Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168269.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_499, 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: 24830
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Found at i:437 original size:30 final size:30
Alignment explanation
Indices: 378--449 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
368 ATTATATAAG
378 ATTAATAATT-TTAATAAAAATATTATAATT
1 ATTAA-AATTATTAATAAAAATATTATAATT
* *
408 ATTAAAATTATTGATAATAAT-TTATTAATT
1 ATTAAAATTATTAATAAAAATATTA-TAATT
*
438 ATTTTAAATTAT
1 A-TTAAAATTAT
450 CATTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 7 0.19
30 20 0.56
31 9 0.25
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAAAATTATTAATAAAAATATTATAATT
Found at i:448 original size:14 final size:14
Alignment explanation
Indices: 431--464 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
421 ATAATAATTT
431 ATTAATTATTTTAA
1 ATTAATTATTTTAA
*
445 ATT-ATCATTTTAA
1 ATTAATTATTTTAA
458 ATTAATT
1 ATTAATT
465 TAACAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAATTATTTTAA
Found at i:605 original size:15 final size:15
Alignment explanation
Indices: 585--646 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
575 TAATAATTAT
585 TTAATATATATTTAA
1 TTAATATATATTTAA
*
600 TTAATATAAATTTAA
1 TTAATATATATTTAA
615 TATAATA-ATCA-TT-A
1 T-TAATATAT-ATTTAA
* *
629 TTAAAAAATATTTAA
1 TTAATATATATTTAA
644 TTA
1 TTA
647 TTTATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.13
14 6 0.15
15 22 0.56
16 6 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATATATATTTAA
Found at i:803 original size:13 final size:13
Alignment explanation
Indices: 782--815 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
772 TTTATAATAC
782 TAATAAATAATTGT
1 TAAT-AATAATTGT
*
796 TAATAATAATTTT
1 TAATAATAATTGT
809 TAATAAT
1 TAATAAT
816 TTATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATAATAATTGT
Found at i:1349 original size:14 final size:15
Alignment explanation
Indices: 1316--1350 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1306 TAATTTATTT
1316 ATATTATTTAGAATA
1 ATATTATTTAGAATA
*
1331 TTATTATTTA-AATA
1 ATATTATTTAGAATA
1345 ATATTA
1 ATATTA
1351 AATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTATTTAGAATA
Found at i:1424 original size:12 final size:12
Alignment explanation
Indices: 1395--1433 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1385 TTTTGTAAGC
*
1395 AATTATTTATATT
1 AATTATTAATA-T
1408 AATTATTAATAT
1 AATTATTAATAT
*
1420 AATTATCAATAT
1 AATTATTAATAT
1432 AA
1 AA
1434 CTAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTATTAATAT
Found at i:2795 original size:14 final size:14
Alignment explanation
Indices: 2776--2809 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2766 TAAATTAAAA
2776 AATTAATAAATATT
1 AATTAATAAATATT
2790 AATTAATAAATATT
1 AATTAATAAATATT
2804 -ATTAAT
1 AATTAAT
2810 TATCTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTAATAAATATT
Found at i:2968 original size:29 final size:28
Alignment explanation
Indices: 2933--3012 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
2923 ACAGGTCACT
2933 TATTAATTTATCATTAATTTTATAAT-ATTA
1 TATTAATTTAT-ATTAA--TTATAATAATTA
*
2963 -ATTAATTATAAATTAATTATAATAATTA
1 TATTAATT-TATATTAATTATAATAATTA
2991 TATTTAATTTATATT-ATTATAA
1 TA-TTAATTTATATTAATTATAA
3013 GATATTAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 7 0.16
28 11 0.25
29 18 0.41
30 8 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TATTAATTTATATTAATTATAATAATTA
Found at i:2976 original size:25 final size:26
Alignment explanation
Indices: 2933--3012 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 26
2923 ACAGGTCACT
* * *
2933 TATTAATTTATCATTAATT-TTATAA
1 TATTAATTAATTATAAATTATTATAA
2958 TATTAATTAATTATAAATTAATTATAA
1 TATTAATTAATTATAAATT-ATTATAA
*
2985 TAATTATATTTAATT-TATATTATTATAA
1 T-ATTA-A-TTAATTATAAATTATTATAA
3013 GATATTAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 16 0.35
27 7 0.15
28 11 0.24
29 6 0.13
30 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTAATTAATTATAAATTATTATAA
Found at i:2979 original size:15 final size:16
Alignment explanation
Indices: 2952--2981 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2942 ATCATTAATT
2952 TTATAATATTAATTAA
1 TTATAATATTAATTAA
2968 TTATAA-ATTAATTA
1 TTATAATATTAATTA
2982 TAATAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAATATTAATTAA
Found at i:3235 original size:21 final size:21
Alignment explanation
Indices: 3211--3252 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3201 TATAATCTAA
3211 TTTAAATAATTAT-TAATTATT
1 TTTAAATAATTATAT-ATTATT
* *
3232 TTTATATTATTATATATTATT
1 TTTAAATAATTATATATTATT
3253 ATAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAAATAATTATATATTATT
Found at i:3249 original size:18 final size:18
Alignment explanation
Indices: 3219--3272 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
3209 AATTTAAATA
*
3219 ATTATTA-ATTATTTTTAT
1 ATTATTATA-TATTATTAT
3237 ATTATTATATATTATTAT
1 ATTATTATATATTATTAT
* *
3255 AAT-TTATATACTATTAT
1 ATTATTATATATTATTAT
3272 A
1 A
3273 ACTTTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 14 0.44
18 17 0.53
19 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTATATATTATTAT
Found at i:3263 original size:17 final size:17
Alignment explanation
Indices: 3241--3273 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3231 TTTTATATTA
*
3241 TTATATATTATTATAAT
1 TTATATACTATTATAAT
3258 TTATATACTATTATAA
1 TTATATACTATTATAA
3274 CTTTTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATACTATTATAAT
Found at i:3269 original size:27 final size:28
Alignment explanation
Indices: 3219--3272 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
3209 AATTTAAATA
* * *
3219 ATTATTAATTATTTTTATATTATTATAT
1 ATTATTAATAATTTATATACTATTATAT
3247 ATTATT-ATAATTTATATACTATTATA
1 ATTATTAATAATTTATATACTATTATA
3273 ACTTTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTATTAATAATTTATATACTATTATAT
Found at i:3568 original size:16 final size:17
Alignment explanation
Indices: 3537--3624 Score: 53
Period size: 16 Copynumber: 5.3 Consensus size: 17
3527 ATAAATTAAT
3537 TAATTATTAATATATTA
1 TAATTATTAATATATTA
*
3554 TAATTA-TACTATATTA
1 TAATTATTAATATATTA
*
3570 T--TTATT-AT-TTTTA
1 TAATTATTAATATATTA
* *
