Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold325
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: 667817
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
File 1 of 5
Found at i:7989 original size:2 final size:2
Alignment explanation
Indices: 7982--8008 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7972 AAACAAACAA
7982 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8009 AAATCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8966 original size:21 final size:20
Alignment explanation
Indices: 8942--8985 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8932 ATCATTTTTT
8942 TTGATAATTTTGATTTTTTAA
1 TTGAT-ATTTTGATTTTTTAA
* *
8963 TTGATTTTTTTATTTTTTTAA
1 TTGATATTTTGA-TTTTTTAA
8984 TT
1 TT
8986 TCTTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTGATATTTTGATTTTTTAA
Found at i:9001 original size:24 final size:25
Alignment explanation
Indices: 8963--9010 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
8953 GATTTTTTAA
* *
8963 TTGATTTTTTTATTTTTTTAATTTC
1 TTGATTTTTTAATTTTTTAAATTTC
8988 TTGA-TTTTTAATTTTTTAAATTT
1 TTGATTTTTTAATTTTTTAAATTT
9011 TATCATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (25 bp):
TTGATTTTTTAATTTTTTAAATTTC
Found at i:15411 original size:296 final size:296
Alignment explanation
Indices: 14877--15461 Score: 1017
Period size: 296 Copynumber: 2.0 Consensus size: 296
14867 AGTATAGGCT
*
14877 GCTAAGATGATGGAGATGAACATGGTATTTTAGACACACAAATGACATGAAAACATCAAAATAAT
1 GCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATGAAAACATCAAAATAAT
* * *
14942 TCTAAAGCTACCACATCTAATGCCACAATAATGCATGGTAATCCTAAGAAGGTCATGGAAGCATG
66 CCTAAAGCTACCACATCTAAGGCCACAATAATGCATGGTAATCCTAAAAAGGTCATGGAAGCATG
*
15007 CTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTTCAAAAAATAT
131 CTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCAAAAAATAT
* * * **
15072 ACTAATACAAGCAAGTTAGCTCGATTTGTTTGCTGGAACAATAATGCAGGTTTGTTTACTTCTTT
196 ACTAACACAAGCAAGTTAGCTCGATTTATTTGCTGGAACAATAATGCAGGCTTGTTTACTTCCAT
15137 TTTAAGGTTGCAAACAAGCTGAAAAGGATATAAGCG
261 TTTAAGGTTGCAAACAAGCTGAAAAGGATATAAGCG
* *
15173 GCTAAGATGATTGAGATGAACATGGCATTTTAGATACACAAATGACATGAAAACATCAAAATAAT
1 GCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATGAAAACATCAAAATAAT
* *
15238 CCTAAAGCTACCACATCTAAGGCCACAATAGTGCATGGTGATCCTAAAAAGGTCATGGAAGCATG
66 CCTAAAGCTACCACATCTAAGGCCACAATAATGCATGGTAATCCTAAAAAGGTCATGGAAGCATG
*
15303 TTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCAAAAAATAT
131 CTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCAAAAAATAT
*
15368 ACTAACACAAGCAAGTTAGCTTGATTTATTTGCTGGAACAATAATGCAGGCTTGTTTACTTCCAT
196 ACTAACACAAGCAAGTTAGCTCGATTTATTTGCTGGAACAATAATGCAGGCTTGTTTACTTCCAT
*
15433 TTTAGGGTTGCAAACAAGCTGAAAAGGAT
261 TTTAAGGTTGCAAACAAGCTGAAAAGGAT
15462 GAAAAAAGAG
Statistics
Matches: 272, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
296 272 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (296 bp):
GCTAAGATGATGGAGATGAACATGGCATTTTAGACACACAAATGACATGAAAACATCAAAATAAT
CCTAAAGCTACCACATCTAAGGCCACAATAATGCATGGTAATCCTAAAAAGGTCATGGAAGCATG
CTAGGATCGCTAAAATGATGATGAACACATAAACAAAAAATAAAATAATAAAGTCCAAAAAATAT
ACTAACACAAGCAAGTTAGCTCGATTTATTTGCTGGAACAATAATGCAGGCTTGTTTACTTCCAT
TTTAAGGTTGCAAACAAGCTGAAAAGGATATAAGCG
Found at i:17104 original size:21 final size:21
Alignment explanation
Indices: 17080--17119 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17070 TAAGAAAATA
17080 TTAAAAAAAT-ATTTATTTTCC
1 TTAAAAAAATGATTT-TTTTCC
17101 TTAAAAAAATGATTTTTTT
1 TTAAAAAAATGATTTTTTT
17120 AAAGAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAAAAAAATGATTTTTTTCC
Found at i:22461 original size:21 final size:21
Alignment explanation
Indices: 22437--22483 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
22427 AATATTTAAA
* *
22437 TATTTATTTATATATTTTATT
1 TATTTAATCATATATTTTATT
22458 TATTTAATCATATATTTTATT
1 TATTTAATCATATATTTTATT
22479 TATTT
1 TATTT
22484 TTAGCACGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTAATCATATATTTTATT
Found at i:22639 original size:34 final size:33
Alignment explanation
Indices: 22568--22632 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
22558 GTTTTATCGT
22568 ATTATATAAAAAATTTTACTTATATCTTAAATGA
1 ATTATATAAAAAATTTTA-TTATATCTTAAATGA
*
22602 ATTATAT-AAGAATTTT-TTATTATGCTTAAAT
1 ATTATATAAAAAATTTTATTA-TAT-CTTAAAT
22633 ATAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 3 0.11
32 3 0.11
33 15 0.54
34 7 0.25
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (33 bp):
ATTATATAAAAAATTTTATTATATCTTAAATGA
Found at i:24702 original size:48 final size:48
Alignment explanation
Indices: 24650--24780 Score: 158
Period size: 48 Copynumber: 2.7 Consensus size: 48
24640 CAATTAAATC
* * *
24650 AAATTTATATCATTATCAAATATAAAATAATAAAATACAAATATAACT-
1 AAATTTATATTATTATTAAATATAAAATAATAAAACACAAATATAA-TA
* * * *
24698 AAATTTA-AGTTAATATTAAATATAAGATAATAAAACATAAATATTATA
1 AAATTTATA-TTATTATTAAATATAAAATAATAAAACACAAATATAATA
*
24746 AAATTTATTTTATTATTAAATATAAAATAATAAAA
1 AAATTTATATTATTATTAAATATAAAATAATAAAA
24781 GAAAATTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 68 0.97
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (48 bp):
AAATTTATATTATTATTAAATATAAAATAATAAAACACAAATATAATA
Found at i:28225 original size:19 final size:20
Alignment explanation
Indices: 28201--28251 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
28191 CGATACAATA
*
28201 TATCGATACATGC-TCATTG
1 TATCGATACATGCTTAATTG
*
28220 TATCGATACATACTTAATTG
1 TATCGATACATGCTTAATTG
28240 TATCGATACATG
1 TATCGATACATG
28252 AAACTAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
TATCGATACATGCTTAATTG
Found at i:28226 original size:32 final size:33
Alignment explanation
Indices: 28165--28229 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
28155 ACACACTCAG
* *
28165 ATATATCGATACATTATGCTTTGTATCGATACA
1 ATATATCGATACATGATGCATTGTATCGATACA
*
28198 ATATATCGATACATGCT-CATTGTATCGATACA
1 ATATATCGATACATGATGCATTGTATCGATACA
28230 TACTTAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (33 bp):
ATATATCGATACATGATGCATTGTATCGATACA
Found at i:37151 original size:183 final size:183
Alignment explanation
Indices: 36831--37198 Score: 628
Period size: 183 Copynumber: 2.0 Consensus size: 183
36821 AACCTTATTC
*
36831 TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTATAAATGTTTTCAAGTCTTAAATCGA
1 TAAGTAATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTATAAATGTTTTCAAGTCTTAAATCGA
* *
36896 ATGTTTTCAAGTAAAATTAATCCAAAGTATCGATACATAGGTATTTGTATCGATATATTAAGGTT
66 ATGTTTTCAAGTAAAATTAATCCAAAGTATCCATACATAGGTATTTGTATCAATATATTAAGGTT
*
36961 AACTTAGGCTACAAAGGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
131 AACTTAGGCTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
* *
37014 TAAGTAATTTTCAATTTCAATAAAGGTTTAGAGTTTTGTATAAGTGTTTTCAAGTCTTAAATCGA
1 TAAGTAATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTATAAATGTTTTCAAGTCTTAAATCGA
* *
37079 ATGTTTTCAAGTAAAATTAATCTAAAGTATCCATATATAGGTATTTGTATCAATATATTAAGGTT
66 ATGTTTTCAAGTAAAATTAATCCAAAGTATCCATACATAGGTATTTGTATCAATATATTAAGGTT
* * * *
37144 GACTTAGGCTACAAAAGTCAAAATCCTAGAACGTATCGATACACACTCAGATG
131 AACTTAGGCTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
37197 TA
1 TA
37199 TCGATGCATT
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 173 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAGTAATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTATAAATGTTTTCAAGTCTTAAATCGA
ATGTTTTCAAGTAAAATTAATCCAAAGTATCCATACATAGGTATTTGTATCAATATATTAAGGTT
AACTTAGGCTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
Found at i:37233 original size:13 final size:13
Alignment explanation
Indices: 37215--37239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37205 CATTATGTTT
37215 TGTATCGATACAA
1 TGTATCGATACAA
37228 TGTATCGATACA
1 TGTATCGATACA
37240 TGCTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37323 original size:13 final size:13
Alignment explanation
Indices: 37305--37334 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
37295 GATATATGGG
37305 ACATTGTATCGAT
1 ACATTGTATCGAT
37318 ACATTGTATCGAT
1 ACATTGTATCGAT
37331 ACAT
1 ACAT
37335 GAAGAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:37331 original size:33 final size:33
Alignment explanation
Indices: 37289--37357 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
37279 CTAAGTGAAA
* * *
37289 TGTATCGATATATG-GGACATTGTATCGATACAT
1 TGTATCGATACATGAAGA-ATTATATCGATACAT
37322 TGTATCGATACATGAAGAATTATATCGATACAT
1 TGTATCGATACATGAAGAATTATATCGATACAT
37355 TGT
1 TGT
37358 GCCCAACGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTATATCGATACAT
Found at i:42404 original size:6 final size:6
Alignment explanation
Indices: 42379--42444 Score: 69
Period size: 6 Copynumber: 10.3 Consensus size: 6
42369 GAGTTTGGGG
* * *
42379 AAGAACA AAGAGAA AGGAAA AAGAAA AAAACAA AAAAAA AAGAAA GAAGAAA
1 AAGAA-A AAGA-AA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA -AAGAAA
42431 AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AA
42445 AAATGGCCTG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
6 31 0.60
7 20 0.38
8 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:42420 original size:19 final size:18
Alignment explanation
Indices: 42396--42447 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
42386 AAGAGAAAGG
42396 AAAAAGAAAAAAACAAAAA
1 AAAAAGAAAAAAA-AAAAA
* *
42415 AAAAAGAAAGAAGAAAAAG
1 AAAAAGAAA-AAAAAAAAA
42434 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
42448 TGGCCTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 22 0.76
20 3 0.10
ACGTcount: A:0.87, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAAA
Found at i:42423 original size:30 final size:30
Alignment explanation
Indices: 42389--42447 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
42379 AAGAACAAAG
42389 AGAAAG-GAAAAAGAAAAAAACAAAAAAAAA
1 AGAAAGAGAAAAAGAAAAAAA-AAAAAAAAA
*
42419 AGAAAGAAGAAAAAGAAAAAGAAAAAAAA
1 AGAAAG-AGAAAAAGAAAAAAAAAAAAAA
42448 TGGCCTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
32 13 0.50
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (30 bp):
AGAAAGAGAAAAAGAAAAAAAAAAAAAAAA
Found at i:47158 original size:21 final size:23
Alignment explanation
Indices: 47118--47214 Score: 78
Period size: 21 Copynumber: 4.3 Consensus size: 23
47108 ATTCATTTTT
* * *
47118 ATTAATATTTAGAGTATTAAAAT
1 ATTAATATTTATATTATTAAAAA
47141 ATTAATATTT-TA-TATTAAAAA
1 ATTAATATTTATATTATTAAAAA
* * *
