Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold163
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: 1788591
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.32
Warning! 179834 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:204 original size:26 final size:24
Alignment explanation
Indices: 175--269 Score: 52
Period size: 26 Copynumber: 3.8 Consensus size: 24
165 AAATTTTATC
175 TTAATATTTATAATTAAATATAAATA
1 TTAA-ATTTA-AATTAAATATAAATA
** *
201 TTAAA-TTACTGTTTATTATATAAATA
1 TTAAATTTA--AATTA-AATATAAATA
* *
227 ATAAAATTAAATT-AA-ATAAATAA
1 TTAAATTTAAATTAAATATAAAT-A
*
250 TTAATATTTAAATTCAATAT
1 TTAA-ATTTAAATTAAATAT
270 TGAATCAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
22 6 0.11
23 5 0.09
24 11 0.21
25 9 0.17
26 19 0.36
27 3 0.06
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (24 bp):
TTAAATTTAAATTAAATATAAATA
Found at i:236 original size:32 final size:31
Alignment explanation
Indices: 181--240 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
171 TATCTTAATA
181 TTTATAATTAAATATAAATATTAAATTACTG
1 TTTATAATTAAATATAAATATTAAATTACTG
*
212 TTTATTATATAAATAATAAA-ATTAAATTA
1 TTTATAAT-TAAAT-ATAAATATTAAATTA
241 AATAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.27
32 14 0.54
33 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTATAATTAAATATAAATATTAAATTACTG
Found at i:245 original size:22 final size:24
Alignment explanation
Indices: 215--268 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
205 ATTACTGTTT
*
215 ATTATATAAATAA-TAA-AATTAA
1 ATTAAATAAATAATTAATAATTAA
*
237 ATTAAATAAATAATTAATATTTAA
1 ATTAAATAAATAATTAATAATTAA
*
261 ATTCAATA
1 ATTAAATA
269 TTGAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 3 0.11
24 12 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTAAATAAATAATTAATAATTAA
Found at i:1621 original size:17 final size:18
Alignment explanation
Indices: 1601--1636 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1591 GACTTGCGAT
1601 ATGCG-GTGAGAGCTACA
1 ATGCGTGTGAGAGCTACA
*
1618 ATGCGTTTGAGAGCTACA
1 ATGCGTGTGAGAGCTACA
1636 A
1 A
1637 GGTTGAGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (18 bp):
ATGCGTGTGAGAGCTACA
Found at i:2385 original size:15 final size:16
Alignment explanation
Indices: 2362--2391 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2352 ATACTATATA
2362 TTATGTATTTATTTAT
1 TTATGTATTTATTTAT
2378 TTAT-TATTTATTTA
1 TTATGTATTTATTTA
2392 AAATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTATGTATTTATTTAT
Found at i:2435 original size:16 final size:17
Alignment explanation
Indices: 2414--2449 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2404 AAACTATATT
*
2414 TATATTTACAT-TTAAA
1 TATATTTAAATATTAAA
2430 TATATTTAAATATTAAA
1 TATATTTAAATATTAAA
2447 TAT
1 TAT
2450 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATTTAAATATTAAA
Found at i:7160 original size:2 final size:2
Alignment explanation
Indices: 7153--7177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7143 GACCACCCCA
7153 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
7178 ATATTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9802 original size:15 final size:16
Alignment explanation
Indices: 9778--9813 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9768 ATTTTATAAA
*
9778 TTTAAAAATTAAATTT
1 TTTAAAATTTAAATTT
*
9794 TTTAAAATTTATATTT
1 TTTAAAATTTAAATTT
9810 TTTA
1 TTTA
9814 TTTTTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAAATTTAAATTT
Found at i:12002 original size:2 final size:2
Alignment explanation
Indices: 11990--12026 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
11980 TAAGTTCTTC
*
11990 TA TA TA T- TA TA TA TA TC TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12027 TATTCGGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12263 original size:7 final size:7
Alignment explanation
Indices: 12251--12279 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
12241 TGAGCCTGCC
12251 TTTTCCT
1 TTTTCCT
12258 TTTTCCT
1 TTTTCCT
12265 TTTTCC-
1 TTTTCCT
12271 TTTTCCT
1 TTTTCCT
12278 TT
1 TT
12280 AAGATCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCCT
Found at i:12265 original size:13 final size:14
Alignment explanation
Indices: 12251--12279 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12241 TGAGCCTGCC
12251 TTTTCCTTTTTCCT
1 TTTTCCTTTTTCCT
12265 TTTTCC-TTTTCCT
1 TTTTCCTTTTTCCT
12278 TT
1 TT
12280 AAGATCCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCCTTTTTCCT
Found at i:13978 original size:6 final size:7
Alignment explanation
Indices: 13948--13976 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
13938 AGGGATCTTT
13948 AAAGG-A
1 AAAGGAA
13954 AAAGGAA
1 AAAGGAA
13961 AAAGGAA
1 AAAGGAA
13968 AAAGGAA
1 AAAGGAA
13975 AA
1 AA
13977 GGCAGGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGGAA
Found at i:16483 original size:21 final size:23
Alignment explanation
Indices: 16457--16498 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
16447 TAAAAAAATA
16457 TAAATTT-TAAAATT-TAATTTT
1 TAAATTTATAAAATTCTAATTTT
16478 TAAATTTATAAAATTCTAATT
1 TAAATTTATAAAATTCTAATT
16499 GATTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAATTTATAAAATTCTAATTTT
Found at i:19120 original size:2 final size:2
Alignment explanation
Indices: 19115--19149 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19105 TATATATATA
19115 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
19150 CTTTCGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:20843 original size:15 final size:17
Alignment explanation
Indices: 20813--20844 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20803 ATGAGTATCG
20813 GATATAGATATATATTT
1 GATATAGATATATATTT
20830 GATAT-GAT-TATATTT
1 GATATAGATATATATTT
20845 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
GATATAGATATATATTT
Found at i:22268 original size:16 final size:16
Alignment explanation
Indices: 22247--22280 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22237 TTTTAGTACT
22247 CACTCACTGAGTCTTG
1 CACTCACTGAGTCTTG
22263 CACTCACTGAGTCTTG
1 CACTCACTGAGTCTTG
22279 CA
1 CA
22281 AAATTTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (16 bp):
CACTCACTGAGTCTTG
Found at i:23839 original size:4 final size:4
Alignment explanation
Indices: 23830--23855 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23820 AAATATATTT