3583 TAATTAATAAT-TAGTA
1 TAATTATTAATATATTA
*
3599 CTAATTTAATAATATTATTA
1 -TAA-TTATTAATA-TATTA
3619 TCAATT
1 T-AATT
3625 TTTGTCATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
13 5 0.09
14 4 0.07
15 5 0.09
16 15 0.27
17 9 0.16
18 8 0.15
19 3 0.05
20 6 0.11
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (17 bp):
TAATTATTAATATATTA
Found at i:3907 original size:21 final size:23
Alignment explanation
Indices: 3869--3910 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
3859 CTTTAATATT
3869 ATTTTTTGAATATATTAATAAGA
1 ATTTTTTGAATATATTAATAAGA
*
3892 ATTTTTT-AAT-TTTTAATAA
1 ATTTTTTGAATATATTAATAA
3911 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTTTTTGAATATATTAATAAGA
Found at i:4115 original size:19 final size:19
Alignment explanation
Indices: 4087--4131 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4077 TAATTTATTA
4087 TATT-TAATTTATATAA-AT
1 TATTATAATTT-TATAATAT
*
4105 TATTATAATTTTATAATCT
1 TATTATAATTTTATAATAT
4124 TATTATAA
1 TATTATAA
4132 AATAATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATAATTTTATAATAT
Found at i:4140 original size:22 final size:23
Alignment explanation
Indices: 4115--4166 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4105 TATTATAATT
* *
4115 TTATAATCTTATTAT-AAAATAA
1 TTATAATATTAATATAAAAATAA
*
4137 TTATAAAATTAATATAAAAATAA
1 TTATAATATTAATATAAAAATAA
4160 TTATAAT
1 TTATAAT
4167 TATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TTATAATATTAATATAAAAATAA
Found at i:4164 original size:12 final size:12
Alignment explanation
Indices: 4125--4165 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
4115 TTATAATCTT
4125 ATTAT-AAAATA
1 ATTATAAAAATA
*
4136 ATTATAAAATTA
1 ATTATAAAAATA
4148 A-TATAAAAATA
1 ATTATAAAAATA
4159 ATTATAA
1 ATTATAA
4166 TTATTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTATAAAAATA
Found at i:4202 original size:20 final size:20
Alignment explanation
Indices: 4179--4217 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4169 TTTATTAAGT
*
4179 ATTATATATTTAATTATAAA
1 ATTATATATTTAATAATAAA
* *
4199 ATTATTTGTTTAATAATAA
1 ATTATATATTTAATAATAA
4218 GCTATTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTATATATTTAATAATAAA
Found at i:4608 original size:17 final size:19
Alignment explanation
Indices: 4586--4631 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
4576 TTAATAATAA
4586 TATAATAAATATTA-AAAT
1 TATAATAAATATTATAAAT
4604 T-TAATAAAT-TTATAAAT
1 TATAATAAATATTATAAAT
*
4621 TATAATCAATA
1 TATAATAAATA
4632 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATAAATATTATAAAT
Found at i:4698 original size:26 final size:25
Alignment explanation
Indices: 4641--4707 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
4631 AATTTATTAA
* *
4641 AAATAATTAATATTGATTTAATATAT
1 AAATAATTTA-ATTAATTTAATATAT
4667 AAATAATTTAATTAATTTAATAT-T
1 AAATAATTTAATTAATTTAATATAT
*
4691 AATTATAATTTTATTAA
1 AA--ATAATTTAATTAA
4708 CCTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.08
25 12 0.33
26 21 0.58
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
AAATAATTTAATTAATTTAATATAT
Found at i:4839 original size:17 final size:18
Alignment explanation
Indices: 4793--4844 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
4783 AGTTAATAAT
*
4793 ATTAATTACATAA-TATA
1 ATTAATTAAATAATTATA
**
4810 ATTAATTTTATAATTATA
1 ATTAATTAAATAATTATA
4828 ATT-ATTAAATAAATTAT
1 ATTAATTAAAT-AATTAT
4845 TTCCAACGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATTAAATAATTATA
Found at i:5143 original size:22 final size:23
Alignment explanation
Indices: 5086--5139 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
5076 TAATGGAAAT
5086 TTAATATTAATAATATTTATGATAA
1 TTAATA-T-ATAATATTTATGATAA
5111 TTAAT-TATAATATTT-T-ATAA
1 TTAATATATAATATTTATGATAA
5131 TTAATATAT
1 TTAATATAT
5140 TAATCATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 9 0.32
23 1 0.04
25 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATATATAATATTTATGATAA
Found at i:6044 original size:22 final size:22
Alignment explanation
Indices: 5981--6044 Score: 56
Period size: 25 Copynumber: 2.8 Consensus size: 22
5971 CTTTAATAGG
* *
5981 TTAAATATTAATTATAATTATT
1 TTAAAAATTAATTTTAATTATT
* * *
6003 ATAATATTAATTTATCTTAATTATT
1 TTAA-A--AATTAATTTTAATTATT
6028 TTAAAAATTAATTTTAA
1 TTAAAAATTAATTTTAA
6045 AAATTTGTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 1 0.03
25 16 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAAATTAATTTTAATTATT
Found at i:6252 original size:13 final size:13
Alignment explanation
Indices: 6236--6338 Score: 62
Period size: 13 Copynumber: 8.3 Consensus size: 13
6226 TTAATAAAAT
6236 TAATATTATTATA
1 TAATATTATTATA
*
6249 TAAT-TAAATTAT-
1 TAATAT-TATTATA
*
6261 TAATATAATTATA
1 TAATATTATTATA
6274 TAATA-T-TTAT-
1 TAATATTATTATA
*
6284 T-ATATTATAATA
1 TAATATTATTATA
6296 -AATATTTAATT-TA
1 TAATA-TT-ATTATA
*
6309 -AATATTTAATATA
1 TAATA-TTATTATA
*
6322 TAATAATATTATA
1 TAATATTATTATA
6335 TAAT
1 TAAT
6339 TAAATAAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 7 0.10
12 16 0.22
13 38 0.53
14 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:6255 original size:17 final size:17
Alignment explanation
Indices: 6226--6271 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
6216 ATTCAATTGT
*
6226 TTAATAAAATTAATATTA
1 TTAATATAATTAA-ATTA
6244 TT-ATATAATTAAATTA
1 TTAATATAATTAAATTA
6260 TTAATATAATTA
1 TTAATATAATTA
6272 TATAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATATAATTAAATTA
Found at i:6300 original size:34 final size:35
Alignment explanation
Indices: 6261--6367 Score: 114
Period size: 34 Copynumber: 3.1 Consensus size: 35
6251 ATTAAATTAT
*
6261 TAATATAATTATATAATATTTATTATATTATAATA
1 TAATATAATTATATAATATTTAATATATTATAATA
*
6296 -AATATTTAATT-TA-AATATTTAATATATAATAATA
1 TAATA--TAATTATATAATATTTAATATATTATAATA
* * *
6330 TTATATAATTAAATAA-ATTAAATATATTATAATGA
1 TAATATAATTATATAATATTTAATATATTATAAT-A
6365 TAA
1 TAA
6368 ACATTTACTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
33 5 0.08
34 39 0.66
35 10 0.17
36 5 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
TAATATAATTATATAATATTTAATATATTATAATA
Found at i:6349 original size:17 final size:17
Alignment explanation
Indices: 6243--6349 Score: 57
Period size: 17 Copynumber: 6.2 Consensus size: 17
6233 AATTAATATT
*
6243 ATTATATAATTAAAT-T
