Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2340
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: 223142
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:272 original size:8 final size:8
Alignment explanation
Indices: 261--414 Score: 59
Period size: 8 Copynumber: 18.8 Consensus size: 8
251 AAATTCAATA
*
261 ATTTATTT
1 ATTTATAT
269 ATTTATAT
1 ATTTATAT
277 ATTT-T-T
1 ATTTATAT
*
283 ATGTATTAT
1 ATTTA-TAT
*
292 AATTATAT
1 ATTTATAT
* *
300 -TTAAAAT
1 ATTTATAT
307 ATTTTATAT
1 A-TTTATAT
* *
316 TTTTATAA
1 ATTTATAT
*
324 ATTTTTAT
1 ATTTATAT
*
332 A-TGATAAT
1 ATTTAT-AT
340 AATTTATAT
1 -ATTTATAT
* *
349 -TATATAA
1 ATTTATAT
356 ATTTTACTAT
1 A-TTTA-TAT
366 ATTTATAT
1 ATTTATAT
374 ATTTATATCAT
1 A-TT-TAT-AT
385 ATTTATATT
1 ATTTATA-T
*
394 ATTTTTAT
1 ATTTATAT
402 A-TTATAT
1 ATTTATAT
*
409 AATTAT
1 ATTTAT
415 GTATATAAGT
Statistics
Matches: 107, Mismatches: 23, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
6 4 0.04
7 18 0.17
8 40 0.37
9 31 0.29
10 11 0.10
11 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:329 original size:18 final size:18
Alignment explanation
Indices: 299--333 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
289 TATAATTATA
299 TTTAAAATATTTTATATT
1 TTTAAAATATTTTATATT
317 TTTATAAAT-TTTTATAT
1 TTTA-AAATATTTTATAT
334 GATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAAAATATTTTATATT
Found at i:331 original size:47 final size:50
Alignment explanation
Indices: 257--377 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 50
247 ATCCAAATTC
* * *
257 AATAATTTAT-TTATTTATATATTTTTATGT-ATTATAA-TTATATT-TAA
1 AATATTTTATATT-TTTATATATTTTTATATGATAATAATTTATATTATAA
* *
304 AATATTTTATATTTTTATAAATTTTTATATGATAATAATTTATATTATAT
1 AATATTTTATATTTTTATATATTTTTATATGATAATAATTTATATTATAA
*
354 AA-ATTTTACTATATTTATATATTT
1 AATATTTTA-TATTTTTATATATTT
378 ATATCATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
47 24 0.39
48 8 0.13
49 13 0.21
50 17 0.27
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (50 bp):
AATATTTTATATTTTTATATATTTTTATATGATAATAATTTATATTATAA
Found at i:388 original size:11 final size:11
Alignment explanation
Indices: 341--408 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
331 TATGATAATA
341 ATTTATATTAT
1 ATTTATATTAT
** *
352 ATAAATTTTACT
1 ATTTATATTA-T
364 ATATT-TA-TAT
1 AT-TTATATTAT
*
374 ATTTATATCAT
1 ATTTATATTAT
385 ATTTATATTAT
1 ATTTATATTAT
*
396 TTTTATATTAT
1 ATTTATATTAT
407 AT
1 AT
409 AATTATGTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 32 0.74
12 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:419 original size:28 final size:27
Alignment explanation
Indices: 342--420 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
332 ATGATAATAA
342 TTTATATTATATAAATT-TTACTA-TATT
1 TTTATATTATAT-AATTATTA-TATTATT
* *
369 TATATATTTATATCA-TATTTATATTATT
1 TTTATA-TTATATAATTA-TTATATTATT
397 TTTATATTATATAATTATGTATAT
1 TTTATATTATATAATTAT-TATAT
421 AAGTATAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
26 1 0.02
27 16 0.38
28 25 0.60
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTATATTATATAATTATTATATTATT
Found at i:421 original size:19 final size:16
Alignment explanation
Indices: 307--412 Score: 58
Period size: 17 Copynumber: 6.2 Consensus size: 16
297 TATTTAAAAT
*
307 ATTTTATATTTTTATAA
1 ATTTTATATATTTAT-A
*
324 ATTTT-TATA-TGATA
1 ATTTTATATATTTATA
*
338 ATAATTTATAT-TATATAA
1 AT--TTTATATATTTAT-A
356 ATTTTACTATATTTATA
1 ATTTTA-TATATTTATA
373 TATTTATATCATATTTATA
1 -ATTT-TAT-ATATTTATA
392 TTATTTT-TATATTATATA
1 --ATTTTATATATT-TATA
410 ATT
1 ATT
413 ATGTATATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 25
0.71 0.05 0.25
Matches are distributed among these distances:
14 3 0.04
15 3 0.04
16 13 0.18
17 19 0.26
18 17 0.24
19 12 0.17
20 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (16 bp):
ATTTTATATATTTATA
Found at i:1656 original size:13 final size:14
Alignment explanation
Indices: 1639--1673 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1629 TTAAATTTTT
1639 TTTAAAAATAAATA
1 TTTAAAAATAAATA
*
1653 -TTAAATATAAATA
1 TTTAAAAATAAATA
1666 TTTAAAAA
1 TTTAAAAA
1674 AATTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTAAAAATAAATA
Found at i:3368 original size:19 final size:20
Alignment explanation
Indices: 3331--3383 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
3321 TTATATATTT
3331 ATAA-TTAAATATAAATAAA-A
1 ATAATTTAAAT-T-AATAAATA
* *
3351 ATATTTTTAATTAATAAATA
1 ATAATTTAAATTAATAAATA
3371 ATAATTTAAATTA
1 ATAATTTAAATTA
3384 TTTAAATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 6 0.22
20 16 0.59
21 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATTTAAATTAATAAATA
Found at i:3409 original size:2 final size:2
Alignment explanation
Indices: 3397--3426 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
3387 AAATCATTAA
3397 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
3427 AATTCAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3823 original size:17 final size:16
Alignment explanation
Indices: 3774--3819 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
3764 TATTATATAT
3774 TTATATAAAATTT-AA
1 TTATATAAAATTTAAA
*
3789 TAATATTAATAATTTAAA
1 TTATA-TAA-AATTTAAA
3807 TTATATAAAATTT
1 TTATATAAAATTT
3820 TAAAATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 8 0.31
18 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATATAAAATTTAAA
Found at i:3856 original size:11 final size:12
Alignment explanation
Indices: 3833--3871 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
3823 AATATTCATA
3833 TATATTATATTT
1 TATATTATATTT
*
3845 TA-ATTATTTTT
1 TATATTATATTT
3856 TATATTATA-TT
1 TATATTATATTT
3867 TATAT
1 TATAT
3872 AATAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTATATTT
Found at i:4134 original size:21 final size:20
Alignment explanation
Indices: 4110--4166 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
4100 TGGATAATTT
*
4110 AAATATAATATAAATTATAAA
1 AAATATAAT-TAAAATATAAA
4131 AAATATAATTAAAATAT--A
1 AAATATAATTAAAATATAAA
* *
4149 ATATATAATAAAAATATA
1 AAATATAATTAAAATATA
4167 TAATATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.50
20 7 0.22
21 9 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATAATTAAAATATAAA
Found at i:4139 original size:32 final size:31
Alignment explanation
Indices: 4103--4186 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
4093 ATTTTTATGG
4103 ATAATTTAAATATAATATA-AATTATAAAAAAT
1 ATAATTTAAATATAATATATAA-TA-AAAAAAT
* *
4135 ATAATTAAAATATAATATATAATAAAAATAT
1 ATAATTTAAATATAATATATAATAAAAAAAT
* *
4166 ATAATATAAATTTATATATAT
1 ATAATTTAAATATA-ATATAT
4187 TTTTATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
31 17 0.38
32 26 0.58
33 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
ATAATTTAAATATAATATATAATAAAAAAAT
Found at i:4172 original size:18 final size:17
Alignment explanation
Indices: 4131--4174 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4121 AAATTATAAA
*
4131 AAATATAATTAAAATAT
1 AAATATAATAAAAATAT
4148 AATATATAATAAAAATAT
1 AA-ATATAATAAAAATAT
4166 ATAATATAA
1 A-AATATAA
4175 ATTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 21 0.88
19 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATAAAAATAT
Found at i:4183 original size:15 final size:13
Alignment explanation
Indices: 4148--4181 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4138 ATTAAAATAT
4148 AATATATAATAAA
1 AATATATAATAAA
*
4161 AATATATAATATA
1 AATATATAATAAA
*
4174 AATTTATA
1 AATATATA
4182 TATATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATAATAAA
Found at i:4217 original size:18 final size:17
Alignment explanation
Indices: 4187--4241 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
4177 TTATATATAT
4187 TTTTATAATATTTAAAA
1 TTTTATAATATTTAAAA
*
4204 TTTTATGATAATTTAAATA
1 TTTTATAAT-ATTTAAA-A
* *
4223 TAATTATAATATATAAAA
1 T-TTTATAATATTTAAAA
4241 T
1 T
4242 ATACAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 8 0.26
18 9 0.29
19 8 0.26
20 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTATAATATTTAAAA
Found at i:4241 original size:20 final size:20
Alignment explanation
Indices: 4110--4244 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
4100 TGGATAATTT
*
4110 AAATATAA-TATAAATTATAAA
1 AAATATAATTAT-AA-TATATA
4131 AAATATAATTA-AA-ATATA
1 AAATATAATTATAATATATA
* * *
4149 ATATATAATAAAAATATATA
1 AAATATAATTATAATATATA
*
4169 ATATA-AATT-T-ATATAT-
1 AAATATAATTATAATATATA
* *
4185 --AT-T-TTTATAATATTTA
1 AAATATAATTATAATATATA
* * *
4201 AAATTTTATGATAAT-T-T-
1 AAATATAATTATAATATATA
4218 AAATATAATTATAATATATA
1 AAATATAATTATAATATATA
4238 AAATATA
1 AAATATA
4245 CAAATTATTA
Statistics
Matches: 88, Mismatches: 12, Indels: 29
0.68 0.09 0.22
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 5 0.06
17 18 0.20
18 17 0.19
19 8 0.09
20 25 0.28
21 8 0.09
22 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
AAATATAATTATAATATATA
Found at i:4410 original size:18 final size:19
Alignment explanation
Indices: 4389--4432 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
4379 ATGTGTTTTA
4389 TAATATTATA-ATTATATT
1 TAATATTATATATTATATT
* *
4407 TAATACTATATTTTATATT
1 TAATATTATATATTATATT
4426 T-ATATTA
1 TAATATTA
4433 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATTATATATTATATT
Found at i:6098 original size:16 final size:16
Alignment explanation
Indices: 6074--6107 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6064 TTCACATTCT
6074 TATTAAATATTTATTA
1 TATTAAATATTTATTA
*
6090 TATTTAATATTTATTA
1 TATTAAATATTTATTA
6106 TA
1 TA
6108 AAATTACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTAAATATTTATTA
Found at i:6412 original size:15 final size:17
Alignment explanation
Indices: 6378--6420 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
6368 TTAGTATTAA
*
6378 TAAATGTAATAGATTTT
1 TAAATATAATAGATTTT
*
6395 TAAATTTAATA-A-TTT
1 TAAATATAATAGATTTT
6410 TAAATATAATA
1 TAAATATAATA
6421 TAATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
17 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TAAATATAATAGATTTT
Found at i:16695 original size:29 final size:29
Alignment explanation
Indices: 16659--16717 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16649 CATTCAGTTA
16659 AATTTAATTGATTTCAGTAAAATTTAATT
1 AATTTAATTGATTTCAGTAAAATTTAATT
16688 AATTTAATTGATTTCAGTAAAATTTAATT
1 AATTTAATTGATTTCAGTAAAATTTAATT
16717 A
1 A
16718 GATAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (29 bp):
AATTTAATTGATTTCAGTAAAATTTAATT
Found at i:16711 original size:20 final size:20
Alignment explanation
Indices: 16651--16692 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16641 AATCTATTCA
* *
16651 TTCAGTTAAATTTAATTGAT
1 TTCAGTAAAATTTAATTAAT
16671 TTCAGTAAAATTTAATTAAT
1 TTCAGTAAAATTTAATTAAT
16691 TT
1 TT
16693 AATTGATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCAGTAAAATTTAATTAAT
Found at i:17524 original size:19 final size:19
Alignment explanation
Indices: 17497--17545 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
17487 ATATATACAC
*
17497 ATTATATATAATAAAAATT
1 ATTAAATATAATAAAAATT
**
17516 ATTAAATAT-ATTTAAATT
1 ATTAAATATAATAAAAATT
17534 -TTAAATATAATA
1 ATTAAATATAATA
17546 TAATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATATAATAAAAATT
Found at i:17530 original size:10 final size:10
Alignment explanation
Indices: 17517--17615 Score: 60
Period size: 10 Copynumber: 9.1 Consensus size: 10
17507 ATAAAAATTA
17517 TTAAATATAT
1 TTAAATATAT
17527 TT-AA-AT-T
1 TTAAATATAT
17534 TTAAATATAAT
1 TTAAATAT-AT
17545 ATAATATAATATAT
1 -T--TA-AATATAT
17559 ATTAAATATAT
1 -TTAAATATAT
*
17570 TTTAATAATAT
1 TTAAAT-ATAT
17581 TTAAATATTATTAT
1 TT-AA-A-TA-TAT
*
17595 TTAATTATAT
1 TTAAATATAT
17605 TTAAATATAT
1 TTAAATATAT
17615 T
1 T
17616 ATGTTTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 4 0.06
10 20 0.28
11 16 0.22
12 4 0.06
13 4 0.06
14 12 0.17
15 5 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAAATATAT
Found at i:17562 original size:43 final size:45
Alignment explanation
Indices: 17499--17615 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
17489 ATATACACAT
*
17499 TATATATAATA-AAAAT-TATTAAATATATTT-A-AAT-TTTAAA
1 TATATATAATATAATATATATTAAATATATTTAATAATATTTAAA
17539 TATAATATAATATAATATATATTAAATATATTTTAATAATATTTAAA
1 TAT-ATATAATATAATATATATTAAATATA-TTTAATAATATTTAAA
* *
17586 TAT-TATTATTTAAT-TATATTTAAATATATT
1 TATATATAATATAATATATA-TTAAATATATT
17616 ATGTTTATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
40 3 0.05
41 8 0.12
42 4 0.06
43 11 0.17
44 9 0.14
45 19 0.29
46 3 0.05
47 9 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (45 bp):
TATATATAATATAATATATATTAAATATATTTAATAATATTTAAA
Found at i:17568 original size:21 final size:21
Alignment explanation
Indices: 17542--17613 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
17532 TTTTAAATAT
17542 AATATAATATAAT-ATATATTA
1 AATATAATATAATAATAT-TTA
* *
17563 AATATATTTTAATAATATTTA
1 AATATAATATAATAATATTTA
* *
17584 AATATTATTATTTAATTATATTTA
1 AATA-TA--ATATAATAATATTTA
17608 AATATA
1 AATATA
17614 TTATGTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 18 0.42
22 6 0.14
23 2 0.05
24 17 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAATATAATAATATTTA
Found at i:17597 original size:24 final size:22
Alignment explanation
Indices: 17524--17617 Score: 88
Period size: 24 Copynumber: 4.1 Consensus size: 22
17514 TTATTAAATA
17524 TATTTAA-AT-TTTAAATATAAT
1 TATTTAATATATTTAAATAT-AT
*
17545 ATAATATAATATATATTAAATATA-
1 -T-ATTTAATATAT-TTAAATATAT
17569 T-TTTAATAATATTTAAATATTAT
1 TATTTAAT-ATATTTAAATA-TAT
17592 TATTTAATTATATTTAAATATAT
1 TATTTAA-TATATTTAAATATAT
17615 TAT
1 TAT
17618 GTTTATTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
21 12 0.20
22 7 0.11
23 13 0.21
24 18 0.30
25 3 0.05
26 8 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTAATATATTTAAATATAT
Found at i:18512 original size:18 final size:18
Alignment explanation
Indices: 18489--18545 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
18479 TACATTGAAA
*
18489 AAATAATTAAGATTTAAT
1 AAATAATTAAAATTTAAT
18507 AAATAATTAAAATTTAAT
1 AAATAATTAAAATTTAAT
* *
18525 AAA-ATTTAAAA-ATAAT
1 AAATAATTAAAATTTAAT
18541 AAATA
1 AAATA
18546 GGTGAAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.20
17 8 0.23
18 20 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATAATTAAAATTTAAT
Found at i:18963 original size:5 final size:5
Alignment explanation
Indices: 18953--19022 Score: 58
Period size: 5 Copynumber: 14.4 Consensus size: 5
18943 AATTTAAGAA
* * * *
18953 ATAAT ATAAT A-AAT ATGAT ATAAT AT-AT TTAA- ATAAA ATTAAT ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
19001 AT-AT ATAAT ATAAAT ATAAT AT
1 ATAAT ATAAT AT-AAT ATAAT AT
19023 TTATATTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 14 0.26
5 30 0.57
6 9 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:18996 original size:29 final size:29
Alignment explanation
Indices: 18955--19021 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
18945 TTTAAGAAAT
* *
18955 AATATAATAAATATGATATA-ATATATTTA
1 AATAAAATAAATATGATATATATA-ATATA
*
18984 AATAAAATTAATATGATATATATAATATA
1 AATAAAATAAATATGATATATATAATATA
*
19013 AATATAATA
1 AATAAAATA
19022 TTTATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AATAAAATAAATATGATATATATAATATA
Found at i:19033 original size:24 final size:25
Alignment explanation
Indices: 18961--19033 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
18951 AAATAATATA
*
18961 ATAAATATGATATAATATATTTAA-
1 ATAAATATAATATAATATATTTAAT
* *
18985 ATAAA-ATTAATATGATATATATAAT
1 ATAAATA-TAATATAATATATTTAAT
*
19010 ATAAATATAATAT-TTATATTTAAT
1 ATAAATATAATATAATATATTTAAT
19034 GAATTTATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 28 0.68
25 11 0.27
26 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
ATAAATATAATATAATATATTTAAT
Found at i:19612 original size:12 final size:13
Alignment explanation
Indices: 19595--19636 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 13
19585 AATAATATTC
19595 ATTTT-ATTTTAT
1 ATTTTAATTTTAT
19607 ATTTTAATTTTAT
1 ATTTTAATTTTAT
*
19620 -TTTTAATTTAAT
1 ATTTTAATTTTAT
19632 ATTTT
1 ATTTT
19637 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTAATTTTAT
Found at i:19618 original size:18 final size:17
Alignment explanation
Indices: 19595--19631 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19585 AATAATATTC
*
19595 ATTTTATTTTATATTTTA
1 ATTTTATTTT-TAATTTA
19613 ATTTTATTTTTAATTTA
1 ATTTTATTTTTAATTTA
19630 AT
1 AT
19632 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTTAATTTA
Found at i:20233 original size:10 final size:10
Alignment explanation
Indices: 20218--20251 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
20208 TCATATCTTA
20218 AAAAAAATAT
1 AAAAAAATAT
20228 AAAAAAATAT
1 AAAAAAATAT
*
20238 AAAATAAT-T
1 AAAAAAATAT
20247 AAAAA
1 AAAAA
20252 TAACGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:20249 original size:30 final size:29
Alignment explanation
Indices: 20189--20251 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
20179 AAATTTTCCT
** *
20189 AAAAAAATTAAAAAAATTATCATATCTTA
1 AAAAAAATTAAAAAAATTAAAATATATTA
20218 AAAAAAATATAAAAAAATATAAAATA-ATTA
1 AAAAAAAT-TAAAAAAAT-TAAAATATATTA
20248 AAAA
1 AAAA
20252 TAACGAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 8 0.28
30 16 0.55
31 5 0.17
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAAAAATTAAAAAAATTAAAATATATTA
Found at i:20250 original size:29 final size:28
Alignment explanation
Indices: 20188--20251 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
20178 AAAATTTTCC
** *
20188 TAAAAAAATTAAAAAAATTATCATATCT
1 TAAAAAAATTAAAAAAATTAAAATATAT
20216 TAAAAAAAATATAAAAAAATATAAAATA-AT
1 T-AAAAAAAT-TAAAAAAAT-TAAAATATAT
20246 TAAAAA
1 TAAAAA
20252 TAACGAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.03
29 13 0.43
30 11 0.37
31 5 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (28 bp):
TAAAAAAATTAAAAAAATTAAAATATAT
Found at i:24691 original size:81 final size:79
Alignment explanation
Indices: 24606--24819 Score: 189
Period size: 87 Copynumber: 2.6 Consensus size: 79
24596 CTTACCGATC
* * *
24606 TCTGGTTCCCCACCTCT-TCCACCTCCACCAACCCCATCGATGTCTGGTTCCCCACCACCTTCCT
1 TCTGGTTCCCCACCTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACC-TCCA
* *
24670 CTATACCCCCATTAATG
65 C--CACCCCCATCAATG
* * * * *
24687 TCTGGTGTCCTACCTTCTCTCTCTCCTCCTCCACCACCCCCATCGATATCTAGTGCCCCACCTCC
1 TCTGGT-TCC--CC-AC-CTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACC
*
24752 TCCACCACCCCCATCGATG
61 TCCACCACCCCCATCAATG
* * *
24771 TCTAGTGCCCCACCTCCTCCTCCACCTCCACC-ACCCCTATTGATGTCTA
1 TCTGGTTCCCCACCT-CT-CTCCACCTCCACCAACCCC-ATCGATGTCTA
24820 ATGTCCCCCT
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 29 0.27
82 3 0.03
83 2 0.02
84 18 0.17
85 1 0.01
86 8 0.08
87 36 0.34
ACGTcount: A:0.16, C:0.49, G:0.09, T:0.27
Consensus pattern (79 bp):
TCTGGTTCCCCACCTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACCTCCAC
CACCCCCATCAATG
Found at i:24758 original size:36 final size:36
Alignment explanation
Indices: 24711--24796 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
24701 TTCTCTCTCT
24711 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
1 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
*
24747 CCTCCTCCACCACCCCCATCGATGTCTAGTGCCCCA
1 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
*
24783 CCTCCTCCTCCACC
1 CCTCCTCCACCACC
24797 TCCACCACCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.16, C:0.56, G:0.08, T:0.20
Consensus pattern (36 bp):
CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
Found at i:25024 original size:33 final size:32
Alignment explanation
Indices: 24982--25240 Score: 340
Period size: 33 Copynumber: 7.9 Consensus size: 32
24972 GGAGCTCCTT
* * *
24982 CACCTCCACCGCCATCTCCTGGAGGTGGAGTAC
1 CACCGCCACCGCCACCTCCTGGAGGTGG-GCAC
*
25015 CACCTCCACC-CACACCTCCTGGAGGTCGGGCAC
1 CACCGCCACCGC-CACCTCCTGGAGGT-GGGCAC
* *
25048 CACCACCACCGCCACCTCCTGGGGGTTGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGG-TGGGCAC
* *
25081 CACCCCCACCGCCACCTCCTGGGGGTCGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGGT-GGGCAC
*
25114 CACCGCCACCGCCTCCTCCTGGAGGTGGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGGT-GGGCAC
*
25147 CACCGCCACCGCCTCCTCCTGGAGGTGGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGGT-GGGCAC
*
25180 CACCGCCACCGCCTCCTCCTGGAGGTGGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGGT-GGGCAC
25213 CACCGCCACCGCCACCTCCTGGAGGTGG
1 CACCGCCACCGCCACCTCCTGGAGGTGG
25241 AGCTCCTGGC
Statistics
Matches: 211, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
32 4 0.02
33 203 0.96
34 4 0.02
ACGTcount: A:0.14, C:0.46, G:0.27, T:0.12
Consensus pattern (32 bp):
CACCGCCACCGCCACCTCCTGGAGGTGGGCAC
Found at i:35984 original size:23 final size:25
Alignment explanation
Indices: 35944--36002 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
35934 AAATTATTTT
35944 TATT-TAAAT-TTAATTATAAAAAA
1 TATTATAAATATTAATTATAAAAAA
*
35967 TA-TATAAATATTAA-TATAAAAAT
1 TATTATAAATATTAATTATAAAAAA
*
35990 TATTTTAAATATT
1 TATTATAAATATT
36003 TTTTAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 1 0.03
23 17 0.55
24 13 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTATAAATATTAATTATAAAAAA
Found at i:37672 original size:24 final size:25
Alignment explanation
Indices: 37624--37686 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
37614 TTATATTTAA
* *
37624 AATATTTTATATTTATATAAATTTT
1 AATAATTTATATTTAAATAAATTTT
37649 AATAATTTATA-TTAAATAAATTTT
1 AATAATTTATATTTAAATAAATTTT
37673 AA-AATATT-TATTTA
1 AATAAT-TTATATTTA
37687 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 5 0.15
24 19 0.56
25 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATAATTTATATTTAAATAAATTTT
Found at i:39218 original size:3 final size:3
Alignment explanation
Indices: 39212--39251 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
39202 TGATGATGAC
39212 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
39252 TGACATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41040 original size:22 final size:23
Alignment explanation
Indices: 40997--41041 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
40987 ATTATTTTAC
*
40997 TATTTAAAAATATTTTTTATTAA
1 TATTTAAAAATATTTTTAATTAA
*
41020 TATTTTAAAAT-TTTTTAATTAA
1 TATTTAAAAATATTTTTAATTAA
41042 AGTTAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAAAATATTTTTAATTAA
Found at i:43214 original size:24 final size:25
Alignment explanation
Indices: 43166--43214 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
43156 TTTAAAGTAC
* *
43166 AATTTTTTATTTATTAAGTTAATTT
1 AATTTATTATTTATTAAATTAATTT
*
43191 AATTTATTA-TTATTAAATTTATTT
1 AATTTATTATTTATTAAATTAATTT
43215 TTACATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
AATTTATTATTTATTAAATTAATTT
Found at i:43357 original size:21 final size:21
Alignment explanation
Indices: 43314--43362 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
43304 ATTATTACTT
* ***
43314 TTTATTTATAAATTATTTTAA
1 TTTATTTATAAAATATACAAA
43335 TTTATTTATAAAATATACAAA
1 TTTATTTATAAAATATACAAA
43356 TTTATTT
1 TTTATTT
43363 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTTATAAAATATACAAA
Found at i:43571 original size:296 final size:298
Alignment explanation
Indices: 43267--43850 Score: 1046
Period size: 298 Copynumber: 2.0 Consensus size: 298
43257 CTTTTATCTA
43267 TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTA-TT
1 TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTATTT
*
43331 TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATGTATTA
66 TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTA
* *
43396 TTTTTATAATT-ATAGAACTTAAATTTATGTTAATCAACAATAAATTACTTTTTTCGATAACGAT
131 TTTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAAT
* *
43460 TTATTTCAGATTTACAGACGCACATATTTCATTTTTCAGTAACGACTTAAATATGAGCTTTCCTT
196 TTATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTT
*
43525 TATCTGTAAAATAACTAAGAAAAAATTTATTGTACATG
261 TATCTGTAAAATAACCAAGAAAAAATTTATTGTACATG
43563 TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTATTT
1 TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTATTT
*
43628 TTAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTA
66 TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTA
*
43693 TTTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTTCGATAACAAT
131 TTTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAAT
* *
43758 TTATTTCGGATTTACAGACGCACACATTTCATTTTTCGGTAACGACTTAAATACGAGCTTTCCTT
196 TTATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTT
* *
43823 TTTCTGTAAAATGACCAAGAAAAAATTT
261 TATCTGTAAAATAACCAAGAAAAAATTT
43851 TCTTCAACTT
Statistics
Matches: 274, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
296 62 0.23
297 76 0.28
298 136 0.50
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (298 bp):
TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTATTT
TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTA
TTTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAAT
TTATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTT
TATCTGTAAAATAACCAAGAAAAAATTTATTGTACATG
Found at i:43627 original size:11 final size:11
Alignment explanation
Indices: 43611--43647 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
43601 TTATTACTTT
43611 TTATTTATAAA
1 TTATTTATAAA
* *
43622 TTATTTTTAAT
1 TTATTTATAAA
43633 TTATTTATAAA
1 TTATTTATAAA
43644 TTAT
1 TTAT
43648 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:47911 original size:87 final size:87
Alignment explanation
Indices: 47493--48061 Score: 678
Period size: 89 Copynumber: 6.4 Consensus size: 87
47483 TCTTGTAACC
* *
47493 TTTTTTTTTATAAAAAAGAATCTGATTCTCAGATATAATTTATGCATTAGTCTAATCTTTACAGT
1 TTTTTTTTTATAAAAAA-AATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGT
* * * * *
47558 TTGATATTTACAATCAGTTAACT
65 CTAACATTTACAATCAATCAACT
* * * *
47581 TTTTTTTTCTATAAAAAAAATCTGATTCTTATATATAATTCATGCATTAGTCTAATCCTTGTAGT
1 TTTTTTTT-TATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGT
** *
47646 CTGTCATTTACAATCAATCAGTCT
65 CTAACATTTACAATCAATCA-ACT
* * * *
47670 TTATGTATATATATATATATAAAAGAATCTGATTCTCAGATTTAATTCATGTATTAGTCTAATCC
1 TT-T-T-T-T-T-T-TATA-AAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCT
* * *
47735 TTACAGTCTAACATTTACATTCAGTCAACT
58 TTGCAGTCTAACATTTACAATCAATCAACT
* *
47765 TTTTTTTTCTATAAAAAAAAATCTGATTTTCAGATATAATTTATGCATTAGTCTAATCTTTGCAG
1 TTTTTTTT-TAT-AAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAG
47830 TCTAACATTTACAATCAATCAACT
64 TCTAACATTTACAATCAATCAACT
* *
47854 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGTATTAATCTAATCTTTGCAGTC
1 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTC
* *
47919 TGATATTTACAATCAATCAACT
66 TAACATTTACAATCAATCAACT
* * * * *
47941 TTTTTTTTTAT-AAAAAAATCTGATTCTCAGTTATAATTCATGCATTAGTCTAATCATTGTAATT
1 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTC
*
48005 TAACAATTACAATCAATCAAC-
66 TAACATTTACAATCAATCAACT
* *
48026 -TTTTTTCTAT-AAAAAAGTCTGATTCTCAGATATAAT
1 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAAT
48062 CACATTTATT
Statistics
Matches: 417, Mismatches: 54, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
84 33 0.08
86 64 0.15
87 81 0.19
88 67 0.16
89 91 0.22
90 3 0.01
91 2 0.00
92 2 0.00
93 2 0.00
94 2 0.00
95 9 0.02
96 61 0.15
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (87 bp):
TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTC
TAACATTTACAATCAATCAACT
Found at i:48788 original size:22 final size:22
Alignment explanation
Indices: 48746--48788 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
48736 AATTTAATAA
* *
48746 AAATAAATTAAATTAATTTTAT
