Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold485
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: 999764
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 2 of 8
Found at i:90305 original size:22 final size:22
Alignment explanation
Indices: 90280--90337 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
90270 TTAATTTCAT
90280 AAAAATAATTAATT-AAATATAAA
1 AAAAATAA-TAATTAAAAT-TAAA
90303 AAATTAA-AA-AATTAAAATTAAA
1 AAA--AATAATAATTAAAATTAAA
90325 AAAAATAATAATT
1 AAAAATAATAATT
90338 TCAGATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 15 0.50
23 7 0.23
24 2 0.07
25 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATAATAATTAAAATTAAA
Found at i:90605 original size:18 final size:21
Alignment explanation
Indices: 90588--90629 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
90578 AAAAAATTTA
90588 TTAATTT-TTATTAATTTAAT
1 TTAATTTATTATTAATTTAAT
*
90608 TTAATTTATTATTTATTATAAT
1 TTAATTTATTATTAATT-TAAT
90630 AATAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTAATTTATTATTAATTTAAT
Found at i:90635 original size:28 final size:28
Alignment explanation
Indices: 90582--90635 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
90572 TTAAATAAAA
*
90582 AATTTATTAATTTTTATTAATTTAATTT
1 AATTTATTAATTTTTATTAATATAATTT
90610 AATTTATT-ATTTATTA-TAATAATAAT
1 AATTTATTAATTT-TTATTAAT-ATAAT
90636 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTTATTAATTTTTATTAATATAATTT
Found at i:91936 original size:23 final size:25
Alignment explanation
Indices: 91901--91972 Score: 91
Period size: 23 Copynumber: 3.1 Consensus size: 25
91891 TAATATACAT
*
91901 AAAATTTTAAATTTATTTAA-ATTA
1 AAAATATTAAATTTATTTAATATTA
91925 AAAATATT-AA-TTATTTAATATTA
1 AAAATATTAAATTTATTTAATATTA
*
91948 ACAAT-TTAAATTT-TTTAATATTA
1 AAAATATTAAATTTATTTAATATTA
91971 AA
1 AA
91973 TAAATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 10 0.24
23 23 0.55
24 9 0.21
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTAAATTTATTTAATATTA
Found at i:92067 original size:15 final size:16
Alignment explanation
Indices: 92039--92077 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
92029 TCAAACATTC
92039 AAATATAATAATAAATT
1 AAATA-AATAATAAATT
92056 AAATAAAT-ATAAATT
1 AAATAAATAATAAATT
*
92071 ATATAAA
1 AAATAAA
92078 AATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATAAATAATAAATT
Found at i:92484 original size:15 final size:15
Alignment explanation
Indices: 92438--92487 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
92428 AAATAAAATA
92438 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
* * *
92453 TATTAA-ATTTATTT
1 TTTTAATTTTTATAT
92467 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
92482 TTTTAA
1 TTTTAA
92488 AATGATCGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATTTTTATAT
Found at i:93432 original size:14 final size:15
Alignment explanation
Indices: 93405--93433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93395 ATTCAATTTA
93405 ATTTTAATAAATAAT
1 ATTTTAATAAATAAT
93420 ATTTTAA-AAATAAT
1 ATTTTAATAAATAAT
93434 TATATGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTTAATAAATAAT
Found at i:94710 original size:22 final size:22
Alignment explanation
Indices: 94685--94764 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
94675 GTACAACAAT
94685 TAATTTTTAAAATAAAATATTA
1 TAATTTTTAAAATAAAATATTA
*
94707 TAA---TT-AAAT-TAATATTA
1 TAATTTTTAAAATAAAATATTA
* *
94724 T-ATTTTATATAATAAAA-AATA
1 TAATTTT-TAAAATAAAATATTA
94745 TAATTATTTAAAATAAAATA
1 TAATT-TTTAAAATAAAATA
94765 AAATAAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 17
0.67 0.08 0.26
Matches are distributed among these distances:
16 1 0.02
17 8 0.18
18 4 0.09
19 3 0.07
20 1 0.02
21 7 0.16
22 17 0.39
23 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATTTTTAAAATAAAATATTA
Found at i:95251 original size:17 final size:17
Alignment explanation
Indices: 95230--95276 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
95220 AAATATGTTT
95230 TTTTATTAATAAATAATA
1 TTTTATTAA-AAATAATA
95248 -TTTA-TAAAATTATAATA
1 TTTTATTAAAA--ATAATA
95265 TTTTATTAAAAA
1 TTTTATTAAAAA
95277 ATTTATCCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 11 0.44
18 4 0.16
19 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTATTAAAAATAATA
Found at i:95988 original size:19 final size:19
Alignment explanation
Indices: 95958--96001 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
95948 TTGTGATTAA
95958 AAAT-AAATTTATTT-TTT
1 AAATAAAATTTATTTATTT
95975 AAATAAAATATTATTTATTT
1 AAATAAAAT-TTATTTATTT
*
95995 AAGTAAA
1 AAATAAA
96002 GGGTAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 6 0.26
20 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATAAAATTTATTTATTT
Found at i:96201 original size:24 final size:24
Alignment explanation
Indices: 96132--96202 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
96122 TATCAAATAA
* * *
96132 TTATTTTATTTATTTTATTTTAA-
1 TTATATTATATATATTATTTTAAT
* * **
96155 -TAAATTAAATATATTATAATAAT
1 TTATATTATATATATTATTTTAAT
96178 TTATATTATATATATTATTTTAAT
1 TTATATTATATATATTATTTTAAT
96202 T
1 T
96203 AAATTATTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
22 15 0.43
24 20 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATATTATATATATTATTTTAAT
Found at i:96515 original size:16 final size:17
Alignment explanation
Indices: 96485--96517 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96475 TAATTTATGG
96485 TTAAAAAATTGATTTTT
1 TTAAAAAATTGATTTTT
96502 TTAAAAAATT-ATTTTT
1 TTAAAAAATTGATTTTT
96518 CAAGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAAAAAATTGATTTTT
Found at i:96525 original size:18 final size:18
Alignment explanation
Indices: 96504--96556 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
96494 TGATTTTTTT
96504 AAAAAATTATTTTTCAAGAA
1 AAAAAATTATTTTTC-A-AA
*
96524 AAATAAATTAAATTTTC-AA
1 AAA-AAATT-ATTTTTCAAA
96543 AAAAAATTATTTTT
1 AAAAAATTATTTTT
96557 TATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 5 0.17
20 3 0.10
21 5 0.17
22 6 0.21
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAAATTATTTTTCAAA
Found at i:96563 original size:17 final size:17
Alignment explanation
Indices: 96486--96568 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 17
96476 AATTTATGGT
96486 TAAAAAATTGATTTTTT-
1 TAAAAAATT-ATTTTTTA
*
96503 TAAAAAATTATTTTTCA
1 TAAAAAATTATTTTTTA
*
96520 -AGAAAAATAAATTAAATTTTCA
1 TA-AAAAAT-TATT---TTTT-A
*
96542 AAAAAAATTATTTTTTA
1 TAAAAAATTATTTTTTA
96559 TAAAATAATT
1 TAAAA-AATT
96569 TCCTTCTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
16 7 0.13
17 20 0.38
18 11 0.21
21 6 0.12
22 7 0.13
23 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAAAAATTATTTTTTA
Found at i:96603 original size:4 final size:4
Alignment explanation
Indices: 96586--96615 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
96576 TATTTTACTT
*
96586 TTTC TTTT TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
96616 CCTTCCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:98140 original size:17 final size:16
Alignment explanation
Indices: 98100--98147 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
98090 TTAGATAATG
*
98100 ATATTTATTATATTTT
1 ATATTTATTAAATTTT
*
98116 TTATTTTATTAAATATTT
1 ATA-TTTATTAAAT-TTT
*
98134 ATATTTATGAAATT
1 ATATTTATTAAATT
98148 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 18 0.69
18 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATATTTATTAAATTTT
Found at i:98556 original size:19 final size:20
Alignment explanation
Indices: 98532--98569 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
