Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1357
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: 56754
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
File 1 of 2
Found at i:5947 original size:27 final size:26
Alignment explanation
Indices: 5901--5963 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
5891 TTTTTTAATT
5901 AAAA-TAAATTTTTAAAAAAAAAAAA
1 AAAATTAAATTTTTAAAAAAAAAAAA
**
5926 AATTTTAAATTTTTAAAAAAAAAAAAA
1 AAAATTAAATTTTT-AAAAAAAAAAAA
5953 AAAATTAAATT
1 AAAATTAAATT
5964 AAAAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.06
26 9 0.28
27 21 0.66
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAATTAAATTTTTAAAAAAAAAAAA
Found at i:5970 original size:27 final size:27
Alignment explanation
Indices: 5914--5970 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
5904 ATAAATTTTT
** ***
5914 AAAAAAAAAAAAAATTTTAAATTTTTA
1 AAAAAAAAAAAAAAAATTAAATTAAAA
5941 AAAAAAAAAAAAAAAATTAAATTAAAA
1 AAAAAAAAAAAAAAAATTAAATTAAAA
5968 AAA
1 AAA
5971 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAATTAAATTAAAA
Found at i:5980 original size:10 final size:11
Alignment explanation
Indices: 5962--5995 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5952 AAAAATTAAA
5962 TTAAAAAAATT
1 TTAAAAAAATT
*
5973 TTAAAAAAA-A
1 TTAAAAAAATT
5983 TTAAAAAAATT
1 TTAAAAAAATT
5994 TT
1 TT
5996 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:6030 original size:25 final size:25
Alignment explanation
Indices: 6002--6076 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 25
5992 TTTTTTTTTT
*
6002 TTAAATTTTTAAAAAAAAAAAAAAA
1 TTAAAATTTTAAAAAAAAAAAAAAA
**
6027 TTAAAAAATTTTAATTAAAAAAAAAAA
1 TT--AAAATTTTAAAAAAAAAAAAAAA
*
6054 -TAAAAATTTAAAAAAAAAAAAAA
1 TTAAAATTTTAAAAAAAAAAAAAA
6077 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
24 19 0.45
25 2 0.05
26 1 0.02
27 20 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
TTAAAATTTTAAAAAAAAAAAAAAA
Found at i:6039 original size:35 final size:35
Alignment explanation
Indices: 5914--6068 Score: 108
Period size: 35 Copynumber: 4.5 Consensus size: 35
5904 ATAAATTTTT
5914 AAAAAAAA--AAAAAATTTTAAATTTTTAAAAAAA
1 AAAAAAAATTAAAAAATTTTAAATTTTTAAAAAAA
* ** *
5947 AAAAAAAA--AATTAAATTAAAAAAATTTTAAAAAAA
1 AAAAAAAATTAA-AAAATT-TTAAATTTTTAAAAAAA
******
5982 ATTAAAAAAATTTTTTTTTTTTAAATTTTTAAAAAAA
1 A--AAAAAAATTAAAAAATTTTAAATTTTTAAAAAAA
*
6019 AAAAAAAATTAAAAAATTTT-AA--TTAAAAAAAA
1 AAAAAAAATTAAAAAATTTTAAATTTTTAAAAAAA
6051 AAATAAAAATTTAAAAAA
1 AAA-AAAAA-TTAAAAAA
6069 AAAAAAAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
32 12 0.13
33 15 0.16
34 15 0.16
35 28 0.29
37 22 0.23
38 3 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (35 bp):
AAAAAAAATTAAAAAATTTTAAATTTTTAAAAAAA
Found at i:6057 original size:26 final size:23
Alignment explanation
Indices: 6013--6077 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
6003 TAAATTTTTA
6013 AAAAAAAAAAAAAATTAAAAAATTTT
1 AAAAAAAAAAAAAA-T-AAAAA-TTT
*
6039 AATTAAAAAAAAAAATAAAAATTT
1 AA-AAAAAAAAAAAATAAAAATTT
6063 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
6078 TTTTTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 12 0.33
24 5 0.14
25 5 0.14
26 3 0.08
27 11 0.31
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAAAAAAAAAAAATAAAAATTT
Found at i:6079 original size:17 final size:18
Alignment explanation
Indices: 6045--6079 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6035 TTTTAATTAA
6045 AAAAAAAAATAAAAATTT
1 AAAAAAAAATAAAAATTT
6063 AAAAAAAAA-AAAAATTT
1 AAAAAAAAATAAAAATTT
6080 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAAAAAATAAAAATTT
Found at i:6091 original size:56 final size:54
Alignment explanation
Indices: 6031--6197 Score: 176
Period size: 56 Copynumber: 2.9 Consensus size: 54
6021 AAAAAATTAA
6031 AAAATTTTAATTAAAAAAAAAAATAAAAATTTAAAAAAAAAAAAAATTTTTTTTTT
1 AAAATTTTAATTAAAAAAAAAAA-AAAAA-TTAAAAAAAAAAAAAATTTTTTTTTT
* ** *
6087 AAAATATTGTTTAAAAAAAAAAAAAAAA--AAAAAAAAAAAATTTATTTTTTTTTTTT
1 AAAATTTTAATTAAAAAAAAAAAAAAAATTAAAAAAAAAAAA---A-ATTTTTTTTTT
6143 AAAATTTTTAATTTTAAAAAAAAAAAAAAGAAATTAAAAAATAAAAAAAATTTTT
1 AAAA-TTTTAA--TT-AAAAAAAAAAAAA-AAATTAAAAAA-AAAAAAAATTTTT
6198 AGATTTTAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
52 12 0.13
55 6 0.07
56 34 0.37
57 3 0.03
59 2 0.02
60 18 0.20
61 4 0.04
63 6 0.07
64 6 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (54 bp):
AAAATTTTAATTAAAAAAAAAAAAAAAATTAAAAAAAAAAAAAATTTTTTTTTT
Found at i:6103 original size:1 final size:1
Alignment explanation
Indices: 6099--6126 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6089 AATATTGTTT
6099 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
6127 TTTATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6181 original size:17 final size:17
Alignment explanation
Indices: 6160--6194 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6150 TTAATTTTAA
*
6160 AAAAAAAAAAAAGAAATT
1 AAAAAATAAAAA-AAATT
6178 AAAAAATAAAAAAAATT
1 AAAAAATAAAAAAAATT
6195 TTTAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAATAAAAAAAATT
Found at i:6239 original size:21 final size:20
Alignment explanation
Indices: 6213--6365 Score: 90
Period size: 18 Copynumber: 8.3 Consensus size: 20
6203 TTAAAAATTT
*
6213 AAAAAAATTAAATTTTTATAA
1 AAAAAAATTAAAATTTTA-AA
6234 AAAAAAATTAAAAATTTTAAA
1 AAAAAAATT-AAAATTTTAAA
6255 AAAAAAATT---A---T-AA
1 AAAAAAATTAAAATTTTAAA
6268 AAAAAAATTAAAA----AAA
1 AAAAAAATTAAAATTTTAAA
6284 AAAAAAA--AATAATTTTAAA
1 AAAAAAATTAA-AATTTTAAA
* * *
6303 AAAAAAA--AAATTTTTTAT
1 AAAAAAATTAAAATTTTAAA
*
6321 TAAAAAA--AAAATTTTAAA
1 AAAAAAATTAAAATTTTAAA
*
6339 AAAAAAA-AAAAATTTATAAA
1 AAAAAAATTAAAATTT-TAAA
6359 AAAAAAA
1 AAAAAAA
6366 AAAAAAAAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
13 11 0.10
14 3 0.03
15 2 0.02
16 10 0.09
17 1 0.01
18 26 0.23
19 19 0.17
20 11 0.10
21 20 0.18
22 8 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAAATTAAAATTTTAAA
Found at i:6269 original size:13 final size:13
Alignment explanation
Indices: 6243--6286 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
6233 AAAAAAAATT
*
6243 AAAAATTTTAAAAA
1 AAAAATTAT-AAAA
6257 AAAAATTATAAAA
1 AAAAATTATAAAA
6270 AAAAATTA-AAAA
1 AAAAATTATAAAA
6282 AAAAA
1 AAAAA
6287 AAAAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 9 0.31
13 12 0.41
14 8 0.28
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:6271 original size:34 final size:34
Alignment explanation
Indices: 6228--6376 Score: 132
Period size: 34 Copynumber: 4.4 Consensus size: 34
6218 AATTAAATTT
6228 TTATAAAAAAAAATTAAAAATTTTAAAAAAAAAA
1 TTATAAAAAAAAATTAAAAATTTTAAAAAAAAAA
***
6262 TTATAAAAAAAAATTAAAAA-AAAAAAAAAAATAA
1 TTATAAAAAAAAATTAAAAATTTTAAAAAAAA-AA
* *
6296 TTTTAAAAAAAAA--AAAATTTTTTATTAAAAAAAAAA
1 TTATAAAAAAAAATTAAAA---ATT-TTAAAAAAAAAA
* *
6332 TTTTAAAAAAAAA-AAAAAATTTATAAAAAAAAAA
1 TTATAAAAAAAAATTAAAAATTT-TAAAAAAAAAA
6366 --A-AAAAAAAAAT
1 TTATAAAAAAAAAT
6377 GTGGGAGCGG
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
31 9 0.09
32 4 0.04
33 9 0.09
34 47 0.49
36 15 0.16
37 12 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (34 bp):
TTATAAAAAAAAATTAAAAATTTTAAAAAAAAAA
Found at i:6364 original size:19 final size:19
Alignment explanation
Indices: 6252--6369 Score: 115
Period size: 18 Copynumber: 6.5 Consensus size: 19
6242 TAAAAATTTT
6252 AAAAAAAAAA-TTATAAAA
1 AAAAAAAAAATTTATAAAA
*
6270 AAAAATTAAAA---A-AAAA
1 AAAAA-AAAAATTTATAAAA
*
6286 AAAAAAATAATTT-TAAAA
1 AAAAAAAAAATTTATAAAA
* * **
6304 AAAAAAAAATTTTTTATTA
1 AAAAAAAAAATTTATAAAA
*
6323 AAAAAAAAATTTTA-AAAA
1 AAAAAAAAAATTTATAAAA
6341 AAAAAAAAAATTTATAAAA
1 AAAAAAAAAATTTATAAAA
6360 AAAAAAAAAA
1 AAAAAAAAAA
6370 AAAAAATGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
15 3 0.04
16 9 0.11
17 1 0.01
18 35 0.43
19 34 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAAAAATTTATAAAA
Found at i:6371 original size:21 final size:21
Alignment explanation
Indices: 6227--6331 Score: 68
Period size: 21 Copynumber: 4.8 Consensus size: 21
6217 AAATTAAATT
* *
6227 TTTATAAAAAAAAATTAAAAAT
1 TTTATAAAAAAAAA-AAAAAAA
*
6249 TTTAAAAAAAAAATTATAAAAAAAA
1 TTT-ATAAAAAAA--A-AAAAAAAA
* *
6274 ATTAAAAAAAAAAAAAAAATAA
1 TTTATAAAAAAAAAAAAAA-AA
***
6296 TTT-TAAAAAAAAAAAAATTT
1 TTTATAAAAAAAAAAAAAAAA
*
6316 TTTATTAAAAAAAAAA
1 TTTATAAAAAAAAAAA
6332 TTTTAAAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
20 3 0.04
21 30 0.45
22 8 0.12
23 8 0.12
24 9 0.13
25 8 0.12
26 1 0.01
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TTTATAAAAAAAAAAAAAAAA
Found at i:6473 original size:19 final size:19
Alignment explanation
Indices: 6451--6520 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
6441 AATTTTAATT
6451 AATTTTAAAAAAAAAAATA
1 AATTTTAAAAAAAAAAATA
6470 AATTTTAAAAAAATAAAA-A
1 AATTTTAAAAAAA-AAAATA
*
6489 AA----AAAAAAAATAATA
1 AATTTTAAAAAAAAAAATA
*
6504 AAATTTAAAAAAAAAAA
1 AATTTTAAAAAAAAAAA
6521 AATATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 3 0.07
15 10 0.23
19 26 0.60
20 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AATTTTAAAAAAAAAAATA
Found at i:6504 original size:34 final size:32
Alignment explanation
Indices: 6457--6768 Score: 147
Period size: 30 Copynumber: 9.1 Consensus size: 32
6447 AATTAATTTT
*
6457 AAAAAAAAAAATAAATTTTAAAAAAATAAAAAA
1 AAAAAAAAAAATAAAATTTAAAAAAA-AAAAAA
6490 AAAAAAAAATAATAAAATTTAAAAAAAAAAAAATATA
1 AAAAAAAAA-AATAAAATTT--AAAAAAAAAAA-A-A
*
6527 AAAATTAAAAAAAAAAAATTTAATTATTAAAAAATTTTATAAA
