TTATTTGAAG
16773 AAAATTTT-ATTTTTATT
1 AAAATTTTCATTTTTA-T
16790 AAAATTTTCA-TTTTAT
1 AAAATTTTCATTTTTAT
*
16806 GAAATTTTCA
1 AAAATTTTCA
16816 GAAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
17 13 0.54
18 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
AAAATTTTCATTTTTAT
Found at i:18216 original size:3 final size:3
Alignment explanation
Indices: 18210--18256 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
18200 CAACAACAAC
18210 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18257 GACTCTTCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18312 original size:22 final size:21
Alignment explanation
Indices: 18287--18357 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
18277 TAAAACTTAC
18287 TTTGTTTTAAAGGTTTTTTTTT
1 TTTGTTTTAAA-GTTTTTTTTT
18309 TTTGTCTTGTCAAAGTTTTTTTTT
1 TTTGT-TT-T-AAAGTTTTTTTTT
* * *
18333 TGTCTTGTCAAAGTTTTTTTTT
1 TTTGTT-TTAAAGTTTTTTTTT
18355 TTT
1 TTT
18358 AGTCTTTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 20 0.49
23 3 0.07
24 15 0.37
25 3 0.07
ACGTcount: A:0.13, C:0.06, G:0.13, T:0.69
Consensus pattern (21 bp):
TTTGTTTTAAAGTTTTTTTTT
Found at i:18329 original size:21 final size:22
Alignment explanation
Indices: 18302--18355 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
18292 TTTAAAGGTT
18302 TTTTTTTTTTGTCTTGTCAAAG
1 TTTTTTTTTTGTCTTGTCAAAG
18324 TTTTTTTTTTGTCTTGTCAAAG
1 TTTTTTTTTTGTCTTGTCAAAG
18346 TTTTTTTTTT
1 TTTTTTTTTT
18356 TTAGTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTTGTCTTGTCAAAG
Found at i:18329 original size:25 final size:24
Alignment explanation
Indices: 18299--18363 Score: 107
Period size: 22 Copynumber: 2.8 Consensus size: 24
18289 TGTTTTAAAG
18299 GTTTTTTTTTTTTGTCTTGTCAAA
1 GTTTTTTTTTTTTGTCTTGTCAAA
18323 G--TTTTTTTTTTGTCTTGTCAAA
1 GTTTTTTTTTTTTGTCTTGTCAAA
18345 GTTTTTTTTTTTTAGTCTT
1 GTTTTTTTTTTTT-GTCTT
18364 TTGCCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 22 0.58
24 11 0.29
25 5 0.13
ACGTcount: A:0.11, C:0.08, G:0.12, T:0.69
Consensus pattern (24 bp):
GTTTTTTTTTTTTGTCTTGTCAAA
Found at i:18440 original size:30 final size:31
Alignment explanation
Indices: 18380--18445 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
18370 TTTTTGTTTT
* *
18380 ATAATTTATTTAAAAACTATAAAAATTTCAC
1 ATAATCTATTTAAAAACTATAAAAAATTCAC
*
18411 GTAATCTATTTAAACAAC-A-AAAAAATTCAC
1 ATAATCTATTTAAA-AACTATAAAAAATTCAC
18441 ATAAT
1 ATAAT
18446 AAAAGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 14 0.47
31 13 0.43
32 3 0.10
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (31 bp):
ATAATCTATTTAAAAACTATAAAAAATTCAC
Found at i:22575 original size:34 final size:35
Alignment explanation
Indices: 22529--22600 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
22519 TACATTGGCC
*
22529 TTACATATGTTGCTAATTA-TTACTGTCACTAAGG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
*
22563 TTACATAAGTTGCTAATTATTTATTGTCACTAAGG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
22598 TTA
1 TTA
22601 GGAAACATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 18 0.51
35 17 0.49
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (35 bp):
TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
Found at i:32318 original size:2 final size:2
Alignment explanation
Indices: 32311--32336 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32301 ATTTTACCCT
32311 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
32337 ACCCTAAGCA
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:33802 original size:22 final size:22
Alignment explanation
Indices: 33766--33818 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
33756 TAAATATTTA
33766 TTTTAAT-A-AATTAATTAATT
1 TTTTAATAATAATTAATTAATT
33786 ATTTT-ATAATAATTAATTAATT
1 -TTTTAATAATAATTAATTAATT
33808 TTTTAATAATA
1 TTTTAATAATA
33819 TTATTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAATAATAATTAATTAATT
Found at i:33858 original size:2 final size:2
Alignment explanation
Indices: 33845--33886 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
33835 TTTAAATGAA
* *
33845 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AC 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
33887 TGACCTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:34478 original size:14 final size:14
Alignment explanation
Indices: 34441--34478 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
34431 TAACAAATTT
*
34441 TTTTAATTTATCGA
1 TTTTAATTTTTCGA
34455 TTTTAATTTTT-GA
1 TTTTAATTTTTCGA
34468 TTTTAATTTTT
1 TTTTAATTTTT
34479 ATTAAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (14 bp):
TTTTAATTTTTCGA
