Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 2 of 27
Found at i:145406 original size:3 final size:3
Alignment explanation
Indices: 145398--145428 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
145388 TATTAATTTC
*
145398 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
145429 TTTTTCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:146653 original size:2 final size:2
Alignment explanation
Indices: 146646--146676 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
146636 TCTTATTATT
146646 TA TA 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 TA TA T
146677 TGATTCTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:146965 original size:13 final size:13
Alignment explanation
Indices: 146949--146986 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
146939 TTTTTTAAAA
146949 ATATTTATATTTT
1 ATATTTATATTTT
146962 ATATTTATA-TTT
1 ATATTTATATTTT
*
146974 A-ATATATATTTT
1 ATATTTATATTTT
146986 A
1 A
146987 ATATAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 6 0.26
12 8 0.35
13 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:147058 original size:31 final size:33
Alignment explanation
Indices: 146993--147058 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
146983 TTTAATATAA
* ***
146993 ATATAAAAATATTATTTTTAAAAATCTTTTAAT
1 ATATAAAAATATAATTTTTAAAAATCTAAAAAT
147026 ATATAAAAATA-AATTTTTAAAAAT-TAAAAAT
1 ATATAAAAATATAATTTTTAAAAATCTAAAAAT
147057 AT
1 AT
147059 TTACACTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 6 0.21
32 12 0.41
33 11 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAAAAATATAATTTTTAAAAATCTAAAAAT
Found at i:147820 original size:19 final size:21
Alignment explanation
Indices: 147779--147832 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
147769 TATATAAAAT
*
147779 TTTTTAAAATAA-ATAGATAA
1 TTTTTAAAAGAATATAGATAA
*
147799 TTTTTAAAA-AATATAG-TCA
1 TTTTTAAAAGAATATAGATAA
*
147818 TTTATAAAAGAATAT
1 TTTTTAAAAGAATAT
147833 TATTGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (21 bp):
TTTTTAAAAGAATATAGATAA
Found at i:152482 original size:14 final size:14
Alignment explanation
Indices: 152459--152494 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
152449 TGATACTTAA
152459 TAAA-TTTAATATT
1 TAAATTTTAATATT
152472 TAAATTTTAATATT
1 TAAATTTTAATATT
152486 TATAATTTT
1 TA-AATTTT
152495 CTTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 11 0.52
15 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAAATTTTAATATT
Found at i:152984 original size:2 final size:2
Alignment explanation
Indices: 152968--153001 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
152958 GCATTCAAGG
*
152968 TA TA TT TA T- 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 TA TA TA TA T
153002 GATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:153361 original size:15 final size:15
Alignment explanation
Indices: 153321--153366 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
153311 TAAATTTGAG
*
153321 ATAAATA-ATTAAAT
1 ATAAATATATTTAAT
153335 ATAAATATATATTTAAT
1 AT-AA-ATATATTTAAT
153352 ATAAATATATTTAAT
1 ATAAATATATTTAAT
153367 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 13 0.46
16 5 0.18
17 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAAATATATTTAAT
Found at i:154242 original size:17 final size:17
Alignment explanation
Indices: 154220--154269 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 17
154210 AATTAAAAAT
154220 TATTAAAATTATATTTA
1 TATTAAAATTATATTTA
* *
154237 TATTAAAAATA-AATTA
1 TATTAAAATTATATTTA
154253 TATT-AAATTATATTTA
1 TATTAAAATTATATTTA
154269 T
1 T
154270 GTTATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 5 0.18
16 13 0.46
17 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAAATTATATTTA
Found at i:154248 original size:37 final size:35
Alignment explanation
Indices: 154207--154316 Score: 97
Period size: 37 Copynumber: 3.1 Consensus size: 35
154197 ATATATATAT
*
154207 AATAATTAAAAATTATTAAAATTATATTTATATTAAA
1 AATAATT-AAAATTATT-AAATTATATTTATGTTAAA
154244 AATAAATT---A-TATTAAATTATATTTATGTTATATA
1 AAT-AATTAAAATTATTAAATTATATTTATGTTA-A-A
*
154278 AA-AA-TAATAATTATTGAAATTATATTGATGTTAAA
1 AATAATTAA-AATTATT-AAATTATATTTATGTTAAA
154313 AATA
1 AATA
154317 GAGATAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
31 1 0.02
32 18 0.30
33 5 0.08
34 4 0.07
35 4 0.07
36 6 0.10
37 19 0.31
38 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (35 bp):
AATAATTAAAATTATTAAATTATATTTATGTTAAA
Found at i:154266 original size:32 final size:31
Alignment explanation
Indices: 154216--154316 Score: 103
Period size: 32 Copynumber: 3.0 Consensus size: 31
154206 TAATAATTAA
154216 AAATTATTAAAATTATATTTATATTAAAAAT
1 AAATTATTAAAATTATATTTATATTAAAAAT
*
154247 AAATTATATTAAATTATATTTATGTTATATAAAAAT
1 AAATTAT-TAAAATTATATTTA---TAT-TAAAAAT
* * *
154283 AATAATTATTGAAATTATATTGATGTTAAAAAT
1 -A-AATTATTAAAATTATATTTATATTAAAAAT
154316 A
1 A
154317 GAGATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
31 7 0.12
32 14 0.24
33 7 0.12
34 2 0.03
35 3 0.05
36 7 0.12
37 13 0.22
38 6 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTATTAAAATTATATTTATATTAAAAAT
Found at i:155244 original size:19 final size:18
Alignment explanation
Indices: 155186--155250 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
155176 AAAAATGTAT
*
155186 ATATATAATAAATAATTAA
1 ATATATATTAAATAA-TAA
*
155205 A-AT-TATTAAAT--TAT
1 ATATATATTAAATAATAA
*
155219 ATTTATATTAAATAATAAA
1 ATATATATTAAATAAT-AA
155238 ATATATATTAAAT
1 ATATATATTAAAT
155251 TATATTTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 3 0.08
15 1 0.03
16 8 0.22
17 7 0.19
18 3 0.08
19 14 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATATTAAATAATAA
Found at i:155247 original size:35 final size:35
Alignment explanation
Indices: 155178--155302 Score: 138
Period size: 35 Copynumber: 3.7 Consensus size: 35
155168 TCTGATTAAA
* * *
155178 AAATGTATATATATAATAAATAATTAAA-AT-TATT
1 AAAT-TATATTTATATTAAATAATAAAATATATATT
155212 AAATTATATTTATATTAAATAATAAAATATATATT
1 AAATTATATTTATATTAAATAATAAAATATATATT
* *
155247 AAATTATATTTATGTCAAATAAT--AAT-TATCA--
1 AAATTATATTTATATTAAATAATAAAATATAT-ATT
155278 AAATTATATTTATATTAAATAATAA
1 AAATTATATTTATATTAAATAATAA
155303 TTATTGAACT
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
31 21 0.27
32 3 0.04
33 24 0.30
34 6 0.08
35 25 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (35 bp):
AAATTATATTTATATTAAATAATAAAATATATATT
Found at i:155285 original size:31 final size:30
Alignment explanation
Indices: 155172--155332 Score: 126
Period size: 31 Copynumber: 5.0 Consensus size: 30
155162 AAGATATCTG
* * *
155172 ATTAAAAAATGTATATATATAATAAATAATTAAA
1 ATTATAAAAT-TATATTTATATTAAATAA-T--A
*
155206 ATTATTAAATTATATTTATATTAAATAATAAA
1 ATTATAAAATTATATTTATATTAAATAAT--A
* *
155238 ATATATATTAAATTATATTTATGTCAAATAATA
