Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold470
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: 597437
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 6
Found at i:5704 original size:20 final size:20
Alignment explanation
Indices: 5657--5731 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
5647 AAAAAGACAT
*
5657 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
5676 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
5697 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
5717 AATGTATCGATACAT
1 AATGTATCGATACAT
5732 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:5725 original size:40 final size:39
Alignment explanation
Indices: 5654--5731 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5644 GGTAAAAAGA
* *
5654 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
5693 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
5732 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:9708 original size:49 final size:50
Alignment explanation
Indices: 9599--9709 Score: 161
Period size: 49 Copynumber: 2.2 Consensus size: 50
9589 CCACCAAAAC
* *
9599 TAATTGTTGGCTATTCTTCACCAACCTTTGACAATCGAGAGAGGTAGTCG
1 TAATTGTTGACTATTATTCACCAACCTTTGACAATCGAGAGAGGTAGTCG
* * * *
9649 AAATTATTGACTATTATTCACCAACTTTTGA-AATCGAGAGAGGTAGTGG
1 TAATTGTTGACTATTATTCACCAACCTTTGACAATCGAGAGAGGTAGTCG
9698 TAATTGTTGACT
1 TAATTGTTGACT
9710 TTAAGCAACT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 27 0.51
50 26 0.49
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (50 bp):
TAATTGTTGACTATTATTCACCAACCTTTGACAATCGAGAGAGGTAGTCG
Found at i:11193 original size:19 final size:20
Alignment explanation
Indices: 11159--11199 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11149 GAATTTAAAA
*
11159 TTTTTAATAATAAATTTTAT
1 TTTTTAATAATAAATTTAAT
*
11179 TTTTTAAT-ATTAATTTAAT
1 TTTTTAATAATAAATTTAAT
11198 TT
1 TT
11200 AATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAATAATAAATTTAAT
Found at i:13249 original size:22 final size:21
Alignment explanation
Indices: 13224--13280 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
13214 ATTATTTACC
*
13224 TAATAAAAAATATTTTTAA-ATT
1 TAATAAAAAATA-TATTAATA-T
*
13246 TAATTATAAAATATATTAATAT
1 TAA-TAAAAAATATATTAATAT
13268 TAATATAAAAATA
1 TAATA-AAAAATA
13281 ACATTCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.07
22 18 0.62
23 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAAAAATATATTAATAT
Found at i:14162 original size:10 final size:10
Alignment explanation
Indices: 14149--14188 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
14139 ATAAATATTA
14149 AATTTTTAAT
1 AATTTTTAAT
*
14159 AATTTTAAAT
1 AATTTTTAAT
*
14169 AATTTATAAT
1 AATTTTTAAT
*
14179 ATTTTTTAAT
1 AATTTTTAAT
14189 TTTATATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:14166 original size:17 final size:18
Alignment explanation
Indices: 14146--14194 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
14136 ATTATAAATA
14146 TTAAATTTT-TAATAATT
1 TTAAATTTTATAATAATT
*
14163 TTAAATAATTTATAATATTT
1 TTAAAT--TTTATAATAATT
*
14183 TTTAATTTTATA
1 TTAAATTTTATA
14195 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 3 0.11
20 12 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTTTATAATAATT
Found at i:16211 original size:3 final size:3
Alignment explanation
Indices: 16205--16229 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16195 TGAAGAAGAA
16205 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
16230 GAGTAAGCTG
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:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:19930 original size:7 final size:7
Alignment explanation
Indices: 19920--19966 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
19910 TTAAAAAATT
19920 ATATAAA
1 ATATAAA
19927 ATATAAA
1 ATATAAA
19934 ATATATTAA
1 ATATA--AA
19943 ATA-AAA
1 ATATAAA
*
19949 TTATAAA
1 ATATAAA
19956 ATGATAAA
1 AT-ATAAA
19964 ATA
1 ATA
19967 CGAATATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 4 0.12
7 17 0.50
8 8 0.24
9 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:19944 original size:16 final size:16
Alignment explanation
Indices: 19914--19966 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
19904 TAATTATTAA
19914 AAAATTATATAAAATAT
1 AAAA-TATATAAAATAT
*
19931 AAAATATAT-TAA-AT
1 AAAATATATAAAATAT
19945 AAAAT-TATAAAATGAT
1 AAAATATATAAAAT-AT
19961 AAAATA
1 AAAATA
19967 CGAATATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.10
14 9 0.30
15 2 0.07
16 12 0.40
17 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAATATATAAAATAT
Found at i:19946 original size:21 final size:22
Alignment explanation
Indices: 19905--19957 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
19895 ATAAATTATT
*
19905 AATTATTAAAA-A-ATTATATAA
1 AATTA-TAAAATATATTAAATAA
19926 AA-TATAAAATATATTAAATAA
1 AATTATAAAATATATTAAATAA
19947 AATTATAAAAT
1 AATTATAAAAT
19958 GATAAAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.18
20 3 0.11
21 12 0.43
22 8 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTATAAAATATATTAAATAA
Found at i:19953 original size:29 final size:30
Alignment explanation
Indices: 19908--19966 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
19898 AATTATTAAT
*
19908 TATTAAAAAATTATATAAAAT-ATAAAATA
1 TATTAAAAAAATATATAAAATGATAAAATA
19937 TATTAAATAAAAT-TATAAAATGATAAAATA
1 TATTAAA-AAAATATATAAAATGATAAAATA
19967 CGAATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
TATTAAAAAAATATATAAAATGATAAAATA
Found at i:23795 original size:2 final size:2
Alignment explanation
Indices: 23788--23832 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23778 TAATGATGGG
23788 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
23830 TA T
1 TA T
23833 GGATTAGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26650 original size:19 final size:19
Alignment explanation
Indices: 26626--26667 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
26616 ATGGTATGCG
26626 ATAGCTATAGCATCCCATT
1 ATAGCTATAGCATCCCATT
*
26645 ATAGCTATAGCATCCCGTT
1 ATAGCTATAGCATCCCATT
26664 ATAG
1 ATAG
26668 GTGGGGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (19 bp):
ATAGCTATAGCATCCCATT
Found at i:28116 original size:27 final size:26
Alignment explanation
Indices: 28084--28134 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
28074 TCGATTGATA
*
28084 ATATATCAAATCTTATATAAATATATT
1 ATATATCAAATATTATAT-AATATATT
* *
28111 ATATATTAAATATTTTATAATATA
1 ATATATCAAATATTATATAATATA
28135 AAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATATCAAATATTATATAATATATT
Found at i:28122 original size:16 final size:15
Alignment explanation
Indices: 28097--28136 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
28087 TATCAAATCT
28097 TATATAAATATATTA
1 TATATAAATATATTA
*
28112 TATATTAAATATTTTA
1 TATA-TAAATATATTA
28128 TAATATAAA
1 T-ATATAAA
28137 AAATAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATAAATATATTA
Found at i:32828 original size:36 final size:33
Alignment explanation
Indices: 32770--32835 Score: 78
Period size: 36 Copynumber: 1.9 Consensus size: 33
32760 AAAAATATTA
**
32770 AAAATATTTTTATATTCTATAATTTAATTTAAATT
1 AAAATATTTTTATATTAAATAA--TAATTTAAATT
*
32805 AAAATATTTTTTTTATTAAATAATAATTTAA
1 AAAATA-TTTTTATATTAAATAATAATTTAA
32836 CATGGGCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 8 0.30
35 6 0.22
36 13 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (33 bp):
AAAATATTTTTATATTAAATAATAATTTAAATT
Found at i:34335 original size:17 final size:17
Alignment explanation
Indices: 34300--34339 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
34290 ACAAAAAAAA
*
34300 TTTTAAAAAATCAAATT