98522 ATTATTTATT
*
98532 TTTTTTAATAATAA-ATTTC
1 TTTTTTAAAAATAATATTTC
98551 TTTTTTAAAAATAATATTT
1 TTTTTTAAAAATAATATTT
98570 TAGGTGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAAATAATATTTC
Found at i:98947 original size:17 final size:16
Alignment explanation
Indices: 98918--98974 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
98908 AGTTTATATG
98918 TAAATAAATTTTATTT
1 TAAATAAATTTTATTT
*
98934 TAAATAATTATTTATTT
1 TAAATAAAT-TTTATTT
98951 T--A-AAATTTTATTT
1 TAAATAAATTTTATTT
*
98964 AAATATAAATT
1 TAA-ATAAATT
98975 AGGAAGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 7 0.21
14 3 0.09
15 1 0.03
16 9 0.27
17 13 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAATAAATTTTATTT
Found at i:102030 original size:26 final size:24
Alignment explanation
Indices: 101987--102034 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
101977 TAAATTTTAA
101987 TAAATTTAAATAAAATTTAAAATT
1 TAAATTTAAATAAAATTTAAAATT
*
102011 TAAATTATCAAATCAAATTTAAAA
1 TAAATT-T-AAATAAAATTTAAAA
102035 AAATAAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 14 0.67
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATTTAAATAAAATTTAAAATT
Found at i:102165 original size:3 final size:3
Alignment explanation
Indices: 102108--102145 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
102098 CATCGTGCTG
102108 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GTAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T
102146 GATGATGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:102967 original size:25 final size:26
Alignment explanation
Indices: 102928--102979 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
102918 TTTAATAATT
102928 TTTTATTATTATTTAATATAAATATA
1 TTTTATTATTATTTAATATAAATATA
* *
102954 TTTT-TTATTATTTATTATATATATA
1 TTTTATTATTATTTAATATAAATATA
102979 T
1 T
102980 ATTTCATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTATTATTATTTAATATAAATATA
Found at i:102968 original size:29 final size:26
Alignment explanation
Indices: 102921--102983 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
102911 AATATAATTT
102921 AATA-ATTTTTTATTATTATTTAATATA
1 AATATATTTTTTATTATTA-TT-ATATA
102948 AATATATTTTTTATTATTTATTATATA
1 AATATATTTTTTATTA-TTATTATATA
*
102975 TATATATTT
1 AATATATTT
102984 CATCATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 17 0.52
28 13 0.39
29 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
AATATATTTTTTATTATTATTATATA
Found at i:104541 original size:24 final size:24
Alignment explanation
Indices: 104500--104547 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
104490 ATTTTTTTAA
104500 AAATAATATAATTAAATT-TAAAT
1 AAATAATATAATTAAATTATAAAT
* *
104523 AAATAAATATTATTCAATTATAAAT
1 AAAT-AATATAATTAAATTATAAAT
104548 CTAGATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATAATATAATTAAATTATAAAT
Found at i:105303 original size:36 final size:37
Alignment explanation
Indices: 105220--105325 Score: 126
Period size: 36 Copynumber: 2.8 Consensus size: 37
105210 GAAATTAGTA
* *
105220 TTAATAGAAATATAATTTTAATAATTTATTATTATTAT
1 TTAATATAAATAT-ATTTTAATAATATATTATTATTAT
*
105258 TTAACATAAATATGATTTTAAT-ATATATT-TTATTAT
1 TTAATATAAATAT-ATTTTAATAATATATTATTATTAT
* *
105294 TTAATATAAATATATTATTAATTATTTATTAT
1 TTAATATAAATATATT-TTAATAATATATTAT
105326 ATATAAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 3 0.05
36 24 0.41
37 12 0.20
38 20 0.34
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (37 bp):
TTAATATAAATATATTTTAATAATATATTATTATTAT
Found at i:105306 original size:25 final size:27
Alignment explanation
Indices: 105277--105338 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
105267 ATATGATTTT
105277 AATATATATT-TTA-TTATT-TAATATA
1 AATATATATTATTATTTATTAT-ATATA
105302 AATATATTATTAATTATTTATTATATATA
1 AATATA-TATT-ATTATTTATTATATATA
105331 AATATATA
1 AATATATA
105339 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 6 0.19
26 4 0.12
28 5 0.16
29 16 0.50
30 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATATATATTATTATTTATTATATATA
Found at i:105315 original size:17 final size:18
Alignment explanation
Indices: 105252--105312 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
105242 AATTTATTAT
*
105252 TATTATTTAACATAAATA
1 TATTATTTAATATAAATA
* *
105270 TGA-T-TTTAATATATATTT
1 T-ATTATTTAATATA-AATA
105288 TATTATTTAATATAAATA
1 TATTATTTAATATAAATA
105306 TATTATT
1 TATTATT
105313 AATTATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 9 0.26
18 15 0.44
19 10 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TATTATTTAATATAAATA
Found at i:105358 original size:29 final size:28
Alignment explanation
Indices: 105286--105358 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
105276 TAATATATAT
* **
105286 TTTATTATTTAATATAAATATATTATTAA
1 TTTA-TATTTAATATAAATATATAAAAAA
*
105315 -TTATTTATTATATATAAATATATAAAAAAA
1 TTTATAT-TTA-ATATAAATATAT-AAAAAA
105345 TTTATATTTAATAT
1 TTTATATTTAATAT
105359 CTTTAATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
27 2 0.06
28 6 0.17
29 16 0.46
30 6 0.17
31 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTATATTTAATATAAATATATAAAAAA
Found at i:106003 original size:16 final size:16
Alignment explanation
Indices: 105966--106003 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
105956 AACGAGTTAT
105966 AATTTAAGAGCTTGAA
1 AATTTAAGAGCTTGAA
105982 AA-TTAA-AGCTTTGAA
1 AATTTAAGAGC-TTGAA
105997 AATTTAA
1 AATTTAA
106004 TAGCAGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (16 bp):
AATTTAAGAGCTTGAA
Found at i:107029 original size:16 final size:16
Alignment explanation
Indices: 107008--107044 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
106998 TATTTTAAAA
*
107008 AATTAATTAATAATTT
1 AATTAATTAATAATAT
*
107024 AATTAATTTATAATAT
1 AATTAATTAATAATAT
107040 AATTA
1 AATTA
107045 CATAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTAATAATAT
Found at i:107051 original size:13 final size:13
Alignment explanation
Indices: 107033--107057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107023 TAATTAATTT
107033 ATAATATAATTAC
1 ATAATATAATTAC
107046 ATAATATAATTA
1 ATAATATAATTA
107058 AAAATAAACA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATAATTAC
Found at i:107189 original size:62 final size:62
Alignment explanation
Indices: 107112--107235 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
107102 TGAGGTCCAT
*
107112 TTGATAAACAATTGGACCACAAATTAATGCACTTGAAACCCCACAACATGTGCTCAAAACAA
1 TTGATAAACAATTGGACCACAAATTAATGCACTTAAAACCCCACAACATGTGCTCAAAACAA
*
107174 TTGATATACAATTGGACCACAAATTAATGCACTTAAAACCCCACAACATGTGCTCAAAACAA
1 TTGATAAACAATTGGACCACAAATTAATGCACTTAAAACCCCACAACATGTGCTCAAAACAA
107236 CTTGTGCAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (62 bp):
TTGATAAACAATTGGACCACAAATTAATGCACTTAAAACCCCACAACATGTGCTCAAAACAA
Found at i:107330 original size:7 final size:8
Alignment explanation
Indices: 107292--107340 Score: 50
Period size: 7 Copynumber: 6.2 Consensus size: 8
107282 TAATTAATTA
107292 TAATA-TT
1 TAATATTT
107299 TAATAATTT
1 TAAT-ATTT
107308 TAA-ATTT
1 TAATATTT
107315 TAA-ATTT
1 TAATATTT
107322 TAATATTT
1 TAATATTT
*
107330 ATAATCTTT
1 -TAATATTT
107339 TA
1 TA
107341 TCTATTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
7 18 0.49
8 7 0.19
9 12 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
TAATATTT
Found at i:110326 original size:19 final size:21
Alignment explanation
Indices: 110304--110347 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
110294 AAAATATGTA
110304 TTAAATTA-TTTTTTATT-AT
1 TTAAATTATTTTTTTATTAAT
110323 TTAAATTATTTTTTTATTAAT