23830 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
23856 CATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:24818 original size:41 final size:41
Alignment explanation
Indices: 24710--24831 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 41
24700 ATATACATAA
* * *
24710 ATTT-TAATTTTTTTAATAAATTTAAAATTTA-AAA-TTTAAT
1 ATTTATAATTTTTTT-ATTATTTTTAAA-TTACAAATTTTAAT
*
24750 ATTTATAATCTTTTTTATTATTTTTTTAAATTACAAATTTTATT
1 ATTTATAAT-TTTTTTATTA--TTTTTAAATTACAAATTTTAAT
*
24794 ATTTATAATTTTTTTATTATTTTTAAATTACAATTTTT
1 ATTTATAATTTTTTTATTATTTTTAAATTACAAATTTT
24832 TTAAAGTAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
40 4 0.06
41 25 0.35
42 9 0.13
43 19 0.27
44 14 0.20
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
ATTTATAATTTTTTTATTATTTTTAAATTACAAATTTTAAT
Found at i:24834 original size:43 final size:43
Alignment explanation
Indices: 24744--24831 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 43
24734 AAATTTAAAA
24744 TTTAATATTTATAATCTTTTTTATTATTTTTTTAAATTACAAAT
1 TTTAATATTTATAATCTTTTTTATTA-TTTTTTAAATTACAAAT
* *
24788 TTTATTATTTATAAT-TTTTTTATTA-TTTTTAAATTACAATT
1 TTTAATATTTATAATCTTTTTTATTATTTTTTAAATTACAAAT
24829 TTT
1 TTT
24832 TTAAAGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 18 0.43
43 10 0.24
44 14 0.33
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (43 bp):
TTTAATATTTATAATCTTTTTTATTATTTTTTAAATTACAAAT
Found at i:25389 original size:10 final size:11
Alignment explanation
Indices: 25372--25406 Score: 56
Period size: 10 Copynumber: 3.4 Consensus size: 11
25362 TTTTAATTAT
25372 TATATTTAATA
1 TATATTTAATA
25383 T-TATTTAATA
1 TATATTTAATA
25393 TATATTTAA-A
1 TATATTTAATA
25403 TATA
1 TATA
25407 CATATAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATTTAATA
Found at i:25398 original size:21 final size:23
Alignment explanation
Indices: 25358--25401 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
25348 TTCAAATTTT
*
25358 TATTTTTTAATTATTATATTTAA
1 TATTATTTAATTATTATATTTAA
25381 TATTATTTAA-TA-TATATTTAA
1 TATTATTTAATTATTATATTTAA
25402 ATATACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTTAATTATTATATTTAA
Found at i:25979 original size:31 final size:31
Alignment explanation
Indices: 25941--26028 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
25931 TTAAATATTT
25941 AATTAATTTAATTTATTATTTATATAATAAA
1 AATTAATTTAATTTATTATTTATATAATAAA
*
25972 AATTAATTTATATTTA-TATTTA-ATTATAAA
1 AATTAATTTA-ATTTATTATTTATATAATAAA
* * *
26002 TATTAATATAAAATTTATTTTTTATAT
1 AATTAAT-T-TAATTTATTATTTATAT
26029 TATTTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
30 13 0.27
31 22 0.46
32 11 0.23
33 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
AATTAATTTAATTTATTATTTATATAATAAA
Found at i:26721 original size:12 final size:12
Alignment explanation
Indices: 26704--26734 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
26694 TATTTATAAA
26704 ATTTAAAAAATT
1 ATTTAAAAAATT
26716 ATTT-AAAAATT
1 ATTTAAAAAATT
26727 ATTTAAAA
1 ATTTAAAA
26735 TAAATAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTAAAAAATT
Found at i:27427 original size:14 final size:14
Alignment explanation
Indices: 27391--27430 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27381 ATTAAAAAAT
*
27391 ATTAAATTTTTATT
1 ATTAAATTTTTATA
* *
27405 TTTATATTTTTATA
1 ATTAAATTTTTATA
27419 ATTAAATTTTTA
1 ATTAAATTTTTA
27431 AAAAAATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTAAATTTTTATA
Found at i:27483 original size:19 final size:19
Alignment explanation
Indices: 27459--27499 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27449 AATAATCTAA
27459 ATCTAATTAAAATTACCGG
1 ATCTAATTAAAATTACCGG
27478 ATCTAATTAAAATTACCGG
1 ATCTAATTAAAATTACCGG
27497 ATC
1 ATC
27500 AAATAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (19 bp):
ATCTAATTAAAATTACCGG
Found at i:29239 original size:14 final size:15
Alignment explanation
Indices: 29222--29254 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
29212 TTAAAAAAAT
29222 TATTTTTAT-ATTAA
1 TATTTTTATAATTAA
29236 TATTTTTATAATTAA
1 TATTTTTATAATTAA
29251 -ATTT
1 TATTT
29255 AAATTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTATAATTAA
Found at i:29535 original size:23 final size:23
Alignment explanation
Indices: 29483--29537 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
29473 ATATTTTTAA
*
29483 TTTAATTTTAATTATAAAAATAT
1 TTTAATATTAATTATAAAAATAT
* * *
29506 ATAAATATTAA-TATACAAATATT
1 TTTAATATTAATTATAAAAATA-T
29529 TTTAATATT
1 TTTAATATT
29538 TTATTATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAATATTAATTATAAAAATAT
Found at i:30661 original size:85 final size:85
Alignment explanation
Indices: 30532--30704 Score: 346
Period size: 85 Copynumber: 2.0 Consensus size: 85
30522 AAAAAGGTAA
30532 AATTTGTAATTTTAGAGTTTACTGATTATGTTAATCTGTGGTGGAAGAATGTCAAGGTGCAAAGA
1 AATTTGTAATTTTAGAGTTTACTGATTATGTTAATCTGTGGTGGAAGAATGTCAAGGTGCAAAGA
30597 AGCCATAAAAGAGAAAATTT
66 AGCCATAAAAGAGAAAATTT
30617 AATTTGTAATTTTAGAGTTTACTGATTATGTTAATCTGTGGTGGAAGAATGTCAAGGTGCAAAGA
1 AATTTGTAATTTTAGAGTTTACTGATTATGTTAATCTGTGGTGGAAGAATGTCAAGGTGCAAAGA
30682 AGCCATAAAAGAGAAAATTT
66 AGCCATAAAAGAGAAAATTT
30702 AAT
1 AAT
30705 CATGACATGA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (85 bp):
AATTTGTAATTTTAGAGTTTACTGATTATGTTAATCTGTGGTGGAAGAATGTCAAGGTGCAAAGA
AGCCATAAAAGAGAAAATTT
Found at i:34792 original size:29 final size:28
Alignment explanation
Indices: 34754--34894 Score: 162
Period size: 29 Copynumber: 5.0 Consensus size: 28
34744 TTTAGTTTCC
* *
34754 TTTTTGTGTTTTGGTTGACTTTTAATTT
1 TTTTTATGTTTTAGTTGACTTTTAATTT
* *
34782 TTTTTAATGTTTTTGTTGATTTTTAATTT
1 TTTTT-ATGTTTTAGTTGACTTTTAATTT
*
34811 TTTTT-TATTTTAGTTGACTTTTAATTCAT
1 TTTTTATGTTTTAGTTGACTTTTAATT--T
34840 TTTTGTAT-TTTT-GTTGACTTTTAATTT
1 TTTT-TATGTTTTAGTTGACTTTTAATTT
*
34867 CTTTTTATGTTTTAGTTAACTTTTAATT
1 -TTTTTATGTTTTAGTTGACTTTTAATT
34895 CCTTAACTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
27 22 0.22
28 13 0.13
29 57 0.58
30 5 0.05
31 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.68
Consensus pattern (28 bp):
TTTTTATGTTTTAGTTGACTTTTAATTT
Found at i:34827 original size:56 final size:58
Alignment explanation
Indices: 34742--34895 Score: 179
Period size: 56 Copynumber: 2.7 Consensus size: 58
34732 ATTTACAAGG
* * * * * *
34742 CTTTTAGTTTCCTTTTTGTGTTTTGGTTGACTTTTAATT-TTTTTTAATGTTTTTGTTGA
