Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 28 of 39
Found at i:4063088 original size:14 final size:14
Alignment explanation
Indices: 4063059--4063087 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4063049 AAATTTGTTT
4063059 AATATTTAAATTAA
1 AATATTTAAATTAA
4063073 AATA-TTAAATTAA
1 AATATTTAAATTAA
4063086 AA
1 AA
4063088 AATAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATTTAAATTAA
Found at i:4063098 original size:13 final size:13
Alignment explanation
Indices: 4063065--4063120 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
4063055 GTTTAATATT
*
4063065 TAAATTAAAATAT
1 TAAATTAAAATAA
4063078 TAAATTAAAA-AA
1 TAAATTAAAATAA
* *
4063090 TAAATTTAAGTAA
1 TAAATTAAAATAA
*
4063103 -AAATAAAAATAA
1 TAAATTAAAATAA
4063115 -AAATTA
1 TAAATTA
4063121 TTTTAAAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
12 23 0.66
13 12 0.34
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
TAAATTAAAATAA
Found at i:4063251 original size:23 final size:24
Alignment explanation
Indices: 4063225--4063269 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4063215 AATTTATATT
*
4063225 ATATAAAAAT-AAATAATATTATA
1 ATATAAAAATAAAAAAATATTATA
*
4063248 ATATAAACATAAAAAAATATTA
1 ATATAAAAATAAAAAAATATTA
4063270 AGTTATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAAAATAAAAAAATATTATA
Found at i:4066907 original size:21 final size:23
Alignment explanation
Indices: 4066883--4066932 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
4066873 TAAAATCAAT
4066883 TTTTTAAAAAT-AA-TTTAATAA
1 TTTTTAAAAATCAATTTTAATAA
*
4066904 TTTTAAAAAAATCAATTTTAATAA
1 TTTT-TAAAAATCAATTTTAATAA
*
4066928 GTTTT
1 TTTTT
4066933 CGATTATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.17
22 6 0.26
23 2 0.09
24 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTTAAAAATCAATTTTAATAA
Found at i:4067191 original size:9 final size:9
Alignment explanation
Indices: 4067177--4067207 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4067167 TTCCGGTTAT
4067177 AAAAAAAAG
1 AAAAAAAAG
4067186 AAAAAAAAG
1 AAAAAAAAG
4067195 AAAAAAAAG
1 AAAAAAAAG
4067204 AAAA
1 AAAA
4067208 TATGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4067600 original size:17 final size:19
Alignment explanation
Indices: 4067558--4067595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4067548 TTTTAATTTA
*
4067558 ATTTATAAATTATTTTATT
1 ATTTAAAAATTATTTTATT
4067577 ATTTTAAAAATTATTTTAT
1 A-TTTAAAAATTATTTTAT
4067596 ATTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAAAAATTATTTTATT
Found at i:4068153 original size:15 final size:16
Alignment explanation
Indices: 4068133--4068167 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4068123 ATTATAAAAG
*
4068133 ATATATTAT-TTATTT
1 ATATATTATATAATTT
4068148 ATATATTATATAATTT
1 ATATATTATATAATTT
4068164 ATAT
1 ATAT
4068168 CATATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTATATAATTT
Found at i:4068496 original size:15 final size:15
Alignment explanation
Indices: 4068472--4068501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4068462 ATCGATAAAC
4068472 TAATTAAATTTAATT
1 TAATTAAATTTAATT
*
4068487 TAATTCAATTTAATT
1 TAATTAAATTTAATT
4068502 ATATATATAT
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTAAATTTAATT
Found at i:4069077 original size:16 final size:17
Alignment explanation
Indices: 4069038--4069086 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
4069028 AATTTTTTAA
*
4069038 TAATAAATATAAAATAG
1 TAATAAAAATAAAATAG
*
4069055 TAA-AAAAAT-AAATAT
1 TAATAAAAATAAAATAG
4069070 TAATAAAAATTAAAATA
1 TAATAAAAA-TAAAATA
4069087 TGATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.30
16 10 0.37
17 4 0.15
18 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TAATAAAAATAAAATAG
Found at i:4069085 original size:18 final size:18
Alignment explanation
Indices: 4069034--4069087 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
4069024 TTAAAATTTT
4069034 TTAATAATAAATATAAAATA
1 TTAATAA-AAAT-TAAAATA
*
4069054 GTAA-AAAAA-T-AAATA
1 TTAATAAAAATTAAAATA
4069069 TTAATAAAAATTAAAATA
1 TTAATAAAAATTAAAATA
4069087 T
1 T
4069088 GATAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 8 0.28
16 6 0.21
17 1 0.03
18 9 0.31
19 2 0.07
20 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAATAAAAATTAAAATA
Found at i:4069440 original size:19 final size:18
Alignment explanation
Indices: 4069418--4069465 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
4069408 ATATATGTAA
4069418 ATAATTTAATAAATATGAT
1 ATAATTTAATAAATAT-AT
**
4069437 ATAATTTTTTAAATATAT
1 ATAATTTAATAAATATAT
*
4069455 -TAATATAATAA
1 ATAATTTAATAA
4069466 TTTAATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 14 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAATTTAATAAATATAT
Found at i:4069492 original size:44 final size:41
Alignment explanation
Indices: 4069417--4069512 Score: 101
Period size: 44 Copynumber: 2.3 Consensus size: 41
4069407 TATATATGTA
4069417 AATAATTTAATAAATATGATATAATTTTTTAAATATATTAATAT
1 AATAATTTAATAAATATGATATAATTTTTTAAA-AT-TTAA-AT
* *
4069461 AATAATTTAATATATAT-AT-TATTTATATTTAAAATTTAAAT
1 AATAATTTAATAAATATGATATAATT-T-TTTAAAATTTAAAT
4069502 -A-AATTTAATAA
1 AATAATTTAATAA
4069513 TTACTTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
39 9 0.19
40 1 0.02
41 2 0.04
42 8 0.17
43 5 0.11
44 22 0.47
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (41 bp):
AATAATTTAATAAATATGATATAATTTTTTAAAATTTAAAT
Found at i:4070297 original size:15 final size:14
Alignment explanation
Indices: 4070277--4070330 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
4070267 TTTTTTATTA
4070277 AATAAAATTATAATT
1 AATAAAATT-TAATT
*
4070292 AATAAAATTTATTT
1 AATAAAATTTAATT
*
4070306 AA-AAATATTTAATA
1 AATAAA-ATTTAATT
4070320 AAT-AAATTTAA
1 AATAAAATTTAA
4070331 AGTTAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 16 0.47
15 9 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAAATTTAATT
Found at i:4070328 original size:13 final size:14
Alignment explanation
Indices: 4070270--4070344 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 14
4070260 TATAAAATTT
*
4070270 TTTATTAAATAAAA
1 TTTAATAAATAAAA
*
4070284 TTATAATTAATAAAA
1 TT-TAATAAATAAAA
* *
4070299 TTTATTTAAA-AATA
1 TTTA-ATAAATAAAA
4070313 TTTAATAAAT-AAA
1 TTTAATAAATAAAA
**
4070326 TTTAA-AGTTAAAA
1 TTTAATAAATAAAA
4070339 TTTAAT
1 TTTAAT
4070345 CATATAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
12 2 0.04
13 19 0.40
14 11 0.23
15 15 0.32
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (14 bp):
TTTAATAAATAAAA
Found at i:4070494 original size:18 final size:18
Alignment explanation
Indices: 4070464--4070501 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4070454 AACGAATATT
*
4070464 TAAATATTTATATA-AAA
1 TAAATATTAATATATAAA
4070481 TAAATTATTAATATATAAA
1 TAAA-TATTAATATATAAA
4070500 TA
1 TA
4070502 TTTATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATTAATATATAAA
Found at i:4070506 original size:18 final size:19
Alignment explanation
Indices: 4070458--4070510 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 19
4070448 AAAATAAACG
*
4070458 AATATTTAAATATTTATAT
1 AATATATAAATATTTATAT
4070477 AA-A-AT-AA-A-TTAT-T
1 AATATATAAATATTTATAT
4070490 AATATATAAATATTTATAT
1 AATATATAAATATTTATAT
4070509 AA
1 AA
4070511 ATTTAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 12
0.68 0.03 0.30
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 3 0.11
16 4 0.15
17 2 0.07
18 5 0.19
19 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATATAAATATTTATAT
Found at i:4071437 original size:13 final size:13
Alignment explanation
Indices: 4071419--4071448 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4071409 ATACGTAAAT
4071419 TTTTTTCTCTTTC
1 TTTTTTCTCTTTC
*
4071432 TTTTTTTTCTTTC
1 TTTTTTCTCTTTC
4071445 TTTT
1 TTTT
4071449 CTTTCTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCTCTTTC
Found at i:4071453 original size:13 final size:13
Alignment explanation
Indices: 4071426--4071477 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
4071416 AATTTTTTTC
*
4071426 TCTTTCTTTTTTT
1 TCTTTCTTTTCTT
4071439 TCTTTCTTTTCTT
1 TCTTTCTTTTCTT
* *
4071452 TCTCTCTCCTTTCCT
1 TCT-T-TCTTTTCTT
*
4071467 GCTTTCTTTTC
1 TCTTTCTTTTC
4071478 ATTCAGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 21 0.66
14 2 0.06
15 9 0.28
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (13 bp):
TCTTTCTTTTCTT
Found at i:4072083 original size:28 final size:27
Alignment explanation
Indices: 4071989--4072088 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
4071979 GTACATATAA
* *
4071989 AAATATATATAAAATAAAATA-AATTAT
1 AAATATATA-AAAAAAAAATATAAATAT
* * *** *
4072016 TAATATGTAAAAAATTTATATAAAAAT
1 AAATATATAAAAAAAAAATATAAATAT
*
4072043 ATAATATTTTAAATAAAAAAATATAAATAT
1 A-AATA-TATAAA-AAAAAAATATAAATAT
4072073 AAATATATAAAAAAAA
1 AAATATATAAAAAAAA
4072089 TTTCTTTTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
26 7 0.13
27 16 0.30
28 9 0.17
29 9 0.17
30 13 0.24
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (27 bp):
AAATATATAAAAAAAAAATATAAATAT
Found at i:4072084 original size:22 final size:24
Alignment explanation
Indices: 4072032--4072085 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
4072022 GTAAAAAATT
*
4072032 TATATAAAAATATAATATTTTAAA
1 TATATAAAAATATAATATTATAAA
4072056 TA-A-AAAAATATAA-A-TATAAA
1 TATATAAAAATATAATATTATAAA
4072076 TATATAAAAA
1 TATATAAAAA
4072086 AAATTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 15 0.56
23 1 0.04
24 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATAAAAATATAATATTATAAA
Found at i:4073834 original size:44 final size:38
Alignment explanation
Indices: 4073785--4073892 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 38
4073775 ATAATAAAAT
*
4073785 ATTAAAAAAAAATTATATTAATATTTATATATTTTTATAATTAA
1 ATTAAAAAAAAATTATATTAA-A--TA-ATA-ATTTA-AATTAA
* *
4073829 ATTAAAAAAACTATTTTATTAAATAATAATTTAAATTAA
1 ATTAAAAAAA-AATTATATTAAATAATAATTTAAATTAA
4073868 ATTAAATTAAAAAATTATATATAAA
1 ATTAAA--AAAAAATTATAT-TAAA
4073893 ATCTTAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
39 12 0.22
40 10 0.18
41 11 0.20
42 2 0.04
44 11 0.20
45 9 0.16
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (38 bp):
ATTAAAAAAAAATTATATTAAATAATAATTTAAATTAA
Found at i:4076547 original size:18 final size:18
Alignment explanation
Indices: 4076512--4076550 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4076502 TTTTATATTC
** *
4076512 ATATTTTTATGAATATAA
1 ATATTTTTAAAAAAATAA
4076530 ATATTTTTAAAAAAATAA
1 ATATTTTTAAAAAAATAA
4076548 ATA
1 ATA
4076551 ATCGAAGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATTTTTAAAAAAATAA
Found at i:4076991 original size:18 final size:17
Alignment explanation
Indices: 4076963--4077010 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
4076953 AAATTCATAT
4076963 TTATA-TTAAATAAATA
1 TTATATTTAAATAAATA
4076979 TTCATATTTAAATTTAAAT-
1 TT-ATATTTAAA--TAAATA
4076998 TTATATTTAAATA
1 TTATATTTAAATA
4077011 TTAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 3 0.11
18 14 0.50
19 2 0.07
20 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATATTTAAATAAATA
Found at i:4077020 original size:18 final size:18
Alignment explanation
Indices: 4076982--4077021 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4076972 ATAAATATTC
*
4076982 ATATTTAAATTTAAATTT
1 ATATTTAAATTTAAATAT
4077000 ATATTTAAATATT-AATAT
1 ATATTTAAAT-TTAAATAT
4077018 ATAT
1 ATAT
4077022 GTTCAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTAAATTTAAATAT
Found at i:4078610 original size:16 final size:18
Alignment explanation
Indices: 4078583--4078616 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4078573 ATATTTGTTT
4078583 AAAAAATGTTT-AATTTA
1 AAAAAATGTTTAAATTTA
4078600 AAAAAAT-TTTAAATTTA
1 AAAAAATGTTTAAATTTA
4078617 TATTTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAAAATGTTTAAATTTA
Found at i:4079416 original size:2 final size:2
Alignment explanation
Indices: 4079409--4079434 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4079399 CTGAAGAAAT
4079409 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
4079435 GTTTTCTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4079984 original size:2 final size:2
Alignment explanation
Indices: 4079977--4080003 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4079967 ACAAATTAGA
4079977 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4080004 GTATTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4084990 original size:18 final size:18
Alignment explanation
Indices: 4084948--4084991 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4084938 CGATGGCTGA
*
4084948 TGCTGCTGTTGTTGTTGT
1 TGCTGCTGTTGTTGTTGC
*
4084966 TGTTGCTGTTGATT-TTGC
1 TGCTGCTGTTG-TTGTTGC
4084984 TGCTGCTG
1 TGCTGCTG
4084992 ATACAAGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.02, C:0.14, G:0.32, T:0.52
Consensus pattern (18 bp):
TGCTGCTGTTGTTGTTGC
Found at i:4093064 original size:21 final size:20
Alignment explanation
Indices: 4093040--4093082 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4093030 TAAAATAATA
4093040 AAATATTAAAATAATTTTTAT
1 AAATATTAAAATAA-TTTTAT
* *
4093061 AAATATTTATATAATTTTAT
1 AAATATTAAAATAATTTTAT
4093081 AA
1 AA
4093083 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATTAAAATAATTTTAT
Found at i:4102128 original size:21 final size:21
Alignment explanation
Indices: 4102071--4102128 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4102061 CAAACATCAC
*
4102071 AAATTTAATAAATA-TAAAAT
1 AAATTTAATATATATTAAAAT
*
4102091 AAATTTAA-ATATAATTAATAT
1 AAATTTAATATAT-ATTAAAAT
4102112 AAATTTAATATATATTA
1 AAATTTAATATATATTA
4102129 TATTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 3 0.09
20 9 0.27
21 17 0.52
22 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTTAATATATATTAAAAT
Found at i:4102504 original size:21 final size:21
Alignment explanation
Indices: 4102454--4102506 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
4102444 TAAAATTATT
4102454 AAATAATTTTAATTTAATTTTA
1 AAATAATTTTAA-TTAATTTTA
*
4102476 AAAAAATTTATAA-TAA-TTTA
1 AAATAATTT-TAATTAATTTTA
4102496 ATAATAATTTT
1 A-AATAATTTT
4102507 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
22 8 0.30
23 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAATTTTAATTAATTTTA
Found at i:4102504 original size:32 final size:35
Alignment explanation
Indices: 4102455--4102524 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
4102445 AAAATTATTA
*
4102455 AATAATTTTAATTTAA-TTTT-AAAAAAATT-TAT
1 AATAATTTTAATATAATTTTTAAAAAAAATTGTAT
4102487 AATAA-TTTAATAATAATTTTTTAAAAAAAATTGTAT
1 AATAATTTTAAT-ATAA-TTTTTAAAAAAAATTGTAT
4102523 AA
1 AA
4102525 CGCGTCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 6 0.19
32 8 0.25
34 4 0.12
35 9 0.28
36 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (35 bp):
AATAATTTTAATATAATTTTTAAAAAAAATTGTAT
Found at i:4102710 original size:10 final size:9
Alignment explanation
Indices: 4102695--4102770 Score: 50
Period size: 10 Copynumber: 8.1 Consensus size: 9
4102685 TTGAAAATTC