1 TTTTAAAAAAACAAATT
* *
34317 TTTTAAAAAAACTATTT
1 TTTTAAAAAAACAAATT
34334 TTTTAA
1 TTTTAA
34340 TTAAAACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAAAAAACAAATT
Found at i:35198 original size:16 final size:14
Alignment explanation
Indices: 35188--35220 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
35178 TTTAATTATA
35188 AAATATATTAATAT
1 AAATATATTAATAT
35202 AAATATA--AATAT
1 AAATATATTAATAT
35214 AAATATA
1 AAATATA
35221 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:35201 original size:6 final size:6
Alignment explanation
Indices: 35192--35221 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
35182 ATTATAAAAT
*
35192 ATATTA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA
35222 TATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:35381 original size:274 final size:271
Alignment explanation
Indices: 34888--35411 Score: 768
Period size: 274 Copynumber: 1.9 Consensus size: 271
34878 CATCAGGTAA
*
34888 AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACGTTTAATATATAT
1 AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACATTTAATATATAT
34953 TTTAAACGATACATTTGATCTTCATGCCAAGCTGAATCAAACTTAGGTAAAAAATTTGAAAAAAA
66 TTTAAACGATACATTTGATCTTCATGCCAAGCTG----AAAC-TAGGTAAAAAATTTG-AAAAAA
* * * *
35018 AAAATTGATCAATGTCAACATCATCAGCAGGTCTACACCAACTATTGCTTACTTTGATTAGTTAA
125 AAAATCGATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTAA
35083 CACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGA
190 CACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGA
35148 TCGGATTTTCAAATATT
255 TCGGATTTTCAAATATT
*
35165 AAATTTATTTAAATTTAATTATAAAATATATTAATATAAATATAAATATAAATATAATATTTAAT
1 AAATTTATTTAAATTTAATTATAAAATATATT-A-AT--A-A-AAATATAAATATAACATTTAAT
* * * * *
35230 ATATATTTTAAACGATATATTTGATTTTTATGCCAAGCTG-AA-T-GGATAAGAGATTTG-AAAA
60 ATATATTTTAAACGATACATTTGATCTTCATGCCAAGCTGAAACTAGG-TAAAAAATTTGAAAAA
*
35291 AAAAATCGATCAACGTCAACATCATGAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTA
124 AAAAATCGATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTA
* * *
35356 ACACTATTTCATTTTCTTTTTTTAACTTCAGCTTGATAGAATTTTTAGTCATGCAA
189 ACACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAA
35412 GAATGAATTT
Statistics
Matches: 225, Mismatches: 15, Indels: 17
0.88 0.06 0.07
Matches are distributed among these distances:
274 117 0.52
275 2 0.01
276 10 0.04
277 32 0.14
278 3 0.01
279 2 0.01
281 1 0.00
282 1 0.00
283 57 0.25
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (271 bp):
AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACATTTAATATATAT
TTTAAACGATACATTTGATCTTCATGCCAAGCTGAAACTAGGTAAAAAATTTGAAAAAAAAAATC
GATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTAACACTAT
TTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGATCGGAT
TTTCAAATATT
Found at i:37335 original size:16 final size:17
Alignment explanation
Indices: 37303--37338 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
37293 GGGTTTGAAC
*
37303 TTTTCGGTTTAGAAATA
1 TTTTAGGTTTAGAAATA
37320 TTTTAGGTTT-GAAATA
1 TTTTAGGTTTAGAAATA
37336 TTT
1 TTT
37339 CAGTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTTAGGTTTAGAAATA
Found at i:37627 original size:23 final size:22
Alignment explanation
Indices: 37601--37644 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
37591 AGTATTCATG
37601 TTATTATTCATATTATATTTTAA
1 TTATTATTCATATTAT-TTTTAA
* *
37624 TTATTTTTTATATTATTTTTA
1 TTATTATTCATATTATTTTTA
37645 TGTCATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTATTCATATTATTTTTAA
Found at i:37640 original size:12 final size:12
Alignment explanation
Indices: 37610--37643 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
37600 GTTATTATTC
*
37610 ATATTATATTTT
1 ATATTATTTTTT
37622 A-ATTATTTTTT
1 ATATTATTTTTT
37633 ATATTATTTTT
1 ATATTATTTTT
37644 ATGTCATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:38011 original size:31 final size:31
Alignment explanation
Indices: 37976--38038 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
37966 TTTCACTAAG
* * *
37976 AAAAAATAAAAAATAAAAATATTATACTCAT
1 AAAAAATAAAAAACAAAAATATCATAATCAT
* *
38007 AAAAAATAATAAACAATAATATCATAATCAT
1 AAAAAATAAAAAACAAAAATATCATAATCAT
38038 A
1 A
38039 TTAATTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (31 bp):
AAAAAATAAAAAACAAAAATATCATAATCAT
Found at i:38031 original size:25 final size:24
Alignment explanation
Indices: 37981--38033 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37971 CTAAGAAAAA
* *
37981 ATAAAAAATAAAAATATTATACTC
1 ATAAAAAATAAAAAAATAATACTC
38005 ATAAAAAATAATAAACAATAATA-TC
1 ATAAAAAATAA-AAA-AATAATACTC
38030 ATAA
1 ATAA
38034 TCATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAAAATAAAAAAATAATACTC
Found at i:38571 original size:19 final size:19
Alignment explanation
Indices: 38544--38586 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
38534 TATCCAAATT
* *
38544 TATAAATATCGAACATAAA
1 TATATATATCAAACATAAA
*
38563 TATATATATCAAATATAAA
1 TATATATATCAAACATAAA
38582 TATAT
1 TATAT
38587 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
TATATATATCAAACATAAA
Found at i:39717 original size:30 final size:29
Alignment explanation
Indices: 39683--39764 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
39673 AAACAAATAT
*
39683 AAATTTTAAATTTGTAAATAAAGAA-TATCA
1 AAATTTTAAATAT-TAAATAAAGAAGTA-CA
*
39713 AAATTTCTAAATATTAAATAAATAAGTACA
1 AAATTT-TAAATATTAAATAAAGAAGTACA
* *
39743 AAATATTTAAAAATAAAATAAA
1 AAAT-TTTAAATATTAAATAAA
39765 TTATTATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 35 0.78
31 10 0.22
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATTTTAAATATTAAATAAAGAAGTACA
Found at i:45468 original size:2 final size:2
Alignment explanation
Indices: 45461--45487 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45451 TTTCTTATTT
45461 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
45488 TACTCTATAA
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:46914 original size:35 final size:35
Alignment explanation
Indices: 46849--46917 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
46839 TTAAAAATAT
*
46849 TTAAAATATTTTTATGTTTTATAATTTAATTTAAA
1 TTAAAATATTTTTATGTTTTATAATATAATTTAAA
*
46884 TTAAAATATTTTTGT-TTATTA-AATAATAATTTAA
1 TTAAAATATTTTTATGTT-TTATAAT-ATAATTTAA
46918 CATGGGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (35 bp):
TTAAAATATTTTTATGTTTTATAATATAATTTAAA
Found at i:48419 original size:17 final size:17
Alignment explanation
Indices: 48384--48423 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
48374 ACAAAAAAAA
*
48384 TTTTAAAAAATCAAATT
1 TTTTAAAAAAACAAATT
* *
48401 TTTTAAAAAAACTATTT
1 TTTTAAAAAAACAAATT
48418 TTTTAA
1 TTTTAA
48424 TTAAAACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAAAAAACAAATT
Found at i:49282 original size:16 final size:14
Alignment explanation
Indices: 49272--49304 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
49262 TTTAATTATA
49272 AAATATATTAATAT
1 AAATATATTAATAT
49286 AAATATA--AATAT
1 AAATATATTAATAT
49298 AAATATA
1 AAATATA
49305 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:49285 original size:6 final size:6
Alignment explanation
Indices: 49276--49305 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
49266 ATTATAAAAT
*
49276 ATATTA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA
49306 TATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:49466 original size:275 final size:272
Alignment explanation
Indices: 48972--49496 Score: 779
Period size: 275 Copynumber: 1.9 Consensus size: 272
48962 CATCAGGTAA
*
48972 AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACGTTTAATATATAT
1 AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACATTTAATATATAT
49037 TTTAAACGATACATTTGATCTTCATGCCAAGCTGAATCAAACTTAGGTAAAAAATTTGAAAAAAA
66 TTTAAACGATACATTTGATCTTCATGCCAAGCTG----AAAC-TAGGTAAAAAATTTGAAAAAAA
* * * *
49102 AAAATTGATCAATGTCAACATCATCAGCAGGTCTACACCAACTATTGCTTACTTTGATTAGTTAA
126 AAAATCGATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTAA
49167 CACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGA
191 CACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGA
49232 TCGGATTTTCAAATATT
256 TCGGATTTTCAAATATT
*
49249 AAATTTATTTAAATTTAATTATAAAATATATTAATATAAATATAAATATAAATATAATATTTAAT
1 AAATTTATTTAAATTTAATTATAAAATATATT-A-AT--A-A-AAATATAAATATAACATTTAAT
* * * * *
49314 ATATATTTTAAACGATATATTTGATTTTTATGCCAAGCTG-AA-T-GGATAAGAGATTTG-AAAA
60 ATATATTTTAAACGATACATTTGATCTTCATGCCAAGCTGAAACTAGG-TAAAAAATTTGAAAAA
*
49375 AAAAAATCGATCAACGTCAACATCATGAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTT
124 AAAAAATCGATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTT
* * *
49440 AACACTATTTCATTTTCTTTTTTTAACTTCAGCTTGATAGAATTTTTAGTCATGCAA
189 AACACTATTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAA
49497 GAATGAATTT
Statistics
Matches: 226, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
275 120 0.53
276 10 0.04
277 32 0.14
278 3 0.01
279 2 0.01
281 1 0.00
282 1 0.00
283 57 0.25
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (272 bp):
AAATTTATTTAAATTTAATTATAAAATATATTAATAAAAATATAAATATAACATTTAATATATAT
TTTAAACGATACATTTGATCTTCATGCCAAGCTGAAACTAGGTAAAAAATTTGAAAAAAAAAAAT
CGATCAACGTCAACATCATCAACAGGCCTACACCAACTATTGCTTACTTTGATTAGTTAACACTA
TTTCATTTTCCTCTTTTAACTTCAGCTTAATAGAATTTTTAGTCATGCAACAACAAGAGATCGGA
TTTTCAAATATT
Found at i:51418 original size:16 final size:17
Alignment explanation
Indices: 51386--51421 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
51376 GGGTTTGAAC
*
51386 TTTTCGGTTTAGAAATA
1 TTTTAGGTTTAGAAATA
51403 TTTTAGGTTT-GAAATA
1 TTTTAGGTTTAGAAATA
51419 TTT
1 TTT
51422 CAGTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTTAGGTTTAGAAATA
Found at i:51710 original size:23 final size:22
Alignment explanation
Indices: 51684--51727 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
51674 AGTATTCATG
51684 TTATTATTCATATTATATTTTAA
1 TTATTATTCATATTAT-TTTTAA
* *
51707 TTATTTTTTATATTATTTTTA
1 TTATTATTCATATTATTTTTA
51728 TGTCATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTATTCATATTATTTTTAA
Found at i:51723 original size:12 final size:12
Alignment explanation
Indices: 51693--51726 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
51683 GTTATTATTC
*
51693 ATATTATATTTT
1 ATATTATTTTTT
51705 A-ATTATTTTTT
1 ATATTATTTTTT
51716 ATATTATTTTT
1 ATATTATTTTT
51727 ATGTCATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:52095 original size:31 final size:31
Alignment explanation
Indices: 52060--52122 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
52050 TTTCACTAAG
* * *
52060 AAAAAATAAAAAATAAAAATATTATACTCAT
1 AAAAAATAAAAAACAAAAATATCATAATCAT
* *
52091 AAAAAATAATAAACAATAATATCATAATCAT
1 AAAAAATAAAAAACAAAAATATCATAATCAT
52122 A
1 A
52123 TTAATTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (31 bp):
AAAAAATAAAAAACAAAAATATCATAATCAT
Found at i:52115 original size:25 final size:24
Alignment explanation
Indices: 52065--52117 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
52055 CTAAGAAAAA
* *
52065 ATAAAAAATAAAAATATTATACTC
1 ATAAAAAATAAAAAAATAATACTC
52089 ATAAAAAATAATAAACAATAATA-TC
1 ATAAAAAATAA-AAA-AATAATACTC
52114 ATAA
1 ATAA
52118 TCATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAAAATAAAAAAATAATACTC
Found at i:52655 original size:19 final size:19
Alignment explanation
Indices: 52628--52670 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
52618 TATCCAAATT
* *
52628 TATAAATATCGAACATAAA
1 TATATATATCAAACATAAA
*
52647 TATATATATCAAATATAAA
1 TATATATATCAAACATAAA
52666 TATAT
1 TATAT
52671 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
TATATATATCAAACATAAA
Found at i:53801 original size:30 final size:29
Alignment explanation
Indices: 53767--53848 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
53757 AAACAAATAT
*
53767 AAATTTTAAATTTGTAAATAAAGAA-TATCA
1 AAATTTTAAATAT-TAAATAAAGAAGTA-CA
*
53797 AAATTTCTAAATATTAAATAAATAAGTACA
1 AAATTT-TAAATATTAAATAAAGAAGTACA
* *
53827 AAATATTTAAAAATAAAATAAA
1 AAAT-TTTAAATATTAAATAAA
53849 TTATTATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 35 0.78
31 10 0.22
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATTTTAAATATTAAATAAAGAAGTACA
Found at i:60018 original size:11 final size:9
Alignment explanation
Indices: 59989--60023 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
59979 TTTAATTTTA
59989 TATTAATTT
1 TATTAATTT
*
59998 TAATAATTT
1 TATTAATTT
60007 TATTAATTT
1 TATTAATTT
*
60016 TTTTAATT
1 TATTAATT
60024 AAATTAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTAATTT
Found at i:60022 original size:18 final size:19
Alignment explanation
Indices: 59979--60023 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
59969 TATAAAAATC
59979 TTTAATTTTATATTAATTTT
1 TTTAA-TTTATATTAATTTT
**
59999 AATAATTT-TATTAATTTT
1 TTTAATTTATATTAATTTT
60017 TTTAATT
1 TTTAATT
60024 AAATTAGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 15 0.71
19 3 0.14
20 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAATTTATATTAATTTT
Found at i:61114 original size:19 final size:20
Alignment explanation
Indices: 61087--61124 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61077 AATTAATAAA
*
61087 ATTATTAAATA-AAATTTAT
1 ATTAATAAATATAAATTTAT
61106 ATTAATAAATATAAATTTA
1 ATTAATAAATATAAATTTA
61125 AAGATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAATAAATATAAATTTAT
Found at i:65289 original size:42 final size:42
Alignment explanation
Indices: 65243--65324 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
65233 TTAATTTTTT
* *
65243 TTTATAGTTTGAAAGATCAAATCTT-AAATTTATATTCGAATG
1 TTTATAGTTTAAAAGATCAAAT-TTCAAATTTATATCCGAATG
** * *
65285 TTTATTTTTTAAAAGATTAAATTTCAAGTTTATATCCGAA
1 TTTATAGTTTAAAAGATCAAATTTCAAATTTATATCCGAA
65325 CATAAGTGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (42 bp):
TTTATAGTTTAAAAGATCAAATTTCAAATTTATATCCGAATG
Found at i:66913 original size:2 final size:2
Alignment explanation
Indices: 66906--66931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66896 ACATACATAC
66906 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
66932 TCCCAAAAAT
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:73031 original size:28 final size:26
Alignment explanation
Indices: 72994--73058 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
72984 TATTAAATAA
* *
72994 ATTTTAATATATTTATATTTTAATTATT
1 ATTTTTATATATTT-TATATTAATT-TT
73022 ATTTTTATATTATTTTATATTAATTTT
1 ATTTTTATA-TATTTTATATTAATTTT
73049 -TTTTTA-ATAT
1 ATTTTTATATAT
73059 CATATGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 6 0.18
27 2 0.06
28 17 0.50
29 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
ATTTTTATATATTTTATATTAATTTT
Found at i:73033 original size:14 final size:14
Alignment explanation
Indices: 72994--73046 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
72984 TATTAAATAA
72994 ATTTTAATATATTTAT
1 ATTTTAAT-TA-TTAT
73010 ATTTTAATTATTAT
1 ATTTTAATTATTAT
*
73024 -TTTTATATTATTTT
1 ATTTTA-ATTATTAT
*
73038 ATATTAATT
1 ATTTTAATT
73047 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 5 0.15
14 14 0.42
15 6 0.18
16 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTAATTATTAT
Found at i:73788 original size:28 final size:27
Alignment explanation
Indices: 73749--73801 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
73739 TATAATTATA
*