Found at i:34812 original size:38 final size:36
Alignment explanation
Indices: 34737--34820 Score: 91
Period size: 38 Copynumber: 2.3 Consensus size: 36
34727 TGATTAAAAT
*
34737 AAAAA-AAAAAACTTAAAATTTTAATAAAAATCCAA
1 AAAAATAAAAAACTTAAAATTTTAATAAAAATACAA
* *
34772 AAAAATAACAAAACTATGAAAA-TTTAATAAATATATAA
1 AAAAATAA-AAAACT-T-AAAATTTTAATAAAAATACAA
*
34810 AAAAATTAAAA
1 AAAAATAAAAA
34821 TTTTAAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 5 0.12
36 2 0.05
37 9 0.22
38 21 0.51
39 4 0.10
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (36 bp):
AAAAATAAAAAACTTAAAATTTTAATAAAAATACAA
Found at i:34996 original size:28 final size:25
Alignment explanation
Indices: 34965--35035 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 25
34955 AGAAATTTTT
*
34965 ATTTTTATTAAAATTTTCATTTTATG
1 ATTTTTATTAAAATTTTAATTTTA-G
* **
34991 AAATTTTCAAAAAAATTTTTAATTTTAG
1 --ATTTTTATTAAAA-TTTTAATTTTAG
35019 ATTTTTATTAAAATTTT
1 ATTTTTATTAAAATTTT
35036 GAGTTTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.11
26 10 0.29
28 11 0.31
29 10 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTTTATTAAAATTTTAATTTTAG
Found at i:34998 original size:16 final size:16
Alignment explanation
Indices: 34944--34999 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
34934 CAGTGAATCT
* *
34944 TTTTTATTTTAAGAAA
1 TTTTCATTTTATGAAA
* *
34960 TTTTTATTTTTATTAAAA
1 TTTTCA-TTTTA-TGAAA
34978 TTTTCATTTTATGAAA
1 TTTTCATTTTATGAAA
34994 TTTTCA
1 TTTTCA
35000 AAAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 16 0.47
17 10 0.29
18 8 0.24
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (16 bp):
TTTTCATTTTATGAAA
Found at i:36401 original size:3 final size:3
Alignment explanation
Indices: 36393--36428 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
36383 AAAACAAAAT
36393 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36429 GACTCTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36497 original size:21 final size:21
Alignment explanation
Indices: 36467--36523 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
36457 ACTTTGTTTT
36467 AAAG-TTTTTTTTGTCTTGTC
1 AAAGTTTTTTTTTGTCTTGTC
36487 AAAGTTTTTTTTTGTCTTGTC
1 AAAGTTTTTTTTTGTCTTGTC
36508 ---GTTTTTTTTTAGTCTT
1 AAAGTTTTTTTTT-GTCTT
36524 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.29
19 5 0.14
20 4 0.11
21 16 0.46
ACGTcount: A:0.12, C:0.09, G:0.14, T:0.65
Consensus pattern (21 bp):
AAAGTTTTTTTTTGTCTTGTC
Found at i:36594 original size:30 final size:31
Alignment explanation
Indices: 36534--36599 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
36524 TTTTTTTTTT
* *
36534 ATAATTTATTTAAAAACTATAAAAATTTCAC
1 ATAATCTATTTAAAAACTATAAAAAATTCAC
*
36565 GTAATCTATTTAAACAAC-A-AAAAAATTCAC
1 ATAATCTATTTAAA-AACTATAAAAAATTCAC
36595 ATAAT
1 ATAAT
36600 AAAAGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 14 0.47
31 13 0.43
32 3 0.10
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (31 bp):
ATAATCTATTTAAAAACTATAAAAAATTCAC
Found at i:40726 original size:35 final size:35
Alignment explanation
Indices: 40679--40751 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
40669 TACATTGGCC
*
40679 TTACATATGTTGCTAATTATTTACTGTCACTAAGG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
*
40714 TTACATAAGTTGCTAATTATTTATTGTCACTAAGG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
40749 TTA
1 TTA
40752 GGAAACATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (35 bp):
TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
Found at i:45922 original size:23 final size:23
Alignment explanation
Indices: 45891--45944 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45881 TTAAATTTTT
* *
45891 ATAAAATACGAGAATGATGATAA
1 ATAATATACGAGAATGAGGATAA
* *
45914 ATAATATACGAGGATGAGGATAG
1 ATAATATACGAGAATGAGGATAA
*
45937 ATAGTATA
1 ATAATATA
45945 GTACCTATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (23 bp):
ATAATATACGAGAATGAGGATAA
Found at i:45996 original size:21 final size:21
Alignment explanation
Indices: 45971--46038 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
45961 CGTATCCTAC
45971 ATATAAATTTATATATATATT
1 ATATAAATTTATATATATATT
* * *
45992 ATATAAAATTTTTAT-TAAATA
1 ATAT-AAATTTATATATATATT
46013 ATATAAA-TTAT-TAT-T-TT
1 ATATAAATTTATATATATATT
46030 ATATAAATT
1 ATATAAATT
46039 AAAATTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
17 8 0.21
18 2 0.05
19 4 0.11
20 3 0.08
21 12 0.32
22 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATAAATTTATATATATATT
Found at i:46475 original size:2 final size:2
Alignment explanation
