Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009531.1 Kokia drynarioides strain JFW-HI SEQ_124243, whole genome shotgun sequence
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: 306337
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 44 characters in sequence are not A, C, G, or T
Found at i:1292 original size:22 final size:20
Alignment explanation
Indices: 1244--1293 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
1234 ATTTCTCTAT
* * *
1244 TTTTTTAAAAAATATTTATA
1 TTTTTAAAAAAAAATTAATA
1264 TTTTTAAAAAAAAATTAATA
1 TTTTTAAAAAAAAATTAATA
1284 GTTTATTAAA
1 -TTT-TTAAA
1294 TAAGCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 3 0.12
22 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTTTAAAAAAAAATTAATA
Found at i:1445 original size:32 final size:32
Alignment explanation
Indices: 1408--1469 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1398 AGCAAGTACA
1408 AAGAAAGCTTCTTAAATAAGCTATTTATTTTT
1 AAGAAAGCTTCTTAAATAAGCTATTTATTTTT
*
1440 AAGAAAGCTTCTTAAATATGCTATTTATTT
1 AAGAAAGCTTCTTAAATAAGCTATTTATTT
1470 GTTTAGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (32 bp):
AAGAAAGCTTCTTAAATAAGCTATTTATTTTT
Found at i:5186 original size:90 final size:87
Alignment explanation
Indices: 4842--5202 Score: 302
Period size: 90 Copynumber: 4.1 Consensus size: 87
4832 GAAGTTTCAA
* * * * * *
4842 AAAATTTAAGATTAAAATGTAATTTT-GGAAAAGTTTAGGGGT-AAAATGTAATTTTAAGAAAA-
1 AAAAGTTAAGGTTAAAATGTGATTTTAGG-AAGGTTTAGGGGTCAAAATGTTATTTT-GGAAAAT
* * *
4904 ATTAGGGTCT-AAATGTGATTTT-A
64 TTTAAGGT-TAAAATGTGATTTTGG
* * * * *
4927 AAGAAGTTAAGGATTAAAATGTAATTTTAGGAAGGCTTAAGGGTC-AAATGTGATTTTAGAAAAA
1 AA-AAGTTAAGG-TTAAAATGTGATTTTAGGAAGGTTTAGGGGTCAAAATGTTATTTT-GGAAAA
*
4991 TTTTAAGGTTAAAATATGATTTTGG
63 TTTTAAGGTTAAAATGTGATTTTGG
* * ** * * * * *
5016 GATAGTTTTAAAATTTAAATATGATTTTAGGAAAGTTTAGGGGTTAAAATATTATTTTGGAAAAT
1 AAAAG--TTAAGGTTAAAATGTGATTTTAGGAAGGTTTAGGGGTCAAAATGTTATTTTGGAAAAT
* *
5081 TTTAGGGGTCAAAATGTGATTTTGG
64 TTTA-AGGTTAAAATGTGATTTTGG
*
5106 AAAAGATTAAGGTCAAAATGTGATTTTAGGAAGGTTTGAGGGGTCAAAATGTTATTTTGGAAAAT
1 AAAAG-TTAAGGTTAAAATGTGATTTTAGGAAGGTTT-AGGGGTCAAAATGTTATTTTGGAAAAT
* **
5171 TTTGAAGGTTAAAATGTAATTTTAA
64 TTT-AAGGTTAAAATGTGATTTTGG
5196 AAAAGTT
1 AAAAGTT
5203 TGAGAGCCAA
Statistics
Matches: 218, Mismatches: 45, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
85 2 0.01
86 7 0.03
87 42 0.19
88 21 0.10
89 63 0.29
90 82 0.38
91 1 0.00
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (87 bp):
AAAAGTTAAGGTTAAAATGTGATTTTAGGAAGGTTTAGGGGTCAAAATGTTATTTTGGAAAATTT
TAAGGTTAAAATGTGATTTTGG
Found at i:5205 original size:30 final size:29
Alignment explanation
Indices: 4841--5203 Score: 203
Period size: 30 Copynumber: 12.3 Consensus size: 29
4831 TGAAGTTTCA
* * * *
4841 AAAAATTTAAGATTAAAATGTAATTTTGG
1 AAAAGTTTAAGGTTAAAATGTGATTTTAG
* * *
4870 AAAAGTTTAGGGGTAAAATGTAATTTTAAG
1 AAAAGTTTAAGGTTAAAATGTGATTTT-AG
* *
4900 AAAA-ATTAGGGTCT-AAATGTGATTTTA-
1 AAAAGTTTAAGGT-TAAAATGTGATTTTAG
*
4927 AAGAAG-TTAAGGATTAAAATGTAATTTTAG
1 AA-AAGTTTAAGG-TTAAAATGTGATTTTAG
* * * * *
4957 GAAGGCTTAAGGGTCAAATGTGATTTTAG
1 AAAAGTTTAAGGTTAAAATGTGATTTTAG
* * *
4986 AAAAATTTTAAGGTTAAAATATGATTTTGG
1 -AAAAGTTTAAGGTTAAAATGTGATTTTAG
* * ** * *
5016 GATAGTTTTAAAATTTAAATATGATTTTAG
1 AAAAG-TTTAAGGTTAAAATGTGATTTTAG
* * * * *
5046 GAAAGTTTAGGGGTTAAAATATTATTTTGG
1 AAAAGTTTA-AGGTTAAAATGTGATTTTAG
* * * *
5076 AAAATTTTAGGGGTCAAAATGTGATTTTGG
1 AAAAGTTTA-AGGTTAAAATGTGATTTTAG
* *
5106 AAAAGATTAAGGTCAAAATGTGATTTTAG
1 AAAAGTTTAAGGTTAAAATGTGATTTTAG
* * * * * *
5135 GAAGGTTTGAGGGGTCAAAATGTTATTTTGG
1 AAAAGTTT-A-AGGTTAAAATGTGATTTTAG
* * *
5166 AAAATTTTGAAGGTTAAAATGTAATTTTAA
1 AAAAGTTT-AAGGTTAAAATGTGATTTTAG
5196 AAAAGTTT
1 AAAAGTTT
5204 GAGAGCCAAA
Statistics
Matches: 260, Mismatches: 61, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
27 2 0.01
28 9 0.03
29 98 0.38
30 127 0.49
31 24 0.09
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (29 bp):
AAAAGTTTAAGGTTAAAATGTGATTTTAG
Found at i:5229 original size:61 final size:60
Alignment explanation
Indices: 5090--5230 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 60
5080 TTTTAGGGGT
* ** * * *
5090 CAAAATGTGATTTTGGAAAAGATTAAGGTCAAAATGTGATTTTAGGAAGGTTTGAGGGGT
1 CAAAATGTGATTTTGGAAAAGATTAAGGTCAAAATGTAATTTTAAAAAAGTTTGAGGAGC
* ** *
5150 CAAAATGTTATTTTGGAAAATTTTGAAGGTTAAAATGTAATTTTAAAAAAGTTTGA-GAGC
1 CAAAATGTGATTTTGGAAAAGATT-AAGGTCAAAATGTAATTTTAAAAAAGTTTGAGGAGC
* *
5210 CAAAATGTGACTTTGGGAAAG
1 CAAAATGTGATTTTGGAAAAG
5231 CTCAAGGACT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
60 40 0.61
61 26 0.39
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (60 bp):
CAAAATGTGATTTTGGAAAAGATTAAGGTCAAAATGTAATTTTAAAAAAGTTTGAGGAGC
Found at i:7659 original size:29 final size:29
Alignment explanation
Indices: 7602--7659 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
7592 CTTGAAGGTG
*
7602 TATGGGGTTCTATGGTGCTCCACAGGAGT
1 TATGGGGTTCTATGGTGCTCCACAAGAGT
* *
7631 TATGGTGTTCTATGGTGCTCCGCAAGAGT
1 TATGGGGTTCTATGGTGCTCCACAAGAGT
7660 CTTAACGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (29 bp):
TATGGGGTTCTATGGTGCTCCACAAGAGT
Found at i:9601 original size:21 final size:21
Alignment explanation
Indices: 9575--9614 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9565 TTGGAGAAAT
9575 ATCTTGGTTTTCCATGCATAG
1 ATCTTGGTTTTCCATGCATAG
9596 ATCTTGGTTTTCCATGCAT
1 ATCTTGGTTTTCCATGCAT
9615 GGTTGGTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
ATCTTGGTTTTCCATGCATAG
Found at i:21742 original size:14 final size:15
Alignment explanation
Indices: 21707--21746 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
21697 CTAGAAAAAT
21707 AAGTCATTTTCCAAA
1 AAGTCATTTTCCAAA
*
21722 AAATCATTTTCC-AA
1 AAGTCATTTTCCAAA
21736 AAGTCATTTTC
1 AAGTCATTTTC
21747 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (15 bp):
AAGTCATTTTCCAAA
Found at i:21905 original size:3 final size:3
Alignment explanation
Indices: 21897--21922 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21887 ATATTACATG
21897 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
21923 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:22824 original size:16 final size:17
Alignment explanation
Indices: 22779--22832 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
22769 GAATATGATA
22779 AAAATATTTTAAATATATTT
1 AAAATATTTT-AAT-TA-TT
* *
22799 GAAAT-TTTTTATTATT
1 AAAATATTTTAATTATT
22815 AAAATATTTTAATTATT
1 AAAATATTTTAATTATT
22832 A
1 A
22833 GGCATTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 6 0.21
17 13 0.45
18 2 0.07
19 4 0.14
20 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AAAATATTTTAATTATT
Found at i:22832 original size:20 final size:20
Alignment explanation
Indices: 22779--22832 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 20
22769 GAATATGATA
*
22779 AAAATATTTTAAATA-TATT
1 AAAATATTTTAATTATTATT
**
22798 TGAA-ATTTT--TTATTATT
1 AAAATATTTTAATTATTATT
22815 AAAATATTTTAATTATTA
1 AAAATATTTTAATTATTA
22833 GGCATTTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 7
0.68 0.13 0.18
Matches are distributed among these distances:
16 2 0.08
17 6 0.23
18 10 0.38
19 2 0.08
20 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AAAATATTTTAATTATTATT
Found at i:23144 original size:175 final size:172
Alignment explanation
Indices: 22797--23145 Score: 468
Period size: 175 Copynumber: 2.0 Consensus size: 172
22787 TTAAATATAT
* **
22797 TTGAAATTTTTTATTATTAAAATATTTTAATTATTAGGCATTTCAACAATTATATATAACACATA
1 TTGAAATTTTTTATTATTAAAATAATTTAATTATTACACATTTCAACAATTATATATAACACATA
* * * * * * * *
22862 ACTATATTTAAAAACATAAAAAAACATAATATTGTGTATTGATCTGATGATCAAGAGTATTCATT
66 ACTATATTTAAAAACATAAAAAAACATAACATTATATATTGATCTGATAATAAAAAATATTAATT
* *
22927 GCCCCAAGTATAAATTGAATTCAAATCACATTGTTGTTAGAG
131 GCCCCAAATATAAATTGAATTCAAATCACATTGTTATTAGAG
*
22969 TTGAAATTTTTTATTATTAAAATAATTTAATTATTACACATTTCAATAATTTAATTATATATGAC
1 TTGAAATTTTTTATTATTAAAATAATTTAATTATTACACATTTCAACAA-TT-A-TATATA--AC
* * *
23034 GCATAATTATATTTAAAAACATAAAAAAA-A-AACCTTATATATTGATCTGATAATAAAAAATAT
61 ACATAACTATATTTAAAAACATAAAAAAACATAACATTATATATTGATCTGATAATAAAAAATAT
* *
23097 TAATTGCCCCAAATGTAAATTGAATTCAAATCATATTGTTATTAGAG
126 TAATTGCCCCAAATATAAATTGAATTCAAATCACATTGTTATTAGAG
23144 TT
1 TT
23146 TTATCCTACC
Statistics
Matches: 153, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
172 45 0.29
173 2 0.01
174 1 0.01
175 75 0.49
176 1 0.01
177 29 0.19
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (172 bp):
