Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold156
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: 2697547
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 11 of 14
Found at i:2109061 original size:6 final size:6
Alignment explanation
Indices: 2109050--2109098 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
2109040 GAATCAAATT
2109050 AATTTA AATTTA AA--TA AATTTA AATTTCA AA-TTA AA--TA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
2109094 AATTT
1 AATTT
2109099 TTTTAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 8 0.21
5 3 0.08
6 24 0.63
7 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:2109069 original size:16 final size:16
Alignment explanation
Indices: 2109045--2109096 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
2109035 ATTCAGAATC
*
2109045 AAATTAATTTAAATTT
1 AAATAAATTTAAATTT
2109061 AAATAAATTTAAATTT
1 AAATAAATTTAAATTT
2109077 CAAATTAAA--TAAATTT
1 -AAA-TAAATTTAAATTT
2109093 AAAT
1 AAAT
2109097 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 22 0.67
17 3 0.09
18 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAAATTTAAATTT
Found at i:2109076 original size:22 final size:22
Alignment explanation
Indices: 2109050--2109098 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
2109040 GAATCAAATT
2109050 AATTT-AAATTTAAATAAATTTA
1 AATTTCAAA-TTAAATAAATTTA
2109072 AATTTCAAATTAAATAAATTTA
1 AATTTCAAATTAAATAAATTTA
2109094 AATTT
1 AATTT
2109099 TTTTAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTCAAATTAAATAAATTTA
Found at i:2109339 original size:2 final size:2
Alignment explanation
Indices: 2109274--2109325 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2109264 CTTGCAATTT
2109274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2109316 TA TA TA TA TA
1 TA TA TA TA TA
2109326 AAAGAAGGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2118074 original size:2 final size:2
Alignment explanation
Indices: 2118067--2118093 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2118057 GTTGCTTCAA
2118067 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
2118094 ATCAAGGGGA
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:2118507 original size:21 final size:21
Alignment explanation
Indices: 2118482--2118522 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2118472 AAATTAAAAA
2118482 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
2118503 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
2118523 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:2119145 original size:9 final size:9
Alignment explanation
Indices: 2119117--2119147 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2119107 TATGCATATT
2119117 ATATTAAAA
1 ATATTAAAA
*
2119126 AAATTAAAA
1 ATATTAAAA
2119135 ATATTAAAA
1 ATATTAAAA
2119144 ATAT
1 ATAT
2119148 GATACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATATTAAAA
Found at i:2119762 original size:25 final size:26
Alignment explanation
Indices: 2119713--2119769 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
2119703 TTTATTTGGT
*
2119713 TAAATTATAATTTAAATTAATAT-AA
1 TAAATTATAATTTAAATTAAGATAAA
2119738 TAAATTGAT-ATTT-AATTAAAGATAAA
1 TAAATT-ATAATTTAAATT-AAGATAAA
2119764 TAAATT
1 TAAATT
2119770 TATGTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAATTATAATTTAAATTAAGATAAA
Found at i:2120535 original size:17 final size:17
Alignment explanation
Indices: 2120518--2120551 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2120508 AATAAAAATA
2120518 TAAAATTATTAAATATAT
1 TAAAATT-TTAAATATAT
*
2120536 TTAAATTTTAAATATA
1 TAAAATTTTAAATATA
2120552 AATATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTTTAAATATAT
Found at i:2120576 original size:24 final size:23
Alignment explanation
Indices: 2120527--2120576 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
2120517 ATAAAATTAT
* * *
2120527 TAAATATATTTAAATTTTAAATA
1 TAAATATATATAAATTATAAACA
*
2120550 TAAATATAATATAAATTATATACA
1 TAAATAT-ATATAAATTATAAACA
2120574 TAA
1 TAA
2120577 TATGTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATATATATAAATTATAAACA
Found at i:2121641 original size:21 final size:21
Alignment explanation
Indices: 2121606--2121650 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2121596 AAAATTTTTT
2121606 AAAAAAATTAGATAAAAAATTAA
1 AAAAAAATTA-AT-AAAAATTAA
*
2121629 AAAAAAATT-ATAAATATTAA
1 AAAAAAATTAATAAAAATTAA
2121649 AA
1 AA
2121651 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
23 9 0.43
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAAATTAATAAAAATTAA
Found at i:2122761 original size:21 final size:21
Alignment explanation
Indices: 2122721--2122775 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 21
2122711 TGAATGGGAG
2122721 AATTTATATATATATTATAAT
1 AATTTATATATATATTATAAT
*
2122742 AATTTTTA-ATATA-T-TAAT
1 AATTTATATATATATTATAAT
2122760 AATTTATAT-TATATTA
1 AATTTATATATATATTA
2122776 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 5 0.17
21 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTATATATATATTATAAT
Found at i:2122959 original size:2 final size:2
Alignment explanation
Indices: 2122952--2122984 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2122942 AATTTTATTT
2122952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2122985 GAAAGGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2126835 original size:2 final size:2
Alignment explanation
Indices: 2126828--2126859 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2126818 TCCACTGAAT
2126828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2126860 CACACACTTT
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):
TA
Found at i:2127884 original size:27 final size:27
Alignment explanation
Indices: 2127832--2127884 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
2127822 TAGTTACAGA
* *
2127832 TAAATAATTTATATATTAATTTTTTTT
1 TAAATAATTTATATATGAATTATTTTT
*
2127859 TAAAT-ATTATATATATGCATTATTTT
1 TAAATAATT-TATATATGAATTATTTT
2127885 CATAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TAAATAATTTATATATGAATTATTTTT
Found at i:2128761 original size:2 final size:2
Alignment explanation
Indices: 2128750--2128791 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
2128740 CTTGGTTGAT
2128750 TA TA -A TA TA TA TA TA TA TA T- TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2128789 TA T
1 TA T
2128792 GTATTCCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2128773 original size:20 final size:20
Alignment explanation
Indices: 2128748--2128789 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2128738 TTCTTGGTTG
2128748 ATTATAATATATATATATAT
1 ATTATAATATATATATATAT
2128768 ATTATAATATATATATATAT
1 ATTATAATATATATATATAT
2128788 AT
1 AT
2128790 ATGTATTCCA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATAATATATATATATAT
Found at i:2134112 original size:38 final size:37
Alignment explanation
Indices: 2134065--2134161 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
2134055 TGAGTTAAAA
*
2134065 TATTTTATTTTGAAAAAAAAAATATCTTGA-AGTAATTT
1 TATTATATTTTGAAAAAAAAAATAT-TTGATA-TAATTT
* * *
2134103 TATTATATTTTG-AAAATAAAATATTTTATTATATTTT
1 TATTATATTTTGAAAAAAAAAATATTTGA-TATAATTT
*
2134140 TAATATTATTTTGAAAAAAAAA
1 TATTA-TATTTTGAAAAAAAAA
2134162 TTGTTTACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
36 3 0.06
37 20 0.41
38 19 0.39
39 7 0.14
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (37 bp):
TATTATATTTTGAAAAAAAAAATATTTGATATAATTT
Found at i:2134162 original size:38 final size:38
Alignment explanation
Indices: 2134069--2134162 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 38
2134059 TTAAAATATT
*
2134069 TTATTTTGAAAAAAAAAATATCTTGAAGTAATTTTATTA
1 TTATTTTG-AAAAAAAAATATCTTGAAGTAATTTTAATA
* * *
2134108 -TATTTTGAAAATAAAATAT-TTTATTA-TATTTTTAATA
1 TTATTTTGAAAAAAAAATATCTTGA--AGTAATTTTAATA
2134145 TTATTTTGAAAAAAAAAT
1 TTATTTTGAAAAAAAAAT
2134163 TGTTTACCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
36 3 0.06
37 20 0.43
38 24 0.51
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (38 bp):
TTATTTTGAAAAAAAAATATCTTGAAGTAATTTTAATA
Found at i:2135502 original size:2 final size:2