1 AAATAAATAAAATTAACTTTAT
48768 AAATAAA-AAAATTATACTTTA
1 AAATAAATAAAATTA-ACTTTA
48789 GAAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAATAAAATTAACTTTAT
Found at i:49150 original size:18 final size:19
Alignment explanation
Indices: 49116--49153 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49106 TTTAATTATT
49116 ATTTAATAATAAAAATATA
1 ATTTAATAATAAAAATATA
*
49135 ATTTAATTAT-AAAATATA
1 ATTTAATAATAAAAATATA
49153 A
1 A
49154 AAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAATAATAAAAATATA
Found at i:49520 original size:2 final size:2
Alignment explanation
Indices: 49513--49555 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
49503 TGATTTGGAA
49513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49555 A
1 A
49556 AAAGCAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50826 original size:2 final size:2
Alignment explanation
Indices: 50819--50852 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50809 AGGGAAAACA
50819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50853 TTGCATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50970 original size:14 final size:15
Alignment explanation
Indices: 50951--50985 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
50941 AATTTAAAAT
50951 TTATTTA-ATATTAA
1 TTATTTACATATTAA
50965 TTATTTACATATTAA
1 TTATTTACATATTAA
50980 -TATTTA
1 TTATTTA
50986 TATAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTTACATATTAA
Found at i:54438 original size:3 final size:3
Alignment explanation
Indices: 54430--54472 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
54420 GGCCCACCAA
54430 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
54473 CCTATTTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55414 original size:22 final size:22
Alignment explanation
Indices: 55371--55414 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
55361 AAATTTAAAT
* *
55371 TAAATTATTATAATAAATTATA
1 TAAAATATTATAATAAACTATA
* *
55393 TAAAATATTTTAATTAACTATA
1 TAAAATATTATAATAAACTATA
55415 ACTTTTAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATATTATAATAAACTATA
Found at i:55619 original size:27 final size:28
Alignment explanation
Indices: 55559--55619 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
55549 ATTCTACAAT
* *
55559 ATAAGTATAATATTAAAAATATTAAAAC
1 ATAAATATAATATAAAAAATATTAAAAC
*
55587 A-CAATATAATATAAAAAA-A-TATAAAC
1 ATAAATATAATATAAAAAATATTA-AAAC
55613 ATAAATA
1 ATAAATA
55620 GATAAACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.07
26 6 0.22
27 18 0.67
28 1 0.04
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAATATAATATAAAAAATATTAAAAC
Found at i:55878 original size:20 final size:19
Alignment explanation
Indices: 55842--55881 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
55832 TTACTAATAT
55842 ATTAAAATTTATATATAAC
1 ATTAAAATTTATATATAAC
55861 ATTATAAATATTAT-TATAAC
1 ATTA-AAAT-TTATATATAAC
55881 A
1 A
55882 CGAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAAATTTATATATAAC
Found at i:56574 original size:3 final size:3
Alignment explanation
Indices: 56566--56590 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56556 CATTTAGTCT
56566 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
56591 GTAGCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:56899 original size:42 final size:39
Alignment explanation
Indices: 56853--56932 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 39
56843 TTATATGATA
56853 TAATATAAAAAAATTATGATATAAATATATTAATATATTAAT
1 TAATATAAAAAAATT-T-ATATAAATATA-TAATATATTAAT
** *
56895 TAATATATTAAAATTTATATAAATATATAATATTTTAA
1 TAATATAAAAAAATTTATATAAATATATAATATATTAA
56933 ATATAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 10 0.29
40 11 0.31
41 1 0.03
42 13 0.37
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (39 bp):
TAATATAAAAAAATTTATATAAATATATAATATATTAAT
Found at i:56918 original size:10 final size:10
Alignment explanation
Indices: 56837--56978 Score: 63
Period size: 10 Copynumber: 14.3 Consensus size: 10
56827 TCCTATTACG
*
56837 ATATAATTAT
1 ATATAAATAT
56847 ATGATATAATAT
1 AT-ATA-AATAT
* *
56859 AAAAAAATTAT
1 ATATAAA-TAT
56870 GATATAAATAT
1 -ATATAAATAT
56881 AT-T-AATAT
1 ATATAAATAT
*
56889 AT-TAATTAAT
1 ATATAAAT-AT
56899 ATATTAAA-AT
1 ATA-TAAATAT
*
56909 TTATATAA-AT
1 ATATA-AATAT
56919 ATAT-AATAT
1 ATATAAATAT
*
56928 -TTTAAATAT
1 ATATAAATAT
56937 A-ATTATAATAT
1 ATA-TA-AATAT
56948 ATA-AAA-AT
1 ATATAAATAT
56956 A-ATAAATAT
1 ATATAAATAT
56965 GATATAAATAT
1 -ATATAAATAT
56976 ATA
1 ATA
56979 AAGTTTTAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 18 0.18
9 16 0.16
10 28 0.27
11 25 0.25
12 14 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATATAAATAT
Found at i:56945 original size:6 final size:7
Alignment explanation
Indices: 56837--56979 Score: 57
Period size: 6 Copynumber: 21.9 Consensus size: 7
56827 TCCTATTACG
56837 ATATAAT
1 ATATAAT
56844 -TAT-AT
1 ATATAAT
56849 GATATAAT
1 -ATATAAT
56857 ATA-AA-
1 ATATAAT
56862 A-A-AAT
1 ATATAAT
*
56867 -TATGAT
1 ATATAAT
56873 ATA-AAT
1 ATATAAT
56879 ATATTAAT
1 ATA-TAAT
*
56887 ATATTA-
1 ATATAAT
56893 AT-TAAT
1 ATATAAT
*
56899 ATATTAAA
1 ATA-TAAT
*
56907 AT-TTAT
1 ATATAAT
56913 ATA-AAT
1 ATATAAT
56919 ATATAAT
1 ATATAAT
*
56926 ATTTTAA-
1 A-TATAAT
56933 ATATAAT
1 ATATAAT
56940 -TATAAT
1 ATATAAT
56946 ATATAA-
1 ATATAAT
*
56952 AAATAAT
1 ATATAAT
*
56959 AAAT-AT
1 ATATAAT
56965 GATATAAAT
1 -ATAT-AAT
56974 ATATAA
1 ATATAA
56980 AGTTTTAAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 42
0.66 0.08 0.27
Matches are distributed among these distances:
4 3 0.03
5 6 0.06
6 42 0.41
7 29 0.28
8 21 0.20
9 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:56946 original size:27 final size:27
Alignment explanation
Indices: 56912--56995 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 27
56902 TTAAAATTTA
56912 TATAAATATATAATATTTTAAATATAAT
1 TATAAATATATAA-ATTTTAAATATAAT
* ** *
56940 TATAATATATAAAAATAATAAATATGA-
1 TATAA-ATATATAAATTTTAAATATAAT
*
56967 TATAAATATATAAAGTTTTAAATTTAAT
1 TATAAATATATAAA-TTTTAAATATAAT
56995 T
1 T
56996 TACAATCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 8 0.18
27 13 0.30
28 16 0.36
29 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
TATAAATATATAAATTTTAAATATAAT
Found at i:67107 original size:7 final size:7
Alignment explanation
Indices: 67095--67119 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67085 TATTTAAATA
67095 AATTATT
1 AATTATT
67102 AATTATT
1 AATTATT
67109 AATTATT
1 AATTATT
67116 AATT
1 AATT
67120 TATATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTATT
Found at i:70691 original size:31 final size:33
Alignment explanation
Indices: 70646--70724 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 33
70636 GTAAGGTATC
*
70646 AAAAAATTATTATAATA-AAA-AATAAATATTTT
1 AAAAATTTA-TATAATATAAATAATAAATATTTT
* *
70678 AAAAATTTATATAATATAAATTATTAATATTTT
1 AAAAATTTATATAATATAAATAATAAATATTTT
*
70711 -AAAATTTATTTAAT
1 AAAAATTTATATAAT
70725 TACGTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.17
32 24 0.59
33 10 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
AAAAATTTATATAATATAAATAATAAATATTTT
Found at i:74164 original size:17 final size:17
Alignment explanation
Indices: 74137--74179 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
74127 TAATAATTTA
*
74137 AAATATTAAATTAAAAAT
1 AAAT-TTAAATAAAAAAT
74155 AAATTTAAATAAAAAAT
1 AAATTTAAATAAAAAAT
74172 AAATTTAA
1 AAATTTAA
74180 TTTCAGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTTAAATAAAAAAT
Found at i:74316 original size:35 final size:35
Alignment explanation
Indices: 74277--74354 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
74267 TAAATAATAT
* *
74277 TTATTTAATAATGTAAATA-TTAA-AAATATATTAAA
1 TTATTTAA-AATGTAAA-AGTTAATAAAAAAATTAAA
*
74312 TTATTTAAAATTTAAAAGTTAATAAAAAAATTAAA
1 TTATTTAAAATGTAAAAGTTAATAAAAAAATTAAA
74347 TT-TTTAAA
1 TTATTTAAA
74355 TATTAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 1 0.03
34 17 0.45
35 20 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (35 bp):
TTATTTAAAATGTAAAAGTTAATAAAAAAATTAAA
Found at i:74374 original size:31 final size:31
Alignment explanation
Indices: 74336--74394 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
74326 AAAGTTAATA
* *
74336 AAAAAATTAAATTTTTAAATATTAAATTTTT
1 AAAAAATTAAATTTTTAAAAAATAAATTTTT
*
74367 AAAAAATTATATTTTTAAAAAATAAATT
1 AAAAAATTAAATTTTTAAAAAATAAATT
74395 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
AAAAAATTAAATTTTTAAAAAATAAATTTTT
Found at i:74375 original size:16 final size:16
Alignment explanation
Indices: 74336--74394 Score: 86
Period size: 15 Copynumber: 3.8 Consensus size: 16
74326 AAAGTTAATA
74336 AAAAAATTAAATTTTT
1 AAAAAATTAAATTTTT
*
74352 -AAATATTAAATTTTT
1 AAAAAATTAAATTTTT
*
74367 AAAAAATTATATTTTT
1 AAAAAATTAAATTTTT
74383 AAAAAA-TAAATT
1 AAAAAATTAAATT
74395 AAAAATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 19 0.50
16 19 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAAAATTAAATTTTT
Found at i:74456 original size:40 final size:42
Alignment explanation
Indices: 74408--74501 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 42
74398 AATTAATATA
*
74408 AATAAATTTAAACTATTTAT-TTATAAA-TATAAATAAAATTT