TTGAAATTTTTTATTATTAAAATAATTTAATTATTACACATTTCAACAATTATATATAACACATA
ACTATATTTAAAAACATAAAAAAACATAACATTATATATTGATCTGATAATAAAAAATATTAATT
GCCCCAAATATAAATTGAATTCAAATCACATTGTTATTAGAG
Found at i:24570 original size:36 final size:36
Alignment explanation
Indices: 24523--24593 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
24513 CTTACCTTGC
24523 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
1 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
* *
24559 ATATTTTTCCTCTTCTAGGACTTTTGGGTGGTGCT
1 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCT
24594 CAGCCTTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.48
Consensus pattern (36 bp):
ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
Found at i:27315 original size:43 final size:43
Alignment explanation
Indices: 27254--27348 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
27244 AAGAGAGTGA
27254 GGGTTTTAGCAATGTGAGTTTTGATTTTGAAAGTTTGAGAAGG
1 GGGTTTTAGCAATGTGAGTTTTGATTTTGAAAGTTTGAGAAGG
*
27297 GGGTTTTAGCAGTGTGAGTTTTGATTTTGAAAGTTTGAGAAGG
1 GGGTTTTAGCAATGTGAGTTTTGATTTTGAAAGTTTGAGAAGG
27340 GGGTTTTAG
1 GGGTTTTAG
27349 GGGATTTCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (43 bp):
GGGTTTTAGCAATGTGAGTTTTGATTTTGAAAGTTTGAGAAGG
Found at i:29445 original size:27 final size:27
Alignment explanation
Indices: 29415--29466 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
29405 TTTTCTTTTA
29415 TTATTTTCCCTCTAAAA-TTTTACTCAT
1 TTATTTTCCC-CTAAAACTTTTACTCAT
29442 TTATTTTCCCCTAAAACTTTTACTC
1 TTATTTTCCCCTAAAACTTTTACTC
29467 CCTCTCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (27 bp):
TTATTTTCCCCTAAAACTTTTACTCAT
Found at i:29823 original size:19 final size:18
Alignment explanation
Indices: 29787--29832 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
29777 CTATTTGTAT
*
29787 TATTGAATTTTTTAATAA
1 TATTGAATTTTATAATAA
29805 TATTGAATATTTATAATAA
1 TATTGAAT-TTTATAATAA
*
29824 AATTGAATT
1 TATTGAATT
29833 ATTAATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTGAATTTTATAATAA
Found at i:29912 original size:18 final size:17
Alignment explanation
Indices: 29889--29959 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
29879 CAATTTCACA
29889 TTTTATCTTTAAAATAAT
1 TTTTAT-TTTAAAATAAT
**
29907 TTTTATTAAAAAATCACAT
1 TTTTATTTTAAAAT-A-AT
* * *
29926 TTTTACATTTAATATATT
1 TTTTA-TTTTAAAATAAT
29944 TTTTAATTTTAAAATA
1 TTTT-ATTTTAAAATA
29960 CGTAGTAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
17 6 0.15
18 20 0.50
19 9 0.22
20 5 0.12
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTATTTTAAAATAAT
Found at i:31199 original size:17 final size:18
Alignment explanation
Indices: 31177--31210 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31167 GTAATTTAGG
31177 CTTAGTTATTT-TATTTC
1 CTTAGTTATTTCTATTTC
31194 CTTAGTTATTTCTATTT
1 CTTAGTTATTTCTATTT
31211 TCGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (18 bp):
CTTAGTTATTTCTATTTC
Found at i:48367 original size:54 final size:54
Alignment explanation
Indices: 48303--48411 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
48293 ACATTATTGG
48303 AAACTAAGGTTTTTTGGATGAGCGATGCATTTAATTGTGGTTAGTATAAAAACA
1 AAACTAAGGTTTTTTGGATGAGCGATGCATTTAATTGTGGTTAGTATAAAAACA
** *
48357 AAACTAAGGTTTTTTGGATGAGCGATGTGTTTACTTGTGGTTAGTATAAAAACA
1 AAACTAAGGTTTTTTGGATGAGCGATGCATTTAATTGTGGTTAGTATAAAAACA
48411 A
1 A
48412 CGTTGTTGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (54 bp):
AAACTAAGGTTTTTTGGATGAGCGATGCATTTAATTGTGGTTAGTATAAAAACA
Found at i:49427 original size:6 final size:6
Alignment explanation
Indices: 49416--49456 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
49406 GCTCTCAATT
* *
49416 CCAACC CCAACC CCAACC CCAACC GCAACC CCAACC GCAAC
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAAC
49457 TCTGTTTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.61, G:0.05, T:0.00
Consensus pattern (6 bp):
CCAACC
Found at i:55952 original size:18 final size:19
Alignment explanation
Indices: 55929--55968 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
55919 TAGAACAAAT
55929 AAAATGCAGA-GACAA-TAA
1 AAAATGCA-ATGACAATTAA
55947 AAAATGCAATGACAATTAA
1 AAAATGCAATGACAATTAA
55966 AAA
1 AAA
55969 GAATGCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.15
Consensus pattern (19 bp):
AAAATGCAATGACAATTAA
Found at i:56365 original size:3 final size:3
Alignment explanation
Indices: 56357--56425 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
56347 CGGGGTAACA
* * *
56357 TCT TCT TCT TTT TCT TCCT TCT T-T TTT TTT TCT TCT TCT T-T TCTT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
*
56402 TCT TCT TAT T-T TCTT TCT TCT TCT
1 TCT TCT TCT TCT TC-T TCT TCT TCT
56426 GCCTCCTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 6 0.11
3 41 0.73
4 9 0.16
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:56388 original size:18 final size:18
Alignment explanation
Indices: 56365--56425 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
56355 CATCTTCTTC
56365 TTTTTCTTCCTTCTTTT-T
1 TTTTTCTT-CTTCTTTTCT
56383 TTTTTCTTCTTCTTTTC-
1 TTTTTCTTCTTCTTTTCT
*
56400 --TTTCTTCTTATTTTCT
1 TTTTTCTTCTTCTTTTCT
*
56416 TTCTTCTTCT
1 TTTTTCTTCT
56426 GCCTCCTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 14 0.38
17 8 0.22
18 15 0.41
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTCTTCTTCTTTTCT
Found at i:56393 original size:30 final size:31
Alignment explanation
Indices: 56357--56425 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 31
56347 CGGGGTAACA
*
56357 TCTTCTTCTTTTTCTTCCTTCTT-TTTTTTT
1 TCTTCTTCTTTTTCTTCCTTCTTATTTTCTT
*
56387 TCTTCTTC-TTTTCTTTCTTCTTATTTTCTT
1 TCTTCTTCTTTTTCTTCCTTCTTATTTTCTT
56417 TCTTCTTCT
1 TCTTCTTCT
56426 GCCTCCTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (31 bp):
TCTTCTTCTTTTTCTTCCTTCTTATTTTCTT
Found at i:56398 original size:15 final size:15
Alignment explanation
Indices: 56357--56425 Score: 95
Period size: 15 Copynumber: 4.6 Consensus size: 15
56347 CGGGGTAACA
56357 TCTTCTTCTTTTTCTT
1 TCTTCTTC-TTTTCTT
* *
56373 CCTTCTT-TTTTTTT
1 TCTTCTTCTTTTCTT
56387 TCTTCTTCTTTTCTT
1 TCTTCTTCTTTTCTT
*
56402 TCTTCTTATTTTCTT
1 TCTTCTTCTTTTCTT
56417 TCTTCTTCT
1 TCTTCTTCT
56426 GCCTCCTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.26
15 28 0.61
16 6 0.13
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTCTTCTTTTCTT
Found at i:66249 original size:27 final size:26
Alignment explanation
Indices: 66219--66271 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
66209 ATTAAAACCC
66219 AAATTATTAATGAAAT-ATTTTATATTT
1 AAATTATTAA--AAATAATTTTATATTT
*
66246 AAATTATTAAATATAATTTTATATTT
1 AAATTATTAAAAATAATTTTATATTT
66272 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 11 0.46
27 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTATTAAAAATAATTTTATATTT
Found at i:66283 original size:25 final size:26
Alignment explanation
Indices: 66235--66285 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
66225 TTAATGAAAT
66235 ATTTTATATTTAAATTATTAAATATA
1 ATTTTATATTTAAATTATTAAATATA
* *
66261 ATTTTATATTT-TATTATTTAATATA
1 ATTTTATATTTAAATTATTAAATATA
66286 GTCATGCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTTATATTTAAATTATTAAATATA
Found at i:66755 original size:13 final size:13
Alignment explanation
Indices: 66737--66761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66727 TAAGTATGAA
66737 ATGCTAAAAATGT
1 ATGCTAAAAATGT
66750 ATGCTAAAAATG
1 ATGCTAAAAATG
66762 GTACACAAGG
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
ATGCTAAAAATGT
Found at i:70172 original size:3 final size:3
Alignment explanation
Indices: 70164--70195 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
70154 AAATCATCCT
70164 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
70196 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:70236 original size:3 final size:3
Alignment explanation
Indices: 70194--70225 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
70184 CATCATCATC
70194 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
70226 ACCTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:82009 original size:54 final size:54
Alignment explanation
Indices: 81946--82048 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
81936 GTACCCGCCT
81946 GTGTAACTCACTAACTT-GGTC-CACACGCTCGTGTCTCAG-CTCGTGTGCTTACTC
1 GTGTAACTCACTAACTTAGGTCACACA-G-TCGTGTCTCAGAC-CGTGTGCTTACTC
* *
82000 GTGTAACTCACTGACTTAGGTCACACAGTCGTGTCTTAGACCGTGTGCT
1 GTGTAACTCACTAACTTAGGTCACACAGTCGTGTCTCAGACCGTGTGCT