1 ATTATATAATTAAATAA
*
6259 ATTAATATAATTATATAA
1 ATT-ATATAATTAAATAA
6277 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
6297 A-TATTTAATT---TAA
1 ATTATATAATTAAATAA
*
6310 A-TATTTAATATATAATAA
1 ATTATATAAT-TA-AATAA
6328 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
6346 ATTA
1 ATTA
6350 AATATATTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 27
0.69 0.05 0.26
Matches are distributed among these distances:
13 12 0.17
14 1 0.01
16 3 0.04
17 20 0.28
18 13 0.18
19 12 0.17
20 11 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:7414 original size:46 final size:44
Alignment explanation
Indices: 7335--7434 Score: 107
Period size: 46 Copynumber: 2.2 Consensus size: 44
7325 TAATTGATAT
* *
7335 ATTAATTTTATTATTTTATAATTATAAGTAATAAATT-AT-TATATA
1 ATTAATTATATTATTATATAATTATAAG-AAT-AATTGATATA-ATA
7380 ATTTAATTATATTATTATATTAATTATTAA-AATAATTGATATAATA
1 A-TTAATTATATTATTATA-TAATTA-TAAGAATAATTGATATAATA
7426 ATTAATTAT
1 ATTAATTAT
7435 TCTTAATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
45 13 0.27
46 24 0.50
47 8 0.17
48 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (44 bp):
ATTAATTATATTATTATATAATTATAAGAATAATTGATATAATA
Found at i:7428 original size:41 final size:40
Alignment explanation
Indices: 7315--7435 Score: 102
Period size: 46 Copynumber: 2.9 Consensus size: 40
7305 TATTATAATC
* * * *
7315 TTATAATATATAATTGATATATTAATTTTATTATTTTATAA
1 TTATAAGA-ATAATTGATATAATAATTATATTATTATATAA
*
7356 TTATAAGTAATAAATTATTATATAATTTAATTATATTATTATATTAA
1 TTATAAG-AAT-AA-T-TGATATAA--TAATTATATTATTATA-TAA
7403 TTATTAA-AATAATTGATATAATAATTA-ATTATT
1 TTA-TAAGAATAATTGATATAATAATTATATTATT
7436 CTTAATAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
40 6 0.09
41 14 0.21
42 3 0.05
43 8 0.12
44 7 0.11
45 2 0.03
46 17 0.26
47 6 0.09
48 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (40 bp):
TTATAAGAATAATTGATATAATAATTATATTATTATATAA
Found at i:7454 original size:41 final size:40
Alignment explanation
Indices: 7317--7454 Score: 95
Period size: 41 Copynumber: 3.3 Consensus size: 40
7307 TTATAATCTT
* * *
7317 ATAATAT--ATAATTGATATATTAATTTTATTATTTTATAATT
1 ATAATATAAATAATTGATATAATAA-TTAATTA-TTT-TAATA
* * *
7358 ATAAGTAATAAATTATT-ATATAATTTAATTATATTATTATATTA
1 ATAA-T-ATAAATAATTGATATAA--TAATTA-ATTATTTTAATA
*
7402 ATTAT-TAAAATAATTGATATAATAATTAATTATTCTTAATA
1 ATAATAT-AAATAATTGATATAATAATTAATTATT-TTAATA
7443 ATAATATAAATA
1 ATAATATAAATA
7455 TATAAATATA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
40 6 0.08
41 24 0.32
42 9 0.12
43 9 0.12
44 11 0.15
45 9 0.12
46 7 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (40 bp):
ATAATATAAATAATTGATATAATAATTAATTATTTTAATA
Found at i:7656 original size:24 final size:26
Alignment explanation
Indices: 7590--7656 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
7580 TAATAAATAG
* *
7590 ATTAATATATAAATATTATTTTATATT
1 ATTAATAT-TAAAAATTAATTTATATT
* *
7617 ATTAAATAATATAAATTAATTTATA-T
1 ATT-AATATTAAAAATTAATTTATATT
7643 -TTAATATTAAAAAT
1 ATTAATATTAAAAAT
7657 AAATATTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
26 1 0.03
27 16 0.48
28 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTAATATTAAAAATTAATTTATATT
Found at i:7832 original size:26 final size:27
Alignment explanation
Indices: 7803--7876 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
7793 CTTATATTAT
*
7803 ATTAATTGAATTAAATATTAAT-AGTA
1 ATTAATTAAATTAAATATTAATAAGTA
* *
7829 ATT-ATTAATATTTATTATTAATAAGTA
1 ATTAATTAA-ATTAAATATTAATAAGTA
* *
7856 ATATAAATAAATTAACTATTA
1 AT-TAATTAAATTAAATATTA
7877 GCTTAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.11
26 14 0.37
27 6 0.16
28 10 0.26
29 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (27 bp):
ATTAATTAAATTAAATATTAATAAGTA
Found at i:7836 original size:13 final size:13
Alignment explanation
Indices: 7818--7857 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7808 TTGAATTAAA
7818 TATTAATAGTAAT
1 TATTAATAGTAAT
* *
7831 TATTAATATTTAT
1 TATTAATAGTAAT
7844 TATTAATAAGTAAT
1 TATTAAT-AGTAAT
7858 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
TATTAATAGTAAT
Found at i:7978 original size:20 final size:20
Alignment explanation
Indices: 7953--8016 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
7943 GTTTTATAAC
7953 TAATATTATTATAATTATTA
1 TAATATTATTATAATTATTA
7973 TAATATTCA-TATAATTTATTCA
1 TAATATT-ATTATAA-TTATT-A
7995 T-ATA--ATTGATAATTATTA
1 TAATATTATT-ATAATTATTA
8013 -AATA
1 TAATA
8017 ACTAATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
20 16 0.42
21 9 0.24
22 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATATTATTATAATTATTA
Found at i:7994 original size:13 final size:13
Alignment explanation
Indices: 7976--8001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7966 ATTATTATAA
7976 TATTCATATAATT
1 TATTCATATAATT
7989 TATTCATATAATT
1 TATTCATATAATT
8002 GATAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTCATATAATT
Found at i:8094 original size:31 final size:34
Alignment explanation
Indices: 8051--8124 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 34
8041 CTTATAATAA
8051 TTAATATT-TAATTAAAATAA-ATTAA-AAGTAC
1 TTAATATTATAATTAAAATAATATTAATAAGTAC
* * *
8082 TTAAT-TTATAATTTAATTAATATTAATAATTAC
1 TTAATATTATAATTAAAATAATATTAATAAGTAC
8115 TTAATATTAT
1 TTAATATTAT
8125 TAGCATAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.06
31 15 0.42
32 5 0.14
33 10 0.28
34 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (34 bp):
TTAATATTATAATTAAAATAATATTAATAAGTAC
Found at i:8120 original size:17 final size:18
Alignment explanation
Indices: 8079--8123 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
8069 AAATTAAAAG
8079 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
8095 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
8112 TACTTAATATTA
1 TACTTAATATTA
8124 TTAGCATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:8240 original size:25 final size:22
Alignment explanation
Indices: 8198--8263 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
8188 AAATATTTAT
* * *
8198 TATAATATAATAAATATTA-TA
1 TATAATATTATTAATTTTATTA
*
8219 TAATTATATTATTAATTTTATTA
1 T-ATAATATTATTAATTTTATTA
8242 TATAATATTATTAATTTTATTA
1 TATAATATTATTAATTTTATTA
8264 AACAATTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 1 0.03
22 34 0.89