1 AATAAATTTAAACTATTTATATTATAAACCA-AAATAAAATTT
* * *
74449 AA-AAATTT-TACTATTTATATTTTAAACCAAATTAAAATTT
1 AATAAATTTAAACTATTTATATTATAAACCAAAATAAAATTT
74489 AATAATATTTAAA
1 AATAA-ATTTAAA
74502 TCATCTCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
39 9 0.21
40 24 0.56
41 5 0.12
42 4 0.09
43 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (42 bp):
AATAAATTTAAACTATTTATATTATAAACCAAAATAAAATTT
Found at i:74922 original size:18 final size:19
Alignment explanation
Indices: 74889--74946 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 19
74879 CATTTGGGGT
74889 TTTTATTTTATATATTTAAA
1 TTTT-TTTTATATATTTAAA
74909 TTTTTTTTAT-TATTT-AA
1 TTTTTTTTATATATTTAAA
*
74926 -TTTCTTTATATATTTAAA
1 TTTTTTTTATATATTTAAA
74944 TTT
1 TTT
74947 GTATCTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 7 0.21
19 8 0.24
20 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTTATATATTTAAA
Found at i:74946 original size:23 final size:23
Alignment explanation
Indices: 74920--74973 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
74910 TTTTTTTATT
74920 ATTTAATTTC-TTTATATATTTAA
1 ATTTAATTTCTTTTAT-TATTTAA
* * *
74943 ATTT-GTATCTTTTATTATTTTA
1 ATTTAATTTCTTTTATTATTTAA
74965 ATTTAATTT
1 ATTTAATTT
74974 AATTATTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTAATTTCTTTTATTATTTAA
Found at i:75067 original size:34 final size:34
Alignment explanation
Indices: 75024--75099 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
75014 TTTAATTATC
75024 ATTATTTAATATAAATA-TAAATTTAATATATTTT-
1 ATTATTTAATATAAATACT-AATTTAATA-ATTTTA
* * *
75058 ATTATTTAATGTTAATACTATTTTAATAATTTTA
1 ATTATTTAATATAAATACTAATTTAATAATTTTA
75092 ATTATTTA
1 ATTATTTA
75100 TTTTATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 5 0.14
34 31 0.84
35 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
ATTATTTAATATAAATACTAATTTAATAATTTTA
Found at i:80272 original size:8 final size:8
Alignment explanation
Indices: 80246--80287 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
80236 TTAATAAAAA
80246 TATATATT
1 TATATATT
80254 CTATA-ATT
1 -TATATATT
*
80262 TATGTATT
1 TATATATT
80270 TATTATATT
1 TA-TATATT
80279 TATATATT
1 TATATATT
80287 T
1 T
80288 TATTATATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 3 0.10
8 15 0.52
9 11 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:80289 original size:18 final size:18
Alignment explanation
Indices: 80246--80295 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
80236 TTAATAAAAA
*
80246 TATATATTCTA-TA-ATT
1 TATATATTTTATTATATT
*
80262 TATGTA-TTTATTATATT
1 TATATATTTTATTATATT
80279 TATATATTTTATTATAT
1 TATATATTTTATTATAT
80296 CATAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 3 0.11
16 7 0.25
17 8 0.29
18 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATATTTTATTATATT
Found at i:80318 original size:14 final size:15
Alignment explanation
Indices: 80299--80338 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
80289 ATTATATCAT
80299 AATTAAATTTA-AAA
1 AATTAAATTTATAAA
80313 AATTAAATTTATAAA
1 AATTAAATTTATAAA
*
80328 TATT-AATTTAT
1 AATTAAATTTAT
80339 TAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATTTATAAA
Found at i:80392 original size:109 final size:108
Alignment explanation
Indices: 80279--80485 Score: 237
Period size: 109 Copynumber: 1.9 Consensus size: 108
80269 TTATTATATT
* *
80279 TATATATT-TTATTATATCAT-AATTAAATTTAAAAAA-T-TAAATTTATAAA-TATTA-ATTTA
1 TATATATTATAATTATAT-ATAAATT-AATTTAAAAAATTATAAATTTATAAATTA-TAGATATA
* *
80338 TTAAATAAAAATTATTTTATTTATGTTCATATTTTTAAACTTTTTTAA
63 TTAAATAAAAATCA-TTT-TTTAGGTTCATATTTTTAAACTTTTTTAA
* ** *
80386 TATATATTATAATTATATTTAAATTTTTTTAAAAAATTTATAAATTTATAAATTATAGATATCTT
1 TATATATTATAATTATATATAAATTAATTTAAAAAA-TTATAAATTTATAAATTATAGATATATT
*
80451 AAATATAAATCATTTTTTAGGTTCATATTTTTAAA
65 AAATAAAAATCATTTTTTAGGTTCATATTTTTAAA
80486 AACCTTTAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
107 18 0.21
108 12 0.14
109 20 0.24
110 17 0.20
111 17 0.20
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (108 bp):
TATATATTATAATTATATATAAATTAATTTAAAAAATTATAAATTTATAAATTATAGATATATTA
AATAAAAATCATTTTTTAGGTTCATATTTTTAAACTTTTTTAA
Found at i:80538 original size:2 final size:2
Alignment explanation
Indices: 80522--80567 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
80512 TTTATTGGTA
* * *
80522 AT AT AT AA AT TT AT AT AT -T AT -T AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80562 AT AT AT
1 AT AT AT
80568 CAAATAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:81439 original size:30 final size:30
Alignment explanation
Indices: 81391--81456 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
81381 AAAAAATTAC
* *
81391 TTATTTAAATATAGATTAAAG-ATTAAGTAT
1 TTATTTAAATATAAATT-AAGCATTAACTAT
* * *
81421 TTATTTAAGTGTAAATTAAGCGTTAACTAT
1 TTATTTAAATATAAATTAAGCATTAACTAT
81451 TTATTT
1 TTATTT
81457 GATATAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (30 bp):
TTATTTAAATATAAATTAAGCATTAACTAT
Found at i:82162 original size:18 final size:18
Alignment explanation
Indices: 82124--82159 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
82114 TCAATAAACA
*
82124 TATTTATTAAAATCATAT
1 TATTTATTAAAATCACAT
82142 TATTT-TTAAAATCACAT
1 TATTTATTAAAATCACAT
82159 T
1 T
82160 TATCAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTATTAAAATCACAT
Found at i:82322 original size:35 final size:38
Alignment explanation
Indices: 82260--82352 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 38
82250 CATAGGTTAT
* *
82260 AACAAAAATCACTAAT-TTAATCTGGTGGCA-TAGTTCG-
1 AACAAAAATCACTATTCTTAA-CCGGTGGCACT-GTTCGA
*
82297 AA-AAAAAT-ACTATTCTTAACCGGTGGTACTGTTCGA
1 AACAAAAATCACTATTCTTAACCGGTGGCACTGTTCGA
82333 AACAAAAATCACTATTCTTA
1 AACAAAAATCACTATTCTTA
82353 GCTAATGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
35 17 0.35
36 13 0.27
37 8 0.17
38 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (38 bp):
AACAAAAATCACTATTCTTAACCGGTGGCACTGTTCGA
Found at i:82349 original size:38 final size:38
Alignment explanation
Indices: 82246--82352 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
82236 TTTAACCCCT
** * *
82246 GTGGCATAGGTTATAACAAAAATCACTAAT-TTAATCTG
1 GTGGCATA-GTTCGAACAAAAATCACTATTCTTAATCCG
82284 GTGGCATAGTTCGAA-AAAAAT-ACTATTCTTAA-CCG
1 GTGGCATAGTTCGAACAAAAATCACTATTCTTAATCCG
*
82319 GTGGTACT-GTTCGAAACAAAAATCACTATTCTTA
1 GTGGCA-TAGTTCG-AACAAAAATCACTATTCTTA
82353 GCTAATGGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
35 17 0.29
36 13 0.22
37 11 0.19
38 18 0.31
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (38 bp):
GTGGCATAGTTCGAACAAAAATCACTATTCTTAATCCG
Found at i:83073 original size:10 final size:10
Alignment explanation
Indices: 83044--83102 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
83034 AATTAATTTT
83044 AATATTTAAA
1 AATATTTAAA
* *
83054 AAAATATAAA
1 AATATTTAAA
83064 AATATTT--A
1 AATATTTAAA
83072 AA-ATTTAGAA
1 AATATTTA-AA
* *
83082 AAAATATAAA
1 AATATTTAAA
83092 AATATTTAAA
1 AATATTTAAA
83102 A
1 A
83103 TTTAGAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
10 27 0.71
11 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
AATATTTAAA
Found at i:83084 original size:28 final size:28
Alignment explanation
Indices: 83041--83117 Score: 129
Period size: 28 Copynumber: 2.8 Consensus size: 28
83031 CAGAATTAAT
*
83041 TTTAATATTTA-AAAAAATATAAAAATA
1 TTTAAAATTTAGAAAAAATATAAAAATA
83068 TTTAAAATTTAGAAAAAATATAAAAATA
1 TTTAAAATTTAGAAAAAATATAAAAATA
83096 TTTAAAATTTAGAAAAACATAT
1 TTTAAAATTTAGAAAAA-ATAT
83118 GACAATGCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 10 0.21
28 33 0.70
29 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTAAAATTTAGAAAAAATATAAAAATA
Found at i:84925 original size:3 final size:3
Alignment explanation
Indices: 84917--84962 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
84907 TTGTTTTGCT
84917 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84963 CTTACTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:85825 original size:17 final size:17
Alignment explanation
Indices: 85787--85831 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
85777 TGTATTAATA
* *
85787 TTATATTCATACTATTTT
1 TTATATT-ATAATATATT
85805 TTATATTATAATATATT
1 TTATATTATAATATATT
85822 TTATATTATA
1 TTATATTATA
85832 TTTTAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATTATAATATATT
Found at i:85833 original size:22 final size:23
Alignment explanation
Indices: 85805--85850 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
85795 ATACTATTTT
85805 TTATATTATAA-TATATTTTATA
1 TTATATTATAATTATATTTTATA
* *
85827 TTATATTTTAATTATTTTTTATA
1 TTATATTATAATTATATTTTATA
85850 T
1 T
85851 CAAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATATTATAATTATATTTTATA
Found at i:85846 original size:11 final size:12
Alignment explanation
Indices: 85810--85862 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
85800 ATTTTTTATA
*
85810 TTATAATATATT
1 TTATATTATATT
85822 TTATATTATATT
1 TTATATTATATT
*
85834 TTA-ATTATTTT
1 TTATATTATATT
* *
85845 TTATATCAAATT
1 TTATATTATATT
85857 TTATAT
1 TTATAT
85863 CATCTACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATATTATATT
Found at i:85850 original size:23 final size:22
Alignment explanation