47162 TTTTAT-TATTA-AAT-TTAAAAA
1 ATTAATAT-TTATATTATTAAAAA
*
47183 ATTTATATTTATATTTATTAAAAA
1 ATTAATATTTATA-TTATTAAAAA
47207 ATTAATAT
1 ATTAATAT
47215 AAAAATATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.02
21 30 0.50
22 4 0.07
23 11 0.18
24 14 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTAATATTTATATTATTAAAAA
Found at i:47260 original size:27 final size:28
Alignment explanation
Indices: 47230--47330 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
47220 TATTTTTCAA
47230 TAAAATATTAAAAATACTATTTAATT-T
1 TAAAATATTAAAAATACTATTTAATTAT
* * *
47257 TAAAATGTTGATAATATTACAATTT-ATTAT
1 TAAAATATT-A-AA-AATACTATTTAATTAT
* * *
47287 TAAAATAATAATATTA-TATTATATATTAT
1 TAAAATATTAAAAATACTATT-TA-ATTAT
47316 TAAAATATTAAAAAT
1 TAAAATATTAAAAAT
47331 TACAATATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
26 3 0.05
27 13 0.23
28 2 0.04
29 23 0.40
30 16 0.28
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAAATATTAAAAATACTATTTAATTAT
Found at i:47326 original size:8 final size:8
Alignment explanation
Indices: 47313--47345 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
47303 TATTATATAT
47313 TATTAAAA
1 TATTAAAA
47321 TATTAAAA
1 TATTAAAA
*
47329 -ATTACAA
1 TATTAAAA
47336 TATTAAAA
1 TATTAAAA
47344 TA
1 TA
47346 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (8 bp):
TATTAAAA
Found at i:47332 original size:15 final size:15
Alignment explanation
Indices: 47314--47343 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47304 ATTATATATT
47314 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
47329 ATTACAATATTAAAA
1 ATTAAAATATTAAAA
47344 TAATTTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:47870 original size:29 final size:29
Alignment explanation
Indices: 47825--47892 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
47815 TTTCCCTTAT
* *
47825 ATTTTCAAATTTTTATATGTT-AAAAATTA
1 ATTTTTAAATTTGTATAT-TTAAAAAATTA
47854 ATTTTTAAATTTGTATATTTAAAAAATTA
1 ATTTTTAAATTTGTATATTTAAAAAATTA
47883 ATTTTTAAAT
1 ATTTTTAAAT
47893 AAAATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 34 0.94
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTTTAAATTTGTATATTTAAAAAATTA
Found at i:47891 original size:15 final size:16
Alignment explanation
Indices: 47871--47903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47861 AATTTGTATA
*
47871 TTTAAA-AAATTAATT
1 TTTAAATAAAATAATT
47886 TTTAAATAAAATAATT
1 TTTAAATAAAATAATT
47902 TT
1 TT
47904 ATTAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTAAATAAAATAATT
Found at i:48310 original size:2 final size:2
Alignment explanation
Indices: 48303--48330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48293 TTTAATTCTA
48303 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
48331 TTGTTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48947 original size:30 final size:30
Alignment explanation
Indices: 48902--49012 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 30
48892 TTATCAATTT
* * * *
48902 GTATTTATATAAATTTGCATTATGTGATAG
1 GTATTCATATTAATTTGTATTATGTGATTG
* *
48932 GTATTCATATTAATTTTTATTATATGATTG
1 GTATTCATATTAATTTGTATTATGTGATTG
* * *
48962 GAATTCATATTGATTTGTATTTTGTGATTG
1 GTATTCATATTAATTTGTATTATGTGATTG
* * *
48992 ATATTCATATTAGTTTTTATT
1 GTATTCATATTAATTTGTATT
49013 TAATGGGTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.54
Consensus pattern (30 bp):
GTATTCATATTAATTTGTATTATGTGATTG
Found at i:50834 original size:64 final size:64
Alignment explanation
Indices: 50730--50851 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 64
50720 ACTAAAGATC
* * * *
50730 AGTTCATCTCTTTGAACTTGTACAATTTTCTTTAAAGAGTTAATTTCTTT-ATGCTAGGAGGTTT
1 AGTTCATCTCCTTAAACTTGTACAATTTTCCTTAAAGAGTT-AGTTCTTTGATGCTAGGAGGTTT
*
50794 AGTTCATCTCCTTAAACTT-TGACAATTTTCCCTT-AGGAGTTAGTTCTTTGATGCTAGG
1 AGTTCATCTCCTTAAACTTGT-ACAATTTT-CCTTAAAGAGTTAGTTCTTTGATGCTAGG
50852 GGCCATTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
63 8 0.16
64 39 0.78
65 3 0.06
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (64 bp):
AGTTCATCTCCTTAAACTTGTACAATTTTCCTTAAAGAGTTAGTTCTTTGATGCTAGGAGGTTT
Found at i:51799 original size:22 final size:22
Alignment explanation
Indices: 51774--51838 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
51764 TAATGATATA
51774 TACATATAACAATAACATAAGG
1 TACATATAACAATAACATAAGG
* * * *
51796 TACAAATTACAAGAACATAATG
1 TACATATAACAATAACATAAGG
* *
51818 TACATATCATAATAAC-TAAGG
1 TACATATAACAATAACATAAGG
51839 AAATCAACTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (22 bp):
TACATATAACAATAACATAAGG
Found at i:52281 original size:30 final size:30
Alignment explanation
Indices: 52245--52314 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
52235 TACAAAAGAC
*
52245 AAATTAATATGAACACCCATCACCTAATAA
1 AAATTAATATGAACACACATCACCTAATAA
* * ** *
52275 AAATTAATATGAATATACATCATTTAATAC
1 AAATTAATATGAACACACATCACCTAATAA
52305 AAATTAATAT
1 AAATTAATAT
52315 AATACAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATTAATATGAACACACATCACCTAATAA
Found at i:52654 original size:21 final size:20
Alignment explanation
Indices: 52616--52654 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52606 TAAGGATAAT
*
52616 TTTATATTTATCATTTTTTG
1 TTTATATTTATCAGTTTTTG
*
52636 TTTATAATTTATTAGTTTT
1 TTTAT-ATTTATCAGTTTT
52655 ACATCGACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATATTTATCAGTTTTTG
Found at i:52855 original size:15 final size:16
Alignment explanation
Indices: 52825--52857 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52815 AGTATTATAG
*
52825 ATTTACATACATTTTT
1 ATTTATATACATTTTT
52841 ATTTATATA-ATTTTT
1 ATTTATATACATTTTT
52856 AT
1 AT
52858 ATATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATATACATTTTT
Found at i:52869 original size:17 final size:15
Alignment explanation
Indices: 52835--52891 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
52825 ATTTACATAC
*
52835 ATTTTTATTTATATA
1 ATTTTTATATATATA
52850 ATTTTTATATATTAATA
1 ATTTTTATATA-T-ATA
*
52867 ATTTATTTTATATAT-
1 ATTT-TTATATATATA
*
52882 ATTTTGATAT
1 ATTTTTATAT
52892 GTTTATACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.11
15 14 0.40
16 3 0.09
17 8 0.23
18 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTTTTATATATATA
Found at i:52993 original size:16 final size:16
Alignment explanation
Indices: 52972--53005 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52962 AGAATTATAA
*
52972 ATTTATATAAATTTTT
1 ATTTATATAAATTATT
52988 ATTTATATAAATTATT
1 ATTTATATAAATTATT
53004 AT
1 AT
53006 GCATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATATAAATTATT
Found at i:53979 original size:21 final size:21
Alignment explanation
Indices: 53937--53980 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
53927 GTTATTATTG
*
53937 TTAATTTATGTTCTGTCTTAA
1 TTAATTTATGTTCTGTCATAA
*
53958 TTAATTTCATGTTTTG-CATAA
1 TTAATTT-ATGTTCTGTCATAA
53979 TT
1 TT
53981 TATCATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (21 bp):
TTAATTTATGTTCTGTCATAA
Found at i:54433 original size:18 final size:19
Alignment explanation
Indices: 54396--54433 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
54386 TAGAATAAAA
*
54396 AGAAAATTGGAAAAATAAT
1 AGAAAATTGGAAAAAGAAT
*
54415 AGAAAATT-GAAACAGAAT
1 AGAAAATTGGAAAAAGAAT
54433 A
1 A
54434 AACTTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.16, T:0.18
Consensus pattern (19 bp):
AGAAAATTGGAAAAAGAAT
Found at i:54792 original size:16 final size:16
Alignment explanation
Indices: 54771--54802 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54761 GGTTTTTTTT
*
54771 TTTTTAATTTACAAAC
1 TTTTTAAGTTACAAAC
54787 TTTTTAAGTTACAAAC
1 TTTTTAAGTTACAAAC
54803 AACCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTAAGTTACAAAC
Found at i:55955 original size:26 final size:26
Alignment explanation
Indices: 55896--55971 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
55886 AACAAACATA
*
55896 ATTTATATAAATATATTTAAATTTTTT
1 ATTTATTTAAATA-ATTTAAATTTTTT
* *
55923 ATATATTTAAATAA-TTATATTTTTAT
1 ATTTATTTAAATAATTTAAATTTTT-T
55949 ATTTATTTAAATAAATATTAAAT
1 ATTTATTTAAAT-AAT-TTAAAT
55972 ATAAATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 9 0.22
26 13 0.32
27 13 0.32
29 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTATTTAAATAATTTAAATTTTTT
Found at i:56561 original size:21 final size:20
Alignment explanation
Indices: 56536--56589 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
56526 AAAACTTAAT
56536 AATTTAAATAA-AAATAATTTA
1 AATTTAAATAATAAAT-A-TTA
56557 AATTTAAATAATTAAATATTA
1 AATTTAAATAA-TAAATATTA
*
56578 AATTTAGATAAT
1 AATTTAAATAAT
56590 TTAAATTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 1 0.03
23 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTAAATAATAAATATTA
Found at i:56578 original size:15 final size:16
Alignment explanation
Indices: 56533--56580 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 16
56523 TTTAAAACTT
*
56533 AATAATTTAAATA-AA
1 AATAATTTAAATATTA
56548 AATAATTTAAAT-TTA
1 AATAATTTAAATATTA
56563 AATAA-TTAAATATTA
1 AATAATTTAAATATTA
56578 AAT
1 AAT
56581 TTAGATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATTTAAATATTA
Found at i:56590 original size:21 final size:22
Alignment explanation
Indices: 56554--56595 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
56544 TAAAAATAAT
56554 TTAAATTTAAATAA-TTAAATA
1 TTAAATTTAAATAATTTAAATA
*
56575 TTAAATTTAGATAATTTAAAT
1 TTAAATTTAAATAATTTAAAT
56596 TCTAAGTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAAATTTAAATAATTTAAATA
Found at i:57545 original size:23 final size:26
Alignment explanation
Indices: 57503--57553 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
57493 AATTTAATAA
*
57503 AAATAATATATTAAATATAATTTTTT
1 AAATAATATATTAAATATAATCTTTT
57529 AAATAATA-ATT-AA-ATAATCTTTT
1 AAATAATATATTAAATATAATCTTTT
57552 AA
1 AA
57554 TTGATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
24 2 0.08
25 3 0.12
26 8 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATAATATATTAAATATAATCTTTT
Found at i:61055 original size:13 final size:14
Alignment explanation
Indices: 61039--61068 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61029 TAATTTATGT
61039 AATATT-TTTAAAA
1 AATATTATTTAAAA
61052 AATATTATTTAAAA
1 AATATTATTTAAAA
61066 AAT
1 AAT
61069 TTAATATTTA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATTATTTAAAA
Found at i:61959 original size:42 final size:42
Alignment explanation
Indices: 61899--61978 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