1 TTAAATTATTTTTTTATTAAT
110344 TTAA
1 TTAA
110348 TTAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 9 0.39
21 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTAAATTATTTTTTTATTAAT
Found at i:110363 original size:21 final size:23
Alignment explanation
Indices: 110339--110389 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
110329 TATTTTTTTA
110339 TTAATTTAATTAAT-AAA-TAAT
1 TTAATTTAATTAATCAAACTAAT
* *
110360 TTAATATAATTTATCAAACTAAT
1 TTAATTTAATTAATCAAACTAAT
*
110383 TAAATTT
1 TTAATTT
110390 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 12 0.50
22 3 0.12
23 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATTTAATTAATCAAACTAAT
Found at i:110607 original size:8 final size:8
Alignment explanation
Indices: 110596--110630 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
110586 ATTTTAAGTC
110596 AAAATTTT
1 AAAATTTT
110604 AAAATTTT
1 AAAATTTT
110612 AAAATTTAT
1 AAAATTT-T
*
110621 TAAATTTT
1 AAAATTTT
110629 AA
1 AA
110631 TTAATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AAAATTTT
Found at i:110638 original size:19 final size:17
Alignment explanation
Indices: 110596--110640 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
110586 ATTTTAAGTC
*
110596 AAAATTT-TAAAATTTT
1 AAAATTTATTAAATTTT
110612 AAAATTTATTAAATTTT
1 AAAATTTATTAAATTTT
110629 AATTAATTTATT
1 AA--AATTTATT
110641 TTAATTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
19 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAATTTATTAAATTTT
Found at i:110745 original size:25 final size:26
Alignment explanation
Indices: 110691--110745 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
110681 ACAAAATTTA
110691 AATTTAAAATAAATAAATATTAAATT
1 AATTTAAAATAAATAAATATTAAATT
* *
110717 -ATTT-AAATCAATTAATA-TAAATAT
1 AATTTAAAATAAATAAATATTAAAT-T
110741 AATTT
1 AATTT
110746 TATTCGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 12 0.48
25 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTTAAAATAAATAAATATTAAATT
Found at i:111282 original size:22 final size:22
Alignment explanation
Indices: 111248--111300 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
111238 CAATATGTAA
* *
111248 ATTAAAAAT-ATTTAATTATTT
1 ATTAAATATAATTTAATTAATT
* **
111269 ATTTAATATAATTTTTTTAATT
1 ATTAAATATAATTTAATTAATT
111291 ATTAAATATA
1 ATTAAATATA
111301 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAAATATAATTTAATTAATT
Found at i:111534 original size:22 final size:22
Alignment explanation
Indices: 111493--111535 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
111483 AATTTTAAAA
*
111493 ATATTTTTATATTGATATTTAT
1 ATATTTTTATATTGAAATTTAT
111515 ATATTTTTATAATT-AAATTTA
1 ATATTTTTAT-ATTGAAATTTA
111536 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATTTTTATATTGAAATTTAT
Found at i:112685 original size:3 final size:3
Alignment explanation
Indices: 112677--112710 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
112667 AAGTTTGACC
112677 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
112711 GCATTAAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:115777 original size:28 final size:28
Alignment explanation
Indices: 115707--115780 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
115697 TATATGTATT
*
115707 TAAAAATTTTTAAAAAAT-TATAAATCA
1 TAAATATTTTTAAAAAATATATAAATCA
*
115734 -ATAATCTTATTT-AAAAATATATTAAAT-A
1 TA-AATATT-TTTAAAAAATATA-TAAATCA
115762 TAAATATTTTTAAAAAATA
1 TAAATATTTTTAAAAAATA
115781 ATCTATCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
26 1 0.03
27 13 0.34
28 18 0.47
29 6 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAATATTTTTAAAAAATATATAAATCA
Found at i:120126 original size:24 final size:25
Alignment explanation
Indices: 120087--120136 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
120077 TTAAAAAATT
120087 TATAATATAAATATAAAATATTTAAA
1 TATAATATAAATATAAAATA-TTAAA
*
120113 TATAAT-T-AATATAAATTATTAAA
1 TATAATATAAATATAAAATATTAAA
120136 T
1 T
120137 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 1 0.04
26 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TATAATATAAATATAAAATATTAAA
Found at i:120160 original size:60 final size:60
Alignment explanation
Indices: 120048--120161 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
120038 AATATTTATA
*
120048 TTAAATATAAAAAATAAATATATAATTTTTTAAAAAATTTATAATATAAATATAAAATAT
1 TTAAATATAAAAAATAAATATATAATTTTTTAAAAAATATATAATATAAATATAAAATAT
*
120108 TTAAATATAATTAATATAAAT-TATTAAATTTTTTAAAAAA-ATA-AATA-AAATATA
1 TTAAATATAA--AAAATAAATATA-T-AATTTTTTAAAAAATATATAATATAAATATA
120162 TTAATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
60 17 0.35
61 6 0.12
62 11 0.23
63 14 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (60 bp):
TTAAATATAAAAAATAAATATATAATTTTTTAAAAAATATATAATATAAATATAAAATAT
Found at i:120165 original size:31 final size:31
Alignment explanation
Indices: 120061--120168 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
120051 AATATAAAAA
*
120061 ATAAATATAT-AATTTTTTAAAAAATTTATAAT
1 ATAAATATATAAATTTTTTAAAAAA-ATA-AAT
* * *
120093 ATAAATATA-AAA-TATTTAAATATAATTAAT
1 ATAAATATATAAATTTTTTAAA-AAAATAAAT
120123 ATAAAT-TATTAAATTTTTTAAAAAAATAAAT
1 ATAAATATA-TAAATTTTTTAAAAAAATAAAT
*
120154 A-AAATATATTAATTT
1 ATAAATATATAAATTT
120169 AATATTTAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 19 0.31
31 21 0.34
32 20 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAAATATATAAATTTTTTAAAAAAATAAAT
Found at i:120275 original size:7 final size:7
Alignment explanation
Indices: 120248--120289 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
120238 AATAATTTTA
*
120248 TAATTAA
1 TAATTAT
120255 TAA-TAT
1 TAATTAT
*
120261 TAA-AAT
1 TAATTAT
120267 TAATTAT
1 TAATTAT
120274 TAATTAT
1 TAATTAT
120281 TAATTAT
1 TAATTAT
120288 TA
1 TA
120290 TTAAATATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TAATTAT
Found at i:120870 original size:19 final size:21
Alignment explanation
Indices: 120832--120876 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
120822 AAAATATGTG
*
120832 TATTTTTATTTTACTAAAA-T
1 TATTTATATTTTACTAAAATT
*
120852 TATTTATATTTT-TTAAAATT
1 TATTTATATTTTACTAAAATT
120872 TATTT
1 TATTT
120877 TGATGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTATATTTTACTAAAATT
Found at i:120889 original size:184 final size:189
Alignment explanation
Indices: 120657--121029 Score: 492
Period size: 184 Copynumber: 2.0 Consensus size: 189
120647 AAATTACATA
* *
120657 TTTATAAAACTATTTATATTTTTTAAAAATTTATTTTTATATTAATTTATA-AAAGATATAATGG
1 TTTATAAAACTATTTATATTTTTTAAAAATTTATTTTGATATTAATTTATACAAAG-TATAATGA
*
120721 TAAAATAATAAAATTTT-A-TTT-TTTTTC-ACT-TTTTTAACTTTATCAAATGAATGAATTTTT
65 TAAAATAATAAAATTTTAATTTTCTTTTTCTACTACTTTTAACTTTATCAAATGAATG-ATTTTT
* * *
120781 TTTTTT-CATTTTGTGATCTTTTCTAACAAGATTATTATAGGAAAATATGTGTATTTTTAT
129 TTTTTTCCATTTTGTGATCTTTCCTAACAAGACTATTATAGGAAAATATATGTATTTTTAT
* * *
120841 TTTACTAAAATTATTTATATTTTTT-AAAATTTATTTTGATGTTAATTTATACAATGTATAATGA
1 TTTA-TAAAACTATTTATATTTTTTAAAAATTTATTTTGATATTAATTTATACAAAGTATAATGA
*
120905 TAAAATAATAAAATTTTAATCTTTTTCTTTTTCTTTCTCACTTTTAACTTTATCAAATGAATGAT
65 TAAAATAATAAAATTTTAA---TTTTCTTTTTC-TACT-ACTTTTAACTTTATCAAATGAATGAT
* * *
120970 TTTTTTTTTTGCCATTTTGTGATCTTTCCTATCAAGCCTATTATATGAAAATATATGTAT
125 TTTTTTTTTT-CCATTTTGTGATCTTTCCTAACAAGACTATTATAGGAAAATATATGTAT
121030 GTGTATATAT
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
184 52 0.32
185 23 0.14
189 3 0.02
190 6 0.04
192 2 0.01
193 12 0.07
194 22 0.14
195 42 0.26
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.52
Consensus pattern (189 bp):