Indices: 85805--85859 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
85795 ATACTATTTT
*
85805 TTATATTATAATATATTTTATA
1 TTATATTTTAATATATTTTATA
*
85827 TTATATTTTAATTATTTTTTATA
1 TTATATTTTAA-TATATTTTATA
* *
85850 TCAAATTTTA
1 TTATATTTTA
85860 TATCATCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATTTTAATATATTTTATA
Found at i:86652 original size:6 final size:6
Alignment explanation
Indices: 86641--86665 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
86631 AGATCAACTC
86641 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
86666 TTTTGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:87858 original size:186 final size:186
Alignment explanation
Indices: 87543--87918 Score: 596
Period size: 186 Copynumber: 2.0 Consensus size: 186
87533 AAATATACAA
*
87543 ATATCAATCCACTTGTTTATGAATAAAAAAATAGAATTAATTACTTAGCTCGAAATAGAAATCGT
1 ATATCAATCCACTTGTTTATGAATAAAAAAATAAAATTAATTACTTAGCTCGAAATAGAAATCGT
* *
87608 CCAATGATCTATTTATAGAAGAATTCAAACAAAATCTAATGATTATTTAATCCGAATTGTACCTG
66 CCAATGATCTATTTATAGAAAAATTCAAACAAAATCTAATGATTATTTAATCCGAATCGTACCTG
* * * * *
87673 CTTGG-TT-TATTATATTTTTTAAAAAAATTTATCCCTCCATTTTTAATATAATTTGT
131 CTTGGCTTACAATATATTTTTT--AAAAATTTATCCATCCAGTTTTAAGATAATTTGT
**
87729 ATATCAATCCACTTGTTTATGAATAAAAAAATAAAATTAATTACTTAGCTCGAAATAGAAATTTT
1 ATATCAATCCACTTGTTTATGAATAAAAAAATAAAATTAATTACTTAGCTCGAAATAGAAATCGT
87794 CCAATGATCTATTTATAGAAAAATTCAAACAAAATCTAATGATTATTTAATCC-AGATCGTACCT
66 CCAATGATCTATTTATAGAAAAATTCAAACAAAATCTAATGATTATTTAATCCGA-ATCGTACCT
* *
87858 GCTTGGCTTACAATATATTTTTTAAAAATTTATCCATCGAGTTTTAAGGTAATTTGT
130 GCTTGGCTTACAATATATTTTTTAAAAATTTATCCATCCAGTTTTAAGATAATTTGT
87915 ATAT
1 ATAT
87919 TAAGATTATG
Statistics
Matches: 175, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
185 1 0.01
186 161 0.92
187 2 0.01
188 11 0.06
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (186 bp):
ATATCAATCCACTTGTTTATGAATAAAAAAATAAAATTAATTACTTAGCTCGAAATAGAAATCGT
CCAATGATCTATTTATAGAAAAATTCAAACAAAATCTAATGATTATTTAATCCGAATCGTACCTG
CTTGGCTTACAATATATTTTTTAAAAATTTATCCATCCAGTTTTAAGATAATTTGT
Found at i:90975 original size:17 final size:17
Alignment explanation
Indices: 90945--90986 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
90935 AATAAATAAT
90945 TTTTTTAAGTATATAGTTA
1 TTTTTTAAG-ATATA-TTA
90964 TTTTTTAA-ATATATTA
1 TTTTTTAAGATATATTA
*
90980 TTATTTA
1 TTTTTTA
90987 CGTTATAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
19 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTTTAAGATATATTA
Found at i:93152 original size:28 final size:28
Alignment explanation
Indices: 93071--93164 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 28
93061 ATTTTTGAAG
93071 TGCATAAAATAATATAATAAT-TTTAAA
1 TGCATAAAATAATATAATAATGTTTAAA
* *
93098 T-CATAAAA-AATAT-TTAAATGAACTTAAA
1 TGCATAAAATAATATAAT-AATG--TTTAAA
* *
93126 TGCATAAAATGATATAGTAATGTTTAATA
1 TGCATAAAATAATATAATAATGTTTAA-A
93155 TGCATGAAAA
1 TGCAT-AAAA
93165 GATGGACCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
24 1 0.02
25 8 0.15
26 7 0.13
27 1 0.02
28 10 0.19
29 13 0.25
30 12 0.23
31 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (28 bp):
TGCATAAAATAATATAATAATGTTTAAA
Found at i:93717 original size:35 final size:35
Alignment explanation
Indices: 93671--93768 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 35
93661 ATTTCCTCGC
*
93671 TTCATCGCTAAAAATTCTTTTTGCAATGGAAAATT
1 TTCATCTCTAAAAATTCTTTTTGCAATGGAAAATT
* *
93706 TTCATCTCTAAACTAAAAATTCTTTTTGCAATTGAAATTT
1 TTCA--TCT---CTAAAAATTCTTTTTGCAATGGAAAATT
* *
93746 TTCATCTCTAAAAACTATTTTTG
1 TTCATCTCTAAAAATTCTTTTTG
93769 ACTAATTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
35 18 0.34
37 2 0.04
38 3 0.06
40 30 0.57
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (35 bp):
TTCATCTCTAAAAATTCTTTTTGCAATGGAAAATT
Found at i:93722 original size:40 final size:40
Alignment explanation
Indices: 93678--93757 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
93668 CGCTTCATCG
93678 CTAAAAATTCTTTTTGCAATGGAAAATTTTCATCTCTAAA
1 CTAAAAATTCTTTTTGCAATGGAAAATTTTCATCTCTAAA
* *
93718 CTAAAAATTCTTTTTGCAATTGAAATTTTTCATCTCTAAA
1 CTAAAAATTCTTTTTGCAATGGAAAATTTTCATCTCTAAA
93758 AACTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (40 bp):
CTAAAAATTCTTTTTGCAATGGAAAATTTTCATCTCTAAA
Found at i:93807 original size:16 final size:18
Alignment explanation
Indices: 93772--93813 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
93762 ATTTTTGACT
*
93772 AATTTTTCAGTCGCTAAA
1 AATTTTTCAGTCGATAAA
93790 AATTTTT-AGT-GATAAA
1 AATTTTTCAGTCGATAAA
*
93806 AATATTTC
1 AATTTTTC
93814 GTCAGAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (18 bp):
AATTTTTCAGTCGATAAA
Found at i:94978 original size:19 final size:19
Alignment explanation
Indices: 94954--94991 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94944 TTACTTAATT
94954 TAAAATGAAAGAAAAGATC
1 TAAAATGAAAGAAAAGATC
94973 TAAAATGAAAGAAAAGATC
1 TAAAATGAAAGAAAAGATC
94992 CTAAGGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.16, T:0.16
Consensus pattern (19 bp):
TAAAATGAAAGAAAAGATC
Found at i:95497 original size:156 final size:156
Alignment explanation
Indices: 95207--95519 Score: 398
Period size: 156 Copynumber: 2.0 Consensus size: 156
95197 GTTTTAGGAG
* * ** * *
95207 AAATTACGAAAATGCCTCTAGGTGATACCTTCGACTTAGAAATGCCTAATACCTCTAAAGAATTT
1 AAATTACAAAAATACCTCTAGAAGATACCTTCGACTTAGAAATGCCTAATACCCCTAAAGAACTT
* * *
95272 AAAAAAGATTACAGATGGGATGAACCTATCCTAAATACCCACTTTCAACATAAAAGTGGACCCGG
66 AAAAAAGATCACAGATGGGATGAACCTATCCTAAATAACCACTTTCAACATAAAAGTGGACCCGA
95337 TGACAACCTAGGACTT-GATTTTGAAA
131 TGACAACCTAGGA-TTCGATTTTGAAA
* * *
95363 AAATTACAAAAATACCTCTAGAAGATATCTTCGACTTAGAAGTGCAC-GATACCCCTAAAGAACT
1 AAATTACAAAAATACCTCTAGAAGATACCTTCGACTTAGAAATGC-CTAATACCCCTAAAGAACT
* * * *** * *
95427 TAAAAAAGATCATATATGGGATGAACTTATCCTAAATAACCA-TATTTGGCATAAAAGTGGATCT
65 TAAAAAAGATCACAGATGGGATGAACCTATCCTAAATAACCACT-TTCAACATAAAAGTGGACCC
95491 GATGACAACCTAGGATTCGATTTTGAAA
129 GATGACAACCTAGGATTCGATTTTGAAA
95519 A
1 A
95520 CGAAAATACC
Statistics
Matches: 134, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
155 3 0.02
156 130 0.97
157 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (156 bp):
AAATTACAAAAATACCTCTAGAAGATACCTTCGACTTAGAAATGCCTAATACCCCTAAAGAACTT
AAAAAAGATCACAGATGGGATGAACCTATCCTAAATAACCACTTTCAACATAAAAGTGGACCCGA
TGACAACCTAGGATTCGATTTTGAAA
Found at i:96875 original size:27 final size:27
Alignment explanation
Indices: 96843--96909 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
96833 TTCTTCAAAG
* *
96843 CTTTTTTTCTTTCTTTTTCGTATGC-TTT
1 CTTTTTTTCTTT-ATGTTCGTAT-CTTTT
96871 CTTTTTTTCTTTATGTTCGTATCTTTT
1 CTTTTTTTCTTTATGTTCGTATCTTTT
*
96898 CTTCTTTTCTTT
1 CTTTTTTTCTTT
96910 TATTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 22 0.63
28 12 0.34
ACGTcount: A:0.04, C:0.18, G:0.06, T:0.72
Consensus pattern (27 bp):
CTTTTTTTCTTTATGTTCGTATCTTTT
Found at i:99910 original size:33 final size:33
Alignment explanation
Indices: 99873--99939 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
99863 TTCAACGATT
99873 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
99906 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
99939 T
1 T
99940 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:99911 original size:13 final size:13
Alignment explanation
Indices: 99893--99917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99883 CATAAAATGT
99893 TGTATCGATACAA
1 TGTATCGATACAA
99906 TGTATCGATACA
1 TGTATCGATACA
99918 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:99999 original size:13 final size:13
Alignment explanation
Indices: 99981--100005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99971 ATTACTCAAA
99981 TGTATCGATACAT
1 TGTATCGATACAT
99994 TGTATCGATACA
1 TGTATCGATACA
100006 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:100142 original size:52 final size:52
Alignment explanation
Indices: 100014--100134 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
100004 CACCGATCTT
*
100014 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
100066 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
100118 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
100135 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:107366 original size:17 final size:16
Alignment explanation
Indices: 107344--107381 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
107334 TGTTCTTTTC
107344 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAA-AAAA
*
107361 CAAAAAAGGAAAAAAA
1 CAAAAAAAGAAAAAAA
107377 -AAAAA
1 CAAAAA
107382 CCCCTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAAAAAAA
Found at i:108352 original size:30 final size:31
Alignment explanation
Indices: 108316--108397 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
108306 ATACCTTTTT
108316 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
108346 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
108377 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
108398 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:108439 original size:61 final size:62
Alignment explanation
Indices: 108374--109086 Score: 635
Period size: 61 Copynumber: 11.0 Consensus size: 62
108364 GCATTTTTTC