1 AT-TATA--AAATTATATTTATATTAAATAATA
155271 ATTATCAAAATTATATTTATATTAAATAATA
1 ATTAT-AAAATTATATTTATATTAAATAATA
* * * *
155302 ATTATTGAACTTACATTTATGTTAAA-AATA
1 ATTA-TAAAATTATATTTATATTAAATAATA
155332 A
1 A
155333 ATTTGAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
30 5 0.05
31 42 0.39
32 10 0.09
33 23 0.21
34 8 0.07
35 21 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTATAAAATTATATTTATATTAAATAATA
Found at i:155306 original size:16 final size:16
Alignment explanation
Indices: 155208--155306 Score: 76
Period size: 16 Copynumber: 6.1 Consensus size: 16
155198 TAATTAAAAT
* *
155208 TATTAAATTATATTTA
1 TATTAAATAATAATTA
155224 TATTAAATAATAAAATATA
1 TATTAAATAAT--AAT-TA
* *
155243 TATTAAATTATATTTA
1 TATTAAATAATAATTA
* *
155259 TGTCAAATAATAATTA
1 TATTAAATAATAATTA
* *
155275 TCA--AAATTATATTTA
1 T-ATTAAATAATAATTA
155290 TATTAAATAATAATTA
1 TATTAAATAATAATTA
155306 T
1 T
155307 TGAACTTACA
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
14 1 0.02
15 11 0.17
16 36 0.56
17 2 0.03
18 2 0.03
19 12 0.19
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (16 bp):
TATTAAATAATAATTA
Found at i:157567 original size:29 final size:28
Alignment explanation
Indices: 157494--157567 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
157484 TTTAATATAT
* * *
157494 TAAAATTTAACTTATAAAATTTACTTAAA
1 TAAAATATAA-TTATAAAATTAAATTAAA
*
157523 TAAAATATTAAATATAATAATTAAATTAAA
1 TAAAATA-TAATTATAA-AATTAAATTAAA
157553 TAAACATA-AATTATA
1 TAAA-ATATAATTATA
157568 TAAAAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 17 0.46
30 17 0.46
31 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAAATATAATTATAAAATTAAATTAAA
Found at i:159039 original size:1 final size:1
Alignment explanation
Indices: 159033--159060 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
159023 AAAGAAATAA
159033 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
159061 GCCCTTTTCT
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:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:163415 original size:21 final size:21
Alignment explanation
Indices: 163384--163427 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
163374 CTTAAATTTT
163384 AAAAATATAATAAAATATATAA
1 AAAAATATAATAAAAT-TATAA
*
163406 AAAAAT-TAATTAAATTATAA
1 AAAAATATAATAAAATTATAA
163426 AA
1 AA
163428 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATAATAAAATTATAA
Found at i:163479 original size:22 final size:19
Alignment explanation
Indices: 163453--163499 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 19
163443 AAGATAAATA
163453 TTTTATTTTTATATAATATTT
1 TTTTATTTTTATAT--TATTT
163474 TATTTATTTTTATATTATTT
1 T-TTTATTTTTATATTATTT
163494 TTTTAT
1 TTTTAT
163500 ATAATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 6 0.24
21 1 0.04
22 13 0.52
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTTTTATATTATTT
Found at i:163695 original size:29 final size:29
Alignment explanation
Indices: 163663--163719 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
163653 ACCTTTTTAT
163663 ATAAACATAATA-TATTTTAAAATTTATAA
1 ATAAA-ATAATATTATTTTAAAATTTATAA
* * *
163692 ATAAAATTATATTATTTTATATTTTATA
1 ATAAAATAATATTATTTTAAAATTTATA
163720 TACGAAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAAAATAATATTATTTTAAAATTTATAA
Found at i:164675 original size:13 final size:13
Alignment explanation
Indices: 164659--164683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164649 TTTAAAAAAA
164659 TTATTTAAATTTT
1 TTATTTAAATTTT
164672 TTATTTAAATTT
1 TTATTTAAATTT
164684 ATTTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTAAATTTT
Found at i:166250 original size:6 final size:6
Alignment explanation
Indices: 166239--166263 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
166229 GCAATCAGAG
166239 GTTACA GTTACA GTTACA GTTACA G
1 GTTACA GTTACA GTTACA GTTACA G
166264 CTTAAATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (6 bp):
GTTACA
Found at i:171683 original size:21 final size:22
Alignment explanation
Indices: 171654--171703 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
171644 CAACTTTAAA
* **
171654 TTATAATTATAAAT-ATATTTT
1 TTATTATTATAAATAATAAATT
171675 TTATTATTATAAATAATAAATT
1 TTATTATTATAAATAATAAATT
171697 TTATTAT
1 TTATTAT
171704 GATCATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTATTATAAATAATAAATT
Found at i:172536 original size:2 final size:2
Alignment explanation
Indices: 172524--172558 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
172514 GAATGCCTTA
*
172524 AT AT GT AT 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 AT AT AT AT A
172559 ATTTTAGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:172706 original size:2 final size:2
Alignment explanation
Indices: 172699--172728 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
172689 GAATGAATGA
172699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
172729 GACTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174735 original size:21 final size:23
Alignment explanation
Indices: 174711--174753 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
174701 GTGAAAACAT
174711 AAAAA-GTT-AATTATATATATG
1 AAAAATGTTCAATTATATATATG
*
174732 AAAAATGTTCATTTATATATAT
1 AAAAATGTTCAATTATATATAT
174754 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
AAAAATGTTCAATTATATATATG
Found at i:177551 original size:26 final size:28
Alignment explanation
Indices: 177522--177581 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
177512 AAATTTAACT
177522 ATAAAATATATTAAT-AT-TAATAAAAA
1 ATAAAATATATTAATAATATAATAAAAA
* *
177548 AT--AATATTTTAATAATATAATAAATA
1 ATAAAATATATTAATAATATAATAAAAA
177574 ATAAAATA
1 ATAAAATA
177582 AAATTATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 10 0.36
25 2 0.07
26 12 0.43
28 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAAAATATATTAATAATATAATAAAAA
Found at i:177563 original size:21 final size:21
Alignment explanation
Indices: 177488--177576 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 21
177478 TAAATTACTA
177488 TTTAATAAT-AAAAATAATATT
1 TTTAATAATAAAAAATAATA-T
*
177509 TTTAAATTTAACTATAAAAT-ATAT
1 TTT-AA--TAA-TAAAAAATAATAT
* *
177533 TAATATTAATAAAAAATAATAT
1 T-TTAATAATAAAAAATAATAT
177555 TTTAATAATATAATAAATAATA
1 TTTAATAATA-AA-AAATAATA
177577 AAATAAAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
21 17 0.32
22 12 0.23
23 8 0.15
24 6 0.11
25 5 0.09
26 5 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAATAATAAAAAATAATAT
Found at i:177788 original size:13 final size:13
Alignment explanation
Indices: 177770--177795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
177760 AAATTATTAT
177770 ACCATGTTCAAGG
1 ACCATGTTCAAGG
177783 ACCATGTTCAAGG
1 ACCATGTTCAAGG
177796 GAAAAAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
ACCATGTTCAAGG