Alignment explanation
Indices: 2135495--2135524 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2135485 AAATAAATAA
2135495 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
2135525 CTAAATTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2137275 original size:15 final size:15
Alignment explanation
Indices: 2137248--2137289 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2137238 ATTTTAAAAA
2137248 TATATTTTT-TTATT
1 TATATTTTTGTTATT
2137262 TA-ATTTTTAGTTATT
1 TATATTTTT-GTTATT
2137277 TATATTTTTGTTA
1 TATATTTTTGTTA
2137290 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 2 0.08
15 11 0.44
16 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TATATTTTTGTTATT
Found at i:2137410 original size:22 final size:22
Alignment explanation
Indices: 2137366--2137408 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2137356 ATTTATATAG
2137366 TATAAATTAGATAATATAAAAA
1 TATAAATTAGATAATATAAAAA
* *
2137388 TATATATTATATAAT-TAAAAA
1 TATAAATTAGATAATATAAAAA
2137409 ATGTGTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TATAAATTAGATAATATAAAAA
Found at i:2140341 original size:75 final size:72
Alignment explanation
Indices: 2140181--2140353 Score: 224
Period size: 75 Copynumber: 2.4 Consensus size: 72
2140171 GTCAAAAATC
* * * * *
2140181 AATGTTCCATGATTTCAGG-AAAACATAAAATAATGGTACATTAGTCCATTCCTGTCAAAAAACC
1 AATGTTGCATAATTTCAGGAAAAAGATAAAACAATGATACATTAGTCCATTCCTGTCAAAAAACC
*
2140245 ACTTTGA
66 ACTTGGA
*
2140252 AATGTTGCATAATTTCAGGGAAAAAGATAAAACGATGATACATTAGTCCATTCCT-TCAAAAAAA
1 AATGTTGCATAATTTCA-GGAAAAAGATAAAACAATGATACATTAGTCCATTCCTGTC---AAAA
2140316 AACCACTTGGA
62 AACCACTTGGA
*
2140327 AATGTTGCATAATTTCAGGACAAAGAT
1 AATGTTGCATAATTTCAGGAAAAAGAT
2140354 TGTTTGGGCC
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
71 15 0.17
72 4 0.04
73 30 0.34
74 9 0.10
75 31 0.35
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (72 bp):
AATGTTGCATAATTTCAGGAAAAAGATAAAACAATGATACATTAGTCCATTCCTGTCAAAAAACC
ACTTGGA
Found at i:2142846 original size:14 final size:14
Alignment explanation
Indices: 2142819--2142857 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2142809 CATTTAAGTA
* *
2142819 ATATATATATATAT
1 ATATAAATACATAT
2142833 ATATAAATACATAT
1 ATATAAATACATAT
*
2142847 ACATAAATACA
1 ATATAAATACA
2142858 CAAAGTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATACATAT
Found at i:2145898 original size:45 final size:44
Alignment explanation
Indices: 2145805--2145934 Score: 154
Period size: 45 Copynumber: 2.8 Consensus size: 44
2145795 GCGACAAACA
* *
2145805 TTTCAACTTTTATCATATTTTGAAAAAAAAATAATAAATAAAATTATGGG
1 TTTCACCTTTTATCATATTTTG-----AAAA-AATAAATAAAACTATGGG
2145855 TTTCACCTTTTATCATATTTTGGAAAAAATAAATAAAACTATGGG
1 TTTCACCTTTTATCATATTTT-GAAAAAATAAATAAAACTATGGG
* *
2145900 TTTCACATTTTATCATGTTTT-AAAAAATAAATAAA
1 TTTCACCTTTTATCATATTTTGAAAAAATAAATAAA
2145935 TAAAATTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
43 14 0.19
45 36 0.48
46 4 0.05
50 20 0.27
51 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (44 bp):
TTTCACCTTTTATCATATTTTGAAAAAATAAATAAAACTATGGG
Found at i:2146284 original size:22 final size:22
Alignment explanation
Indices: 2146239--2146283 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
2146229 GAAAGATAAC
*
2146239 TTAAAAATAATTTTTTAATTTT
1 TTAAAAATAATTTATTAATTTT
2146261 TTAAAAATAA-TTATTAATTTT
1 TTAAAAATAATTTATTAATTTT
2146282 TT
1 TT
2146284 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAAAAATAATTTATTAATTTT
Found at i:2147715 original size:2 final size:2
Alignment explanation
Indices: 2147708--2147745 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2147698 AAGTACTTGA
2147708 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
2147746 GTCAACTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2148459 original size:19 final size:18
Alignment explanation
Indices: 2148437--2148475 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2148427 CTTTTTTTAA
2148437 AAAAAATTAATTTTTATTT
1 AAAAAATTAATTTTT-TTT
* *
2148456 AAAAATTTTATTTTTTTT