* *
108374 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * *
108435 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
108497 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
*
108559 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC-----
108623 CT
61 CT
*
108625 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACC--
108690 TTTCT
61 ---CT
* *
108695 ATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT-AAAGCCCACAACTCCGTGGCACCC
108760 -
62 T
* * * *
108760 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCA-C--C--
108825 CT
61 CT
* * * *
108827 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-CCT
** * *
108891 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C--C
108955 T
62 T
* * **
108956 TCCTTCTAAGCCCACAACTCCGTGGCA-C-----CCTTTT-AAGCCCATAACTCCGTGGCACTTT
1 T--TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* *
109014 TTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
1 TTT-A-----AAGCCCACAACTCCGTGGCACC--TTTTTCCTTTTAAAGCCCACAACTCCGTGGC
*
109079 ACTCT
58 ACCCT
109084 TTT
1 TTT
109087 TCCCTTTGAA
Statistics
Matches: 564, Mismatches: 46, Indels: 75
0.82 0.07 0.11
Matches are distributed among these distances:
56 3 0.01
58 3 0.01
60 3 0.01
61 137 0.24
62 96 0.17
63 48 0.09
64 34 0.06
65 6 0.01
66 9 0.02
67 30 0.05
68 71 0.13
69 10 0.02
70 56 0.10
71 58 0.10
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:108481 original size:34 final size:33
Alignment explanation
Indices: 108351--109119 Score: 544
Period size: 34 Copynumber: 23.6 Consensus size: 33
108341 GTCTCAAAGT
* * *
108351 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
108382 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
108415 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
108443 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
108477 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
108505 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
108539 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
108566 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
108600 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
108633 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
108670 CCACAACTCCGTGGCACCTTTTTCTATTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
108704 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
108741 CCACGACTCCGTGGCAC-----TCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
108768 CCACAACTCCGTGGCACCTTCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * * *
108802 CCACAGCTCCATGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
108836 CCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
108870 CCACGACTCCGTGGCAC--TCTT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
108899 CCACAACTCCGTGGCACTCTTTTTC-CTCCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCT-TTAAGC
*
108933 CCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
108967 CCACAACTCCGTGGCAC-----CCT-TTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* *
108994 CCATAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
109028 CCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTCTC-TTT-AAGC
* *
109064 CCACAACTCCGTGGCACTCTTTTTCCCTTTGAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTCTTT-AAGC
*
109099 CCACAACTCTGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
109120 CTCCCTTCCT
Statistics
Matches: 612, Mismatches: 62, Indels: 124
0.77 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 70 0.11
28 43 0.07
29 23 0.04
31 20 0.03
32 16 0.03
33 59 0.10
34 248 0.41
35 51 0.08
36 39 0.06
37 42 0.07
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:108570 original size:27 final size:27
Alignment explanation
Indices: 108532--108583 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
108522 TTTTTTCATC
*
108532 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
108559 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
108584 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:109016 original size:27 final size:27
Alignment explanation
Indices: 108957--109010 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
108947 CACTCTTTTT
*
108957 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
108984 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
109011 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:109062 original size:165 final size:161
Alignment explanation
Indices: 108346--109139 Score: 648
Period size: 165 Copynumber: 4.9 Consensus size: 161
108336 ATTTTGTCTC
* * * *
108346 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCACCTTGT-TCCT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCATTTTAAGCCCACAACTCCGTGGCACCTT-TCT-CT
* * * *
108408 TTT-AAGTCCACAACTCCGTGGCAC-C-CTTT-TAAAGCCCACAATTCCGTGGCACT-TTTTTCA
64 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTTTTC-
*
108468 TCTT-T-AAGTCCACAACTCCGTGGCA-CCCTTTT
128 -CTTCTAAAGCCCACAACTCCGTGGCATCCCTTTT
* * * *
108500 AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C---C-CGT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCAT-TTTAAGCCCACAACTCCGTGGCACCTTTCTCTT
108560 TT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTT
65 TTAAAGCCCACAACTCCGTGGCACTCTTTTTC---TT-AAGCCCACAACTCCGTGGCACTCTTTT
* *
108622 T-CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
126 TCCTTCTAAAGCCCACAACTCCGTGGCA-------TCCCTTTT
* *
108664 CAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACTTTTTTC-ATTTTAAGCCCACAACTCCGTGGCAC-C--TTTC
* * *
108729 TCTTTTCAAAGCCCACGACTCCGTGGCACTC---TT-TAAAGCCCACAACTCCGTGGCAC-CTTC
61 TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTT
* * * * *
108789 TTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCTTCTTTT
125 TTCCTTCTAAAGCCCACAACTCCGTGGCA---TC-CCTTTT
* * * *
108830 CAAAGCCCACAACTCTGTGGCACCTTCTTC-TTTTCAAAGCCCACGACTCCGTGGCA-C--TCT-
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCATTTT--AAGCCCACAACTCCGTGGCACCTTTCTC
*
108890 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCTAAGCCCACAACTCTGTGGCACTCTTT
63 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CT--TAAGCCCACAACTCCGTGGCACTCTTT
108955 TTCCTTCT-AAGCCCACAACTCCGTGGCA-CCCTTTT
125 TTCCTTCTAAAGCCCACAACTCCGTGGCATCCCTTTT
* * *
108990 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCAT-TTTAAGCCCACAACTCCGTGGCACC---TTTCT
* *
109054 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTGAAGTCCACAACTCTGTGGCA-TCT
62 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT--C-TT-AAGCCCACAACTCCGTGGCACTCT
*
109118 TTCTCCCTTCCTAAAGCCCACA
123 TT-TTCCTT-CTAAAGCCCACA
109140 CAAGTCGGTG
Statistics
Matches: 528, Mismatches: 51, Indels: 108
0.77 0.07 0.16
Matches are distributed among these distances:
151 25 0.05
152 3 0.01
154 20 0.04
155 8 0.02
156 21 0.04
157 46 0.09
158 65 0.12
159 6 0.01
160 11 0.02
161 3 0.01
163 1 0.00
164 13 0.02
165 127 0.24
166 89 0.17
167 4 0.01
168 35 0.07
169 23 0.04
172 1 0.00
173 6 0.01
175 20 0.04
176 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (161 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCATTTTAAGCCCACAACTCCGTGGCACCTTTCTCTTT
TAAAGCCCACAACTCCGTGGCACTCTTTTTCTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
CTAAAGCCCACAACTCCGTGGCATCCCTTTT
Found at i:109133 original size:71 final size:70
Alignment explanation
Indices: 108990--109139 Score: 187
Period size: 71 Copynumber: 2.1 Consensus size: 70
108980 GCACCCTTTT
* * * **
108990 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCACCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
109055 TTTTA
66 TTCTA
* *
109060 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTGAAGTCCACAACTCTGTGGCATC-TTTCTC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCACCTTT-AAGTCCACAACTCCGTGGCACCTTTTCTC
109123 CCTTCCTA
64 CCTT-CTA
109131 AAGCCCACA
1 AAGCCCACA
109140 CAAGTCGGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
70 32 0.46
71 37 0.54
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCACCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:109167 original size:33 final size:35
Alignment explanation
Indices: 109124--109193 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
109114 ATCTTTCTCC
109124 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
109158 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
109192 CT
1 CT
109194 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:109257 original size:49 final size:49
Alignment explanation
Indices: 109193--110003 Score: 884
Period size: 49 Copynumber: 16.8 Consensus size: 49
109183 GCAACCCTTC
* * * * *
109193 TAAGCCCAATATAGCTGACCTTGAATTAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
109242 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
109285 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CATCTT-CATCTT
* *
109337 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
109386 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
109429 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
109478 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
109521 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
109570 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