TTTATAAAACTATTTATATTTTTTAAAAATTTATTTTGATATTAATTTATACAAAGTATAATGAT
AAAATAATAAAATTTTAATTTTCTTTTTCTACTACTTTTAACTTTATCAAATGAATGATTTTTTT
TTTTCCATTTTGTGATCTTTCCTAACAAGACTATTATAGGAAAATATATGTATTTTTAT
Found at i:121245 original size:20 final size:22
Alignment explanation
Indices: 121200--121247 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
121190 TTTATTTATA
*
121200 TTTAAT-TATAAATATATAAAT
1 TTTAATATAAAAATATATAAAT
*
121221 ATTAATATAAAAATA-AT-AAT
1 TTTAATATAAAAATATATAAAT
121241 TTTAATA
1 TTTAATA
121248 CTATTTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 7 0.30
22 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAATATAAAAATATATAAAT
Found at i:124131 original size:19 final size:18
Alignment explanation
Indices: 124107--124145 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
124097 TTATTTAAAT
124107 ATTTTTAAATATCAAATTA
1 ATTTTTAAAT-TCAAATTA
*
124126 ATTTTTAAATTTAAATTA
1 ATTTTTAAATTCAAATTA
124144 AT
1 AT
124146 AATTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAATTCAAATTA
Found at i:124145 original size:18 final size:16
Alignment explanation
Indices: 124079--124141 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 16
124069 TCAAATTTAT
124079 TTTTTAAATTT-AATA
1 TTTTTAAATTTAAATA
124094 TTTTT--ATTTAAATA
1 TTTTTAAATTTAAATA
*
124108 TTTTTAAATATCAAATTAA
1 TTTTTAAAT-TTAAA-T-A
124127 TTTTTAAATTTAAAT
1 TTTTTAAATTTAAAT
124142 TAATAATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 4 0.10
14 9 0.22
15 5 0.12
16 2 0.05
17 5 0.12
18 5 0.12
19 10 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAATTTAAATA
Found at i:125852 original size:135 final size:134
Alignment explanation
Indices: 125597--125865 Score: 370
Period size: 136 Copynumber: 2.0 Consensus size: 134
125587 TGGCACTAAA
* *
125597 AAATAATTTTTAAATTAAAAAAAAATTGAGTCAATAAATATTTGCATTTTTATTTATTTATTTAT
1 AAATAATTTTTAAATTAAAAAAAAATTGAGCCAATAAATATTTGCATGTTTATTTATTTATTTAT
* *
125662 GAAATATGTTTTTAAAAATATGGAAAAATATGTGAATATATATTTTTTTATTTCATGATGACTT-
66 GAAATATGTTTTAAAAAATATGGAAAAATATGTGAACATATATTTTTTTATTTCATGATGACTTA
125726 TTTT
131 TTTT
* *
125730 AAATATATTTTTAAA-T-AAAAAAATTTGAGCCAATAAATATTTGTATGTTTATTTATTACTTAT
1 AAATA-ATTTTTAAATTAAAAAAAAATTGAGCCAATAAATATTTGCATGTTTATTTA-T--TTAT
*
125793 TTATGAAACTTAT-TTTTAAAAAATATTGAAAAATATGTGAACATATCA-TTTTTTA-TTCATGA
62 TTATGAAA--TATGTTTTAAAAAATATGGAAAAATATGTGAACATAT-ATTTTTTTATTTCATGA
125855 TGACTTATTTT
124 TGACTTATTTT
125866 TATATTATAT
Statistics
Matches: 121, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
132 35 0.29
133 7 0.06
134 9 0.07
135 25 0.21
136 41 0.34
137 4 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (134 bp):
AAATAATTTTTAAATTAAAAAAAAATTGAGCCAATAAATATTTGCATGTTTATTTATTTATTTAT
GAAATATGTTTTAAAAAATATGGAAAAATATGTGAACATATATTTTTTTATTTCATGATGACTTA
TTTT
Found at i:126131 original size:17 final size:17
Alignment explanation
Indices: 126095--126140 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
126085 AGTTTTAATA
126095 TAATTT-TTAAAAAAAAT
1 TAATTTATT-AAAAAAAT
*
126112 TAATTTATTAAAAAATT
1 TAATTTATTAAAAAAAT
*
126129 TAATTAATTAAA
1 TAATTTATTAAA
126141 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTATTAAAAAAAT
Found at i:126307 original size:21 final size:20
Alignment explanation
Indices: 126267--126309 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
126257 ACATTATAAT
*
126267 TAAAAAATAAATTTTTTATA
1 TAAAAAATAAATTTTATATA
126287 TAAATAAATTAAA-TTTATATA
1 TAAA-AAA-TAAATTTTATATA
126308 TA
1 TA
126310 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAAATAAATTTTATATA
Found at i:126686 original size:60 final size:62
Alignment explanation
Indices: 126622--126769 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 62
126612 ATTTTTTATT
* *
126622 TAATATTTTAAATAAATTGA-ATGTAAATAAATTTAAAATTTAAATTATTAT-TTATAATA-ATA
1 TAATATTTTAAATAAATTGATAT-TAAATAAATTT-AAA-TAAAATTATTATATTATTATATA-A
126684 A
62 A
*
126685 TAATATTATT-AAT--ATTGATATTAATTAAATTTAAATAAAATTATTATATTATTATATAAA
1 TAATATT-TTAAATAAATTGATATTAAATAAATTTAAATAAAATTATTATATTATTATATAAA
* *
126745 TAATAATTTAAATTAAATTTATATT
1 TAATATTTTAAA-TAAATTGATATT
126770 TAAAATAATT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
59 13 0.18
60 20 0.28
61 17 0.24
62 2 0.03
63 18 0.25
64 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (62 bp):
TAATATTTTAAATAAATTGATATTAAATAAATTTAAATAAAATTATTATATTATTATATAAA
Found at i:127660 original size:12 final size:12
Alignment explanation
Indices: 127638--127683 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
127628 TATAATATCA
127638 TATTCATATTATT
1 TATT-ATATTATT
127651 TATTATATTATT
1 TATTATATTATT
127663 TA-T-TATTATT
1 TATTATATTATT
*
127673 TTTTATATTAT
1 TATTATATTAT
127684 AACATATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.27
11 2 0.07
12 16 0.53
13 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATATTATT
Found at i:127691 original size:22 final size:23
Alignment explanation
Indices: 127642--127691 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
127632 ATATCATATT
*
127642 CATATTATTTATTATATTATTTA
1 CATATTATTTATTATATTATTAA
* *
127665 -TTATTATTTTTTATATTA-TAA
1 CATATTATTTATTATATTATTAA
127686 CATATT
1 CATATT
127692 TCAATTCATC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
CATATTATTTATTATATTATTAA
Found at i:128270 original size:16 final size:16
Alignment explanation
Indices: 128241--128294 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
128231 TTATATAATT
*
128241 TTTATATCACATTATAA
1 TTTA-ATCATATTATAA
*
128258 TTTAATCATATTATAT
1 TTTAATCATATTATAA
*
128274 TTTAATTACTATTATAA
1 TTTAATCA-TATTATAA
128291 TTTA
1 TTTA
128295 CATAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATCATATTATAA
Found at i:128692 original size:15 final size:15
Alignment explanation
Indices: 128674--128704 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
128664 TTTTATTTTG
*
128674 TAATTTATTTTTATT
1 TAATTTATTTTAATT
128689 TAATTTATTTTAATT
1 TAATTTATTTTAATT
128704 T
1 T
128705 TAAATACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TAATTTATTTTAATT
Found at i:128789 original size:26 final size:26
Alignment explanation
Indices: 128760--128813 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
128750 AATTATTAAA
* *
128760 TATATATTAA-AATAATAATTTTAATT
1 TATATAATAATAATAATAA-ATTAATT
*
128786 TATATAATAATAATATTAAATTAATT
1 TATATAATAATAATAATAAATTAATT
128812 TA
1 TA
128814 AAATTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATAATAATAATAATAAATTAATT
Found at i:130961 original size:28 final size:26
Alignment explanation
Indices: 130904--130962 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
130894 AAATAAAATA
*
130904 ATTTTATTATTTTCAAATTTTTTAAC
1 ATTTTATTATTTTAAAATTTTTTAAC
*
130930 -TTTTATTATTTTAAACAATTTTTTGAC
1 ATTTTATTATTTT-AA-AATTTTTTAAC
130957 ATTTTA
1 ATTTTA
130963 ATCCTCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.43
26 1 0.04
27 10 0.36
28 5 0.18
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTTATTATTTTAAAATTTTTTAAC
Found at i:131701 original size:20 final size:21
Alignment explanation
Indices: 131656--131702 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
131646 TGCTTTTGGA
*
131656 TAATTTACATTTTAAATTATT
1 TAATTTACATTTAAAATTATT
*
131677 AAATTTAACA-TTAAAATT-TT
1 TAATTT-ACATTTAAAATTATT
131697 TAATTT
1 TAATTT
131703 TATCAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 12 0.55
22 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTACATTTAAAATTATT
Found at i:143237 original size:35 final size:35
Alignment explanation
Indices: 143191--143261 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