1 AAAAAATTAATTTTTTTT
2148474 AA
1 AA
2148476 TTTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAAAATTAATTTTTTTT
Found at i:2148536 original size:19 final size:18
Alignment explanation
Indices: 2148514--2148558 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
2148504 TCTTATTTAA
*
2148514 ATATTTAAATTATTTTTT
1 ATATTTAAATAATTTTTT
*
2148532 GATATAATAAATAATTTTTT
1 -ATAT-TTAAATAATTTTTT
2148552 ATATTTA
1 ATATTTA
2148559 TATATTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 8 0.36
20 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATTTAAATAATTTTTT
Found at i:2149964 original size:24 final size:25
Alignment explanation
Indices: 2149937--2149983 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2149927 TATGCGTGAC
* *
2149937 ATAATACATTTAA-ATATTATTAAT
1 ATAACACATTTAATATACTATTAAT
*
2149961 ATAACATATTTAATATACTATTA
1 ATAACACATTTAATATACTATTA
2149984 TATTTATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAACACATTTAATATACTATTAAT
Found at i:2150425 original size:50 final size:47
Alignment explanation
Indices: 2150365--2150470 Score: 149
Period size: 50 Copynumber: 2.2 Consensus size: 47
2150355 ACGTTGAGAT
*
2150365 TTAAATTTTAAATTTATTGAATATCAACCGATTATATAAAGCTTATTAAG
1 TTAAATTTTAAATTCATTGAATATC-A-CGATTATATAAAGC-TATTAAG
* *
2150415 TTAAATTTTAAATTCATTGAATATCATGATTATATGAAGCTATTAAG
1 TTAAATTTTAAATTCATTGAATATCACGATTATATAAAGCTATTAAG
*
2150462 TTAAGTTTT
1 TTAAATTTT
2150471 GAGTTCTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 15 0.29
48 12 0.23
49 1 0.02
50 24 0.46
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (47 bp):
TTAAATTTTAAATTCATTGAATATCACGATTATATAAAGCTATTAAG
Found at i:2150755 original size:5 final size:5
Alignment explanation
Indices: 2150745--2150778 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
2150735 CACTTGAAAT
2150745 TTTTA TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
2150779 CAATATGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:2150758 original size:9 final size:9
Alignment explanation
Indices: 2150746--2150776 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2150736 ACTTGAAATT
2150746 TTTATTTTA
1 TTTATTTTA
2150755 TTTATTTTA
1 TTTATTTTA
2150764 TTTTATTTTA
1 -TTTATTTTA
2150774 TTT
1 TTT
2150777 TACAATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:2150764 original size:14 final size:15
Alignment explanation
Indices: 2150745--2150778 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
2150735 CACTTGAAAT
2150745 TTTTATTTTA-TTTA
1 TTTTATTTTATTTTA
2150759 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
2150774 TTTTA
1 TTTTA
2150779 CAATATGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:2151587 original size:13 final size:13
Alignment explanation
Indices: 2151569--2151597 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2151559 AAAGATACTC
2151569 TTAACCGTATGTA
1 TTAACCGTATGTA
2151582 TTAACCGTATGTA
1 TTAACCGTATGTA
2151595 TTA
1 TTA
2151598 TTAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
TTAACCGTATGTA
Found at i:2151930 original size:12 final size:12
Alignment explanation
Indices: 2151909--2151937 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2151899 AAATGACCCC
2151909 TTTT-TGGTTAA
1 TTTTCTGGTTAA
2151920 TTTTCTGGTTAA
1 TTTTCTGGTTAA
2151932 TTTTCT
1 TTTTCT
2151938 ACTCAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (12 bp):
TTTTCTGGTTAA
Found at i:2152477 original size:17 final size:17
Alignment explanation
Indices: 2152437--2152479 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2152427 AAATTACATG
* *
2152437 ATAAATTATTTAAAAAG
1 ATAAATTAATTAAAAAA
*
2152454 TTAAAATTAATTAAAAAA
1 AT-AAATTAATTAAAAAA
2152472 ATAAATTA
1 ATAAATTA
2152480 TTATAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAATTAATTAAAAAA
Found at i:2153183 original size:16 final size:16
Alignment explanation
Indices: 2153158--2153201 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
2153148 TTTATTTATT
2153158 ATAA-TTATATTTAAA
1 ATAATTTATATTTAAA
*
2153173 ATAATTTATA-TTAAT
1 ATAATTTATATTTAAA
*
2153188 ATAATTTTTATTTA