23 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAATATTATTAATTTTATTA
Found at i:8335 original size:17 final size:18
Alignment explanation
Indices: 8300--8336 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
8290 TTTATCAAAC
8300 TAATATTTAGATCATTAA
1 TAATATTTAGATCATTAA
8318 TAATA-TTA-ATCAATTAA
1 TAATATTTAGATC-ATTAA
8335 TA
1 TA
8337 TTCTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 10 0.56
18 5 0.28
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
TAATATTTAGATCATTAA
Found at i:8358 original size:32 final size:31
Alignment explanation
Indices: 8316--8395 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
8306 TTAGATCATT
*
8316 AATAATATTAATCAATTAA-TATTCTATTATATTA
1 AATAA-ATTAAT--ATTAATTATT-TAATATATTA
8350 AAT-AATTAATATTAATTTATTTAATATATTA
1 AATAAATTAATATTAA-TTATTTAATATATTA
8381 AATAAATTAAGTATT
1 AATAAATTAA-TATT
8396 TATTTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 5 0.12
31 12 0.29
32 16 0.39
33 5 0.12
34 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
AATAAATTAATATTAATTATTTAATATATTA
Found at i:8369 original size:24 final size:23
Alignment explanation
Indices: 8320--8381 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
8310 ATCATTAATA
*
8320 ATATTAATCAATTAATATTCTATT
1 ATATTAAT-AATTAATATTATATT
8344 ATATTAAATAATTAATATTA-ATT
1 ATATT-AATAATTAATATTATATT
8367 -TATTTAATATATTAA
1 ATA-TTAATA-ATTAA
8382 ATAAATTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 6 0.18
23 10 0.29
24 15 0.44
25 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTAATAATTAATATTATATT
Found at i:8504 original size:18 final size:18
Alignment explanation
Indices: 8481--8515 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8471 ATTATTCATA
*
8481 ATTAATTGAATTATATAT
1 ATTAATTCAATTATATAT
*
8499 ATTAATTCTATTATATA
1 ATTAATTCAATTATATA
8516 CAAATTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTCAATTATATAT
Found at i:8824 original size:19 final size:20
Alignment explanation
Indices: 8795--8838 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
8785 TAATTTATAT
8795 TAATTATAATAAATA-ATACA
1 TAATTATAATAAATAGATA-A
8815 TAATTA-AATAAATAGATAA
1 TAATTATAATAAATAGATAA
8834 TAATT
1 TAATT
8839 TATCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATTATAATAAATAGATAA
Found at i:9678 original size:180 final size:176
Alignment explanation
Indices: 9190--9706 Score: 495
Period size: 180 Copynumber: 2.9 Consensus size: 176
9180 ATTTTGTCAT
* * *
9190 AAAACAAATGTTTTTGTTCATATAAGCTTGTTTGGAATAAAATAATAT-TAATTTATTAATATTT
1 AAAACAATTGTTTTTGTTCATATAAGCTTATTTAGAAT-AAATAAT-TCTAATTTATTAATATTT
* * * * * *
9254 CAAAAATTAATACATAAAAGATTTAAAAAATAAATATGTTTAC-CATACCAGTTCAATTAGTTAT
64 CAAAAATTAATACGT-AAAGATTTAAAAAATGAAT-TTTTTACTGA-ACCAGTTCAAATAATTAT
* * * * *
9318 AACTATTTGATCAAATATTTATTTCAAATCGTTATGACATTTTGTTTTATC
126 GACTACTTGAACAATTATCTATTTCAAATCGTTATGACATTTTGTTTTATC
* * * * *
9369 ATAAACAATTGTTTCTGTTCATATTATCTTA-TTCGAAATAAAGTAATGCTAATTTATTAATATT
1 A-AAACAATTGTTTTTGTTCATATAAGCTTATTTAG-AATAAA-TAATTCTAATTTATTAATATT
* * * * ** * * *
9433 TTAAAAATTAATAAGTAAAGGATTTAGAAAATGTATCTTTTGGCTTG-TCCAGTGCAAACAATTA
63 TCAAAAATTAATACGTAAA-GATTTAAAAAATGAAT-TTTTTAC-TGAACCAGTTCAAATAATTA
* * * *
9497 TGACTA-TTAAACAATTATCTATTTTAAATCGTTATGACTTTTTGTTTTCTTAC
125 TGACTACTTGAACAATTATCTATTTCAAATCGTTATGACATTTTGTTTT-AT-C
* * * *
9550 AAAACAATTGTTTTTGTTCATACAAGCTTATTTAGATTACCATAATTCTAATTTATTAATATTCC
1 AAAACAATTGTTTTTGTTCATATAAGCTTATTTAGAATA-AATAATTCTAATTTATTAATATTTC
* * *
9615 AAAAATTAATACGTGAGAGATTTAAAAAATGAATTTATTTACTGAACAAGTTCAAATAATTATGG
65 AAAAATTAATACGT-AAAGATTTAAAAAATGAATTT-TTTACTGAACCAGTTCAAATAATTATGA
*
9680 CTACTTGAACAATTATCTAGTTCAAAT
128 CTACTTGAACAATTATCTATTTCAAAT
9707 TTCTATAACA
Statistics
Matches: 268, Mismatches: 55, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
179 50 0.19
180 190 0.71
181 28 0.10
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.41
Consensus pattern (176 bp):
AAAACAATTGTTTTTGTTCATATAAGCTTATTTAGAATAAATAATTCTAATTTATTAATATTTCA
AAAATTAATACGTAAAGATTTAAAAAATGAATTTTTTACTGAACCAGTTCAAATAATTATGACTA
CTTGAACAATTATCTATTTCAAATCGTTATGACATTTTGTTTTATC
Found at i:10116 original size:182 final size:182
Alignment explanation
Indices: 9793--10132 Score: 418
Period size: 182 Copynumber: 1.9 Consensus size: 182
9783 ATTTTGAATA
* * * *** * * *
9793 GTTATGACCTTTTATTTTGTCATAAAACAATTATTTTTGTTCATATTAGCTTTTTCGGATTAAAA
1 GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTAGCTTATTCGAATAAAAA
* * * * *
9858 TAATATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAAATAAATATGTTTA
66 AAATACTAACTTATTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAAATAAATATATTTA
9923 CCGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
131 CCGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
*
9975 GTTATGACCTTTTATTTCGCCATAAAATAATTATATCAATTCATA-TAGGCTTATTCGAAATAAA
1 GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTA-GCTTATTCG-AATAAA
* * * * *
10039 AAAAATACTAACTTATTACTATTCCAA-AACTTAATGAGTAAGAGATTT-AAAAAATGAATCTAT
64 AAAAATACTAACTTATTAATATTCCAACAA-TTAATAAGTAAAAGATTTAAAAAAATAAATATAT
* *
10102 TTACC-AAGCAAGTTCAAATAGTTATGACTAT
128 TTACCGAA-CAAGTTCAAATAGTAATAACTAT
10133 TTATATTATA
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
181 4 0.03
182 86 0.65
183 42 0.32
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (182 bp):
GTTATGACCTTTTATTTCGCCATAAAACAATTATATCAATTCATATTAGCTTATTCGAATAAAAA
AAATACTAACTTATTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAAATAAATATATTTA
CCGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTCAAATC
Found at i:10701 original size:181 final size:181
Alignment explanation
Indices: 10382--10712 Score: 407
Period size: 181 Copynumber: 1.8 Consensus size: 181
10372 AATCTCTTAC
* *
10382 TTATTAATTTTTAAAATATTATTAAATTAGTATTATTTTAATCGAAATAAGCTTGTATGAACAAA
1 TTATTAAGTTTTAAAATATTATTAAATTAGTATTATTTTAATCGAAATAAGCTAGTATGAACAAA
* * * ** *
10447 ACAATTGTTTTACGTTAAAAGAAAAGGTCATAACGATTTGAAAATAGATTGTCATTCATAGAGAC
66 ACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGAAAATAAATAATCATTCAAAGAGAC
** *
10512 TTAACTATTTGAACTGGTTTAACAATTAGATTTATTTTTTAATTTTCTTGG
131 AAAACTATTTGAAATGGTTTAACAATTAGATTTATTTTTTAATTTTCTTGG
* * * *
10563 TTATTAAGTTTTGAAATATTATTAAATTTGTATTATTTTATTCTAAATAA-CATAGTATGAACAG