1 AAAA--AAAAAAATAAAATTTAA--A--AAAAAA----A-AAA
6570 AAAAAAAAAAATTAAAATTCTTTTTTAAAAAAAAAATTTTAAA
1 AAAAAAAAAAA-TAAAA------TTTAAAAAAAAAA----AAA
* **
6613 AAAAAAAAAAATAAAAATT--AAAATTAAAAA
1 AAAAAAAAAAATAAAATTTAAAAAAAAAAAAA
*** *
6643 AAAAAAAATTTTAAATTTTTAAAAAAAAAAAAA
1 AAAAAAAAAAATAAA-ATTTAAAAAAAAAAAAA
*
6676 AAAATAAAAAAA-AAAATTT--AAAAAAAAAAT
1 AAAA-AAAAAAATAAAATTTAAAAAAAAAAAAA
**
6706 TTAAAAAAAAAT--AATTTATAAAAAAAAAAAA
1 AAAAAAAAAAATAAAATTTA-AAAAAAAAAAAA
***
6737 ATTTAAAAAAA-AAAA-TTAAAAAAAAAAAAA
1 AAAAAAAAAAATAAAATTTAAAAAAAAAAAAA
6767 AA
1 AA
6769 TTTTTTAAAA
Statistics
Matches: 218, Mismatches: 25, Indels: 75
0.69 0.08 0.24
Matches are distributed among these distances:
28 5 0.02
29 7 0.03
30 40 0.18
31 23 0.11
32 5 0.02
33 25 0.11
34 19 0.09
35 4 0.02
36 12 0.06
37 5 0.02
38 10 0.05
39 5 0.02
40 7 0.03
41 7 0.03
42 9 0.04
43 20 0.09
44 8 0.04
45 1 0.00
46 1 0.00
48 5 0.02
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (32 bp):
AAAAAAAAAAATAAAATTTAAAAAAAAAAAAA
Found at i:6506 original size:24 final size:24
Alignment explanation
Indices: 6456--6544 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
6446 TAATTAATTT
* *
6456 TAAAAAAAAAAATAAATTTTAAAAAAA
1 TAAAAAAAAAAA-AAA--ATAATAAAA
6483 TAAAAAAAAAAAAAAATAATAAAA
1 TAAAAAAAAAAAAAAATAATAAAA
**
6507 TTTAAAAAAAAAAAAAT-ATAAAAA
1 TAAAAAAAAAAAAAAATAAT-AAAA
*
6531 TTAAAAAAAAAAAA
1 TAAAAAAAAAAAAA
6545 TTTAATTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.04
24 39 0.70
26 3 0.05
27 12 0.21
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (24 bp):
TAAAAAAAAAAAAAAATAATAAAA
Found at i:6517 original size:23 final size:24
Alignment explanation
Indices: 6459--6545 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 24
6449 TTAATTTTAA
* * *
6459 AAAAAAAAATAAATTTTAAAAAAATA
1 AAAAAAAAA-AAA-TATATAAAAATT
* *
6485 AAAAAAAAAAAAAATAATAAAATTT
1 AAAAAAAAAAAATAT-ATAAAAATT
6510 AAAAAAAAAAAA-ATATAAAAATT
1 AAAAAAAAAAAATATATAAAAATT
6533 AAAAAAAAAAAAT
1 AAAAAAAAAAAAT
6546 TTAATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 20 0.38
24 3 0.06
25 21 0.40
26 9 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAAAAAAAAATATATAAAAATT
Found at i:6544 original size:22 final size:22
Alignment explanation
Indices: 6487--6560 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
6477 AAAAAATAAA
*
6487 AAAAAAAAAAAATAATAAAATTT
1 AAAAAAAAAAAAT-ATAAAAATT
6510 AAAAAAAAAAAAATATAAAAATT
1 -AAAAAAAAAAAATATAAAAATT
* **
6533 AAAAAAAAAAAATTTAATTATT
1 AAAAAAAAAAAATATAAAAATT
6555 AAAAAA
1 AAAAAA
6561 TTTTATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 25 0.54
23 8 0.17
24 13 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAAAAAAATATAAAAATT
Found at i:6559 original size:43 final size:43
Alignment explanation
Indices: 6457--6648 Score: 137
Period size: 42 Copynumber: 4.8 Consensus size: 43
6447 AATTAATTTT
* *
6457 AAAAAAA-AAAA-TAAATT-TTAAAAAAATAAA-A-AAAAAAA
1 AAAAAAATAAAATTTAATTATTAAAAAAAAAAATATAAAAAAA
* *
6495 AAAATAATAAAATTT-A--A--AAAAAAAAAAATATAAAAATTA
1 AAAAAAATAAAATTTAATTATTAAAAAAAAAAATATAAAAA-AA
***
6534 AAAAAAA-AAAATTTAATTATT--AAAAAATTTTATAAAAAAA
1 AAAAAAATAAAATTTAATTATTAAAAAAAAAAATATAAAAAAA
* * *
6574 AAAAAAATTAAAATTCT--TTTTTAAAAAAAAAATTTTAAAAAAA
1 AAAAAAA-TAAAATT-TAATTATTAAAAAAAAAAATATAAAAAAA
* *
6617 AAAAAAATAAAAATTAA-AATTAAAAAAAAAAA
1 AAAAAAATAAAATTTAATTATTAAAAAAAAAAA
6649 AATTTTAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
36 10 0.08
37 1 0.01
38 18 0.15
39 13 0.11
40 9 0.08
41 20 0.17
42 24 0.20
43 24 0.20
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.24
Consensus pattern (43 bp):
AAAAAAATAAAATTTAATTATTAAAAAAAAAAATATAAAAAAA
Found at i:6560 original size:23 final size:22
Alignment explanation
Indices: 6486--6544 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 22
6476 AAAAAAATAA
6486 AAAAAAAAAAAAATAATAAAATTT
1 AAAAAAAAAAAAAT-ATAAAA-TT
6510 AAAAAAAAAAAAATATAAAAATT
1 AAAAAAAAAAAAATAT-AAAATT
6533 AAAAAAAAAAAA
1 AAAAAAAAAAAA
6545 TTTAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAAAAAAAAAAATATAAAATT
Found at i:6560 original size:24 final size:24
Alignment explanation
Indices: 6455--6560 Score: 83
Period size: 22 Copynumber: 4.3 Consensus size: 24
6445 TTAATTAATT
*
6455 TTAAAAAAAAAAATAAATTTTAAAAAA
1 TTAAAAAAAAAAA-AAA-TTT-AATAA
* *
6482 ATAAAAAAAAAAAAAA-ATAATAAAA
1 TTAAAAAAAAAAAAAATTTAAT--AA
* * *
6507 TTTAAAAAAAAAAAAATATAAAAA
1 TTAAAAAAAAAAAAAATTTAATAA
*
6531 TT--AAAAAAAAAAAATTTAATTA
1 TTAAAAAAAAAAAAAATTTAATAA
6553 TTAAAAAA
1 TTAAAAAA
6561 TTTTATAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
22 19 0.29
23 2 0.03
24 9 0.14
25 16 0.25
26 7 0.11
27 12 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (24 bp):
TTAAAAAAAAAAAAAATTTAATAA
Found at i:6574 original size:16 final size:16
Alignment explanation
Indices: 6526--6576 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
6516 AAAAAAATAT
6526 AAAAA-TTAA-AAAAA
1 AAAAATTTAATAAAAA
* **
6540 AAAAATTTAATTATTA
1 AAAAATTTAATAAAAA
*
6556 AAAAATTTTATAAAAA
1 AAAAATTTAATAAAAA
6572 AAAAA
1 AAAAA
6577 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 5 0.18
15 4 0.14
16 19 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATTTAATAAAAA
Found at i:6607 original size:99 final size:97
Alignment explanation
Indices: 6476--6753 Score: 269
Period size: 99 Copynumber: 2.8 Consensus size: 97
6466 AATAAATTTT
6476 AAAAAAATAAAAAAAAAAA---AAAATAATAAAATTTAAAAAAAAAAAAATATAAAAATTAAAAA
1 AAAAAAATAAAAAAAAAAATTTAAAA-AA-AAAATTTAAAAAAAAAAAAATATAAAAATTAAAAA
*** *
6538 AAAAAAATTTAATTATTAAAAAATTTT-ATAAAAAAA
64 AAAAAAAAAAAATT-TT--AAAATTTTAAAAAAAAAA
* ******
6574 AAAAAAATTAAAATTCTTTTTTAAAAAAAAAATTTTAAAAAAAAAAAAA-ATAAAAATTAAAATT
1 AAAAAAATAAAAAAAAAAATTTAAAAAAAAAA-TTTAAAAAAAAAAAAATATAAAAATTAAAA--
*
6638 AAAAAAAAAAAAATTTTAAATTTTTAAAAAAAAAA
63 AAAAAAAAAAAAATTTTAAAATTTTAAAAAAAAAA
** **
6673 AAAAAAATAAAAAAAAAAATTTAAAAAAAAAATTTAAAAAAAAATAATTTATAAAAAAAAAAAAA
1 AAAAAAATAAAAAAAAAAATTTAAAAAAAAAATTTAAAAAAAAA-AAAATATAAAAATTAAAAAA
6738 TTTAAAAAAAAAAATT
65 ---AAAAAAAAAAATT
6754 AAAAAAAAAA
Statistics
Matches: 145, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
98 33 0.23
99 52 0.36
100 31 0.21
101 29 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (97 bp):
AAAAAAATAAAAAAAAAAATTTAAAAAAAAAATTTAAAAAAAAAAAAATATAAAAATTAAAAAAA
AAAAAAAAAATTTTAAAATTTTAAAAAAAAAA
Found at i:6609 original size:15 final size:14
Alignment explanation
Indices: 6592--6763 Score: 90
Period size: 14 Copynumber: 12.0 Consensus size: 14
6582 TAAAATTCTT
6592 TTTTAAAAAAAAAA
1 TTTTAAAAAAAAAA
6606 TTTTAAAAAAAAAAA
1 TTTT-AAAAAAAAAA
*** *
6621 AAATAAAAATTAAAA
1 TTTTAAAAA-AAAAA
**
6636 TTAAAAAAAAAAAAA
1 TT-TTAAAAAAAAAA
6651 TTTTAAATTTTTAAAAAAA
1 TTTTAAA-----AAAAAAA
6670 ----AAAAAAAAAA
1 TTTTAAAAAAAAAA
6680 ---TAAAAAAAAAA
1 TTTTAAAAAAAAAA
*
6691 ATTTAAAAAAAAAA
1 TTTTAAAAAAAAAA
*
6705 TTTAAAAAAAAATAA
1 TTTTAAAAAAAA-AA
6720 TTTATAAAAAAAAAAAA
1 TTT-T--AAAAAAAAAA
*
6737 ATTTAAAAAAAAAA
1 TTTTAAAAAAAAAA
*
6751 -ATTAAAAAAAAAA
1 TTTTAAAAAAAAAA
6764 AAAAATTTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 33
0.73 0.09 0.19
Matches are distributed among these distances:
10 7 0.06
11 10 0.08
13 12 0.09
14 43 0.34
15 29 0.23
16 7 0.06
17 4 0.03
18 8 0.06
19 7 0.06
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
TTTTAAAAAAAAAA
Found at i:6645 original size:45 final size:42
Alignment explanation
Indices: 6484--6806 Score: 192
Period size: 44 Copynumber: 7.3 Consensus size: 42
6474 TTAAAAAAAT
* *
6484 AAAAAAAAAAAAAAATAATAAAATTTAAAAAAAAAAAAATATA
1 AAAAAAAAAAAAAAAAAATAAAA-TTAAAAAAAAAAAAATTTA
** ** ** *
6527 AAAATTAAAAAAAAAAAATTTAATT---ATTAAAAAATTTTA
1 AAAAAAAAAAAAAAAAAATAAAATTAAAAAAAAAAAAATTTA
**** ** *
6566 TAAAAAAAAAAAAAATTAAAATTCTTTTTTAAAAAAAAAATTTTA
1 -AAAAAAAAAAAAAA--AAAATAAAATTAAAAAAAAAAAAATTTA
6611 AAAAAAAAAAAAATAAAAATTAAAATTAAAAAAAAAAAAATTTTA
1 AAAAAAAAAAAAA-AAAAA-TAAAATTAAAAAAAAAAAAA-TTTA
***
6656 AATTTTTAAAAAAAAAAAAA-AAAA-T--AAAAAAAAAAATTTA
1 AA--AAAAAAAAAAAAAAAATAAAATTAAAAAAAAAAAAATTTA
**
6696 AAAAAAAAATTTAAAAAAAAATAATTTATAAAAAAAAAAAAATTTAAA
1 AAAAAAAAA---AAAAAAAAATAAAAT-TAAAAAAAAAAAAATTT--A
*
6744 AAAAAAAATTAAAAAAAAAAAAAAATTTTTTAAAAACAATAAAAAATTTA
1 AAAAAAAA--AAAAAAAAAATAAAA----TTAAAAA-AA-AAAAAATTTA
6794 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
6807 CTTTTTATTT
Statistics
Matches: 217, Mismatches: 34, Indels: 53
0.71 0.11 0.17
Matches are distributed among these distances:
38 4 0.02
39 10 0.05
40 18 0.08
41 20 0.09
42 12 0.06
43 23 0.11
44 31 0.14
45 19 0.09
46 19 0.09
47 19 0.09
48 14 0.06
50 16 0.07
51 3 0.01
52 9 0.04
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.24
Consensus pattern (42 bp):
AAAAAAAAAAAAAAAAAATAAAATTAAAAAAAAAAAAATTTA
Found at i:6670 original size:70 final size:68
Alignment explanation
Indices: 6568--6763 Score: 182
Period size: 69 Copynumber: 3.0 Consensus size: 68
6558 AAATTTTATA
* ** * *
6568 AAAAAAAAAAAAATTAAAATTCTTTTTTAAAAAAAAAATTTTAAAAAAAAAAAAAA-TAAAAATT
1 AAAAAAAAAAAAATTTAAA-T-TTTTAAAAAAAAAAAAATTTAAAAAAAAAAAAAATTAAAAA-A
6632 AAAATT
63 AAAATT
*
6638 AAAAAAAAAAAAATTTTAAATTTTTAAAAAAAAAAAAA--AAAATAAAAAAAAAAATTTAAAAAA
1 AAAAAAAAAAAAA-TTTAAATTTTTAAAAAAAAAAAAATTTAAA-AAAAAAAAAAA-TTAAAAAA
6701 AAAATT
63 AAAATT
* *
6707 ---TAAAAAAAAA--T-AATTTATAAAAAAAAAAAAATTT---AAAAAAAAAAATTAAAAAAAAA
1 AAAAAAAAAAAAATTTAAATTTTTAAAAAAAAAAAAATTTAAAAAAAAAAAAAATTAAAAAAAAA
6763 A
66 A