82049 AGCCTGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
54 34 0.77
55 6 0.14
56 4 0.09
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.31
Consensus pattern (54 bp):
GTGTAACTCACTAACTTAGGTCACACAGTCGTGTCTCAGACCGTGTGCTTACTC
Found at i:82673 original size:21 final size:23
Alignment explanation
Indices: 82629--82673 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
82619 GAGTAAAATC
*
82629 TGTCAGTGCAAATGTACTATAAAA
1 TGTCAGAGCAAATGTAC-ATAAAA
82653 TGTCAGAGCAAAT-TA-ATAAAA
1 TGTCAGAGCAAATGTACATAAAA
82674 GATGAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (23 bp):
TGTCAGAGCAAATGTACATAAAA
Found at i:83300 original size:343 final size:343
Alignment explanation
Indices: 82674--83360 Score: 1356
Period size: 343 Copynumber: 2.0 Consensus size: 343
82664 ATTAATAAAA
*
82674 GATGAATTGATTGTTGGGACTGTTTGTAAATGTGACTACAAGGTAACTAATAGATGAATTGTCGT
1 GATGAATTGATTGTTGGGACTGTTTGTAAATGTGACTACAAGGTAACTAATAGATGAATTGTCGC
82739 CACAATTATGTCTCAATGAGATCTTACTGCTATCAAACTCTCTGTTTAACAAAGACCTAAATACT
66 CACAATTATGTCTCAATGAGATCTTACTGCTATCAAACTCTCTGTTTAACAAAGACCTAAATACT
82804 CACAATTGCCACACCTTTTAGTGCTGGTACTGCTTTGTACTCAAAACAAGTGGCCAGGTTAATGG
131 CACAATTGCCACACCTTTTAGTGCTGGTACTGCTTTGTACTCAAAACAAGTGGCCAGGTTAATGG
*
82869 TCTCATTTTGTTTGTTGATGCCTAGGCTTCAGTAATGCTTCAATCATTGGTCATTTACTTTAAAT
196 TCTCATTTTGTTTGTTGATGCCTACGCTTCAGTAATGCTTCAATCATTGGTCATTTACTTTAAAT
82934 TGGTGTCTATCATTCAAATCCTTGATTTTCATCACACCGTAAAGTTTCAAAGTTGTCGCCACCTG
261 TGGTGTCTATCATTCAAATCCTTGATTTTCATCACACCGTAAAGTTTCAAAGTTGTCGCCACCTG
82999 ATTATAATGGAAATGAGT
326 ATTATAATGGAAATGAGT
83017 GATGAATTGATTGTTGGGACTGTTTGTAAATGTGACTACAAGGTAACTAATAGATGAATTGTCGC
1 GATGAATTGATTGTTGGGACTGTTTGTAAATGTGACTACAAGGTAACTAATAGATGAATTGTCGC
83082 CACAATTATGTCTCAATGAGATCTTACTGCTATCAAACTCTCTGTTTAACAAAGACCTAAATACT
66 CACAATTATGTCTCAATGAGATCTTACTGCTATCAAACTCTCTGTTTAACAAAGACCTAAATACT
83147 CACAATTGCCACACCTTTTAGTGCTGGTACTGCTTTGTACTCAAAACAAGTGGCCAGGTTAATGG
131 CACAATTGCCACACCTTTTAGTGCTGGTACTGCTTTGTACTCAAAACAAGTGGCCAGGTTAATGG
83212 TCTCATTTTGTTTGTTGATGCCTACGCTTCAGTAATGCTTCAATCATTGGTCATTTACTTTAAAT
196 TCTCATTTTGTTTGTTGATGCCTACGCTTCAGTAATGCTTCAATCATTGGTCATTTACTTTAAAT
83277 TGGTGTCTATCATTCAAATCCTTGATTTTCATCACACCGTAAAGTTTCAAAGTTGTCGCCACCTG
261 TGGTGTCTATCATTCAAATCCTTGATTTTCATCACACCGTAAAGTTTCAAAGTTGTCGCCACCTG
83342 ATTATAATGGAAATGAGT
326 ATTATAATGGAAATGAGT
83360 G
1 G
83361 CCTTGATCGC
Statistics
Matches: 342, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 342 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (343 bp):
GATGAATTGATTGTTGGGACTGTTTGTAAATGTGACTACAAGGTAACTAATAGATGAATTGTCGC
CACAATTATGTCTCAATGAGATCTTACTGCTATCAAACTCTCTGTTTAACAAAGACCTAAATACT
CACAATTGCCACACCTTTTAGTGCTGGTACTGCTTTGTACTCAAAACAAGTGGCCAGGTTAATGG
TCTCATTTTGTTTGTTGATGCCTACGCTTCAGTAATGCTTCAATCATTGGTCATTTACTTTAAAT
TGGTGTCTATCATTCAAATCCTTGATTTTCATCACACCGTAAAGTTTCAAAGTTGTCGCCACCTG
ATTATAATGGAAATGAGT
Found at i:99447 original size:22 final size:22
Alignment explanation
Indices: 99408--99463 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
99398 CTTAGTCACT
*
99408 TAAAAAGAAAAAATGAGAAAAA
1 TAAAAAGAAAAAAAGAGAAAAA
99430 TAAAAA-AAAGAAAAGAG-AAAA
1 TAAAAAGAAA-AAAAGAGAAAAA
*
99451 -GAAAAGAAAAAAA
1 TAAAAAGAAAAAAA
99464 TTATGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 8 0.27
21 10 0.33
22 12 0.40
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (22 bp):
TAAAAAGAAAAAAAGAGAAAAA
Found at i:99462 original size:12 final size:12
Alignment explanation
Indices: 99433--99462 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99423 AGAAAAATAA
99433 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
99445 AGAAAAGAAAAG
1 AAAAAAGAAAAG
99457 AAAAAA
1 AAAAAA
99463 ATTATGTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:103598 original size:74 final size:74
Alignment explanation
Indices: 103477--103623 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 74
103467 TGTCAGAATT
103477 CTCCGATAGTCCATTCTTGACCTCAAATAACTTCTAACTCCTTCATTTCTCTTGGGAACCTATTT
1 CTCCGATAGTCCATTCTTGACCTCAAATAACTTCTAACTCCTTCATTTCTCTTGGGAACCTATTT
103542 TCTTCTAAC
66 TCTTCTAAC
* * *
103551 CTCCGATTGTCCATTCTTGACC-CTAAATAGCTTCTAGCTCCTTCATTTCTCTTGGGAACCTATT
1 CTCCGATAGTCCATTCTTGACCTC-AAATAACTTCTAACTCCTTCATTTCTCTTGGGAACCTATT
103615 TTCTTCTAA
65 TTCTTCTAA
103624 TTCTAACGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 1 0.01
74 68 0.99
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (74 bp):
CTCCGATAGTCCATTCTTGACCTCAAATAACTTCTAACTCCTTCATTTCTCTTGGGAACCTATTT
TCTTCTAAC
Found at i:106322 original size:19 final size:19
Alignment explanation
Indices: 106287--106343 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
106277 TTAAAAAATA
*
106287 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
106305 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
106323 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
106343 T
1 T
106344 TTTTTGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.44
19 15 0.44
20 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:109092 original size:30 final size:30
Alignment explanation
Indices: 109043--109099 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
109033 TTCTTAAAGA
* *
109043 CTTATCTTTTAATTTGTATCCAAATAAACC
1 CTTATCCTTTAATTCGTATCCAAATAAACC
* *
109073 CTTATCCTTTGATTCGTATCCAGATAA
1 CTTATCCTTTAATTCGTATCCAAATAA
109100 GCCCATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (30 bp):
CTTATCCTTTAATTCGTATCCAAATAAACC
Found at i:111635 original size:176 final size:176
Alignment explanation
Indices: 111341--111870 Score: 988
Period size: 176 Copynumber: 3.0 Consensus size: 176
111331 GAACTAAATG
*
111341 ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAGTA
1 ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAATA
*
111406 AGAGAACATAGAGCTTTTTTGCTTCTGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
66 AGAGAACATAGAGCTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
*
111471 TTTATTTTATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
131 TTTATTATATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
*
111517 ATCAAATGTAAAACTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAATA
1 ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAATA
111582 AGAGAACATAGAGCTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
66 AGAGAACATAGAGCTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
111647 TTTATTATATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
131 TTTATTATATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
*
111693 ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAAAAAGCAATA
1 ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAATA
* *
111758 AGAGAACATAGAGGTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCAAAAAAATTGCTAT
66 AGAGAACATAGAGCTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
*
111823 TTTATTATATATAAAAAATATATAATTGTTTTATTTTTAATGTTAA
131 TTTATTATATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
111869 AT
1 AT
111871 TCAGGTTTAG
Statistics
Matches: 345, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 345 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (176 bp):
ATCAAATGTAAAATTATGTTCAAAGAACCAAAAGCTAAAATAAATAATGCAAATAACAAGCAATA
AGAGAACATAGAGCTTTTTTGCTTATGCGTGACACTGGTAATCTCATTTCCACAAAAATTGCTAT
TTTATTATATATATAAAATATATAATTGTTTTATTTTTAATGTTAA
Found at i:113458 original size:139 final size:138
Alignment explanation
Indices: 113209--113482 Score: 451
Period size: 139 Copynumber: 2.0 Consensus size: 138
113199 AAACGGGGTT
* * *
113209 CATTTGACACACTTGAATTGGTCCAATTCGTGAAACACAGAAAAGTCCATCTACTTGAAGCCTTG
1 CATTTGACACAATTGAATTGGTCAAATTCGTGAAACACAGAAAAGTCCATCTACTTGAAGCCTTA
*
113274 GTGACCTACTAAAACACTCCAGTAAAACTAGAGTTACCATTGTTAATGTAAATCCTAAGGGATAA
66 GTGACCTACTAAAACACTCCAGTAAAACTAGAGTTACCATTGTTAATATAAATCCTAAGGGATAA
113339 ATTTGGTC
131 ATTTGGTC
*
113347 CATTTGACACAATTGAATTGGTCAAATTCGTGAAACACATGGAGAAGTCCATCTACTT-AAGCCT
1 CATTTGACACAATTGAATTGGTCAAATTCGTGAAACACA--GAAAAGTCCATCTACTTGAAGCCT
* * *
113411 TAGTGGCCTAGTAAAACACTCCAGTAAAACTAGAGTTATCATTGTTAATATAAATCCTAAGGGAT
64 TAGTGACCTACTAAAACACTCCAGTAAAACTAGAGTTACCATTGTTAATATAAATCCTAAGGGAT
113476 AAATTTG
129 AAATTTG
113483 TATAGAGTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
138 37 0.29
139 73 0.58
140 16 0.13
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (138 bp):
CATTTGACACAATTGAATTGGTCAAATTCGTGAAACACAGAAAAGTCCATCTACTTGAAGCCTTA
GTGACCTACTAAAACACTCCAGTAAAACTAGAGTTACCATTGTTAATATAAATCCTAAGGGATAA
ATTTGGTC