Found at i:178321 original size:4 final size:4
Alignment explanation
Indices: 178312--178362 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
178302 TTTGCTCATA
* * * * *
178312 TATG TATG TATG TATA TATA TATA TATG TATG TATA TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
178360 TAT
1 TAT
178363 TAATTTTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:178328 original size:16 final size:16
Alignment explanation
Indices: 178320--178362 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
178310 TATATGTATG
*
178320 TATGTATATATATATA
1 TATGTATGTATATATA
178336 TATGTATGTATATATA
1 TATGTATGTATATATA
178352 TATGTATGTAT
1 TATGTATGTAT
178363 TAATTTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
TATGTATGTATATATA
Found at i:178332 original size:20 final size:20
Alignment explanation
Indices: 178309--178362 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
178299 GTATTTGCTC
178309 ATATATGTATGTATGTATAT
1 ATATATGTATGTATGTATAT
*
178329 ATATATATATGTATGTATAT
1 ATATATGTATGTATGTATAT
178349 ATATATGTATGTAT
1 ATATATGTATGTAT
178363 TAATTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (20 bp):
ATATATGTATGTATGTATAT
Found at i:178921 original size:13 final size:14
Alignment explanation
Indices: 178889--178921 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
178879 AAATATAAAA
*
178889 TATATAAATATTTT
1 TATAAAAATATTTT
178903 TATAAAAATATTTT
1 TATAAAAATATTTT
178917 T-TAAA
1 TATAAA
178922 TATTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATAAAAATATTTT
Found at i:179040 original size:2 final size:2
Alignment explanation
Indices: 179035--179060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
179025 TTAGCATCCC
179035 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
179061 TTTTTTTTTT
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):
AT
Found at i:181499 original size:16 final size:14
Alignment explanation
Indices: 181459--181502 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
181449 TTACTAGTTT
181459 TTATTTAATTTA-A
1 TTATTTAATTTATA
181472 TTATTT-ATTTATA
1 TTATTTAATTTATA
181485 TATATGTTAATTTATA
1 T-TAT-TTAATTTATA
181501 TT
1 TT
181503 TGATACACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 8 0.30
14 3 0.11
15 3 0.11
16 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTTAATTTATA
Found at i:182776 original size:2 final size:2
Alignment explanation
Indices: 182769--182799 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
182759 TGGATTAATA
182769 AT AT 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 AT AT A
182800 GACATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:183474 original size:14 final size:15
Alignment explanation
Indices: 183450--183489 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
183440 GTCCGAATTA
183450 AATAA-ATTTTTTAT
1 AATAATATTTTTTAT
183464 AA-AATATTTTTTAT
1 AATAATATTTTTTAT
183478 AATAAT-TTTTTT
1 AATAATATTTTTT
183490 TTTGAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.08
14 19 0.79
15 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATAATATTTTTTAT
Found at i:183653 original size:21 final size:22
Alignment explanation
Indices: 183620--183661 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
183610 TATTTTATAA
183620 TTAAAATAATTTT-TAATTAATT
1 TTAAAATAATTTTAT-ATTAATT
183642 TTAAAA-AATTTTATATTAAT
1 TTAAAATAATTTTATATTAAT
183662 AAACTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAAAATAATTTTATATTAATT
Found at i:183767 original size:117 final size:107
Alignment explanation
Indices: 183618--183895 Score: 292
Period size: 117 Copynumber: 2.5 Consensus size: 107
183608 ATTATTTTAT
* * *
183618 AATTAAAATAATTTTTAATT-AATTTTAAAAAATTTTATATTAATAAACTAAAATATTAA-TTAT
1 AATTAAAATAATATTTAATTAAATTTT-AAAAA--TTACATTAACAAACTAAAATATTAATTTAT
183681 TTTTTTAAAATAAAAAATTAAATTAAAAAGGGT-TTATTATTATTTTTTTAATAA
63 TTTTTT---AT-AAAAA-TAAA--AAAAA--GTATTATTATTA-TTTTTTAATAA
*
183735 AATTAAAATAATATTTAATTAAATTTTAAAAATTACATTAACAAATTAAAATATTAATTTTATTT
1 AATTAAAATAATATTTAATTAAATTTTAAAAATTACATTAACAAACTAAAATATTAA-TTTATTT
** *
183800 TTTTATAAAAATAAAAAGTATTATTATTATTATTTTTTAATAA
65 TTTTATAAAAATAAAAAAAAGTATTATTATTATTTTTTAATAA
* * * *
183843 AATAAAAAATTATATTTAATTAAATTTTAAAAAAATACATTAACAAATTAAAA
1 AAT-TAAAATAATATTTAATTAAATTTT-AAAAATTACATTAACAAACTAAAA
183896 AAATAACATT
Statistics
Matches: 145, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
108 15 0.10
109 31 0.21
110 26 0.18
112 4 0.03
113 5 0.03
114 2 0.01
115 22 0.15
117 34 0.23
118 6 0.04
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (107 bp):
AATTAAAATAATATTTAATTAAATTTTAAAAATTACATTAACAAACTAAAATATTAATTTATTTT
TTTATAAAAATAAAAAAAAGTATTATTATTATTTTTTAATAA
Found at i:183870 original size:35 final size:36
Alignment explanation
Indices: 183724--183870 Score: 92
Period size: 35 Copynumber: 4.1 Consensus size: 36
183714 TTATTATTAT
* *
183724 TTTTTTAATAAAAT-TAAAATAATAT-TTAATTAAA
1 TTTTTTAATAAAATAAAAAATTATATATTAATTAAA
** * * * * **
183758 TTTTAAAAATTACATTAACAAATTAAAATATTAATTTTA
1 TTTT-TTAA-TAAAATAAAAAATT-ATATATTAATTAAA
*
183797 TTTTTTTATAAAAATAAAAAGTATTAT-TATT-ATT--A
1 TTTTTTAAT-AAAATAAAAA--ATTATATATTAATTAAA
183832 TTTTTTAATAAAATAAAAAATTATAT-TTAATTAAA
1 TTTTTTAATAAAATAAAAAATTATATATTAATTAAA
183867 TTTT
1 TTTT
183871 AAAAAAATAC
Statistics
Matches: 83, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
32 7 0.08
33 4 0.05
34 14 0.17
35 16 0.19
36 4 0.05
37 8 0.10
38 15 0.18
39 12 0.14
40 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (36 bp):
TTTTTTAATAAAATAAAAAATTATATATTAATTAAA
Found at i:183878 original size:33 final size:33
Alignment explanation
Indices: 183800--183879 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
183790 AATTTTATTT
* **
183800 TTTTATAAAAATAAAAAGTATTATTATTATTATT
1 TTTTAAAAAAATAAAAAG-ATTATTATTATTAAA
*
183834 TTTTAATAAAATAAAAA-ATTA-TATTTAATTAAA
1 TTTTAAAAAAATAAAAAGATTATTA-TT-ATTAAA
183867 TTTTAAAAAAATA
1 TTTTAAAAAAATA
183880 CATTAACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.05
32 6 0.15
33 16 0.41
34 15 0.38
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (33 bp):
TTTTAAAAAAATAAAAAGATTATTATTATTAAA
Found at i:183895 original size:21 final size:23
Alignment explanation
Indices: 183869--183922 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
183859 TAATTAAATT
183869 TTAAAAAAAT-ACA-TTAACAAA
1 TTAAAAAAATAACATTTAACAAA
**
183890 TTAAAAAAATAACATTTAAGGAA
1 TTAAAAAAATAACATTTAACAAA
183913 TTAAAAAAAT
1 TTAAAAAAAT
183923 TTATCATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.34
22 3 0.10
23 16 0.55
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.26
Consensus pattern (23 bp):
TTAAAAAAATAACATTTAACAAA
Found at i:183933 original size:109 final size:109
Alignment explanation
Indices: 183714--183922 Score: 276
Period size: 109 Copynumber: 1.9 Consensus size: 109