6764 AAAAATTTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
59 12 0.11
60 11 0.10
62 19 0.17
63 1 0.01
66 9 0.08
67 3 0.03
68 11 0.10
69 20 0.18
70 20 0.18
71 5 0.05
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.23
Consensus pattern (68 bp):
AAAAAAAAAAAAATTTAAATTTTTAAAAAAAAAAAAATTTAAAAAAAAAAAAAATTAAAAAAAAA
ATT
Found at i:6684 original size:13 final size:13
Alignment explanation
Indices: 6663--6765 Score: 91
Period size: 13 Copynumber: 7.4 Consensus size: 13
6653 TTAAATTTTT
6663 AAAAA-AAAAAAA
1 AAAAATAAAAAAA
6675 AAAAATAAAAAAA
1 AAAAATAAAAAAA
*
6688 AAAATTTAAAAAAA
1 AAAA-ATAAAAAAA
**
6702 AAATTTAAAAAAA
1 AAAAATAAAAAAA
6715 AATAATTTATAAAAAAAA
1 AA-AA---AT-AAAAAAA
6733 AAAAATTTAAAAAAA
1 AAAAA--TAAAAAAA
*
6748 AAAATTAAAAAAA
1 AAAAATAAAAAAA
6761 AAAAA
1 AAAAA
6766 AAATTTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
12 5 0.07
13 34 0.45
14 13 0.17
15 11 0.14
16 1 0.01
17 3 0.04
18 9 0.12
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:6751 original size:52 final size:50
Alignment explanation
Indices: 6686--6806 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
6676 AAAATAAAAA
*** *
6686 AAAAAATTT--AAAAAAAAAATTTAAAAAAAAATAATTTATAAAAA-AA-
1 AAAAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAATTTATAAAAACAAT
* *
6732 AAAAAATTTAAAAAAAAAAATTAAAAAAAAAAAAAAATTTTTTAAAAACAAT
1 AAAAAATTTAAAAAAAAAAA--AAAAAAAAAAAAAAAATTTATAAAAACAAT
6784 AAAAAATTTAAAAAAAAAAAAAA
1 AAAAAATTTAAAAAAAAAAAAAA
6807 CTTTTTATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
46 9 0.14
48 9 0.14
50 23 0.37
51 2 0.03
52 20 0.32
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (50 bp):
AAAAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAATTTATAAAAACAAT
Found at i:6769 original size:31 final size:33
Alignment explanation
Indices: 6695--6806 Score: 138
Period size: 33 Copynumber: 3.3 Consensus size: 33
6685 AAAAAAATTT
*
6695 AAAAAAAAAATTTAAAAAAAAATAATTTATAAA
1 AAAAAAAAAATTTAAAAAAAAATAATTTAAAAA
6728 AAAAAAAAAATTTAAAAAAAAA-AA-TTAAAAA
1 AAAAAAAAAATTTAAAAAAAAATAATTTAAAAA
*
6759 AAAAAAAAAATTTTTTAAAAACAATAAAAAATTTAAAAA
1 AAAAAAAAAA---TTT-AAAA-AA-AAATAATTTAAAAA
6798 AAAAAAAAA
1 AAAAAAAAA
6807 CTTTTTATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
31 16 0.23
32 2 0.03
33 22 0.31
34 3 0.04
35 4 0.06
36 2 0.03
37 3 0.04
38 2 0.03
39 16 0.23
ACGTcount: A:0.79, C:0.01, G:0.00, T:0.21
Consensus pattern (33 bp):
AAAAAAAAAATTTAAAAAAAAATAATTTAAAAA
Found at i:6788 original size:1 final size:1
Alignment explanation
Indices: 6663--6768 Score: 59
Period size: 1 Copynumber: 106.0 Consensus size: 1
6653 TTAAATTTTT
* *** *** * *** *
6663 AAAAAAAAAAAAAAAAATAAAAAAAAAAATTTAAAAAAAAAATTTAAAAAAAAATAATTTATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*** **
6728 AAAAAAAAAATTTAAAAAAAAAAATTAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6769 TTTTTTAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (1 bp):
A
Found at i:6824 original size:39 final size:38
Alignment explanation
Indices: 6738--6825 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
6728 AAAAAAAAAA
6738 TTTAAAA-AAAAAAATTAAAAAAAAAAAAAAATTTTTT
1 TTTAAAATAAAAAAATTAAAAAAAAAAAAAAATTTTTT
*** * *
6775 AAAAACAATAAAAAATTTAAAAAAAAAAAAAACTTTTTAT
1 TTTAA-AATAAAAAAATTAAAAAAAAAAAAAAATTTTT-T
6815 TTTAAAATAAA
1 TTTAAAATAAA
6826 TTTTTTATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
37 2 0.05
38 2 0.05
39 33 0.82
40 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.28
Consensus pattern (38 bp):
TTTAAAATAAAAAAATTAAAAAAAAAAAAAAATTTTTT
Found at i:6861 original size:19 final size:19
Alignment explanation
Indices: 6837--6893 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
6827 TTTTTATTAA
6837 ATTAAAAAAAAAAAAAAAC
1 ATTAAAAAAAAAAAAAAAC
** *
6856 ATTAAATTTTAAAAAAAAAAT
1 ATTAAA--AAAAAAAAAAAAC
*
6877 AATAAAATAAAAAAAAA
1 ATTAAAA-AAAAAAAAA
6894 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 6 0.21
20 8 0.28
21 15 0.52
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (19 bp):
ATTAAAAAAAAAAAAAAAC
Found at i:6890 original size:21 final size:21
Alignment explanation
Indices: 6843--6893 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
6833 TTAAATTAAA
* *
6843 AAAAAAAAAAAACATTAAATT
1 AAAAAAAAAAAACAATAAAAT
** *
6864 TTAAAAAAAAAATAATAAAAT
1 AAAAAAAAAAAACAATAAAAT
6885 AAAAAAAAA
1 AAAAAAAAA
6894 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAAAAAAAACAATAAAAT
Found at i:6902 original size:19 final size:18
Alignment explanation
Indices: 6835--6902 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
6825 ATTTTTTATT
*
6835 AAATTAAAAAAAAAAAAA
1 AAATTAAAAAATAAAAAA
***
6853 AACATTAAATTTTAAAAAA
1 AA-ATTAAAAAATAAAAAA
*
6872 AAAATAATAAAATAAAAAA
1 AAATTAA-AAAATAAAAAA
6891 AAATTTAAAAAA
1 AAA-TTAAAAAA
6903 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 6 0.16
19 29 0.76
20 3 0.08
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATTAAAAAATAAAAAA
Found at i:6944 original size:15 final size:16
Alignment explanation
Indices: 6924--6964 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
6914 TTTATTTTAT
6924 AAAAAAAA-TTAATAA
1 AAAAAAAATTTAATAA
6939 AAAAAAAATTTTTAATAA
1 AAAAAAAA--TTTAATAA
6957 AAAAAAAA
1 AAAAAAAA
6965 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
18 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAAAATTTAATAA
Found at i:6952 original size:30 final size:28
Alignment explanation
Indices: 6918--6987 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 28
6908 AAAATTTTTA
6918 TTTTATAAAAAAAATTAATAAAAA-AAAAAT
1 TTTTATAAAAAAAA--AA-AAAAATAAAAAT
6948 TTTTAATAAAAAAAAAAAAAAATAAAAAT
1 TTTT-ATAAAAAAAAAAAAAAATAAAAAT
6977 TTTT-TAAAAAA
1 TTTTATAAAAAA
6988 TTTTTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 7 0.18
28 5 0.13
29 12 0.32
30 4 0.11
31 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (28 bp):
TTTTATAAAAAAAAAAAAAAATAAAAAT
Found at i:6984 original size:11 final size:11
Alignment explanation
Indices: 6970--7004 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6960 AAAAAAAAAA
*
6970 TAAAAATTTTT
1 TAAAAAATTTT
6981 TAAAAAATTTT
1 TAAAAAATTTT
6992 TAAAAAAATTTT
1 T-AAAAAATTTT
7004 T
1 T
7005 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAAAATTTT
Found at i:6986 original size:12 final size:12
Alignment explanation
Indices: 6971--7005 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
6961 AAAAAAAAAT
6971 AAAAATTTTTTA
1 AAAAATTTTTTA
*
6983 AAAAATTTTTAA
1 AAAAATTTTTTA
6995 AAAAATTTTTT
1 AAAAATTTTTT
7006 TTTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAAAATTTTTTA
Found at i:7095 original size:13 final size:12
Alignment explanation
Indices: 7079--7131 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 12
7069 AAAAAAAAAT
*
7079 AAAAATTTTACA
1 AAAAATTTTAAA
7091 AAAAATTTTATATA
1 AAAAATTTTA-A-A
7105 AAAAATTTTTAAA
1 AAAAA-TTTTAAA
7118 AAATAATTTTAAA
1 AAA-AATTTTAAA
7131 A
1 A
7132 TTTAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 10 0.28
13 12 0.33
14 9 0.25
15 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAAATTTTAAA
Found at i:7109 original size:14 final size:14
Alignment explanation
Indices: 7090--7128 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
7080 AAAATTTTAC
*
7090 AAAAAATTTTATAT
1 AAAAAATTTTATAA
7104 AAAAAATTTT-TAA
1 AAAAAATTTTATAA
7117 AAAATAATTTTA
1 AAAA-AATTTTA
7129 AAATTTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAAATTTTATAA
Found at i:7160 original size:15 final size:15
Alignment explanation
Indices: 7142--7181 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7132 TTTAAGAAAA
*
7142 AAAAATTATTTTTTT
1 AAAAATTATTTTTTG
*
7157 AAAAA-AATTTTTTG
1 AAAAATTATTTTTTG
7171 AAAAATTATTT
1 AAAAATTATTT
7182 AGTTTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
AAAAATTATTTTTTG
Found at i:7257 original size:13 final size:12
Alignment explanation
Indices: 7227--7256 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7217 TAAAAAAAAT
7227 AAAAAATTTTTA
1 AAAAAATTTTTA
7239 AAAAAATTTTTA
1 AAAAAATTTTTA
7251 AAAAAA
1 AAAAAA
7257 AAATGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAAATTTTTA
Found at i:7258 original size:33 final size:34
Alignment explanation
Indices: 7191--7257 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
7181 TAGTTTTATT
*
7191 TAAAAAATTTTTTTAGAAAAATTTAATAAAAAAAA
1 TAAAAAA-TTTTTTAAAAAAATTTAATAAAAAAAA
*
7226 TAAAAAA-TTTTTAAAAAAATTT-TTAAAAAAAA
1 TAAAAAATTTTTTAAAAAAATTTAATAAAAAAAA
7258 AATGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 9 0.30
33 14 0.47
35 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (34 bp):
TAAAAAATTTTTTAAAAAAATTTAATAAAAAAAA
Found at i:7258 original size:35 final size:34
Alignment explanation
Indices: 7191--7260 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
7181 TAGTTTTATT
* *
7191 TAAAAAATTTTTTTAGAAAAATTTAATAAAAAAAA
1 TAAAAAA-TTTTTTAAAAAAATTTAAAAAAAAAAA
*
7226 TAAAAAA-TTTTTAAAAAAATTTTTAAAAAAAAAA
1 TAAAAAATTTTTTAAAAAAA-TTTAAAAAAAAAAA
7260 T
1 T
7261 GTTTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 11 0.35
34 13 0.42
35 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (34 bp):
TAAAAAATTTTTTAAAAAAATTTAAAAAAAAAAA
Found at i:7371 original size:15 final size:15
Alignment explanation
Indices: 7353--7443 Score: 105
Period size: 15 Copynumber: 6.1 Consensus size: 15
7343 TAATTTTTAT
7353 AAAAATAAAAAAAAA
1 AAAAATAAAAAAAAA
7368 AAAAA-AAAAAAAAA
1 AAAAATAAAAAAAAA
*
7382 AAAAA-AAAATTAAAAT