1 CTTTTAATTT-CTTTTTATATTTTAGTTGACTTTTAATTCATTTTT-ATATTTTTGTTGA
* *
34801 TTTTTAATTT-TTTTT-TATTTTAGTTGACTTTTAATTCATTTTTGTATTTTTGTTGA
1 CTTTTAATTTCTTTTTATATTTTAGTTGACTTTTAATTCATTTTTATATTTTTGTTGA
* *
34857 CTTTTAATTTCTTTTTATGTTTTAGTTAACTTTTAATTC
1 CTTTTAATTTCTTTTTATATTTTAGTTGACTTTTAATTC
34896 CTTAACTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
56 39 0.48
57 15 0.18
58 20 0.24
59 8 0.10
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.67
Consensus pattern (58 bp):
CTTTTAATTTCTTTTTATATTTTAGTTGACTTTTAATTCATTTTTATATTTTTGTTGA
Found at i:35891 original size:20 final size:20
Alignment explanation
Indices: 35866--35906 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
35856 GTAAATTTAA
35866 TATAAATAAA-ATATTTAAAT
1 TATAAATAAATAT-TTTAAAT
*
35886 TATAAATATATATTTTAAAT
1 TATAAATAAATATTTTAAAT
35906 T
1 T
35907 TTATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATAAATATTTTAAAT
Found at i:35934 original size:22 final size:21
Alignment explanation
Indices: 35909--35954 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 21
35899 TTTAAATTTT
35909 ATATAATTATAAAATATATAAA
1 ATATAATTATAAAATA-ATAAA
35931 ATATAATTATAAAATAATAAA
1 ATATAATTATAAAATAATAAA
35952 ATA
1 ATA
35955 AAATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAATTATAAAATAATAAA
Found at i:35963 original size:30 final size:30
Alignment explanation
Indices: 35907--35968 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
35897 ATTTTAAATT
* * * *
35907 TTATATAATTATAAAATATATAAAATATAA
1 TTATAAAATAATAAAATAAATAAAATAAAA
35937 TTATAAAATAATAAAATAAA-ATAAATAAAA
1 TTATAAAATAATAAAATAAATA-AAATAAAA
35967 TT
1 TT
35969 TTAGATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
TTATAAAATAATAAAATAAATAAAATAAAA
Found at i:36599 original size:15 final size:16
Alignment explanation
Indices: 36579--36614 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
36569 AATTAGTAAA
36579 TATTTT-AAATAAAAT
1 TATTTTAAAATAAAAT
*
36594 TATTTTAAAATTAAAT
1 TATTTTAAAATAAAAT
36610 TATTT
1 TATTT
36615 AATTAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTAAAATAAAAT
Found at i:36615 original size:15 final size:15
Alignment explanation
Indices: 36575--36616 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
36565 TTTAAATTAG
*
36575 TAAA-TATTTTAAAT
1 TAAATTATTTAAAAT
*
36589 AAAATTATTTTAAAAT
1 TAAATTA-TTTAAAAT
36605 TAAATTATTTAA
1 TAAATTATTTAA
36617 TTAAGTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTATTTAAAAT
Found at i:36658 original size:33 final size:33
Alignment explanation
Indices: 36595--36659 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
36585 AAATAAAATT
** *
36595 ATTTTAAAATTAAATTATTTAATTAAGTAAAAA
1 ATTTTAAAATTAAATTATAAAAATAAGTAAAAA
* *
36628 ATTTTAAAATTTAATTATAAAAATATGTAAAA
1 ATTTTAAAATTAAATTATAAAAATAAGTAAAA
36660 TATTAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (33 bp):
ATTTTAAAATTAAATTATAAAAATAAGTAAAAA
Found at i:37276 original size:16 final size:17
Alignment explanation
Indices: 37255--37293 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
37245 AGTAATGGAT
*
37255 TTTTTTA-TATATAAAA
1 TTTTTTATTAAATAAAA
*
37271 TTTTTTATTAAATAATA
1 TTTTTTATTAAATAAAA
37288 TTTTTT
1 TTTTTT
37294 TTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTATTAAATAAAA
Found at i:38021 original size:19 final size:19
Alignment explanation
Indices: 37999--38035 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37989 ATAATTTTTT
37999 AAATATATAAAAA-ATTTAA
1 AAATAT-TAAAAATATTTAA
38018 AAATATTAAAAATATTTA
1 AAATATTAAAAATATTTA
38036 TTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTAAAAATATTTAA
Found at i:38046 original size:12 final size:12
Alignment explanation
Indices: 38029--38053 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38019 AATATTAAAA
38029 ATATTTATTTTT
1 ATATTTATTTTT
38041 ATATTTATTTTT
1 ATATTTATTTTT
38053 A
1 A
38054 ATTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATATTTATTTTT
Found at i:39703 original size:20 final size:20
Alignment explanation
Indices: 39690--39727 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39680 AAATTTGTTA
39690 TAAAATATTTAAATTTAATT
1 TAAAATATTTAAATTTAATT
*
39710 TAAAATTTTTAAATTTAA
1 TAAAATATTTAAATTTAA
39728 ATAAATTTTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATATTTAAATTTAATT
Found at i:39972 original size:22 final size:23
Alignment explanation
Indices: 39923--39972 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
39913 ATAAAAATTT
*
39923 ATTTAAATATAAAAATTAATCGA
1 ATTTAAATATAAAAATTAATCAA
* *
39946 A-TTAAATATCAAAA-TACTCAA
1 ATTTAAATATAAAAATTAATCAA
39967 ATTTAA
1 ATTTAA
39973 TTCAATCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (23 bp):
ATTTAAATATAAAAATTAATCAA
Found at i:40566 original size:3 final size:3
Alignment explanation
Indices: 40558--40596 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
40548 TACAGTGAAT
40558 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
40597 TCCTCTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41057 original size:3 final size:3
Alignment explanation
Indices: 41049--41081 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
41039 TCTGCCTAGT
41049 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
41082 ACTTATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:41775 original size:13 final size:13
Alignment explanation
Indices: 41757--41781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41747 TAAAGAAATT
41757 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
41770 AAAAAAGAAAAA
1 AAAAAAGAAAAA
41782 TAAGCTGTTT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:46457 original size:2 final size:2
Alignment explanation
Indices: 46450--46491 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
46440 AGCACAGAAG
46450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46491 A
1 A
46492 CGGCAATGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49122 original size:18 final size:18
Alignment explanation
Indices: 49061--49114 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
49051 ATCCAAGTCT
* * *
49061 CGATCAAGCTTCCTATAA
1 CGATCATGCTCCCTATCA
* *
49079 CGCTCACGCTCCCTATCA
1 CGATCATGCTCCCTATCA
*
49097 CGATCATGCTCTCTATCA
1 CGATCATGCTCCCTATCA
49115 TGGTCATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.37, G:0.11, T:0.28
Consensus pattern (18 bp):
CGATCATGCTCCCTATCA
Found at i:51375 original size:2 final size:2