1 TTATTAAGTTTTAAAATATTATTAAATTAGTATTATTTTAATCGAAATAAGC-TAGTATGAACA-
* * * * * * * *
10627 AACCAATTGTTTGATGATAAAATAAAAGGTTATAATGATTTG-AAATAAATAATTATTGAAATA-
64 AAACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGAAAATAAATAATCATTCAAAGAG
10690 ATCAAAACTATTTGAAATGGTTT
129 A-CAAAACTATTTGAAATGGTTT
10713 GGTAAGCATA
Statistics
Matches: 124, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
180 2 0.02
181 87 0.70
182 35 0.28
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (181 bp):
TTATTAAGTTTTAAAATATTATTAAATTAGTATTATTTTAATCGAAATAAGCTAGTATGAACAAA
ACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGAAAATAAATAATCATTCAAAGAGAC
AAAACTATTTGAAATGGTTTAACAATTAGATTTATTTTTTAATTTTCTTGG
Found at i:12227 original size:19 final size:20
Alignment explanation
Indices: 12198--12236 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12188 CATTTAATTA
12198 TTTATTGATTAATTT-TTATT
1 TTTATTGATT-ATTTATTATT
12218 TTTA-TGATTATTTATTATT
1 TTTATTGATTATTTATTATT
12237 AACAGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATTGATTATTTATTATT
Found at i:12363 original size:27 final size:25
Alignment explanation
Indices: 12320--12370 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
12310 AATTTAATTT
12320 ATTAATATTTATAATATTACTAATA
1 ATTAATATTTATAATATTACTAATA
*
12345 ATTAATATTTTTATAATATTAGTAAT
1 ATTAATA--TTTATAATATTACTAAT
12371 TTTGTTATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTAATATTTATAATATTACTAATA
Found at i:12694 original size:19 final size:19
Alignment explanation
Indices: 12653--12706 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
12643 TATTAATATT
*
12653 AATAATTAATATTTTAATT
1 AATAATTAATATTTTAATA
*
12672 AATAATTTAT-TTTTAATAA
1 AATAATTAATATTTTAAT-A
12691 AATAACGTTAATATTT
1 AATAA--TTAATATTT
12707 GACTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
21 4 0.14
22 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AATAATTAATATTTTAATA
Found at i:13724 original size:20 final size:20
Alignment explanation
Indices: 13699--13736 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13689 GGTTATGTAT
*
13699 ATATACTTAAAACTTTATTA
1 ATATACTTAAAAATTTATTA
13719 ATATACTTAAAAATTTAT
1 ATATACTTAAAAATTTAT
13737 ATATCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATACTTAAAAATTTATTA
Found at i:13815 original size:13 final size:12
Alignment explanation
Indices: 13779--13864 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 12
13769 TTAATTAATT
13779 TAATA-ATTAT-
1 TAATATATTATA
13789 TAATATATTCATA
1 TAATATATT-ATA
13802 TAATTATATTATA
1 TAA-TATATTATA
*
13815 TAA-AT-TTAAA
1 TAATATATTATA
*
13825 TAGTATA-T-TA
1 TAATATATTATA
13835 TAAT-TATTATA
1 TAATATATTATA
*
13846 TTAAATAAATTAT-
1 -T-AATATATTATA
13859 TAATAT
1 TAATAT
13865 TATTTCAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.03
10 16 0.27
11 14 0.24
12 4 0.07
13 12 0.20
14 11 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TAATATATTATA
Found at i:13876 original size:36 final size:35
Alignment explanation
Indices: 13783--13876 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 35
13773 TTAATTTAAT
* * *
13783 AATTATTAATATA-TTCATATAATTATATTATATA
1 AATTATTAATATATTTCAAATTATTATATTAAATA
*
13817 AATT-TAAATAGTATATT-ATAATTATTATATTAAATA
1 AATTATTAATA-TAT-TTCA-AATTATTATATTAAATA
13853 AATTATTAATATTATTTCAAATTA
1 AATTATTAATA-TATTTCAAATTA
13877 AACATTTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
33 5 0.10
34 6 0.12
35 1 0.02
36 27 0.56
37 9 0.19
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (35 bp):
AATTATTAATATATTTCAAATTATTATATTAAATA
Found at i:13929 original size:15 final size:15
Alignment explanation
Indices: 13909--13951 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13899 ATTTTTACTA
13909 TAATTAATAATATAT
1 TAATTAATAATATAT
13924 TAATT-ATAAATATAT
1 TAATTAAT-AATATAT
*
13939 T-ATAAATAATATA
1 TAATTAATAATATA
13952 ATTATCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATAATATAT
Found at i:14072 original size:19 final size:18
Alignment explanation
Indices: 14039--14077 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
14029 TAATTAAGTG
*
14039 TAATAATAAATACTATAT
1 TAATAAGAAATACTATAT
14057 TAATAAGAAGATACTATAT
1 TAATAAGAA-ATACTATAT
14076 TA
1 TA
14078 TAGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (18 bp):
TAATAAGAAATACTATAT
Found at i:14572 original size:15 final size:16
Alignment explanation
Indices: 14533--14575 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
14523 AATATTAATA
14533 TTATT-TAAT-ATAAG
1 TTATTATAATAATAAG
*
14547 TTATTAAAATAATAAG
1 TTATTATAATAATAAG
14563 TT-TTATAATAATA
1 TTATTATAATAATA
14576 TTATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TTATTATAATAATAAG
Found at i:15660 original size:46 final size:47
Alignment explanation
Indices: 15606--15739 Score: 170
Period size: 46 Copynumber: 3.0 Consensus size: 47
15596 TTAAATATAA
*
15606 TTAAGAAATCTTCAAATGAAAATCTTTGAGTCAT-AAATGAGAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* * * *
15652 TTAAGAAATCCTCAAATGAGAATTTTTGAGTCCTCAAATGAAAATCT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
* *
15699 TT--G-AATCTTCAAATGAGAATCTTTAAGT-TTCAAATGAGAAT
1 TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAAT
15740 TTTTGAGATG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 11 0.14
44 22 0.29
45 1 0.01
46 30 0.39
47 13 0.17
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (47 bp):
TTAAGAAATCTTCAAATGAGAATCTTTGAGTCATCAAATGAGAATCT
Found at i:15688 original size:22 final size:22
Alignment explanation
Indices: 15617--15746 Score: 129
Period size: 22 Copynumber: 5.9 Consensus size: 22
15607 TAAGAAATCT
* *
15617 TCAAATGAAAATCTTTGAGTCA
1 TCAAATGAGAATCTTTGAGTCC
*
15639 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATGAGAATCTTT--G-AGTCC
*
15663 TCAAATGAGAATTTTTGAGTCC
1 TCAAATGAGAATCTTTGAGTCC
* * *
15685 TCAAATGAAAATCTTTGAATCT
1 TCAAATGAGAATCTTTGAGTCC
* *
15707 TCAAATGAGAATCTTTAAGT-T
1 TCAAATGAGAATCTTTGAGTCC
*
15728 TCAAATGAGAATTTTTGAG
1 TCAAATGAGAATCTTTGAG
15747 ATGTGAAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
21 31 0.34
22 40 0.44
23 2 0.02
24 4 0.04
25 13 0.14
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCC
Found at i:17017 original size:7 final size:7
Alignment explanation
Indices: 16998--17035 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