Found at i:125664 original size:23 final size:23
Alignment explanation
Indices: 125637--125683 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
125627 CATCCATATC
125637 TATGTTTTCGTGAAGTTTTCACT
1 TATGTTTTCGTGAAGTTTTCACT
125660 TATGTTTTCGTGAAGTTTTCACT
1 TATGTTTTCGTGAAGTTTTCACT
125683 T
1 T
125684 CCGTACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (23 bp):
TATGTTTTCGTGAAGTTTTCACT
Found at i:130198 original size:5 final size:5
Alignment explanation
Indices: 130188--130230 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
130178 AATTTTCACC
130188 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA- AAGAA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAA
130231 ATAAAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:130237 original size:7 final size:7
Alignment explanation
Indices: 130193--130231 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
130183 TCACCAAAAG
130193 AAAAGAA
1 AAAAGAA
130200 AAGAA-AA
1 AA-AAGAA
130207 GAAAAGAA
1 -AAAAGAA
130215 AAAAGAA
1 AAAAGAA
130222 AAAAGAA
1 AAAAGAA
130229 AAA
1 AAA
130232 TAAAAAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:131481 original size:100 final size:100
Alignment explanation
Indices: 131091--131526 Score: 355
Period size: 101 Copynumber: 4.3 Consensus size: 100
131081 AAGGGATCAG
* * * ** *
131091 TACGACATCAAATCTTATATCCTTGAAGTTGCAG-GGATCAGATTGAAACTACGGTAGCAAATC-
1 TACGACAT-AAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTACAATAACAAATCT
* * * *
131154 CT-TCTCTCTGAAGTTGTAGTATAGCAAGAT-AAGGC
65 TTATCTCCCTGAAGTTATAGTAGAGCAAGATGAA-GC
* * * * * * * * * *
131189 TACAAAACCAAAT-TCTATACCCCTGAAGTTACAGTGGATTGGCTTGAAGCTACAAAAACAAATC
1 TACGACA-TAAATCT-TATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTACAATAACAAATC
* * *
131253 TTTATCTCCCTGAAGTTATAGTGGAGTAAGATGAAGT
64 TTTATCTCCCTGAAGTTATAGTAGAGCAAGATGAAGC
* * * * *
131290 TACGTCATCAAATCATATATCCCTAAAGTTGCAGTGAATTAGATTAAAACTATAGA-AACAAATC
1 TACGACAT-AAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTACA-ATAACAAATC
* * *
131354 TTTATCTCCCTGAAGTAATAGTGGAGCAAGATGAAGT
64 TTTATCTCCCTGAAGTTATAGTAGAGCAAGATGAAGC
* * * * *
131391 TACGACATAAAGTCTTATATCCTTGAAGTTGTAG-GGATTGGATTAAAACTGCAATAGCAAATCT
1 TACGACATAAA-TCTTATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTACAATAACAAATCT
* * *
131455 TTATCTCTCTGAAGTTACAGTAGAGCAAGATAAAGC
65 TTATCTCCCTGAAGTTATAGTAGAGCAAGATGAAGC
* * * * *
131491 TACCATATAAAATCTTATCTCTCTGAAGTTACAGTG
1 TACGACAT-AAATCTTATATCCCTGAAGTTGCAGTG
131527 AAGCAATATG
Statistics
Matches: 265, Mismatches: 60, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
97 1 0.00
98 25 0.09
99 22 0.08
100 80 0.30
101 134 0.51
102 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (100 bp):
TACGACATAAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTACAATAACAAATCTT
TATCTCCCTGAAGTTATAGTAGAGCAAGATGAAGC
Found at i:131600 original size:50 final size:50
Alignment explanation
Indices: 131546--131701 Score: 156
Period size: 50 Copynumber: 3.1 Consensus size: 50
131536 GCTACAACAC
*
131546 CAAATCATATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAG
1 CAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAG
** * * * * *
131596 CAAATCCTATCTCCCTAAAGATGTAGTGGAG-C-AATATGAAGTTAC-GAAAC
1 CAAATCCTATAACCCTGAAGTTATAGTGG-GTCGAAT-TGAAGCTACAG-AAG
* * * *
131646 CAAATCCTATACCCCTGGAGTTATAGTGGGTCGAATTAAAGCTATAGAAG
1 CAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAG
131696 CAAATC
1 CAAATC
131702 TTATTTCCCT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
49 5 0.06
50 72 0.88
51 5 0.06
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (50 bp):
CAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAG
Found at i:131755 original size:100 final size:100
Alignment explanation
Indices: 131544--131739 Score: 284
Period size: 100 Copynumber: 2.0 Consensus size: 100
131534 ATGCTACAAC
* *
131544 ACCAAATCATATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAGCAAATCCTATCTC
1 ACCAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
** *
131609 CCTAAAGATGTAGTGGAGCAATATGAAGTTACGAA
66 CCTAAAGATACAGTGGAGCAAGATGAAGTTACGAA
* * * * *
131644 ACCAAATCCTATACCCCTGGAGTTATAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTC
1 ACCAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
* *
131709 CCTTAAGATACAGTGGAGCAAGATGATGTTA
66 CCTAAAGATACAGTGGAGCAAGATGAAGTTA
131740 TAATATCAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (100 bp):
ACCAAATCCTATAACCCTGAAGTTATAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
CCTAAAGATACAGTGGAGCAAGATGAAGTTACGAA
Found at i:131774 original size:100 final size:100
Alignment explanation
Indices: 131544--131774 Score: 250
Period size: 100 Copynumber: 2.3 Consensus size: 100
131534 ATGCTACAAC
* * * * *
131544 ACCAAATCATATAACCCTGAAGTTATAGTGGGTCGAATTGAAGCTACAGAAGCAAATCCTATCTC
1 ACCAAATCCTATACCCCTGAAGATACAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
** *
131609 CCTAAAGATGTAGTGGAGCAATATGAAGTTACGAA
66 CCTAAAGATACAGTGGAGCAAGATGAAGTTACGAA
* * * * * *
131644 ACCAAATCCTATACCCCTGGAGTTATAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTC
1 ACCAAATCCTATACCCCTGAAGATACAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
* * *
131709 CCTTAAGATACAGTGGAGCAAGATGATGTTA-TAA
66 CCTAAAGATACAGTGGAGCAAGATGAAGTTACGAA
* * *
131743 TATCAAATCCTAT-CTCCTTGAAGATGCAGTGG
1 -ACCAAATCCTATAC-CCCTGAAGATACAGTGG
131775 AGCAAGATGA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.03
100 107 0.97
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (100 bp):
ACCAAATCCTATACCCCTGAAGATACAGTGGGTCGAATTAAAGCTACAGAAGCAAATCCTATCTC
CCTAAAGATACAGTGGAGCAAGATGAAGTTACGAA
Found at i:131824 original size:150 final size:150
Alignment explanation
Indices: 131596--131925 Score: 534
Period size: 150 Copynumber: 2.2 Consensus size: 150
131586 GCTACAGAAG
* * *
131596 CAAATCCTATCTCCCTAAAGATGTAGTGGAGCAATATGAAGTTACGAAACCAAATCCTATACCCC
1 CAAATCCTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCCC
* *
131661 TGGAGTTATAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
66 TGAAGTTACAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
*
131726 GCAAGATGATGTTATAATAT
131 GCAAGATGATGTTATAACAT
*
131746 CAAATCCTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCCC
1 CAAATCCTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCCC
* * *
131811 TGAAGTTGCAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATTTCCCTTGAGATACAGTGGA
66 TGAAGTTACAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
*
131876 GCAAGATGATGTTATGACAT
131 GCAAGATGATGTTATAACAT
* * *
131896 AAAATCCTATATCCCTGAAGCTGCAGTGGA
1 CAAATCCTATCTCCCTGAAGATGCAGTGGA
131926 TCGGATTAAA
Statistics
Matches: 165, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 165 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (150 bp):
CAAATCCTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCCC
TGAAGTTACAGTGGGTCGAATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
GCAAGATGATGTTATAACAT
Found at i:131883 original size:100 final size:100
Alignment explanation
Indices: 131746--131982 Score: 287
Period size: 100 Copynumber: 2.4 Consensus size: 100
131736 GTTATAATAT
* * *
131746 CAAATCCTATCT-CCTTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCC
1 CAAATCATATCTCCCTTG-AGATACAGTGGAGCAAGATGAAGTTACGAAACAAAATCCTATACCC
* * * *
131810 CTGAAGTTGCAGTGGGTCGGATTAAAGCTATAGAAG
65 CTGAAGCTGCAGTGGATCGGATTAAAACTACAGAAG
* * * * * * *
131846 CAAATCTTATTTCCCTTGAGATACAGTGGAGCAAGATGATGTTATGACATAAAATCCTATATCCC
1 CAAATCATATCTCCCTTGAGATACAGTGGAGCAAGATGAAGTTACGAAACAAAATCCTATACCCC
*
131911 TGAAGCTGCAGTGGATCGGATTAAAACTACATAAG
66 TGAAGCTGCAGTGGATCGGATTAAAACTACAGAAG
* ** *
131946 CAAGTCATATCTCCCTAAAGATACAATGGAGCAAGAT
1 CAAATCATATCTCCCTTGAGATACAGTGGAGCAAGAT
131983 AAAGCTACAA
Statistics
Matches: 116, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
100 111 0.96
101 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (100 bp):
CAAATCATATCTCCCTTGAGATACAGTGGAGCAAGATGAAGTTACGAAACAAAATCCTATACCCC
TGAAGCTGCAGTGGATCGGATTAAAACTACAGAAG
Found at i:131911 original size:50 final size:50
Alignment explanation
Indices: 131596--131925 Score: 169
Period size: 50 Copynumber: 6.6 Consensus size: 50
131586 GCTACAGAAG
* * ** * * *
131596 CAAATCCTATCTCCC-TAAAGATGTAGTGGAGCAATATGAAGTTACGAAAC
1 CAAATCCTATATCCCTTGAAGATACAGTGGAGCAAGATGAAGTTATG-AAT
* * * * * * * *
131646 CAAATCCTATA-CCCCTGGAGTTATAGTGG-GTCGAA-TTAAAGCTATAGAAG
1 CAAATCCTATATCCCTTGAAGATACAGTGGAG-C-AAGATGAAGTTAT-GAAT
* * * *