Alignment explanation
Indices: 51364--51398 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
51354 TCTGAGAGTC
51364 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51399 ACACAACCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:58456 original size:2 final size:2
Alignment explanation
Indices: 58451--58486 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
58441 TTGTGTGCAT
*
58451 GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58487 CCTCGCCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:59666 original size:36 final size:33
Alignment explanation
Indices: 59623--59692 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 33
59613 TTATATTTTT
59623 TATAAAATTAAAATTACATAAT-ATATAAAAAATTAA
1 TATAAAATT--AA-TACATAATAAT-TAAAAAATTAA
*
59659 TATAAAATTAATATATAATAATTAAAAAATTAA
1 TATAAAATTAATACATAATAATTAAAAAATTAA
59692 T
1 T
59693 TAGATTGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 19 0.59
34 4 0.12
36 9 0.28
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
TATAAAATTAATACATAATAATTAAAAAATTAA
Found at i:59667 original size:11 final size:11
Alignment explanation
Indices: 59651--59692 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
59641 TAATATATAA
59651 AAAATTAATAT
1 AAAATTAATAT
59662 AAAATTAATAT
1 AAAATTAATAT
* *
59673 ATAA-TAATTAA
1 AAAATTAA-TAT
59684 AAAATTAAT
1 AAAATTAAT
59693 TAGATTGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:59753 original size:22 final size:20
Alignment explanation
Indices: 59724--59765 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
59714 ACGTTAAAAT
*
59724 TAAAATTAATTTATTTTTAAA
1 TAAAATTAATTT-TTATTAAA
59745 TAAATATTAATTTTTATTAAA
1 TAAA-ATTAATTTTTATTAAA
59766 ATTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAATTAATTTTTATTAAA
Found at i:59767 original size:22 final size:21
Alignment explanation
Indices: 59717--59767 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
59707 ATTTTATACG
59717 TTAAAATTAAAATTAATTTATT
1 TTAAAA-TAAAATTAATTTATT
*
59739 TTTAAATAAATATTAATTT-TT
1 TTAAAATAAA-ATTAATTTATT
59760 ATTAAAAT
1 -TTAAAAT
59768 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAAATAAAATTAATTTATT
Found at i:59771 original size:16 final size:17
Alignment explanation
Indices: 59731--59780 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
59721 AATTAAAATT
*
59731 AATTTATTTTTAAATAA
1 AATTAATTTTTAAATAA
*
59748 ATATTAATTTTT-ATTAA
1 A-ATTAATTTTTAAATAA
59765 AATTAATTTTTTAAAT
1 AATTAA-TTTTTAAAT
59781 TAATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAATTTTTAAATAA
Found at i:59968 original size:20 final size:20
Alignment explanation
Indices: 59945--59992 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
59935 TTTAAATTTT
* *
59945 ATTTATAAATATTAATATAA
1 ATTTATAAATAATAAAATAA
* *
59965 ATTTTTTAATAATAAAATAA
1 ATTTATAAATAATAAAATAA
*
59985 AATTATAA
1 ATTTATAA
59993 TTACTAATAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTATAAATAATAAAATAA
Found at i:65284 original size:22 final size:22
Alignment explanation
Indices: 65231--65284 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
65221 ATATATGAGG
* *
65231 AAAAATTAACCTCACTGAATTA
1 AAAAATTAATCTCACTAAATTA
* *
65253 GAAAATTAATCTCATTAAATTA
1 AAAAATTAATCTCACTAAATTA
65275 AAAAATTAAT
1 AAAAATTAAT
65285 TCTAATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAATTAATCTCACTAAATTA
Found at i:65293 original size:22 final size:22
Alignment explanation
Indices: 65231--65293 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
65221 ATATATGAGG
* * *
65231 AAAAATTAACCTCACTGAATTA
1 AAAAATTAATCTCAATAAATTA
* *
65253 GAAAATTAATCTCATTAAATTA
1 AAAAATTAATCTCAATAAATTA
65275 AAAAATTAAT-TCTAATAAA
1 AAAAATTAATCTC-AATAAA
65294 AAATCTCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (22 bp):
AAAAATTAATCTCAATAAATTA
Found at i:67286 original size:18 final size:18
Alignment explanation
Indices: 67263--67298 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
67253 TTGGAGATTC
*
67263 AGGTTCGGAGACATGGTT
1 AGGTTCGGACACATGGTT
67281 AGGTTCGGACACATGGTT
1 AGGTTCGGACACATGGTT
67299 TGGTGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (18 bp):
AGGTTCGGACACATGGTT
Found at i:72214 original size:27 final size:27
Alignment explanation
Indices: 72157--72207 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
72147 GATTTAAATT
*
72157 ATATTAT-TTT-AATTTAAATTATTAA
1 ATATTATATTTAAATTTAAATTAATAA
*
72182 ATATTATATTTAAATTTAATTTAATA
1 ATATTATATTTAAATTTAAATTAATA
72208 TAAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATATTTAAATTTAAATTAATAA
Found at i:72438 original size:17 final size:19
Alignment explanation
Indices: 72364--72433 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 19
72354 CTATTAAAAT
* *
72364 TATATATATT-TATATTTT
1 TATAAATATTATATATTTA
* * *
72382 TTTAATTATAAT-TATTT-
1 TATAAATATTATATATTTA
72399 TA-AAATATTATATATTTA
1 TATAAATATTATATATTTA
*
72417 TATAAATTTTATATATT
1 TATAAATATTATATATT
72434 AATAATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
16 7 0.17
17 6 0.15
18 13 0.32
19 14 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATAAATATTATATATTTA
Found at i:73828 original size:17 final size:16
Alignment explanation
Indices: 73808--73894 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
73798 AATATAATAT
73808 ATTTTATATTTTAATTA
1 ATTTTATA-TTTAATTA
**
73825 ATTTATATATAAAAAATTA
1 ATTT-TATAT--TTAATTA
*
73844 TATTTTATA-ATAATTA
1 -ATTTTATATTTAATTA
*
73860 TATTTCATATTTAATTA
1 -ATTTTATATTTAATTA
*
73877 ATATTTAAATTTAATTA
1 AT-TTTATATTTAATTA
73894 A
1 A
73895 AATAAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
16 16 0.28
17 24 0.42
18 4 0.07
19 9 0.16
20 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTATATTTAATTA
Found at i:73888 original size:24 final size:23
Alignment explanation
Indices: 73843--73924 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 23
73833 ATAAAAAATT
* *
73843 ATATTTTATAATAATTATATTTC
1 ATATTTAATAATAATTAAATTTC
*
73866 ATATTTAATTAATATTTAAATTT-
1 ATATTTAA-TAATAATTAAATTTC
*
73889 A-A-TTAA-AATAAATAAA-TT-
1 ATATTTAATAATAATTAAATTTC
73907 ATATTATAAT-ATAATTAA
1 ATATT-TAATAATAATTAA
73925 TCTATATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.06
19 9 0.19
20 1 0.02
21 14 0.29
22 1 0.02
23 8 0.17
24 12 0.25
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATTTAATAATAATTAAATTTC
Found at i:74074 original size:10 final size:10