1 ATAATTTATATTTA
2153202 TTTTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTTATATTTAAA
Found at i:2153226 original size:45 final size:44
Alignment explanation
Indices: 2153135--2153248 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
2153125 TATTAATATC
2153135 ATATTAATATATTTTTATTTATTATAATTATATTTAAAATAATTT
1 ATATTAATATATTTTTATTTATTAT-ATTATATTTAAAATAATTT
* *
2153180 ATATTAATATAATTTTTATTTATT-T-TTATATTTATATCATATTTT
1 ATATTAATAT-ATTTTTATTTATTATATTATATTTA-A-AATAATTT
* * *
2153225 ATATTATTTTATATTTATTT-TTAT
1 ATATTAATATATTTTTATTTATTAT
2153249 GTCACATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 11 0.18
44 11 0.18
45 25 0.42
46 13 0.22
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (44 bp):
ATATTAATATATTTTTATTTATTATATTATATTTAAAATAATTT
Found at i:2153267 original size:40 final size:40
Alignment explanation
Indices: 2153173--2153269 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 40
2153163 TATATTTAAA
* * * *
2153173 ATAATTTATATTAATATAATTTTTATTTATTTTTATATTTAT
1 ATAA-TTATATT-ATATTATTTTTATTTATTTTTATAGTCAC
* *
2153215 ATCA-TATTTTATATTATTTTATATTTATTTTTAT-GTCAC
1 ATAATTATATTATATTATTTT-TATTTATTTTTATAGTCAC
2153254 ATAATTATATTATATT
1 ATAATTATATTATATT
2153270 TAATAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
39 14 0.31
40 28 0.62
42 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (40 bp):
ATAATTATATTATATTATTTTTATTTATTTTTATAGTCAC
Found at i:2153912 original size:24 final size:24
Alignment explanation
Indices: 2153885--2153936 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2153875 TTAATTAGAT
2153885 AATAT-AAATAAAAAAAATAATATA
1 AATATAAAATAAAAAAAAT-ATATA
* *
2153909 AATATAAAATAATATAAATATATA
1 AATATAAAATAAAAAAAATATATA
2153933 AATA
1 AATA
2153937 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AATATAAAATAAAAAAAATATATA
Found at i:2153919 original size:16 final size:16
Alignment explanation
Indices: 2153883--2153970 Score: 86
Period size: 16 Copynumber: 5.2 Consensus size: 16
2153873 ATTTAATTAG
*
2153883 ATAATATAAATAAAAAAA
1 ATAATATAAAT--ATAAA
2153901 ATAATATAAATATAAA
1 ATAATATAAATATAAA
2153917 ATAATATAAATATATAA
1 ATAATATAAATATA-AA
* * * *
2153934 ATAATTTAAATTTTAT
1 ATAATATAAATATAAA
2153950 ATAATATAAATTATTAAA
1 ATAATATAAA-TA-TAAA
2153968 ATA
1 ATA
2153971 TTAATTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
16 28 0.48
17 14 0.24
18 16 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATATAAATATAAA
Found at i:2153944 original size:33 final size:34
Alignment explanation
Indices: 2153883--2153960 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
2153873 ATTTAATTAG
2153883 ATAATATAAATAAAAAAAATAATATAAATATAAA
1 ATAATATAAATAAAAAAAATAATATAAATATAAA
* * * * * *
2153917 ATAATATAAAT-ATATAAATAATTTAAATTTTAT
1 ATAATATAAATAAAAAAAATAATATAAATATAAA
2153950 ATAATATAAAT
1 ATAATATAAAT
2153961 TATTAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
33 27 0.71
34 11 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (34 bp):
ATAATATAAATAAAAAAAATAATATAAATATAAA
Found at i:2154004 original size:33 final size:30
Alignment explanation
Indices: 2153917--2154019 Score: 82
Period size: 32 Copynumber: 3.1 Consensus size: 30
2153907 TAAATATAAA
2153917 ATAATATAAATATATAAATAATTTAAATTTTAT
1 ATAATAT-AATATATAAAT-A-TTAAATTTTAT
*
2153950 ATAATATAA-ATTATTAAAATATTAATTTTTATTT
1 ATAATATAATA-TA-T-AAATATTAAATTTTA--T
* *
2153984 ATAATTATAATATATAAATATATAAATATAAT
1 ATAA-TATAATATATAAATAT-TAAATTTTAT
2154016 ATAA
1 ATAA
2154020 ATACTTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
31 1 0.02
32 18 0.31
33 15 0.26
34 16 0.28
35 7 0.12
36 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATAATATAATATATAAATATTAAATTTTAT
Found at i:2164125 original size:2 final size:2
Alignment explanation
Indices: 2164114--2164156 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2164104 TTCAAGCTTG
2164114 AT AT -T 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
2164155 AT
1 AT
2164157 TATTCTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2168978 original size:2 final size:2