4102695 ATATATCTAT
1 ATATAT-TAT
4102705 ATATATTAT
1 ATATATTAT
4102714 AATTATATT-T
1 -A-TATATTAT
* *
4102724 AAAATATTTT
1 -ATATATTAT
4102734 ATAT-TTAT
1 ATATATTAT
*
4102742 ATTATATTTT
1 A-TATATTAT
4102752 A-ATATTAT
1 ATATATTAT
4102760 ATTATATTAT
1 A-TATATTAT
4102770 A
1 A
4102771 ATTATTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 11 0.20
9 14 0.26
10 23 0.43
11 6 0.11
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATATTAT
Found at i:4102722 original size:11 final size:11
Alignment explanation
Indices: 4102706--4102775 Score: 63
Period size: 11 Copynumber: 6.3 Consensus size: 11
4102696 TATATCTATA
4102706 TATATTATAAT
1 TATATTATAAT
*
4102717 TATATT-TAAAA
1 TATATTAT-AAT
* *
4102728 TATTTTATATT
1 TATATTATAAT
*
4102739 TATATTATATTT
1 TATATTATA-AT
4102751 TAATATTAT-AT
1 T-ATATTATAAT
4102762 TATATTATAAT
1 TATATTATAAT
4102773 TAT
1 TAT
4102776 TTTTTTATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
10 8 0.17
11 29 0.60
12 4 0.08
13 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTATAAT
Found at i:4102750 original size:18 final size:18
Alignment explanation
Indices: 4102706--4102767 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
4102696 TATATCTATA
*
4102706 TATATTATA-ATTATATT
1 TATATTATATTTTATATT
*
4102723 TA-A-AATATTTTATATT
1 TATATTATATTTTATATT
4102739 TATATTATATTTTA-ATAT
1 TATATTATATTTTATAT-T
4102757 TATATTATATT
1 TATATTATATT
4102768 ATAATTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.08
16 10 0.26
17 5 0.13
18 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTATATTTTATATT
Found at i:4102756 original size:13 final size:13
Alignment explanation
Indices: 4102715--4102762 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4102705 ATATATTATA
*
4102715 ATTATATTTAAAAT
1 ATTATATTT-TAAT
*
4102729 ATTTTATATTT-AT
1 ATTATAT-TTTAAT
4102742 ATTATATTTTAAT
1 ATTATATTTTAAT
4102755 ATTATATT
1 ATTATATT
4102763 ATATTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.10
13 18 0.62
14 6 0.21
15 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATATTTTAAT
Found at i:4102772 original size:18 final size:18
Alignment explanation
Indices: 4102738--4102772 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4102728 TATTTTATAT
*
4102738 TTATATTATATTTTAATA
1 TTATATTATATTATAATA
4102756 TTATATTATATTATAAT
1 TTATATTATATTATAAT
4102773 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTATATTATAATA
Found at i:4103024 original size:22 final size:23
Alignment explanation
Indices: 4102981--4103048 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 23
4102971 TGAATATAAA
* * *
4102981 TAAATAAATTAAATATAAATATTT
1 TAAA-AAATTATATTTATATATTT
**
4103005 TTTAAAATTAT-TTTATATA-TT
1 TAAAAAATTATATTTATATATTT
*
4103026 TAAAAAATTATATTTTTATATTT
1 TAAAAAATTATATTTATATATTT
4103049 ATACTTGATG
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 11 0.32
22 13 0.38
23 8 0.24
24 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAAAAATTATATTTATATATTT
Found at i:4103049 original size:22 final size:21
Alignment explanation
Indices: 4103008--4103049 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4102998 AATATTTTTT
4103008 AAAATTATTTTATATATTTAA
1 AAAATTATTTTATATATTTAA
*
4103029 AAAATTATATTTTTATATTTA
1 AAAATTAT-TTTATATATTTA
4103050 TACTTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAAATTATTTTATATATTTAA
Found at i:4103920 original size:94 final size:102
Alignment explanation
Indices: 4103821--4104017 Score: 284
Period size: 103 Copynumber: 2.0 Consensus size: 102
4103811 AGCACTTGAG
4103821 CTTAAATTTAGAGAT-A-CA-A-TTATATTTT-A-T-T-TTATTTATTTATTTATTAATATTTAA
1 CTTAAATTTAGAGATCATCATATTTATATTTTAACTATATTATTTATTTATTTATTAATATTTAA
* *
4103878 TTTGAAATATTTTTTATATATACTTTATTGCATCAAA
66 TTCGAAATATTTTTTATATATACTTTATTACATCAAA
* *
4103915 CTTAAATTTAGAGATGCATTATATTTTTATTTTAACTATATTATTTATTTATTTATTAATATTTA
1 CTTAAATTTAGAGAT-CATCATATTTATATTTTAACTATATTATTTATTTATTTATTAATATTTA
*
4103980 ATTCGAAATATTTTTTATATATATTTTATTACATCAAA
65 ATTCGAAATATTTTTTATATATACTTTATTACATCAAA
4104018 AAGTTATGTC
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
94 15 0.17
96 1 0.01
97 1 0.01
98 1 0.01
99 8 0.09
100 1 0.01
101 1 0.01
102 1 0.01
103 60 0.67
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (102 bp):
CTTAAATTTAGAGATCATCATATTTATATTTTAACTATATTATTTATTTATTTATTAATATTTAA
TTCGAAATATTTTTTATATATACTTTATTACATCAAA
Found at i:4106847 original size:18 final size:19
Alignment explanation
Indices: 4106814--4106851 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4106804 ATAGAGATAT
4106814 AATTTTTTAAATAAATAAA
1 AATTTTTTAAATAAATAAA
4106833 AATTTTTTAAA-AAATAAA
1 AATTTTTTAAATAAATAAA
4106851 A
1 A
4106852 TATATTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTTTTAAATAAATAAA
Found at i:4118412 original size:36 final size:36
Alignment explanation
Indices: 4118331--4118579 Score: 219
Period size: 36 Copynumber: 6.9 Consensus size: 36
4118321 GAACCAGCAG
* * * * * *
4118331 TTGCTCCTGGCCCATAGTTCTGACCAGATCCAGGAT
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
** * * * *
4118367 TTGAACCTTGCCGAAAACTCTGGCCATAGCCAAGAT
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
* ** *
4118403 TTGCTCCTTGCTCGTAATTCTGCCCATAGCCACGAT
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
* ** * *
4118439 TTGCACCACGCCCAGAATTCTCCCCATAGCCAGGAT
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
** *
4118475 TTGCTATTTGCCCAAAATTCTGCCCATTGCCAGGAT
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
* * *
4118511 TTGCCCCTTGCCCAAAATTCTGCCCATAGCCAGAAC
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
* * * *
4118547 TAGGTCCCTGCCCATAATTCTGCCCATAGCCAG
1 TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAG
4118580 AACTAGGTCC
Statistics
Matches: 166, Mismatches: 47, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 166 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (36 bp):
TTGCTCCTTGCCCAAAATTCTGCCCATAGCCAGGAT
Found at i:4118579 original size:72 final size:72
Alignment explanation
Indices: 4118331--4118579 Score: 248
Period size: 72 Copynumber: 3.5 Consensus size: 72
4118321 GAACCAGCAG
* * * * * * * * *
4118331 TTGCTCCTGGCCCATAGTTCTGACCAGATCCAGGATTTGAACCTTGCCGAAAACTCTGGCCATAG
1 TTGCTCCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCACCTTGCCCAAAATTCTGCCCATAG
4118396 CCA-AGAT
66 CCAGA-AT
* * * ** * *
4118403 TTGCTCCTTGCTCGTAATTCTGCCCATAGCCACGATTTGCACCACGCCCAGAATTCTCCCCATAG
1 TTGCTCCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCACCTTGCCCAAAATTCTGCCCATAG
*
4118468 CCAGGAT
66 CCAGAAT
** * * *
4118475 TTGCTATTTGCCCAAAATTCTGCCCATTGCCAGGATTTGCCCCTTGCCCAAAATTCTGCCCATAG
1 TTGCTCCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCACCTTGCCCAAAATTCTGCCCATAG
*
4118540 CCAGAAC
66 CCAGAAT
* * *
4118547 TAGGTCCCTGCCCATAATTCTGCCCATAGCCAG
1 TTGCTCCTTGCCCATAATTCTGCCCATAGCCAG
4118580 AACTAGGTCC
Statistics
Matches: 138, Mismatches: 38, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (72 bp):
TTGCTCCTTGCCCATAATTCTGCCCATAGCCAGGATTTGCACCTTGCCCAAAATTCTGCCCATAG
CCAGAAT
Found at i:4118580 original size:36 final size:36
Alignment explanation
Indices: 4118483--4118602 Score: 161
Period size: 36 Copynumber: 3.3 Consensus size: 36
4118473 ATTTGCTATT
* * ** *
4118483 TGCCCAAAATTCTGCCCATTGCCAGGA-TTTGCCCC
1 TGCCCAAAATTCTGCCCATAGCCAGAACTAGGTCCC
4118518 TTGCCCAAAATTCTGCCCATAGCCAGAACTAGGTCCC
1 -TGCCCAAAATTCTGCCCATAGCCAGAACTAGGTCCC
*
4118555 TGCCCATAATTCTGCCCATAGCCAGAACTAGGTCCC
1 TGCCCAAAATTCTGCCCATAGCCAGAACTAGGTCCC
*
4118591 TGCCCATAATTC