73749 TTTAATATATTATATATTTTATATAAAT
1 TTTAAAATATTATATA-TTTATATAAAT
73777 TTTAAAATATTATATATTTATATAA
1 TTTAAAATATTATATATTTATATAA
73802 TATTCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTAAAATATTATATATTTATATAAAT
Found at i:73997 original size:19 final size:20
Alignment explanation
Indices: 73973--74016 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
73963 ATGGCTCGAT
73973 TTAAAATAATA-ATTTTTAA
1 TTAAAATAATATATTTTTAA
* *
73992 TTAAAATAGTATATTTTTAT
1 TTAAAATAATATATTTTTAA
74012 TTAAA
1 TTAAA
74017 TTTATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAAATAATATATTTTTAA
Found at i:74017 original size:19 final size:19
Alignment explanation
Indices: 73971--74017 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
73961 AGATGGCTCG
73971 ATTTAAAATAATAATTTTTA
1 ATTT-AAATAATAATTTTTA
* *
73991 ATTAAAATAGTATATTTTT-
1 ATTTAAATAATA-ATTTTTA
74010 ATTTAAAT
1 ATTTAAAT
74018 TTATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAAATAATAATTTTTA
Found at i:74053 original size:22 final size:20
Alignment explanation
Indices: 74013--74053 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
74003 TATTTTTATT
*
74013 TAAATTTATTATAAAATATA
1 TAAATTTAATATAAAATATA
74033 TAAATATTAATATAAAA-ATA
1 TAAAT-TTAATATAAAATATA
74053 T
1 T
74054 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATAAAATATA
Found at i:74427 original size:22 final size:23
Alignment explanation
Indices: 74385--74428 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
74375 TATTTTTATT
74385 TAAATTTAAGTATAAAATATATA
1 TAAATTTAAGTATAAAATATATA
* *
74408 TAAATTTTATTAT-AAATATAT
1 TAAATTTAAGTATAAAATATAT
74429 TTTATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAATTTAAGTATAAAATATATA
Found at i:74667 original size:20 final size:19
Alignment explanation
Indices: 74641--74695 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
74631 ATTCAAATTA
74641 ATAAAAAATTAATTTAACT
1 ATAAAAAATTAATTTAACT
* *
74660 AGTAAAAATTTAGATTGAACT
1 A-TAAAAAATTA-ATTTAACT
*
74681 AAAAAAAATT-ATTTA
1 ATAAAAAATTAATTTA
74696 TATATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 16 0.55
21 8 0.28
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAAAAAATTAATTTAACT
Found at i:74680 original size:21 final size:20
Alignment explanation
Indices: 74639--74690 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
74629 ATATTCAAAT
* *
74639 TAATAAAAAATTAATTTAAC
1 TAATAAAAATTTAATTGAAC
*
74659 TAGTAAAAATTTAGATTGAAC
1 TAATAAAAATTTA-ATTGAAC
*
74680 TAAAAAAAATT
1 TAATAAAAATT
74691 ATTTATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TAATAAAAATTTAATTGAAC
Found at i:74853 original size:19 final size:17
Alignment explanation
Indices: 74829--74864 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
74819 ATTCATCATT
74829 TATTTAACATTAAATATAA
1 TATTTAA-ATT-AATATAA
74848 TATTTAAATTAATATAA
1 TATTTAAATTAATATAA
74865 AAAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTTAAATTAATATAA
Found at i:75346 original size:7 final size:7
Alignment explanation
Indices: 75327--75361 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
75317 AAGCTATAAA
75327 AAATATAT
1 AAATAT-T
75335 AAATATT
1 AAATATT
75342 AAATATT
1 AAATATT
*
75349 AAATTTT
1 AAATATT
75356 AAATAT
1 AAATAT
75362 AATTAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:76908 original size:16 final size:16
Alignment explanation
Indices: 76869--76910 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
76859 ATTTACATTA
*
76869 AATTA-TTTTATTTTT
1 AATTATTTTTAATTTT
76884 AATT-TTTTTAATTTT
1 AATTATTTTTAATTTT
*
76899 CATTATTTTTAA
1 AATTATTTTTAA
76911 AAAGTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
AATTATTTTTAATTTT
Found at i:77071 original size:19 final size:18
Alignment explanation
Indices: 77015--77072 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
77005 TATTAATTTG
77015 ATATAATTTT-CATATAA
1 ATATAATTTTACATATAA
* *
77032 A-ATGAATTTTATATATTA
1 ATAT-AATTTTACATATAA
*
77050 ATATAAATTTTACAAATAA
1 ATAT-AATTTTACATATAA
77069 ATAT
1 ATAT
77073 TTTATTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 2 0.06
17 7 0.22
18 6 0.19
19 17 0.53
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATAATTTTACATATAA
Found at i:78545 original size:19 final size:18
Alignment explanation
Indices: 78513--78571 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 18
78503 AAATTTTAAT
78513 ATATTTTATATTTATATC
1 ATATTTTATATTTATATC
*
78531 ATATTATTATTTTTATAT-
1 ATATT-TTATATTTATATC
* *
78549 -TATTTTATAGTTA-ATT
1 ATATTTTATATTTATATC
78565 ATATTTT
1 ATATTTT
78572 GATTTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 2 0.06
16 7 0.20
17 10 0.29
18 5 0.14
19 11 0.31
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTTATATTTATATC
Found at i:78552 original size:17 final size:16
Alignment explanation
Indices: 78505--78556 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
78495 TATTTAATAA
*
78505 ATTTTAATA-TATTTT
1 ATTTTTATATTATTTT
*
78520 ATATTTATATCATATTATT
1 ATTTTTATAT--TATT-TT
78539 ATTTTTATATTATTTT
1 ATTTTTATATTATTTT
78555 AT
1 AT
78557 AGTTAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 4 0.13
18 4 0.13
19 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTATATTATTTT
Found at i:78569 original size:34 final size:34
Alignment explanation
Indices: 78505--78579 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
78495 TATTTAATAA
* *
78505 ATTTTAATATATTTTATATTTATATCATATTATT-
1 ATTTTTATATATTTTATAGTTATATCATATT-TTG
*
78539 ATTTTTATATTATTTTATAGTTA-ATTATATTTTG
1 ATTTTTATA-TATTTTATAGTTATATCATATTTTG
78573 ATTTTTA
1 ATTTTTA
78580 ATAAAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.06
34 22 0.61
35 12 0.33
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (34 bp):
ATTTTTATATATTTTATAGTTATATCATATTTTG
Found at i:78869 original size:21 final size:21
Alignment explanation
Indices: 78845--78905 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
78835 AGTAAATGTA
78845 TAATTTTTATTATATTTATAT
1 TAATTTTTATTATATTTATAT
*
78866 TAATTTTTATT-T-TATA-AT
1 TAATTTTTATTATATTTATAT
*
78884 T-ATTTTTAATATATTATATAT
1 TAATTTTTATTATATT-TATAT
78905 T
1 T
78906 TTTTATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 4 0.12
20 3 0.09
21 14 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAATTTTTATTATATTTATAT
Found at i:78875 original size:18 final size:18
Alignment explanation
Indices: 78854--78912 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
78844 ATAATTTTTA
78854 TTATATTTATATTAATTT
1 TTATATTTATATTAATTT
78872 TTAT-TTTATAATT-ATTT
1 TTATATTTAT-ATTAATTT
*
78889 TTAATATATTATA-TATTTT
1 TT-ATAT-TTATATTAATTT
78908 TTATA
1 TTATA
78913 AATTATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 11 0.31
18 13 0.37
19 7 0.20
20 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATTTATATTAATTT
Found at i:78881 original size:17 final size:18
Alignment explanation
Indices: 78843--78901 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 18
78833 GAAGTAAATG
78843 TATAATT-TTTATTATATT
1 TATAATTATTT-TTATATT
78861 TAT-ATTAATTTTTAT-TT
1 TATAATT-ATTTTTATATT
78878 TATAATTATTTTTAATATAT
1 TATAATTATTTTT-ATAT-T
78898 TATA
1 TATA
78902 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 14 0.40
18 12 0.34
19 4 0.11
20 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATAATTATTTTTATATT
Found at i:78919 original size:38 final size:37
Alignment explanation
Indices: 78847--78948 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 37
78837 TAAATGTATA
* ** *
78847 ATTTTTATTATATTTATATTAATTTTTATTTTATAATT
1 ATTTTTAATATATTTATATT-ATTTTTAAATTATAAAT
78885 ATTTTTAATATATTATATATT-TTTTATAAATTATAAAT
1 ATTTTTAATATATT-TATATTATTTT-TAAATTATAAAT