61889 CTTGACCCTC
*
61899 TCCCTAAATTAGGCATTGCCTGCTACGCAAAGTAACCCGTTG
1 TCCCTAAATTAGGCATTGCCTGCCACGCAAAGTAACCCGTTG
* * * *
61941 TCCCTATATTGGGTATTGCTTGCCACGCAAAGTAACCC
1 TCCCTAAATTAGGCATTGCCTGCCACGCAAAGTAACCC
61979 ATTCTCCCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (42 bp):
TCCCTAAATTAGGCATTGCCTGCCACGCAAAGTAACCCGTTG
Found at i:65832 original size:19 final size:18
Alignment explanation
Indices: 65802--65844 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 18
65792 TGTACAGATA
65802 ATAAATAAGCAAACTAAT
1 ATAAATAAGCAAACTAAT
65820 ATAAATGAAGCAAACTAAT
1 ATAAAT-AAGCAAACTAAT
65839 ATAAAT
1 ATAAAT
65845 CTTCAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAAATAAGCAAACTAAT
Found at i:66605 original size:2 final size:2
Alignment explanation
Indices: 66598--66623 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66588 AAAAACACTA
66598 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
66624 GTTTTGTTCA
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:69256 original size:23 final size:23
Alignment explanation
Indices: 69211--69256 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
69201 TAATACGTTA
* *
69211 ATAACATTATGATACGATTTTTT
1 ATAACATTATGATAAGATCTTTT
69234 ATAACATTAT-AGTAAGATCTTTT
1 ATAACATTATGA-TAAGATCTTTT
69257 GCATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (23 bp):
ATAACATTATGATAAGATCTTTT
Found at i:72847 original size:2 final size:2
Alignment explanation
Indices: 72840--72871 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72830 TCTTATTCAC
72840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72872 TGTCGATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73879 original size:14 final size:14
Alignment explanation
Indices: 73860--73887 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
73850 GAAAAAACTT
73860 TTTCACCCAATATG
1 TTTCACCCAATATG
73874 TTTCACCCAATATG
1 TTTCACCCAATATG
73888 GACCTTCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TTTCACCCAATATG
Found at i:79265 original size:13 final size:13
Alignment explanation
Indices: 79247--79272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79237 TACACCAAGT
79247 ATGTATCGATACA
1 ATGTATCGATACA
79260 ATGTATCGATACA
1 ATGTATCGATACA
79273 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:79270 original size:32 final size:33
Alignment explanation
Indices: 79229--79292 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
79219 TAGCCAAACT
**
79229 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
79261 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
79293 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:85436 original size:13 final size:13
Alignment explanation
Indices: 85418--85443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85408 ACATTTTTCT
85418 TTGTATCGATACA
1 TTGTATCGATACA
85431 TTGTATCGATACA
1 TTGTATCGATACA
85444 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:88020 original size:13 final size:13
Alignment explanation
Indices: 88002--88027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87992 TACACCAAGT
88002 ATGTATCGATACA
1 ATGTATCGATACA
88015 ATGTATCGATACA
1 ATGTATCGATACA
88028 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88025 original size:32 final size:33
Alignment explanation
Indices: 87984--88047 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
87974 TAGCCAAACT
**
87984 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
88016 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
88048 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:89346 original size:20 final size:20
Alignment explanation
Indices: 89321--89392 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
89311 TTTTAACTAG
89321 ATGTATCGATACTTTGAAAA
1 ATGTATCGATACTTTGAAAA
* * * * * *
89341 ATGTATCAATGCGTTCATAC
1 ATGTATCGATACTTTGAAAA
89361 ATGTATCGATA-TGTTGAAAA
1 ATGTATCGATACT-TTGAAAA
*
89381 ATGTATTGATAC
1 ATGTATCGATAC
89393 ATCTAGGTAT
Statistics
Matches: 37, Mismatches: 13, Indels: 3
0.70 0.25 0.06
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACTTTGAAAA
Found at i:90833 original size:86 final size:85
Alignment explanation
Indices: 90348--91126 Score: 534
Period size: 86 Copynumber: 8.7 Consensus size: 85
90338 TTACCATTAG
* * * *
90348 CTTGTGGGCTTTGAAAAGG-TGCCACTAACTTATGGGCTTTGAAAGGGTGCCAGTGACTTGTGGG
1 CTTGTGGGCTTTGAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGG
* *
90412 CTTTAAAAGGATGCCACTAA
66 CTTGAAAATGATGCCACTAA
* * *
90432 CTTGTGGGCTTTGAAAAGAG-TGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGG
1 CTTGTGGGCTTTG-AAAGGGTTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
* * *
90496 GCTTTG-AAAGGGTGCCACCAA
65 GC-TTGAAAATGATGCCACTAA
* * * ** * **
90517 TTTGTGGGCTTTGAAATGGGTTACCACCGATTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 CTTGTGGGCTTTGAAA-GGGTTGCCA-CTAACT-TGTGGGCTTTGAAA--GGATGCCACTGAC-T
** **
90582 GTGTGGGCTTTCAAATGAGTTGCCACCGA
60 -TGTGGGCTTGAAAATGA--TGCCACTAA
* * * * * *
90611 CTTATGTGGGCTTTAAAATGGGTTGCCACTAACTTGTGTGGGTTTTCAAATGAGTTACCACCGAC
1 C-T-TGTGGGCTTTGAAA-GGGTTGCCACTAAC-T-TGTGGGCTTTGAAA-G-GATGCCACTGAC
*
90676 TTGTGTGGGCTTTGAAAATGATGCCACTGA
59 -T-TGTGGGC-TTGAAAATGATGCCACTAA
* * * * * *
90706 CTTGTGGGCTTTTGAAA-GGATGTCATTAACTTATGGGCTTTGAAAAGATGCCACTGTCTTGTGG
1 CTTGTGGGC-TTTGAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
90770 GCTTCGAAAATG-TGCCACTAA
65 GCTT-GAAAATGATGCCACTAA
* *
90791 CTTGTGGGCTTTGAAAGGGTATGCCACTAACTTGTGGACTTTGAAATGATGCCACTGACTTGTGG
1 CTTGTGGGCTTTGAAAGGGT-TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
* * *
90856 GCTTTAAAA-GAATGCCATTGA
65 GCTTGAAAATG-ATGCCACTAA
* * **
90877 CTTGTGGGCTTTGAAATGGGTTGCCACTGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTT
1 CTTGTGGGCTTTGAAA-GGGTTGCCACTAACTTGTG--GGCTTTGAAA--GGATGCCACTGACTT
* *
90942 GTGTGAGCTTTG-AAATGGGTTACCACTAA
61 GTG-G-GC-TTGAAAAT--GATGCCACTAA
* * * *
90971 CTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCA-TCGA
1 C-T-TGTGGGCTTTGAAA-GGGTTGCCACTAAC-T-TGTGGGCTTTGAAA-G-GATGCCACT-GA
* *
91035 CTTGTGGGCTTTG-AAATAATGCCACTGA
58 CTTGTGGGC-TTGAAAATGATGCCACTAA
* * * * * *
91063 CTTGTGGGCTTTGAAA-GGATGCCATTGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1 CTTGTGGGCTTTGAAAGGGTTGCCACTAACTTGTGGGCTTTGAAA--GGATGCCACTGACTTGTG
91127 TGGGCTTTGA
Statistics
Matches: 564, Mismatches: 88, Indels: 84
0.77 0.12 0.11
Matches are distributed among these distances:
84 24 0.04
85 101 0.18
86 127 0.23
87 10 0.02
88 38 0.07
90 48 0.09
91 6 0.01
92 34 0.06
93 9 0.02
94 32 0.06
95 17 0.03
96 105 0.19
97 9 0.02
98 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (85 bp):
CTTGTGGGCTTTGAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGG
CTTGAAAATGATGCCACTAA
Found at i:90998 original size:360 final size:357
Alignment explanation
Indices: 90275--91106 Score: 1102
Period size: 360 Copynumber: 2.3 Consensus size: 357
90265 TAAAAAAAGG
** * * *
90275 TGCCACTAACTTGTGTGGGCTTTGAAAAAAGTTACCACCAACTCATGTGGGCTTT-AAAAAGAGT
1 TGCCACTAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACT-TTGTGGGCTTTGAAAATGA--
* * * * * *
90339 TACCA-TTAGCTTGTGGGCTTTGAAAAGG-TGCCACTAACTTATGGGCTTTGAAAGGGTGCCAGT
63 TGCCACTGA-CTTGTGGGCTTTG-AAAGGATGCCATTAACTTATGGGCTTTGAAAAGATGCCACT
*
90402 GACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATG
126 GACTTGTGGGCTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATG
* * * ** *
90467 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCAATTTGTGGGCTTTGAA
191 GACTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGAATGCCACCAACTTGTGGGCTTTGAA
* * *
90532 ATGGGTTACCACCGATTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAA
256 ATGGGTTACCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTCAAA
* * *
90597 TGAGTTGCCACCGACTTATGTGGGCTTTAAAATGGGT
321 TGAGTTACCACCAACTTATGTGGGCTTTAAAATGAGT
* *
90634 TGCCACTAACTTGTGTGGGTTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTGAAAATGATG
1 TGCCACTAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACTT-TGTGGGCTTTGAAAATGATG
* *
90699 CCACTGACTTGTGGGCTTTTGAAAGGATGTCATTAACTTATGGGCTTTGAAAAGATGCCACTGTC
65 CCACTGACTTGTGGGC-TTTGAAAGGATGCCATTAACTTATGGGCTTTGAAAAGATGCCACTGAC
* * *
90764 TTGTGGGCTTCGAAAATG-TGCCACTAACTTGTGGGCTTTG-AAAGGGTATGCCACTAACTTGTG
129 TTGTGGGCTT-GAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAG--TGCCACTAACTTATG
* ***
90827 GACTTTGAAATGATGCCACTGACTTGTGGGCTTTAAAAGAATGCCATTGACTTGTGGGCTTTGAA
191 GACTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGAATGCCACCAACTTGTGGGCTTTGAA
* * *
90892 ATGGGTTGCCACTGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAA
256 ATGGGTTACCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTCAAA
* * * *
90957 TGGGTTACCACTAACTTGTGTGGGCTTTCAAATGAGT
321 TGAGTTACCACCAACTTATGTGGGCTTTAAAATGAGT
* * * *
90994 TGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCATCGAC-TTGTGGGCTTTG-AAATAATGC
1 TGCCACTAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACTTTGTGGGCTTTGAAAATGATGC
*
91057 CACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTTGAAA
66 CACTGACTTGTGGGCTTTGAAAGGATGCCATTAACTTATGGGCTTTGAAA
91107 TGGGTTGCCA
Statistics
Matches: 415, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
356 33 0.08
357 23 0.06
358 34 0.08
359 119 0.29
360 206 0.50
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (357 bp):
TGCCACTAACTTGTGTGGGCTTTGAAATGAGTTACCACCGACTTTGTGGGCTTTGAAAATGATGC
CACTGACTTGTGGGCTTTGAAAGGATGCCATTAACTTATGGGCTTTGAAAAGATGCCACTGACTT
GTGGGCTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGACTT
TGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGAATGCCACCAACTTGTGGGCTTTGAAATGGG
TTACCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTCAAATGAGT
TACCACCAACTTATGTGGGCTTTAAAATGAGT
Found at i:91136 original size:32 final size:31
Alignment explanation
Indices: 90349--91172 Score: 597
Period size: 32 Copynumber: 27.5 Consensus size: 31
90339 TACCATTAGC
* *
90349 TTGTGGGCTTTGAAA-AGG-TGCCACTAAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
90377 TTATGGGCTTTGAAA-GGG-TGCCAGTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* * *
90405 TTGTGGGCTTT-AAA-AGGATGCCACTAAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* * *
90433 TTGTGGGCTTTGAAAAGAG-TGCCACTAAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
*
90462 TTATGGGCTTTGAAA-GGG-TGCCACTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
90490 TTGTGGGCTTTGAAA-GGG-TGCCAC-CAAT