143181 AGATTCCCCT
143191 ACAGTGCTCTATTTAGGACTATATCCATGTTCTTA
1 ACAGTGCTCTATTTAGGACTATATCCATGTTCTTA
143226 ACAGTGCTCTATTTAGGACTATATCCATGTTCTTA
1 ACAGTGCTCTATTTAGGACTATATCCATGTTCTTA
143261 A
1 A
143262 ACAATGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (35 bp):
ACAGTGCTCTATTTAGGACTATATCCATGTTCTTA
Found at i:146445 original size:26 final size:22
Alignment explanation
Indices: 146392--146448 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 22
146382 TAATATTAAA
*
146392 TAAATAAAATATTTTTAATTTT
1 TAAATAAAATATTTTTAATATT
*
146414 TTAATAAAATATATAATTTAATAATT
1 TAAATAAAATAT-T--TTTAAT-ATT
146440 TAAATAAAA
1 TAAATAAAA
146449 ATTAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 11 0.39
23 1 0.04
25 6 0.21
26 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATAAAATATTTTTAATATT
Found at i:146449 original size:27 final size:26
Alignment explanation
Indices: 146381--146450 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
146371 CATTATAAAT
* *
146381 ATAATATTAAATAAATAAAATATTTTTA
1 ATAAT-TTAAATAAA-AATATATATTTA
* *
146409 AT-TTTTTAAT-AAAATATATAATTTA
1 ATAATTTAAATAAAAATATAT-ATTTA
146434 ATAATTTAAATAAAAAT
1 ATAATTTAAATAAAAAT
146451 TAAAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
24 6 0.18
25 8 0.24
26 11 0.33
27 6 0.18
28 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATTTAAATAAAAATATATATTTA
Found at i:146619 original size:23 final size:23
Alignment explanation
Indices: 146592--146636 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
146582 TTTATATAAT
146592 ATTAAATATTTTAAA-AAAATTTC
1 ATTAAAT-TTTTAAACAAAATTTC
*
146615 ATTAACTTTTTAAACAAAATTT
1 ATTAAATTTTTAAACAAAATTT
146637 TTTAGAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATTTTTAAACAAAATTTC
Found at i:146825 original size:3 final size:3
Alignment explanation
Indices: 146817--146868 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
146807 AAACCTCACG
* * *
146817 ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ACA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
146865 ATA A
1 ATA A
146869 ATTCAATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:153753 original size:26 final size:25
Alignment explanation
Indices: 153716--153768 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
153706 AAATATTAAA
*
153716 TATTTATTTTTTGAAAATATTTTTTT
1 TATTTATTTTTT-AAAATAATTTTTT
*
153742 TATTT-TTATTTTAATATAATTTTTT
1 TATTTATT-TTTTAAAATAATTTTTT
153767 TA
1 TA
153769 ACTTGATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TATTTATTTTTTAAAATAATTTTTT
Found at i:154151 original size:12 final size:12
Alignment explanation
Indices: 154105--154152 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
154095 TAATTTGAAA
154105 TAAAAAAATTTT
1 TAAAAAAATTTT
*
154117 AAAATTAAAATTATT
1 TAAA--AAAATT-TT
*
154132 TAATAAAATTTT
1 TAAAAAAATTTT
154144 TAAAAAAAT
1 TAAAAAAAT
154153 AATTATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 13 0.45
13 6 0.21
14 6 0.21
15 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAAAAATTTT
Found at i:155044 original size:2 final size:2
Alignment explanation
Indices: 155037--155100 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
155027 TAATAAATTA
* * * * **
155037 AT AT AT AT AT AT AT AT AC AT AT AC AT AT AC AT AT AC AT GC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
155079 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
155101 GTGTATGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:155829 original size:375 final size:375
Alignment explanation
Indices: 155129--156090 Score: 1331
Period size: 374 Copynumber: 2.6 Consensus size: 375
155119 GTTTGAAAGA
155129 TGATGC-AGAAGTTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTCAGATAAATATTG
1 TGATGCAAGAAGTTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTCAGATAAATATTG
* * ** *
155193 TTATTAATCTTTATA-AAAAATATGAATTTAATCCACTACAATTATTTTAATTTTTTTTATTTTT
66 TTATTAATCCTTATATAAAAATATGAATTTAATCTACTACAATTATTTTAA-AATTTTTATTCTT
** * * * * *
155257 ATACTTTTTAAACTTTGAAATAATATATTAAAATAATTAAATTTAAAAAAAAAATATAGTGAAAA
130 ATAC-TTTTAAACTTCAAAATAATATAGTAAAAAAATTAAATTT--AAAAGAATTATAATGAAAA
* * * * *
155322 TGACAATAGAATTTATCCAAATTTATATTTGTGATGGTATTAATATATAATTGTCCATCATCCTT
192 TGACAATA-AAATTATCCAAATTTATATTTATGATGATATTAAAATATAATTGTCCACCATCCTT
* * *
155387 GTTAAATTTTTTTCTCTATTTAATTTTTTTGAATTTTAAAAATAAAATTTATTCCTTTTATTATA
256 GGTAAATTTTTTTCTCTATTTAATTTTTTTGAATTTAAAAAATAAAATTTATTACTTTTATTATA
* *
155452 TTATTTAGAAATTTTTGATAAATTAATAATGATGTAATTTTTCCGTTAAAAACAT
321 TTATTTAGAAATTTTTGATAAATTAATAATAATGTAATTTTTCCATTAAAAACAT
* * * *
155507 TGATGCAAGAAGTTGATTTATGGATATGAAAAGTTTTGCTAATAAATTTTTTCAGATAAATATTA
1 TGATGCAAGAAGTTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTCAGATAAATATTG
* * *
155572 TTACTAGTCCTTATATAAAAATATGAATTTAATCTACTACAATTATTCATAAAATTTTTATTCTT
66 TTATTAATCCTTATATAAAAATATGAATTTAATCTACTACAATTATT-TTAAAATTTTTATTCTT
155637 ATACTTTTAAACTTCAAAATAATATAGTAAAAAAATTAAATTTAAAAGAATTATAATGAAAATGA
130 ATACTTTTAAACTTCAAAATAATATAGTAAAAAAATTAAATTTAAAAGAATTATAATGAAAATGA
* * *** *
155702 AAATAAAATT-TCTAAATTTATATTTATGATGATATTAAAATATAATTGTTTGCCATTCTTGGTA
195 CAATAAAATTATCCAAATTTATATTTATGATGATATTAAAATATAATTGTCCACCATCCTTGGTA
* *
155766 AATTTTTTTCTTTATTTAATTTTTTTGAATTTAAAAAATAAAATTTATTATTTTTATTATATTAT
260 AATTTTTTTCTCTATTTAATTTTTTTGAATTTAAAAAATAAAATTTATTACTTTTATTATATTAT
* * * * * *
155831 TTATAAATTTTTGGTAAATTAATAATAATTTTATTTTTTCATTAAAAATAT
325 TTAGAAATTTTTGATAAATTAATAATAATGTAATTTTTCCATTAAAAACAT
* * * *
155882 TGATGCATA-CA-TTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTTAAATAAATATC
1 TGATGCA-AGAAGTTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTCAGATAAATATT
*
155945 GTTATTAATCCTTGTATAAAAATATGAATTTAATCTACTACAATTATTTTAAAATTTTTTATTCT
65 GTTATTAATCCTTATATAAAAATATGAATTTAATCTACTACAATTATTTTAAAA-TTTTTATTCT
* * * * *
156010 TATATTTTTCAACTTCAAAATAATATAGTAAATAAATTAAATCTAAAAGTATTATAATGAAAATG
129 TATACTTTTAAACTTCAAAATAATATAGTAAAAAAATTAAATTTAAAAGAATTATAATGAAAATG
*
156075 ACAATATAATTATCCA
194 ACAATAAAATTATCCA
156091 TCATTCTTGT
Statistics
Matches: 515, Mismatches: 63, Indels: 15
0.87 0.11 0.03
Matches are distributed among these distances:
373 5 0.01
374 169 0.33
375 159 0.31
376 5 0.01
377 23 0.04
378 6 0.01
379 101 0.20
380 44 0.09
381 3 0.01
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (375 bp):
TGATGCAAGAAGTTGATTTATTGATGTGAGAAGTTTTGCTAATAAATTTTTTCAGATAAATATTG
TTATTAATCCTTATATAAAAATATGAATTTAATCTACTACAATTATTTTAAAATTTTTATTCTTA
TACTTTTAAACTTCAAAATAATATAGTAAAAAAATTAAATTTAAAAGAATTATAATGAAAATGAC
AATAAAATTATCCAAATTTATATTTATGATGATATTAAAATATAATTGTCCACCATCCTTGGTAA
ATTTTTTTCTCTATTTAATTTTTTTGAATTTAAAAAATAAAATTTATTACTTTTATTATATTATT
TAGAAATTTTTGATAAATTAATAATAATGTAATTTTTCCATTAAAAACAT
Found at i:157208 original size:19 final size:19
Alignment explanation
Indices: 157186--157226 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
157176 TGATTTTGTA
* * *
157186 TTTTTATTTTTATTAATTT
1 TTTTTAATTTGATGAATTT
157205 TTTTTAATTTGATGAATTT
1 TTTTTAATTTGATGAATTT
157224 TTT
1 TTT
157227 ATACTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTAATTTGATGAATTT
Found at i:157275 original size:25 final size:27
Alignment explanation
Indices: 157246--157297 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
157236 TTTAATAAAA
157246 TATAA-AAAATTCATTA-TAA-AAATTT
1 TATAATAAAATT-ATTATTAATAAATTT
*
157271 TATAATTAAATTATTATTAATAAATTT
1 TATAATAAAATTATTATTAATAAATTT
157298 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 9 0.39
26 8 0.35
27 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TATAATAAAATTATTATTAATAAATTT