Alignment explanation
Indices: 2168971--2169002 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2168961 AATAAGTGTT
2168971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2169003 AGAGGATCTG
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):
TA
Found at i:2169820 original size:20 final size:18
Alignment explanation
Indices: 2169797--2169843 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
2169787 ATAAAAACTT
2169797 ATAATTTTATATTTATTTTA
1 ATAATTTT-TATTT-TTTTA
2169817 ATAATTTTTATTTTTTT-
1 ATAATTTTTATTTTTTTA
2169834 ATAAATTTTT
1 AT-AATTTTT
2169844 TAATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.08
18 11 0.42
19 5 0.19
20 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATAATTTTTATTTTTTTA
Found at i:2169843 original size:19 final size:20
Alignment explanation
Indices: 2169795--2169845 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
2169785 ATATAAAAAC
*
2169795 TTAT-AATTTTATATTTATT
1 TTATAAATTTTTTATTTATT
2169814 TTA-ATAA-TTTTTATTT-TT
1 TTATA-AATTTTTTATTTATT
2169832 TTATAAATTTTTTA
1 TTATAAATTTTTTA
2169846 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 7 0.26
19 18 0.67
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATAAATTTTTTATTTATT
Found at i:2171561 original size:2 final size:2
Alignment explanation
Indices: 2171554--2171590 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2171544 CATGAAAGTG
2171554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2171591 TACTATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2172661 original size:2 final size:2
Alignment explanation
Indices: 2172654--2172731 Score: 122
Period size: 2 Copynumber: 39.5 Consensus size: 2
2172644 GGTGGAAACC
* * *
2172654 AT AT AT AT -T AT AT AT AC AT AC AT AC 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
2172695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2172732 AGCATGCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2174020 original size:21 final size:22
Alignment explanation
Indices: 2173972--2174023 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2173962 ATATTTAATA
* * *
2173972 AATAAAAAATTATTTAAATTTT
1 AATATAAAATTATATAAATATT
*
2173994 ATTATAAAA-TATATAAATATT
1 AATATAAAATTATATAAATATT
2174015 AATATAAAA
1 AATATAAAA
2174024 CTAGATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATAAAATTATATAAATATT
Found at i:2176610 original size:24 final size:23
Alignment explanation
Indices: 2176576--2176621 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2176566 TATTATAATT
2176576 ATAAAAATAATTAATAATTAAAA
1 ATAAAAATAATTAATAATTAAAA
* *
2176599 ATAAAAATTAATTATTATTTAAA
1 ATAAAAA-TAATTAATAATTAAA
2176622 TATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAAATAATTAATAATTAAAA
Found at i:2176641 original size:16 final size:15
Alignment explanation
Indices: 2176619--2176669 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
2176609 ATTATTATTT
2176619 AAATATTTAATTTTA
1 AAATATTTAATTTTA
*
2176634 AAATTATTT-ATTTATC
1 AAA-TATTTAATTT-TA
2176650 AAATATATTATATTTTA
1 AAATAT-TTA-ATTTTA
2176667 AAA
1 AAA
2176670 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.34
16 11 0.38
17 4 0.14
18 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATATTTAATTTTA
Found at i:2176645 original size:31 final size:33
Alignment explanation
Indices: 2176602--2176669 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 33
2176592 ATTAAAAATA
*
2176602 AAAATTAATTA-TTATTTAAATAT-TTA-ATTTT
1 AAAATTAATTATTTA-TCAAATATATTATATTTT
*
2176633 AAAATTATTTATTTATCAAATATATTATATTTT
1 AAAATTAATTATTTATCAAATATATTATATTTT
2176666 AAAA
1 AAAA
2176670 ATAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 17 0.53
32 6 0.19
33 9 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
AAAATTAATTATTTATCAAATATATTATATTTT
Found at i:2176675 original size:22 final size:24
Alignment explanation
Indices: 2176650--2176693 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
2176640 TTTATTTATC
*
2176650 AAATATATTATAT-T-TTAAAAAT
1 AAATAAATTATATATATTAAAAAT
2176672 AAATAAATTATATATATTAAAA