Alignment explanation
Indices: 74045--74089 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
74035 ATCTAATAAT
74045 TTAATTTAAA
1 TTAATTTAAA
*
74055 TAAATTTTTAAA
1 TTAA--TTTAAA
*
74067 TTAATTTAAT
1 TTAATTTAAA
74077 TTAATTTAAA
1 TTAATTTAAA
74087 TTA
1 TTA
74090 TTATTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAATTTAAA
Found at i:74990 original size:3 final size:3
Alignment explanation
Indices: 74984--75011 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
74974 TTTGTTGTTG
74984 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
75012 GTTTCTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:79165 original size:17 final size:19
Alignment explanation
Indices: 79143--79187 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
79133 TAATAATTCG
79143 TATATATTTA-A-AATATT
1 TATATATTTATATAATATT
*
79160 TATATATTTATATCATATT
1 TATATATTTATATAATATT
79179 TATATATTT
1 TATATATTT
79188 TTTATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATATTTATATAATATT
Found at i:79492 original size:14 final size:15
Alignment explanation
Indices: 79473--79504 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
79463 ATATATTTAT
79473 TTTTTAAA-AAATTG
1 TTTTTAAATAAATTG
79487 TTTTTAAATAAATTG
1 TTTTTAAATAAATTG
79502 TTT
1 TTT
79505 CTTACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTTTAAATAAATTG
Found at i:79812 original size:26 final size:26
Alignment explanation
Indices: 79783--79832 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
79773 GGTATAATTT
* *
79783 TAAAATTTTTAAAATTGATTAAATAA
1 TAAAACTTGTAAAATTGATTAAATAA
79809 TAAAACTTGTAAAATTGATTAAAT
1 TAAAACTTGTAAAATTGATTAAAT
79833 TATTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAACTTGTAAAATTGATTAAATAA
Found at i:79954 original size:13 final size:13
Alignment explanation
Indices: 79936--79969 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
79926 CTTACATATT
*
79936 TTATATTTTTATA
1 TTATATTTTTACA
79949 TTATATTTTTACA
1 TTATATTTTTACA
*
79962 ATATATTT
1 TTATATTT
79970 GGTATGAAAT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATTTTTACA
Found at i:81066 original size:23 final size:23
Alignment explanation
Indices: 81035--81079 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
81025 CTTTAAAATA
* *
81035 AATTTATTAAATATTTTTATTTC
1 AATTAATTAAATATTATTATTTC
*
81058 AATTAATTAATTATTATTATTT
1 AATTAATTAAATATTATTATTT
81080 AAAAATTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTAATTAAATATTATTATTTC
Found at i:81810 original size:16 final size:16
Alignment explanation
Indices: 81780--81822 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
81770 ATTGATTTAT
**
81780 ATAATATTTTTTAAAA
1 ATAATATTTAATAAAA
*
81796 ATAATATTTAATAAAT
1 ATAATATTTAATAAAA
*
81812 ATAAAATTTAA
1 ATAATATTTAA
81823 ATCTCAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATTTAATAAAA
Found at i:83360 original size:17 final size:17
Alignment explanation
Indices: 83338--83371 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
83328 ATTTAAGTCG
83338 CACCAACAATTTTACTC
1 CACCAACAATTTTACTC
83355 CACCAACAATTTTACTC
1 CACCAACAATTTTACTC
83372 TCTGTGGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (17 bp):
CACCAACAATTTTACTC
Found at i:87827 original size:22 final size:24
Alignment explanation
Indices: 87788--87845 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 24
87778 TAGAATTTTA
* *
87788 ATTTTAT-ATTAATATTTATATAT
1 ATTTTATAATTAATATTTAAAAAT
*
87811 -TTTTATAATTAA-CTTTAAAAAT
1 ATTTTATAATTAATATTTAAAAAT
87833 ATTTT-TAATTAAT
1 ATTTTATAATTAAT
87846 TAATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTATAATTAATATTTAAAAAT
Found at i:94121 original size:24 final size:23
Alignment explanation
Indices: 94085--94156 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
94075 ATTTTATATT
*
94085 AAAATAAAAAATTTAATTATTTAC
1 AAAATAAAAAA-TTAAATATTTAC
* * *
94109 AAAATATATAATTAAATATTTTTAA
1 AAAATAAAAAATTAAATA--TTTAC
94134 AATTAATAAAAAA-TAAATATTTA
1 AA--AATAAAAAATTAAATATTTA
94157 TGTATAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
23 6 0.16
24 13 0.34
25 6 0.16
26 6 0.16
27 7 0.18
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAAAAAATTAAATATTTAC
Found at i:94438 original size:9 final size:9
Alignment explanation
Indices: 94424--94465 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
94414 AAATATAATA
94424 TTTATTTAT
1 TTTATTTAT
94433 TTTATTT-T
1 TTTATTTAT
*
94441 ATTATTTAT
1 TTTATTTAT
94450 ATTTATTATAT
1 -TTTATT-TAT
94461 TTTAT
1 TTTAT
94466 AAATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 8 0.29
10 10 0.36
11 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:94445 original size:13 final size:14
Alignment explanation
Indices: 94421--94458 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
94411 ATAAAATATA
94421 ATATTTATTTATTTT
1 ATATTTA-TTATTTT
94436 AT-TTTATTA-TTT
1 ATATTTATTATTTT
94448 ATATTTATTAT
1 ATATTTATTAT
94459 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 10 0.48
14 4 0.19
15 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTTATTATTTT
Found at i:94476 original size:23 final size:23
Alignment explanation
Indices: 94417--94490 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
94407 ATTTATAAAA
*
94417 TATAATATTT-ATTTATTTTATTT
1 TATAA-ATTTAATTTATTATATTT
*
94440 TAT-TATTTATATTTATTATATTT
1 TATAAATTTA-ATTTATTATATTT
94463 TATAAATTTAATTTTAATTATTATTT
1 TATAAATTTAA-TTT-ATTA-TATTT
94489 TA
1 TA
94491 AAGTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.10
23 19 0.45
24 8 0.19
25 4 0.10
26 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATAAATTTAATTTATTATATTT
Found at i:94793 original size:3 final size:3
Alignment explanation
Indices: 94777--94817 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
94767 GTTCGTGAAA
94777 AAT AA- AAT -AT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
94818 CAGAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:94804 original size:17 final size:17
Alignment explanation
Indices: 94777--94817 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
94767 GTTCGTGAAA
94777 AATAA-AATATAATAAT
1 AATAATAATATAATAAT
94793 AATAATAATATAATAAT
1 AATAATAATATAATAAT
94810 AATAATAA
1 AATAATAA
94818 CAGAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATAATATAATAAT
Found at i:94805 original size:14 final size:14
Alignment explanation