Found at i:157294 original size:14 final size:13
Alignment explanation
Indices: 157246--157296 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
157236 TTTAATAAAA
*
157246 TATAAAAAATTCAT
1 TATAATAAATT-AT
157260 TATAA-AAATT-T
1 TATAATAAATTAT
157271 TATAATTAAATTAT
1 TATAA-TAAATTAT
157285 TATTAATAAATT
1 TA-TAATAAATT
157297 TATATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.18
13 10 0.30
14 14 0.42
15 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
TATAATAAATTAT
Found at i:161350 original size:11 final size:11
Alignment explanation
Indices: 161334--161372 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
161324 TTTGTAAAAA
161334 TGAAATAGAAT
1 TGAAATAGAAT
161345 TGAAATAGAAT
1 TGAAATAGAAT
161356 TGAAATAGAA-
1 TGAAATAGAAT
161366 TGAAATA
1 TGAAATA
161373 ATTGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (11 bp):
TGAAATAGAAT
Found at i:164942 original size:2 final size:2
Alignment explanation
Indices: 164935--164990 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
164925 CACAATAAAA
* * * *
164935 AT AT AT AT AT AT AT AT AC AC AC AC 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
164977 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
164991 TAGATAGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:166902 original size:205 final size:206
Alignment explanation
Indices: 166368--166968 Score: 781
Period size: 205 Copynumber: 2.9 Consensus size: 206
166358 ATATTAGTGG
* *
166368 AGGGATTTATTGAAAATTGAGGGCGTGAAGGATTTGTTATGAAAAAAAGGAATCTTAAGTACTTT
1 AGGGATTTATTGGAAATTGAGGGTGTG-AGGATTTGTTATGAAAAAAAGGAATCTTAAGTACTTT
* ** * * *
166433 AGTTTGAAGCTTTTTGGTTCCTGTATCTTTTGGTTTGCTATAGCCTGTCGCACTTTGTTGATGAA
65 AGTTTGAAG-TTTTTAGTTCCTGTATCTTCAGGTTTGCTGTAGCCTGTTGGACTTTGTTGATGAA
* * * *
166498 TCAAGTTTTTAGGGTTCAGTTTG-----T-CTTTTGGATCAGGCTAGGTTTAAATCATACTTAGT
129 TTAGGTTTTTAGGGTTCAGTTTGCTCATTGCTTTTGGATCAGGCTAGCTTTAAATCATACTTAAT
166557 TGCTCATTTCATC
194 TGCTCATTTCATC
* * * *
166570 AGGGGTTTATT-GAACATTGAGGGTGTGAAGGATTTGTTAT-AAAAATAAGGATTTTTAAGTTCT
1 AGGGATTTATTGGAA-ATTGAGGGTGTG-AGGATTTGTTATGAAAAA-AAGGAATCTTAAGTACT
* *
166633 TTAGTTTGAAGTTTTTAGTTCCTATATTTTCAGGTTTGCTGTAGCCTGTTGGACTTTGTTGATGA
63 TTAGTTTGAAGTTTTTAGTTCCTGTATCTTCAGGTTTGCTGTAGCCTGTTGGACTTTGTTGATGA
* *
166698 ATTAGGTTTTTAGGGTTCAGTTTGCTCATTGCCTTTTGGATCAGGCTAGCTTTAAGTCATATTTA
128 ATTAGGTTTTTAGGGTTCAGTTTGCTCATTG-CTTTTGGATCAGGCTAGCTTTAAATCATACTTA
*
166763 ATTGCTCATTTCATT
192 ATTGCTCATTTCATC
*
166778 AGGGATTTATTGGAAATTGAGGGTGTG-GAATTTGTTATGAAAAAAA-GAATCTTAAGTACTTTA
1 AGGGATTTATTGGAAATTGAGGGTGTGAGGATTTGTTATGAAAAAAAGGAATCTTAAGTACTTTA
* * * *
166841 ATTTGAAGATTTTAGTTCCTGTATGTTCAGATTTGCTGTAGCCTGTTGGACTTTGTTGATGAATT
66 GTTTGAAGTTTTTAGTTCCTGTATCTTCAGGTTTGCTGTAGCCTGTTGGACTTTGTTGATGAATT
* * * * *
166906 AGTTTTTTGGGGTTCAGTTTTGCTCATTGTCTTTTGGATTAGGCTAGGTTTGAATCATACTTA
131 AGGTTTTTAGGGTTCAG-TTTGCTCATTG-CTTTTGGATCAGGCTAGCTTTAAATCATACTTA
166969 GTTGTTGTTG
Statistics
Matches: 348, Mismatches: 39, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
201 75 0.22
202 59 0.17
205 89 0.26
206 52 0.15
207 5 0.01
208 65 0.19
209 3 0.01
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.43
Consensus pattern (206 bp):
AGGGATTTATTGGAAATTGAGGGTGTGAGGATTTGTTATGAAAAAAAGGAATCTTAAGTACTTTA
GTTTGAAGTTTTTAGTTCCTGTATCTTCAGGTTTGCTGTAGCCTGTTGGACTTTGTTGATGAATT
AGGTTTTTAGGGTTCAGTTTGCTCATTGCTTTTGGATCAGGCTAGCTTTAAATCATACTTAATTG
CTCATTTCATC
Found at i:168722 original size:42 final size:42
Alignment explanation
Indices: 168673--168756 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
168663 ATCTGAAAGC
168673 AAGGATGATTTGACACCCAATGACCAGGTTAGAAGAATCTTT
1 AAGGATGATTTGACACCCAATGACCAGGTTAGAAGAATCTTT
* *
168715 AAGGATGATTTGATACCCAATGAGCAGGTTAGAAGAATCTTT
1 AAGGATGATTTGACACCCAATGACCAGGTTAGAAGAATCTTT
168757 CTTCTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGGATGATTTGACACCCAATGACCAGGTTAGAAGAATCTTT
Found at i:177155 original size:20 final size:20
Alignment explanation
Indices: 177130--177197 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
177120 CAAAATTATT
177130 AATTATTATATTTAATATAA
1 AATTATTATATTTAATATAA
*
177150 AATTATTACATTTAATATAA
1 AATTATTATATTTAATATAA
177170 AATTATTATTATTATAA-AT-A
1 AATTATTA-TATT-TAATATAA
177190 AATTATTA
1 AATTATTA
177198 ACTAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 36 0.82
21 5 0.11
22 3 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTATTATATTTAATATAA
Found at i:181305 original size:11 final size:12
Alignment explanation
Indices: 181276--181308 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
181266 ATATCGTATC
181276 ATATTTTATATT
1 ATATTTTATATT
181288 ATATTTTA-ATT
1 ATATTTTATATT
*
181299 ATTTTTTATA
1 ATATTTTATA
181309 ATCATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTTTATATT
Found at i:182107 original size:17 final size:17
Alignment explanation
Indices: 182085--182117 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
182075 GTATTTACAC
*
182085 CCCTGGTTTGGCTCTTT
1 CCCTGGTTTCGCTCTTT
182102 CCCTGGTTTCGCTCTT
1 CCCTGGTTTCGCTCTT
182118 AAAGATGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.21, T:0.45
Consensus pattern (17 bp):
CCCTGGTTTCGCTCTTT
Found at i:184373 original size:2 final size:2
Alignment explanation
Indices: 184366--184411 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
184356 TTAGGTTTAC
184366 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
184408 AT AT
1 AT AT
184412 GTTTGATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185603 original size:20 final size:19
Alignment explanation
Indices: 185578--185633 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
185568 TCATTCTTAA
185578 TATATTTATTTATTAAAATC
1 TATATTTATTTA-TAAAATC
185598 TATATTTATTTATAAAAT-
1 TATATTTATTTATAAAATC
*
185616 TA-ATTTGTTATATAAAAT
1 TATATTTATT-TATAAAAT
185634 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 6 0.18
20 12 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TATATTTATTTATAAAATC
Found at i:185631 original size:18 final size:18
Alignment explanation
Indices: 185581--185639 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
185571 TTCTTAATAT
185581 ATTTATT-TATTAAAATCTA
1 ATTTATTATA-TAAAAT-TA
185600 TATTTATT-TATAAAATTA
1 -ATTTATTATATAAAATTA
*
185618 ATTTGTTATATAAAATTA
1 ATTTATTATATAAAATTA
185636 ATTT
1 ATTT
185640 TTAAATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 6 0.16
18 16 0.43
19 6 0.16
20 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTATTATATAAAATTA
Found at i:186037 original size:16 final size:17
Alignment explanation
Indices: 186004--186043 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
185994 ATAATATTTT
186004 TATGATTTAATGTATATA
1 TATG-TTTAATGTATATA
186022 TATGTTTAAT-TATATA
1 TATGTTTAATGTATATA
186038 T-TGTTT
1 TATGTTT
186044 TTTGTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 6 0.27
18 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (17 bp):
TATGTTTAATGTATATA
Found at i:186561 original size:21 final size:22
Alignment explanation
Indices: 186535--186577 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
186525 TAAAGCTTAT
186535 GATATAATTTAC-TTTTGATAA
1 GATATAATTTACTTTTTGATAA
186556 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
186578 ATTACTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (22 bp):
GATATAATTTACTTTTTGATAA
Found at i:187277 original size:10 final size:11
Alignment explanation
Indices: 187252--187303 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
187242 AAAAATTTAA
*
187252 ATTTTTATAAT