131696 CAAATCTTATTTCCCTT-AAGATACAGTGGAGCAAGATGATGTTATAATAT
1 CAAATCCTATATCCCTTGAAGATACAGTGGAGCAAGATGAAGTTATGA-AT
* * * *
131746 CAAATCCTATCT-CCTTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAAC
1 CAAATCCTATATCCCTTGAAGATACAGTGGAGCAAGATGAAGTTATG-AAT
* * * * * * *
131796 CAAATCCTATA-CCCCTGAAGTTGCAGTGG-GTC-GGATTAAAGCTATAGAAG
1 CAAATCCTATATCCCTTGAAGATACAGTGGAG-CAAGA-TGAAGTTAT-GAAT
* * *
131846 CAAATCTTATTTCCCTTG-AGATACAGTGGAGCAAGATGATGTTATGACAT
1 CAAATCCTATATCCCTTGAAGATACAGTGGAGCAAGATGAAGTTATGA-AT
* * *
131896 AAAATCCTATATCCC-TGAAGCTGCAGTGGA
1 CAAATCCTATATCCCTTGAAGATACAGTGGA
131926 TCGGATTAAA
Statistics
Matches: 209, Mismatches: 52, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
49 18 0.09
50 173 0.83
51 18 0.09
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (50 bp):
CAAATCCTATATCCCTTGAAGATACAGTGGAGCAAGATGAAGTTATGAAT
Found at i:131989 original size:150 final size:150
Alignment explanation
Indices: 131597--131974 Score: 395
Period size: 150 Copynumber: 2.5 Consensus size: 150
131587 CTACAGAAGC
* * * * * ** *
131597 AAATCCTATCTCCCTAAAGATGTAGTGGAGCAATATGAAGTTACGAAACCAAATCCTATACCCCT
1 AAATCCTATATCCCTGAAGATGCAGTGGAGCAAGATAAAACTACGAAACCAAATCATATACCCCT
** * * *
131662 GGAGTTATAGTGGGTC-GAATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
66 AAAGATACAATGGGTCAG-ATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGA
* *
131726 GCAAGATGATGTTATAATATC
130 GCAAGATGATGTTATAACATA
* * * ** *
131747 AAATCCTATCTCCTTGAAGATGCAGTGGAGCAAGATGAAGTTACGAAACCAAATCCTATACCCCT
1 AAATCCTATATCCCTGAAGATGCAGTGGAGCAAGATAAAACTACGAAACCAAATCATATACCCCT
* * * * * *
131812 GAAGTTGCAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATTTCCCTTGAGATACAGTGGAG
66 AAAGATACAATGGGTCAGATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGAG
*
131877 CAAGATGATGTTATGACATA
131 CAAGATGATGTTATAACATA
* * * * *
131897 AAATCCTATATCCCTGAAGCTGCAGTGGATC-GGATTAAAACTAC-ATAAGCAAGTCATAT-CTC
1 AAATCCTATATCCCTGAAGATGCAGTGGAGCAAGA-TAAAACTACGA-AACCAAATCATATAC-C
131959 CCTAAAGATACAATGG
63 CCTAAAGATACAATGG
131975 AGCAAGATAA
Statistics
Matches: 198, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
149 4 0.02
150 193 0.97
151 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (150 bp):
AAATCCTATATCCCTGAAGATGCAGTGGAGCAAGATAAAACTACGAAACCAAATCATATACCCCT
AAAGATACAATGGGTCAGATTAAAGCTATAGAAGCAAATCTTATTTCCCTTAAGATACAGTGGAG
CAAGATGATGTTATAACATA
Found at i:132175 original size:143 final size:143
Alignment explanation
Indices: 131954--132272 Score: 399
Period size: 143 Copynumber: 2.2 Consensus size: 143
131944 AGCAAGTCAT
* * * * * *
131954 ATCTCCCTAAAGATACAATGGAGCAAGATAAAGCTACAATATCGAATCCTATCTTCCTAAAGTTG
1 ATCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCAACAACATCGAATCCTATCTTCCTAAAGTTG
* * * *
132019 TAGTGAAGCGGATAAAACAACAATT-TCAGTCCTCC-TAAAGTTGCAGTGGGTTGGAATGAAACT
66 CAATGAAGCGGATAAAACAACAATTCT-AGT-CTCCTTAAAGTTGCAATGGGCTGGAATGAAACT
* *
132082 ATAACAGCAAACCTT
129 ATAACAACAAACCTC
* ** * * *
132097 ATCTCCTTCAAGTTGCAATGGAGCAAGATGAAGCAATGACATTGAATTCTATCTTCCTGAAGTTG
1 ATCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCAACAACATCGAATCCTATCTTCCTAAAGTTG
* * *
132162 CAATGCAGCGGATAAAACAACAATTCTAGTCTCCTTGAATTTGCAATGGGCTGGAATGAAACTAT
66 CAATGAAGCGGATAAAACAACAATTCTAGTCTCCTTAAAGTTGCAATGGGCTGGAATGAAACTAT
*
132227 AACAACAAATCTC
131 AACAACAAACCTC
*
132240 ATCTCCTTAAAGTTGCAATGGGGCAAGATGAAG
1 ATCTCCTTAAAGTTGCAATGGAGCAAGATGAAG
132273 TTGTGCCACT
Statistics
Matches: 150, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
142 4 0.03
143 145 0.97
144 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (143 bp):
ATCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCAACAACATCGAATCCTATCTTCCTAAAGTTG
CAATGAAGCGGATAAAACAACAATTCTAGTCTCCTTAAAGTTGCAATGGGCTGGAATGAAACTAT
AACAACAAACCTC
Found at i:132271 original size:50 final size:50
Alignment explanation
Indices: 132177--132271 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
132167 CAGCGGATAA
* * * **
132177 AACAACAATTCTAGTCTCCTTGAATTTGCAATGGGCTGGAATGAAACTAT
1 AACAACAAATCTAGTCTCCTTAAAGTTGCAATGGGCAAGAATGAAACTAT
132227 AACAACAAATCTCA-TCTCCTTAAAGTTGCAATGGGGCAAG-ATGAA
1 AACAACAAATCT-AGTCTCCTTAAAGTTGCAAT-GGGCAAGAATGAA
132272 GTTGTGCCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
50 32 0.84
51 6 0.16
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (50 bp):
AACAACAAATCTAGTCTCCTTAAAGTTGCAATGGGCAAGAATGAAACTAT
Found at i:132288 original size:143 final size:143
Alignment explanation
Indices: 132002--132318 Score: 395
Period size: 143 Copynumber: 2.2 Consensus size: 143
131992 ATATCGAATC
* * *
132002 CTATCTTCCTAAAGTTGTAGTGAAGCGGATAAAACAACAATTTCAGTCCTCCTAAAGTTGCAGTG
1 CTATCTTCCTAAAGTTGCAATGAAGCGGATAAAACAACAATTTCAGTCCTCCTAAAGTTGCAATG
* * * *
132067 GGTTGGAATGAAACTATAACAGCAAACCTTATCTCCTTCAAGTTGCAATGGAGCAAGATGAAGCA
66 GGCTGGAATGAAACTATAACAACAAACCTCATCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCA
* *
132132 ATGACATTGAATT
131 ATGACACTAAATT
* * * *
132145 CTATCTTCCTGAAGTTGCAATGCAGCGGATAAAACAACAA-TTCTAGT-CTCCTTGAATTTGCAA
1 CTATCTTCCTAAAGTTGCAATGAAGCGGATAAAACAACAATTTC-AGTCCTCC-TAAAGTTGCAA
* *
132208 TGGGCTGGAATGAAACTATAACAACAAATCTCATCTCCTTAAAGTTGCAATGGGGCAAGATGAAG
64 TGGGCTGGAATGAAACTATAACAACAAACCTCATCTCCTTAAAGTTGCAATGGAGCAAGATGAAG
*** *
132273 TTGTGCCACTAAATT
129 CAATGACACTAAATT
* * **
132288 CTGTCTTCCTAAAGTTGTAGCGAAGCGGATA
1 CTATCTTCCTAAAGTTGCAATGAAGCGGATA
132319 CAGTGTAGTA
Statistics
Matches: 147, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
142 7 0.05
143 140 0.95
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (143 bp):
CTATCTTCCTAAAGTTGCAATGAAGCGGATAAAACAACAATTTCAGTCCTCCTAAAGTTGCAATG
GGCTGGAATGAAACTATAACAACAAACCTCATCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCA
ATGACACTAAATT
Found at i:134078 original size:3 final size:3
Alignment explanation
Indices: 134072--134099 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
134062 CATAGGTTGA
134072 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
134100 TAATTGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:134118 original size:9 final size:10
Alignment explanation
Indices: 134072--134142 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 10
134062 CATAGGTTGA
134072 TATTATTA-T
1 TATTATTATT
134081 TATTATTA-T
1 TATTATTATT
134090 TATTATTATT
1 TATTATTATT
*
134100 TAATT-GTATT
1 T-ATTATTATT
134110 TATT-TTATTT
1 TATTATTA-TT
*
134120 TATTCATGTATG
1 TATT-AT-TATT
*
134132 TATTTTTATT
1 TATTATTATT
134142 T
1 T
134143 TGCCATCATC
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
9 22 0.43
10 17 0.33
11 4 0.08
12 6 0.12
13 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (10 bp):
TATTATTATT
Found at i:139325 original size:4 final size:4
Alignment explanation
Indices: 139316--139346 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
139306 TACACTAATA
139316 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
139347 ATAGATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:148245 original size:14 final size:15
Alignment explanation
Indices: 148217--148245 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
148207 AGGTATCGTT
148217 AATAAGTTGAATTTG
1 AATAAGTTGAATTTG
148232 AATAAGTT-AATTTG
1 AATAAGTTGAATTTG
148246 GTATGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (15 bp):
AATAAGTTGAATTTG
Found at i:154178 original size:17 final size:17
Alignment explanation
Indices: 154156--154221 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
154146 TAGTAGTATA
*
154156 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
154173 ATTGTCACTGCATTTTT
1 ATTGTCACTGCATTTTT
* * **
154190 ATTTTCGCTGCATTTAC
1 ATTGTCACTGCATTTTT
*
154207 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
154222 CCATATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:155001 original size:49 final size:49
Alignment explanation
Indices: 154929--155023 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
154919 ATACATGCAT
154929 TGATTAACCCTAGGTCAAAACATTATTATATATACACTACTTTAGTGAC
1 TGATTAACCCTAGGTCAAAACATTATTATATATACACTACTTTAGTGAC
* * * * * *
154978 TGATTAACCTTGGGTCAACACATTCTTATATATGCACTGCTTTAGT
1 TGATTAACCCTAGGTCAAAACATTATTATATATACACTACTTTAGT
155024 AACTAAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (49 bp):
TGATTAACCCTAGGTCAAAACATTATTATATATACACTACTTTAGTGAC
Found at i:168683 original size:154 final size:154
Alignment explanation
Indices: 168403--168710 Score: 562
Period size: 154 Copynumber: 2.0 Consensus size: 154
168393 TCTTTGTCGA