1 TGCCCAAAATTC
4118603 CCACCTTGTG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 72 0.94
37 5 0.06
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (36 bp):
TGCCCAAAATTCTGCCCATAGCCAGAACTAGGTCCC
Found at i:4123128 original size:35 final size:34
Alignment explanation
Indices: 4123038--4123134 Score: 122
Period size: 35 Copynumber: 2.8 Consensus size: 34
4123028 AAAAAATAAA
* * *
4123038 ATAACATTCAGTTACATCCTCTTTGCATACATGT
1 ATAACATTTAGTTAAATCCTCTTTGTATACATGT
*
4123072 AAAACATTTAGTTAAAATCCTCTTTGTATTACATGT
1 ATAACATTTAGTT-AAATCCTCTTTGTA-TACATGT
**
4123108 ATAACATTTAGTTATTTCCTCTTTGTA
1 ATAACATTTAGTTAAATCCTCTTTGTA
4123135 CAACACTAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 11 0.20
35 24 0.44
36 19 0.35
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (34 bp):
ATAACATTTAGTTAAATCCTCTTTGTATACATGT
Found at i:4127958 original size:3 final size:3
Alignment explanation
Indices: 4127950--4127978 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4127940 GAAAAGAGTC
4127950 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4127979 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4127983 original size:2 final size:2
Alignment explanation
Indices: 4127976--4128001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4127966 AAGAAGAAGA
4127976 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4128002 TTACCTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4128643 original size:14 final size:14
Alignment explanation
Indices: 4128603--4128643 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4128593 AAAATAAAAT
*
4128603 TTTAATTATTTAAA
1 TTTATTTATTTAAA
* *
4128617 TTTATGTAATTAAA
1 TTTATTTATTTAAA
4128631 TTTATTTATTTAA
1 TTTATTTATTTAA
4128644 TATAAATAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TTTATTTATTTAAA
Found at i:4129348 original size:24 final size:24
Alignment explanation
Indices: 4129314--4129372 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
4129304 CATATATAAA
4129314 AAAATCATAATTAAAATAAAATTT-T
1 AAAAT-ATAATT-AAATAAAATTTAT
*
4129339 AAAATATAA-TAAATATAATTTAT
1 AAAATATAATTAAATAAAATTTAT
*
4129362 TAAATATAATT
1 AAAATATAATT
4129373 TTTATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 10 0.33
24 5 0.17
25 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATATAATTAAATAAAATTTAT
Found at i:4129385 original size:15 final size:15
Alignment explanation
Indices: 4129347--4129386 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
4129337 TTAAAATATA
4129347 ATAAATATAATTTAT
1 ATAAATATAATTTAT
*
4129362 -TAAATATAATTTTT
1 ATAAATATAATTTAT
*
4129376 ATAAAAATAAT
1 ATAAATATAAT
4129387 AAAATAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATATAATTTAT
Found at i:4129857 original size:2 final size:2
Alignment explanation
Indices: 4129850--4129890 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4129840 ATGGGCATAA
4129850 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4129891 TCCCTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4130574 original size:22 final size:22
Alignment explanation
Indices: 4130549--4130594 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4130539 CTTAAAAGTT
*
4130549 TAAAATATTATTTATAAATTAA
1 TAAAAAATTATTTATAAATTAA
*
4130571 TAAAAAATTATTTGTAAATTAA
1 TAAAAAATTATTTATAAATTAA
4130593 TA
1 TA
4130595 TTTATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAAAATTATTTATAAATTAA
Found at i:4130604 original size:22 final size:21
Alignment explanation
Indices: 4130579--4130619 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4130569 AATAAAAAAT
4130579 TATTTGTA-AATTAATATTTATA
1 TATTT-TATAATTAA-ATTTATA
4130601 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
4130620 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:4130622 original size:33 final size:32
Alignment explanation
Indices: 4130585--4130660 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 32
4130575 AAATTATTTG
4130585 TAAATTAATATTTATATATTTTATAATTAAATT-
1 TAAA-TAATATTTATAT-TTTTATAATTAAATTA
*
4130618 TAAATAA-A--AATATTTTTATAATTAAATTAA
1 TAAATAATATTTATATTTTTATAATTAAATT-A
*
4130648 AAAATAATATTTA
1 TAAATAATATTTA
4130661 AAATTTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
28 15 0.43
29 4 0.11
30 6 0.17
31 2 0.06
32 3 0.09
33 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TAAATAATATTTATATTTTTATAATTAAATTA
Found at i:4130635 original size:28 final size:27
Alignment explanation
Indices: 4130598--4130659 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 27
4130588 ATTAATATTT
4130598 ATATATTTTATAATTAAATTTAAATAAA-A
1 ATAT-TTTTATAATTAAA-TTAAA-AAATA
4130627 ATATTTTTATAATTAAATTAAAAAATA
1 ATATTTTTATAATTAAATTAAAAAATA
4130654 ATATTT
1 ATATTT
4130660 AAAATTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.09
27 12 0.38
28 13 0.41
29 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATTTTTATAATTAAATTAAAAAATA
Found at i:4131479 original size:26 final size:26
Alignment explanation
Indices: 4131449--4131498 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4131439 AATCTAGTCA
4131449 AAATTAAAATTAAAAACAAATATTTT
1 AAATTAAAATTAAAAACAAATATTTT
** * *
4131475 AAATTTTAATTATAAATAAATATT
1 AAATTAAAATTAAAAACAAATATT
4131499 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATTAAAATTAAAAACAAATATTTT
Found at i:4131528 original size:31 final size:27
Alignment explanation
Indices: 4131456--4131533 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 27
4131446 TCAAAATTAA
* *
4131456 AATTAAAAACAAATATT-TTAAATTTT
1 AATTATAAATAAATATTATTAAATTTT
*
4131482 AATTATAAATAAATATTATTTAATTTT
1 AATTATAAATAAATATTATTAAATTTT
4131509 AATTATATAAATATAAATATTATTA
1 AA-T-TAT-AA-ATAAATATTATTA
4131534 TAAAAATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 15 0.35
27 10 0.23
28 1 0.02
29 3 0.07
30 2 0.05
31 12 0.28
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTATAAATAAATATTATTAAATTTT
Found at i:4132935 original size:16 final size:18
Alignment explanation
Indices: 4132896--4132997 Score: 60
Period size: 16 Copynumber: 6.2 Consensus size: 18
4132886 GCTGGTTCAA
*
4132896 AATTAAATATAATTTTTT
1 AATTAAATATAATTATTT
*
4132914 ATTTAAAT-T-ATTATTT
1 AATTAAATATAATTATTT
*
4132930 AATT-AATAAAATT-TTT
1 AATTAAATATAATTATTT
* * *
4132946 ATTTAAATTTAATTA-TA
1 AATTAAATATAATTATTT
* * *
4132963 AAATATATA-AAATA-TT
1 AATTAAATATAATTATTT
4132979 AATTAAA-ATAATT-TTT
1 AATTAAATATAATTATTT
4132995 AAT
1 AAT
4132998 AATTATTTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 14
0.66 0.18 0.15
Matches are distributed among these distances:
15 4 0.07
16 33 0.54
17 17 0.28
18 7 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAAATATAATTATTT
Found at i:4132973 original size:34 final size:32
Alignment explanation
Indices: 4132894--4132975 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 32
4132884 GAGCTGGTTC
*
4132894 AAAATTAAATATAATTTTTTATTTAAATTATTAT
1 AAAATT-AATA-AAATTTTTATTTAAATTATTAT
**
4132928 TTAATTAATAAAATTTTTATTTAAATTTAATTAT
1 AAAATTAATAAAATTTTTATTTAAA-TT-ATTAT
4132962 AAAA-TATATAAAAT
1 AAAATTA-ATAAAAT
4132976 ATTAATTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
32 14 0.35
33 8 0.20
34 18 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AAAATTAATAAAATTTTTATTTAAATTATTAT
Found at i:4133022 original size:15 final size:15
Alignment explanation
Indices: 4132992--4133048 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
4132982 TAAAATAATT
4132992 TTTAATAATTATTTAAA
1 TTTAATAA--ATTTAAA
*
4133009 TTTTATAAATTTAAA
1 TTTAATAAATTTAAA
**
4133024 TAAAATAAATTTAAA