Indices: 94788--94816 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
94778 ATAAAATATA
94788 ATAATAATAATAAT
1 ATAATAATAATAAT
94802 ATAATAATAATAAT
1 ATAATAATAATAAT
94816 A
1 A
94817 ACAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:94962 original size:36 final size:35
Alignment explanation
Indices: 94922--95036 Score: 90
Period size: 37 Copynumber: 3.1 Consensus size: 35
94912 TAAAAATTTT
*
94922 AAAATTAGTTTAATTTAATTGAATATTTATTAATAA
1 AAAATTATTTTAATTTAATT-AATATTTATTAATAA
* * *
94958 AAAATATATTTTTATTTAAATTTAAT-TATATAAATATA
1 AAAAT-TATTTTAATTT-AA-TTAATATTTATTAATA-A
* * *
94996 AAAATAATTTTAATAT-ATTAATATTTTTTAAATAA
1 AAAATTATTTTAATTTAATTAATATTTATT-AATAA
95031 TAAAAT
1 -AAAAT
95037 AAATTATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
34 5 0.08
35 5 0.08
36 14 0.23
37 25 0.40
38 11 0.18
39 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (35 bp):
AAAATTATTTTAATTTAATTAATATTTATTAATAA
Found at i:95557 original size:33 final size:33
Alignment explanation
Indices: 95520--95586 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
95510 TTCAACGATT
95520 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
95553 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
95586 T
1 T
95587 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:95558 original size:13 final size:13
Alignment explanation
Indices: 95540--95564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95530 CATAAAATGT
95540 TGTATCGATACAA
1 TGTATCGATACAA
95553 TGTATCGATACA
1 TGTATCGATACA
95565 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:95757 original size:52 final size:52
Alignment explanation
Indices: 95607--95749 Score: 241
Period size: 52 Copynumber: 2.7 Consensus size: 52
95597 GCCAAAAAAA
* *
95607 ATGTATCGATACATTACTCACATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATTA-TAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
95660 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
95712 ATGTATCGATACACTATTAAATGTATCGATACATGCAG
1 ATGTATCGATACATTATAAAATGTATCGATACATGCAG
95750 ATAAATTTTC
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 70 0.81
53 16 0.19
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:99027 original size:22 final size:20
Alignment explanation
Indices: 98998--99051 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
98988 TTTGAATTGA
*
98998 TTTTAAATTTTAAATTATTT
1 TTTTAAATTTTAAATTAATT
99018 ATATTTAAATTGATTAAATTAATT
1 -T-TTTAAATT--TTAAATTAATT
99042 TTTTAAATTT
1 TTTTAAATTT
99052 AAGTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 16 0.55
23 1 0.03
24 10 0.34
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAATTTTAAATTAATT
Found at i:99591 original size:22 final size:21
Alignment explanation
Indices: 99562--99614 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
99552 GTTTACTCCG
99562 TTTAATTTAAATTTTGAATATAA
1 TTTAATTTAAA-TTTGAAT-TAA
* *
99585 TTTATTTTTAATTTGAATTAA
1 TTTAATTTAAATTTGAATTAA
99606 TTTAATTTA
1 TTTAATTTA
99615 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 10 0.38
22 7 0.27
23 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAATTTAAATTTGAATTAA
Found at i:99620 original size:15 final size:15
Alignment explanation
Indices: 99602--99631 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99592 TTAATTTGAA
*
99602 TTAATTTAATTTATT
1 TTAATTTAAATTATT
99617 TTAATTTAAATTATT
1 TTAATTTAAATTATT
99632 ATTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTAAATTATT
Found at i:99659 original size:33 final size:35
Alignment explanation
Indices: 99613--99693 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 35
99603 TAATTTAATT
*
99613 TATTTTAATTTAAA-TT-ATTATTTAATAAT-AAAAA
1 TATTTTAATTTAAAGTTAATTA--TAAAAATAAAAAA
99647 TATTTT-ATTTAAAGTTAATTATAAAAATAAAAAA
1 TATTTTAATTTAAAGTTAATTATAAAAATAAAAAA
99681 TATTTTTAATTTA
1 TA-TTTTAATTTA
99694 TATTTAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
33 13 0.32
34 15 0.37
35 8 0.20
36 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TATTTTAATTTAAAGTTAATTATAAAAATAAAAAA
Found at i:100325 original size:18 final size:21
Alignment explanation
Indices: 100304--100355 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
100294 CAAATCAAAT
100304 TTAAATTTAAA-AAAT-T-AA
1 TTAAATTTAAATAAATATAAA
100322 TTAAATTTAAATTAAATATCAAA
1 TTAAATTTAAA-TAAATAT-AAA
100345 TTAAATTTAAA
1 TTAAATTTAAA
100356 CTTAACTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.38
20 4 0.14
21 1 0.03
23 13 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATTTAAATAAATATAAA
Found at i:100360 original size:12 final size:11
Alignment explanation
Indices: 100304--100360 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 11
100294 CAAATCAAAT
100304 TTAAATTTAAA
1 TTAAATTTAAA
100315 --AAA-TT-AA
1 TTAAATTTAAA
100322 TTAAATTTAAA
1 TTAAATTTAAA
*
100333 TTAAATATCAAA
1 TTAAAT-TTAAA
100345 TTAAATTTAAA
1 TTAAATTTAAA
100356 CTTAA
1 -TTAA
100361 CTCATCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 6 0.16
10 2 0.05
11 12 0.32
12 14 0.37
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:107688 original size:15 final size:15
Alignment explanation
Indices: 107656--107749 Score: 55
Period size: 16 Copynumber: 5.9 Consensus size: 15
107646 AAAATAGAAT
**
107656 AAAAATATATAATTTA
1 AAAAAT-TATAAAATA
107672 AAAAATTATAAAATA
1 AAAAATTATAAAATA
** *
107687 AATTATTAATATAATA
1 AAAAATT-ATAAAATA
107703 AAATTAA-TATAAATATA
1 AAA--AATTATAAA-ATA
*
107720 AAATAATTTATAATATA
1 AAA-AA-TTATAAAATA
*
107737 ATAAATTATAAAA
1 AAAAATTATAAAA
107750 AATATAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
15 19 0.31
16 24 0.39
17 12 0.20
18 6 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATTATAAAATA
Found at i:107708 original size:17 final size:17
Alignment explanation
Indices: 107686--107764 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
107676 ATTATAAAAT
107686 AAATTATTAATATAATA
1 AAATTATTAATATAATA
107703 AAATTAATATAAATATAA-A
1 AAATT-AT-T-AATATAATA
107722 ATAATT-TATAATATAAT-
1 A-AATTAT-TAATATAATA
*
107739 AAATTA-TAA-AAAATA
1 AAATTATTAATATAATA
107754 TAAATTATTAA
1 -AAATTATTAA
107765 ATTATCAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 18
0.73 0.01 0.25
Matches are distributed among these distances:
14 4 0.08
15 3 0.06
16 10 0.19
17 16 0.31
18 5 0.10
19 3 0.06
20 11 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTATTAATATAATA
Found at i:107719 original size:20 final size:19
Alignment explanation
Indices: 107679--107741 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
107669 TTAAAAAATT
*
107679 ATAAAATAAATTATTAATATA
1 ATAAAATTAA-TA-TAATATA
107700 ATAAAATTAATATAA-AT-
1 ATAAAATTAATATAATATA
107717 ATAAAA-TAATTTATAATATA
1 ATAAAATTAA--TATAATATA
107737 ATAAA
1 ATAAA
107742 TTATAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.08
17 6 0.16
18 7 0.19
19 5 0.14
20 7 0.19
21 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAATTAATATAATATA
Found at i:107827 original size:13 final size:13
Alignment explanation
Indices: 107809--107835 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
107799 GAATTCAACA
107809 AATTTAATATTAT
1 AATTTAATATTAT
107822 AATTTAATATTAT
1 AATTTAATATTAT
107835 A
1 A
107836 TAAGATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTAATATTAT
Found at i:108298 original size:21 final size:21
Alignment explanation
Indices: 108274--108313 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
108264 TATTAAAATT
*
108274 TATTTT-TTATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
108295 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
108314 AATTAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:109690 original size:26 final size:23
Alignment explanation
Indices: 109629--109690 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 23
109619 TTGATCGGAT
109629 TAAA-ATTATTATTTAAATAATA
1 TAAATATTATTATTTAAATAATA
* *
109651 AAAATATTTTTATTTAAATTTAATTA
1 TAAATATTATTATTTAAA--TAA-TA
*
109677 TAAATATTAATATT
1 TAAATATTATTATT
109691 CTTTAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 3 0.10
23 12 0.39
25 3 0.10
26 13 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTATTATTTAAATAATA
Found at i:109712 original size:26 final size:25
Alignment explanation
Indices: 109679--109727 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
109669 TTTAATTATA
109679 AATATTAATATT-CTTTAAACAATTG
1 AATATTAA-ATTACTTTAAACAATTG
*
109704 AATATTTAAATTATTTTAAACAAT
1 AATA-TTAAATTACTTTAAACAAT
109728 AAAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
AATATTAAATTACTTTAAACAATTG
Found at i:111290 original size:16 final size:16
Alignment explanation
Indices: 111269--111312 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
111259 TCAAATATGT
*
111269 TATAAATTTTATTATA
1 TATAAATTTTAATATA
111285 TATAAATTTTAATATA
1 TATAAATTTTAATATA
*
111301 -AT-ATTTTTAATA
1 TATAAATTTTAATA
111313 ATAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTTTAATATA
Found at i:112694 original size:20 final size:19
Alignment explanation
Indices: 112655--112715 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
112645 TTTGATGATC
* *
112655 ATATGAAAATATCAAATAA
1 ATATGAATATAACAAATAA
112674 ATATGAATATAACACAATAA
1 ATATGAATATAACA-AATAA
*
112694 ATAT-AAT-TAACATAATAT
1 ATATGAATATAACA-AATAA
112712 ATAT
1 ATAT
112716 TTAATGTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 13 0.35
19 15 0.41
20 9 0.24
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (19 bp):
ATATGAATATAACAAATAA
Found at i:115135 original size:2 final size:2
Alignment explanation
Indices: 115123--115170 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
115113 CAAATAATCG
*
115123 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115165 TA TA TA
1 TA TA TA
115171 GATAATGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:116937 original size:16 final size:17
Alignment explanation
Indices: 116897--116938 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
116887 ACTCACTGGT
*
116897 AATATTAATTTATTTTA
1 AATATTTATTTATTTTA
* *
116914 AGTTTTTATTT-TTTTA
1 AATATTTATTTATTTTA
116930 AATATTTAT
1 AATATTTAT
116939 ATTTGAGATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATATTTATTTATTTTA
Found at i:120290 original size:3 final size:3
Alignment explanation
Indices: 120284--120339 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
120274 AAAAAAAAAT
120284 TTA TTA TATA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
120330 TTA TTA TTA T
1 TTA TTA TTA T
120340 GTGAATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:121556 original size:16 final size:18
Alignment explanation
Indices: 121535--121569 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
121525 TATAAATATT
121535 AATTTAT-T-TTTAAAAA
1 AATTTATATATTTAAAAA
121551 AATTTATATATTTAAAAA
1 AATTTATATATTTAAAAA
121569 A
1 A
121570 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTATATATTTAAAAA
Found at i:121597 original size:14 final size:14
Alignment explanation
Indices: 121557--121597 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
121547 AAAAAATTTA
* *
121557 TATATTTAAAAAAT
1 TATATTTAAATATT
*
121571 TATATTTATATATT
1 TATATTTAAATATT
121585 TATATTTAAATAT
1 TATATTTAAATAT
121598 AATTACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATATTTAAATATT
Found at i:122293 original size:17 final size:18
Alignment explanation
Indices: 122271--122307 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
122261 ATAAAATTGA
*
122271 ATTAATTTT-TATTTTTT
1 ATTAATTTTAAATTTTTT
122288 ATTAATTTTAAATTTTTT
1 ATTAATTTTAAATTTTTT
122306 AT
1 AT
122308 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTAATTTTAAATTTTTT
Found at i:122334 original size:19 final size:19
Alignment explanation
Indices: 122305--122357 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
122295 TTAAATTTTT
*
122305 TATAATAAAAAATTTATAAA
1 TATAATTAAAAATTT-TAAA
122325 T-TAATTAAAAATTTTAAA
1 TATAATTAAAAATTTTAAA
122343 TATATTATTAAAAAT
1 TATA--ATTAAAAAT
122358 AAAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 1 0.03
21 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAATTAAAAATTTTAAA
Found at i:125739 original size:16 final size:16
Alignment explanation
Indices: 125699--125750 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
125689 TGAGAAGTTG
125699 AAATATTAAAAATAT--
1 AAAT-TTAAAAATATAA
* *
125714 ATATTTTAAAATAATAA
1 AAATTTAAAAAT-ATAA
125731 AAATTTAAAAATATAA
1 AAATTTAAAAATATAA
125747 AAAT
1 AAAT
125751 AATAAAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
16 8 0.27
17 10 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTAAAAATATAA
Found at i:126413 original size:13 final size:13
Alignment explanation
Indices: 126376--126415 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
126366 GGCTCCATCC
*
126376 TCTCTCTCATGCA