109613 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
109662 TAAGTACAATGTAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGT-C----CAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
109716 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTT
* * *
109765 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT-CATCTT
* * * *
109814 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
109862 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
109911 TAAGTCCAATATAGTTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
109963 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
110004 CTTTTTCATC
Statistics
Matches: 641, Mismatches: 82, Indels: 77
0.80 0.10 0.10
Matches are distributed among these distances:
43 153 0.24
45 5 0.01
47 3 0.00
48 41 0.06
49 317 0.49
50 6 0.01
51 2 0.00
52 75 0.12
53 1 0.00
54 38 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:109491 original size:92 final size:92
Alignment explanation
Indices: 109334--110007 Score: 884
Period size: 92 Copynumber: 7.0 Consensus size: 92
109324 CCTTTTCCAT
* * * *
109334 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
109399 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
109426 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
109491 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
109518 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
109583 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
109610 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTACAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGT-C----CA
*
109675 ATGTAGCTGGCCTTGACTCAGCACATTGGCAC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
109707 CTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAAGTC
1 C-T-----TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTCATCTTTAAGTC
*
109771 CAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCAC
59 CAATGTAGCTGGCCTTGAATCAGCACATT-G-----GCAC
* * *
109811 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
109875 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
109906 ATCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCA
*
109971 ATGTAGCTGGCCTTGAATCAGCACATTGACATC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
110004 CTTT
1 CTTT
110008 TTCATCATCT
Statistics
Matches: 529, Mismatches: 24, Indels: 54
0.87 0.04 0.09
Matches are distributed among these distances:
91 3 0.01
92 235 0.44
93 1 0.00
95 1 0.00
96 5 0.01
97 116 0.22
98 68 0.13
99 1 0.00
100 2 0.00
101 41 0.08
102 2 0.00
103 49 0.09
104 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:109725 original size:146 final size:145
Alignment explanation
Indices: 109193--109998 Score: 694
Period size: 146 Copynumber: 5.6 Consensus size: 145
109183 GCAACCCTTC
* * * *
109193 TAAGCCCAATATAGCTGACCTTGAATTAGCATATTGGCATCTT-CATCTTTAAGTC--CAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCATTAATGTA
* * *
109255 GCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
109314 CATATTGGTACCTTTTCCATCTT
131 CACATTGG---C----AC-TCTT
* * * * *
109337 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT-CATCTTTAAGTC--CAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCATTAATGTA
* *
109399 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
*
109458 CATATTGGCATCTTCATCTT
131 CACATTGGCA----C-TCTT
* * * * *
109478 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-----C--CTTTAAGTC--CAATATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCATTAATGTA
* *
109534 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
109599 CACATTGGCAC-CTT
131 CACATTGGCACTCTT
* *
109613 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCAT-CATCTTTAAGTACAATGTAAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGT-C-AT-TAAT
* * * * *
109677 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAAT
63 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
*
109742 CAGCATATTGGCACTTTTATCTT
128 CAGCACATTGGCAC-----TCTT
* * * * * *
109765 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCCA-T-A--T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGT-CATTAATGT
* * *
109825 AGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
65 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
109890 GCACATTGGCACCTTCATCTT
130 GCACATTGGCA----C-TCTT
* * * *
109911 TAAGTCCAATATAGTTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGT--TCAATG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTTCCATCTTTAAGTCATTAATG
109974 TAGCTGGCCTTGAATCAGCACATTG
64 TAGCTGGCCTTGAATCAGCACATTG
109999 ACATCCTTTT
Statistics
Matches: 565, Mismatches: 58, Indels: 72
0.81 0.08 0.10
Matches are distributed among these distances:
135 78 0.14
137 2 0.00
139 2 0.00
141 92 0.16
142 1 0.00
144 121 0.21
146 179 0.32
148 2 0.00
149 12 0.02
150 25 0.04
151 3 0.01
152 48 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (145 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCATTAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACTCTT
Found at i:110038 original size:56 final size:53
Alignment explanation
Indices: 109715--110046 Score: 232
Period size: 49 Copynumber: 6.5 Consensus size: 53
109705 ACCTTCACCA
* * * * *
109715 TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTT-T-ATCT
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
* * * * * * * *
109764 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--TT-GCACCA
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
* * * *
109813 TTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-T-ATCT
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
* * * * *
109861 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCATCT
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
* *
109910 TTAAGTCCAATATAGTTGGCCTTGAATCAGCATATCGGCACCTTTTC-CATCT
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
* * * *
109962 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCT
1 TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCATCT
* * *
110018 TTAAGCCCAATATCGTTGGCCATGAATCA
1 TTAAGTCCAATATAGTTGGCCTTGAATCA
110047 ACATATTGGC
Statistics
Matches: 238, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
48 42 0.18
49 121 0.51
52 40 0.17
53 2 0.01
54 5 0.02
56 28 0.12
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (53 bp):
TTAAGTCCAATATAGTTGGCCTTGAATCAGCACATCGACACCTTTTCTCATCT
Found at i:110894 original size:33 final size:33
Alignment explanation
Indices: 110857--110923 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
110847 TTCAACGATT
110857 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
110890 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
110923 T
1 T
110924 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:110895 original size:13 final size:13
Alignment explanation
Indices: 110877--110901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110867 CATAAAATGT
110877 TGTATCGATACAA
1 TGTATCGATACAA
110890 TGTATCGATACA
1 TGTATCGATACA
110902 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:110983 original size:13 final size:13
Alignment explanation
Indices: 110965--110989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110955 ATTACTCAAA
110965 TGTATCGATACAT
1 TGTATCGATACAT
110978 TGTATCGATACA
1 TGTATCGATACA
110990 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111125 original size:52 final size:52
Alignment explanation
Indices: 110998--111128 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
110988 CACCGATCTT
* *
110998 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
*
111050 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
**
111102 TGTATCGATACATGCAGATAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
111129 ATATTTCGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:119627 original size:49 final size:49
Alignment explanation
Indices: 119566--119924 Score: 305
Period size: 49 Copynumber: 7.5 Consensus size: 49
119556 ATGTTAAAGA
*
119566 TGCCAATATGCTGATTCAAGGCCAACGATATCGGATTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGATTTAAAGATGAAGG
* * * * *
119615 TGCCAATGTGCTGATTTAAGGCCAGCGACATTGG-TCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGAT-TTAAAGATGAAGG
* * *
119664 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGATTTAAAGATGAAGG
* * * *** ** *
119713 TGCTAATGTGTTGATTCAAGGCTGGCGACATTAGACTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGATTTAAAGAT-G--AAGG
*
119765 TGCCAATGTGCTGATTCAAGGCCAACGACATCGG-TCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGAT-TTAAAGATGAAGG
* * ***
119814 TGCCAATATGTTGATTCAAGGCCAGCG--AT---A-TT--AG--GCTTG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGATTTAAAGATGAAGG
* * * *
119853 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGG-TCTTAAAGAT-AAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGAT-TTAAAGATGAAGG
*
119901 TGCCAATATTCTGATTCAAGGCCA
1 TGCCAATATGCTGATTCAAGGCCA
119925 GTGATATTGG
Statistics
Matches: 246, Mismatches: 46, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
39 26 0.11
41 4 0.02
43 2 0.01
45 2 0.01
47 4 0.02
48 24 0.10
49 144 0.59
50 1 0.00
51 1 0.00
52 38 0.15
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATCGGATTTAAAGATGAAGG
Done.