Indices: 46470--46516 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
46460 TGTGTGTGTG
* * *
46470 TA TA TA TA TA TA TA TA TA TG TA TG TA TG 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 TA TA TA TA
46512 TA TA T
1 TA TA T
46517 TTAATCTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48751 original size:22 final size:22
Alignment explanation
Indices: 48685--48738 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
48675 CTAATTTGAG
48685 ATGAAAATTTTCCTGCATTTAA
1 ATGAAAATTTTCCTGCATTTAA
48707 ATGAAAATTTTCCTGCATTTAA
1 ATGAAAATTTTCCTGCATTTAA
48729 ATGAAAATTT
1 ATGAAAATTT
48739 ACTTCATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
ATGAAAATTTTCCTGCATTTAA
Found at i:48889 original size:29 final size:29
Alignment explanation
Indices: 48830--48889 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
48820 ACTTTTTGAT
* * *
48830 TTTTTAAAAATTTAATCTTTTCAGTAATA
1 TTTTAAAAAATTTAATCTTGTCAATAATA
*
48859 TTTTAAAAAATTTAATCATTGT-AATATTA
1 TTTTAAAAAATTTAATC-TTGTCAATAATA
48888 TT
1 TT
48890 CTTTAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAATTTAATCTTGTCAATAATA
Found at i:52307 original size:3 final size:3
Alignment explanation
Indices: 52299--52340 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
52289 TATATGTATA
*
52299 AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52341 GAAAATTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:52532 original size:24 final size:26
Alignment explanation
Indices: 52487--52540 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
52477 CTTATTTCTC
* *
52487 AAAATATATAACAATAATTAAAATAA
1 AAAATATATAAAAATAATTAAAAGAA
*
52513 AAAATA-ATAAAAATGA-TAAAAGAA
1 AAAATATATAAAAATAATTAAAAGAA
52537 AAAA
1 AAAA
52541 AAATCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.44
25 8 0.32
26 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATATATAAAAATAATTAAAAGAA
Found at i:57226 original size:21 final size:21
Alignment explanation
Indices: 57197--57238 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57187 GTATTCCTTA
* *
57197 ATTTTTTTTATTTTTATTTTT
1 ATTTATTTTACTTTTATTTTT
*
57218 ATTTATTTTACTTTTCTTTTT
1 ATTTATTTTACTTTTATTTTT
57239 TTCAATGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (21 bp):
ATTTATTTTACTTTTATTTTT
Found at i:57232 original size:16 final size:15
Alignment explanation
Indices: 57197--57226 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57187 GTATTCCTTA
57197 ATTTTTTTTATTTTT
1 ATTTTTTTTATTTTT
57212 ATTTTTATTTATTTT
1 ATTTTT-TTTATTTT
57227 ACTTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTTTATTTTT
Found at i:57323 original size:60 final size:60
Alignment explanation
Indices: 57246--57511 Score: 300
Period size: 60 Copynumber: 4.5 Consensus size: 60
57236 TTTTTCAATG
** *
57246 ATTTTCC-T-AAAATAAAATCCCAAAAAAAAATATTTCTAAGGAAAAATTGAAAGTATCA
1 ATTTTCCTTGAAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAATTGAAAGTATCA
* * * *
57304 ATTTTTCTTGAAAATAAAATTTAAAAAAAAAATATTTTTAAGGGAAAGTTGAAAGTATCA
1 ATTTTCCTTGAAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAATTGAAAGTATCA
*
57364 A-TTTCCTTTGAAAATAAAAAGGTTT--AAAAAAAATA-TTTTAAGGGAAAAATTAAAAGTAT-A
1 ATTTTCC-TTGAAAAT-AAAA--TTTCAAAAAAAAATATTTTTAA-GGAAAAATTGAAAGTATCA
* * * *
57424 ATTTTCCTTGAAAATAAAATTTC--TAAAAAATATTTTTGAGAAAAAATTGATAGTATCA
1 ATTTTCCTTGAAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAATTGAAAGTATCA
*
57482 ATTTTCCTT-AAAATAAAATTTCCAAAAAAA
1 ATTTTCCTTGAAAATAAAATTTCAAAAAAAA
57512 TACATTTTGG
Statistics
Matches: 178, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
57 38 0.21
58 21 0.12
59 14 0.08
60 69 0.39
61 33 0.19
63 3 0.02
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (60 bp):
ATTTTCCTTGAAAATAAAATTTCAAAAAAAAATATTTTTAAGGAAAAATTGAAAGTATCA
Found at i:57547 original size:59 final size:58
Alignment explanation
Indices: 57269--57549 Score: 191
Period size: 60 Copynumber: 4.8 Consensus size: 58
57259 AAAATCCCAA
* * * * * *
57269 AAAAAAATATTTCT-AAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAA
1 AAAAAAATATTT-TGGAGAAAAAATTGATAGTACCAATTTTCCTTGAAAATAAAATTT--C
** ** * * * *
57329 AAAAAAATATTTTTAAGGGAAAGTTGAAAGTATCAA-TTTCCTTTGAAAATAAAAAGGTTTA
1 AAAAAAATATTTTGGAGAAAAAATTGATAGTACCAATTTTCC-TTGAAAAT-AAAA--TTTC
* * *
57390 AAAAAAATATTTTAAGG-G-AAAAATTAAAAGTA-TAATTTTCCTTGAAAATAAAATTTC
1 AAAAAAATATTTT--GGAGAAAAAATTGATAGTACCAATTTTCCTTGAAAATAAAATTTC
* * *
57447 TAAAAAATATTTTTGAGAAAAAATTGATAGTATCAATTTTCCTT-AAAATAAAATTTCC
1 AAAAAAATATTTTGGAGAAAAAATTGATAGTACCAATTTTCCTTGAAAATAAAATTT-C
* *
57505 AAAAAAATACATTTTGGAG-AATAGTTGGA-AGTACCAATTTTCCTT
1 AAAAAAAT--ATTTTGGAGAAAAAATT-GATAGTACCAATTTTCCTT