168403 TGCATCTCCATGGTATGCAGATGTCGTCAATTATCTAGTCTGTGGAAAGCTAACAATGAGTGCAA
1 TGCATCTCCATGGTATGCAGATGTCGTCAATTATCTAGTCTGTGGAAAGCTAACAATGAGTGCAA
* * *
168468 CAAGTCATAAGAAGGTCAGATTTCTTCGGGATTCTGTAAAGTATCATTGGAATGAACCATATCTG
66 CAAGTCATAAGAAGGTCAAATTTCTTCGGGATGCCGTAAAGTATCATTGGAATGAACCATATCTG
168533 TTTAAGGTATACGCTGATAACATC
131 TTTAAGGTATACGCTGATAACATC
* *
168557 TGCATCTCTATGGTATGCAGATGTCGTCAATTATCTAGTTTGTGGAAAGCTAACAATGAGTGCAA
1 TGCATCTCCATGGTATGCAGATGTCGTCAATTATCTAGTCTGTGGAAAGCTAACAATGAGTGCAA
*
168622 CAAGTCATAGGAAGGTCAAATTTCTTCGGGATGCCGTAAAGTATCATTGGAATGAACCATATCTG
66 CAAGTCATAAGAAGGTCAAATTTCTTCGGGATGCCGTAAAGTATCATTGGAATGAACCATATCTG
168687 TTTAAGGTATACGCTGATAACATC
131 TTTAAGGTATACGCTGATAACATC
168711 ATTCGTCGCT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 148 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (154 bp):
TGCATCTCCATGGTATGCAGATGTCGTCAATTATCTAGTCTGTGGAAAGCTAACAATGAGTGCAA
CAAGTCATAAGAAGGTCAAATTTCTTCGGGATGCCGTAAAGTATCATTGGAATGAACCATATCTG
TTTAAGGTATACGCTGATAACATC
Found at i:171519 original size:27 final size:27
Alignment explanation
Indices: 171453--171519 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
171443 TGAGGGTATT
* *
171453 GAAGCAGAAGAAAAGAACAAAAAAGAA
1 GAAGAAGAAGAAGAGAACAAAAAAGAA
** *
171480 GAAGGAA-AAGAAGAGAAGGAAAAATAA
1 GAA-GAAGAAGAAGAGAACAAAAAAGAA
171507 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
171520 TTATCTCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 3 0.09
27 28 0.85
28 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.28, T:0.01
Consensus pattern (27 bp):
GAAGAAGAAGAAGAGAACAAAAAAGAA
Found at i:174710 original size:107 final size:106
Alignment explanation
Indices: 174582--174988 Score: 543
Period size: 107 Copynumber: 3.9 Consensus size: 106
174572 TCAAAATATT
*
174582 TAAAACAAATCCTAATTCAAACTTTGGATAATAATTAATATAAATTATAAAATTTAATTTATAAT
1 TAAAA-AAAT-CTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAAT
*
174647 TAATATTAA-AGATTATCAAAATTTTGAAAAATAAAAATTTAAA
64 TAATATTAAGA-ATTATCAAAACTTTGAAAAATAAAAATTTAAA
*
174690 TAAAAAAATCTAATCTCAAACTTTTGATAATAATTAATATAAATTATAAAATTAAATTTTATAAT
1 TAAAAAAATCTAAT-TCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAA-TTTATAAT
* *
174755 TTATATTAAGAATTATCAACACTTTGAAAAAT-AAAA---AAA
64 TAATATTAAGAATTATCAAAACTTTGAAAAATAAAAATTTAAA
*** * *
174794 T-TTTAAA--TGA---AAACTTTTGATAATAATTAATATAAATTATAAATTTTAATTTATAATTA
1 TAAAAAAATCTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAATTA
*
174853 ATATTAAGAATTATCACAACTTTGAAAAATAAAAATTTAAA
66 ATATTAAGAATTATCAAAACTTTGAAAAATAAAAATTTAAA
*
174894 T-GAAAAATCTTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAATT
1 TAAAAAAATC-TAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAA-T
174958 TAATATTAAGAATTATCAAAA-TCTTGAAAAA
64 TAATATTAAGAATTATCAAAACT-TTGAAAAA
174989 GGAAATAAAA
Statistics
Matches: 264, Mismatches: 20, Indels: 31
0.84 0.06 0.10
Matches are distributed among these distances:
96 37 0.14
97 41 0.16
100 7 0.03
101 2 0.01
103 5 0.02
104 4 0.02
106 51 0.19
107 76 0.29
108 40 0.15
109 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (106 bp):
TAAAAAAATCTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAATTA
ATATTAAGAATTATCAAAACTTTGAAAAATAAAAATTTAAA
Found at i:174794 original size:96 final size:96
Alignment explanation
Indices: 174687--174988 Score: 362
Period size: 106 Copynumber: 3.0 Consensus size: 96
174677 ATAAAAATTT
*
174687 AAATAAAAAAATCTAATCTCAAACTTTTGATAATAATTAATATAAATTATAAAATTAAATTTTAT
1 AAATAAAAAAATCTAAT-TCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAA-TTTAT
174752 AATTTATATTAAGAATTATCAAC-ACTTTG-AA
64 AATTTATATTAAGAATTATCAACAACTTTGAAA
* ** *
174783 AAATAAAAAAATTTTAAATGAAAACTTTTGATAATAATTAATATAAATTATAAATTTTAATTTAT
1 AAATAAAAAAA-TCT-AATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTAT
*
174848 AATTAATATTAAGAATTATC-ACAACTTTGAAAAATAA
64 AATTTATATTAAGAATTATCAACAACTTTG----A-AA
174885 AAATTTAAATGAAAAATCTTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAAT
1 AAA--T-AA--AAAAATC-TAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAAT
174950 TTATAATTTAATATTAAGAATTATCAA-AA-TCTTGAAA
60 TTATAATTT-ATATTAAGAATTATCAACAACT-TTGAAA
174987 AA
1 AA
174989 GGAAATAAAA
Statistics
Matches: 177, Mismatches: 11, Indels: 30
0.81 0.05 0.14
Matches are distributed among these distances:
95 2 0.01
96 41 0.23
97 39 0.22
98 3 0.02
102 9 0.05
103 1 0.01
104 1 0.01
105 2 0.01
106 52 0.29
107 26 0.15
108 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (96 bp):
AAATAAAAAAATCTAATTCAAACTTTTGATAATAATTAATATAAATTATAAAATTTAATTTATAA
TTTATATTAAGAATTATCAACAACTTTGAAA
Found at i:174941 original size:19 final size:20
Alignment explanation
Indices: 174919--174966 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
174909 CAAACTTTTG
174919 ATAATAATTAATATA-AATT
1 ATAATAATTAATATATAATT
*
174938 ATAA-AATTTAATTTATAATT
1 ATAATAA-TTAATATATAATT
174958 -TAAT-ATTAA
1 ATAATAATTAA
174967 GAATTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATAATTAATATATAATT
Found at i:195079 original size:30 final size:30
Alignment explanation
Indices: 195043--195104 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
195033 ATATTCACCA
* *
195043 CTATTGGTTTTAGTGAAACTTGTTCTGGTT
1 CTATTGGTTTTAGTAAAACTGGTTCTGGTT
195073 CTATTGGTTTTAGTAAAACTGGTTCTGGTT
1 CTATTGGTTTTAGTAAAACTGGTTCTGGTT
195103 CT
1 CT
195105 GACAAAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.48
Consensus pattern (30 bp):
CTATTGGTTTTAGTAAAACTGGTTCTGGTT
Found at i:204858 original size:64 final size:64
Alignment explanation
Indices: 204787--204925 Score: 251
Period size: 64 Copynumber: 2.2 Consensus size: 64
204777 GGTGGAGGAT
*
204787 TTCTAACTTGAACTGACTGCTTTATTTTCTGTGGCACTTCTGCATCTAACTAGGTCGCTAGATC
1 TTCTAACTTGAACTGACTGCTTCATTTTCTGTGGCACTTCTGCATCTAACTAGGTCGCTAGATC
*
204851 TTCTAACTTGAACTGACTGCTTCATTTTCTGTGGCACTTCTGCATCTAACTAGGTGGCTAGATC
1 TTCTAACTTGAACTGACTGCTTCATTTTCTGTGGCACTTCTGCATCTAACTAGGTCGCTAGATC
*
204915 TTCTGACTTGA
1 TTCTAACTTGA
204926 CTGGTTCAGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (64 bp):
TTCTAACTTGAACTGACTGCTTCATTTTCTGTGGCACTTCTGCATCTAACTAGGTCGCTAGATC
Found at i:204982 original size:15 final size:15
Alignment explanation
Indices: 204962--205000 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
204952 TTCACCACTT
* *
204962 CTGGTTTTGGTGAAA
1 CTGGTTCTGGTAAAA
204977 CTGGTTCTGGTAAAA
1 CTGGTTCTGGTAAAA
*
204992 TTGGTTCTG
1 CTGGTTCTG
205001 ATTCTAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.10, G:0.31, T:0.41
Consensus pattern (15 bp):
CTGGTTCTGGTAAAA
Found at i:206841 original size:10 final size:10
Alignment explanation
Indices: 206813--206847 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
206803 CTAAGTGTTC
*
206813 TAAACTAAAT
1 TAAACTAAGT
206823 TAAACTAAGT
1 TAAACTAAGT
206833 TAAACTAAGT
1 TAAACTAAGT
206843 CTAAA
1 -TAAA
206848 GTATATTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (10 bp):
TAAACTAAGT
Found at i:207553 original size:12 final size:12
Alignment explanation
Indices: 207538--207562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
207528 ATTAAAGAAT
207538 TAATAGCATTCA
1 TAATAGCATTCA
207550 TAATAGCATTCA
1 TAATAGCATTCA
207562 T
1 T
207563 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:224162 original size:13 final size:14
Alignment explanation
Indices: 224144--224173 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
224134 GTCCACACAA
224144 TCAGAG-TTAAATG
1 TCAGAGATTAAATG
224157 TCAGAGATTAAATG
1 TCAGAGATTAAATG
224171 TCA
1 TCA
224174 AAGCAACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (14 bp):
TCAGAGATTAAATG
Found at i:224515 original size:22 final size:22
Alignment explanation
Indices: 224487--224531 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
224477 AATTTATAGG
224487 TATGAACAATTAAACTGCAACT
1 TATGAACAATTAAACTGCAACT
224509 TATGAACAATTAAACTGCAACT
1 TATGAACAATTAAACTGCAACT
224531 T
1 T
224532 CATTAATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
TATGAACAATTAAACTGCAACT
Found at i:224630 original size:16 final size:15
Alignment explanation
Indices: 224601--224640 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
224591 GCAAATATAA
*
224601 TTTTTTATTCTTTTTC
1 TTTTTT-TTTTTTTTC
224617 TTTTCTTTTTTTTTTC
1 TTTT-TTTTTTTTTTC
224633 TTTTTTTT
1 TTTTTTTT
224641 AAGTGACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:224638 original size:11 final size:11
Alignment explanation
Indices: 224601--224640 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