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* * *
90518 TTGTGGGCTTTGAAATGGGTTACCACCGATT
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
**
90549 TGTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
* * *
90581 TGTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
90613 TATGTGGGCTTTAAAATGGGTTGCCACTAACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
* * * * *
90645 TGTGTGGGTTTTCAAATGAGTTACCACCGACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
*
90677 TGTGTGGGCTTTGAAAAT--GATGCCACTGAC-
1 T-TGTGGGCTTTG-AAATGGGTTGCCACTGACT
* * * *
90707 TTGTGGGCTTTTGAAA--GGATGTCATTAAC-
1 TTGTGGGC-TTTGAAATGGGTTGCCACTGACT
* * * *
90736 TTATGGGCTTTGAAA--AGATGCCACTGTC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
90764 TTGTGGGCTTCGAAAAT--G-TGCCACTAAC-
1 TTGTGGGCTTTG-AAATGGGTTGCCACTGACT
*
90792 TTGTGGGCTTTGAAA-GGGTATGCCACTAAC-
1 TTGTGGGCTTTGAAATGGGT-TGCCACTGACT
* *
90822 TTGTGGACTTTGAAAT--GATGCCACTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* ** *
90850 TTGTGGGCTTT-AAA-AGAATGCCATTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
90878 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* **
90909 TGTGTAGGCTTTGAAATGGGTTGCCACCAACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
* * *
90941 TGTGTGAGCTTTGAAATGGGTTACCACTAACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
* * **
90973 TGTGTGGGCTTTCAAATGAGTTGCCACCAACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
*
91005 TGTGTGGGCTTTGAAATGAGTTGCCA-TCGAC-
1 T-TGTGGGCTTTGAAATGGGTTGCCACT-GACT
**
91036 TTGTGGGCTTTGAAAT--AATGCCACTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
91064 TTGTGGGCTTTGAAA--GGATGCCATTGAC-
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
* *
91092 TTATGGGCTTTGAAATGGGTTGCCACCGACT
1 TTGTGGGCTTTGAAATGGGTTGCCACTGACT
*
91123 TGTGTGGGCTTTGAAATGGGTTACCACTGACT
1 T-TGTGGGCTTTGAAATGGGTTGCCACTGACT
*
91155 TGTGTGGGCTTTCAAATG
1 T-TGTGGGCTTTGAAATG
91173 AGTTACCATC
Statistics
Matches: 672, Mismatches: 93, Indels: 58
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.02
28 234 0.35
29 65 0.10
30 70 0.10
31 15 0.02
32 272 0.40
33 4 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (31 bp):
TTGTGGGCTTTGAAATGGGTTGCCACTGACT
Found at i:91229 original size:27 final size:27
Alignment explanation
Indices: 91189--91358 Score: 232
Period size: 28 Copynumber: 6.2 Consensus size: 27
91179 CATCGACTTA
*
91189 TGGACTTAAAAGGGTGCCACAGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
*
91216 TAGACTTAAAAGGGTGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* *
91243 TGGACTTTAAAAAGGTGCAACGGAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* *
91271 TGGACTTTAAAGGATGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
*
91298 TGGACTTCAAAAGGGTGTCACGGAGTTG
1 TGGACTT-AAAAGGGTGCCACGGAGTTG
* *
91326 TGGACTTTAAAAGGATGTCACGGAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
91354 TGGAC
1 TGGAC
91359 ATTGAAGAAG
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
27 54 0.43
28 71 0.56
29 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.25
Consensus pattern (27 bp):
TGGACTTAAAAGGGTGCCACGGAGTTG
Found at i:91277 original size:55 final size:54
Alignment explanation
Indices: 91189--91358 Score: 234
Period size: 55 Copynumber: 3.1 Consensus size: 54
91179 CATCGACTTA
* * *
91189 TGGAC-TTAAAAGGGTGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTG
1 TGGACTTTAAAAGGGTG-CACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTG
* *
91243 TGGACTTTAAAAAGGTGCAACGGAGTTGTGGACTTTAAAGGATGCCACGGAGTTG
1 TGGACTTTAAAAGGGTGC-ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTG
* *
91298 TGGACTTCAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGATGTCACGGAGTTG
1 TGGACTTTAAAAGGGTG-CACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTG
91354 TGGAC
1 TGGAC
91359 ATTGAAGAAG
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
54 6 0.06
55 71 0.69
56 26 0.25
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.25
Consensus pattern (54 bp):
TGGACTTTAAAAGGGTGCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTG
Found at i:107294 original size:48 final size:48
Alignment explanation
Indices: 107238--107935 Score: 1216
Period size: 48 Copynumber: 14.5 Consensus size: 48
107228 TATTGGTACC
* * *
107238 AGCTGGCCTTGAATCAACATATTGGCACCTTACCTTTAAGTTCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
107286 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
107334 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
107382 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
* *
107430 AGCTGGTCTTGAAGCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
*
107478 AGCTGGCCTTGAATCAGCATATTGGCAGCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
*
107526 AGCTGGCCTTGAATCAGTATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
*
107574 AGTTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
* *
107622 AGCTGGCCTTGAAGCATCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
* *
107670 AGCTGGCCTTAAATCAGTATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
* *
107718 AGCTGGCCTTAAATCAGTATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
107766 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
*
107814 AGCTGGCCTTGAATCAGCATATTGGCATCTCACCTTTAAGTCCAATAT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
* * * *
107862 AGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGTCTAATGT
1 AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
*
107910 AGCTGGCCTTGACTCAGCATATTGGC
1 AGCTGGCCTTGAATCAGCATATTGGC
107936 GCCTTCCTCA
Statistics
Matches: 622, Mismatches: 28, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 622 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (48 bp):
AGCTGGCCTTGAATCAGCATATTGGCACCTCACCTTTAAGTCCAATAT
Found at i:107333 original size:26 final size:26
Alignment explanation
Indices: 107304--107429 Score: 60
Period size: 26 Copynumber: 5.2 Consensus size: 26
107294 TTGAATCAGC
107304 ATATTGGCACCTCACCTTTAAGTCCA
1 ATATTGGCACCTCACCTTTAAGTCCA
* ** *
107330 ATA-T---AGCTGGCCTTGAA-TCAGCA
1 ATATTGGCACCTCACCTTTAAGTC--CA
107353 -TATTGGCACCTCACCTTTAAGTCCA
1 ATATTGGCACCTCACCTTTAAGTCCA
* ** *
107378 ATA-T---AGCTGGCCTTGAA-TCAGCA
1 ATATTGGCACCTCACCTTTAAGTC--CA
107401 -TATTGGCACCTCACCTTTAAGTCCA
1 ATATTGGCACCTCACCTTTAAGTCCA
107426 ATAT
1 ATAT
107430 AGCTGGTCTT
Statistics
Matches: 68, Mismatches: 16, Indels: 32
0.59 0.14 0.28
Matches are distributed among these distances:
21 4 0.06
22 22 0.32
23 6 0.09
25 6 0.09
26 26 0.38
27 4 0.06
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (26 bp):
ATATTGGCACCTCACCTTTAAGTCCA
Found at i:107525 original size:26 final size:26
Alignment explanation
Indices: 107448--107573 Score: 60
Period size: 26 Copynumber: 5.2 Consensus size: 26
107438 TTGAAGCAGC
*
107448 ATATTGGCACCTCACCTTTAAGTCCA
1 ATATTGGCAGCTCACCTTTAAGTCCA
** *
107474 ATA-T---AGCTGGCCTTGAA-T-CA
1 ATATTGGCAGCTCACCTTTAAGTCCA
107494 GCATATTGGCAGCTCACCTTTAAGTCCA
1 --ATATTGGCAGCTCACCTTTAAGTCCA
** *
107522 ATA-T---AGCTGGCCTTGAA-T-CA
1 ATATTGGCAGCTCACCTTTAAGTCCA
*
107542 GTATATTGGCACCTCACCTTTAAGTCCA
1 --ATATTGGCAGCTCACCTTTAAGTCCA
107570 ATAT
1 ATAT
107574 AGTTGGCCTT
Statistics
Matches: 70, Mismatches: 14, Indels: 32
0.60 0.12 0.28
Matches are distributed among these distances:
20 4 0.06
21 2 0.03
22 25 0.36
23 2 0.03
25 2 0.03
26 29 0.41
27 2 0.03
28 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATTGGCAGCTCACCTTTAAGTCCA
Found at i:107535 original size:22 final size:22
Alignment explanation
Indices: 107462--107535 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
107452 TGGCACCTCA
107462 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* **
107484 CCTTGAA-T-CAGCATATTGGCAGCTCA
1 CCTTTAAGTCCA--ATA-T---AGCTGG
107510 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
107532 CCTT
1 CCTT
107536 GAATCAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 17 0.45
23 1 0.03
25 1 0.03
26 13 0.34
27 1 0.03
28 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:107717 original size:26 final size:26
Alignment explanation
Indices: 107592--107717 Score: 60
Period size: 26 Copynumber: 5.2 Consensus size: 26
107582 TTGAATCAGC
107592 ATATTGGCACCTCACCTTTAAGTCCA
1 ATATTGGCACCTCACCTTTAAGTCCA
* ** *
107618 ATA-T---AGCTGGCCTTGAAG--CA
1 ATATTGGCACCTCACCTTTAAGTCCA
107638 TCATATTGGCACCTCACCTTTAAGTCCA
1 --ATATTGGCACCTCACCTTTAAGTCCA
* ** *
107666 ATA-T---AGCTGGCC-TTAAAT-CA
1 ATATTGGCACCTCACCTTTAAGTCCA
107686 GTATATTGGCACCTCACCTTTAAGTCCA
1 --ATATTGGCACCTCACCTTTAAGTCCA
107714 ATAT
1 ATAT
107718 AGCTGGCCTT
Statistics
Matches: 68, Mismatches: 16, Indels: 32
0.59 0.14 0.28
Matches are distributed among these distances:
20 4 0.06
21 5 0.07
22 21 0.31
23 2 0.03
25 2 0.03
26 25 0.37
27 5 0.07
28 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (26 bp):
ATATTGGCACCTCACCTTTAAGTCCA
Found at i:108784 original size:19 final size:18
Alignment explanation
Indices: 108759--108826 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
108749 AATTCAACGA
108759 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
108777 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
108793 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
108809 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
108827 TTAGCTATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:108797 original size:32 final size:32
Alignment explanation
Indices: 108761--108823 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
108751 TTCAACGATT
*
108761 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
108793 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
108824 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:108798 original size:13 final size:13
Alignment explanation
Indices: 108780--108804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108770 ACATAAGTGT
108780 TGTATCGATACAA
1 TGTATCGATACAA
108793 TGTATCGATACA
1 TGTATCGATACA
108805 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:115376 original size:37 final size:37
Alignment explanation
Indices: 115335--115416 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
115325 TGCTACAATC
115335 ATGCATTTGTGACATTCATAACATTTCATTTTGCATA
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATA
*
115372 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATA
115409 ATGCATTT
1 ATGCATTT
115417 ATTCTTCATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATA
Found at i:115852 original size:28 final size:30
Alignment explanation
Indices: 115777--115937 Score: 135
Period size: 28 Copynumber: 5.6 Consensus size: 30
115767 AGACATTCCT
*
115777 CACCTTTCAAAAGCCCACAAGTTGGTGGCA
1 CACCTTTCAAAAGCCCACAAGTTAGTGGCA
* *
115807 CCCCTTTC-AAAGCCCACAAGTCAGTGGCA
1 CACCTTTCAAAAGCCCACAAGTTAGTGGCA
*
115836 -ACC-TTCAAAAGCTCACAAGTTAGTGGCA
1 CACCTTTCAAAAGCCCACAAGTTAGTGGCA
* * ** *
115864 -TCTTTTC-AAAGCCCACAAGGCAGT--AA
1 CACCTTTCAAAAGCCCACAAGTTAGTGGCA
* *
115890 CAGCCTTT-AAAAGCACACAAGTTGGT-GCA
1 CA-CCTTTCAAAAGCCCACAAGTTAGTGGCA
115919 -ACCCTTTCAAAAGCCCACA
1 CA-CCTTTCAAAAGCCCACA
115938 CAAGTTGGTA
Statistics
Matches: 103, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 59 0.57
29 33 0.32
30 7 0.07
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (30 bp):
CACCTTTCAAAAGCCCACAAGTTAGTGGCA
Found at i:115902 original size:56 final size:57
Alignment explanation
Indices: 115778--115937 Score: 180
Period size: 56 Copynumber: 2.8 Consensus size: 57
115768 GACATTCCTC
* * * **
115778 ACCTTTCAAAAGCCCACAAGTTGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTT-AAAAGCACACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGGCAGTAACA
* * * *
115836 ACCTTCAAAAGCTCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGGCAGTAACA
1 ACCTTTAAAAGCACACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGGCAGTAACA
* * *
115892 GCCTTTAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 ACCTTTAAAAGCACACAAGTTAGTGGCACCCCTTTC-AAAGCCCACA
115938 CAAGTTGGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
55 3 0.03
56 48 0.56
57 30 0.35
58 5 0.06
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (57 bp):
ACCTTTAAAAGCACACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGGCAGTAACA
Found at i:116136 original size:52 final size:51
Alignment explanation
Indices: 115966--116665 Score: 484
Period size: 52 Copynumber: 13.9 Consensus size: 51
115956 TTCTAAGTTT
* * * *
115966 AATATCGCTGGTCTTAAATCAGCATATTGGCACC--GTCATCTTCAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
* * * * *
116015 AATGTCGCTAGCCTTGAATCAGCATATTGGCACC--TTCATTTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
*
116064 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTCAAGCCC
* *** *
116116 AATATCGCTGGCCTTAAATCAGCATATTGGCA-CGAGTCATCTTCAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
* * * * * * *
116166 AATGTCGCTAGCCTTGTATCAGCACATTGGCA--TCTTCATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
* ** * * *
116215 GATATCATTGGCCATGAATCAGCATATTGGCATCTTTAACATTCTT-AAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCA-TCTTCAAGCCC
* ** * ** * * * *
116267 AATGTCATTGGCCTCGTCTCCGCACATTGGCA----TTCTTCTTCAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
** * ** *
116314 AATATCGCT-ATCTTGAATTAGCATATTGGCGTCTTTGTCATCTTCAAGCCT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTCAAGCCC
* *
116365 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--GTCATCTTCAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
* * * * * *
116414 AATGTCGCTAGCCTTGAATCAGCACATTGGCATC-TTT-ATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
* * * * * *
116463 GATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCCTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTC-AAGCCC
* * * ** * * * *
116515 AATGTCGTTGGTCTTGTCTCAGCACATTGGCATTCTTTTCATCTTCAAGTCT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCATCTTCAAGCCC
* * * * * ** *
116567 AATGTCGCTGACCGTGAATCAGCACATTGACATTTTTTACATCTTTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTCAAGCCC
*
116619 AATATCACTGGTCC-TGAATCAGCATATTGGCACCTTTATCACTCTTC
1 AATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTT-TCA-TCTTC
116666 TGATCTTCAT
Statistics
Matches: 504, Mismatches: 122, Indels: 46
0.75 0.18 0.07
Matches are distributed among these distances:
46 17 0.03
47 12 0.02
48 1 0.00
49 188 0.37
50 44 0.09
51 30 0.06
52 194 0.38
53 18 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (51 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTCAAGCCC
Found at i:116233 original size:151 final size:150
Alignment explanation
Indices: 115966--116445 Score: 481
Period size: 151 Copynumber: 3.2 Consensus size: 150
115956 TTCTAAGTTT
* *
115966 AATATCGCTGGTCTTAAATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTG
1 AATATCGCTGGCCTTAAATCAGCATATTGGCACAGTCATCTTCAAGACCAATGTCGCTAGCCTTG
* * * *
116031 AATCAGCATATTGGCACCTTCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCG
66 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTGGCCATGAATCAGCATATTGGCG
116096 CCTTTGTCATCTTCAAGCCC
131 CCTTTGTCATCTTCAAGCCC
116116 AATATCGCTGGCCTTAAATCAGCATATTGGCACGAGTCATCTTCAAGACCAATGTCGCTAGCCTT
1 AATATCGCTGGCCTTAAATCAGCATATTGGCAC-AGTCATCTTCAAGACCAATGTCGCTAGCCTT
* * * *
116181 GTATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCATTGGCCATGAATCAGCATATTGGC
65 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTGGCCATGAATCAGCATATTGGC
** **
116246 ATCTTTAACATTCTT-AAGCCC
130 GCCTTTGTCA-TCTTCAAGCCC
* ** **** * * * * * * *
116267 AATGTCATTGGCCTCGTCTCCGCACATTGG--CATTCTTCTTCAAGTCCAATATCGCTA-TCTTG
1 AATATCGCTGGCCTTAAATCAGCATATTGGCACAGTCATCTTCAAGACCAATGTCGCTAGCCTTG
* * * * * * *
116329 AATTAGCATATTGGCGTCTTTGTCATCTTCAAG-CCTAATATCGCTGGCCTTGAATCAGCATATT
66 AATCAGCACATTGGC-AC-CT-TCATCTTTAAGTCC-AATATCACTGGCCATGAATCAGCATATT
* *
116393 GGCACC---GTCATCTTCAAGACC
127 GGCGCCTTTGTCATCTTCAAGCCC
* * * *
116414 AATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 AATATCGCTGGCCTTAAATCAGCATATTGGCA
116446 TCTTTATCTT
Statistics
Matches: 271, Mismatches: 50, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
146 4 0.01
147 46 0.17
148 22 0.08
149 4 0.01
150 71 0.26
151 120 0.44
152 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (150 bp):
AATATCGCTGGCCTTAAATCAGCATATTGGCACAGTCATCTTCAAGACCAATGTCGCTAGCCTTG
AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTGGCCATGAATCAGCATATTGGCG
CCTTTGTCATCTTCAAGCCC
Found at i:116377 original size:98 final size:100
Alignment explanation
Indices: 115982--116451 Score: 357
Period size: 101 Copynumber: 4.7 Consensus size: 100
115972 GCTGGTCTTA
* *
115982 AATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGCA
1 AATCAGCACATTGGCA-CGTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCA
* * * * *
116047 -CCTT--CATTTTTAAGTCCAATATCGCTGGCCTTG
65 TCTTTAACATTCTTAAGCCCAATATCACTGGCCTCG
* * * * *
116080 AATCAGCATATTGGCGCCTTTGTCATCTTCAAGCCCAATATCGCTGGCCTTAAATCAGCATATTG
1 AATCAGCACATTGGC-AC---GTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTG
* * * * * * *
116145 GCA-C--GAGTCA-TCTTCAAGACCAATGTCGCTAGCCTTG
62 GCATCTTTA-ACATTCTT-AAGCCCAATATCACTGGCCTCG
* * * * * ** * *
116182 TATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCATTGGCCATGAATCAGCATATTGGCA
1 AATCAGCACATTGGCA-CGTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCA
* *
116247 TCTTTAACATTCTTAAGCCCAATGTCATTGGCCTCG
65 TCTTTAACATTCTTAAGCCCAATATCACTGGCCTCG
** * * * * * * *
116283 TCTCCGCACATTGGCA-TTCTTCTTCAAGTCCAATATCGCTA-TCTTGAATTAGCATATTGGCGT
1 AATCAGCACATTGGCACGTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCAT
** * * *
116346 CTTTGTCA-TCTTCAAGCCTAATATCGCTGGCCTTG
66 CTTTAACATTCTT-AAGCCCAATATCACTGGCCTCG
* * *
116381 AATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 AATCAGCACATTGGCA-CGTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCA
116446 TCTTTA
65 TCTTTA
116452 TCTTTAAGTC
Statistics
Matches: 295, Mismatches: 60, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
97 4 0.01
98 69 0.23
99 58 0.20
100 22 0.07
101 102 0.35
102 40 0.14
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (100 bp):
AATCAGCACATTGGCACGTCATCTTCAAGACCAATATCGCTAGCCTTGAATCAGCATATTGGCAT
CTTTAACATTCTTAAGCCCAATATCACTGGCCTCG
Found at i:116494 original size:248 final size:251
Alignment explanation
Indices: 116058--116652 Score: 869
Period size: 248 Copynumber: 2.4 Consensus size: 251
116048 CTTCATTTTT
* *
116058 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGCCCAATATCG
1 AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCGTCTTTGTCATCTTCAAGCCCAATATCG
* * *
116123 CTGGCCTTAAATCAGCATATTGGCACGAGTCATCTTCAAGACCAATGTCGCTAGCCTTGTATCAG
66 CTGGCCTTGAATCAGCATATTGGCAC-CGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAG
116188 CACATTGGCATCTTCATCTTTAAGTCCGATATCATTGGCCATGAATCAGCATATTGGCATCTTTA
130 CACATTGGCATCTTCATCTTTAAGTCCGATATCATTGGCCATGAATCAGCATATTGGCATCTTTA
* *
116253 ACATTCTTAAGCCCAATGTCATTGGCCTCGTCTCCGCACATTGGCATTC-T-TCTTC
195 ACATTCCTAAGCCCAATGTCATTGGCCTCGTCTCAGCACATTGGCATTCTTATCTTC
* * *
116308 AAGTCCAATATCGCT-ATCTTGAATTAGCATATTGGCGTCTTTGTCATCTTCAAGCCTAATATCG
1 AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCGTCTTTGTCATCTTCAAGCCCAATATCG
116372 CTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAGC
66 CTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAGC
* *
116437 ACATTGGCATCTTTATCTTTAAGTCCGATAT-AGTTGGCCTTGAATCAGCATATTGGCATCTTTA
131 ACATTGGCATCTTCATCTTTAAGTCCGATATCA-TTGGCCATGAATCAGCATATTGGCATCTTTA
* * *
116501 ACATTCCTAAGCCCAATGTCGTTGGTCTTGTCTCAGCACATTGGCATTCTTTTCATCTTC
195 ACATTCCTAAGCCCAATGTCATTGGCCTCGTCTCAGCACATTGGCATTC--TT-ATCTTC
* * * * * * * *
116561 AAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT-TTTTTACATCTTTAAGCCCAATATC
1 AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCGTCTTTGT-CATCTTCAAGCCCAATATC
*
116625 ACTGGTCC-TGAATCAGCATATTGGCACC
65 GCTGG-CCTTGAATCAGCATATTGGCACC
116653 TTTATCACTC
Statistics
Matches: 309, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
247 1 0.00
248 141 0.46
249 69 0.22
250 15 0.05
251 1 0.00
253 22 0.07
254 58 0.19
255 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (251 bp):
AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCGTCTTTGTCATCTTCAAGCCCAATATCG
CTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGACCAATGTCGCTAGCCTTGAATCAGC
ACATTGGCATCTTCATCTTTAAGTCCGATATCATTGGCCATGAATCAGCATATTGGCATCTTTAA
CATTCCTAAGCCCAATGTCATTGGCCTCGTCTCAGCACATTGGCATTCTTATCTTC
Found at i:116495 original size:49 final size:49
Alignment explanation
Indices: 115966--116658 Score: 480
Period size: 49 Copynumber: 13.8 Consensus size: 49
115956 TTCTAAGTTT
* * * * * *
115966 AATATCGCTGGTCTTAAATCAGCATATTGGCACCGTCATCTTCAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
* * * * * *
116015 AATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTCATTTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