1 ATTTTTATTAT
187263 ATTTTTATTAT
1 ATTTTTATTAT
*
187274 -TTTTTATTAA
1 ATTTTTATTAT
** *
187284 ATTCATATAAT
1 ATTTTTATTAT
187295 ATTTTTATT
1 ATTTTTATT
187304 TTTCAAAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTTATTAT
Found at i:189996 original size:2 final size:2
Alignment explanation
Indices: 189979--190023 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
189969 GTGTATATGG
* *
189979 AT AT AC AT AA 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
190021 AT A
1 AT A
190024 ACTTCATCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:190292 original size:13 final size:13
Alignment explanation
Indices: 190276--190309 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
190266 AAATATTTAA
190276 TAAATTTAAGATT
1 TAAATTTAAGATT
*
190289 TAAAATTTAATATT
1 T-AAATTTAAGATT
190303 TAAATTT
1 TAAATTT
190310 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAAATTTAAGATT
Found at i:190296 original size:14 final size:14
Alignment explanation
Indices: 190277--190306 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
190267 AATATTTAAT
190277 AAATTTAAGATTTA
1 AAATTTAAGATTTA
*
190291 AAATTTAATATTTA
1 AAATTTAAGATTTA
190305 AA
1 AA
190307 TTTTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
AAATTTAAGATTTA
Found at i:194005 original size:29 final size:29
Alignment explanation
Indices: 193950--194083 Score: 96
Period size: 30 Copynumber: 4.4 Consensus size: 29
193940 TAAAAAGGGT
*
193950 AAAAGATATTTATTTTTTAAAGTTTTATAA
1 AAAATATATTTATTTTTTAAAGTTTTA-AA
* *
193980 AAAATATATTTATTTTTTGATG-TTTAAA
1 AAAATATATTTATTTTTTAAAGTTTTAAA
* *
194008 AAATATTTATTTATTTTTTTAACG-TTT-AA
1 AAA-ATATATTTA-TTTTTTAAAGTTTTAAA
* *
194037 AAAATACTTACTTATCTTCTT-AAGTTTTGATAAA
1 AAAATA--TATTTAT-TTTTTAAAG-TTT--TAAA
194071 AAAATATATTTAT
1 AAAATATATTTAT
194084 CCCCTTAAGC
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
28 7 0.08
29 20 0.24
30 39 0.47
31 2 0.02
32 6 0.07
33 1 0.01
34 8 0.10
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (29 bp):
AAAATATATTTATTTTTTAAAGTTTTAAA
Found at i:194253 original size:16 final size:16
Alignment explanation
Indices: 194232--194276 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
194222 AAACTATTTT
*
194232 AATTATTGTTAAATTA
1 AATTATTATTAAATTA
194248 AATTATTATTAAATTA
1 AATTATTATTAAATTA
* *
194264 TATTATAATTAAA
1 AATTATTATTAAA
194277 ATACATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AATTATTATTAAATTA
Found at i:194379 original size:22 final size:20
Alignment explanation
Indices: 194345--194386 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
194335 AATTTATTAA
194345 AATATTTTCATTTTAAATAATT
1 AATATTTTCA-TTTAAA-AATT
194367 AATATTATT-ATTTAAAAATT
1 AATATT-TTCATTTAAAAATT
194387 TAGTGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 7 0.37
23 2 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTTCATTTAAAAATT
Found at i:194887 original size:14 final size:15
Alignment explanation
Indices: 194853--194890 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
194843 ATAGTAATTC
194853 AAAAAAATATTGTAG
1 AAAAAAATATTGTAG
**
194868 TTAAAAATATT-TAG
1 AAAAAAATATTGTAG
194882 AAAAAAATA
1 AAAAAAATA
194891 AAAGAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAAAAATATTGTAG
Found at i:199002 original size:13 final size:12
Alignment explanation
Indices: 198941--198997 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
198931 TATTTAGATT
*
198941 ATTATATTTTAA
1 ATTATATATTAA
*
198953 ATT-TATATAAA
1 ATTATATATTAA
*
198964 ATTATATATCAA
1 ATTATATATTAA
*
198976 ATATAAATATTAA
1 AT-TATATATTAA
198989 A-TATATATT
1 ATTATATATT
198998 TTAAAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
11 16 0.43
12 12 0.32
13 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATATATTAA
Found at i:199720 original size:28 final size:28
Alignment explanation
Indices: 199666--199720 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
199656 TATAGTACTC
*
199666 TAATTATATTAAAAATATCTAATATTTT
1 TAATTATATTAAAAATATATAATATTTT
199694 TAATTAT-TTAAATAATAATATAA-ATTT
1 TAATTATATTAAA-AAT-ATATAATATTT
199721 AATTGATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 14 0.58
29 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
TAATTATATTAAAAATATATAATATTTT
Found at i:199768 original size:16 final size:16
Alignment explanation
Indices: 199749--199783 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
199739 ATTAAAAATC
*
199749 TATTTCAAATTTAATT
1 TATTTCAAATTGAATT
*
199765 TATTTTAAATTGAATT
1 TATTTCAAATTGAATT
199781 TAT
1 TAT
199784 CAAGTCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
TATTTCAAATTGAATT
Found at i:200773 original size:14 final size:14
Alignment explanation
Indices: 200750--200779 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
200740 ATAAATAAAT
200750 AAATTCAAAAAAAA
1 AAATTCAAAAAAAA
*
200764 AAATTGAAAAAAAA
1 AAATTCAAAAAAAA
200778 AA
1 AA
200780 GAAAGAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (14 bp):
AAATTCAAAAAAAA
Found at i:201445 original size:29 final size:28
Alignment explanation
Indices: 201413--201518 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 28
201403 TTTTTATATT
201413 TTTATACTT-AAATAAATTTTAATCTTTAA
1 TTTATA-TTCAAATAAATTTTAAT-TTTAA
* *
201442 TTTATATTCAAATAAAATTTATTTATTTTTTA
1 TTTATATTCAAAT-AAA--T-TTTAATTTTAA
*
201474 TTTATATTCAAATAAATATTTATATTGTAA
1 TTTATATTCAAATAAAT-TTTA-ATTTTAA
*
201504 TTTATATTTAAATAA
1 TTTATATTCAAATAA
201519 GCTTTTAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
28 2 0.03
29 16 0.25
30 21 0.32
31 3 0.05
32 18 0.28
33 5 0.08
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.54
Consensus pattern (28 bp):
TTTATATTCAAATAAATTTTAATTTTAA
Found at i:201509 original size:30 final size:30
Alignment explanation
Indices: 201413--201518 Score: 112
Period size: 32 Copynumber: 3.5 Consensus size: 30
201403 TTTTTATATT
201413 TTTATACTT-AAATAAAT-TTTA-ATCTTTAA
1 TTTATA-TTCAAATAAATATTTATAT-TTTAA
*
201442 TTTATATTCAAATAAA-ATTTATTTATTTTTTA
1 TTTATATTCAAATAAATATTTA--TA-TTTTAA
*
201474 TTTATATTCAAATAAATATTTATATTGTAA
1 TTTATATTCAAATAAATATTTATATTTTAA
*
201504 TTTATATTTAAATAA
1 TTTATATTCAAATAA
201519 GCTTTTAACA
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
28 2 0.03
29 17 0.26
30 18 0.27
31 2 0.03
32 21 0.32
33 6 0.09
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTATATTCAAATAAATATTTATATTTTAA
Found at i:202008 original size:21 final size:21
Alignment explanation
Indices: 201966--202004 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
201956 ATTAAATTAA
201966 ATTTAAATATAATATTTTATT
1 ATTTAAATATAATATTTTATT
201987 ATTTAAAT-TAAT-TTTTAT
1 ATTTAAATATAATATTTTAT
202005 ATTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTAAATATAATATTTTATT
Found at i:202011 original size:32 final size:31
Alignment explanation
Indices: 201923--202011 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 31
201913 GGATAATCAG
*
201923 ATTAAATT-ATTTATTCATTTTAATAACTTTTTT
1 ATTAAATTAATTT-TT-ATATTAAT-ACTTTTTT
* *
201956 ATTAAATTAA-ATTTAAATATAATA-TTTTATT
1 ATTAAATTAATTTTTATAT-TAATACTTTT-TT
201987 ATTTAAATTAATTTTTATATTAATA
1 A-TTAAATTAATTTTTATATTAATA
202012 AAAAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
30 4 0.09
31 6 0.13
32 20 0.43
33 15 0.33
34 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTAAATTAATTTTTATATTAATACTTTTTT
Found at i:202063 original size:23 final size:22
Alignment explanation
Indices: 202031--202073 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
202021 ATATTTTTAT
*
202031 TTAATTTTAATTATAAAAATATA
1 TTAATATTAA-TATAAAAATATA