224591 GCAAATATAA
*
224601 TTTTTTATTCT
1 TTTTTTTTTCT
*
224612 TTTTCTTTTCT
1 TTTTTTTTTCT
224623 TTTTTTTTTCT
1 TTTTTTTTTCT
224634 TTTTTTT
1 TTTTTTT
224641 AAGTGACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:225211 original size:17 final size:18
Alignment explanation
Indices: 225191--225225 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
225181 GCTACTAAGT
*
225191 TAACAAAA-AGAATGCAG
1 TAACAAAATAAAATGCAG
225208 TAACAAAATAAAATGCAG
1 TAACAAAATAAAATGCAG
225226 GGATAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.14
Consensus pattern (18 bp):
TAACAAAATAAAATGCAG
Found at i:233571 original size:14 final size:14
Alignment explanation
Indices: 233547--233579 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
233537 TTCAACGCAA
233547 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
233560 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
233574 TCAGAG
1 TCAGAG
233580 CAACGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:238396 original size:2 final size:2
Alignment explanation
Indices: 238391--238423 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
238381 AAAAAAAAGA
238391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
238424 TTGTCTAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:241559 original size:21 final size:21
Alignment explanation
Indices: 241534--241577 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
241524 CAATGTAAAT
241534 AAAT-AAGTAAATAAATATATA
1 AAATAAAG-AAATAAATATATA
*
241555 AAATAAAGAAATAAATATCTA
1 AAATAAAGAAATAAATATATA
241576 AA
1 AA
241578 TTTATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATAAAGAAATAAATATATA
Found at i:241588 original size:4 final size:4
Alignment explanation
Indices: 241529--241571 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
241519 TTTTACAATG
* * *
241529 TAAA TAAA TAAG TAAA TAAA TATA TAAAA TAAA GAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA TA
241572 TCTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:241668 original size:29 final size:30
Alignment explanation
Indices: 241636--241699 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
241626 AATTTTCCCC
*
241636 AAAAATGAC-CTATATCCCTAATTATTT-TT
1 AAAAATGACGC-ATATCCATAATTATTTATT
*
241665 AAAACTGACGCATATCCATAATTATTTATT
1 AAAAATGACGCATATCCATAATTATTTATT
241695 AAAAA
1 AAAAA
241700 CGATATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAATGACGCATATCCATAATTATTTATT
Found at i:246303 original size:23 final size:22
Alignment explanation
Indices: 246249--246304 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
246239 GGAATTTAAA
* *
246249 ACAATATAATGGCTGAAGTGTT
1 ACAAAATAATGGCTGAAGAGTT
*
246271 ACAAAATAATGGTTGAAGAGTT
1 ACAAAATAATGGCTGAAGAGTT
246293 ACAAAAATAATG
1 AC-AAAATAATG
246305 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (22 bp):
ACAAAATAATGGCTGAAGAGTT
Found at i:248270 original size:26 final size:26
Alignment explanation
Indices: 248234--248288 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
248224 AAGTCTAATT
248234 TATTATTTTACATATATAGGTATGTA
1 TATTATTTTACATATATAGGTATGTA
248260 TATTATTTTACATATATAGGTATGTA
1 TATTATTTTACATATATAGGTATGTA
248286 TAT
1 TAT
248289 ATATATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (26 bp):
TATTATTTTACATATATAGGTATGTA
Found at i:249488 original size:96 final size:96
Alignment explanation
Indices: 249310--249489 Score: 299
Period size: 96 Copynumber: 1.9 Consensus size: 96
249300 CCTGGGTGAT
*
249310 AAGATTTGCTTCTGTAGCTTCAATACGACCCACTGCAACTTCAGGGGTATAGGATTTGGTGTCGT
1 AAGATTTGCTTCTGTAGCTTCAATACGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTCGT
*
249375 AGCTTCATCTTGGTCCATTGCAAGGAGATAA
66 AGCTTCATCTTGATCCATTGCAAGGAGATAA
* * *
249406 AAGATTTGCTTCTGTAGCTTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTTTTGT
1 AAGATTTGCTTCTGTAGCTTCAATACGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTCGT
249471 AGCTTCAATC-TGATCCATT
66 AGCTTC-ATCTTGATCCATT
249490 ACAACTTCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 75 0.96
97 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (96 bp):
AAGATTTGCTTCTGTAGCTTCAATACGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTCGT
AGCTTCATCTTGATCCATTGCAAGGAGATAA
Found at i:249583 original size:101 final size:101
Alignment explanation
Indices: 249465--249717 Score: 310
Period size: 101 Copynumber: 2.5 Consensus size: 101
249455 TAGGATTTGG
* *
249465 TTTTGTAGCTTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATC
1 TTTTGTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATC
* * *
249530 TTGCTCCATTACGACTTTAGGGAGATAAAAAATTAC
66 TTGCTCCACTACAACTTTAGAGAGATAAAAAATTAC
* * * * *
249566 TTTTGTAGCTTCAATCTGACCCAGTGCAACTTCAGGTG-TATAGGATTTGGTTTTGTAGCTTCAT
1 TTTTGTAGCTTCAATCTGATCCACTGCAACTTCAGG-GATATAGGATTTGATGTCGTAGCTTCAT
* * * * * *
249630 CTTGTTCTACTGCAACTTTAGAGAGATAAATATTTGC
65 CTTGCTCCACTACAACTTTAGAGAGATAAAAAATTAC
* * * *
249667 TTTCGTAGTTTCAATCCGATTCACTGCAACTTCAGGGATATAGGATTTGAT
1 TTTTGTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGAT
249718 ATTATATTAA
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
100 1 0.01
101 126 0.98
102 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (101 bp):
TTTTGTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATC
TTGCTCCACTACAACTTTAGAGAGATAAAAAATTAC
Found at i:249644 original size:50 final size:50
Alignment explanation
Indices: 249228--249715 Score: 237
Period size: 50 Copynumber: 9.8 Consensus size: 50
249218 CTAATATAGT
* * * * ** * **
249228 TTCAATCCGATCCACTGCAACTTCAGGGATATAAGATTTAATGTTGTAAT
1 TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGGTTTTGTAGC
* * * * * * *
249278 TTC-ATCTTGTTCCACTACAACTCCTGGG-TGATAAGATTTGCTTCTGTAGC
1 TTCAATC-TGATCCATTACAACTTCAGGGAT-ATAGGATTTGGTTTTGTAGC
* * * * * *
249328 TTCAATAC-GACCCACTGCAACTTCAGGGGTATAGGATTTGGTGTCGTAGC
1 TTCAAT-CTGATCCATTACAACTTCAGGGATATAGGATTTGGTTTTGTAGC
* * * * * *
249378 TTC-ATCTTGGTCCATTGC-A----AGGAGATAAAAGATTTGCTTCTGTAGC
1 TTCAATC-TGATCCATTACAACTTCAGG-GATATAGGATTTGGTTTTGTAGC
* * * *
249424 TTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGC
1 TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGGTTTTGTAGC
* * *
249474 TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGATGTCGTAGC
1 TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGGTTTTGTAGC
* * * * ** * **
249524 TTC-ATCTTGCTCCATTACGACTTTAGGGAGATAAAAAATTACTTTTGTAGC
1 TTCAATC-TGATCCATTACAACTTCAGGGATAT-AGGATTTGGTTTTGTAGC
* * *
249575 TTCAATCTGACCCAGTGCAACTTCAGGTG-TATAGGATTTGGTTTTGTAGC
1 TTCAATCTGATCCATTACAACTTCAGG-GATATAGGATTTGGTTTTGTAGC
* * * * * ** * * *
249625 TTC-ATCTTGTTCTACTGCAACTTTAGAGAGATA-AATATTTGCTTTCGTAGT
1 TTCAATC-TGATCCATTACAACTTCAG-G-GATATAGGATTTGGTTTTGTAGC
* * * *
249676 TTCAATCCGATTCACTGCAACTTCAGGGATATAGGATTTG
1 TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTG
249716 ATATTATATT
Statistics
Matches: 326, Mismatches: 89, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
45 3 0.01
46 25 0.08
47 4 0.01
48 1 0.00
49 17 0.05
50 198 0.61
51 68 0.21
52 10 0.03
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (50 bp):
TTCAATCTGATCCATTACAACTTCAGGGATATAGGATTTGGTTTTGTAGC
Found at i:249646 original size:151 final size:146
Alignment explanation
Indices: 249289--249647 Score: 420
Period size: 146 Copynumber: 2.4 Consensus size: 146
249279 TCATCTTGTT
** * * * *
249289 CCACTACAAC-TCCTGGGTGATAAGATTTGCTTCTGTAGCTTCAATAC-GACCCACTGCAACTTC
1 CCACTACAACTTCAGGGGT-ATAGGATTTGGTTTTGTAGCTTCAAT-CTGATCCACTGCAACTTC
* * * * *
249352 AGGGGTATAGGATTTGGTGTCGTAGCTTCATCTTGGTCCATTGCAAGGAGATAAAAGATTTGCTT
64 AGGGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCATTGCAAGGAGATAAAAGAATTACTT
249417 CTGTAGCTTCAATCCGAC
129 CTGTAGCTTCAATCCGAC
* *
249435 CCACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCAATCTGATCCATTACAACTTCAG
1 CCACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCAATCTGATCCACTGCAACTTCAG
*
249500 GGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCATTACGACTTTAGGGAGATAAAA-AATT
66 GGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCATT--G-C---AAGGAGATAAAAGAATT
* *
249564 ACTTTTGTAGCTTCAATCTGAC
125 ACTTCTGTAGCTTCAATCCGAC
* * * * *
249586 CCAGTGCAACTTCAGGTGTATAGGATTTGGTTTTGTAGCTTC-ATCTTGTTCTACTGCAACTT
1 CCACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCAATC-TGATCCACTGCAACTT
249648 TAGAGAGATA
Statistics
Matches: 181, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
145 1 0.01
146 85 0.47
147 6 0.03
148 1 0.01
149 1 0.01