183704 TAAAAAGGGT
* *
183714 TTATTATTATTTTTTTAATAAAATTAAAATAATATTTAATTAAATTTTAAAAATTACATTAACAA
1 TTATTATTATTTTTTTAATAAAATAAAAATAATATTTAATTAAATTTTAAAAAATACATTAACAA
* * * *****
183779 ATTAAAATATTAATTTTATTTTTTTATAAAAATAAAAAGTATTA
66 ATTAAAAAAATAAATTTAAGGAATTATAAAAATAAAAAGTATTA
*
183823 TTATTATTA-TTTTTTAATAAAATAAAAAATTATATTTAATTAAATTTTAAAAAAATACATTAAC
1 TTATTATTATTTTTTTAATAAAAT-AAAAATAATATTTAATTAAATTTT-AAAAAATACATTAAC
*
183887 AAATTAAAAAAATAACATTTAAGGAATTAAAAAAAT
64 AAATTAAAAAAATAA-ATTTAAGGAATTATAAAAAT
183923 TTATCATTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 14 0.16
109 31 0.36
110 27 0.32
111 13 0.15
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (109 bp):
TTATTATTATTTTTTTAATAAAATAAAAATAATATTTAATTAAATTTTAAAAAATACATTAACAA
ATTAAAAAAATAAATTTAAGGAATTATAAAAATAAAAAGTATTA
Found at i:184361 original size:119 final size:120
Alignment explanation
Indices: 184214--184567 Score: 395
Period size: 119 Copynumber: 2.9 Consensus size: 120
184204 AAAAAATATT
* *
184214 ATTATAATAAAAAA-CTTTTTTCAATTTAAAATTTTTATTTTTAAAAATATAATAATTAATATTT
1 ATTATAATAAAAAACCCTTTTT-ATTTTAAAATTTTTATTTTTAAAAA-ATAATAATTAATATTT
* *
184278 TAATTT-TTAATATAAATTTTTAAA-TGAATTAATATTATTTTTTTTTTTATTAAAA
64 TAATTTATTAATATAAATTTTTAAAGTTAATTAATATTATTTTTTATTTTATTAAAA
*
184333 ATTATAATAAAAAACCCTTTTTATTTTAAAGTTTTTATTTTTATAAAAACATAATAATTAA-ATT
1 ATTATAATAAAAAACCCTTTTTATTTTAAAATTTTTA-TTTT-TAAAAA-ATAATAATTAATATT
* * * * *
184397 TT-ATTTGTTAAT-T-AATTTTTAAATTTAATAAATATTATTTTTAATTTTATTGAAA
63 TTAATTTATTAATATAAATTTTTAAAGTTAATTAATATTATTTTTTATTTTATTAAAA
* * * *
184452 ATAATAATAATAAACCCTTTTTATTTTATTTAAAATTTTTTATTATT--AAAA-AATAAGTAATA
1 ATTATAATAAAAAACCCTTTTTA---T-TTTAAAA-TTTTTATTTTTAAAAAATAATAATTAATA
184514 TTTTAATTTATTAATATAAATTTCTTTAAAGTTAATTAAATATTATTTTTTATT
61 TTTTAATTTATTAATATAAA-TT-TTTAAAGTTAATT-AATATTATTTTTTATT
184568 AAAAATAATA
Statistics
Matches: 200, Mismatches: 18, Indels: 28
0.81 0.07 0.11
Matches are distributed among these distances:
118 18 0.09
119 85 0.43
120 32 0.16
121 18 0.09
122 4 0.02
123 11 0.05
124 17 0.09
125 15 0.08
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (120 bp):
ATTATAATAAAAAACCCTTTTTATTTTAAAATTTTTATTTTTAAAAAATAATAATTAATATTTTA
ATTTATTAATATAAATTTTTAAAGTTAATTAATATTATTTTTTATTTTATTAAAA
Found at i:188200 original size:18 final size:18
Alignment explanation
Indices: 188166--188200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
188156 CCAACAACAA
* *
188166 AAAAATCAAAAAGAAAAC
1 AAAAAGCAAAAAAAAAAC
188184 AAAAAGCAAAAAAAAAA
1 AAAAAGCAAAAAAAAAA
188201 GGGGGAGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (18 bp):
AAAAAGCAAAAAAAAAAC
Found at i:188903 original size:17 final size:15
Alignment explanation
Indices: 188883--188933 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
188873 TTAGGTAAAA
188883 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
188900 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
* *
188914 AA-AAAGAAAAAAAA
1 AAGAAAGAAAGAAAG
188928 AAGAAA
1 AAGAAA
188934 AAATATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:188934 original size:17 final size:17
Alignment explanation
Indices: 188880--188935 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
188870 AAATTAGGTA
* *
188880 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * *
188897 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAAAAAG
188914 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
188931 AAAAA
1 AAAAA
188936 ATATGAAATG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:189336 original size:29 final size:29
Alignment explanation
Indices: 189277--189336 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
189267 GATGTTTGCA
* *
189277 TTTGTTTTTTTTATTATTATCATATTTTT
1 TTTGTTTTATTTATTATTATCATATTATT
189306 TTTGTTTTATTTA-TATGTAT-ATATATATT
1 TTTGTTTTATTTATTAT-TATCATAT-TATT
189335 TT
1 TT
189337 GAAAATCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTGTTTTATTTATTATTATCATATTATT
Found at i:195296 original size:19 final size:19
Alignment explanation
Indices: 195272--195313 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
195262 TCAATTTGAA
195272 AACTCGAAACTCAAAACTT
1 AACTCGAAACTCAAAACTT
195291 AACTCGAAACTCAAAACTT
1 AACTCGAAACTCAAAACTT
195310 AACT
1 AACT
195314 TGACCTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.21
Consensus pattern (19 bp):
AACTCGAAACTCAAAACTT
Found at i:196487 original size:12 final size:11
Alignment explanation
Indices: 196470--196504 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
196460 AAAATCAGGA
196470 TTTTTGTTTTGT
1 TTTTTGTTTT-T
196482 TTTTTGTTTTT
1 TTTTTGTTTTT
196493 TTTTT-TTTTT
1 TTTTTGTTTTT
196503 TT
1 TT
196505 GTAGAGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.30
11 6 0.26
12 10 0.43
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:196497 original size:18 final size:19
Alignment explanation
Indices: 196470--196506 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
196460 AAAATCAGGA
196470 TTTTTGTTTTGTTTTTTGT
1 TTTTTGTTTTGTTTTTTGT
*
196489 TTTTT-TTTTTTTTTTTGT
1 TTTTTGTTTTGTTTTTTGT
196507 AGAGGGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTGTTTTGTTTTTTGT
Found at i:199877 original size:24 final size:23
Alignment explanation
Indices: 199848--199893 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
199838 ATATCAGTAA
199848 TTTAATATTT-AAATAATATTTAAT
1 TTTAAT-TTTAAAAT-ATATTTAAT
199872 TTTAATTTTAAAATATATTTAA
1 TTTAATTTTAAAATATATTTAA
199894 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATTTTAAAATATATTTAAT
Found at i:200012 original size:16 final size:16
Alignment explanation
Indices: 199991--200035 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
199981 TCGAGTTTGA
199991 TTAAAATTTTTAATAT
1 TTAAAATTTTTAATAT
*
200007 TTAAAATTATTAATAT
1 TTAAAATTTTTAATAT
*
200023 ATAATAATTTTTA
1 TTAA-AATTTTTA
200036 CTTTTAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAAATTTTTAATAT
Found at i:200323 original size:2 final size:2
Alignment explanation
Indices: 200318--200359 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
200308 ACACACACAC
200318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
200360 TAAATCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:200464 original size:17 final size:19
Alignment explanation
Indices: 200429--200466 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
200419 ATATTAGCTT
200429 AATTAATAAAAATATAATA
1 AATTAATAAAAATATAATA
*
200448 AATTAA-AAAATTA-AATA
1 AATTAATAAAAATATAATA
200465 AA
1 AA
200467 AATAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTAATAAAAATATAATA
Found at i:201355 original size:14 final size:14
Alignment explanation
Indices: 201336--201362 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
201326 CAAATTTCAA
201336 ATGAACAAAAGACT
1 ATGAACAAAAGACT
201350 ATGAACAAAAGAC