1 AAATAAATTATATATATTAAAA
2176694 TTTTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATAAATTATATATATTAAAAAT
Found at i:2177542 original size:15 final size:16
Alignment explanation
Indices: 2177524--2177559 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2177514 TAAATGAGTC
*
2177524 TTTTTTTAATTTAA-A
1 TTTTTTTAACTTAATA
2177539 TTTTTTTAACTTAATA
1 TTTTTTTAACTTAATA
2177555 TTTTT
1 TTTTT
2177560 ATTTAAGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTTAACTTAATA
Found at i:2177729 original size:17 final size:17
Alignment explanation
Indices: 2177709--2177749 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2177699 AATGAATCTA
2177709 TTTTTTACTTAAT-TTT
1 TTTTTTACTTAATATTT
2177725 TTTTTTAACTTAATATTT
1 TTTTTT-ACTTAATATTT
*
2177743 TTATTTA
1 TTTTTTA
2177750 TATTCTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTACTTAATATTT
Found at i:2178722 original size:2 final size:2
Alignment explanation
Indices: 2178715--2178748 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2178705 AAGTAACCCA
2178715 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
2178749 GTGTGTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2180047 original size:19 final size:17
Alignment explanation
Indices: 2180015--2180053 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
2180005 CAGACTTTTA
2180015 ATTTAATATTTTTAAAT
1 ATTTAATATTTTTAAAT
2180032 ATTTAATATATATTTAAAT
1 ATTTAATAT-T-TTTAAAT
2180051 ATT
1 ATT
2180054 AAGTTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATATTTTTAAAT
Found at i:2180697 original size:2 final size:2
Alignment explanation
Indices: 2180690--2180720 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2180680 TGAAATTCAA
2180690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2180721 AGATAAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2181917 original size:16 final size:17
Alignment explanation
Indices: 2181889--2181926 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2181879 TATTATATAA
2181889 ATTT-TATTAAATTTAT
1 ATTTATATTAAATTTAT
*
2181905 ATTTATATT-AATTTTT
1 ATTTATATTAAATTTAT
2181921 ATTTAT
1 ATTTAT
2181927 TTTTATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATATTAAATTTAT
Found at i:2181923 original size:27 final size:27
Alignment explanation
Indices: 2181864--2181919 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
2181854 TAATTTTTAA
*
2181864 TTTATTAAAAGTTTTTATTATATAAAT
1 TTTATTAAAAGTTTATATTATATAAAT
*
2181891 TTTATT-AAA-TTTATATTTATATTAAT
1 TTTATTAAAAGTTTATA-TTATATAAAT
2181917 TTT
1 TTT
2181920 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 15 0.58
27 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTATTAAAAGTTTATATTATATAAAT
Found at i:2182458 original size:7 final size:7
Alignment explanation
Indices: 2182448--2182473 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2182438 ACCTTTGAGC
2182448 TTTCACA
1 TTTCACA
2182455 TTTCACA
1 TTTCACA
2182462 TTTCACA
1 TTTCACA
2182469 TTTCA
1 TTTCA
2182474 ATGCGATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTCACA
Found at i:2187026 original size:2 final size:2
Alignment explanation
Indices: 2187019--2187049 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2187009 GTTTATTAAT
2187019 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2187050 TGTGTCTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2195955 original size:13 final size:13
Alignment explanation
Indices: 2195939--2195972 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2195929 TAAATGTGAA
2195939 AAAAATTAAAAAT
1 AAAAATTAAAAAT
*
2195952 AAAAATTAAATAT
1 AAAAATTAAAAAT
2195965 AATAAATT
1 AA-AAATT
2195973 TATGATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:2195970 original size:16 final size:15
Alignment explanation
Indices: 2195919--2195966 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
2195909 ACGTATACTC
2195919 ATAAAAAAATTAAAT
1 ATAAAAAAATTAAAT
*
2195934 GTGAAAAAAATTAAA-
1 AT-AAAAAAATTAAAT
*
2195949 A-ATAAAAATTAAAT
1 ATAAAAAAATTAAAT
2195963 ATAA
1 ATAA