1 AAAAATAAAA--AAAAA
7398 AAAAATAAAAAAAAA
1 AAAAATAAAAAAAAA
*
7413 AAAATTAAAAAAAAA
1 AAAAATAAAAAAAAA
***
7428 AATTTTAAAAAAAAA
1 AAAAATAAAAAAAAA
7443 A
1 A
7444 TTTTTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
14 18 0.26
15 37 0.54
16 9 0.13
17 4 0.06
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAAAAA
Found at i:7397 original size:39 final size:39
Alignment explanation
Indices: 7354--7431 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
7344 AATTTTTATA
7354 AAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATT
1 AAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATT
* **
7393 AAAATAAAAATAAAAAAAAAAAAATTAAAAAAAAAAATT
1 AAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATT
7432 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (39 bp):
AAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATT
Found at i:7443 original size:1 final size:1
Alignment explanation
Indices: 7353--7429 Score: 91
Period size: 1 Copynumber: 77.0 Consensus size: 1
7343 TAATTTTTAT
* ** * * *
7353 AAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTAAAATAAAAATAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
7418 TAAAAAAAAAAA
1 AAAAAAAAAAAA
7430 TTTTAAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (1 bp):
A
Found at i:7447 original size:14 final size:14
Alignment explanation
Indices: 7365--7446 Score: 78
Period size: 14 Copynumber: 6.0 Consensus size: 14
7355 AAATAAAAAA
***
7365 AAAAAAAAAAAAAA
1 AAAAAAAAAAATTT
*
7379 AAAAAAAAAAAATT
1 AAAAAAAAAAATTT
* *
7393 -AAAATAAAAA-TA
1 AAAAAAAAAAATTT
*
7405 AAAAAAAAAAAATT
1 AAAAAAAAAAATTT
7419 AAAAAAAAAAATTT
1 AAAAAAAAAAATTT
*
7433 TAAAAAAAAAATTT
1 AAAAAAAAAAATTT
7447 TTTTTTTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 1 0.02
13 18 0.31
14 39 0.67
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAAAAAATTT
Found at i:7534 original size:21 final size:21
Alignment explanation
Indices: 7509--7548 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7499 TTATAAAAAA
*
7509 TTAAAAAAAAAATTTTTTTTT
1 TTAAAAAAAAAAATTTTTTTT
7530 TTAAAAAAAAAAATTTTTT
1 TTAAAAAAAAAAATTTTTT
7549 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAAAAAAAATTTTTTTT
Found at i:7540 original size:33 final size:33
Alignment explanation
Indices: 7471--7541 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
7461 AAAAATTTTT
** ** *
7471 AAAAATTAAAAAAATTTTTTATTTTTTTTTATA
1 AAAAATTAAAAAAAAATTTTATTTTTTTAAAAA
7504 AAAAATTAAAAAAAAAATTTT-TTTTTTTAAAAA
1 AAAAATT-AAAAAAAAATTTTATTTTTTTAAAAA
7537 AAAAA
1 AAAAA
7542 ATTTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
AAAAATTAAAAAAAAATTTTATTTTTTTAAAAA
Found at i:7546 original size:17 final size:17
Alignment explanation
Indices: 7526--7559 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7516 AAAAATTTTT
7526 TTTTTTAAAAAAAAAAA
1 TTTTTTAAAAAAAAAAA
7543 TTTTTTAAAAAAAAAAA
1 TTTTTTAAAAAAAAAAA
7560 AAAAAAAAAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTTTTAAAAAAAAAAA
Found at i:7636 original size:18 final size:18
Alignment explanation
Indices: 7615--7767 Score: 63
Period size: 18 Copynumber: 8.7 Consensus size: 18
7605 TAATTATTTT
7615 AAAAAAAAAAATT--AAA
1 AAAAAAAAAAATTAAAAA
*
7631 AAAAAAAAGAA--AAAAA
1 AAAAAAAAAAATTAAAAA
*
7647 AAAAAAAAATATTAAAAA
1 AAAAAAAAAAATTAAAAA
** **** **
7665 AATTAAATTTTTTTTAAA
1 AAAAAAAAAAATTAAAAA
*
7683 AAAAAAATAAATT----A
1 AAAAAAAAAAATTAAAAA
**
7697 -AAAAAAAAGTTTAAAAA
1 AAAAAAAAAAATTAAAAA
**
7714 AAAAAAAAATTTTAAAAAAAA
1 AAAAAAAAAAATT---AAAAA
7735 AAAAAAAAAAATTATAAAA
1 AAAAAAAAAAATTA-AAAA
7754 AAAATAAAAAAATT
1 AAAA-AAAAAAATT
7768 TAAATTTTTT
Statistics
Matches: 102, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
13 9 0.09
14 1 0.01
16 22 0.22
17 1 0.01
18 36 0.35
19 8 0.08
20 9 0.09
21 16 0.16
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (18 bp):
AAAAAAAAAAATTAAAAA
Found at i:7663 original size:13 final size:12
Alignment explanation
Indices: 7616--7765 Score: 57
Period size: 12 Copynumber: 12.6 Consensus size: 12
7606 AATTATTTTA
7616 AAAAAAAAAATT
1 AAAAAAAAAATT
7628 AAAAAAAAAA--
1 AAAAAAAAAATT
*
7638 AGAAAAAAAA--
1 AAAAAAAAAATT
*
7648 AAAAAAAATATT
1 AAAAAAAAAATT
7660 AAAAAAATTAAATT
1 AAAAAAA--AAATT
******
7674 TTTTTTAAAA--
1 AAAAAAAAAATT
*
7684 AAAAAATAAATT
1 AAAAAAAAAATT
*
7696 AAAAAAAAAGTTT
1 AAAAAAAAA-ATT
7709 AAAAAAAAAAAAAATTT
1 ---A-AAAAAAAAA-TT
*
7726 TAAAAAAAAA--
1 AAAAAAAAAATT
7736 AAAAAAAAAATT
1 AAAAAAAAAATT
*
7748 ATAAAAAAAA-T
1 AAAAAAAAAATT
7759 AAAAAAA
1 AAAAAAA
7766 TTTAAATTTT
Statistics
Matches: 100, Mismatches: 24, Indels: 29
0.65 0.16 0.19
Matches are distributed among these distances:
10 29 0.29
11 7 0.07
12 37 0.37
13 11 0.11
14 5 0.05
16 1 0.01
17 10 0.10
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:7666 original size:1 final size:1
Alignment explanation
Indices: 7615--7655 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
7605 TAATTATTTT
** *
7615 AAAAAAAAAAATTAAAAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7656 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:7672 original size:67 final size:66
Alignment explanation
Indices: 7606--7733 Score: 179
Period size: 67 Copynumber: 2.0 Consensus size: 66
7596 TTTAATAAAT
* *
7606 AATTATTTTAAAAAAAAAAATTAA-AAAAAAAAAG-AAAAAAAAAAAAAAAATATTAAAAAAATT
1 AATTTTTTTAAAAAAAAAAATAAATAAAAAAAAAGTAAAAAAAAAAAAAAAATATTAAAAAAATT
7669 A
66 A
* ** *
7670 AATTTTTTTTAAAAAAAAAATAAATTAAAAAAAAAGTTTAAAAAAAAAAAAAATTTTAAAAAAA
1 AATTTTTTTAAAAAAAAAAATAAA-TAAAAAAAAAGTAAAAAAAAAAAAAAAATATTAAAAAAA
7734 AAAAAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 21 0.38
66 10 0.18
67 24 0.44
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (66 bp):
AATTTTTTTAAAAAAAAAAATAAATAAAAAAAAAGTAAAAAAAAAAAAAAAATATTAAAAAAATT
A
Found at i:7690 original size:99 final size:101
Alignment explanation
Indices: 7615--7807 Score: 274
Period size: 99 Copynumber: 1.9 Consensus size: 101
7605 TAATTATTTT
7615 AAAAAAAAAAA-TTAAAAAAAAAAAGAAAAAAAA-A-AAAAAAATATTAAAAAAA-TTAAATTTT
1 AAAAAAAAAAATTTAAAAAAAAAAA-AAAAAAAATATAAAAAAA-A-TAAAAAAATTTAAATTTT
7676 TTTT-AAAAAAAAAA-TA-AATTAAAAAAAAAGTTTAAA
63 TTTTAAAAAAAAAAATTATAATTAAAAAAAAAGTTTAAA
7712 AAAAAAAAAAATTTTAAAAAAAAAAAAAAAAAAATTATAAAAAAAATAAAAAAATTTAAATTTTT
1 AAAAAAAAAAA-TTTAAAAAAAAAAAAAAAAAAA-TATAAAAAAAATAAAAAAATTTAAATTTTT
**
7777 TTTAAAAAAAAAAATTATAAAAAAAAAAAAA
64 TTTAAAAAAAAAAATTATAATTAAAAAAAAA
7808 AAAAAAAAAA
Statistics
Matches: 85, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
97 11 0.13
98 8 0.09
99 21 0.25
100 15 0.18
101 17 0.20
102 2 0.02
103 11 0.13
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (101 bp):
AAAAAAAAAAATTTAAAAAAAAAAAAAAAAAAATATAAAAAAAATAAAAAAATTTAAATTTTTTT
TAAAAAAAAAAATTATAATTAAAAAAAAAGTTTAAA
Found at i:7703 original size:20 final size:20
Alignment explanation
Indices: 7696--7767 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
7686 AAAATAAATT
* *
7696 AAAAAAAAAGTT-TAAAAAA
1 AAAAAAAAAATTAAAAAAAA
**
7715 AAAAAAAATTTTAAAAAAAAA
1 AAAAAAAAAATT-AAAAAAAA
*
7736 AAAAAAAAAATTATAAAAAA
1 AAAAAAAAAATTAAAAAAAA
*
7756 AATAAAAAAATT
1 AAAAAAAAAATT
7768 TAAATTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.23
20 18 0.41
21 16 0.36
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (20 bp):
AAAAAAAAAATTAAAAAAAA
Found at i:7712 original size:23 final size:22
Alignment explanation
Indices: 7685--7765 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
7675 TTTTTAAAAA
*
7685 AAAAATAAATTAAAAAAAAAGTTT
1 AAAAA-AAA-TAAAAAAAAAATTT
*
7709 ---AAAAA-AAAAAAAAATTTT
1 AAAAAAAATAAAAAAAAAATTT
*
7727 AAAAAAAAAAAAAAAAAAATTAT
1 AAAAAAAATAAAAAAAAAATT-T
7750 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
7766 TTTAAATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
18 12 0.24
20 3 0.06
21 7 0.14
22 11 0.22
23 16 0.33
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.17
Consensus pattern (22 bp):
AAAAAAAATAAAAAAAAAATTT
Found at i:7720 original size:21 final size:20
Alignment explanation
Indices: 7696--7771 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 20
7686 AAAATAAATT
*
7696 AAAAAAAAAGTTT--AAAAA
1 AAAAAAAAAATTTAAAAAAA
*
7714 AAAAAAAAATTTTAAAAAAAA
1 AAAAAAAAAATTT-AAAAAAA
*
7735 AAAAAAAAAAATTATAAAAAA
1 AAAAAAAAAATTTA-AAAAAA
*
7756 AATAAAAAAATTTAAA
1 AAAAAAAAAATTTAAA
7772 TTTTTTTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 12 0.24
20 3 0.06
21 34 0.69
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.18
Consensus pattern (20 bp):
AAAAAAAAAATTTAAAAAAA
Found at i:7754 original size:68 final size:67
Alignment explanation
Indices: 7682--7813 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 67
7672 TTTTTTTTAA
*
7682 AAAAAAAATAAATTAAAA-AAAAAGTTTAAAAAAAAAAAAAATTTTAAAAAAAAAAAAAAAAAAA
1 AAAAAAAATAAA--AAAATAAAAAGTTTAAAAAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAA
7746 TTAT
64 TTAT
* ** ***
7750 AAAAAAAATAAAAAAATTTAAATTTTTTTTAAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAA
1 AAAAAAAATAAAAAAA-TAAAAAGTTTAAAAAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAA
7814 AAAATTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 4 0.07
68 51 0.93
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (67 bp):
AAAAAAAATAAAAAAATAAAAAGTTTAAAAAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAATT
AT
Found at i:7822 original size:45 final size:44
Alignment explanation
Indices: 7735--7827 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