150 3 0.02
151 73 0.40
152 11 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (146 bp):
CCACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCAATCTGATCCACTGCAACTTCAG
GGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCATTGCAAGGAGATAAAAGAATTACTTCT
GTAGCTTCAATCCGAC
Found at i:256922 original size:36 final size:36
Alignment explanation
Indices: 256882--256958 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
256872 AGTCTTTGAC
256882 ATATGAATGAAGGAATGTATGTAAACATAATATACA
1 ATATGAATGAAGGAATGTATGTAAACATAATATACA
256918 ATATGAATGAAGGAATGTATGTAAACATAATATACA
1 ATATGAATGAAGGAATGTATGTAAACATAATATACA
256954 ATATG
1 ATATG
256959 GTGATGGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (36 bp):
ATATGAATGAAGGAATGTATGTAAACATAATATACA
Found at i:257244 original size:20 final size:20
Alignment explanation
Indices: 257203--257259 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
257193 AAAGTACTAA
*
257203 AAAATAAACAAA-ATAAAGAT
1 AAAATAAACAAATA-AAAAAT
*
257223 AAAATAAATAAATAAAAAAT
1 AAAATAAACAAATAAAAAAT
*
257243 AAAA-CAACAAATAAAAA
1 AAAATAAACAAATAAAAA
257260 CAAACAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 11 0.34
20 20 0.62
21 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAATAAACAAATAAAAAAT
Found at i:259045 original size:21 final size:21
Alignment explanation
Indices: 259020--259062 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
259010 GACACCAGCT
* *
259020 CAATTAAAAACATTGTTAATA
1 CAATTAAAAACAGTATTAATA
*
259041 CAATTAACAACAGTATTAATA
1 CAATTAAAAACAGTATTAATA
259062 C
1 C
259063 TAGAAATCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (21 bp):
CAATTAAAAACAGTATTAATA
Found at i:260954 original size:18 final size:17
Alignment explanation
Indices: 260922--260960 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
260912 TTTCTATTTA
*
260922 TTTATTTTTGCTTTAAAT
1 TTTATTTTTACTTT-AAT
*
260940 TTTATTTTTATTTTAAT
1 TTTATTTTTACTTTAAT
260957 TTTA
1 TTTA
260961 ATTTAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTTTTACTTTAAT
Found at i:261204 original size:20 final size:20
Alignment explanation
Indices: 261175--261217 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
261165 ATTTAATTTA
261175 TTTATTGTTTTTTATG-TAT
1 TTTATTGTTTTTTATGTTAT
261194 TTTAGTTGTTTTTTATGTTAT
1 TTTA-TTGTTTTTTATGTTAT
261215 TTT
1 TTT
261218 TTTACCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
20 12 0.55
21 6 0.27
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (20 bp):
TTTATTGTTTTTTATGTTAT
Found at i:268055 original size:21 final size:21
Alignment explanation
Indices: 268023--268082 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
268013 AACAGTACAG
* ** *
268023 ACTTCTACCGATACTTGTGAT
1 ACTTCTATCGATACAAGTGAA
*
268044 AGTTCTATCGATACAAGTGAA
1 ACTTCTATCGATACAAGTGAA
*
268065 ACTTCTATCGAAACAAGT
1 ACTTCTATCGATACAAGT
268083 CACGCTTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (21 bp):
ACTTCTATCGATACAAGTGAA
Found at i:268292 original size:21 final size:21
Alignment explanation
Indices: 268254--268293 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
268244 TACCCTGTGC
* * *
268254 TTCTACCGATACATGCATGAG
1 TTCTACCAAAACAAGCATGAG
268275 TTCTACCAAAACAAGCATG
1 TTCTACCAAAACAAGCATG
268294 CAGAATTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCTACCAAAACAAGCATGAG
Found at i:271074 original size:22 final size:19
Alignment explanation
Indices: 271044--271087 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
271034 ACTTTCATGA
271044 TTAACTTAATTAATCACTTAT
1 TTAACTTAATTAATC-C-TAT
271065 TTAACCTTAATTAATCCTAT
1 TTAA-CTTAATTAATCCTAT
271085 TTA
1 TTA
271088 TATTTAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 5 0.23
22 11 0.50
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAACTTAATTAATCCTAT
Found at i:273401 original size:70 final size:70
Alignment explanation
Indices: 273321--273465 Score: 209
Period size: 70 Copynumber: 2.1 Consensus size: 70
273311 CATTCGTTTA
* ** *
273321 TTCTTATCCAATTTGACAAACATTTCATTTACACTCATTCCACACAATTAATCATTCTTAAATTC
1 TTCTTATCCAATTTGACAAACATTTCATTCACACTCAGACCACACAATCAATCATTCTTAAATTC
273386 ATTCG
66 ATTCG
* * * *
273391 TTCTTGTCCAATTTGACAAACATTTTATTCATACTCAGACCATACAATCAATCATTCTTAAATTC
1 TTCTTATCCAATTTGACAAACATTTCATTCACACTCAGACCACACAATCAATCATTCTTAAATTC
*
273456 ATTTG
66 ATTCG
273461 TTCTT
1 TTCTT
273466 TGGATCTCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (70 bp):
TTCTTATCCAATTTGACAAACATTTCATTCACACTCAGACCACACAATCAATCATTCTTAAATTC
ATTCG
Found at i:298236 original size:24 final size:24
Alignment explanation
Indices: 298209--298265 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
298199 CATACGAGTG
298209 AAAGAAGTCGAA-GAAGAAGAAGGA
1 AAAGAAGTCGAACG-AGAAGAAGGA
**
298233 AAAGAAGAAGAACGAGAAGAAGGA
1 AAAGAAGTCGAACGAGAAGAAGGA
298257 AAAGAAGTC
1 AAAGAAGTC
298266 AAGGCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.32, T:0.04
Consensus pattern (24 bp):
AAAGAAGTCGAACGAGAAGAAGGA
Found at i:298237 original size:12 final size:12
Alignment explanation
Indices: 298222--298263 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
298212 GAAGTCGAAG
298222 AAGAAGAAGGAA
1 AAGAAGAAGGAA
298234 AAGAAGAA-GAA
1 AAGAAGAAGGAA
*
298245 CGAGAAGAAGGAA
1 -AAGAAGAAGGAA
298258 AAGAAG
1 AAGAAG
298264 TCAAGGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGGAA
Found at i:298713 original size:17 final size:17
Alignment explanation
Indices: 298693--298740 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
298683 CACATCTCCT
*
298693 TTGTCATTGCATTTTAA
1 TTGTCATTGCATTTGAA
*
298710 TTGTCATTGCATTTGCA
1 TTGTCATTGCATTTGAA
*
298727 TTATCATTGCATTT
1 TTGTCATTGCATTT
298741 CCACTTGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (17 bp):
TTGTCATTGCATTTGAA
Found at i:301254 original size:101 final size:97
Alignment explanation
Indices: 301140--301407 Score: 315
Period size: 101 Copynumber: 2.7 Consensus size: 97
301130 TAGCCAATCC
*
301140 TTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACAACAAATCTTATACC-CTTGAAG
1 TTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACAACAAATCCTATACCTC-TGAAG
**
301204 TTGCAATAGGTTGGATTAAAGCTACAAAAGCAAAT-AT
65 TTGCAATAGGTCAGA-T----CTACAAAAGCAAATCAT
* * * * * *
301241 TTATCTCCCTGAAGTTACAGTGGAGCAACATGAAGCTATAACATCAAATCCTATACCTCTGAAGT
1 TTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACAACAAATCCTATACCTCTGAAGT
* * *
301306 TGCAGTAGGTCAGATCTACAGAAGCAAATCTT
66 TGCAATAGGTCAGATCTACAAAAGCAAATCAT
* * * * *
301338 TTATCTCTTTAAAGTTGAAGTAGAGCAAGATGAAGCTACAACACCAAATCCTATATCTCTGAAGT
1 TTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACAACAAATCCTATACCTCTGAAGT
301403 TGCAA
66 TGCAA
301408 GGGATCGGAT
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
96 13 0.09
97 60 0.42
100 1 0.01
101 67 0.47
102 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (97 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACAACAAATCCTATACCTCTGAAGT
TGCAATAGGTCAGATCTACAAAAGCAAATCAT
Found at i:302106 original size:18 final size:18
Alignment explanation
Indices: 302083--302126 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
302073 ACAGAAGCAC
*
302083 AGACAAAGACAAAAAAAA
1 AGACAAAAACAAAAAAAA
*
302101 AGACAACAAACAACAAAAA
1 AGACAA-AAACAAAAAAAA
302120 A-ACAAAA
1 AGACAAAA
302127 TGTAAACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 10 0.43
19 11 0.48
ACGTcount: A:0.77, C:0.16, G:0.07, T:0.00
Consensus pattern (18 bp):
AGACAAAAACAAAAAAAA
Found at i:303349 original size:22 final size:21
Alignment explanation
Indices: 303315--303364 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
303305 TATTCTCGCC
*
303315 TTTATTTAATTTATTTATTGTT
1 TTTATGTAATTTATTTATT-TT
* *
303337 TTTATGTATTTTATTTGTTTT
1 TTTATGTAATTTATTTATTTT
303358 TTTATGT
1 TTTATGT
303365 TATGTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (21 bp):
TTTATGTAATTTATTTATTTT
Found at i:303388 original size:27 final size:27
Alignment explanation
Indices: 303354--303441 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 27
303344 ATTTTATTTG
303354 TTTT-TTTATGTTATGTTTTTTTTGCC
1 TTTTATTTATGTTATGTTTTTTTTGCC
303380 TTTTATTTAT-TTA-GTTATTTTTATGCC
1 TTTTATTTATGTTATGTT-TTTTT-TGCC
** *
303407 TTACA-TTATTGTTTTG-TTTTTTTGCC
1 TTTTATTTA-TGTTATGTTTTTTTTGCC
303433 TTTTATTTA
1 TTTTATTTA
303442 ATCACATATG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
25 3 0.06
26 22 0.44
27 21 0.42
28 3 0.06
29 1 0.02
ACGTcount: A:0.14, C:0.08, G:0.09, T:0.69
Consensus pattern (27 bp):
TTTTATTTATGTTATGTTTTTTTTGCC
Done.