** *
116064 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTCAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATC-TT-T-ATCTTCAAGTCC
* * * *
116116 AATATCGCTGGCCTTAAATCAGCATATTGGCA-CGAGTCATCTTCAAGACC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATC--TTTATCTTCAAGTCC
* * * * * *
116166 AATGTCGCTAGCCTTGTATCAGCACATTGGCATCTTCATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
* ** * * *
116215 GATATCATTGGCCATGAATCAGCATATTGGCATCTTTAACATTCTTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATC-TTC--AAGTCC
* ** * ** * * *
116267 AATGTCATTGGCCTCGTCTCCGCACATTGGCAT-TCT-TCTTCAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
** * *
116314 AATATCGCT-ATCTTGAATTAGCATATTGGCGTCTTTGTCATCTTCAAG-CC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATC-TT-T-ATCTTCAAGTCC
* * * *
116364 TAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGACC
1 -AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
* * * *
116414 AATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTTATCTTTAAGTCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
* * * * *
116463 GATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATC-TT-C-AAGTCC
* * * ** * *
116515 AATGTCGTTGGTCTTGTCTCAGCACATTGGCATTCTTTTCATCTTCAAGTCT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA-TC-TTT-ATCTTCAAGTCC
* * * * * * * *
116567 AATGTCGCTGACCGTGAATCAGCACATTGACATTTTTTACATCTTTAAGCCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTT--ATCTTCAAGTCC
* *
116619 AATATCACTGGTCC-TGAATCAGCATATTGGCACCTTTATC
1 AATATCGCTGG-CCTTGAATCAGCATATTGGCATCTTTATC
116659 ACTCTTCTGA
Statistics
Matches: 503, Mismatches: 117, Indels: 48
0.75 0.18 0.07
Matches are distributed among these distances:
46 14 0.03
47 11 0.02
48 1 0.00
49 204 0.41
50 49 0.10
51 28 0.06
52 184 0.37
53 5 0.01
54 5 0.01
55 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTCAAGTCC
Found at i:117593 original size:9 final size:9
Alignment explanation
Indices: 117581--117605 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
117571 TTGCCATGGT
117581 TACCAAGGC
1 TACCAAGGC
117590 TACCAAGGC
1 TACCAAGGC
117599 TACCAAG
1 TACCAAG
117606 CATTAATTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.32, G:0.20, T:0.12
Consensus pattern (9 bp):
TACCAAGGC
Found at i:122430 original size:24 final size:25
Alignment explanation
Indices: 122369--122433 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
122359 TGAACAGTGG
* * *
122369 TGAACAGTAATGAATAGTGACTATG
1 TGAACAGTAATAAACAGTGACTATA
* *
122394 TAAACAGTTATAAACAGTGA-TATA
1 TGAACAGTAATAAACAGTGACTATA
*
122418 TGAACAGTGATAAACA
1 TGAACAGTAATAAACA
122434 AATGTATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.26
Consensus pattern (25 bp):
TGAACAGTAATAAACAGTGACTATA
Found at i:124364 original size:20 final size:20
Alignment explanation
Indices: 124339--124380 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
124329 ATTCATTTGG
124339 TATCGAAAAATTACAAACTA
1 TATCGAAAAATTACAAACTA
124359 TATCGAAAAATTACAAACTA
1 TATCGAAAAATTACAAACTA
124379 TA
1 TA
124381 CCTTTCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (20 bp):
TATCGAAAAATTACAAACTA
Found at i:126083 original size:20 final size:20
Alignment explanation
Indices: 126058--126159 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
126048 TAACTAGATA
126058 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
126078 TATCGATACATCTGGGTAAAAAGATAGAATG
1 TATCGATACAT-T--G--AAAA-AT-----G
* * * *
126109 TATCGATACGTTCATACATG
1 TATCGATACATTGAAAAATG
126129 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
126149 TATCGATACAT
1 TATCGATACAT
126160 CTGGGTACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
20 39 0.62
21 1 0.02
23 1 0.02
25 6 0.10
26 4 0.06
30 1 0.02
31 11 0.17
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:131128 original size:13 final size:13
Alignment explanation
Indices: 131110--131134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131100 TTATTCAATG
131110 TATCGATACATTA
1 TATCGATACATTA
131123 TATCGATACATT
1 TATCGATACATT
131135 GATCTTTGTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:131132 original size:33 final size:33
Alignment explanation
Indices: 131090--131153 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
131080 CAAAGAAGTG
131090 TATCGATACATT-ATTCAATGTATCGATACATTA
1 TATCGATACATTGA-TCAATGTATCGATACATTA
**
131123 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
131154 CTGAGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTA
Found at i:134959 original size:78 final size:76
Alignment explanation
Indices: 134733--135035 Score: 216
Period size: 78 Copynumber: 3.9 Consensus size: 76
134723 CATGCATCAA
* * **
134733 AGACTCTATATTAATGTAATATTACCTAAATAATCCTAATAGACATGCATCAACATGAAAGTTCT
1 AGACTCAATATTAATGTAATATTACCTAAATAA-CCTAATAGACATACATTGACATGAAAGTTCT
** *
134798 AACATGATTTTAA
65 AACATGA-CCTAT
* * * * *** * * *
134811 AGACT-AGATATTAAAGAAATATTATCTAAATGACCTTAGCGGACATCCATTGACATAAAAGCGT
1 AGACTCA-ATATTAATGTAATATTACCTAAATAACC-TAATAGACATACATTGACATGAAAG-TT
*
134875 C-CACATGACACTAT
63 CTAACATGAC-CTAT
* * * *
134889 ACACTCAATATTAATGTAATATTATCTAAATAACCGTAATAGACAAACATTGATATGAAAGTTCT
1 AGACTCAATATTAATGTAATATTACCTAAATAACC-TAATAGACATACATTGACATGAAAGTTCT
*
134954 TACATGACCT-T
65 AACATGACCTAT
* * * * * ** *
134965 AAGACTCGATATTAATTTAATATTACCCAAATAACCCTAATGGATATGTATTGACATGAAAATTC
1 -AGACTCAATATTAATGTAATATTACCTAAATAA-CCTAATAGACATACATTGACATGAAAGTTC
*
135030 TCACAT
64 TAACAT
135036 TAACTTATTA
Statistics
Matches: 173, Mismatches: 44, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
76 1 0.01
77 60 0.35
78 109 0.63
79 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (76 bp):
AGACTCAATATTAATGTAATATTACCTAAATAACCTAATAGACATACATTGACATGAAAGTTCTA
ACATGACCTAT
Found at i:135168 original size:78 final size:77
Alignment explanation
Indices: 135061--135304 Score: 233
Period size: 78 Copynumber: 3.1 Consensus size: 77
135051 GTACCTAGTG
* * * * * *
135061 GACATGTATCGACACAAAACTTCCGACATGACTCTAAGGACTTGATATTAATGTAATATTACCTA
1 GACATATATCGAGACGAAAGTTCCTACATGACTCTAAAGACTTGATATTAATGTAATATTACCTA
135126 AATAACCTAAATA
66 AATAACCT-AATA
* * * * * *
135139 GACATGTATCGATG-TGAATGTT-CTAACATGACTCTAAAGACTCGATATTAATGTAATAGTATC
1 GACATATATCGA-GACGAAAGTTCCT-ACATGACTCTAAAGACTTGATATTAATGTAATATTACC
*
135202 T-AATGAACCCTAATT
64 TAAAT-AA-CCTAATA
** * * *
135217 GACATATATCGAGACGAAAGTTCCTTTATGACTTTAATGACTTGGTATTAATGTAATATTACCTA
1 GACATATATCGAGACGAAAGTTCCTACATGACTCTAAAGACTTGATATTAATGTAATATTACCTA
* *
135282 AATAAGCTTAATG
66 AATAA-CCTAATA
135295 GACATATATC
1 GACATATATC
135305 AATATAAAAG
Statistics
Matches: 134, Mismatches: 25, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
77 5 0.04
78 121 0.90
79 8 0.06
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (77 bp):
GACATATATCGAGACGAAAGTTCCTACATGACTCTAAAGACTTGATATTAATGTAATATTACCTA
AATAACCTAATA
Found at i:135315 original size:78 final size:79
Alignment explanation
Indices: 135086--135325 Score: 245
Period size: 78 Copynumber: 3.1 Consensus size: 79
135076 AAAACTTCCG
* * *
135086 ACATGACTCTAAGGACTTGATATTAATGTAATATTACCTAAATAACCTAAATAGACATGTATCGA
1 ACATGACTCTAAAGACTTGATATTAATGTAATATTACCTAAATAACCTTAATAGACATATATCGA
* *
135151 TGTGAATGTT-CTA
66 TATGAAAGTTCCTA
* * * * *
135164 ACATGACTCTAAAGACTCGATATTAATGTAATAGTATCT-AATGAACCCTAATTGACATATATCG
1 ACATGACTCTAAAGACTTGATATTAATGTAATATTACCTAAAT-AACCTTAATAGACATATATCG
* *
135228 AGACGAAAGTTCCT-
65 ATATGAAAGTTCCTA
** * * * * * *
135242 TTATGACTTTAATGACTTGGTATTAATGTAATATTACCTAAATAAGCTTAATGGACATATATCAA
1 ACATGACTCTAAAGACTTGATATTAATGTAATATTACCTAAATAACCTTAATAGACATATATCGA
* *
135307 TATAAAAGTT-CTC
66 TATGAAAGTTCCTA
135320 ACATGA
1 ACATGA
135326 TCCTAGAAAC
Statistics
Matches: 129, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
77 5 0.04
78 119 0.92
79 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (79 bp):
ACATGACTCTAAAGACTTGATATTAATGTAATATTACCTAAATAACCTTAATAGACATATATCGA
TATGAAAGTTCCTA
Found at i:135394 original size:156 final size:156
Alignment explanation
Indices: 135088--135371 Score: 378
Period size: 156 Copynumber: 1.8 Consensus size: 156
135078 AACTTCCGAC
* * *
135088 ATGACTCTAAGGACTTGATATTAATGTAATATTACCTAAATAACCTAAATAGACATGTATCGATG
1 ATGACTCTAAGGACTTGATATTAATGTAATATTACCTAAATAACCTAAATAGACATATATCAATA
* * *
135153 TGAATGTTCTAACATGACTCTAAAGACTCGATATTAATGTAATAGTATCTAATGAACCCTAATTG
66 TAAAAGTTCTAACATGACTCTAAAGACTCGATATTAATATAATAGTATCTAATGAACCCTAATTG
135218 ACATATATCGAGACGAAAGTTCCTTT
131 ACATATATCGAGACGAAAGTTCCTTT
* * * * * *
135244 ATGACTTTAATGACTTGGTATTAATGTAATATTACCTAAATAAGCTTAATGGACATATATCAATA
1 ATGACTCTAAGGACTTGATATTAATGTAATATTACCTAAATAACCTAAATAGACATATATCAATA
* *
135309 TAAAAGTTCTCACATGA-TCCTAGAA-ACTTTG-TATTAATATAATA-TCATCTAATGAACCCTA
66 TAAAAGTTCTAACATGACT-CTA-AAGAC-TCGATATTAATATAATAGT-ATCTAATGAACCCTA
135370 AT
127 AT
135372 GTACATGTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
155 2 0.02
156 104 0.95
157 4 0.04
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (156 bp):
ATGACTCTAAGGACTTGATATTAATGTAATATTACCTAAATAACCTAAATAGACATATATCAATA
TAAAAGTTCTAACATGACTCTAAAGACTCGATATTAATATAATAGTATCTAATGAACCCTAATTG
ACATATATCGAGACGAAAGTTCCTTT
Found at i:135556 original size:29 final size:28
Alignment explanation
Indices: 135526--135644 Score: 93
Period size: 29 Copynumber: 4.1 Consensus size: 28
135516 AGATTATTTG
135526 AAATACTCTAAATAACCCTAAAATGTATGA
1 AAATA-TCTAAATAACCCTAAAAT-TATGA
* **
135556 AAATAACTAAATGGTCCCT-AAATTATGAA
1 AAATATCTAAAT-AACCCTAAAATTATG-A
*
135585 AAATAATCT-AATAACCCTAAAATACATGA
1 AAAT-ATCTAAATAACCCTAAAAT-TATGA
*
135614 AAA-ATGCTATATAATCCCT-AAATTATGA
1 AAATAT-CTAAATAA-CCCTAAAATTATGA
135642 AAA
1 AAA
135645 ATAACTTAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.03
28 17 0.24
29 34 0.47
30 19 0.26
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (28 bp):
AAATATCTAAATAACCCTAAAATTATGA
Found at i:135606 original size:58 final size:59
Alignment explanation
Indices: 135526--135648 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 59
135516 AGATTATTTG
* ** **
135526 AAATACTCTAAATAACCCTAAAATGTATG-AAAATAACTAAATGGTCCCTAAATTATGAA
1 AAATAATCTAAATAACCCTAAAATACATGAAAAAT-ACTAAATAATCCCTAAATTATGAA
* *
135585 AAATAATCT-AATAACCCTAAAATACATGAAAAATGCTATATAATCCCTAAATTATGAA
1 AAATAATCTAAATAACCCTAAAATACATGAAAAATACTAAATAATCCCTAAATTATGAA
135643 AAATAA
1 AAATAA
135649 CTTAAATGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
58 43 0.77
59 13 0.23
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.27