57550 TTTAAAAAAA
Statistics
Matches: 186, Mismatches: 20, Indels: 31
0.78 0.08 0.13
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 39 0.21
58 18 0.10
59 29 0.16
60 60 0.32
61 34 0.18
62 1 0.01
63 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTGGAGAAAAAATTGATAGTACCAATTTTCCTTGAAAATAAAATTTC
Found at i:68112 original size:19 final size:19
Alignment explanation
Indices: 68089--68156 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 19
68079 AAAAAAAAGA
68089 GAAAAAGAAGAGAAAAAAAT
1 GAAAAA-AAGAGAAAAAAAT
68109 -AAAAAAATGA-AAAAAAAT
1 GAAAAAAA-GAGAAAAAAAT
*
68127 GAAAAAAAATGAAAAAAAAAAT
1 G-AAAAAAA-G-AGAAAAAAAT
68149 GAAAAAAA
1 GAAAAAAA
68157 ATGAAAAAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.23
19 7 0.16
20 9 0.21
21 8 0.19
22 9 0.21
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
GAAAAAAAGAGAAAAAAAT
Found at i:68112 original size:28 final size:28
Alignment explanation
Indices: 68076--68164 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 28
68066 ACTATGCTTG
* *
68076 AAAAAA-AAAAAGA-GAAAAAGAA-GAGA
1 AAAAAATAAAAAAATGAAAAAAAATGA-A
68102 AAAAAATAAAAAAATGAAAAAAAATGAA
1 AAAAAATAAAAAAATGAAAAAAAATGAA
68130 AAAAAATGAAAAAAAAAATGAAAAAAAATGAA
1 AAAAAAT----AAAAAAATGAAAAAAAATGAA
68162 AAA
1 AAA
68165 GGAAGACTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.11
27 6 0.11
28 16 0.30
29 2 0.04
32 24 0.44
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (28 bp):
AAAAAATAAAAAAATGAAAAAAAATGAA
Found at i:68114 original size:10 final size:10
Alignment explanation
Indices: 68078--68164 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
68068 TATGCTTGAA
*
68078 AAAAAAAAAG
1 AAAAAAAAAT
* *
68088 AGAAAAAGAAG
1 A-AAAAAAAAT
*
68099 AGAAAAAAAT
1 AAAAAAAAAT
68109 --AAAAAAAT
1 AAAAAAAAAT
*
68117 GAAAAAAAAT
1 AAAAAAAAAT
*
68127 GAAAAAAAAT
1 AAAAAAAAAT
68137 GAAAAAAAAAAT
1 --AAAAAAAAAT
*
68149 GAAAAAAAAT
1 AAAAAAAAAT
68159 GAAAAA
1 -AAAAA
68165 GGAAGACTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
8 8 0.12
10 34 0.53
11 13 0.20
12 9 0.14
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:68158 original size:22 final size:22
Alignment explanation
Indices: 68074--68164 Score: 104
Period size: 22 Copynumber: 4.3 Consensus size: 22
68064 GTACTATGCT
*
68074 TGAAAAAAAAAAAGAGAAAAAGAA
1 TGAAAAAAAAAATGA-AAAAA-AA
*
68098 -G-AGAAAAAAAT--AAAAAAA
1 TGAAAAAAAAAATGAAAAAAAA
68116 TG--AAAAAAAATGAAAAAAAA
1 TGAAAAAAAAAATGAAAAAAAA
68136 TGAAAAAAAAAATGAAAAAAAA
1 TGAAAAAAAAAATGAAAAAAAA
68158 TGAAAAA
1 TGAAAAA
68165 GGAAGACTCA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.17
19 6 0.10
20 9 0.15
22 33 0.56
23 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (22 bp):
TGAAAAAAAAAATGAAAAAAAA
Found at i:73715 original size:2 final size:2
Alignment explanation
Indices: 73708--73735 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73698 ATTTTACCCT
73708 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
73736 ACCCTAAGCA
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:75204 original size:22 final size:22
Alignment explanation
Indices: 75168--75220 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
75158 TAAATATTTA
75168 TTTTAAT-A-AATTAATTAATT
1 TTTTAATAATAATTAATTAATT
75188 ATTTT-ATAATAATTAATTAATT
1 -TTTTAATAATAATTAATTAATT
75210 TTTTAATAATA
1 TTTTAATAATA
75221 TTATTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAATAATAATTAATTAATT
Found at i:75260 original size:2 final size:2
Alignment explanation
Indices: 75247--75288 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
75237 TTTAAATGAA
* *
75247 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AC 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
75289 TGACCTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:75885 original size:14 final size:14
Alignment explanation
Indices: 75848--75885 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
75838 TAACAAATTT
*
75848 TTTTAATTTATCGA
1 TTTTAATTTTTCGA
75862 TTTTAATTTTT-GA
1 TTTTAATTTTTCGA
75875 TTTTAATTTTT
1 TTTTAATTTTT
75886 ATTAAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (14 bp):
TTTTAATTTTTCGA
Found at i:76377 original size:17 final size:17
Alignment explanation
Indices: 76355--76409 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
76345 AGTGAATCTT
*
76355 TTTTTATTTTAAGAAAA
1 TTTTTATTTTATGAAAA
*
76372 TTTTTATTTTTATTAAAA
1 TTTTTA-TTTTATGAAAA
*
76390 TTTTCATTTTATG-AAA
1 TTTTTATTTTATGAAAA
76406 TTTT
1 TTTT
76410 CAAAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 7 0.21
17 12 0.36
18 14 0.42
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTATTTTATGAAAA
Found at i:76409 original size:28 final size:25
Alignment explanation
Indices: 76377--76447 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 25
76367 GAAAATTTTT
*
76377 ATTTTTATTAAAATTTTCATTTTATG
1 ATTTTTATTAAAATTTTAATTTTA-G
* **
76403 AAATTTTCAAAAAAATTTTTAATTTTAG
1 --ATTTTTATTAAAA-TTTTAATTTTAG
76431 ATTTTTATTAAAATTTT
1 ATTTTTATTAAAATTTT
76448 GAGTTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 4 0.11
26 10 0.29
28 11 0.31
29 10 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTTTATTAAAATTTTAATTTTAG
Found at i:76506 original size:30 final size:33
Alignment explanation
Indices: 76472--76543 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 33
76462 TTTAAATGTT
*
76472 AATAAAATTTTT-AAATATTTC-AATT-TTTTA
1 AATAAAATTTTTAAAATATTTCTAATTCTTTGA
76502 AAT-AAATTTTTAAAATATTTCTAATTCTTTGA
1 AATAAAATTTTTAAAATATTTCTAATTCTTTGA
*
76534 AAAAAAATTT
1 AATAAAATTT
76544 AGAAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 8 0.22
30 12 0.33
31 4 0.11
32 6 0.17
33 6 0.17
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (33 bp):
AATAAAATTTTTAAAATATTTCTAATTCTTTGA
Found at i:77786 original size:3 final size:3
Alignment explanation
Indices: 77778--77827 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
77768 CAAATAAGAC
77778 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77826 AA
1 AA
77828 GACTCTTCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:77985 original size:30 final size:31
Alignment explanation
Indices: 77925--77990 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
77915 TTTTTGTTTT
* *
77925 ATAATTTATTTAAAAACTATAAAAATTTCAC
1 ATAATCTATTTAAAAACTATAAAAAATTCAC
*
77956 GTAATCTATTTAAACAAC-A-AAAAAATTCAC
1 ATAATCTATTTAAA-AACTATAAAAAATTCAC
77986 ATAAT
1 ATAAT
77991 AAAAGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 14 0.47
31 13 0.43
32 3 0.10
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (31 bp):
ATAATCTATTTAAAAACTATAAAAAATTCAC
Found at i:82110 original size:35 final size:35
Alignment explanation
Indices: 82063--82135 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
82053 TACATTGGCC
*
82063 TTACATATGTTGCTAATTATTTACTGTCACTAAGG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
* *
82098 TTACATAAGTTGCTAATTATTTATTGTCACTAATG
1 TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
82133 TTA
1 TTA
82136 GGAAACATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (35 bp):
TTACATAAGTTGCTAATTATTTACTGTCACTAAGG
Found at i:87138 original size:24 final size:21
Alignment explanation
Indices: 87111--87159 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
87101 TTTTAAATCA
87111 TTAAAATATTAATATCAAAATATT
1 TTAAAATATTAA-AT-AAAA-ATT
*
87135 TT-AAATATTTAATAAAAATT
1 TTAAAATATTAAATAAAAATT
87155 TTAAA
1 TTAAA
87160 TGAAGTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 2 0.09
23 8 0.35
24 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAATATTAAATAAAAATT
Found at i:87586 original size:26 final size:25
Alignment explanation
Indices: 87541--87636 Score: 72
Period size: 25 Copynumber: 3.7 Consensus size: 25
87531 TATCCTAATA
*
87541 TATTATATATATAAATATTATAATTTTT
1 TATTAAATATAT-AA-ATTAT-ATTTTT
* *
87569 TATTAAATATATACATTAT-TATTT
1 TATTAAATATATAAATTATATTTTT
87593 TATATAAAT-TA-AAATTACTATTTTT
1 TAT-TAAATATATAAATTA-TATTTTT
* *
87618 TAATTAAAAATATATATTA
1 T-ATTAAATATATAAATTA
87637 ATTATAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
23 5 0.09
24 10 0.18
25 14 0.25
26 9 0.16
27 6 0.11
28 11 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTAAATATATAAATTATATTTTT
Found at i:87614 original size:23 final size:24
Alignment explanation
Indices: 87566--87620 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
87556 TATTATAATT
* *
87566 TTTTATTAAATATATACATTATTA
1 TTTTATTAAATATATAAATTACTA
87590 TTTTATATAAAT-TA-AAATTACTA
1 TTTTAT-TAAATATATAAATTACTA
87613 TTTT-TTAA
1 TTTTATTAA
87621 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.11
22 1 0.04
23 11 0.39
24 8 0.29
25 5 0.18
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTATTAAATATATAAATTACTA
Found at i:88042 original size:2 final size:2
Alignment explanation
Indices: 88037--88071 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
88027 TGTGTGTGTG
* *
88037 TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88072 TTAATCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88761 original size:22 final size:24
Alignment explanation
Indices: 88713--88758 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
88703 TCATACATCT
* *
88713 TTTTTATTATAATTTTTAATTGCCA