1 TTTAATAAATTTAAA
4133039 TTTAAATAAA
1 TTT-AATAAA
4133049 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 20 0.61
16 6 0.18
17 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATAAATTTAAA
Found at i:4137658 original size:26 final size:26
Alignment explanation
Indices: 4137595--4137658 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
4137585 TTGTTGTAAC
* *
4137595 TTATTTTTATAATTGTATAATATATA
1 TTATTTTTATTATTGTATAAGATATA
* *
4137621 TTAATTTT-TTATT-TATATAGATATG
1 TTATTTTTATTATTGTATA-AGATATA
4137646 TTATTTTTATTAT
1 TTATTTTTATTAT
4137659 AGAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 4 0.13
25 16 0.52
26 11 0.35
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TTATTTTTATTATTGTATAAGATATA
Found at i:4137953 original size:38 final size:39
Alignment explanation
Indices: 4137901--4137975 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
4137891 AAGTTTAATT
* *
4137901 TAACTTATGAATATTTATATTTAAAAATGCGTTTTTAAA
1 TAACTTATAAATATTTATATTTAAAAATACGTTTTTAAA
4137940 TAACTT-TAAATATTTATATTTAAAAATACGTTTTTA
1 TAACTTATAAATATTTATATTTAAAAATACGTTTTTA
4137976 TAATTTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 28 0.82
39 6 0.18
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (39 bp):
TAACTTATAAATATTTATATTTAAAAATACGTTTTTAAA
Found at i:4146395 original size:17 final size:17
Alignment explanation
Indices: 4146373--4146444 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
4146363 ATATTATTTA
4146373 TTTAATAATTTTAATAT
1 TTTAATAATTTTAATAT
4146390 TTTAATAA-TTT-ATAT
1 TTTAATAATTTTAATAT
* *
4146405 TAT-ATATTTTTTAATAT
1 TTTAATA-ATTTTAATAT
* *
4146422 TTTATTTTATTTTAATTAT
1 TTTA-ATAATTTTAA-TAT
4146441 TTTA
1 TTTA
4146445 GTATGTTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.07
15 6 0.14
16 6 0.14
17 14 0.33
18 6 0.14
19 8 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATAATTTTAATAT
Found at i:4146396 original size:42 final size:42
Alignment explanation
Indices: 4146350--4146442 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 42
4146340 ATCTGTATCA
4146350 TAATATATTTAAAATAT-TATTTATTTAATAATTTTA-ATATTT
1 TAATATATTTAAAATATATATTT-TTTAAT-ATTTTATATATTT
* * *
4146392 TAATA-ATTTATATTATATATTTTTTAATATTTTATTTTATTT
1 TAATATATTTAAAATATATATTTTTTAATATTTTA-TATATTT
4146434 TAAT-TATTT
1 TAATATATTT
4146443 TAGTATGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
40 6 0.14
41 15 0.34
42 23 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (42 bp):
TAATATATTTAAAATATATATTTTTTAATATTTTATATATTT
Found at i:4146440 original size:9 final size:8
Alignment explanation
Indices: 4146373--4146444 Score: 56
Period size: 8 Copynumber: 8.5 Consensus size: 8
4146363 ATATTATTTA
4146373 TTTAATAAT
1 TTTAAT-AT
4146382 TTTAATAT
1 TTTAATAT
*
4146390 TTTAATAA
1 TTTAATAT
4146398 TTT-ATAT
1 TTTAATAT
* *
4146405 TATATATTT
1 TTTA-ATAT
4146414 TTTAATAT
1 TTTAATAT
*
4146422 TTTATTTTAT
1 TTTA--ATAT
4146432 TTTAATTAT
1 TTTAA-TAT
4146441 TTTA
1 TTTA
4146445 GTATGTTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
7 5 0.10
8 19 0.38
9 19 0.38
10 7 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAATAT
Found at i:4146453 original size:19 final size:18
Alignment explanation
Indices: 4146380--4146453 Score: 57
Period size: 19 Copynumber: 4.3 Consensus size: 18
4146370 TTATTTAATA
4146380 ATTTTAATATTTTA--AT
1 ATTTTAATATTTTAGTAT
* *
4146396 AATTT-ATATTATA-TAT
1 ATTTTAATATTTTAGTAT
* * *
4146412 TTTTTAATATTTTATTTT
1 ATTTTAATATTTTAGTAT
4146430 ATTTTAATTATTTTAGTAT
1 ATTTTAA-TATTTTAGTAT
*
4146449 GTTTT
1 ATTTT
4146454 GATTTGTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
15 7 0.16
16 9 0.20
17 7 0.16
18 8 0.18
19 13 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTAATATTTTAGTAT
Found at i:4148325 original size:40 final size:38
Alignment explanation
Indices: 4148263--4148341 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 38
4148253 TAATATTTTA
* *
4148263 AAAATATTTTAAAATTAATTATACATCTATTAATAAATAT
1 AAAATATTTTAAAATTAATTATA-ATATAATAA-AAATAT
*
4148303 AAAATATTTT-AAATATATTTATAATATAATAAAAATAT
1 AAAATATTTTAAAAT-TAATTATAATATAATAAAAATAT
4148341 A
1 A
4148342 TTAGGTCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.20
39 11 0.31
40 17 0.49
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (38 bp):
AAAATATTTTAAAATTAATTATAATATAATAAAAATAT
Found at i:4148567 original size:18 final size:17
Alignment explanation
Indices: 4148568--4148618 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
4148558 ATAAAATAAA
*
4148568 AAAATAAAAAAATAATT
1 AAAATAAAAATATAATT
*
4148585 AAATATAAAAATATGATAT
1 AAA-ATAAAAATATAAT-T
*
4148604 AAAATAAATATATAA
1 AAAATAAAAATATAA
4148619 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 21 0.75
19 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATAAAAATATAATT
Found at i:4148575 original size:26 final size:27
Alignment explanation
Indices: 4148523--4148595 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
4148513 TTTTTCATCC
* * *
4148523 AAAAATAAATAAAGA-AAAAAATTTAA
1 AAAAATAATTAAATATAAAAAAATTAA
* *
4148549 AAATATGATATAAA-ATAAAAAAA-TAA
1 AAAAATAAT-TAAATATAAAAAAATTAA
4148575 AAAAATAATTAAATATAAAAA
1 AAAAATAATTAAATATAAAAA
4148596 TATGATATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.11
26 24 0.63
27 10 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (27 bp):
AAAAATAATTAAATATAAAAAAATTAA
Found at i:4148579 original size:9 final size:8
Alignment explanation
Indices: 4148523--4148597 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
4148513 TTTTTCATCC
4148523 AAAAATAA
1 AAAAATAA
* *
4148531 ATAAAGAA
1 AAAAATAA
4148539 AAAAATTTAA
1 AAAAA--TAA
*
4148549 AAATATGATA
1 AAAAAT-A-A
*
4148559 TAAAATAA
1 AAAAATAA
4148567 AAAAATAA
1 AAAAATAA
4148575 AAAAATAA
1 AAAAATAA
** *
4148583 TTAAATAT
1 AAAAATAA
4148591 AAAAATA
1 AAAAATA
4148598 TGATATAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
8 37 0.74
9 2 0.04
10 11 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAAATAA
Found at i:4148594 original size:44 final size:44
Alignment explanation
Indices: 4148523--4148611 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
4148513 TTTTTCATCC
* *
4148523 AAAAATAAATAAAGAAAAAAATTTAAAAATATGATATAAAATAA
1 AAAAATAAAAAAAGAAAAAAATATAAAAATATGATATAAAATAA
* **
4148567 AAAAATAAAAAAATAATTAAATATAAAAATATGATATAAAATAA
1 AAAAATAAAAAAAGAAAAAAATATAAAAATATGATATAAAATAA
4148611 A
1 A
4148612 TATATAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (44 bp):
AAAAATAAAAAAAGAAAAAAATATAAAAATATGATATAAAATAA
Found at i:4148611 original size:24 final size:24
Alignment explanation
Indices: 4148537--4148622 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
4148527 ATAAATAAAG
*
4148537 AAAA-AAATTTAAAAATATGATAT
1 AAAATAAATATAAAAATATGATAT
* *
4148560 AAAATAAA-A-AAATAA-A-AAAAT
1 AAAATAAATATAAA-AATATGATAT
*
4148581 -AATTAAATATAAAAATATGATAT
1 AAAATAAATATAAAAATATGATAT
*
4148604 AAAATAAATATATAAATAT
1 AAAATAAATATAAAAATAT
4148623 TTTAAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
20 6 0.12
21 6 0.12
22 8 0.17
23 9 0.19
24 19 0.40
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAATATAAAAATATGATAT
Found at i:4148612 original size:16 final size:15
Alignment explanation
Indices: 4148547--4148614 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
4148537 AAAAAAATTT
*
4148547 AAAAATATGATATAA
1 AAAAATATGAAATAA
4148562 AATAAA-A--AAATAA
1 AA-AAATATGAAATAA
* *
4148575 AAAAATAATTAAATAT
1 AAAAAT-ATGAAATAA
*
4148591 AAAAATATGATATAA
1 AAAAATATGAAATAA
4148606 AATAAATAT
1 AA-AAATAT