7725 TTAAAAAAAA
*** **
7735 AAAAAAAAAAATTATAAAAAAAATAAAAAAATTTAAATTTTTTTT
1 AAAAAAAAAAATTATAAAAAAAA-AAAAAAAAAAAAAAATTTTTT
7780 AAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAAAAAATTTTTT
1 AAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAAAAAATTTTTT
7824 AAAA
1 AAAA
7828 TTTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.47
45 23 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (44 bp):
AAAAAAAAAAATTATAAAAAAAAAAAAAAAAAAAAAAATTTTTT
Found at i:7908 original size:1 final size:1
Alignment explanation
Indices: 7860--7888 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
7850 CTGGTGGGGG
7860 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7889 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7999 original size:22 final size:22
Alignment explanation
Indices: 7971--8072 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 22
7961 AAAAAAAATT
**
7971 AAAAAAAAAAAAAAATTTTTTA
1 AAAAAAAAAAAAAAAAATTTTA
*
7993 AAAAAAAATAAAAAAAAAATTTA
1 AAAAAAAA-AAAAAAAAATTTTA
*
8016 AAAAAAAAATAAAAAAAA-TTAA
1 AAAAAAAAA-AAAAAAAATTTTA
*
8038 ACAAATAAAAAAAAAAAATTATTTTT
1 A-AAA-AAAAAAAAAAAA--ATTTTA
8064 AAAAAAAAA
1 AAAAAAAAA
8073 TTTTTTTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
22 13 0.19
23 37 0.55
24 10 0.15
25 4 0.06
26 3 0.04
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAATTTTA
Found at i:8049 original size:43 final size:43
Alignment explanation
Indices: 7961--8058 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 43
7951 AATGTTTAAT
***
7961 AAAAAAAATTAAAAAAAAAAAAAAATTTTTTAAAAAAAAATAA
1 AAAAAAAATTAAAAAAAAAAAAAAATAAATTAAAAAAAAATAA
*
8004 AAAAAAAATTTAAAAAAAAAATAAAAA-AAATTAAACAAATAA-AA
1 AAAAAAAA-TTAAAAAAAAAA-AAAAATAAATTAAA-AAAAAATAA
8048 AAAAAAAATTA
1 AAAAAAAATTA
8059 TTTTTAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
43 11 0.23
44 27 0.56
45 10 0.21
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (43 bp):
AAAAAAAATTAAAAAAAAAAAAAAATAAATTAAAAAAAAATAA
Found at i:8067 original size:17 final size:16
Alignment explanation
Indices: 8047--8082 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
8037 AACAAATAAA
8047 AAAAAAAAATTATTTTT
1 AAAAAAAAATT-TTTTT
8064 AAAAAAAAATTTTTTT
1 AAAAAAAAATTTTTTT
8080 AAA
1 AAA
8083 TTGTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAAAAATTTTTTT
Found at i:8069 original size:14 final size:14
Alignment explanation
Indices: 8049--8178 Score: 67
Period size: 14 Copynumber: 9.6 Consensus size: 14
8039 CAAATAAAAA
8049 AAAAAAATTATTTTT
1 AAAAAAA-TATTTTT
*
8064 AAAAAAAAATTTTT
1 AAAAAAATATTTTT
** * * *
8078 -TTAAATTGTTTTA
1 AAAAAAATATTTTT
8091 AAAAAAATA-TTTT
1 AAAAAAATATTTTT
***
8104 AAAAAAA-A--AAA
1 AAAAAAATATTTTT
*
8115 AAAAAAATTTTTATT
1 AAAAAAATATTT-TT
8130 AATAAAAA-A-TTTT
1 AA-AAAAATATTTTT
*
8143 AAAAAAATTTTTTT
1 AAAAAAATATTTTT
* *
8157 TAAAAATTATTTTT
1 AAAAAAATATTTTT
8171 AAAAAAAT
1 AAAAAAAT
8179 TAAAAAAAAA
Statistics
Matches: 81, Mismatches: 26, Indels: 17
0.65 0.21 0.14
Matches are distributed among these distances:
11 7 0.09
12 6 0.07
13 21 0.26
14 33 0.41
15 9 0.11
16 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (14 bp):
AAAAAAATATTTTT
Found at i:8146 original size:28 final size:28
Alignment explanation
Indices: 8115--8179 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
8105 AAAAAAAAAA
8115 AAAAAAATTTTTATTAATAAA-AAATTTT
1 AAAAAAATTTTTATTAA-AAATAAATTTT
* * *
8143 AAAAAAATTTTTTTTAAAAATTATTTTT
1 AAAAAAATTTTTATTAAAAATAAATTTT
8171 AAAAAAATT
1 AAAAAAATT
8180 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAAAATTTTTATTAAAAATAAATTTT
Found at i:8159 original size:15 final size:15
Alignment explanation
Indices: 8115--8180 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 15
8105 AAAAAAAAAA
8115 AAAAAAATT-TTTATT
1 AAAAAAATTATTT-TT
8130 AATAAAAA--A-TTTT
1 AA-AAAAATTATTTTT
8143 AAAAAAATT-TTTTT
1 AAAAAAATTATTTTT
*
8157 -TAAAAATTATTTTT
1 AAAAAAATTATTTTT
8171 AAAAAAATTA
1 AAAAAAATTA
8181 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
12 5 0.12
13 11 0.26
14 11 0.26
15 10 0.24
16 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAAAAATTATTTTT
Found at i:8162 original size:66 final size:67
Alignment explanation
Indices: 8034--8190 Score: 176
Period size: 66 Copynumber: 2.3 Consensus size: 67
8024 ATAAAAAAAA
***
8034 TTAAACAAATAAAAAAAAAAAATTATTTTTAAAAAAAAATTTTTTTAAATTGTTTTAAAAAAAAT
1 TTAAA-AAA-AAAAAAAAAAAATTATTTTTAAAAAAAAATTTTAAAAAATTGTTTTAAAAAAAAT
8099 A-TT
64 ATTT
* ** *
8102 TTAAAAAAAAAAAAAAAAAATT-TTTATTAATAAAAAATTTTAAAAAAATT-TTTTTTAAAAATT
1 TTAAAAAAAAAAAAAAAAAATTATTT-TTAAAAAAAAATTTT-AAAAAATTGTTTTAAAAAAAAT
8165 ATTT
64 ATTT
8169 TTAAAAAAATTAAAAAAAAAAA
1 TTAAAAAAA--AAAAAAAAAAA
8191 AAAAATTTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
65 3 0.04
66 39 0.51
67 19 0.25
68 5 0.06
69 11 0.14
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (67 bp):
TTAAAAAAAAAAAAAAAAAATTATTTTTAAAAAAAAATTTTAAAAAATTGTTTTAAAAAAAATAT
TT
Found at i:8185 original size:8 final size:8
Alignment explanation
Indices: 8170--8302 Score: 108
Period size: 8 Copynumber: 16.1 Consensus size: 8
8160 AAATTATTTT
8170 TAAAAAAA
1 TAAAAAAA
8178 TTAAAAAAAA
1 -T-AAAAAAA
*
8188 AAAAAAAA
1 TAAAAAAA
* *
8196 TTTAAAAAT
1 -TAAAAAAA
8205 TAAAAAAA
1 TAAAAAAA
*
8213 AAAAAAAA
1 TAAAAAAA
*
8221 AAAAAAAA
1 TAAAAAAA
**
8229 T-AAAATT
1 TAAAAAAA
8236 TAAAAAAA
1 TAAAAAAA
*
8244 TAATAAAA
1 TAAAAAAA
8252 TGAAAAAAAA
1 T--AAAAAAA
*
8262 AAAAAAAA
1 TAAAAAAA
*
8270 AAAAAAAA
1 TAAAAAAA
8278 TAAAAAAA
1 TAAAAAAA
8286 -AAAAAAA
1 TAAAAAAA
8293 TTAAAAAAA
1 -TAAAAAAA
8302 T
1 T
8303 TGTTAATTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
7 12 0.12
8 63 0.62
9 13 0.13
10 13 0.13
ACGTcount: A:0.85, C:0.00, G:0.01, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:8189 original size:28 final size:26
Alignment explanation
Indices: 8173--8504 Score: 129
Period size: 26 Copynumber: 12.9 Consensus size: 26
8163 TTATTTTTAA
8173 AAAAATTAAAAAAAAAAAAAAAATTT
1 AAAAATTAAAAAAAAAAAAAAAATTT
*
8199 AAAAATTAAAAAAAAAAAAAAAA--A
1 AAAAATTAAAAAAAAAAAAAAAATTT
* * *
8223 AAAAAATAAAATTTAAAAAAATAATAAAATG
1 AAAAATTAAAA---AAAAAAA-AA-AAATTT
* **
8254 AAAAA-AAAAAAAAAAAAAAAAAAAT
1 AAAAATTAAAAAAAAAAAAAAAATTT
8279 AAAAA--AAAAAAAAATTAAAAAAATTGT
1 AAAAATTAAAAAAAAA--AAAAAAATT-T
* * * **** * **
8306 -TAATTTTATTCTAATAAAAATTTTT
1 AAAAATTAAAAAAAAAAAAAAAATTT
* **
8331 AAAAA-AAAAAAAAAAAATAAAAATAAAAC
1 AAAAATTAAAAAAAAAAA-AAAAAT---TT
**
8360 AAAAAAAAAAAAAAAAAAAAAAATGTT
1 AAAAATTAAAAAAAAAAAAAAAAT-TT
**
8387 GTAAA--AAAAAAAAAAAAAAAATTT
1 AAAAATTAAAAAAAAAAAAAAAATTT
*****
8411 TTTTTTTAAAAAAAAAAAAAAAA---
1 AAAAATTAAAAAAAAAAAAAAAATTT
*
8434 AATAA--AAAAAAAAAAAAAAAATTT
1 AAAAATTAAAAAAAAAAAAAAAATTT
* *
8458 TAAAA--AAAAAAAAAAAAAAAATTA
1 AAAAATTAAAAAAAAAAAAAAAATTT
**
8482 AAAAAAAAAAAAAAAAAAAAAAA
1 AAAAATTAAAAAAAAAAAAAAAA
8505 AAAATGTGGG
Statistics
Matches: 233, Mismatches: 48, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
21 16 0.07
23 1 0.00
24 47 0.20
25 32 0.14
26 79 0.34
27 18 0.08
28 5 0.02
29 14 0.06
30 16 0.07
31 5 0.02
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.17
Consensus pattern (26 bp):
AAAAATTAAAAAAAAAAAAAAAATTT
Found at i:8215 original size:31 final size:32
Alignment explanation
Indices: 8169--8303 Score: 134
Period size: 33 Copynumber: 4.1 Consensus size: 32
8159 AAAATTATTT
8169 TTAAAAAAATTAAAAAAAAAAAAAA-AATTTAAAAA
1 TTAAAAAAA-TAAAAAAAAAAAAAATAA---AAAAA
*
8204 TTAAAAAAA-AAAAAAAAAAAAAA-AATAAAAT
1 TTAAAAAAATAAAAAAAAAAAAAATAA-AAAAA
8235 TTAAAAAAATAATAAAATGAAAAAAAA-AAAAAAA
1 TTAAAAAAATAA-AAAA--AAAAAAAATAAAAAAA
**
8269 AAAAAAAAATAAAAAAAAAAAAAATTAAAAAAA
1 TTAAAAAAATAAAAAAAAAAAAAA-TAAAAAAA
8302 TT
1 TT
8304 GTTAATTTTA
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
31 22 0.25
32 2 0.02
33 31 0.35
34 14 0.16
35 19 0.22
ACGTcount: A:0.84, C:0.00, G:0.01, T:0.16
Consensus pattern (32 bp):
TTAAAAAAATAAAAAAAAAAAAAATAAAAAAA
Found at i:8228 original size:66 final size:63
Alignment explanation
Indices: 8158--8297 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 63
8148 AATTTTTTTT
**
8158 AAAAATTATTTTTAAAAAAATTAA-AAAA-AAAAAAAAAATTTAAAAATTAAAAAAAAA-AAAAA
1 AAAAATTAAATTTAAAAAAA-TAATAAAAGAAAAAAAAAA---AAAAA--AAAAAAAAATAAAAA
8220 AAAA
60 AAAA
*
8224 AAAAATAAAATTTAAAAAAATAATAAAATGAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAA
1 AAAAATTAAATTTAAAAAAATAATAAAA-GAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAA
8288 AAAAATTAAA
1 AAAAATTAAA
8298 AAAATTGTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
63 9 0.14
64 18 0.27
65 8 0.12
66 21 0.32
68 10 0.15
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (63 bp):
AAAAATTAAATTTAAAAAAATAATAAAAGAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAA
Found at i:8260 original size:76 final size:73
Alignment explanation
Indices: 8170--8508 Score: 222
Period size: 76 Copynumber: 4.7 Consensus size: 73
8160 AAATTATTTT
* * **
8170 TAAAAAAATTAAAAAAAAAAAAAAAATTTAAAAATTAAAAAAAAAAAAAAAAAAAAAAATAAAAT
1 TAAAAATATGAAAAAAAAAAAAAAAAAATAAAAA-TAAAAAAAAAAAAAAAAAAAAAAATAAAAT
8235 TTAAAAAAA
65 TTAAAAAAA
* ** *
8244 TAATAAA-ATGAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAATTAAAAAAATTGTTA
1 TAA-AAATATGAAAAAAAAAAAAAAAAAATAAAAATAAAAAAAAAAAAAA--AAAAAAA-AATAA
* ****
8308 ATTTTATTCTAA
62 AATTTAAAAAAA
* **
8320 TAAAAATTTTTAAAAAAAAAAAAAAAAATAAAAATAAAACAAAAAAAAAAAAAAAAAAA-AAAAT