1 ATGAACAAAAGAC
201363 AGTTTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (14 bp):
ATGAACAAAAGACT
Found at i:204216 original size:16 final size:16
Alignment explanation
Indices: 204195--204229 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
204185 AAATGTAATC
204195 TTTGTTATCCATTATA
1 TTTGTTATCCATTATA
204211 TTTGTTATCCATTATA
1 TTTGTTATCCATTATA
204227 TTT
1 TTT
204230 CATCTAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTGTTATCCATTATA
Found at i:204489 original size:2 final size:2
Alignment explanation
Indices: 204482--204510 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
204472 GATATTAAGG
204482 AT 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 AT A
204511 GGCGCCATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:206373 original size:18 final size:18
Alignment explanation
Indices: 206343--206388 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
206333 AATTAAGATT
206343 AAAAAAT-AA-AATTTAA
1 AAAAAATAAATAATTTAA
*
206359 AAAAAATAAATAATTTTA
1 AAAAAATAAATAATTTAA
* *
206377 TAAATATAAATA
1 AAAAAATAAATA
206389 CTTGACTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 2 0.08
18 16 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATAAATAATTTAA
Found at i:213025 original size:28 final size:28
Alignment explanation
Indices: 212989--213044 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
212979 TTGTTCTCTT
212989 TGATCAATGAGTTCTATAATTATATCTC
1 TGATCAATGAGTTCTATAATTATATCTC
*
213017 TGATCAATGAGTTCTATAATTTTATCTC
1 TGATCAATGAGTTCTATAATTATATCTC
213045 ACAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (28 bp):
TGATCAATGAGTTCTATAATTATATCTC
Found at i:214144 original size:33 final size:33
Alignment explanation
Indices: 214080--214147 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
214070 TTATTAAATA
*
214080 TTTATATAAATTTTAATATGTTAATATTTTATT
1 TTTATATAAATTTTAACATGTTAATATTTTATT
* * *
214113 TTTATGTAAATTTTGACATTTTATATATTTATATT
1 TTTATATAAATTTTAACATGTTA-ATATTT-TATT
214148 AATTTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 6 0.21
35 4 0.14
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (33 bp):
TTTATATAAATTTTAACATGTTAATATTTTATT
Found at i:214156 original size:11 final size:12
Alignment explanation
Indices: 214133--214186 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
214123 TTTTGACATT
214133 TTATATATTTATA
1 TTATAT-TTTATA
214146 TTA-ATTTTATA
1 TTATATTTTATA
*
214157 TCATATTTTA-A
1 TTATATTTTATA
*
214168 TTATTTTTTATA
1 TTATATTTTATA
*
214180 TCATATT
1 TTATATT
214187 CAAAATTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 17 0.50
12 14 0.41
13 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:214170 original size:22 final size:24
Alignment explanation
Indices: 214135--214186 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
214125 TTGACATTTT
214135 ATATATTTATATTA-ATTTTATATC
1 ATAT-TTTATATTATATTTTATATC
*
214159 ATATTTTA-ATTATTTTTTATATC
1 ATATTTTATATTATATTTTATATC
214182 ATATT
1 ATATT
214187 CAAAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 18 0.69
24 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTTTATATTATATTTTATATC
Found at i:215882 original size:2 final size:2
Alignment explanation
Indices: 215875--215912 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
215865 TTAGCTGGTT
215875 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
215913 AACAAAGTAG
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:216692 original size:2 final size:2
Alignment explanation
Indices: 216685--216720 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
216675 TTATTTGAAC
216685 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
216721 AAGATTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:217314 original size:23 final size:24
Alignment explanation
Indices: 217284--217340 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
217274 TGGCTAGTTA
217284 AAAAAAATAAAAATAA-TATTTTT
1 AAAAAAATAAAAATAATTATTTTT
*
217307 AAAAAAATAAAAATAATTTTTTTT
1 AAAAAAATAAAAATAATTATTTTT
217331 AAAAAAATAA
1 AAAAAAATAA
217341 TTAATGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAAATAAAAATAATTATTTTT
Found at i:219663 original size:24 final size:24
Alignment explanation
Indices: 219623--219669 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
219613 AAATTGTTAA
219623 AAAAATATTTAAAATAATAAAATTT
1 AAAAATA-TTAAAATAATAAAATTT
219648 AAAAATA-TAAATATAATAAAAT
1 AAAAATATTAAA-ATAATAAAAT
219670 CAATAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAATATTAAAATAATAAAATTT
Found at i:220476 original size:12 final size:11
Alignment explanation
Indices: 220444--220477 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
220434 AAAATCAATC
*
220444 AAAAATTTTAA
1 AAAAAATTTAA
220455 AAAAAATTTAA
1 AAAAAATTTAA
220466 AAATAAATTTAA
1 AAA-AAATTTAA
220478 CATGTTACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:221931 original size:22 final size:22
Alignment explanation
Indices: 221892--221933 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
221882 TTATTATTTT
* *
221892 TTTTAATTTTTTTAAAAATTAA
1 TTTTAAATTTTTCAAAAATTAA
*
221914 TTTTAAATTTTTCCAAAATT
1 TTTTAAATTTTTCAAAAATT
221934 TTATTATTAA
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:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATTTTTCAAAAATTAA
Found at i:224004 original size:11 final size:11
Alignment explanation
Indices: 223985--224061 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 11
223975 TTTTCACTTA
*
223985 TTTAATTATAT
1 TTTATTTATAT
223996 TTTATTTAT-T
1 TTTATTTATAT
*
224006 TTT-TATATAT
1 TTTATTTATAT
224016 TTATATTTTATAT
1 TT-TA-TTTATAT
224029 CTTTATTATGATAAT
1 -TTTATT-T-AT-AT
224044 TTTAATTTAT-T
1 TTT-ATTTATAT
224055 TTTATTT
1 TTTATTT
224062 TGAAATTCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
9 4 0.07
10 11 0.20
11 13 0.24
12 2 0.04
13 11 0.20
14 8 0.15
15 5 0.09
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (11 bp):
TTTATTTATAT
Found at i:224014 original size:20 final size:20
Alignment explanation
Indices: 223954--224023 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
223944 TGTATATACA
*
223954 ATTTTATTTATTTTTAATAT
1 ATTTTATTTATTTTTTATAT
* **
223974 ATTTTCACTTATTTAAT-TAT
1 ATTTT-ATTTATTTTTTATAT
223994 ATTTTATTTATTTTTTATAT
1 ATTTTATTTATTTTTTATAT
224014 ATTTATATTT
1 ATTT-TATTT
224024 TATATCTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.20
20 20 0.50
21 12 0.30
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATTTATTTTTTATAT
Found at i:224016 original size:15 final size:15
Alignment explanation
Indices: 223998--224035 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
223988 AATTATATTT
223998 TATTTATTTTTTATA
1 TATTTATTTTTTATA
*
224013 TATTTATATTTTATA
1 TATTTATTTTTTATA
*
224028 TCTTTATT
1 TATTTATT
224036 ATGATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTATTTTTTATA
Found at i:224141 original size:17 final size:17
Alignment explanation
Indices: 224106--224138 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
224096 ATCAAATAAA
*
224106 AATAATATAATAAATTT
1 AATAAAATAATAAATTT
224123 AATAAAATAA-AAATTT
1 AATAAAATAATAAATTT
224139 TAACAATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAAATAATAAATTT
Found at i:224328 original size:14 final size:15
Alignment explanation
Indices: 224309--224337 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
224299 CATTTACAGC
224309 GATAAAATTT-TTTT
1 GATAAAATTTCTTTT
224323 GATAAAATTTCTTTT
1 GATAAAATTTCTTTT
224338 AGAAAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
GATAAAATTTCTTTT
Found at i:224539 original size:2 final size:2
Alignment explanation
Indices: 224532--224574 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
224522 AAATGCATAA
224532 AG AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG AG
224574 A
1 A
224575 TTTAATGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:225473 original size:2 final size:2
Alignment explanation
Indices: 225466--225492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
225456 GAATATGTAA
225466 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
225493 ATGTAGAAAT
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:226056 original size:22 final size:22
Alignment explanation
Indices: 226014--226060 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
226004 ACGTAGATTA
* *
226014 TAAATTTTTAATTTTATTAAAT
1 TAAATTATTAATTTTAATAAAT
226036 TAAATTATT-ATTATTAATAAAT
1 TAAATTATTAATT-TTAATAAAT
226058 TAA
1 TAA
226061 GTCACTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TAAATTATTAATTTTAATAAAT
Found at i:228545 original size:15 final size:15
Alignment explanation
Indices: 228525--228566 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
228515 ATAAATTTTA
228525 TTATTTTTTATTAAT
1 TTATTTTTTATTAAT
*
228540 TTATTTTTTA-AAAT
1 TTATTTTTTATTAAT
228554 TTATATTTTTATT
1 TTAT-TTTTTATT
228567 CAAATCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTTTATTAAT
Found at i:231261 original size:19 final size:18
Alignment explanation
Indices: 231237--231273 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
231227 TTAAAATATT
*
231237 ATTTTATATTAATATTTAA
1 ATTTTAAATTAA-ATTTAA
231256 ATTTTAAATTAAATTTAA
1 ATTTTAAATTAAATTTAA
231274 GTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAATTAAATTTAA
Found at i:232479 original size:3 final size:3
Alignment explanation
Indices: 232471--232504 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
232461 TTTTATTTGC
232471 AAT AAT AAT AAT AAT AAT AAT AAAT AGAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AA
232505 AATTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:232511 original size:17 final size:16
Alignment explanation
Indices: 232471--232504 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
232461 TTTTATTTGC
232471 AATAAT-AATAATAAT
1 AATAATAAATAATAAT
232486 AATAATAAATAGATAAT
1 AATAATAAATA-ATAAT
232503 AA
1 AA
232505 AATTAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:234131 original size:22 final size:23
Alignment explanation
Indices: 234106--234149 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
234096 ATCATTCTAG
*
234106 ATTCAAG-TAAATTGGGTTTAAC
1 ATTCAAGTTAAATAGGGTTTAAC
**
234128 ATTCGGGTTAAATAGGGTTTAA
1 ATTCAAGTTAAATAGGGTTTAA
234150 GTCATTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (23 bp):
ATTCAAGTTAAATAGGGTTTAAC
Found at i:236368 original size:30 final size:29
Alignment explanation
Indices: 236310--236385 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 29
236300 TTATTTAATC
*
236310 ATAAAATAAT-TTTTATTTAAATAAAAAT-
1 ATAAAATAATATTTTA-ATAAATAAAAATA
236338 ATAAAATAATATTTTAATAATATAACAAATA
1 ATAAAATAATATTTTAATAA-ATAA-AAATA
236369 ATAAAATAA-ATTTTAAT
1 ATAAAATAATATTTTAAT
236386 CAACTTAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 13 0.30
29 9 0.21
30 12 0.28
31 9 0.21
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
ATAAAATAATATTTTAATAAATAAAAATA
Found at i:240529 original size:3 final size:3
Alignment explanation
Indices: 240521--240553 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
240511 CCCAAAACAT
240521 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
240554 ATGACTCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:241276 original size:27 final size:27
Alignment explanation
Indices: 241238--241293 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
241228 GCAACCTTCA
241238 CTGTTTCAAATTAAATTTCAAAATTGG
1 CTGTTTCAAATTAAATTTCAAAATTGG
*
241265 CTGTTTCAAATTGAATTTCAAAATTGG
1 CTGTTTCAAATTAAATTTCAAAATTGG
241292 CT
1 CT
241294 AGCAACAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (27 bp):
CTGTTTCAAATTAAATTTCAAAATTGG
Found at i:245970 original size:13 final size:13
Alignment explanation
Indices: 245920--245968 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
245910 ACTTTCACTG
245920 TTTT-AAATTAAA
1 TTTTAAAATTAAA
245932 TTTTAAAATTAACA
1 TTTTAAAATTAA-A
* * *
245946 GTTTCAAATTGAA
1 TTTTAAAATTAAA
245959 TTTTAAAATT
1 TTTTAAAATT
245969 GACTAGCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.13
13 16 0.53
14 10 0.33
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (13 bp):
TTTTAAAATTAAA
Found at i:247281 original size:2 final size:2
Alignment explanation
Indices: 247274--247311 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
247264 TTCTATGTAT
*
247274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
247312 CACATCAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249178 original size:3 final size:3
Alignment explanation
Indices: 249170--249194 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
249160 CGTGCGACAT
249170 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
249195 CATGGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:249653 original size:2 final size:2
Alignment explanation
Indices: 249646--249676 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
249636 GGTGATGATT
*
249646 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
249677 CATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:250983 original size:27 final size:28
Alignment explanation
Indices: 250935--250989 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
250925 TTGACTCAAG
* *
250935 TTTAATTTTAATTAATATATAT-TTTTA
1 TTTAATTTTAAATAATAAATATATTTTA
*
250962 TTTAATTTTAAATATTAAATATATTTTA
1 TTTAATTTTAAATAATAAATATATTTTA
250990 AAATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAATTTTAAATAATAAATATATTTTA
Found at i:251021 original size:23 final size:24
Alignment explanation
Indices: 250985--251029 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
250975 ATTAAATATA
250985 TTTTAAAATATAAAAAAATTAATT
1 TTTTAAAATATAAAAAAATTAATT
*