4148615 ATAAATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.07
13 7 0.17
14 1 0.02
15 11 0.26
16 20 0.48
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATATGAAATAA
Found at i:4148613 original size:32 final size:31
Alignment explanation
Indices: 4148571--4148720 Score: 110
Period size: 32 Copynumber: 4.7 Consensus size: 31
4148561 AAATAAAAAA
* *
4148571 ATAAAA-AAATAATTAAATATAAAAATATGAT
1 ATAAAATAAATAATTAAATATTAAAAT-TTAT
4148602 ATAAAATAAAT-ATATAAATATTTTAAAATTTAT
1 ATAAAATAAATAAT-TAAATA--TTAAAATTTAT
* *
4148635 ATAATATAAATTATTAATATATTAAAATTTAT
1 ATAAAATAAATAATTAA-ATATTAAAATTTAT
* * *
4148667 AT-AAATATAATATCTTAAATAATTATAATATA-
1 ATAAAATA-AATA-ATTAAAT-ATTAAAATTTAT
* *
4148699 ATAAAATATATAAATATAATAT
1 ATAAAATAAATAATTA-AATAT
4148721 AAATACATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
31 16 0.16
32 36 0.37
33 34 0.35
34 11 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (31 bp):
ATAAAATAAATAATTAAATATTAAAATTTAT
Found at i:4148654 original size:18 final size:19
Alignment explanation
Indices: 4148633--4148724 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 19
4148623 TTTAAAATTT
4148633 ATATAATATAAATTAT-TA
1 ATATAATATAAATTATATA
*
4148651 ATATATTA-AAATTTATATAA
1 ATATAATATAAA-TTATAT-A
*
4148671 ATATAATATCTTAAATAATTATA
1 ATATAATA---TAAATTA-TATA
4148694 ATATAATA-AAA-TATATAA
1 ATATAATATAAATTATAT-A
4148712 ATATAATATAAAT
1 ATATAATATAAAT
4148725 ACATAATCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
17 6 0.10
18 21 0.36
19 7 0.12
20 8 0.14
23 11 0.19
24 6 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATAATATAAATTATATA
Found at i:4148667 original size:25 final size:25
Alignment explanation
Indices: 4148635--4148723 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 25
4148625 TAAAATTTAT
*
4148635 ATAA-TATAAATTATTAATATATTAA
1 ATAATTATAAAATA-TAATATATTAA
* *
4148660 A-ATTTATATAAATATAATATCTTAA
1 ATAATTATA-AAATATAATATATTAA
* *
4148685 ATAATTATAATATAATAAAATATATAA
1 ATAATTATAAAAT-ATAATATAT-TAA
*
4148712 ATATAATATAAA
1 ATA-ATTATAAA
4148724 TACATAATCT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
24 1 0.02
25 19 0.39
26 17 0.35
27 6 0.12
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATTATAAAATATAATATATTAA
Found at i:4148675 original size:20 final size:19
Alignment explanation
Indices: 4148612--4148674 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
4148602 ATAAAATAAA
*
4148612 TATATAAATATTTTAAAATT
1 TATAT-AATATATTAAAATT
4148632 TATAT-A-ATA-T-AAA-T
1 TATATAATATATTAAAATT
4148646 TAT-TAATATATTAAAATT
1 TATATAATATATTAAAATT
4148664 TATATAA-ATAT
1 TATATAATATAT
4148675 AATATCTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 1 0.03
14 5 0.14
15 6 0.17
16 2 0.06
17 5 0.14
18 9 0.25
19 3 0.08
20 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:4148711 original size:23 final size:23
Alignment explanation
Indices: 4148637--4148722 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
4148627 AAATTTATAT
*
4148637 AATATA-AATTATTAATATATTAA
1 AATATATAATTA-TAATATAATAA
* *
4148660 AATTTAT-A-TA-AATATAATAT
1 AATATATAATTATAATATAATAA
** *
4148680 CTTAAATAATTATAATATAATAA
1 AATATATAATTATAATATAATAA
*
4148703 AATATATAAATATAATATAA
1 AATATATAATTATAATATAA
4148723 ATACATAATC
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
20 11 0.23
21 1 0.02
22 4 0.09
23 31 0.66
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATATAATTATAATATAATAA
Found at i:4149110 original size:13 final size:13
Alignment explanation
Indices: 4149092--4149138 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 13
4149082 AAAATATGTC
4149092 ATATTATATTTAT
1 ATATTATATTTAT
4149105 ATATTAT-TTTA-
1 ATATTATATTTAT
4149116 ATATT-TATTTAAAT
1 ATATTATATTT--AT
4149130 ATATTATAT
1 ATATTATAT
4149139 CTAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.03
11 8 0.28
12 4 0.14
13 8 0.28
14 5 0.17
15 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATATTTAT
Found at i:4149148 original size:25 final size:25
Alignment explanation
Indices: 4149103--4149150 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4149093 TATTATATTT
* *
4149103 ATATATTATTTTAATATTTATTTAA
1 ATATATTATTCTAATAATTATTTAA
4149128 ATATATTATATCTAA-AATTATTT
1 ATATATTAT-TCTAATAATTATTT
4149151 GGAGTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATATTATTCTAATAATTATTTAA
Found at i:4152212 original size:2 final size:2
Alignment explanation
Indices: 4152205--4152242 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4152195 AGATTGATTC
4152205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4152243 GAAGTAACAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4153880 original size:2 final size:2
Alignment explanation
Indices: 4153873--4153899 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4153863 ATTTTTCGAT
4153873 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4153900 TCAGGTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4154174 original size:17 final size:17
Alignment explanation
Indices: 4154149--4154183 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4154139 GTATATATGA
*
4154149 ATATTTTTAATTCTTTT
1 ATATATTTAATTCTTTT
*
4154166 ATATATTTAATTTTTTT
1 ATATATTTAATTCTTTT
4154183 A
1 A
4154184 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATATTTAATTCTTTT
Found at i:4154194 original size:27 final size:28
Alignment explanation
Indices: 4154164--4154216 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
4154154 TTTAATTCTT
* *
4154164 TTATATATTTA-ATTTTTTTAAAAAAAA
1 TTATATATTTATATTTATATAAAAAAAA
*
4154191 TTATATTTTTATATTTATATAAAAAA
1 TTATATATTTATATTTATATAAAAAA
4154217 TAAGGGCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATATTTATATTTATATAAAAAAAA
Found at i:4157746 original size:24 final size:22
Alignment explanation
Indices: 4157690--4157752 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
4157680 TTTTTGGTGG
*
4157690 ATTTAATTTAAATTATTATTTA
1 ATTTAATTTAAAATATTATTTA
* *
4157712 A-TAAATTTAAAAGATTATTTAA
1 ATTTAATTTAAAATATTATTT-A
4157734 ATTTAATTATAAAATATTA
1 ATTTAATT-TAAAATATTA
4157753 ATATTAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 16 0.48
22 3 0.09
23 5 0.15
24 9 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTAATTTAAAATATTATTTA
Found at i:4158983 original size:11 final size:10
Alignment explanation
Indices: 4158958--4158989 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
4158948 TTTAAATTAA
4158958 TAAAAATATT
1 TAAAAATATT
4158968 TAAAAATATT
1 TAAAAATATT
4158978 TAAAAAATATT
1 T-AAAAATATT
4158989 T
1 T
4158990 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAAATATT
Found at i:4166156 original size:25 final size:26
Alignment explanation
Indices: 4166099--4166156 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
4166089 TTTTTTTAAT
4166099 TTATATTTGACCCACTCGATAAAAAA
1 TTATATTTGACCCACTCGATAAAAAA
*
4166125 TTATATTTGACCTACTCGATAAAAAA
1 TTATATTTGACCCACTCGATAAAAAA
4166151 TT-TATT
1 TTATATT
4166157 CTATTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (26 bp):
TTATATTTGACCCACTCGATAAAAAA
Found at i:4167366 original size:19 final size:20
Alignment explanation
Indices: 4167336--4167379 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
4167326 GTTAAGATTA
4167336 AATAATATATTAT-TTATAAT
1 AATAATATATTATATTA-AAT
4167356 AATAA-ATATTATATTAAAT
1 AATAATATATTATATTAAAT
4167375 AATAA
1 AATAA
4167380 CTCATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATATATTATATTAAAT
Found at i:4177117 original size:2 final size:2
Alignment explanation