1 TCTCTCTCATGTA
126389 TC-CTTCTCATGTA
1 TCTC-TCTCATGTA
126402 TCTCTCTCATGTA
1 TCTCTCTCATGTA
126415 T
1 T
126416 TTTTCTCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.45
Consensus pattern (13 bp):
TCTCTCTCATGTA
Found at i:126422 original size:13 final size:13
Alignment explanation
Indices: 126380--126422 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
126370 CCATCCTCTC
* *
126380 TCTCATGCATCCT
1 TCTCATGTATCTT
*
126393 TCTCATGTATCTC
1 TCTCATGTATCTT
*
126406 TCTCATGTATTTT
1 TCTCATGTATCTT
126419 TCTC
1 TCTC
126423 CAATTCATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.14, C:0.30, G:0.07, T:0.49
Consensus pattern (13 bp):
TCTCATGTATCTT
Found at i:128900 original size:21 final size:21
Alignment explanation
Indices: 128876--128916 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
128866 AAACAAATAG
* *
128876 TACTCCACAGTAGGTGGAGTA
1 TACTCCAAAATAGGTGGAGTA
*
128897 TACTCTAAAATAGGTGGAGT
1 TACTCCAAAATAGGTGGAGT
128917 TTCAATAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (21 bp):
TACTCCAAAATAGGTGGAGTA
Found at i:133811 original size:17 final size:18
Alignment explanation
Indices: 133786--133820 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
133776 GTTTGGGAAG
133786 AAGGAAAAAAAA-AAAAA
1 AAGGAAAAAAAAGAAAAA
*
133803 AAGGTAAAAAAAGAAAAA
1 AAGGAAAAAAAAGAAAAA
133821 TCTAATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAGGAAAAAAAAGAAAAA
Found at i:137233 original size:17 final size:17
Alignment explanation
Indices: 137203--137259 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
137193 TAAATCACTA
* * *
137203 TTAAATTTATTTATAGG
1 TTAAATTAAGTTATAAG
*
137220 TTAAATTAAGTTATAAT
1 TTAAATTAAGTTATAAG
*
137237 TTAAATTAA-TTA-AAT
1 TTAAATTAAGTTATAAG
137252 TTAAATTA
1 TTAAATTA
137260 TTTTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
15 11 0.31
16 3 0.08
17 22 0.61
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAAATTAAGTTATAAG
Found at i:137254 original size:15 final size:17
Alignment explanation
Indices: 137220--137274 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
137210 TATTTATAGG
137220 TTAAATTAAGTTATAAT
1 TTAAATTAAGTTATAAT
137237 TTAAATTAA-TTA-AAT
1 TTAAATTAAGTTATAAT
** *
137252 TTAAATTATTTTATTAT
1 TTAAATTAAGTTATAAT
137269 TTAAAT
1 TTAAAT
137275 AATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 11 0.32
16 6 0.18
17 17 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAATTAAGTTATAAT
Found at i:137258 original size:32 final size:33
Alignment explanation
Indices: 137220--137283 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
137210 TATTTATAGG
*
137220 TTAAATTAAGTTATAATTTAAATTA-ATTAAAT
1 TTAAATTAAGTTATAATTTAAATAATATTAAAT
** *
137252 TTAAATTATTTTATTATTTAAATAATATTAAA
1 TTAAATTAAGTTATAATTTAAATAATATTAAA
137284 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (33 bp):
TTAAATTAAGTTATAATTTAAATAATATTAAAT
Found at i:137332 original size:22 final size:21
Alignment explanation
Indices: 137283--137337 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
137273 ATAATATTAA
*
137283 AATATTTAAAAATTTTTTATT
1 AATATTTAAATATTTTTTATT
137304 AATATTTAAATATTTTTATAATT
1 AATATTTAAATATTTTT-T-ATT
137327 AA-ATTTAAATA
1 AATATTTAAATA
137338 AAAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 16 0.52
22 10 0.32
23 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTAAATATTTTTTATT
Found at i:138000 original size:19 final size:19
Alignment explanation
Indices: 137978--138033 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
137968 TATAATTTTT
137978 TAAATAATTTATATTTTAA
1 TAAATAATTTATATTTTAA
*
137997 TAAA-ATATTTATTAAATTTAA
1 TAAATA-ATTTA-T-ATTTTAA
138018 TAATATAA-TTATATTT
1 TAA-ATAATTTATATTT
138034 ATTATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 2 0.07
21 12 0.40
22 2 0.07
23 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATAATTTATATTTTAA
Found at i:139391 original size:14 final size:15
Alignment explanation
Indices: 139372--139404 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
139362 ATAAAATTTT
139372 TATTTTTAT-ATTAA
1 TATTTTTATAATTAA
139386 TATTTTTATAATTAA
1 TATTTTTATAATTAA
139401 -ATTT
1 TATTT
139405 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTATAATTAA
Found at i:139445 original size:17 final size:16
Alignment explanation
Indices: 139400--139446 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
139390 TTTATAATTA
139400 AATTTAAA-TAAAAAT
1 AATTTAAATTAAAAAT
139415 AATTTTTAATATTAAATAAT
1 AA--TTTAA-ATTAAA-AAT
139435 AATTTAAATTAA
1 AATTTAAATTAA
139447 TTTAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.07
17 10 0.37
18 6 0.22
19 4 0.15
20 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTAAATTAAAAAT
Found at i:140216 original size:27 final size:27
Alignment explanation
Indices: 140155--140217 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
140145 TGGACGAAGT
*
140155 TAAAAAAATTTATATTAAATATTAGAA
1 TAAAAAAATTTAAATTAAATATTAGAA
*
140182 TAAGAAAATTTAAATTTAAAT-TTA-AA
1 TAAAAAAATTTAAA-TTAAATATTAGAA
140208 TAATAAAAAT
1 TAA-AAAAAT
140218 AAATTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 5 0.16
27 20 0.65
28 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (27 bp):
TAAAAAAATTTAAATTAAATATTAGAA
Found at i:140389 original size:13 final size:13
Alignment explanation
Indices: 140371--140395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140361 TAAATTAAAT
140371 ATAAATTATTTTG
1 ATAAATTATTTTG
140384 ATAAATTATTTT
1 ATAAATTATTTT
140396 ATTTTTAAAT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATAAATTATTTTG
Found at i:140524 original size:3 final size:3
Alignment explanation
Indices: 140518--140558 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
140508 ATGAAGTGGA
140518 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
140559 GATGCACCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:141006 original size:15 final size:14
Alignment explanation
Indices: 140988--141042 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
140978 AAAAAATATT
140988 ATTTAATAAATTTAA
1 ATTT-ATAAATTTAA
141003 ATTTA-AAATTTAA
1 ATTTATAAATTTAA
* *
141016 TATTTATAATTTTTAT
1 -ATTTATAA-ATTTAA
141032 ATTTATAAATT
1 ATTTATAAATT
141043 ATGATGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 8 0.24
14 8 0.24
15 14 0.41
16 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATAAATTTAA
Done.