251009 TTTTAACAT-TAAAAAAATTAA
1 TTTTAAAATATAAAAAAATTAA
251030 AAAAACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTAAAATATAAAAAAATTAATT
Found at i:251344 original size:2 final size:2
Alignment explanation
Indices: 251337--251382 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
251327 CGTTCATCAT
251337 TA TA 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 TA TA
251379 TA TA
1 TA TA
251383 ATTAAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:252350 original size:3 final size:3
Alignment explanation
Indices: 252342--252375 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
252332 GAAGTCTGAT
252342 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
252376 ATGGAGCTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:252616 original size:16 final size:16
Alignment explanation
Indices: 252595--252630 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
252585 AATTATATTT
*
252595 TTATTTTATTTAAAAG
1 TTATTTTATTTAAAAA
252611 TTATTTTATTTAAAAA
1 TTATTTTATTTAAAAA
252627 TTAT
1 TTAT
252631 CTTTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTTTATTTAAAAA
Found at i:256237 original size:17 final size:17
Alignment explanation
Indices: 256194--256237 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
256184 CACATATTTA
*
256194 TTATATTTAAAGTAAAT
1 TTATATTTAAAATAAAT
* * *
256211 TTTTAATTAAAATCAAT
1 TTATATTTAAAATAAAT
256228 TTATATTTAA
1 TTATATTTAA
256238 GATTTTAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTATATTTAAAATAAAT
Found at i:259663 original size:16 final size:15
Alignment explanation
Indices: 259632--259688 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
259622 TTTATATATA
*
259632 AAAAAAAATCTCTTTT
1 AAAAAAAAT-TTTTTT
259648 AAAAAAAATTATTTTT
1 AAAAAAAATT-TTTTT
* *
259664 AAAAATTAATTTTTAT
1 AAAAA-AAATTTTTTT
259680 AAAAAAAAT
1 AAAAAAAAT
259689 AAGTAATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.11
16 27 0.77
17 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAAAAATTTTTTT
Found at i:259667 original size:13 final size:14
Alignment explanation
Indices: 259651--259683 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
259641 CTCTTTTAAA
259651 AAAAATT-ATTTTT
1 AAAAATTAATTTTT
259664 AAAAATTAATTTTT
1 AAAAATTAATTTTT
259678 ATAAAA
1 A-AAAA
259684 AAAATAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAAATTAATTTTT
Found at i:260112 original size:18 final size:18
Alignment explanation
Indices: 260086--260120 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
260076 AATTAAAAAA
*
260086 TTGTGATTTATATGAAAT
1 TTGTAATTTATATGAAAT
260104 TTGTAATTTATATGAAA
1 TTGTAATTTATATGAAA
260121 GTTGATGCAA
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:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
TTGTAATTTATATGAAAT
Found at i:261956 original size:83 final size:84
Alignment explanation
Indices: 261859--262015 Score: 235
Period size: 83 Copynumber: 1.9 Consensus size: 84
261849 ATATATTTTT
* * *
261859 AGTAATATACAATAATTAATGTAATAGTAAAAATATTATTAAATATAATA-CTTTAAAAGTGTAC
1 AGTAATATACAATAATTAATGTAATAATAAAAATATTATTAAATATAATATCCTTAAAAGTATAC
261923 TTAAAATACTTTAAAAAAA
66 TTAAAATACTTTAAAAAAA
* * * *
261942 AGTAATATATAATAATTAATGTAATAATAACAATATTATTATATATAATATCCTTGAAAGTATAC
1 AGTAATATACAATAATTAATGTAATAATAAAAATATTATTAAATATAATATCCTTAAAAGTATAC
*
262007 TTAGAATAC
66 TTAAAATAC
262016 CCTTTAACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
83 46 0.71
84 19 0.29
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (84 bp):
AGTAATATACAATAATTAATGTAATAATAAAAATATTATTAAATATAATATCCTTAAAAGTATAC
TTAAAATACTTTAAAAAAA
Found at i:264870 original size:21 final size:23
Alignment explanation
Indices: 264826--264878 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
264816 AATTTAAATA
264826 AAAATATTATTAAATAAATAATTT
1 AAAAT-TTATTAAATAAATAATTT
264850 -AAATTTA-TAAA-AAATATATTT
1 AAAATTTATTAAATAAATA-ATTT
264871 AAAATTTA
1 AAAATTTA
264879 ATAGTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 10 0.37
23 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATTTATTAAATAAATAATTT
Found at i:265078 original size:23 final size:24
Alignment explanation
Indices: 265038--265082 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
265028 TCTTCTATAA
265038 TTTAAAATTAATTATTAATTATTT
1 TTTAAAATTAATTATTAATTATTT
265062 TTTAAATATTAA-T-TTAATTAT
1 TTTAAA-ATTAATTATTAATTAT
265083 CATAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAAAATTAATTATTAATTATTT
Found at i:266647 original size:3 final size:3
Alignment explanation
Indices: 266641--266673 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
266631 AAAGAAAATG
266641 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
266674 GATATGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:267273 original size:27 final size:27
Alignment explanation
Indices: 267220--267273 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
267210 TTAATTTAAG
* * *
267220 TTTATTTTTAATTAATAAATCTTTTTA
1 TTTAATTTTAATTAATAAATATATTTA
267247 TTTAATTTTAATT-ATAAAATATATTTA
1 TTTAATTTTAATTAAT-AAATATATTTA
267274 AAAATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAATTTTAATTAATAAATATATTTA
Found at i:267296 original size:23 final size:23
Alignment explanation
Indices: 267270--267331 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
267260 ATAAAATATA
*
267270 TTTAAAAATATAAAAATTAATTT
1 TTTAAAAATAAAAAAATTAATTT
* *
267293 TTTAACATTAAAAAAATTAATTT
1 TTTAAAAATAAAAAAATTAATTT
* *
267316 TTTAACATTAAAAAAA
1 TTTAAAAATAAAAAAA
267332 AAAGAAAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAAAAATAAAAAAATTAATTT
Found at i:267332 original size:24 final size:23
Alignment explanation
Indices: 267281--267331 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
267271 TTAAAAATAT
267281 AAAAATTAATTTTTTAACATTAA
1 AAAAATTAATTTTTTAACATTAA
267304 AAAAATTAATTTTTTAACATTAA
1 AAAAATTAATTTTTTAACATTAA
267327 AAAAA
1 AAAAA
267332 AAAGAAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAATTAATTTTTTAACATTAA
Found at i:267546 original size:16 final size:16
Alignment explanation
Indices: 267522--267559 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
267512 TTTATACAAT
267522 TATAT-AAATA-TAACA
1 TATATAAAATATTAA-A
267537 TATATAAAATATTAAA
1 TATATAAAATATTAAA
267553 TATATAA
1 TATATAA
267560 TTTAACACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TATATAAAATATTAAA
Found at i:267653 original size:19 final size:18
Alignment explanation
Indices: 267620--267656 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
267610 TTATTATATC
267620 ATAATAAAATATATAAAT
1 ATAATAAAATATATAAAT
*
267638 ATAATATAAATTTATAAAT
1 ATAATA-AAATATATAAAT
267657 TATTCAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATAAAATATATAAAT
Found at i:267733 original size:33 final size:34
Alignment explanation