** *
78923 ATTAATAATATATTTTATATAATTTT
1 ATTTTTAATATA-TTTATATTATTTT
78949 AATATATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
37 4 0.08
38 37 0.70
39 12 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (37 bp):
ATTTTTAATATATTTATATTATTTTTAAATTATAAAT
Found at i:78953 original size:18 final size:18
Alignment explanation
Indices: 78843--78987 Score: 54
Period size: 18 Copynumber: 7.8 Consensus size: 18
78833 GAAGTAAATG
*
78843 TATAATTTTTATTATATTTA
1 TATAA-TTTTAATAT-TTTA
78863 TATTAATTTT--TATTTTA
1 TA-TAATTTTAATATTTTA
* *
78880 TAATTATTTTTAATATATTA
1 T-A-TAATTTTAATATTTTA
* * **
78900 TATATTTTTTATAAATTA
1 TATAATTTTAATATTTTA
78918 TA-AATATTAATAATATATTTTA
1 TATAAT-TT--T-A-ATATTTTA
78940 TATAATTTTAATATATTTA
1 TATAATTTTAATAT-TTTA
*
78959 -AGT-A-TTT-ATA-TTAA
1 TA-TAATTTTAATATTTTA
78973 TATAATTTTAATATT
1 TATAATTTTAATATT
78988 AAAAATAAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
14 4 0.04
15 2 0.02
16 6 0.06
17 13 0.13
18 36 0.36
19 7 0.07
20 15 0.15
21 3 0.03
22 10 0.10
23 3 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TATAATTTTAATATTTTA
Found at i:79412 original size:9 final size:9
Alignment explanation
Indices: 79400--79452 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
79390 CTTTTTTGTT
79400 GAAAAAAAA
1 GAAAAAAAA
*
79409 G-AAAGAAA
1 GAAAAAAAA
*
79417 GAAAGAAAGGA
1 GAAA-AAA-AA
79428 GAAAAAAAA
1 GAAAAAAAA
79437 GAAAAAAAA
1 GAAAAAAAA
79446 GATAAAA
1 GA-AAAA
79453 TTTAGTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
8 7 0.19
9 15 0.42
10 9 0.25
11 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:79452 original size:20 final size:20
Alignment explanation
Indices: 79401--79452 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
79391 TTTTTTGTTG
*
79401 AAAAAAA-AG-AAAGAAAGA
1 AAAAAAAGAGAAAAAAAAGA
* *
79419 AAGAAAGGAGAAAAAAAAGA
1 AAAAAAAGAGAAAAAAAAGA
*
79439 AAAAAAAGATAAAA
1 AAAAAAAGAGAAAA
79453 TTTAGTATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 5 0.19
19 2 0.08
20 19 0.73
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAGAAAAAAAAGA
Found at i:79512 original size:20 final size:20
Alignment explanation
Indices: 79468--79514 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
79458 TATATTTATA
79468 TTTATATTTTTATATAAAAT
1 TTTATATTTTTATATAAAAT
* *
79488 ATTATATTTTTATA-AAATTT
1 TTTATATTTTTATATAAA-AT
79508 TTTATAT
1 TTTATAT
79515 ATTAATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATATTTTTATATAAAAT
Found at i:79836 original size:16 final size:17
Alignment explanation
Indices: 79795--79836 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
79785 TTTAATATTT
79795 ATAAAATTT-TAATGAA
1 ATAAAATTTATAATGAA
*
79811 ATAAAA-TTATAAT-TA
1 ATAAAATTTATAATGAA
79826 ATAAAATTTAT
1 ATAAAATTTAT
79837 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAAATTTATAATGAA
Found at i:80639 original size:14 final size:13
Alignment explanation
Indices: 80620--80683 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 13
80610 TGTTTAAGAT
80620 ATATTAAGATTTAA
1 ATATTAA-ATTTAA
*
80634 ATATT--ATTT-T
1 ATATTAAATTTAA
80644 ATATTAATATTTAA
1 ATATTAA-ATTTAA
*
80658 ATATT--ATTTAT
1 ATATTAAATTTAA
80669 A-ATTAAATTTAA
1 ATATTAAATTTAA
80681 ATA
1 ATA
80684 AAAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
10 8 0.21
11 10 0.26
12 6 0.15
13 5 0.13
14 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
ATATTAAATTTAA
Found at i:80678 original size:23 final size:24
Alignment explanation
Indices: 80619--80683 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
80609 CTGTTTAAGA
80619 TATATTAAGATTTAAATATTATTT
1 TATATTAAGATTTAAATATTATTT
*
80643 TATATTAATATTTAAATATTA-TT
1 TATATTAAGATTTAAATATTATTT
80666 TATAATTAA-ATTTAAATA
1 TAT-ATTAAGATTTAAATA
80684 AAAATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 14 0.36
24 25 0.64
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TATATTAAGATTTAAATATTATTT
Found at i:81268 original size:17 final size:17
Alignment explanation
Indices: 81246--81300 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
81236 TATATAAATT
81246 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
81263 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
81280 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
81295 ATTTTA
1 ATTTTA
81301 AAATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 5 0.15
16 7 0.21
17 7 0.21
18 6 0.18
19 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:81273 original size:20 final size:20
Alignment explanation
Indices: 81225--81313 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
81215 AATAGTTGGA
81225 TAATATCATTGTATATAAATTAT
1 TAATAT-ATT-TATATAAATT-T
*
81248 T-TTATATTTATATAAATTT
1 TAATATATTTATATAAATTT
81267 TAATATA-TTA-AT-AA--T
1 TAATATATTTATATAAATTT
81282 T--TATA-TTATATAAATTT
1 TAATATATTTATATAAATTT
*
81299 TAAAATATTTATATA
1 TAATATATTTATATA
81314 TTTATATTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
13 7 0.13
14 2 0.04
15 4 0.07
17 4 0.07
18 2 0.04
19 8 0.15
20 21 0.38
21 3 0.05
22 3 0.05
23 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (20 bp):
TAATATATTTATATAAATTT
Found at i:81285 original size:33 final size:33
Alignment explanation
Indices: 81248--81384 Score: 118
Period size: 32 Copynumber: 4.0 Consensus size: 33
81238 TATAAATTAT
81248 TTTATATTTATATAAATTTTAATATATTAATAA
1 TTTATATTTATATAAATTTTAATATATTAATAA
* *
81281 TTTATA-TTATATAAATTTTAAAATATTTATATA
1 TTTATATTTATATAAATTTTAATATATTAATA-A
* * *
81314 TTTATATTGTATCAT--ATTTTAATTATTTTATTTA
1 TTTATATT-TAT-ATAAATTTTAA-TATATTAATAA
* *
81348 TGTTATATTTATATCATCATATTTAATATATTGATAA
1 T-TTATATTTATAT-A-AAT-TTTAATATATTAATAA
81385 AATTTAATTC
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
32 23 0.28
33 15 0.18
34 13 0.16
35 15 0.18
36 2 0.02
37 9 0.11
38 5 0.06
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (33 bp):
TTTATATTTATATAAATTTTAATATATTAATAA
Found at i:81344 original size:34 final size:33
Alignment explanation
Indices: 81248--81376 Score: 111
Period size: 33 Copynumber: 3.8 Consensus size: 33
81238 TATAAATTAT
* *
81248 TTTATATTTATAT-AAATTTTAATATATTA-ATAA
1 TTTATA-TTATATCATATTTTAATATTTTATAT-A
* *
81281 TTTATATTATAT-AAATTTTAAAATATTTATATA
1 TTTATATTATATCATATTTTAATAT-TTTATATA
* *
81314 TTTATATTGTATCATATTTTAATTATTTTATTTA
1 TTTATATTATATCATATTTTAA-TATTTTATATA
81348 TGTTATATTTATATCATCATATTTAATAT
1 T-TTATA-TTATATCAT-AT-TTTAATAT
81377 ATTGATAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
32 17 0.21
33 21 0.26
34 18 0.22
35 7 0.09
36 8 0.10
37 5 0.06
38 5 0.06
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (33 bp):
TTTATATTATATCATATTTTAATATTTTATATA
Found at i:84078 original size:11 final size:12
Alignment explanation
Indices: 84062--84099 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
84052 AGGTCATCTA
84062 TTTTTTCTTT-T
1 TTTTTTCTTTCT
84073 TTTTTTCTTTCT
1 TTTTTTCTTTCT
84085 TTTTCTTCCTTTCT
1 TTTT-TT-CTTTCT
84099 T
1 T
84100 CTCCCTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.42
12 5 0.21
13 2 0.08
14 7 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:84823 original size:15 final size:15
Alignment explanation
Indices: 84805--84843 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
84795 TTTTCTAATT
84805 TATTTTTTAAAAATA
1 TATTTTTTAAAAATA
* *
84820 TATTTTTTGAAAATT
1 TATTTTTTAAAAATA
*
84835 TAATTTTTA
1 TATTTTTTA
84844 GTAATTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTTTTTAAAAATA
Found at i:84986 original size:25 final size:25
Alignment explanation
Indices: 84943--84991 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
84933 ATTTTTATAT
*
84943 AATAAAAATTACTAAATA-TATAAA
1 AATAAAAATTAATAAATATTATAAA
*