1 TTTTTATTAAAATTTATAATT-CCA
88738 TTTTT-TTAAAATTTATAATTC
1 TTTTTATTAAAATTTATAATTC
88759 ATTGATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 13 0.68
25 5 0.26
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTTATTAAAATTTATAATTCCA
Found at i:90392 original size:29 final size:29
Alignment explanation
Indices: 90338--90393 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
90328 TTGATTTTTT
* * *
90338 AAAAATTTAATCTTTTTAGTAATATTTAA
1 AAAAATTTAATCATTGTAATAATATTTAA
*
90367 AAAAATTTAATCATTGTAATATTATTT
1 AAAAATTTAATCATTGTAATAATATTT
90394 TTTAAAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (29 bp):
AAAAATTTAATCATTGTAATAATATTTAA
Found at i:92141 original size:3 final size:3
Alignment explanation
Indices: 92133--92166 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
92123 AAAATATATG
92133 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
92167 GAAAATCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:92498 original size:23 final size:24
Alignment explanation
Indices: 92472--92517 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
92462 CCAAGGATAA
92472 GATTC-TAATGAA-ATCTAAGTAGT
1 GATTCTTAA-GAATATCTAAGTAGT
92495 GATTCTTTAAGAATATCTAAGTA
1 GATTC-TTAAGAATATCTAAGTA
92518 AGATGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (24 bp):
GATTCTTAAGAATATCTAAGTAGT
Found at i:92939 original size:21 final size:21
Alignment explanation
Indices: 92915--92968 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
92905 GAAAGAAAGG
* *
92915 ATCGATTCCTTGGTTGATCGA
1 ATCGATCCCTTGGTTAATCGA
92936 ATCGATCCCTTGGTTAATCGA
1 ATCGATCCCTTGGTTAATCGA
*
92957 ATTGATCCCTTG
1 ATCGATCCCTTG
92969 AGATATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (21 bp):
ATCGATCCCTTGGTTAATCGA
Found at i:96480 original size:11 final size:10
Alignment explanation
Indices: 96460--96508 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 10
96450 GGATGAAGTC
96460 ATTTTTTTTT
1 ATTTTTTTTT
96470 ATTTTTCTTTT
1 ATTTTT-TTTT
96481 ATTTTAGTTTTT
1 ATTTT--TTTTT
96493 ATTTTTTTTGT
1 ATTTTTTTT-T
96504 ATTTT
1 ATTTT
96509 AAAAATAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.29
11 15 0.43
12 9 0.26
13 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:96492 original size:23 final size:23
Alignment explanation
Indices: 96465--96509 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
96455 AAGTCATTTT
96465 TTTTTATTTTTCTTT-TATTTTAG
1 TTTTTATTTTT-TTTGTATTTTAG
96488 TTTTTATTTTTTTTGTATTTTA
1 TTTTTATTTTTTTTGTATTTTA
96510 AAAATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTTTTGTATTTTAG
Found at i:96509 original size:16 final size:16
Alignment explanation
Indices: 96460--96509 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
96450 GGATGAAGTC
96460 ATTTTTTTT-TATTTTT
1 ATTTTTTTTGTA-TTTT
*
96476 CTTTTATTTTAGT-TTTT
1 ATTTT-TTTT-GTATTTT
96493 ATTTTTTTTGTATTTT
1 ATTTTTTTTGTATTTT
96509 A
1 A
96510 AAAATAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.07
16 13 0.46
17 12 0.43
19 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (16 bp):
ATTTTTTTTGTATTTT
Found at i:96739 original size:14 final size:15
Alignment explanation
Indices: 96722--96756 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
96712 AAATATACTA
96722 AAAAAAATTAAAAT-
1 AAAAAAATTAAAATG
96736 AAAAAAATTAAAATG
1 AAAAAAATTAAAATG
96751 AAAAAA
1 AAAAAA
96757 GAAAAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAAAATTAAAATG
Found at i:97708 original size:16 final size:16
Alignment explanation
Indices: 97678--97717 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
97668 AATATACGAC
*
97678 ATAAT-ATATTATACT
1 ATAATAATACTATACT
97693 ATAATAATACTATACT
1 ATAATAATACTATACT
97709 ATAATAATA
1 ATAATAATA
97718 TACCATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATACTATACT
Found at i:100481 original size:3 final size:3
Alignment explanation
Indices: 100473--100516 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
100463 TATATGTAGA
100473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
100517 AGATGAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:110853 original size:23 final size:24
Alignment explanation
Indices: 110801--110855 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
110791 GAGTCTACTT
* *
110801 ATAATAATATTAATATTCACTAATA
1 ATAAAAATATTAACATTCAC-AATA
110826 ATAAAAATATTAACATTCA-AATA
1 ATAAAAATATTAACATTCACAATA
*
110849 TTAAAAA
1 ATAAAAA
110856 GATGCAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
25 17 0.63
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAAAATATTAACATTCACAATA
Found at i:112922 original size:13 final size:13