16988 TTTTGGTATT
16998 TTTTATA
1 TTTTATA
17005 -TTTATA
1 TTTTATA
17011 TTTTATA
1 TTTTATA
17018 TTTTAT-
1 TTTTATA
17024 TATTTATA
1 T-TTTATA
17032 TTTT
1 TTTT
17036 TCTTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.25
7 20 0.71
8 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:17036 original size:15 final size:15
Alignment explanation
Indices: 16994--17042 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
16984 ATTTTTTTGG
* *
16994 TATTTTTTATATTTA
1 TATTATTTATATTTT
17009 TA-T-TTTATA-TTT
1 TATTATTTATATTTT
17021 TATTATTTATATTTT
1 TATTATTTATATTTT
*
17036 TCTTATT
1 TATTATT
17043 ATTTTACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 7 0.24
14 7 0.24
15 11 0.38
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATTTATATTTT
Found at i:18157 original size:20 final size:20
Alignment explanation
Indices: 18098--18170 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
18088 TTTTTAAACA
*
18098 ATTAATAATTAAA-AATATT
1 ATTAATAATTAAATATTATT
*
18117 TTTAATTAAATTAGTAATATTAATT
1 ATTAA-T-AATTA--AATATT-ATT
18142 A-TAATAATTAAATATTATT
1 ATTAATAATTAAATATTATT
18161 ATTAATAATT
1 ATTAATAATT
18171 TTAAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 8 0.18
20 15 0.34
21 5 0.11
22 5 0.11
23 3 0.07
24 5 0.11
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATTAATAATTAAATATTATT
Found at i:18164 original size:22 final size:22
Alignment explanation
Indices: 18100--18183 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
18090 TTTAAACAAT
*
18100 TAATAATTAAA-AATATTTTTAA
1 TAAT-ATTAAATAATATTATTAA
*
18122 TTAA-ATT-AGTAATATTAATT-A
1 -TAATATTAAATAATATT-ATTAA
*
18143 TAATAATTAAATATTATTATTAA
1 TAAT-ATTAAATAATATTATTAA
*
18166 TAATTTTAAATAATATTA
1 TAATATTAAATAATATTA
18184 AAATTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.08
21 10 0.20
22 20 0.41
23 15 0.31
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TAATATTAAATAATATTATTAA
Found at i:18297 original size:36 final size:34
Alignment explanation
Indices: 18231--18297 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
18221 AATAATAAAT
* *
18231 TATAAATTATTACTAATATGATTATTAATATAGA
1 TATAAATTATTAATAATATGATTATAAATATAGA
18265 TATAAATTATATATATAATATTG-TTATAAATAT
1 TATAAATTAT-TA-ATAATA-TGATTATAAATAT
18298 TATAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.36
35 2 0.07
36 14 0.50
37 2 0.07
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
TATAAATTATTAATAATATGATTATAAATATAGA
Found at i:18533 original size:15 final size:14
Alignment explanation
Indices: 18493--18534 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18483 TAATAATATA
18493 AATATATTATAATT
1 AATATATTATAATT
18507 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
18523 AATATATTATAA
1 AATATATTATAA
18535 GATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:18703 original size:33 final size:33
Alignment explanation
Indices: 18656--18720 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
18646 TAATTTTTAG
*
18656 TATTCAATACCTTTAATTTAATTAA-ATTAATTC
1 TATTCAATACCTTTAA-TTAATAAATATTAATTC
* *
18689 TATTCATTATCTTTAATTAATAAATATTAATT
1 TATTCAATACCTTTAATTAATAAATATTAATT
18721 AAATTAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTCAATACCTTTAATTAATAAATATTAATTC
Found at i:20497 original size:9 final size:9
Alignment explanation
Indices: 20467--20524 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
20457 TTTAATAACT
20467 ATTACTATTA
1 ATTA-TATTA
20477 A-TATATT-
1 ATTATATTA
20484 A-TATATTA
1 ATTATATTA
*
20492 ATTATATAA
1 ATTATATTA
20501 ATTA-ATTA
1 ATTATATTA
* *
20509 ATAATATTT
1 ATTATATTA
20518 ATTATAT
1 ATTATAT
20525 ACTATCTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.17
8 11 0.28
9 21 0.52
10 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTATATTA
Found at i:20504 original size:13 final size:13
Alignment explanation
Indices: 20473--20525 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
20463 AACTATTACT
*
20473 ATTAATATATTATAT
1 ATTAAT-TA-TATAA
20488 ATTAATTATATAA
1 ATTAATTATATAA
20501 ATTAATTA-ATAA
1 ATTAATTATATAA
*
20513 TATTTATTATATA
1 -ATTAATTATATA
20526 CTATCTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 5 0.15
15 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATTATATAA
Found at i:20803 original size:15 final size:16
Alignment explanation
Indices: 20779--20823 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
20769 AAATGTAATG
20779 ATTA-TATTAATTATA
1 ATTATTATTAATTATA
*
20794 A-TATTATTAAATATA
1 ATTATTATTAATTATA
*
20809 ATTATTTTTAATTAT
1 ATTATTATTAATTAT
20824 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTATTAATTATA
Found at i:20958 original size:21 final size:22
Alignment explanation
Indices: 20907--20961 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
20897 TTATTCATAT
20907 TATAA-TATT-AATTATATAAA
1 TATAATTATTAAATTATATAAA
20927 TATAATTATTAAATT-TATAAA
1 TATAATTATTAAATTATATAAA
*
20948 -ATTATTAATTAAAT
1 TATAATT-ATTAAAT
20962 CATCAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATTAAATTATATAAA
Found at i:21801 original size:21 final size:20
Alignment explanation
Indices: 21769--21814 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
21759 ATTTTATTTG
21769 ATTATTATTTAAAAATAATA
1 ATTATTATTTAAAAATAATA
* *
21789 ATTATTAATTTAATAATACTA
1 ATTATT-ATTTAAAAATAATA
21810 ATTAT
1 ATTAT
21815 GATAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATTTAAAAATAATA
Found at i:23062 original size:180 final size:179
Alignment explanation
Indices: 22708--23557 Score: 671
Period size: 180 Copynumber: 4.7 Consensus size: 179
22698 TCTTTATTTT
* ** * * * * * *
22708 GTCATACAACAATTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGT
1 GTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAAT
* * * *
22773 ATTTC-AAAAATT--AATAAGAGATTTAAAAAATAAATATG-GTAGCCGAACTAA-TTCAAATAG
66 ATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTA-CTGAAC-AAGTTCAAATAG
* * *
22833 TTAAGACTATCATAATAATTATCTATTTCAAATCATTCTATCCTTTTGTTTA
129 TTAAGACTATTAGAATAATTATCTATTTCAAATCATTCTA-CATTTTGTTTA
* * *
22885 GTCATAAAACAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAAC
1 GTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAAT
* *
22950 A-TTCGAAAAATTAAAACAAGAGATTTAAAAAAATAAATCTGTTTACTGAACAATTTCAAATAGA
66 ATTTCGAAAAATTAAAACAAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGT
* * * * * *
23014 TATGACTATTTA-AATAATTATCTATTTAAAATTATTTTGAGATTTTGTTTT
130 TAAGACTA-TTAGAATAATTATCTATTTCAAATCATTCT-ACATTTTGTTTA
* * * * * * *
23065 GTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAAAATAATACTACTTTATTAAT
1 GTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAAT
* * * * * *
23130 ATTTC-AAAAATTATTAAGCAAGAGATTTAAAAAACTAAAGCTATTT-TTCAA-AGCAGTTCTAA
66 ATTTCGAAAAATTA--AAACAAGAGATTTAAAAAA-TAAATCTGTTTACTGAACA--AGTTCAAA
* * * * * * * *
23192 TAGTTATA-AGTATTTA-AACAAATAT-TAATCTCAAATCGTTAT-GATCTTTGTTTT
126 TAGTTA-AGACTA-TTAGAATAATTATCT-ATTTCAAATCATTCTACAT-TTTGTTTA
** * * * *
23246 GTCATAAAACAATTGTTT-TTTATCATATAAGCTGATTCAG-ATAAAAATAATACTAATTTAATA
1 GTCATAAAACAATTGTTTCAGT-TCATACAAGCTTATTTAGAAT-AAAATAATACTAATTTATTA
* * * * *
23309 ATATTTTG-AAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATC-AGTTCAAAT
64 ATATTTCGAAAAATTAA-AA-CAAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAAT
* * * *
23372 AGTTAAGATTATTAGAATAATTATCTATGTCAAATCGTTCTGACCTTTTGTTTA
127 AGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTCT-ACATTTTGTTTA
* * * *
23426 ATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCA-ATAGAAAATAATACTAATTTATTAA
1 GTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGA-ATAAAATAATACTAATTTATTAA
* * * * **
23490 CT-TTT-GAAAAATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAA
65 -TATTTCGAAAAATTAA-AA-CAAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAA
23553 TAGTT
126 TAGTT
23558 GTTTCCTTTC
Statistics
Matches: 539, Mismatches: 98, Indels: 67
0.77 0.14 0.10
Matches are distributed among these distances:
176 3 0.01
177 61 0.11
178 4 0.01
179 51 0.09
180 226 0.42
181 125 0.23
182 69 0.13
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (179 bp):
GTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTATTAAT
ATTTCGAAAAATTAAAACAAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTT
AAGACTATTAGAATAATTATCTATTTCAAATCATTCTACATTTTGTTTA
Found at i:23867 original size:179 final size:182
Alignment explanation
Indices: 23624--24414 Score: 670
Period size: 179 Copynumber: 4.4 Consensus size: 182
23614 AAAAATTAAT
* * * * * *
23624 AAGAGATTTAAAAAATAAATATG-GTAGCCGAACTAGTTCAAATAGTTAAGACTA-TCATAATAA
1 AAGAGATTTAAAAAATAAATCTGTTTA-CTGAACAAGTTCAAATAGTTATGACTATTTA-AATAA
23687 TTATCTATTTCAAATCATTCT-ATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
64 TTATCTATTTCAAATCATTCTGA-CCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
*
23751 GCTTATTTGGAAT-AAAATAATACTAATTTATTAACA-TTCGAAAAATAA-AA-C
128 GCTTATTTAGAATAAAAATAATACTAATTTATTAACATTTCGAAAAATAATAAGC
* *
23802 AAGAGATTTAAAAAAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAAT
1 AAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAATAAT
* * * ** * * ** * * *
23867 TATCTATTTAAAATTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTGGTTAATAAAAAC
65 TATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAAGC
* * * * *
23932 TTATCTAAAAT-AAAATAATACTACTTTATTAATATTTC-AAAAATTATTAAGC
130 TTATTTAGAATAAAAATAATACTAATTTATTAACATTTCGAAAAA-TAATAAGC
* * * * * * * * *
23984 AAGAGATTTAAAAACTAAAGCTATTT-TTCAAAGCAA-TTCTAATAGTTATAAGTATTTAAACAA
1 AAGAGATTTAAAAAATAAATCTGTTTACT-GAA-CAAGTTCAAATAGTTATGACTATTTAAATAA
* * * * * * * * * *
24047 ATAT-TAATCTCAAGTCGTTATGATC-TTTGTTTTGTCATAAAATAATTATTT--TTATCATATA
64 TTATCT-ATTTCAAATCATTCTGACCTTTTGTTTAGTCATAAAACAATTATTTCAGT-TCATACA
* * * * * * *
24108 AGCTGATTCAG-ATAAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGT
127 AGCTTATTTAGAATAAAAATAATACTAATTTATTAACATTTCGAAAAATAATAAGC
* * * * *
24163 AAGAGATTTAAAAAATAAATGTGTTTGCTGATC-AGTTCAAATAGTTAAGATTA-TTAGAATAAT
1 AAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTA-AATAAT
* * * *
24226 TATTTATTTCAAATCATTCTGACCTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGC
65 TATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAAGC
* * *
24291 TTA-TT-CAATAGAAAATAATACTAATTTATTAAC-TTTTGAAAGATTAATAAGC
130 TTATTTAGAATA-AAAATAATACTAATTTATTAACATTTCGAAA-AATAATAAGC
* * * * ** * *
24343 AGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAAT
1 AAGAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAATAAT
24408 TATCTAT
65 TATCTAT
24415 CTAAAATTGT
Statistics
Matches: 483, Mismatches: 103, Indels: 50
0.76 0.16 0.08
Matches are distributed among these distances:
177 4 0.01
178 48 0.10
179 226 0.47
180 88 0.18
181 73 0.15
182 42 0.09
183 2 0.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (182 bp):
AAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAATAATT
ATCTATTTCAAATCATTCTGACCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAAGCT
TATTTAGAATAAAAATAATACTAATTTATTAACATTTCGAAAAATAATAAGC
Found at i:24308 original size:359 final size:360
Alignment explanation
Indices: 23764--24459 Score: 798
Period size: 359 Copynumber: 1.9 Consensus size: 360
23754 TATTTGGAAT
*
23764 AAAATAATACTAATTTATTAACATTCGAAAAATAAAACAAGAGATTTAAAAAAATAAATCTGTTT
1 AAAATAATACTAATTTAATAACATTCGAAAAATAAAACAAGAGATTTAAAAAAATAAATCTGTTT
* * * * *
23829 ACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAATTATTTTGAGATTT
66 ACTGAACAAGTTCAAATAGATAAGACTATTTAAATAATTATCTATTTAAAATCATTCTGACATTT
** ** * *
23894 TGTTTTGTCATAAAACAATTGTTTTGGTTAATAAAAACTTATCTAAAATAAAATAATACTACTTT
131 TGTTTAATCATAAAACAATTGTTTCAGTTAATAAAAACTTATCTAAAAGAAAATAATACTAATTT
* **
23959 ATTAA-TATTTCAAAAATTATTAAGCAAGAGATTT-AAAAACTAAAGCTATTTTTCAAAGCAA-T
196 ATTAACT-TTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGCTATTTACCAAA-CAAGT
* * * *
24021 TCTAATAGTTATAAGTATTTAAACAAATAT-TAATCTCAAGTCGTTATG-ATCTTTGTTTTGTCA
259 TCAAATAGTTATAACTATTTAAACAAATATCT-ATCTAAAATCGTTATGAATCTTTGTTTTGTCA
24084 TAAAATAATTATTTTTATCATATAAGCTGATTCAGATA
323 TAAAATAATTATTTTTATCATATAAGCTGATTCAGATA
* * * * *
24122 AAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGATTT-AAAAAATAAATGTG
1 AAAATAATACTAATTTAATAACA-TTCGAAAAATAA-AA-CAAGAGATTTAAAAAAATAAATCTG
* * * * * *
24186 TTTGCTGATC-AGTTCAAATAGTTAAGATTA-TTAGAATAATTATTTATTTCAAATCATTCTGAC
63 TTTACTGAACAAGTTCAAATAGATAAGACTATTTA-AATAATTATCTATTTAAAATCATTCTGAC
* * * * * *
24249 CTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTAT-TCAATAGAAAATAATACT
127 ATTTTGTTTAATCATAAAACAATTGTTTCAGTTAATAAAAACTTATCT-AAAAGAAAATAATACT
* * * * ** *