84967 AATATAAAATTAATATATATTATAA
1 AATA-AAAATTAATAAATATTATAA
84992 TTGTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAAAAATTAATAAATATTATAAA
Found at i:88937 original size:15 final size:16
Alignment explanation
Indices: 88911--88950 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
88901 TTTACATTAA
*
88911 ATTA-TTTT-ATTTTT
1 ATTATTTTTAATTTTC
88925 ATT-TTTTTAATTTTC
1 ATTATTTTTAATTTTC
88940 ATTATTTTTAA
1 ATTATTTTTAA
88951 AAAGTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 7 0.32
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTATTTTTAATTTTC
Found at i:90569 original size:16 final size:16
Alignment explanation
Indices: 90529--90600 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
90519 GTTATTTTAG
90529 ATTCGGGTCACTTT-GA
1 ATTCGGGTCA-TTTCGA
**
90545 ATTTAGGTCATTTCGA
1 ATTCGGGTCATTTCGA
*
90561 ATTCGGGTCATTTCGG
1 ATTCGGGTCATTTCGA
* *
90577 ATTCGGATCATTTTGA
1 ATTCGGGTCATTTCGA
*
90593 GTTCGGGT
1 ATTCGGGT
90601 TGATTCGGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
15 3 0.07
16 42 0.93
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.40
Consensus pattern (16 bp):
ATTCGGGTCATTTCGA
Found at i:90673 original size:53 final size:53
Alignment explanation
Indices: 90608--90710 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
90598 GGTTGATTCG
* * *
90608 GGTTTAGGTCATTTTAGG-TTCGGGTCAATCGAGTTTAACACTCGGGTTAATCA
1 GGTTTAGGTCATTAT-GGATTCGGGTCAATCGAATTTAACACTCGAGTTAATCA
* * * *
90661 GGTTTGGGTCATTATGGATTCGGGTTAATTGAATTTAACATTCGAGTTAA
1 GGTTTAGGTCATTATGGATTCGGGTCAATCGAATTTAACACTCGAGTTAA
90711 ATTAGATTCG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 2 0.05
53 40 0.95
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (53 bp):
GGTTTAGGTCATTATGGATTCGGGTCAATCGAATTTAACACTCGAGTTAATCA
Found at i:91648 original size:26 final size:24
Alignment explanation
Indices: 91587--91648 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
91577 ATTTTTAAAA
91587 TATAACTTCTTATAAATAATTATTT
1 TATAACTT-TTATAAATAATTATTT
*
91612 TCATTAA-TTTTATTAATAAATTTATTT
1 T-A-TAACTTTTATAAAT-AA-TTATTT
91639 TATAACTTTT
1 TATAACTTTT
91649 TCTTTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
25 11 0.35
26 10 0.32
27 10 0.32
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (24 bp):
TATAACTTTTATAAATAATTATTT
Found at i:95617 original size:16 final size:16
Alignment explanation
Indices: 95596--95634 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
95586 ATGGAGTTTA
95596 ATTTTTTATTCACTAT
1 ATTTTTTATTCACTAT
* * *
95612 ATTTTTAATTTACTTT
1 ATTTTTTATTCACTAT
95628 ATTTTTT
1 ATTTTTT
95635 TCATTTATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTATTCACTAT
Found at i:96627 original size:16 final size:16
Alignment explanation
Indices: 96584--96693 Score: 57
Period size: 16 Copynumber: 6.9 Consensus size: 16
96574 CGGGTTAATT
*
96584 ATTCAGGTTATTTTGG
1 ATTCAGGTCATTTTGG
* *
96600 GTTTAGGGTCATTTTGG
1 ATTCA-GGTCATTTTGG
**
96617 ATTCAGGTCATTCCGG
1 ATTCAGGTCATTTTGG
*
96633 ATTC-GGATTATTTTAGG
1 ATTCAGG-TCATTTT-GG
** **
96650 -TTCAAATCATTTCAG
1 ATTCAGGTCATTTTGG
*
96665 ATTC-GAGTCA-TTTCG
1 ATTCAG-GTCATTTTGG
96680 ATTCAGGTCATTTT
1 ATTCAGGTCATTTT
96694 AGGGTTCGGA
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
15 14 0.21
16 38 0.57
17 15 0.22
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.44
Consensus pattern (16 bp):
ATTCAGGTCATTTTGG
Found at i:96689 original size:15 final size:16
Alignment explanation
Indices: 96656--96692 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
96646 TAGGTTCAAA
96656 TCATTTCAGATTCGAG
1 TCATTTCAGATTCGAG
96672 TCATTTC-GATTC-AGG
1 TCATTTCAGATTCGA-G
96687 TCATTT
1 TCATTT
96693 TAGGGTTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 12 0.60
16 7 0.35
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (16 bp):
TCATTTCAGATTCGAG
Found at i:97135 original size:18 final size:19
Alignment explanation
Indices: 97112--97157 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
97102 TTTTTGTTAA
97112 ATATATTT-TGAT-ATATTT
1 ATATATTTAT-ATCATATTT
97130 ATATATTTATATCATATTT
1 ATATATTTATATCATATTT
97149 AT-TATTTAT
1 ATATATTTAT
97158 TTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATATATTTATATCATATTT
Found at i:98880 original size:51 final size:51
Alignment explanation
Indices: 98772--98883 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
98762 ACGGGGTTGA
* **
98772 AGTATTCCTCGATGATGAAAAATCGATATTTTGGAAATAAAAATGGGATTGG
1 AGTA-TCCCCGATGATGAAAAATCGATATTTTGGAAATAAAAATGGGATAAG
* * *
98824 GGTATCCCCGATGGTGAAAAGTCGATATTTTGGAAAT-AAAATCAGGG-TAAG
1 AGTATCCCCGATGATGAAAAATCGATATTTTGGAAATAAAAAT--GGGATAAG
98875 AGTATCCCC
1 AGTATCCCC
98884 TCAAAAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 5 0.10
51 40 0.78
52 6 0.12
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTATCCCCGATGATGAAAAATCGATATTTTGGAAATAAAAATGGGATAAG
Found at i:98921 original size:79 final size:80
Alignment explanation
Indices: 98806--99114 Score: 344
Period size: 79 Copynumber: 3.9 Consensus size: 80
98796 GATATTTTGG
* * **
98806 AAATAAAAATGGGATTGGGGTATCCCCGATGGTGAAAAGTCGATATTTTGGAAATAAAATCAGGG
1 AAAT-AAAA-GGGATTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCAGGG
*
98871 TAAGAGTATCCCCTCAA
64 TTAGAGTATCCCCTCAA
* * ** *
98888 AAATAAAAGGG-TTGGAGTATCTCCAATGGTGAAAAATTAATATTTTAAAAATAAAATC-GAGTT
1 AAATAAAAGGGATTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTT
* *
98951 TGAGTATCCCCTCAG
66 AGAGTATCCCCTCAA
* * ** * * * *
98966 AAAT-AACGGGGTTGGAGTATCCTTGGTAGTGAAAAATCGATGTTTTAAAAATAAAATCAGGGTC
1 AAATAAAAGGGATTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTT
99030 AGAGTATCCCCTCAA
66 AGAGTATCCCCTCAA
* * *
99045 AAAT-AATGGGATTGGAGTGTCCCCGATGGTG-AAAATCGATGTTTT-AAAA-AAAATCAGGGTT
1 AAATAAAAGGGATTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTT
99106 AGAGTATCC
66 AGAGTATCC
99115 TTGATAGTGA
Statistics
Matches: 191, Mismatches: 34, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
76 20 0.10
77 9 0.05
78 72 0.38
79 79 0.41
80 3 0.02
81 4 0.02
82 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (80 bp):
AAATAAAAGGGATTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTT
AGAGTATCCCCTCAA
Found at i:99123 original size:127 final size:129
Alignment explanation
Indices: 98974--99242 Score: 359
Period size: 127 Copynumber: 2.1 Consensus size: 129
98964 AGAAATAACG
* *
98974 GGGTTGGAGTATCCTTGGTAGTGAAAAATCGATGTTTTAAAAATAAAATCAGGGTCAG-AGTATC
1 GGGTTGGAGTATCCTTGATAGTGAAAAATCGATATTTTAAAAATAAAATCAGGGT-AGTAGTATC
* * * * *
99038 CCCTCAAAAATAA-TGGGATTGGAGTGTCCCCGATGGTG-AAAATCGATGTTTTA-AAA-AAAAT
65 CCCTCAAAAATAACAGGG-TTGGAGTATCCCCAATGGTGAAAAATAGATATTTTAGAAATAAAAT
99099 C
129 C
* * *
99100 AGGGTTAGAGTATCCTTGATAGTGAAAAATCGATATTTTAAAAATAAAATCGGGGTTGTAGTATC
1 -GGGTTGGAGTATCCTTGATAGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTAGTAGTATC
* *
99165 CCCTCAGAAATAACAGGGTTGGAGTATCCCTAATGGTGAAAAATAGATATTTTAGAAATAAAATC
65 CCCTCAAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATAGATATTTTAGAAATAAAATC
99230 GAGGTTGGAGTAT
1 G-GGTTGGAGTAT
99243 TCCCTAGGAA
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
126 1 0.01
127 86 0.70
128 16 0.13
129 4 0.03
130 16 0.13
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (129 bp):
GGGTTGGAGTATCCTTGATAGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTAGTAGTATCC
CCTCAAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATAGATATTTTAGAAATAAAATC
Found at i:99230 original size:79 final size:79
Alignment explanation
Indices: 99099--99259 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 79
99089 TAAAAAAAAT
* * * * *
99099 CAGGGTTAGAGTATCCTTGATAGTGAAAAATCGATATTTTAAAAATAAAATCGGGGTTGTAGTAT