202054 TTAATATTAATATAAAAATA
1 TTAATATTAATATAAAAATA
202074 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAATATTAATATAAAAATATA
Found at i:202385 original size:21 final size:19
Alignment explanation
Indices: 202350--202406 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
202340 AATTAATGTA
202350 ATATAAATTATTAATGTATTT
1 ATATAAATTA-TAATGT-TTT
*
202371 ATATAAATATATAATATTTT
1 ATATAAAT-TATAATGTTTT
*
202391 AAATATAATTATAATG
1 ATATA-AATTATAATG
202407 CATAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.42
21 16 0.52
22 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATAAATTATAATGTTTT
Found at i:202403 original size:20 final size:21
Alignment explanation
Indices: 202349--202405 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
202339 AAATTAATGT
*
202349 AATATAAATTATTAATGTATTTA
1 AATAT-AATTA-TAATATATTTA
*
202372 TATA-AATATATAATAT-TTTA
1 AATATAAT-TATAATATATTTA
202392 AATATAATTATAAT
1 AATATAATTATAAT
202406 GCATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 13 0.45
21 11 0.38
22 2 0.07
23 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATATAATTATAATATATTTA
Found at i:202737 original size:15 final size:15
Alignment explanation
Indices: 202717--202749 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
202707 TTACTAATAT
202717 TTATATAAAATTTA-A
1 TTATAT-AAATTTAGA
202732 TTATATAAATTTAGA
1 TTATATAAATTTAGA
202747 TTA
1 TTA
202750 AAAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTATATAAATTTAGA
Found at i:202754 original size:13 final size:13
Alignment explanation
Indices: 202720--202761 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
202710 CTAATATTTA
202720 TATAAAATTTAAT
1 TATAAAATTTAAT
202733 TATATAAATTTAGAT
1 TATA-AAATTTA-AT
202748 TA-AAAATTATAAT
1 TATAAAATT-TAAT
202761 T
1 T
202762 TGTAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.46
14 10 0.38
15 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TATAAAATTTAAT
Found at i:203762 original size:19 final size:19
Alignment explanation
Indices: 203738--203777 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
203728 AATTAAAAAT
203738 AATTAATAATT-ATTTATAA
1 AATTAA-AATTAATTTATAA
*
203757 AATTAAAATTAATTTTTAA
1 AATTAAAATTAATTTATAA
203776 AA
1 AA
203778 ACTTTAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAAAATTAATTTATAA
Found at i:213286 original size:41 final size:41
Alignment explanation
Indices: 213241--213323 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
213231 TGGTTTAATG
* *
213241 TGACACCAATTATAATACAATTGGTCTATATAGAAGTAGAA
1 TGACACCAATTATAATACAATAGGTCTATAAAGAAGTAGAA
* *
213282 TGACACCAATTATAATACAGTAGGTTTATAAAGAAGTAGAA
1 TGACACCAATTATAATACAATAGGTCTATAAAGAAGTAGAA
213323 T
1 T
213324 CATGCATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (41 bp):
TGACACCAATTATAATACAATAGGTCTATAAAGAAGTAGAA
Found at i:215469 original size:20 final size:21
Alignment explanation
Indices: 215434--215472 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
215424 TAATTCCATT
*
215434 TTAAAAGTTCAACAAAAAAAA
1 TTAAAAGTTAAACAAAAAAAA
215455 TTAAAA-TTAAACAAAAAA
1 TTAAAAGTTAAACAAAAAA
215473 GGAAACAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (21 bp):
TTAAAAGTTAAACAAAAAAAA
Found at i:216170 original size:14 final size:15
Alignment explanation
Indices: 216138--216167 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
216128 TACTGCATTT
*
216138 ATTAAGAATAAAAAA
1 ATTAAAAATAAAAAA
216153 ATTAAAAATAAAAAA
1 ATTAAAAATAAAAAA
216168 TTATTTATAT
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:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
ATTAAAAATAAAAAA
Found at i:217009 original size:18 final size:18
Alignment explanation
Indices: 216975--217024 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
216965 TAATTTGATA
*
216975 GTAATT-AAAGATAATTTT
1 GTAATTAAAAAAT-ATTTT
216993 GTAATTAAAAAATATTTT
1 GTAATTAAAAAATATTTT
* *
217011 G-AGTAAAAAAATAT
1 GTAATTAAAAAATAT
217025 AAAAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
GTAATTAAAAAATATTTT
Found at i:217205 original size:21 final size:21
Alignment explanation
Indices: 217179--217220 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
217169 ATTCATAGAG
217179 TTATAATACTTTTTA-AAAAAA
1 TTATAATA-TTTTTACAAAAAA
217200 TTATAATATTTTTACAAAAAA
1 TTATAATATTTTTACAAAAAA
217221 GTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATAATATTTTTACAAAAAA
Found at i:217928 original size:15 final size:16
Alignment explanation
Indices: 217908--217946 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
217898 TAAATAAGTA
*
217908 ATTTATTTATAT-AAG
1 ATTTATTAATATAAAG
217923 ATTTATTAATATAAAG
1 ATTTATTAATATAAAG
217939 A-TTATTAA
1 ATTTATTAA
217947 ACTGTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTTATTAATATAAAG
Found at i:218355 original size:23 final size:23
Alignment explanation
Indices: 218324--218379 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
218314 TAAATATTTA
218324 TTTTAATAATTTA-TTAATTATT
1 TTTTAATAATTTAGTTAATTATT
* *
218346 TGTTTAATAA-GTAGTTATTTATT
1 T-TTTAATAATTTAGTTAATTATT
218369 TTTTAA-AATTT
1 TTTTAATAATTT
218380 TGATATATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.07
22 9 0.32
23 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTAATAATTTAGTTAATTATT
Found at i:219009 original size:42 final size:42
Alignment explanation
Indices: 218951--219033 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
218941 ATTTTTTTAT
*
218951 TTTTAT-TTTTTAAAAAATATCTTAATTTAAAAAAATAATTCA
1 TTTTATCTTTTAAAAAAATATCTTAA-TTAAAAAAATAATTCA
218993 TTTTATCTTTTAAAAAAATATCTTAATTAAAAAAATAATTC
1 TTTTATCTTTTAAAAAAATATCTTAATTAAAAAAATAATTC
219034 TTACTTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 21 0.54
43 18 0.46
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (42 bp):
TTTTATCTTTTAAAAAAATATCTTAATTAAAAAAATAATTCA
Found at i:219016 original size:15 final size:16
Alignment explanation
Indices: 218996--219029 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
218986 TAATTCATTT
218996 TATCTT-TTAAAAAAA
1 TATCTTATTAAAAAAA
219011 TATCTTAATTAAAAAAA
1 TATCTT-ATTAAAAAAA
219028 TA
1 TA
219030 ATTCTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TATCTTATTAAAAAAA
Found at i:219134 original size:21 final size:20
Alignment explanation
Indices: 219110--219149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
219100 TTTAAATTAA
*
219110 ATTTAAAATTTTATATTTATT
1 ATTTAAAATATTAT-TTTATT
219131 ATTTAAAATATTATTTTAT
1 ATTTAAAATATTATTTTAT
219150 GTTAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTAAAATATTATTTTATT
Found at i:220148 original size:14 final size:14
Alignment explanation
Indices: 220120--220152 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
220110 ATATTAAGTT
220120 AAAAAAAAAGTTTA
1 AAAAAAAAAGTTTA
220134 AGAAAAAAAAG-TTA
1 A-AAAAAAAAGTTTA
220148 AAAAA
1 AAAAA
220153 TGTTAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAAAAAGTTTA
Found at i:220207 original size:18 final size:18
Alignment explanation
Indices: 220184--220220 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
220174 TAAGGTTTTT
220184 TTAATTATATAATATATA
1 TTAATTATATAATATATA
* *
220202 TTAATTTTATAATTTATA
1 TTAATTATATAATATATA
220220 T
1 T
220221 CATGTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTATATAATATATA
Found at i:223083 original size:2 final size:2
Alignment explanation
Indices: 223076--223115 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
223066 TCTAATATGA
* *
223076 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
223116 TTAAAGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Done.