1 TAAAAATATGAAAAAAAAAAAAAAAAAATAAAAATAAAA-AAAAAAAAAAAAAAAAAAATAAAA-
8384 GTTGTAAAAAAA
64 -TT-TAAAAAAA
******* *
8396 -AAAAA-A--AAAAAATTTTTTTTTTAAAAA-AAAAA-AAAAAAAATAAAAAAAAAAAAAA-AAA
1 TAAAAATATGAAAAAA---AAAAAAAAAAAATAAAAATAAAAAAAAAAAAAAAAAAAAAAATAAA
*
8454 ATTTTAAAAAA
63 ATTTAAAAAAA
**
8465 -AAAAA-A--AAAAAAAATTAAAAAAAA-AAAAA-AAAAAAAAAAAAAAA
1 TAAAAATATGAAAAAAAAAAAAAAAAAATAAAAATAAAAAAAAAAAAAAA
8509 TGTGGGGGGG
Statistics
Matches: 212, Mismatches: 41, Indels: 32
0.74 0.14 0.11
Matches are distributed among these distances:
66 26 0.12
69 19 0.09
70 2 0.01
72 27 0.13
73 21 0.10
74 31 0.15
75 32 0.15
76 44 0.21
77 10 0.05
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.17
Consensus pattern (73 bp):
TAAAAATATGAAAAAAAAAAAAAAAAAATAAAAATAAAAAAAAAAAAAAAAAAAAAAATAAAATT
TAAAAAAA
Found at i:8301 original size:1 final size:1
Alignment explanation
Indices: 8180--8292 Score: 100
Period size: 1 Copynumber: 113.0 Consensus size: 1
8170 TAAAAAAATT
*** ** * *** *
8180 AAAAAAAAAAAAAAAATTTAAAAATTAAAAAAAAAAAAAAAAAAAAAAATAAAATTTAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** *
8245 AATAAAATGAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8293 TTAAAAAAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 95 1.00
ACGTcount: A:0.88, C:0.00, G:0.01, T:0.12
Consensus pattern (1 bp):
A
Found at i:8335 original size:1 final size:1
Alignment explanation
Indices: 8331--8508 Score: 122
Period size: 1 Copynumber: 178.0 Consensus size: 1
8321 AAAAATTTTT
* * * ******
8331 AAAAAAAAAAAAAAAAATAAAAATAAAACAAAAAAAAAAAAAAAAAAAAAAATGTTGTAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
********** * ****
8396 AAAAAAAAAAAATTTTTTTTTTAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAAAAAATTTTAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
**
8461 AAAAAAAAAAAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8509 TGTGGGGGGG
Statistics
Matches: 157, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 157 1.00
ACGTcount: A:0.85, C:0.01, G:0.01, T:0.13
Consensus pattern (1 bp):
A
Found at i:8562 original size:13 final size:13
Alignment explanation
Indices: 8546--8588 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
8536 AAATTTAATT
8546 AAAATTAAAAAAA
1 AAAATTAAAAAAA
*
8559 AAAAATAAAAAAA
1 AAAATTAAAAAAA
8572 AAAA--AAAAAAA
1 AAAATTAAAAAAA
8583 AAAATT
1 AAAATT
8589 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATTAAAAAAA
Found at i:8600 original size:19 final size:19
Alignment explanation
Indices: 8576--8623 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
8566 AAAAAAAAAA
*
8576 AAAAAAAAAAATTTTTTTTTT
1 AAAAAAAAAAA--TTTATTTT
8597 AAAAAAAAAAATTTATTTT
1 AAAAAAAAAAATTTATTTT
8616 AAAAAAAA
1 AAAAAAAA
8624 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAAAAAAATTTATTTT
Found at i:8606 original size:1 final size:1
Alignment explanation
Indices: 8552--8586 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
8542 AATTAAAATT
*
8552 AAAAAAAAAAAATAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8587 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:8643 original size:42 final size:41
Alignment explanation
Indices: 8597--8688 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
8587 TTTTTTTTTT
*
8597 AAAAAAAAAAATTT-ATTTTAAAAAAAATTAAAAAAAAAAA
1 AAAAAAAAAAATTTAATTTAAAAAAAAATTAAAAAAAAAAA
** *
8637 AAAAAAAAATTTTTAAATTTAAAAAAAAATTAAAAAATAAAA
1 AAAAAAAAAAATTT-AATTTAAAAAAAAATTAAAAAAAAAAA
8679 AAAAAAAAAA
1 AAAAAAAAAA
8689 TTAAGAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 12 0.27
42 33 0.73
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (41 bp):
AAAAAAAAAAATTTAATTTAAAAAAAAATTAAAAAAAAAAA
Found at i:8661 original size:1 final size:1
Alignment explanation
Indices: 8657--8718 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
8647 TTTTAAATTT
** * ** * * *
8657 AAAAAAAAATTAAAAAATAAAAAAAAAAAAAATTAAGAATAAAAAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8719 TTTTCTTTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (1 bp):
A
Found at i:8677 original size:7 final size:7
Alignment explanation
Indices: 8660--8716 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
8650 TAAATTTAAA
8660 AAAAAATT
1 AAAAAA-T
8668 AAAAAAT
1 AAAAAAT
*
8675 AAAAAAAA
1 -AAAAAAT
8683 AAAAAAT
1 AAAAAAT
* *
8690 TAAGAAT
1 AAAAAAT
*
8697 AAAAAAA
1 AAAAAAT
8704 AAAAAAT
1 AAAAAAT
8711 AAAAAA
1 AAAAAA
8717 AATTTTCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
7 28 0.70
8 12 0.30
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:8678 original size:59 final size:57
Alignment explanation
Indices: 8546--8706 Score: 166
Period size: 59 Copynumber: 2.7 Consensus size: 57
8536 AAATTTAATT
**
8546 AAAATTAAAAAA-AAAAAATAAAAAAAAAAAAAAAAAAAAAATTTTTTTTTTAAAAAAA
1 AAAATTAAAAAATAAAAAA-AAAAAAAAAAAAAAAAAAAAAATTTTTAATTT-AAAAAA
* ***
8604 AAAATT-TATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAATTTTTAAATTT-AAAAA
1 AAAATTAAAAAATAAAAAAAA--AAAAAAAAAAAAAAAAAAAATTTTT-AATTTAAAAAA
8662 AAAATTAAAAAATAAAAAAAAAAAAAATTAAGAATAAAAAAAAAA
1 AAAATTAAAAAATAAAAAAAAAAAAAA--AA-AA-AAAAAAAAAA
8707 AAATAAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
57 9 0.11
58 23 0.27
59 37 0.44
60 5 0.06
61 10 0.12
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (57 bp):
AAAATTAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAATTTAAAAAA
Found at i:8700 original size:40 final size:40
Alignment explanation
Indices: 8597--8718 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 40
8587 TTTTTTTTTT
* *
8597 AAAAAAAAAAATTT--ATTTTAAAAAAAATTAAAAAAAAA
1 AAAAAAAAAAATTTAAATATAAAAAAAAATTAAAAAAAAA
*
8635 AAAAAAAAAAATTTTTAAATTTAAAAAAAAATTAAAAAATAAA
1 AAAAAAAAAAA--TTTAAATATAAAAAAAAATTAAAAAA-AAA
* * *
8678 AAAAAAAAAAATTAAGAATAAAAAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAATTTA-AAT-ATAAAAAAAAATTAAAAAAAA
8719 TTTTCTTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
38 11 0.15
40 3 0.04
41 3 0.04
42 25 0.35
43 30 0.42
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.20
Consensus pattern (40 bp):
AAAAAAAAAAATTTAAATATAAAAAAAAATTAAAAAAAAA
Found at i:8754 original size:153 final size:153
Alignment explanation
Indices: 8597--8992 Score: 438
Period size: 152 Copynumber: 2.6 Consensus size: 153
8587 TTTTTTTTTT
*****
8597 AAAAAAAAAAATTTATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAATTTTTAAA-TTTAAAA
1 AAAAAAAAAAATTTATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTAAAA
*
8661 AAAAATTAAAAAATAAAAAAAAAAAAAATTAAGAATAAAAA-AAAAAAAATAAAAAAAATTTTCT
66 AAAAATTAAAAAATAAAAAAAAAAAAAATTAA-AA-AAAAATAAAAAAAA-AAAAAAAATTTTAT
8725 TTTT-TTTTTTATAACATAAAAA-A-AA
128 TTTTATTTTTTATAA-A-AAAAACATAA
* *
8750 AAAAAAAAAAAATT-TTTAAAAATTAAAATTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTT
1 AAAAAAAAAAATTTATTTTAAAA--AAAA--TTAAAAAAAAAAAAAAAAAAAAAAAAAAAA-TTT
* ** *
8814 TAAAAAAAAATT--AAAA-AACAAAATTAAAAATTAAAAAAAAATTAAAAAAAAAAAAAAATTTT
61 TAAAAAAAAATTAAAAAATAAAAAAAAAAAAAATTAAAAAAAAATAAAAAAAAAAAAAAAATTTT
*
8876 ATTTTTATTTTTTTTAAAAAAAACATAA
126 ATTTTTATTTTTTATAAAAAAAACATAA
* **
8904 AAAATTAAAAAAATTTAATTTT--TAAAACCTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTA
1 AAAA--AAAAAAATTT-ATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTA
*
8967 AAAAAAAA-AAAAAAATAAAAAAAAAA
63 AAAAAAAATTAAAAAATAAAAAAAAAA
8993 TTTAAAAAAA
Statistics
Matches: 204, Mismatches: 22, Indels: 34
0.78 0.08 0.13
Matches are distributed among these distances:
151 13 0.06
152 45 0.22
153 44 0.22
154 31 0.15
155 15 0.07
156 39 0.19
158 17 0.08
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (153 bp):
AAAAAAAAAAATTTATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTAAAA
AAAAATTAAAAAATAAAAAAAAAAAAAATTAAAAAAAAATAAAAAAAAAAAAAAAATTTTATTTT
TATTTTTTATAAAAAAAACATAA
Found at i:8770 original size:15 final size:14
Alignment explanation
Indices: 8752--8791 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
8742 AAAAAAAAAA
8752 AAAAAAAAAATTTTT
1 AAAAAAAAAA-TTTT
*
8767 AAAAATTAAAATTTT
1 AAAAA-AAAAATTTT
8782 AAAAAAAAAA
1 AAAAAAAAAA
8792 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAAAAAATTTT
Found at i:8794 original size:48 final size:45
Alignment explanation
Indices: 8737--8856 Score: 152
Period size: 48 Copynumber: 2.6 Consensus size: 45
8727 TTTTTTTTAT
*
8737 AACATAAAAAAAAAAAAAAAAAAAATTTTTAAAAATTAAAATTTTAAAA
1 AACAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAA--AAAA--TTAAAA
8786 AA-AAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAA
1 AACAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAA
** **
8830 AACAAAATTAAAAATTAAAAAAAAATT
1 AACAAAAAAAAAAAAAAAAAAAAAATT
8857 AAAAAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
44 8 0.12
45 20 0.31
46 4 0.06
48 31 0.48
49 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.21
Consensus pattern (45 bp):
AACAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAA
Found at i:8802 original size:31 final size:32
Alignment explanation
Indices: 8767--8876 Score: 136
Period size: 33 Copynumber: 3.5 Consensus size: 32
8757 AAAAATTTTT
**
8767 AAAAATTAAAATTTTAAAAAAAAAAAAAAAAA
1 AAAAATTAAAATTTTAAAAAAAAATTAAAAAA
**
8799 AAAAAAAAAAATTTTTAAAAAAAAATTAAAAAA
1 AAAAATTAAAA-TTTTAAAAAAAAATTAAAAAA
* *
8832 CAAAATTAAAA-ATTAAAAAAAAATTAAAAAA
1 AAAAATTAAAATTTTAAAAAAAAATTAAAAAA
8863 AAAAA--AAAATTTTA
1 AAAAATTAAAATTTTA
8877 TTTTTATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
29 4 0.06
30 3 0.05
31 23 0.35
32 9 0.14
33 27 0.41