1 CAGGGTTAGAGTATCCCTAATAGTGAAAAATAGATATTTTAAAAATAAAATCGAGGTTGGAGTAT
99164 CCCCTCA-GAAATAA
66 CCCCT-AGGAAATAA
* * *
99178 CAGGGTTGGAGTATCCCTAATGGTGAAAAATAGATATTTTAGAAATAAAATCGAGGTTGGAGTAT
1 CAGGGTTAGAGTATCCCTAATAGTGAAAAATAGATATTTTAAAAATAAAATCGAGGTTGGAGTAT
*
99243 TCCCTAGGAAATAA
66 CCCCTAGGAAATAA
99257 CAG
1 CAG
99260 AAGGATATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 1 0.01
79 71 0.99
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (79 bp):
CAGGGTTAGAGTATCCCTAATAGTGAAAAATAGATATTTTAAAAATAAAATCGAGGTTGGAGTAT
CCCCTAGGAAATAA
Found at i:99372 original size:119 final size:118
Alignment explanation
Indices: 99152--99380 Score: 311
Period size: 119 Copynumber: 1.9 Consensus size: 118
99142 AATAAAATCG
* * *
99152 GGGTTGTAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCTAATGGTGAAAAATAGATATTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCTAATGGTGAAAAATAGATATTT
* * * *
99217 TAGAAATAAAATCGAGGTTGGAGTATTCCCTAGGAAATAACAGAAGGATATTCA
66 TAGAAATAAAACCGAGATCGGAGTATCCCCTAGGAAATAAC-GAAGGATATTCA
* *
99271 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCTCC-AATGGTGAAAAATCAG-TGT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATC-CCTAATGGTGAAAAAT-AGATAT
*
99334 TTTAGAAATAAAACCG-GCATCGGAGTATCCCCTCGGAAATAACGAAG
64 TTTAGAAATAAAACCGAG-ATCGGAGTATCCCCTAGGAAATAACGAAG
99381 TTAGAGTATC
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
118 5 0.05
119 88 0.91
120 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (118 bp):
GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCTAATGGTGAAAAATAGATATTT
TAGAAATAAAACCGAGATCGGAGTATCCCCTAGGAAATAACGAAGGATATTCA
Found at i:99735 original size:78 final size:77
Alignment explanation
Indices: 99271--100055 Score: 642
Period size: 79 Copynumber: 10.0 Consensus size: 77
99261 AGGATATTCA
* * * * * *
99271 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTAT-CTCCAATGGTGAAAAATC-AGTGT
1 GGGTTAGAGTAT-CCCTCGAAAATAAC-GGGTTGGAGTATCCT-CGATAGTGAAAAATCGA-TAT
*
99334 TTTAGAAATAAAACCG
62 TTTAGAAATAAAATCG
** ** * * *
99350 GCATCGGAGTATCCCCTCGGAAATAACGAAGTTAGAGTATCCTCGATAGT-AAAAGATCGATATT
1 GGGTTAGAGTAT-CCCTCGAAAATAACG-GGTTGGAGTATCCTCGATAGTGAAAA-ATCGATATT
*
99414 TTAGAAATAAAATCA
63 TTAGAAATAAAATCG
* * * * *
99429 GGGTTGGAGTATCCCCTTGAAAATAACGAGGTTAGAGTAT-CTCCAATTGTGAAAAATCGATATT
1 GGGTTAGAGTAT-CCCTCGAAAATAACG-GGTTGGAGTATCCT-CGATAGTGAAAAATCGATATT
99493 TTAGAAATAAAATCG
63 TTAGAAATAAAATCG
** * * * *
99508 AAGTTGGAGTATTCTCTCGAAAATAACGGAGTTAGAGTATCGC-CGACTAGTGAAAAATTGATAT
1 GGGTTAGAGTA-TCCCTCGAAAATAACGG-GTTGGAGTATC-CTCGA-TAGTGAAAAATCGATAT
99572 TTTAGAAATAAAATCG
62 TTTAGAAATAAAATCG
* * * * * *
99588 GGGTTATAGTATCTCATCGGAAATAACGAGCTTGGAGTATCCTCGATGGTGAAAAATC-AGTGTT
1 GGGTTAGAGTATC-CCTCGAAAATAACG-GGTTGGAGTATCCTCGATAGTGAAAAATCGA-TATT
*
99652 TTAGAAATAAAATTG
63 TTAGAAATAAAATCG
** * *
99667 GGGTTAGAGTATCCCTCGAAAATAACAGGGTTGGAGTATTTTCGATAGTGGAAAATCGATATATT
1 GGGTTAGAGTATCCCTCGAAAATAAC-GGGTTGGAGTATCCTCGATAGTGAAAAATCGATATTTT
*
99732 AGAAATAAAATCA
65 AGAAATAAAATCG
* * * * * * *
99745 AGGTTGGAGTATCTCCTAGAAAATAACAAGGTTGGAGTATCTTCGATGGTGAAAAATTGATA-TT
1 GGGTTAGAGTATC-CCTCGAAAATAAC-GGGTTGGAGTATCCTCGATAGTGAAAAATCGATATTT
*
99809 TAGAAATAAAATTG
64 TAGAAATAAAATCG
* * * *
99823 GAGTTGGAGTATCCC-CTAAAAATAACGGGGTT-GAGTAT-CTCTGATGGT-AGAAAATCGATAT
1 GGGTTAGAGTATCCCTC-GAAAATAAC-GGGTTGGAGTATCCTC-GATAGTGA-AAAATCGATAT
99884 TTTAGAAATAAAA-CTG
62 TTTAGAAATAAAATC-G
* ** * *
99900 AGAGTTAGAGTATCCCTTAAAAATAACAAGATTGGAGTATCCTCGATAGTGAAAAATCGATATTT
1 -GGGTTAGAGTATCCCTCGAAAATAAC-GGGTTGGAGTATCCTCGATAGTGAAAAATCGATATTT
*
99965 TAGAAATAAAACTAG
64 TAGAAATAAAA-TCG
* ** * * *
99980 GGATTAGAGTATCCCTTTAGAAATAACGAGGTTGGAGTAT-CTCCAATGGTGAAAAATCGATGTT
1 GGGTTAGAGTATCCCTCGA-AAATAACG-GGTTGGAGTATCCT-CGATAGTGAAAAATCGATATT
100044 TTAGAAATAAAA
63 TTAGAAATAAAA
100056 ACATCAATGA
Statistics
Matches: 586, Mismatches: 87, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
75 3 0.01
76 21 0.04
77 28 0.05
78 120 0.20
79 291 0.50
80 121 0.21
81 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (77 bp):
GGGTTAGAGTATCCCTCGAAAATAACGGGTTGGAGTATCCTCGATAGTGAAAAATCGATATTTTA
GAAATAAAATCG
Found at i:100565 original size:13 final size:13
Alignment explanation
Indices: 100547--100576 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
100537 GAACTTCTTG
*
100547 AAAAAAATATTCA
1 AAAAAAAAATTCA
100560 AAAAAAAAATTCA
1 AAAAAAAAATTCA
100573 AAAA
1 AAAA
100577 CCTGAATAAC
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:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:101885 original size:22 final size:23
Alignment explanation
Indices: 101844--101886 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
101834 TTTTTGTGGT
* *
101844 AGTTTTTGGAGCTATGAGAATGG
1 AGTTTTTAGAGCAATGAGAATGG
101867 AGTTTTTAGAGCAAT-AGAAT
1 AGTTTTTAGAGCAATGAGAAT
101887 AGTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (23 bp):
AGTTTTTAGAGCAATGAGAATGG
Found at i:102530 original size:21 final size:20
Alignment explanation
Indices: 102504--102544 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
102494 AGGGTGGTTT
102504 TGTATCGATACATTTTAGGCA
1 TGTATCGATACATTTT-GGCA
102525 TGTATCGATACATTTTGGCA
1 TGTATCGATACATTTTGGCA
102545 AAAATGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTTGGCA
Found at i:103923 original size:22 final size:23
Alignment explanation
Indices: 103874--103937 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 23
103864 TTTTTTAAAA
103874 TATATTAAGATTTAAATATTATTT
1 TATATTAA-ATTTAAATATTATTT
103898 TATATTAATATTTAAATA-T-TTT
1 TATATTAA-ATTTAAATATTATTT
103920 TATAATTAAATTTAAATA
1 TAT-ATTAAATTTAAATA
103938 AAAATATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
22 15 0.39
23 6 0.16
24 17 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTAAATTTAAATATTATTT
Found at i:104551 original size:18 final size:17
Alignment explanation
Indices: 104517--104569 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
104507 TATTTAAATT
104517 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
104534 ATTTTGATATGTTA-AT-A
1 ATTTT-ATAT-TTATATAA
*
104551 A-TTTATA-TTATAGAA
1 ATTTTATATTTATATAA
104566 ATTT
1 ATTT
104570 AAAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 5 0.17
16 5 0.17
17 7 0.23
18 6 0.20
19 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:105036 original size:16 final size:15
Alignment explanation
Indices: 105015--105054 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
105005 TTTTTCAATT
105015 TATTTTTAAAAAATA
1 TATTTTTAAAAAATA
*
105030 TATTTTTAAAAAATT
1 TATTTTTAAAAAATA
105045 TAATTTTTAA
1 T-ATTTTTAA
105055 TAATTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTTAAAAAATA
Found at i:105059 original size:15 final size:15
Alignment explanation
Indices: 105011--105068 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
105001 TTATTTTTTC
105011 AATTT-ATTTTTAAA
1 AATTTAATTTTTAAA
*
105025 AA-ATATATTTTTAAAA
1 AATTTA-ATTTTT-AAA
*
105041 AATTTAATTTTTAAT
1 AATTTAATTTTTAAA
*
105056 AATTTAATATTTA
1 AATTTAATTTTTA
105069 TCTTTTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 20 0.56
16 11 0.31
17 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTAATTTTTAAA
Found at i:105442 original size:17 final size:17
Alignment explanation
Indices: 105410--105443 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105400 TCAAAGGTAA
*
105410 GTATTTAATGTAAATAT
1 GTATTTAATATAAATAT
*
105427 GTATTTAATATGAATAT
1 GTATTTAATATAAATAT
105444 ATTCATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
GTATTTAATATAAATAT
Found at i:108173 original size:43 final size:43
Alignment explanation