Indices: 267686--267751 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
267676 AAAGACTTTT
* *
267686 TAATAAATTTTTTATACCATTTAATTGGATATTC
1 TAATAAATATTTTATACCATTGAATTGGATATTC
*
267720 TAAT-AATATTTTATACCATTGAATTGGGTATT
1 TAATAAATATTTTATACCATTGAATTGGATATT
267752 TTGCATTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (34 bp):
TAATAAATATTTTATACCATTGAATTGGATATTC
Found at i:269926 original size:2 final size:2
Alignment explanation
Indices: 269913--269945 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
269903 AGGACTTGAA
*
269913 AT AT AA 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 AT AT AT A
269946 ATCAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:276145 original size:26 final size:26
Alignment explanation
Indices: 276109--276158 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
276099 AGCAAGAGTA
276109 AAAATTGATTAAAATTAATTTAATCG
1 AAAATTGATTAAAATTAATTTAATCG
* *
276135 AAAATTGATTAAATTTAGTTTAAT
1 AAAATTGATTAAAATTAATTTAAT
276159 AAGTTCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (26 bp):
AAAATTGATTAAAATTAATTTAATCG
Found at i:277073 original size:23 final size:23
Alignment explanation
Indices: 277047--277090 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
277037 TAATAATAAC
277047 AATAATTAAAATATTAAATTAAA
1 AATAATTAAAATATTAAATTAAA
* * *
277070 AATATTTTAAATTTTAAATTA
1 AATAATTAAAATATTAAATTA
277091 TTTATTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTAAAATATTAAATTAAA
Found at i:278109 original size:2 final size:2
Alignment explanation
Indices: 278097--278144 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
278087 CAAGTAACAC
*
278097 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
278139 AT AT AT
1 AT AT AT
278145 CTAGGAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:278902 original size:18 final size:18
Alignment explanation
Indices: 278881--278915 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
278871 TTTAAATTTA
278881 TTTAAATATTAAA-AAATC
1 TTTAAAT-TTAAACAAATC
278899 TTTAAATTTAAACAAAT
1 TTTAAATTTAAACAAAT
278916 AATTTGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAATTTAAACAAATC
Found at i:279477 original size:16 final size:16
Alignment explanation
Indices: 279451--279490 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
279441 GATCCATTTT
*
279451 ATTAATAATTAAATTAA
1 ATTAATTATT-AATTAA
279468 A-TAATTATTAATTAA
1 ATTAATTATTAATTAA
279483 ATTAATTA
1 ATTAATTA
279491 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAATTATTAATTAA
Found at i:280244 original size:26 final size:26
Alignment explanation
Indices: 280208--280271 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
280198 GCAATCCCAT
280208 AAATAATTTTTAAAAATTACATTATC
1 AAATAATTTTTAAAAATTACATTATC
280234 AAATAATTTTTAAAAATTACATTATC
1 AAATAATTTTTAAAAATTACATTATC
280260 AAATAATTTTTA
1 AAATAATTTTTA
280272 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATAATTTTTAAAAATTACATTATC
Found at i:280493 original size:5 final size:5
Alignment explanation
Indices: 280471--280558 Score: 57
Period size: 5 Copynumber: 18.6 Consensus size: 5
280461 ACAATACGTT
* *
280471 TAATA TAA-A -AAAA TAATA TAATA TAATA TAACA TAAATA TAATA TAA-A
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-AATA TAATA TAATA
* *
280519 T-ATA TAA-A T-ATA TCAAAA TTTATA TAATA TAA-A T-ATA TAA
1 TAATA TAATA TAATA T-AATA -TAATA TAATA TAATA TAATA TAA
280559 ATTATCAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
3 5 0.08
4 14 0.22
5 37 0.57
6 8 0.12
7 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:280511 original size:11 final size:11
Alignment explanation
Indices: 280485--280555 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
280475 ATAAAAAAAT
280485 AATATAATAT-
1 AATATAATATA
*
280495 AATATAACATA
1 AATATAATATA
280506 AATATAATATA
1 AATATAATATA
280517 AATAT-ATA-A
1 AATATAATATA
* *
280526 ATATATCAAAATT
1 A-ATAT-AATATA
*
280539 TATATAATATA
1 AATATAATATA
280550 AATATA
1 AATATA
280556 TAAATTATCA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
9 2 0.04
10 16 0.33
11 24 0.50
12 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAATATA
Found at i:280511 original size:16 final size:16
Alignment explanation
Indices: 280490--280555 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 16
280480 AAAATAATAT
280490 AATATAATATAACATA
1 AATATAATATAACATA
280506 AATATAATATAA-ATA
1 AATATAATATAACATA
* *
280521 TATA-AATATATCA-A
1 AATATAATATAACATA
* *
280535 AAT-TTATATAATATA
1 AATATAATATAACATA
280550 AATATA
1 AATATA
280556 TAAATTATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 15 0.38
15 11 0.28
16 13 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAATATAACATA
Found at i:280511 original size:21 final size:19
Alignment explanation
Indices: 280471--280530 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
280461 ACAATACGTT
* *
280471 TAATATAAAAAAAT-AATA
1 TAATATAAATACATAAATA
280489 TAATATAATATAACATAAATA
1 TAATATAA-AT-ACATAAATA
*
280510 TAATATAAATATATAAATA
1 TAATATAAATACATAAATA
280529 TA
1 TA
280531 TCAAAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
20 5 0.14
21 12 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATATAAATACATAAATA
Found at i:281857 original size:208 final size:210
Alignment explanation
Indices: 281459--281867 Score: 495
Period size: 208 Copynumber: 1.9 Consensus size: 210
281449 AAATACAGTA
281459 ATATTATTTTCATTAAAAATAAAAATTAAGTAATTTGAAATATATAATTATAAATATAACAAGAA
1 ATATTATTTTCATTAAAAATAAAAATTAAGTAA--T-AAATATATAATTATAAATATAACAAGAA
*** * * * * * *
281524 TTGATAGTACTATCTTTAACTAACAATTAAAGATATATTTATTTAACAAAATGAATAACCGGATA
63 AAAATAATACTATCTTAAACTAACAA-TAAAGATATAATTATTTAACAAAAAGAAAAACCGGACA
* * * * ** * *
281589 ACAAAATTCGTTAGAACAAATCATCATTTTCTTAAATTTTCGATTTGTCATTGGTAAAAAAAATG
127 ACAAAATTCGTTAAAACAAATCATCATTTTCTCAAATTTTCAATATACCATTGAT-AAAAAAATA
281654 AAAATAATGATATGGCATAG
191 AAAATAATGATATGGCATAG
*
281674 ATATTATATTT-ATTAAAAATAAAAATTAAGTCA-AAATATATAATTATAAATATAACAAGAAAA
1 ATATTAT-TTTCATTAAAAATAAAAATTAAGTAATAAATATATAATTATAAATATAACAAGAAAA
* * *
281737 AATAATACTATCTTAAAGTAAC-A-AAAGATATAATTATTTAATAAAAAGAAAAAGCGGACAACA
65 AATAATACTATCTTAAACTAACAATAAAGATATAATTATTTAACAAAAAGAAAAACCGGACAACA
* * * *
281800 AAATTTGTTAAAACAAATCATCTTTTTC-CCAATTTGTTAATATACCATTGATAAAAAAATAAAA
130 AAATTCGTTAAAACAAATCATCATTTTCTCAAATTT-TCAATATACCATTGATAAAAAAATAAAA
281864 ATAA
194 ATAA
281868 AAATAATGAT
Statistics
Matches: 167, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
207 20 0.12
208 69 0.41
210 1 0.01
211 46 0.28
215 28 0.17
216 3 0.02
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (210 bp):
ATATTATTTTCATTAAAAATAAAAATTAAGTAATAAATATATAATTATAAATATAACAAGAAAAA
ATAATACTATCTTAAACTAACAATAAAGATATAATTATTTAACAAAAAGAAAAACCGGACAACAA
AATTCGTTAAAACAAATCATCATTTTCTCAAATTTTCAATATACCATTGATAAAAAAATAAAAAT
AATGATATGGCATAG
Done.