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (32 bp):
AAAAATTAAAATTTTAAAAAAAAATTAAAAAA
Found at i:8816 original size:158 final size:156
Alignment explanation
Indices: 8611--8992 Score: 435
Period size: 153 Copynumber: 2.4 Consensus size: 156
8601 AAAAAAATTT
8611 ATTTTAAAAAAAATTAAAAAAAAAAAAAAAAAAAATTTTTAAATTTAAAAAAAAATTAAAAAATA
1 ATTTTAAAAAAAA--AAAAAAAAAAAAAAAAAAAA---TT---TTTAAAAAAAAATTAAAAAATA
*
8676 AAAAAAAAAAAAATTAAGAATAAAAA-AAAAAAAATAAAAAAAATTTTCTTTTT-TTTTTTATAA
58 AAAAAAAAAAAAATTAA-AA-AAAAATAAAAAAAA-AAAAAAAATTTTATTTTTATTTTTTATAA
8739 CATAAAAA-A-AAAAAA-AAAAAAAATTTTTAAAAATTAAA
120 -A-AAAAACATAAAAAATAAAAAAAA--TTTAAAAATTAAA
* **
8777 ATTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATT--AAAA-AACAAAATT
1 ATTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAAAATAAAAAAAAA
* *
8839 AAAAATTAAAAAAAAATTAAAAAAAAAAAAAAATTTTATTTTTATTTTTTTTAAAAAAAACATAA
66 AAAAATTAAAAAAAAATAAAAAAAAAAAAAAAATTTTATTTTTATTTTTTATAAAAAAAACATAA
* ***
8904 AAAATTAAAAAAATTTAATTTTTAAA
131 AAAATAAAAAAAATTTAAAAATTAAA
** *
8930 A-CCTAAAAAAAAAAAAAAAAAAAAAAAAAAAA-TTTTAAAAAAAAA-AAAAAAATAAAAAAAAA
1 ATTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAAAATAAAAAAAAA
8992 A
66 A
8993 TTTAAAAAAA
Statistics
Matches: 192, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
151 13 0.07
152 38 0.20
153 42 0.22
154 24 0.12
155 22 0.11
156 4 0.02
158 14 0.07
161 2 0.01
164 20 0.10
166 13 0.07
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (156 bp):
ATTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAAAATAAAAAAAAA
AAAAATTAAAAAAAAATAAAAAAAAAAAAAAAATTTTATTTTTATTTTTTATAAAAAAAACATAA
AAAATAAAAAAAATTTAAAAATTAAA
Found at i:8823 original size:1 final size:1
Alignment explanation
Indices: 8782--8809 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
8772 TTAAAATTTT
8782 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
8810 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8827 original size:11 final size:11
Alignment explanation
Indices: 8780--8865 Score: 74
Period size: 11 Copynumber: 8.0 Consensus size: 11
8770 AATTAAAATT
8780 TTAAAAAAAAA
1 TTAAAAAAAAA
8791 --AAAAAAAAA
1 TTAAAAAAAAA
*
8800 -AAAAAAAAAA
1 TTAAAAAAAAA
8810 TTTTTAAAAAAAAA
1 ---TTAAAAAAAAA
*
8824 TTAAAAAACAA
1 TTAAAAAAAAA
**
8835 --AATTAAAAA
1 TTAAAAAAAAA
8844 TTAAAAAAAAA
1 TTAAAAAAAAA
8855 TTAAAAAAAAA
1 TTAAAAAAAAA
8866 AAAAAATTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
9 15 0.25
10 9 0.15
11 28 0.46
14 9 0.15
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.17
Consensus pattern (11 bp):
TTAAAAAAAAA
Found at i:8836 original size:18 final size:17
Alignment explanation
Indices: 8826--8873 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
8816 AAAAAAAATT
*
8826 AAAAAACAAAATTAAAA
1 AAAAAAAAAAATTAAAA
*
8843 ATTAAAAAAAAATTAAAA
1 A-AAAAAAAAAATTAAAA
8861 AAAAAAAAAAATT
1 AAAAAAAAAAATT
8874 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAAAAAATTAAAA
Found at i:8839 original size:13 final size:12
Alignment explanation
Indices: 8741--8866 Score: 69
Period size: 10 Copynumber: 10.9 Consensus size: 12
8731 TTTTATAACA
8741 TAAAAAAAAAA-
1 TAAAAAAAAAAT
8752 -AAAAAAAAAATTTT
1 TAAAAAAAAAA---T
*
8766 TAAAAATTAAAATTT
1 TAAAAA--AAAA-AT
8781 TAAAAAAAAAA-
1 TAAAAAAAAAAT
8792 -AAAAAAAAAA-
1 TAAAAAAAAAAT
**
8802 -AAAAAAAATTT
1 TAAAAAAAAAAT
*
8813 TTAAAAAAAAAT
1 TAAAAAAAAAAT
8825 TAAAAAACAAAAT
1 TAAAAAA-AAAAT
8838 T-----AAAAAT
1 TAAAAAAAAAAT
8845 T-AAAAAAAAAT
1 TAAAAAAAAAAT
8856 TAAAAAAAAAA
1 TAAAAAAAAAA
8867 AAAAATTTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 31
0.70 0.06 0.24
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
10 28 0.31
11 7 0.08
12 23 0.25
13 10 0.11
15 12 0.13
17 4 0.04
ACGTcount: A:0.79, C:0.01, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAAAAAAAT
Found at i:8842 original size:20 final size:19
Alignment explanation
Indices: 8819--8873 Score: 80
Period size: 17 Copynumber: 3.0 Consensus size: 19
8809 ATTTTTAAAA
8819 AAAAATTAAAAAACAAAATT
1 AAAAATTAAAAAA-AAAATT
8839 AAAAATT-AAAAAAAAATT
1 AAAAATTAAAAAAAAAATT
8857 AAAAA--AAAAAAAAAATT
1 AAAAATTAAAAAAAAAATT
8874 TTATTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.32
18 11 0.32
19 5 0.15
20 7 0.21
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATTAAAAAAAAAATT
Found at i:8867 original size:13 final size:13
Alignment explanation
Indices: 8786--8867 Score: 65
Period size: 13 Copynumber: 5.8 Consensus size: 13
8776 AATTTTAAAA
**
8786 AAAAAAAAAAAAA
1 AAAAAAAAAAATT
8799 AAAAAAAAAAATTT
1 AAAAAAAAAAA-TT
**
8813 TTAAAAAAAAATT
1 AAAAAAAAAAATT
*
8826 AAAAAACAAAATT
1 AAAAAAAAAAATT
8839 AAAAATTAAAAAAAAATT
1 ---AA--AAAAAAAAATT
8857 AAAAAAAAAAA
1 AAAAAAAAAAA
8868 AAAATTTTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 32 0.58
14 9 0.16
15 2 0.04
16 2 0.04
18 10 0.18
ACGTcount: A:0.83, C:0.01, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAAATT
Found at i:8938 original size:1 final size:1
Alignment explanation
Indices: 8934--9006 Score: 74
Period size: 1 Copynumber: 73.0 Consensus size: 1
8924 TTTAAAACCT
**** * ***
8934 AAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTAAAAAAAAAAAAAAAATAAAAAAAAAATTTAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8999 AAAAAAAA
1 AAAAAAAA
9007 TTTAAATATT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:9014 original size:31 final size:31
Alignment explanation
Indices: 8935--9006 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
8925 TTAAAACCTA
*
8935 AAAAAAAAAAAAAAAAAAAAAAAAAAATTTT
1 AAAAAAAAAAAAAAAATAAAAAAAAAATTTT
8966 AAAAAAAAAAAAAAAATAAAAAAAAAA-TTT
1 AAAAAAAAAAAAAAAATAAAAAAAAAATTTT
8996 AAAAAAAAAAA
1 AAAAAAAAAAA
9007 TTTAAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAATAAAAAAAAAATTTT
Found at i:9022 original size:149 final size:152
Alignment explanation
Indices: 8615--9105 Score: 397
Period size: 152 Copynumber: 3.1 Consensus size: 152
8605 AAATTTATTT
*
8615 TAAAAAAAATTAAAAAAAAAAAAAAAAAAAATTTTTAAATTTAAAAAAAAATTAAAAAATAAAAA
1 TAAAAAAAA--AAAAAAAAAAAAAAAAAAAA---TT---TTTAAAAAAAAA-T-AAAAA-AACAA
* * *** * * *
8680 AAAAAAAAATTAAGAATAAAAAAAAAAAAATAAAAAAAATTTTCTTTTTTTTTTTATAACATAAA
55 AATAAAAAATTAA-AA-AAAAATAAAAAAA-AAAAAAAA-TTAAATTTTTTTTTTAAAAAAAAAA
* *** **
8745 AAAAAAAAAA---AAAAAAATTTTTAAAAATTAAAATTT
116 AAAAAAAAAATTTAAAAAAATTTAT-ATTTTTAAAA-CC
* *
8781 TAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATTAAAAAACAAAATTAAAAATT
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATAAAAAAACAAAATAAAAAATT
** *** * *
8846 AAAAAAAAATTAAAAAAAAAAAAAAATTTTATTTTTATTTTTTTTAAAAAAAACATAAAAAA-TT
66 AAAAAAAAA-TAAAAAAAAAAAAAAATTAAATTTTT-TTTTTAAAAAAAAAAAAAAAAAAAATTT
8910 AAAAAAATTTA-ATTTTTAAAACC
129 AAAAAAATTTATATTTTTAAAACC
*
8933 TAAAAAAAAAAAAAAAAAAAAAAAAAAAA-TTTTAAAAAAAAA-AAAAAAATAAAA-AAAAAATT
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATAAAAAAACAAAATAAAAAA-T
** * ***
8995 TAAAAAAAAA-AATTTAAATATTTAAATTAAATTTTTTTTTTAAAAAAAAAAAAAAAAAAAATTT
65 TAAAAAAAAATAA-AAAAAAAAAAAAATTAAATTTTTTTTTTAAAAAAAAAAAAAAAAAAAATTT
* **
9059 AAAAAAATTTATTTTTTTTTAAAATT
129 AAAAAAATTTA--TATTTTTAAAACC
*
9085 TTAAAAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAAAAA
9106 TTTTTCTTTT
Statistics
Matches: 276, Mismatches: 39, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
148 22 0.08
149 33 0.12
150 21 0.08
151 13 0.05
152 66 0.24
153 39 0.14
154 9 0.03
155 25 0.09
156 4 0.01
157 1 0.00
158 12 0.04
161 2 0.01
164 20 0.07
166 9 0.03
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.27
Consensus pattern (152 bp):
TAAAAAAAAAAAAAAAAAAAAAAAAAAAATTTTTAAAAAAAAATAAAAAAACAAAATAAAAAATT
AAAAAAAAATAAAAAAAAAAAAAAATTAAATTTTTTTTTTAAAAAAAAAAAAAAAAAAAATTTAA
AAAAATTTATATTTTTAAAACC
Found at i:9040 original size:49 final size:43
Alignment explanation
Indices: 8987--9097 Score: 116
Period size: 49 Copynumber: 2.5 Consensus size: 43
8977 AAAAATAAAA
8987 AAAAAATTTAAAAAAAAAAATTTAAATATTTAAATTAAATTTTTTTTTT
1 AAAAAATTTAAAAAAAAAAATTTAAA-A---AAATT-AA-TTTTTTTTT
*** *
9036 AAAAAAAAAAAAAAAAAAAATTTAAAAAAATTTATTTTTTTTT
1 AAAAAATTTAAAAAAAAAAATTTAAAAAAATTAATTTTTTTTT
*
9079 -AAAATTTTAAAAAAAAAAA
1 AAAAAATTTAAAAAAAAAAA
9098 AAAAAAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
42 15 0.28
43 9 0.17
44 1 0.02
45 5 0.09
48 1 0.02
49 23 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (43 bp):
AAAAAATTTAAAAAAAAAAATTTAAAAAAATTAATTTTTTTTT
Found at i:9059 original size:41 final size:41
Alignment explanation
Indices: 8996--9076 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
8986 AAAAAAATTT
*** * *
8996 AAAAAAAAAAATTTAAATATTTAAATTAAATTT-TTTTTTTA
1 AAAAAAAAAAAAAAAAAAATTTAAA-AAAATTTATTTTTTTA
9037 AAAAAAAAAAAAAAAAAAATTTAAAAAAATTTATTTTTTT
1 AAAAAAAAAAAAAAAAAAATTTAAAAAAATTTATTTTTTT
9077 TTAAAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 6 0.18
41 28 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAAAAAAAAAAAAAAAAATTTAAAAAAATTTATTTTTTTA
Found at i:9116 original size:38 final size:38
Alignment explanation
Indices: 9044--9148 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 38
9034 TTAAAAAAAA
*
9044 AAAAAAAAAAAATTTAAAAAAATTTATTTTTTTTTAAAATTTT
1 AAAAAAAAAAAA---AAAAAAA-TT-TTTCTTTTTAAAATTTT
*
9087 AAAAAAAAAAAAAAAAAAATTTTTCTTTTTAAATTTTT
1 AAAAAAAAAAAAAAAAAAATTTTTCTTTTTAAAATTTT
**** *
9125 TTTTAAAAAAAAAAAATAATTTTT
1 AAAAAAAAAAAAAAAAAAATTTTT
9149 TATTAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
38 34 0.62
39 2 0.04