Indices: 108125--108212 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
108115 AAGTGGAAGT
*
108125 TATGTTTCAGAGTCGGTTCTGCAAGTCATTTTCATTTCTGCTA
1 TATGTTTCAGAGTCGGTTCTGCAAGTCATTTTCATTTCCGCTA
108168 TATGTTTCAGAGTCGGTTCTGCAAGTCATTTTCATTTCCGCTA
1 TATGTTTCAGAGTCGGTTCTGCAAGTCATTTTCATTTCCGCTA
108211 TA
1 TA
108213 CAAGTATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (43 bp):
TATGTTTCAGAGTCGGTTCTGCAAGTCATTTTCATTTCCGCTA
Found at i:109053 original size:19 final size:21
Alignment explanation
Indices: 109031--109107 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
109021 TATATTTGTA
109031 TTATATTT-A-TATTAATTTT
1 TTATATTTAATTATTAATTTT
*
109050 TTATATTTAATTTTTAATTTT
1 TTATATTTAATTATTAATTTT
*
109071 TTATTATTTTTATATTATATAATTATA
1 TTA-TA--TTTA-ATTAT-TAATT-TT
109098 TTATATTTAA
1 TTATATTTAA
109108 AATCGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
19 8 0.17
20 1 0.02
21 12 0.26
22 2 0.04
23 1 0.02
24 8 0.17
25 4 0.09
26 7 0.15
27 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATATTTAATTATTAATTTT
Found at i:109056 original size:24 final size:24
Alignment explanation
Indices: 109029--109106 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
109019 CATATATTTG
109029 TATTATATTTATATTAATTTTTTA
1 TATTATATTTATATTAATTTTTTA
*
109053 TATT-TAATT-T-TTAA-TTTTT-
1 TATTATATTTATATTAATTTTTTA
* **
109072 TATTATTTTTATATT-ATATAATTA
1 TATTATATTTATATTAAT-TTTTTA
109096 TATTATATTTA
1 TATTATATTTA
109107 AAATCGATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 4 0.10
20 8 0.19
21 6 0.14
22 3 0.07
23 7 0.17
24 14 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATATTTATATTAATTTTTTA
Found at i:109065 original size:13 final size:14
Alignment explanation
Indices: 109036--109064 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109026 TTGTATTATA
109036 TTTATA-TTAATTT
1 TTTATATTTAATTT
109049 TTTATATTTAATTT
1 TTTATATTTAATTT
109063 TT
1 TT
109065 AATTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATATTTAATTT
Found at i:109917 original size:14 final size:14
Alignment explanation
Indices: 109880--109920 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
109870 TTTTTAATAT
109880 ATATTTAAATATAA
1 ATATTTAAATATAA
**
109894 ATATAAAAATATAA
1 ATATTTAAATATAA
*
109908 TTATTTAAATATA
1 ATATTTAAATATA
109921 TAAAAAATTT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTTAAATATAA
Found at i:109945 original size:24 final size:24
Alignment explanation
Indices: 109892--109946 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
109882 ATTTAAATAT
**
109892 AAATAT-AAAAATATAATTATTTA
1 AAATATAAAAAATATAAAAATTTA
* *
109915 AATATATAAAAAATTTAAAAATTTG
1 AA-ATATAAAAAATATAAAAATTTA
109940 AAATATA
1 AAATATA
109947 TCCATAAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATATAAAAAATATAAAAATTTA
Found at i:110726 original size:16 final size:17
Alignment explanation
Indices: 110705--110736 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
110695 ATCATTTAAT
110705 TTTTAT-TCAAATAAAC
1 TTTTATATCAAATAAAC
110721 TTTTATATCAAATAAA
1 TTTTATATCAAATAAA
110737 AGAGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTATATCAAATAAAC
Found at i:111554 original size:19 final size:21
Alignment explanation
Indices: 111520--111567 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
111510 ATTAATAATG
111520 AAATATAATTTAAAAAATAAA
1 AAATATAATTTAAAAAATAAA
111541 AAATA-AATTT-AAAAATAAAA
1 AAATATAATTTAAAAAAT-AAA
111561 AAATATA
1 AAATATA
111568 CATGATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATATAATTTAAAAAATAAA
Found at i:112357 original size:86 final size:86
Alignment explanation
Indices: 112262--112419 Score: 253
Period size: 86 Copynumber: 1.8 Consensus size: 86
112252 TTACTCTAAA
* * * *
112262 ATAATATTTATCGAGTAAAAGTATATTTAGTGAATGAAACATAAGTAATGGTATATAAAAACATG
1 ATAATATTTATCAAGTAAAAGTACATTTAGTGAATGAAACATAAGCAATGATATATAAAAACATG
*
112327 CTGACATATATAATATATAAC
66 CCGACATATATAATATATAAC
* *
112348 ATAATATTTATCAAGTAAAAGTACATTTAGTGAATGAGACATAAGCAATGATATATGAAAACATG
1 ATAATATTTATCAAGTAAAAGTACATTTAGTGAATGAAACATAAGCAATGATATATAAAAACATG
112413 CCGACAT
66 CCGACAT
112420 GTTGTAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (86 bp):
ATAATATTTATCAAGTAAAAGTACATTTAGTGAATGAAACATAAGCAATGATATATAAAAACATG
CCGACATATATAATATATAAC
Found at i:112438 original size:2 final size:2
Alignment explanation
Indices: 112426--112458 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
112416 ACATGTTGTA
*
112426 AT AT A- AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112459 TTTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113743 original size:22 final size:22
Alignment explanation
Indices: 113713--113761 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
113703 TTAGATTTTA
*
113713 AATATATTTTAACAT-TTAAAAT
1 AATAAATTTTAA-ATATTAAAAT
* *
113735 AATAAATTTTGAATATTCAAAT
1 AATAAATTTTAAATATTAAAAT
113757 AATAA
1 AATAA
113762 TAATTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAAATTTTAAATATTAAAAT
Found at i:114686 original size:2 final size:2
Alignment explanation
Indices: 114673--114708 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
114663 GAGAAATTTC
*
114673 AT AT AA 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
114709 TTAGTTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:120274 original size:17 final size:17
Alignment explanation
Indices: 120249--120287 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
120239 AATTTTATAT
*
120249 TATTATTTAAAATTAAA
1 TATTTTTTAAAATTAAA
* *
120266 TATTTTTTAAATTTTAA
1 TATTTTTTAAAATTAAA
120283 TATTT
1 TATTT
120288 ATAATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTTAAAATTAAA
Found at i:120667 original size:16 final size:16
Alignment explanation
Indices: 120648--120678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120638 TGATTTGATT
*
120648 AAATTTTAATTTTAAA
1 AAATTTTAAATTTAAA
120664 AAATTTTAAATTTAA
1 AAATTTTAAATTTAA
120679 GTTTAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTTTAAATTTAAA
Found at i:120695 original size:12 final size:12
Alignment explanation
Indices: 120646--120704 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
120636 TATGATTTGA
120646 TTAAATTTTAATT
1 TTAAA-TTTAATT
*
120659 TTAAA--AAATT
1 TTAAATTTAATT
*
120669 TTAAATTTAAGT
1 TTAAATTTAATT
120681 TTAAATTT-ATT
1 TTAAATTTAATT
*
120692 TTTAATTTAATT
1 TTAAATTTAATT
120704 T
1 T
120705 GATGAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 9 0.24
11 9 0.24
12 15 0.39
13 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:120775 original size:22 final size:22
Alignment explanation
Indices: 120750--120798 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
120740 ATTAAAAAAT
120750 TATTTTTAT-ACTAATAATTATA
1 TATTTTTATAACTAA-AATTATA
* *
120772 TATTTTTATAATTAAATTTATA
1 TATTTTTATAACTAAAATTATA
120794 TATTT
1 TATTT
120799 GTCAGTGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTATAACTAAAATTATA
Found at i:126655 original size:13 final size:13
Alignment explanation
Indices: 126639--126665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
126629 AATCCAAAAT
126639 CGACTAACCCAAA
1 CGACTAACCCAAA
126652 CGACTAACCCAAA
1 CGACTAACCCAAA
126665 C
1 C
126666 CTAAAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.41, G:0.07, T:0.07
Consensus pattern (13 bp):
CGACTAACCCAAA
Found at i:131222 original size:15 final size:15
Alignment explanation
Indices: 131187--131222 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
131177 AACCCTATAG
*
131187 AAAAATTTTAAAAAT
1 AAAAAATTTAAAAAT
*
131202 TAAAAATTTAAAAAT
1 AAAAAATTTAAAAAT
131217 AAAAAA
1 AAAAAA
131223 AGAAACGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATTTAAAAAT
Done.