Consensus pattern (59 bp):
AAATAATCTAAATAACCCTAAAATACATGAAAAATACTAAATAATCCCTAAATTATGAA
Found at i:139256 original size:20 final size:20
Alignment explanation
Indices: 139231--139268 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
139221 GTATCGATAC
*
139231 AATGTATTGATACATTTCGT
1 AATGTATCGATACATTTCGT
139251 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
139269 CTTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:139320 original size:19 final size:19
Alignment explanation
Indices: 139296--139356 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
139286 AGCGATACAT
139296 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
139315 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
139328 TGTACCGATACAACACTTA
1 TGTATCGATACAACACTTA
139347 TGTATCGATA
1 TGTATCGATA
139357 TAGTGACTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 6 0.18
18 1 0.03
19 18 0.53
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:139329 original size:32 final size:32
Alignment explanation
Indices: 139288--139356 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
139278 AGCTTCGTAG
*
139288 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTACCGATACAACACTTATGTAT
139320 CGATACATTGTACCGATACAACACTTATGTAT
1 CGATACATTGTACCGATACAACACTTATGTAT
139352 CGATA
1 CGATA
139357 TAGTGACTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTACCGATACAACACTTATGTAT
Found at i:142185 original size:15 final size:15
Alignment explanation
Indices: 142161--142190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
142151 GAATTAAATC
*
142161 TAGGATTTAATTAAA
1 TAGGACTTAATTAAA
142176 TAGGACTTAATTAAA
1 TAGGACTTAATTAAA
142191 GAAAAAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (15 bp):
TAGGACTTAATTAAA
Found at i:145383 original size:27 final size:28
Alignment explanation
Indices: 145349--145419 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
145339 GCCACCCATT
145349 TGTTTGTCAAAAATGGTGG-TTATTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
145376 TGTTTGTCAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
145404 -GATTTGTCAAATATGG
1 TG-TTTGTCAAAAATGG
145420 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTTATTTTG
Found at i:149952 original size:27 final size:28
Alignment explanation
Indices: 149918--149988 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
149908 GCCACCCATT
149918 TGTTTGTCAAAAATGGTGG-TTATTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
149945 TGTTTGTCAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
149973 -GATTTGTCAAATATGG
1 TG-TTTGTCAAAAATGG
149989 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTTATTTTG
Found at i:151224 original size:39 final size:40
Alignment explanation
Indices: 151163--151238 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
151153 TTTGTCTTAA
*
151163 TTTTAAAAGAATTATAAGTTTTATTTTA-TTTAAAAATAT
1 TTTTAAAAGAATTATAAGTTTTATTATATTTTAAAAATAT
* * * *
151202 TTTTAAATGATTTATTATTTTTATTATATTTTAAAAA
1 TTTTAAAAGAATTATAAGTTTTATTATATTTTAAAAA
151239 ATTAATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 23 0.74
40 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (40 bp):
TTTTAAAAGAATTATAAGTTTTATTATATTTTAAAAATAT
Found at i:152323 original size:12 final size:12
Alignment explanation
Indices: 152306--152331 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
152296 TTTTAACTAC
152306 ATTTTAATCAAA
1 ATTTTAATCAAA
152318 ATTTTAATCAAA
1 ATTTTAATCAAA
152330 AT
1 AT
152332 AAATTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTTTAATCAAA
Found at i:154446 original size:21 final size:20
Alignment explanation
Indices: 154398--154447 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
154388 ATCTATGTAA
*
154398 AATTATAT-TATTTTTACAT
1 AATTATATATATTTTTAAAT
* *
154417 ACTTTTATATATTTTTAAAT
1 AATTATATATATTTTTAAAT
154437 AATTCATATAT
1 AATT-ATATAT
154448 GTTTAATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 6 0.25
20 13 0.54
21 5 0.21
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTATATATATTTTTAAAT
Found at i:162621 original size:11 final size:12
Alignment explanation
Indices: 162600--162626 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
162590 AGACAAAAGG
162600 AAAAACAAAAAA
1 AAAAACAAAAAA
162612 AAAAACAAAAAA
1 AAAAACAAAAAA
162624 AAA
1 AAA
162627 GTGAAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:168534 original size:12 final size:12
Alignment explanation
Indices: 168519--168562 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
168509 CATTTTCAGT
*
168519 TTTTTTTTTTAA
1 TTTTTTTTTAAA
168531 TTTTTTTTTAAA
1 TTTTTTTTTAAA
168543 TTTTTATCGTTTAAA
1 TTTTT-T--TTTAAA
168558 TTTTT
1 TTTTT
168563 AAATTTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 16 0.57
13 1 0.04
15 11 0.39
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTTTTTAAA
Found at i:169417 original size:20 final size:20
Alignment explanation
Indices: 169394--169436 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
169384 TTACATATAT
169394 ATATATATAAGCAGTAATAA
1 ATATATATAAGCAGTAATAA
169414 ATATATATAAGCAGTAATAA
1 ATATATATAAGCAGTAATAA
169434 ATA
1 ATA
169437 GAGATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
ATATATATAAGCAGTAATAA
Found at i:169676 original size:18 final size:17
Alignment explanation
Indices: 169649--169682 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
169639 AATATAAAAA
169649 TTATTTTTTATTAATAT
1 TTATTTTTTATTAATAT
169666 TTATATTTTTATTAATA
1 TTAT-TTTTTATTAATA
169683 AATTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTTATTAATAT
Found at i:169793 original size:2 final size:2
Alignment explanation
Indices: 169786--169838 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
169776 AGTATTTAAA
169786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
169828 AT AT AT AT AT A
1 AT AT AT AT AT A
169839 GGGAAAAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:174078 original size:32 final size:32
Alignment explanation
Indices: 174042--174114 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
174032 TCGGGACATC
*
174042 ACTTTTTGCATCTTTTGCGCGTGAGAAATATA
1 ACTTTTTGCATCTTTTGCGCATGAGAAATATA
174074 ACTTTTTGCATCTTTTGCGCATGAGAAATATA
1 ACTTTTTGCATCTTTTGCGCATGAGAAATATA
174106 ACTTTTTGC
1 ACTTTTTGC
174115 CAATGTAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (32 bp):
ACTTTTTGCATCTTTTGCGCATGAGAAATATA
Found at i:176757 original size:28 final size:28
Alignment explanation
Indices: 176698--176771 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
176688 ATAAAGCCGG
*** * *
176698 GGTTGGAGTATCCCCTCGGAAGTAACGG
1 GGTTGGAGTATCCCCGATGAAATAACGA
*
176726 GGTTGGAGTATCCCCGATGAAATAATGA
1 GGTTGGAGTATCCCCGATGAAATAACGA
*
176754 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCCCGAT
176772 TGTGAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACGA
Found at i:176824 original size:52 final size:51
Alignment explanation
Indices: 176755--177091 Score: 167
Period size: 52 Copynumber: 6.4 Consensus size: 51
176745 AAATAATGAG
*
176755 GTTGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGGTATTTTTGGAAATAAAATCGGA
** * *
176807 GTTGGAGTATCCCCGATTAAAG-GAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT---GTGAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
176860 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-G-AAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
176911 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTG-AA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
176966 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-A-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
177020 GTTAGAGTATCCCCGATTATAGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTATTTTTGGAAATAAAATCGGA
* *
177071 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
177092 GAGAATTGAT
Statistics
Matches: 218, Mismatches: 37, Indels: 62
0.69 0.12 0.20
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 3 0.01
51 38 0.17
52 78 0.36
53 27 0.12
54 33 0.15
55 20 0.09
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:176951 original size:28 final size:27
Alignment explanation
Indices: 176911--176981 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
176901 TAAAACCGGA
**
176911 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
176939 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
176966 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
176982 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:176994 original size:107 final size:106
Alignment explanation
Indices: 176641--177033 Score: 325
Period size: 107 Copynumber: 3.7 Consensus size: 106
176631 CTTTCGAAAA
* * * * * * * *
176641 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
176706 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * * * *
176748 TAATGAGGTTGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
176813 GTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * *
176850 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
176914 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * *
176959 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
177024 GAGTATCCCC
63 GAGTATCCCC
177034 GATTATAGAA
Statistics
Matches: 216, Mismatches: 52, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 45 0.21
105 19 0.09
106 18 0.08
107 70 0.32
108 32 0.15
109 27 0.12
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (106 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:177047 original size:212 final size:212
Alignment explanation
Indices: 176688--177093 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
176678 TATTTTGGGA
* * * *
176688 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAATG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* * *
176753 AGGTTGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
176818 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
176882 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
176900 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
176964 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * * *
177029 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
177093 A
194 A
177094 GAATTGATAA
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 105 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:177066 original size:51 final size:53
Alignment explanation
Indices: 176970--177088 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