24313 AATTTATTAACTTTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACA
191 AATTTATTAACTTTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGCTATTTACCAAACA
* * * * * *
24378 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATCTAAAATTGTTGTGAATTTTTGTTTTGT
256 AGTTCAAATAGTTATAACTATTTAAACAAATATCTATCTAAAATCGTTATGAATCTTTGTTTTGT
* *
24443 TATAAAATAATTGTTTT
321 CATAAAATAATTATTTT
24460 AGTTCACAAA
Statistics
Matches: 277, Mismatches: 51, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
358 25 0.09
359 135 0.49
360 80 0.29
361 37 0.13
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.40
Consensus pattern (360 bp):
AAAATAATACTAATTTAATAACATTCGAAAAATAAAACAAGAGATTTAAAAAAATAAATCTGTTT
ACTGAACAAGTTCAAATAGATAAGACTATTTAAATAATTATCTATTTAAAATCATTCTGACATTT
TGTTTAATCATAAAACAATTGTTTCAGTTAATAAAAACTTATCTAAAAGAAAATAATACTAATTT
ATTAACTTTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAAGCTATTTACCAAACAAGTTC
AAATAGTTATAACTATTTAAACAAATATCTATCTAAAATCGTTATGAATCTTTGTTTTGTCATAA
AATAATTATTTTTATCATATAAGCTGATTCAGATA
Found at i:24339 original size:833 final size:836
Alignment explanation
Indices: 22720--24390 Score: 3213
Period size: 833 Copynumber: 2.0 Consensus size: 836
22710 CATACAACAA
22720 TTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGTATTTCAAAAATT
1 TTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGTATTTCAAAAATT
22785 AATAAGAGATTTAAAAAATAAATATGGTAGCCGAACTAATTCAAATAGTTAAGACTATCATAATA
66 AATAAGAGATTTAAAAAATAAATATGGTAGCCGAACTAATTCAAATAGTTAAGACTATCATAATA
22850 ATTATCTATTTCAAATCATTCTATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
131 ATTATCTATTTCAAATCATTCTATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
22915 GCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGAAAAATTAAAACAAGAGATTTAAAA
196 GCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGAAAAATTAAAACAAGAGATTTAAAA
22980 AAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
261 AAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
23045 TTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAA
326 TTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAA
23110 AATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAAACTAAAGCTATT
391 AATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAAACTAAAGCTATT
*
23175 TTTCAAAGCAGTTCTAATAGTTATAAGTATTTAAACAAATATTAATCTCAAATCGTTATGATCTT
456 TTTCAAAGCAATTCTAATAGTTATAAGTATTTAAACAAATATTAATCTCAAATCGTTATGATCTT
*
23240 TGTTTTGTCATAAAACAATTGTTTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTT
521 TGTTTTGTCATAAAACAATTGATTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTT
23305 AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAA
586 AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAA
*
23370 ATAGTTAAGATTATTAGAATAATTATCTATGTCAAATCGTTCTGACCTTTTGTTTAATCATAAAA
651 ATAGTTAAGATTATTAGAATAATTATCTATGTCAAATCATTCTGACCTTTTGTTTAATCATAAAA
23435 TAATTGTTTCAGTTCATACAAGCTTATTCAATAGAAAATAATACTAATTTATTAACTTTTGAAAA
716 TAATTGTTTCAGTTCATACAAGCTTATTCAATAGAAAATAATACTAATTTATTAACTTTTGAAAA
23500 ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAG
781 ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAG
* *
23556 TTGTTTCCTTTCATACAAGCTTATTCATATTAAAATGATATTAATTTAATAGTATTTTAAAAATT
1 TTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGTATTTCAAAAATT
*
23621 AATAAGAGATTTAAAAAATAAATATGGTAGCCGAACTAGTTCAAATAGTTAAGACTATCATAATA
66 AATAAGAGATTTAAAAAATAAATATGGTAGCCGAACTAATTCAAATAGTTAAGACTATCATAATA
23686 ATTATCTATTTCAAATCATTCTATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
131 ATTATCTATTTCAAATCATTCTATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
23751 GCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGAAAAA-TAAAACAAGAGATTTAAAA
196 GCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGAAAAATTAAAACAAGAGATTTAAAA
23815 AAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
261 AAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
*
23880 TTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTGGTTAATAAAAACTTATCTAAAATAA
326 TTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAA
23945 AATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTT-AAAAACTAAAGCTATT
391 AATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAAACTAAAGCTATT
*
24009 TTTCAAAGCAATTCTAATAGTTATAAGTATTTAAACAAATATTAATCTCAAGTCGTTATGATCTT
456 TTTCAAAGCAATTCTAATAGTTATAAGTATTTAAACAAATATTAATCTCAAATCGTTATGATCTT
*
24074 TGTTTTGTCATAAAATAATT-ATTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTT
521 TGTTTTGTCATAAAACAATTGATTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTT
24138 AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAA
586 AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAA
* *
24203 ATAGTTAAGATTATTAGAATAATTATTTATTTCAAATCATTCTGACCTTTTGTTTAATCATAAAA
651 ATAGTTAAGATTATTAGAATAATTATCTATGTCAAATCATTCTGACCTTTTGTTTAATCATAAAA
*
24268 TAATTGTTTCAGTTCATACAAGCTTATTCAATAGAAAATAATACTAATTTATTAACTTTTGAAAG
716 TAATTGTTTCAGTTCATACAAGCTTATTCAATAGAAAATAATACTAATTTATTAACTTTTGAAAA
24333 ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAG
781 ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAG
24389 TT
1 TT
24391 ATGACTATTT
Statistics
Matches: 823, Mismatches: 12, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
833 292 0.35
834 98 0.12
835 196 0.24
836 237 0.29
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (836 bp):
TTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATATTAATTTAATAGTATTTCAAAAATT
AATAAGAGATTTAAAAAATAAATATGGTAGCCGAACTAATTCAAATAGTTAAGACTATCATAATA
ATTATCTATTTCAAATCATTCTATCCTTTTGTTTAGTCATAAAACAATTATTTCAGTTCATACAA
GCTTATTTGGAATAAAATAATACTAATTTATTAACATTCGAAAAATTAAAACAAGAGATTTAAAA
AAATAAATCTGTTTACTGAACAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAA
TTATTTTGAGATTTTGTTTTGTCATAAAACAATTGTTTTAGTTAATAAAAACTTATCTAAAATAA
AATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAAACTAAAGCTATT
TTTCAAAGCAATTCTAATAGTTATAAGTATTTAAACAAATATTAATCTCAAATCGTTATGATCTT
TGTTTTGTCATAAAACAATTGATTTTTATCATATAAGCTGATTCAGATAAAAATAATACTAATTT
AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGCTGATCAGTTCAA
ATAGTTAAGATTATTAGAATAATTATCTATGTCAAATCATTCTGACCTTTTGTTTAATCATAAAA
TAATTGTTTCAGTTCATACAAGCTTATTCAATAGAAAATAATACTAATTTATTAACTTTTGAAAA
ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACCAAACAAGTTCAAATAG
Done.