40 7 0.13
43 12 0.22
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (38 bp):
AAAAAAAAAAAAAAAAAAATTTTTCTTTTTAAAATTTT
Found at i:9121 original size:37 final size:41
Alignment explanation
Indices: 9044--9143 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 41
9034 TTAAAAAAAA
*
9044 AAAAAAAAAAAATTTAAAAAAATTTATTTTTTTTTAAAATTTT
1 AAAAAAAAAAAA--TAAAAAAATTTATTTCTTTTTAAAATTTT
*
9087 AAAAAAAAAAAA-AAAAAAA-TT-TTTCTTTTTAAATTTTTTTTT
1 AAAAAAAAAAAATAAAAAAATTTATTTCTTTTTAAA----ATTTT
9129 AAAAAAAAAAAATAA
1 AAAAAAAAAAAATAA
9144 TTTTTTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
38 11 0.22
39 2 0.04
40 7 0.14
42 16 0.32
43 14 0.28
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (41 bp):
AAAAAAAAAAAATAAAAAAATTTATTTCTTTTTAAAATTTT
Found at i:9165 original size:10 final size:10
Alignment explanation
Indices: 9150--9246 Score: 52
Period size: 10 Copynumber: 8.7 Consensus size: 10
9140 ATAATTTTTT
9150 ATTAAAAAAA
1 ATTAAAAAAA
9160 ATTAAAAAAA
1 ATTAAAAAAA
9170 A-TAAAAAATTTTA
1 ATTAAAAAA----A
9183 ATTTTTAAAAACAAA
1 A---TT-AAAA-AAA
*
9198 AATAAAAAAAAA
1 ATTAA-AAA-AA
* *
9210 ATTAAATAAT
1 ATTAAAAAAA
9220 ATTAAAAAAA
1 ATTAAAAAAA
*
9230 TTTAAAAAAA
1 ATTAAAAAAA
9240 ATTAAAA
1 ATTAAAA
9247 TTTAAATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
9 7 0.10
10 35 0.52
11 5 0.07
12 9 0.13
13 2 0.03
15 2 0.03
17 1 0.01
18 4 0.06
19 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (10 bp):
ATTAAAAAAA
Found at i:9165 original size:34 final size:34
Alignment explanation
Indices: 9127--9240 Score: 101
Period size: 34 Copynumber: 3.3 Consensus size: 34
9117 AAATTTTTTT
9127 TTAAAAAAAAAAAATAATTTTTTATTAAAAAAAA
1 TTAAAAAAAAAAAATAATTTTTTATTAAAAAAAA
*
9161 TTAAAAAAAATAAAA-AATTTTAATTTTTAAAAACAAA
1 TTAAAAAAAA-AAAATAATTTT--TTATTAAAAA-AAA
* ** *
9198 --AATAAAAAAAAAATTAA-ATAATATTAAAAAAAT
1 TTAA-AAAAAAAAAA-TAATTTTTTATTAAAAAAAA
9231 TTAAAAAAAA
1 TTAAAAAAAA
9241 TTAAAATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
33 2 0.03
34 30 0.46
35 12 0.18
36 16 0.25
37 5 0.08
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (34 bp):
TTAAAAAAAAAAAATAATTTTTTATTAAAAAAAA
Found at i:9167 original size:32 final size:32
Alignment explanation
Indices: 9131--9240 Score: 87
Period size: 37 Copynumber: 3.2 Consensus size: 32
9121 TTTTTTTTAA
9131 AAAAAAAAAATAATTTTTTATTAAAAAAAATT
1 AAAAAAAAAATAATTTTTTATTAAAAAAAATT
* * *
9163 AAAAAAAATAAAAAATTTTAATTTTTAAAAACAAAAAT
1 -AAAAAAA-AAATAATTTT--TTATT-AAAA-AAAATT
* ** *
9201 AAAAAAAAAATTAA-ATAATATTAAAAAAATTT
1 AAAAAAAAAA-TAATTTTTTATTAAAAAAAATT
9233 AAAAAAAA
1 AAAAAAAA
9241 TTAAAATTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
32 12 0.20
33 11 0.18
34 12 0.20
36 8 0.13
37 13 0.21
38 5 0.08
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAAAAAAATAATTTTTTATTAAAAAAAATT
Found at i:9167 original size:33 final size:33
Alignment explanation
Indices: 9130--9240 Score: 98
Period size: 38 Copynumber: 3.2 Consensus size: 33
9120 TTTTTTTTTA
9130 AAAAAAAAAAATAATTTTTTATTAAAAAAAATT
1 AAAAAAAAAAATAATTTTTTATTAAAAAAAATT
* * *
9163 AAAAAAAATAAAAAATTTTAATTTTTAAAAACAAAAAT
1 AAAAAAAA-AAATAATTTT--TTATT-AAAA-AAAATT
* * ** *
9201 AAAAAAAAAATTAA-ATAATATTAAAAAAATTT
1 AAAAAAAAAAATAATTTTTTATTAAAAAAAATT
9233 AAAAAAAA
1 AAAAAAAA
9241 TTAAAATTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
32 12 0.19
33 12 0.19
34 12 0.19
36 5 0.08
37 8 0.13
38 13 0.21
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (33 bp):
AAAAAAAAAAATAATTTTTTATTAAAAAAAATT
Found at i:9228 original size:20 final size:20
Alignment explanation
Indices: 9203--9246 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9193 ACAAAAATAA
* *
9203 AAAAAAAATTAAATAATATT
1 AAAAAAAATTAAAAAAAATT
*
9223 AAAAAAATTTAAAAAAAATT
1 AAAAAAAATTAAAAAAAATT
9243 AAAA
1 AAAA
9247 TTTAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAAAATTAAAAAAAATT
Found at i:9291 original size:26 final size:26
Alignment explanation
Indices: 9255--9310 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
9245 AATTTAAATT
9255 AAAATTTTTTTTAATAAAAAAAAAAA
1 AAAATTTTTTTTAATAAAAAAAAAAA
**
9281 AAAATTTTTTTTTTTAAAAAAAAAAA
1 AAAATTTTTTTTAATAAAAAAAAAAA
9307 AAAA
1 AAAA
9311 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATTTTTTTTAATAAAAAAAAAAA
Found at i:9344 original size:1 final size:1
Alignment explanation
Indices: 9296--9331 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
9286 TTTTTTTTTT
*
9296 AAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9332 TATTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:9360 original size:30 final size:31
Alignment explanation
Indices: 9320--9390 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
9310 AAAAAAAAAA
9320 AAAAATAAAAAATATTTTT-TAAAAATTATTT
1 AAAAATAAAAAA-ATTTTTGTAAAAATTATTT
* *
9351 AAAAA-AAAAAAATTTTTGTTAAAATTA--A
1 AAAAATAAAAAAATTTTTGTAAAAATTATTT
9379 AAAAATAAAAAA
1 AAAAATAAAAAA
9391 TAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 5 0.14
29 12 0.33
30 14 0.39
31 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAAATAAAAAAATTTTTGTAAAAATTATTT
Found at i:9381 original size:7 final size:7
Alignment explanation
Indices: 9371--9451 Score: 58
Period size: 7 Copynumber: 11.3 Consensus size: 7
9361 AATTTTTGTT
9371 AAAATTAA
1 AAAATT-A
*
9379 AAAAATA
1 AAAATTA
*
9386 AAAAATA
1 AAAATTA
9393 AAAA--A
1 AAAATTA
9398 AAAATTA
1 AAAATTA
* *
9405 AAATTTT
1 AAAATTA
*
9412 AAAATAA
1 AAAATTA
9419 AAAATTA
1 AAAATTA
*
9426 AAAATTTTT
1 AAAA--TTA
9435 AAAATTAA
1 AAAATT-A
9443 AAAATTA
1 AAAATTA
9450 AA
1 AA
9452 TTTAAAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
5 5 0.08
7 37 0.63
8 11 0.19
9 6 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:9446 original size:8 final size:8
Alignment explanation
Indices: 9371--9451 Score: 58
Period size: 8 Copynumber: 10.1 Consensus size: 8
9361 AATTTTTGTT
9371 AAAATTAA
1 AAAATTAA
*
9379 AAAAATAA
1 AAAATTAA
9387 AAAA-TAA
1 AAAATTAA
**
9394 AAAAAAAA
1 AAAATTAA
**
9402 TTAAAATTTT
1 --AAAATTAA
9412 AAAA-TAA
1 AAAATTAA
9419 AAAATTAA
1 AAAATTAA
* **
9427 AAATTTTT
1 AAAATTAA
9435 AAAATTAA
1 AAAATTAA
9443 AAAATTAA
1 AAAATTAA
9451 A
1 A
9452 TTTAAAAAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
7 12 0.22
8 39 0.71
10 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATTAA
Found at i:9452 original size:22 final size:21
Alignment explanation
Indices: 9391--9467 Score: 88
Period size: 20 Copynumber: 3.7 Consensus size: 21
9381 AAATAAAAAA
*
9391 TAAAA-AAAAAATTAAAATTT
1 TAAAATAAAAAATTAAATTTT
9411 TAAAATAAAAAATTAAAAATTTT
1 TAAAATAAAAAATT--AAATTTT
9434 TAAAATTAAAAAATTAAA--TT
1 TAAAA-TAAAAAATTAAATTTT
*
9454 TAAAAAAAAAAATT
1 TAAAATAAAAAATT
9468 TTTTTTTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.16
20 12 0.24
21 8 0.16
22 3 0.06
23 11 0.22
24 9 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAATAAAAAATTAAATTTT
Found at i:9471 original size:37 final size:36
Alignment explanation
Indices: 9398--9470 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
9388 AAATAAAAAA
**
9398 AAAATTAAAATTTTAAAATAAAAAATTAAAAATTTTT
1 AAAATTAAAAAATTAAAATAAAAAA-TAAAAATTTTT
*
9435 AAAATTAAAAAATTAAATTTAAAAAA-AAAAATTTTT
1 AAAATTAAAAAATTAAA-ATAAAAAATAAAAATTTTT
9471 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 10 0.31
37 15 0.47
38 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (36 bp):
AAAATTAAAAAATTAAAATAAAAAATAAAAATTTTT
Found at i:9521 original size:32 final size:32
Alignment explanation
Indices: 9485--9556 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
9475 TTAAAATATT
9485 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
9517 TAAAAAAAAAAAAATTAAAAAAAAAAATAATA
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9549 TAAAAAAA
1 TAAAAAAA
9557 TTAAATTCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (32 bp):
TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:9553 original size:14 final size:12
Alignment explanation
Indices: 9485--9557 Score: 89
Period size: 11 Copynumber: 6.1 Consensus size: 12
9475 TTAAAATATT
9485 TAAAAAAAAAAA
1 TAAAAAAAAAAA
9497 -AAAAAAAAAAA
1 TAAAAAAAAAAA
9508 -AAAAAAAAATAA
1 TAAAAAAAAA-AA
9520 -AAAAAAAAAAA
1 TAAAAAAAAAAA
9531 TTAAAAAAAAAAA
1 -TAAAAAAAAAAA
*
9544 TAATATAAAAAAA
1 TAA-AAAAAAAAA
9557 T
1 T
9558 TAAATTCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
11 22 0.39
12 14 0.25
13 20 0.36
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:9553 original size:15 final size:15
Alignment explanation
Indices: 9488--9579 Score: 103
Period size: 15 Copynumber: 6.0 Consensus size: 15
9478 AAATATTTAA
*
9488 AAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAT
9503 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
*
9518 AAAAAAAAAAAAATT
1 AAAAAAAAAAAAAAT
*
9533 AAAAAAAAAAATAAT
1 AAAAAAAAAAAAAAT
** *
9548 ATAAAAAAATTAAATT
1 A-AAAAAAAAAAAAAT
*
9564 CTAAAAAAAAAAAAAT
1 -AAAAAAAAAAAAAAT
9580 GTTTTTTAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
15 42 0.67
16 21 0.33
ACGTcount: A:0.86, C:0.01, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAAAAAAAAAAT
Found at i:9556 original size:1 final size:1
Alignment explanation
Indices: 9486--9543 Score: 89
Period size: 1 Copynumber: 58.0 Consensus size: 1
9476 TAAAATATTT
* **
9486 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAATTAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9544 TAATATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Done.