176960 AACGGGGTTG
* * *
176970 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
177024 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
177075 GAATATCCTCGATT
1 GAGTATCCCCGATT
177089 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:179478 original size:13 final size:13
Alignment explanation
Indices: 179460--179485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
179450 ACAAAGATCC
179460 ATGTATCGATACA
1 ATGTATCGATACA
179473 ATGTATCGATACA
1 ATGTATCGATACA
179486 CAGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:179500 original size:33 final size:33
Alignment explanation
Indices: 179439--179505 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
179429 AAAATTTCCA
*** *
179439 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
*
179472 AATGTATCGATACACAGAAAAATATATCGATAC
1 AATGTATCGATACAAAGAAAAATATATCGATAC
179505 A
1 A
179506 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATATATCGATAC
Found at i:179549 original size:19 final size:18
Alignment explanation
Indices: 179525--179592 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
179515 CAGTAGCTAA
179525 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
179544 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
179559 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
179576 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
179593 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:179565 original size:13 final size:13
Alignment explanation
Indices: 179547--179571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179537 ACAATACTTA
179547 TGTATCGATACAT
1 TGTATCGATACAT
179560 TGTATCGATACA
1 TGTATCGATACA
179572 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:179569 original size:32 final size:32
Alignment explanation
Indices: 179528--179590 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
179518 TAGCTAATTA
*
179528 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
179560 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
179591 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:180288 original size:55 final size:54
Alignment explanation
Indices: 180155--180685 Score: 720
Period size: 55 Copynumber: 9.5 Consensus size: 54
180145 TGGGAAGGTT
* * *
180155 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
* *
180209 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA-A
**
180264 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG-AAAA
* * *
180325 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
*
180380 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA-A
**
180435 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG-AAAA
* * *
180496 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
180551 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
*
180606 TGCCACCAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG-AAAA
*
180661 TGCCACCAACTTATGTGGGCTTTGA
1 TGCCACCAACTTGTGTGGGCTTTGA
180686 GGTGTCTACA
Statistics
Matches: 428, Mismatches: 30, Indels: 37
0.86 0.06 0.07
Matches are distributed among these distances:
54 54 0.13
55 267 0.62
56 10 0.02
60 8 0.02
61 83 0.19
62 6 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (54 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
Found at i:180450 original size:171 final size:171
Alignment explanation
Indices: 180155--180683 Score: 903
Period size: 171 Copynumber: 3.1 Consensus size: 171
180145 TGGGAAGGTT
* * *
180155 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG-AAATGCCACCAAC
1 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
*
180219 TTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
66 TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
180284 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
131 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
180325 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
1 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
180390 TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
66 TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
180455 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
131 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
180496 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
1 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
* *
180561 TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTATGTGGG
66 TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGG
**
180625 CTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGAAAAA
130 CTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
* *
180661 TGCCACCAACTTATGTGGGCTTT
1 TGCCACCAACCTGTGTGGGCTTT
180684 GAGGTGTCTA
Statistics
Matches: 347, Mismatches: 10, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
165 46 0.13
170 52 0.15
171 245 0.71
172 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (171 bp):
TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
Found at i:180555 original size:226 final size:221
Alignment explanation
Indices: 180155--180685 Score: 762
Period size: 226 Copynumber: 2.4 Consensus size: 221
180145 TGGGAAGGTT
* *
180155 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATGCCACCAACT
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAATGCCACCAACT
** * ** *
180220 TGTGTGGGCTTTG-AAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
65 TGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC
180284 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTA
130 TTTGAAAAG----AGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTA
*
180349 AAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
191 AAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
180380 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA--TGCCACCAAC
180445 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
64 TTGTGTGGGCTTTGAAAAG-----GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
** * * *
180510 GTGGGCTTT-AAAAG-GTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTT
124 GTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTT
*
180573 TGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
189 TAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
180606 TGCCACCAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG--AAATGCCACCAAC
*
180671 TTATGTGGGCTTTGA
64 TTGTGTGGGCTTTGA
180686 GGTGTCTACA
Statistics
Matches: 279, Mismatches: 17, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
224 4 0.01
225 47 0.17
226 172 0.62
227 4 0.01
228 3 0.01
231 5 0.02
232 44 0.16
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (221 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAATGCCACCAACTT
GTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCT
TTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGG
TGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:183189 original size:2 final size:2
Alignment explanation
Indices: 183182--183208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
183172 TACTAAATGA
183182 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
183209 GAAAAGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:186542 original size:108 final size:108
Alignment explanation
Indices: 186353--186571 Score: 368
Period size: 108 Copynumber: 2.0 Consensus size: 108
186343 TTTAAAAACA
* *
186353 AAACGATATAACATATCATCATAGCTCATAAATGACCCTAGAGGACCAAGTGATGAAGATGGTGG
1 AAACGACATAACATATCATCATAGCACATAAATGACCCTAGAGGACCAAGTGATGAAGATGGTGG
186418 TTGGAATGGTTGAAAGGCATACGAGGATGTTGCTAGCAAAGAT
66 TTGGAATGGTTGAAAGGCATACGAGGATGTTGCTAGCAAAGAT
* * *
186461 AAACGACATAACAT-TCCATCATGGCACATAAATGACCCTAGAGGACCTAGTGATGAAGATGGTT
1 AAACGACATAACATAT-CATCATAGCACATAAATGACCCTAGAGGACCAAGTGATGAAGATGGTG
*
186525 GTTGGAATGGTTGAAAGGCATATGAGGATGTTGCTAGCAAAGAT
65 GTTGGAATGGTTGAAAGGCATACGAGGATGTTGCTAGCAAAGAT
186569 AAA
1 AAA
186572 AAGTGTGCAG
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 1 0.01
108 103 0.99
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (108 bp):
AAACGACATAACATATCATCATAGCACATAAATGACCCTAGAGGACCAAGTGATGAAGATGGTGG
TTGGAATGGTTGAAAGGCATACGAGGATGTTGCTAGCAAAGAT
Found at i:190476 original size:26 final size:28
Alignment explanation
Indices: 190447--190506 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
190437 AAACAACTAT
*
190447 AAATC-CA-ACAATTATGACAGGAAGTA
1 AAATCACACACAATCATGACAGGAAGTA
*
190473 AAATCACACACAATCATGATAGGAAGTA
1 AAATCACACACAATCATGACAGGAAGTA
190501 AAATCA
1 AAATCA
190507 TAAAAATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 23 0.77
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.18
Consensus pattern (28 bp):
AAATCACACACAATCATGACAGGAAGTA
Found at i:191129 original size:176 final size:175
Alignment explanation
Indices: 190827--191173 Score: 471
Period size: 176 Copynumber: 2.0 Consensus size: 175
190817 CATCTCATTA
* *
190827 AAAATTTTTATTCTTAATACGTGTTCCATCACTTAAAATTTTTCTACAAGTTGTTTTGCCACATT
1 AAAATTTTTATTCTTAATACGTGTTCCATCACTTAAAATTTTTCTACAACTTGTTTTGCCACAGT
* * * * ** * * *
190892 CCTACTCGTGTTCTATCTCATCAAATATTTTTGTTTTTGTTATATGTTTCGTCACGTCAAATTTT
66 CCTACTCATCTTCGATCTCATCAAATATTTTTGTTTCTCATAGATGTTCCCTCACGTCAAATTTT
* *
190957 TCTATTTTATTACGTTTTCATCATGTAAGATTTTCCAACAAAATC
131 TCTATTTTATTACGTTTTCATCACGAAAGATTTTCCAACAAAATC
* ** * *
191002 AAAATTTTCTATTCTTAGTACGTGTTCTGTCACTTAAGATTTTTCTGCAACTTGTTTTGCCACAG
1 AAAATTTT-TATTCTTAATACGTGTTCCATCACTTAAAATTTTTCTACAACTTGTTTTGCCACAG
*
191067 TCCTACTCATCTTCGATCTCATCAAATATTTTTG-TTCTCATAGGGTGTTCCCTCACGTCAAATT
65 TCCTACTCATCTTCGATCTCATCAAATATTTTTGTTTCTCATA-GATGTTCCCTCACGTCAAATT
* * *
191131 TTTTTATTTTGTTATGTTTTCATCACGAAAGATTTTCCAACAA
129 TTTCTATTTTATTACGTTTTCATCACGAAAGATTTTCCAACAA
191174 CTTGATCCAT
Statistics
Matches: 148, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
175 13 0.09
176 135 0.91
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (175 bp):
AAAATTTTTATTCTTAATACGTGTTCCATCACTTAAAATTTTTCTACAACTTGTTTTGCCACAGT
CCTACTCATCTTCGATCTCATCAAATATTTTTGTTTCTCATAGATGTTCCCTCACGTCAAATTTT
TCTATTTTATTACGTTTTCATCACGAAAGATTTTCCAACAAAATC
Found at i:191967 original size:18 final size:19
Alignment explanation
Indices: 191930--191972 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
191920 TTATATTTTT
191930 TAATATTTATATTATAATA
1 TAATATTTATATTATAATA
* *
191949 TTATATTTA-ATTTTAATA
1 TAATATTTATATTATAATA
191967 TAATAT
1 TAATAT
191973 AAATTAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATATTTATATTATAATA
Done.