Alignment explanation
Indices: 112904--112930 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112894 GTTTATTTTT
112904 TAAAAATAAAAAA
1 TAAAAATAAAAAA
112917 TAAAAATAAAAAA
1 TAAAAATAAAAAA
112930 T
1 T
112931 TAGGAAAATT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:113850 original size:8 final size:7
Alignment explanation
Indices: 113821--113847 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
113811 TTAAATTTAG
113821 AAAAAAT
1 AAAAAAT
113828 AAAAAAT
1 AAAAAAT
113835 AAAAAAT
1 AAAAAAT
113842 AAAAAA
1 AAAAAA
113848 ATATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:118225 original size:8 final size:8
Alignment explanation
Indices: 118198--118311 Score: 61
Period size: 8 Copynumber: 15.5 Consensus size: 8
118188 ACTAATGGGT
118198 AAAAAATG
1 AAAAAATG
* *
118206 AGAAGA-G
1 AAAAAATG
118213 AAAAAATG
1 AAAAAATG
118221 -AAAAAT-
1 AAAAAATG
118227 AAAAAA--
1 AAAAAATG
*
118233 ATAAAATG
1 AAAAAATG
118241 -AAAAATG
1 AAAAAATG
*
118248 --AAAAGG
1 AAAAAATG
118254 AAAAAATG
1 AAAAAATG
**
118262 AAAAGGTG
1 AAAAAATG
118270 AAAAAAATG
1 -AAAAAATG
118279 -AAAAA--
1 AAAAAATG
*
118284 AAAAGATG
1 AAAAAATG
*
118292 AAAAAAAG
1 AAAAAATG
*
118300 AAAAAAAG
1 AAAAAATG
118308 AAAA
1 AAAA
118312 CTCAAATTGA
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
6 14 0.17
7 27 0.33
8 34 0.42
9 6 0.07
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:118230 original size:13 final size:12
Alignment explanation
Indices: 118198--118298 Score: 51
Period size: 15 Copynumber: 7.2 Consensus size: 12
118188 ACTAATGGGT
118198 AAAAAATGAGAAGA
1 AAAAAATGA-AA-A
118212 GAAAAAATGAAAAATA
1 -AAAAAATG--AAA-A
118228 AAAAAAT-AAAA
1 AAAAAATGAAAA
*
118239 TGAAAAATGAAAA
1 -AAAAAATGAAAA
118252 GGAAAAAATGAAAAGGTGA
1 --AAAAAATG-AAA----A
118271 AAAAAATGAAAA
1 AAAAAATGAAAA
118283 AAAAAGATGAAAA
1 AAAAA-ATGAAAA
118296 AAA
1 AAA
118299 GAAAAAAAGA
Statistics
Matches: 71, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
11 1 0.01
12 15 0.21
13 14 0.20
14 7 0.10
15 18 0.25
16 6 0.08
17 9 0.13
19 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:118230 original size:14 final size:14
Alignment explanation
Indices: 118197--118296 Score: 71
Period size: 14 Copynumber: 7.0 Consensus size: 14
118187 CACTAATGGG
*
118197 TAAAAAATGAGAAGA
1 TAAAAAATGA-AAAA
*
118212 GAAAAAATGAAAAA
1 TAAAAAATGAAAAA
118226 TAAAAAA--ATAAAA
1 TAAAAAATGA-AAAA
* *
118239 TGAAAAATGAAAAG
1 TAAAAAATGAAAAA
* *
118253 GAAAAAATGAAAAGG
1 TAAAAAATGAAAA-A
118268 TGAAAAAAATGAAAAA
1 T--AAAAAATGAAAAA
*
118284 -AAAAGATGAAAAA
1 TAAAAAATGAAAAA
118297 AAGAAAAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
12 1 0.01
13 22 0.32
14 23 0.33
15 11 0.16
17 12 0.17
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (14 bp):
TAAAAAATGAAAAA
Found at i:118240 original size:20 final size:21
Alignment explanation
Indices: 118199--118265 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
118189 CTAATGGGTA
*
118199 AAAAATGAGAAGAGAAAAAATG
1 AAAAATGAAAAGA-AAAAAATG
118221 AAAAAT-AAAA-AAATAAAATG
1 AAAAATGAAAAGAAA-AAAATG
*
118241 AAAAATGAAAAGGAAAAAATG
1 AAAAATGAAAAGAAAAAAATG
118262 AAAA
1 AAAA
118266 GGTGAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 17 0.43
22 8 0.20
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAAATGAAAAGAAAAAAATG
Found at i:118287 original size:22 final size:21
Alignment explanation
Indices: 118262--118306 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
118252 GGAAAAAATG
*
118262 AAAAGGTGAAAAAAATGAAAAA
1 AAAAGATGAAAAAAA-GAAAAA
118284 AAAAGATGAAAAAAAGAAAAA
1 AAAAGATGAAAAAAAGAAAAA
118305 AA
1 AA
118307 GAAAACTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAAGATGAAAAAAAGAAAAA
Found at i:118287 original size:42 final size:40
Alignment explanation
Indices: 118198--118311 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 40
118188 ACTAATGGGT
*
118198 AAAAAATGAGAAGAGAAAAAATGAAAAATAAAAAAATAAA
1 AAAAAATGAAAAGAGAAAAAATGAAAAATAAAAAAATAAA
*
118238 ATGAAAAATGAAAAG-GAAAAAATGAAAAGGTGAAAAAAATGAAAA
1 A--AAAAATGAAAAGAGAAAAAATGAAAA-AT-AAAAAAAT--AAA
* *
118283 AAAAAGATGAAAAAAAGAAAAAAAGAAAA
1 AAAAA-ATG-AAAAGAGAAAAAATGAAAA
118312 CTCAAATTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
40 1 0.02
41 13 0.21
42 12 0.20
43 12 0.20
44 3 0.05
45 8 0.13
46 12 0.20
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (40 bp):
AAAAAATGAAAAGAGAAAAAATGAAAAATAAAAAAATAAA
Found at i:118303 original size:30 final size:30
Alignment explanation
Indices: 118241--118311 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
118231 AAATAAAATG