Indices: 4177074--4177098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4177064 ATAAATTTCT
4177074 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4177099 TGAAAAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4178664 original size:32 final size:29
Alignment explanation
Indices: 4178606--4178677 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 29
4178596 TCTGATACTA
*
4178606 TCATAAATTTAATAAATTAAATAATT-AT
1 TCATAAATTTAATAAATTAAAAAATTAAT
4178634 TCATAAATTTAATTAATATTAGATAAAATTAAT
1 TCATAAATTTAA-TAA-ATTA-A-AAAATTAAT
*
4178667 T-GTAAATTTAA
1 TCATAAATTTAA
4178678 CGAATATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 12 0.32
29 3 0.08
30 4 0.11
31 1 0.03
32 14 0.38
33 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TCATAAATTTAATAAATTAAAAAATTAAT
Found at i:4179169 original size:24 final size:24
Alignment explanation
Indices: 4179137--4179184 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4179127 GTTGAGTTGA
4179137 CAATTGTAATTGTTAATTTTTTAT
1 CAATTGTAATTGTTAATTTTTTAT
4179161 CAATTGTAATTGTTAATTTTTTAT
1 CAATTGTAATTGTTAATTTTTTAT
4179185 TTATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.58
Consensus pattern (24 bp):
CAATTGTAATTGTTAATTTTTTAT
Found at i:4182277 original size:2 final size:2
Alignment explanation
Indices: 4182270--4182312 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4182260 GTAATATAAG
4182270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4182311 AT
1 AT
4182313 CTTTGCAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4183906 original size:17 final size:17
Alignment explanation
Indices: 4183863--4183909 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
4183853 ATTAAATTAT
*
4183863 TATAATATATATAAAAA
1 TATAATATAAATAAAAA
* *
4183880 TATGAA-ATAAATTAAGA
1 TAT-AATATAAATAAAAA
4183897 TATAATATAAATA
1 TATAATATAAATA
4183910 TAATCTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (17 bp):
TATAATATAAATAAAAA
Found at i:4184158 original size:11 final size:11
Alignment explanation
Indices: 4184144--4184191 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
4184134 ATTAAAATGC
4184144 AATATAAATAT
1 AATATAAATAT
*
4184155 AATATAAAAAAT
1 AATAT-AAATAT
* *
4184167 AATTTAAA-AA
1 AATATAAATAT
4184177 AATATAAATAT
1 AATATAAATAT
4184188 AATA
1 AATA
4184192 CGTATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 8 0.27
11 13 0.43
12 9 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATATAAATAT
Found at i:4184167 original size:35 final size:33
Alignment explanation
Indices: 4184127--4184191 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
4184117 TCACATTAAT
*
4184127 AAAATAAATTAAAATGCAATATAAATATAATATAA
1 AAAATAAATTAAAA--AAATATAAATATAATATAA
*
4184162 AAAATAATTTAAAAAAATATAAATATAATA
1 AAAATAAATTAAAAAAATATAAATATAATA
4184192 CGTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.54
35 13 0.46
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (33 bp):
AAAATAAATTAAAAAAATATAAATATAATATAA
Found at i:4184199 original size:39 final size:39
Alignment explanation
Indices: 4184156--4184230 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
4184146 TATAAATATA
4184156 ATATAAAAAATAAT-TTAAAA-AAATATAAATATAATACGT
1 ATAT-AAAAAT-ATGTTAAAATAAATATAAATATAATACGT
* * *
4184195 ATATATAAATATGTTAAAATATATATATATATAATA
1 ATATAAAAATATGTTAAAATAAATATAAATATAATA
4184231 AATTATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 2 0.06
38 11 0.35
39 18 0.58
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (39 bp):
ATATAAAAATATGTTAAAATAAATATAAATATAATACGT
Found at i:4184232 original size:20 final size:20
Alignment explanation
Indices: 4184178--4184232 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4184168 ATTTAAAAAA
**
4184178 ATATAAATATAAT-ACGTAT
1 ATATAAATATAATAAAATAT
**
4184197 ATATAAATATGTTAAAATAT
1 ATATAAATATAATAAAATAT
*
4184217 ATATATATATAATAAA
1 ATATAAATATAATAAA
4184233 TTATTAAAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
ATATAAATATAATAAAATAT
Found at i:4184254 original size:18 final size:20
Alignment explanation
Indices: 4184233--4184273 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4184223 ATATAATAAA
4184233 TTAT-TAAA-ACATAAAATT
1 TTATATAAATACATAAAATT
* *
4184251 TTATATAAATTCATAATATT
1 TTATATAAATACATAAAATT
4184271 TTA
1 TTA
4184274 AACACATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAATACATAAAATT
Found at i:4184343 original size:25 final size:26
Alignment explanation
Indices: 4184309--4184368 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
4184299 AAATATATAA
4184309 TCTTTTTCTTTTCTTTCC-ATTCCCT
1 TCTTTTTCTTTTCTTTCCTATTCCCT
*
4184334 TCTTTTTC-TTTCTTTCCTTCTTCCCT
1 TCTTTTTCTTTTCTTTCC-TATTCCCT
4184360 T-TTTTTCTT
1 TCTTTTTCTT
4184369 CTTTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 9 0.29
25 14 0.45
26 8 0.26
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (26 bp):
TCTTTTTCTTTTCTTTCCTATTCCCT
Found at i:4184345 original size:24 final size:25
Alignment explanation
Indices: 4184309--4184372 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
4184299 AAATATATAA
4184309 TCTTTTTCTTTTCTTTCC-ATTCCCT
1 TCTTTTTC-TTTCTTTCCTATTCCCT
*
4184334 TCTTTTTCTTTCTTTCCTTCTTCCCT
1 TCTTTTTCTTTCTTTCC-TATTCCCT
4184360 T-TTTTTC-TTCTTT
1 TCTTTTTCTTTCTTT
4184373 TTCTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 15 0.42
25 14 0.39
26 7 0.19
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (25 bp):
TCTTTTTCTTTCTTTCCTATTCCCT
Found at i:4184629 original size:18 final size:18
Alignment explanation
Indices: 4184608--4184642 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4184598 AAAAATCAAT
*
4184608 AAAAATAAAATTTATTTA
1 AAAAATAAAATTAATTTA
4184626 AAAAATAAAATTAATTT
1 AAAAATAAAATTAATTT
4184643 TAAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATAAAATTAATTTA
Found at i:4185965 original size:22 final size:22
Alignment explanation
Indices: 4185931--4185972 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4185921 TAATTTAACA
*
4185931 TTAAAATTATTTATTTAAATTT
1 TTAAAATTATTTAATTAAATTT
* *
4185953 TTAAATTTTTTTAATTAAAT
1 TTAAAATTATTTAATTAAAT
4185973 GAATTAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAAAATTATTTAATTAAATTT
Found at i:4191847 original size:26 final size:26
Alignment explanation
Indices: 4191796--4191847 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4191786 ATAGGTTTTA
* *
4191796 AAAATATTTATATTTATTTCATATTT
1 AAAATATTTATATTTATATCAAATTT
4191822 AAAATATTATATATTTATAT-AAATTT
1 AAAATATT-TATATTTATATCAAATTT
4191848 TTATTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAATATTTATATTTATATCAAATTT
Found at i:4192543 original size:22 final size:23
Alignment explanation
Indices: 4192501--4192543 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4192491 TAATTGATCA
4192501 TAAATTTATACAAATTATTTATT
1 TAAATTTATACAAATTATTTATT
4192524 TAAATTTA-A-AAATTTATTTA
1 TAAATTTATACAAA-TTATTTA
4192544 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 8 0.42
23 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTTATACAAATTATTTATT
Found at i:4195428 original size:6 final size:6
Alignment explanation
Indices: 4195417--4195482 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
4195407 CGATAATTTA
*
4195417 TATATT TATA-T TAAATTT TATATT T-TA-T TATA-T TATATT TATATT
1 TATATT TATATT TATA-TT TATATT TATATT TATATT TATATT TATATT
**
4195462 TA-AAA TA-ATT TATATT TATAT
1 TATATT TATATT TATATT TATAT
4195483 AAAATTTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
4 2 0.04
5 19 0.39
6 24 0.49
7 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:4195450 original size:22 final size:21
Alignment explanation
Indices: 4195422--4195462 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4195412 ATTTATATAT
4195422 TTATATTAAATTTTATATTTTA
1 TTATATTAAA-TTTATATTTTA
*
4195444 TTATATTATATTTATATTT
1 TTATATTAAATTTATATTT
4195463 AAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATATTAAATTTATATTTTA
Found at i:4195495 original size:20 final size:19
Alignment explanation
Indices: 4195468--4195535 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 19
4195458 TATTTAAAAT
4195468 AATTT-ATAT-TTATATAA
1 AATTTAATATATTATATAA
4195485 AATTTAATATATTA-AT--
1 AATTTAATATATTATATAA
4195501 AA-TT--TATATTATATAA
1 AATTTAATATATTATATAA
* *
4195517 ATTTTAATAAATTTATATA
1 AATTTAATATA-TTATATA
4195536 TTAAATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
15 2 0.05
16 3 0.08
17 7 0.17
18 6 0.15
19 6 0.15
20 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTAATATATTATATAA
Found at i:4195529 original size:25 final size:22
Alignment explanation
Indices: 4195496--4195541 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
4195486 ATTTAATATA
4195496 TTAATAATTTATATTATATAAATT
1 TTAATAATTTATA-TAT-TAAATT
4195520 TTAATAAATTTATATATTAAAT
1 TTAAT-AATTTATATATTAAAT
4195542 AATATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATAATTTATATATTAAATT
Found at i:4195539 original size:16 final size:15
Alignment explanation
Indices: 4195453--4195520 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 15
4195443 ATTATATTAT
*
4195453 ATTTATATTTAAAATA
1 ATTTATATTTAATA-A
4195469 ATTTATATTTATATAAA
1 ATTTATATTTA-AT-AA
4195486 ATTTAATATATTAAT-A
1 ATTT-ATAT-TTAATAA
4195502 ATTTATA-TTATATAA
1 ATTTATATTTA-ATAA
4195517 ATTT
1 ATTT
4195521 TAATAAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
13 3 0.07
14 2 0.04
15 8 0.18
16 16 0.36
17 6 0.13
18 7 0.16
19 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATATTTAATAA
Found at i:4195544 original size:20 final size:20
Alignment explanation
Indices: 4195411--4195545 Score: 51
Period size: 16 Copynumber: 7.0 Consensus size: 20
4195401 TCCACTCGAT
* *
4195411 AATTTATATATT-TATATTA
1 AATTTATATATTAAATAATA
* * *
4195430 AATTTTATATTTTATTATATTA
1 AA-TTTATATATTA-AATAATA
*
4195452 TATTTATAT-TT-AA-AAT-
1 AATTTATATATTAAATAATA
*
4195468 AATTTATAT-TTATAT-A-A
1 AATTTATATATTAAATAATA
*
4195485 AATTTA-ATA-T-ATTAAT-
1 AATTTATATATTAAATAATA
4195501 AATTTATATTATATAAATTTTAATA
1 AATTTATA-TAT-TAAA---TAATA
4195526 AATTTATATATTAAATAATA
1 AATTTATATATTAAATAATA
4195546 TTCATATTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 35
0.67 0.07 0.26
Matches are distributed among these distances:
15 1 0.01
16 20 0.22
17 11 0.12
18 3 0.03
19 2 0.02
20 17 0.19
21 8 0.09
22 8 0.09
23 4 0.04
24 7 0.08
25 8 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTATATATTAAATAATA
Found at i:4200015 original size:16 final size:16
Alignment explanation
Indices: 4199994--4200032 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
4199984 AGTGTTTGGT
*
4199994 TTGTGTTCATTAAAAA
1 TTGTGTCCATTAAAAA
4200010 TTGTGTCCATTAAAAA
1 TTGTGTCCATTAAAAA
*
4200026 TTATGTC
1 TTGTGTC
4200033 AAATTTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (16 bp):
TTGTGTCCATTAAAAA
Found at i:4204399 original size:2 final size:2
Alignment explanation
Indices: 4204392--4204420 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4204382 CAAGGTTGAA
4204392 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4204421 TTTCTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4207906 original size:18 final size:18
Alignment explanation
Indices: 4207866--4207908 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4207856 TTAATATTTT
*
4207866 ATATTATATAAATTTTGAT
1 ATATT-TATAAATTTTGAA
* *
4207885 ATATTTATATATTTTTAA
1 ATATTTATAAATTTTGAA
4207903 ATATTT
1 ATATTT
4207909 TATTTCGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATTTATAAATTTTGAA
Found at i:4208094 original size:2 final size:2
Alignment explanation
Indices: 4208087--4208116 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4208077 CAATTAGCAC
*
4208087 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4208117 TAAACACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4208839 original size:57 final size:57
Alignment explanation
Indices: 4208748--4208864 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
4208738 CCTGTCGTTC
* *
4208748 CTGAATGTTTGAAACTACTTCCACCTTCTGCTCTAGTAGTGGAGGCTGCTGGAATAA
1 CTGAATGTTTGAAACTACTTCCACCTTCTGCTCTAGTACTGGAGACTGCTGGAATAA
* *
4208805 CTGAATGTTTGAAACTACTTCCCCCTTC-GACTCTAGTACTGGAGACTGCTGGAATGA
1 CTGAATGTTTGAAACTACTTCCACCTTCTG-CTCTAGTACTGGAGACTGCTGGAATAA
4208862 CTG
1 CTG
4208865 CTAAATCGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 1 0.02
57 54 0.98
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (57 bp):
CTGAATGTTTGAAACTACTTCCACCTTCTGCTCTAGTACTGGAGACTGCTGGAATAA
Found at i:4212018 original size:17 final size:18
Alignment explanation
Indices: 4211976--4212010 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4211966 TGCTGCTGAG
4211976 ATCAAGGTCAACCAAGTT
1 ATCAAGGTCAACCAAGTT
4211994 ATCAAGGTC-ACCAAGTT
1 ATCAAGGTCAACCAAGTT
4212011 GTGAAGGTAT
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:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (18 bp):
ATCAAGGTCAACCAAGTT
Found at i:4213534 original size:15 final size:15
Alignment explanation
Indices: 4213514--4213585 Score: 76
Period size: 15 Copynumber: 4.8 Consensus size: 15
4213504 ATGGACCCAC
*
4213514 TTAATTTAAGTTAAA
1 TTAATTTAAATTAAA
4213529 TTAATTTAAATTAAA
1 TTAATTTAAATTAAA
*
4213544 -TATTTTAAATTAAAA
1 TTAATTTAAATT-AAA
* *
4213559 TTATTTTGAATTTAAA
1 TTAATTT-AAATTAAA
4213575 TTAA-TTAAATT
1 TTAATTTAAATT
4213586 TAATATTTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
14 14 0.29
15 19 0.39
16 12 0.24
17 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATTTAAATTAAA
Found at i:4213565 original size:16 final size:15
Alignment explanation
Indices: 4213518--4213594 Score: 70
Period size: 14 Copynumber: 5.2 Consensus size: 15
4213508 ACCCACTTAA
* *
4213518 TTTAAGTTAAATTAA
1 TTTAAATTAAATTAT
4213533 TTTAAATTAAA-TAT
1 TTTAAATTAAATTAT
4213547 TTTAAATTAAAATTAT
1 TTTAAATT-AAATTAT
*
4213563 TTTGAATTTAAATTA-
1 TTT-AAATTAAATTAT
* *
4213578 ATTAAATTTAA-TAT
1 TTTAAATTAAATTAT
4213592 TTT
1 TTT
4213595 GATCAATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 2 0.04
14 18 0.35
15 15 0.29
16 12 0.24
17 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTAAATTAAATTAT
Found at i:4213661 original size:24 final size:22
Alignment explanation
Indices: 4213618--4213661 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
4213608 TGAATCAATC
*
4213618 AAATTTAATATTCGAGTTTATT
1 AAATTTAATATTCGAATTTATT
4213640 AAATTTAATCATTTCGAATTTA
1 AAATTTAAT-A-TTCGAATTTA
4213662 ATTTATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 1 0.05
24 9 0.47
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (22 bp):
AAATTTAATATTCGAATTTATT
Found at i:4213837 original size:22 final size:23
Alignment explanation
Indices: 4213809--4213864 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
4213799 ATCGAATAAT
4213809 TTTAATATTAAATATATAAGT-A
1 TTTAATATTAAATATATAAGTAA
* * **
4213831 TTTAATAAT-AATATGTATTTAA
1 TTTAATATTAAATATATAAGTAA
4213853 TTTAATATTAAA
1 TTTAATATTAAA
4213865 AAATTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 8 0.30
22 17 0.63
23 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTAATATTAAATATATAAGTAA
Done.