***
118241 AAAAATGAAAAGGAAAAAATGAAAAGGTGAA
1 AAAAATGAAAA-GAAAAAATGAAAAAAAGAA
118272 AAAAATGAAAA-AAAAAGATGAAAAAAAGAA
1 AAAAATGAAAAGAAAAA-ATGAAAAAAAGAA
118302 AAAAA-GAAAA
1 AAAAATGAAAA
118312 CTCAAATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 10 0.28
30 15 0.42
31 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (30 bp):
AAAAATGAAAAGAAAAAATGAAAAAAAGAA
Found at i:120055 original size:41 final size:40
Alignment explanation
Indices: 119993--120192 Score: 179
Period size: 41 Copynumber: 4.9 Consensus size: 40
119983 ATTATTGTCA
* * ** * *
119993 AGGAACCTTTTATTTTCCAAAGTTGTTGTGCCTTCAT-TTAT
1 AGGAGCCTTTTATTTTTCAAAGTCATTGAGCC-TC-TGTTAG
*
120034 AGGAGCCTTTTATTTTTCAAAGTCATTGAACCTCTGTTTAG
1 AGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTG-TTAG
* **
120075 -TGAGCCTTTTATTTTTTCAAAGTTTTTGAGCCTCTGCTTAG
1 AGGAGCCTTTTA-TTTTTCAAAGTCATTGAGCCTCTG-TTAG
* * *
120116 AAGAGCCTTTTATTTTTTCAAAGTCATTGAGCCTTTACTTAG
1 AGGAGCCTTTTA-TTTTTCAAAGTCATTGAGCCTCT-GTTAG
* * *
120158 AAGAGCCTTTTATTTTTCAAAGTCGTTGAACCTCT
1 AGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCT
120193 ATTTGGGGGA
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 12 0.09
41 74 0.55
42 47 0.35
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.44
Consensus pattern (40 bp):
AGGAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGTTAG
Found at i:120135 original size:42 final size:41
Alignment explanation
Indices: 120036--120192 Score: 208
Period size: 42 Copynumber: 3.8 Consensus size: 41
120026 TCATTTATAG
* * *
120036 GAGCCTTTTATTTTTCAAAGTCATTGAACCTCTGTTTAG-T
1 GAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAA
**
120076 GAGCCTTTTATTTTTTCAAAGTTTTTGAGCCTCTGCTTAGAA
1 GAGCCTTTTA-TTTTTCAAAGTCATTGAGCCTCTGCTTAGAA
* *
120118 GAGCCTTTTATTTTTTCAAAGTCATTGAGCCTTTACTTAGAA
1 GAGCCTTTTA-TTTTTCAAAGTCATTGAGCCTCTGCTTAGAA
* *
120160 GAGCCTTTTATTTTTCAAAGTCGTTGAACCTCT
1 GAGCCTTTTATTTTTCAAAGTCATTGAGCCTCT
120193 ATTTGGGGGA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 10 0.10
41 45 0.44
42 48 0.47
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (41 bp):
GAGCCTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAA
Found at i:120192 original size:83 final size:82
Alignment explanation
Indices: 120036--120192 Score: 217
Period size: 83 Copynumber: 1.9 Consensus size: 82
120026 TCATTTATAG
** * **
120036 GAGCCTTTTATTTTTCAAAGTCATTGAACCTCTGTTTAGTGAGCCTTTTATTTTTTCAAAGTTTT
1 GAGCCTTTTATTTTTCAAAGTCATTGAACCTCTACTTAGAGAGCCTTTTATTTTTTCAAAGTCGT
*
120101 TGAGCCTCTGCTTAGAA
66 TGAACCTCTGCTTAGAA
* *
120118 GAGCCTTTTATTTTTTCAAAGTCATTGAGCCTTTACTTAGAAGAGCCTTTTA-TTTTTCAAAGTC
1 GAGCCTTTTA-TTTTTCAAAGTCATTGAACCTCTACTTAG-AGAGCCTTTTATTTTTTCAAAGTC
120182 GTTGAACCTCT
64 GTTGAACCTCT
120193 ATTTGGGGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
82 10 0.15
83 45 0.69
84 10 0.15
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (82 bp):
GAGCCTTTTATTTTTCAAAGTCATTGAACCTCTACTTAGAGAGCCTTTTATTTTTTCAAAGTCGT
TGAACCTCTGCTTAGAA
Found at i:121278 original size:21 final size:21
Alignment explanation
Indices: 121235--121284 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
121225 TTATTATTTT
* **
121235 TATTATTATTTTTATTATTAC
1 TATTATTATTATTATTACCAC
121256 TATTATTATTATTATTACCAC
1 TATTATTATTATTATTACCAC
121277 TATTATTA
1 TATTATTA
121285 CTTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTACCAC
Found at i:121284 original size:3 final size:3
Alignment explanation
Indices: 121224--121272 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
121214 CATTATCATC
* * *
121224 ATT ATT ATT TTT ATT ATT ATT TTT ATT ATT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
121272 A
1 A
121273 CCACTATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:122154 original size:6 final size:5
Alignment explanation
Indices: 122141--122191 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
122131 TTCCCTTTTC
*
122141 TATTT TATTT T-TATT T-TTT GATTT CTATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TAT-TT TATTT TATTT -TATTT TATTT TATTT TATTT TATTT
122191 T
1 T
122192 CAACCTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 3 0.07
5 34 0.83
6 4 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:122157 original size:25 final size:24
Alignment explanation
Indices: 122129--122181 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
122119 CGATTATAGG
*
122129 TTTTCCCTTTTCTATTTTATTTTTA
1 TTTTCCCATTTCTATTTTA-TTTTA
***
122154 TTTTTTGATTTCTATTTTATTTTA
1 TTTTCCCATTTCTATTTTATTTTA
122178 TTTT
1 TTTT
122182 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTCCCATTTCTATTTTATTTTA
Done.