2195967 TAAATTTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 2 0.08
16 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (15 bp):
ATAAAAAAATTAAAT
Found at i:2195992 original size:18 final size:20
Alignment explanation
Indices: 2195958--2195999 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
2195948 AAATAAAAAT
2195958 TAAATATAATAAATTTATGA
1 TAAATATAATAAATTTATGA
*
2195978 TAAATAT-AT-AATTTATTA
1 TAAATATAATAAATTTATGA
2195996 TAAA
1 TAAA
2196000 AAATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAATATAATAAATTTATGA
Found at i:2196213 original size:17 final size:16
Alignment explanation
Indices: 2196191--2196233 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
2196181 GAATAATTAA
2196191 AAAATATATAAAAAAAG
1 AAAATA-ATAAAAAAAG
*
2196208 AAAATAATTAAAAAAG
1 AAAATAATAAAAAAAG
2196224 AAAA-AATAAA
1 AAAATAATAAA
2196234 GAGTAGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAATAATAAAAAAAG
Found at i:2196616 original size:16 final size:17
Alignment explanation
Indices: 2196591--2196625 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2196581 TTTATTATTT
2196591 AATTTATA-TTTAAATA
1 AATTTATATTTTAAATA
*
2196607 AATTTTTATTTTAAATA
1 AATTTATATTTTAAATA
2196624 AA
1 AA
2196626 ATATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTATATTTTAAATA
Found at i:2196636 original size:17 final size:17
Alignment explanation
Indices: 2196598--2196636 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2196588 TTTAATTTAT
* *
2196598 ATTTAAATAAATTTTTA
1 ATTTAAATAAAATATTA
*
2196615 TTTTAAATAAAATATTA
1 ATTTAAATAAAATATTA
2196632 ATTTA
1 ATTTA
2196637 TGTTTAGACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAATAAAATATTA
Found at i:2196780 original size:35 final size:36
Alignment explanation
Indices: 2196717--2196790 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
2196707 AGTTAATCTG
* *
2196717 ATTTAAATTATTATTTAATAATAAAAAA-TATTTTT
1 ATTTAAATTATAATTTAAAAATAAAAAATTATTTTT
*
2196752 ATTTAAATT-TAATTATAAAAATATAAAATTATTTTT
1 ATTTAAATTATAATT-TAAAAATAAAAAATTATTTTT
2196788 ATT
1 ATT
2196791 ATTTATTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 20 0.59
36 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATTTAAATTATAATTTAAAAATAAAAAATTATTTTT
Found at i:2197640 original size:22 final size:23
Alignment explanation
Indices: 2197601--2197653 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
2197591 AATTTTTTAT
2197601 TTAAAT-TTAATTATAAAAATATA
1 TTAAATATTAATTAT-AAAATATA
*
2197624 TT-AATATTAA-TATAAAATATT
1 TTAAATATTAATTATAAAATATA
2197645 TTAAATATT
1 TTAAATATT
2197654 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.33
22 12 0.44
23 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAATATTAATTATAAAATATA
Found at i:2197661 original size:21 final size:20
Alignment explanation
Indices: 2197613--2197653 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
2197603 AAATTTAATT
2197613 ATAAAAATATATTAATATTA
1 ATAAAAATATATTAATATTA
*
2197633 ATATAAAATATTTTAAATATT
1 ATA-AAAATATATT-AATATT
2197654 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 9 0.50
22 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAAATATATTAATATTA
Found at i:2197662 original size:22 final size:21
Alignment explanation
Indices: 2197615--2197662 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
2197605 ATTTAATTAT
2197615 AAAAATATATTAATATTAATA
1 AAAAATATATTAATATTAATA
* * **
2197636 TAAAATATTTTAAATATTTTTA
1 AAAAATATATT-AATATTAATA
2197658 AAAAA
1 AAAAA
2197663 AATTATTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATATATTAATATTAATA
Found at i:2204994 original size:43 final size:43
Alignment explanation
Indices: 2204933--2205019 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
2204923 AGATTAAATT
2204933 CTTAATAGTAATTTTATGTGTGAAGGAAGATGGAAACCAAAAG
1 CTTAATAGTAATTTTATGTGTGAAGGAAGATGGAAACCAAAAG
* *
2204976 CTTAATAGTAGTTTTATGTGTGAAGGAAGATGGAAACGAAAAG
1 CTTAATAGTAATTTTATGTGTGAAGGAAGATGGAAACCAAAAG
2205019 C
1 C
2205020 AAAAACTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTAATAGTAATTTTATGTGTGAAGGAAGATGGAAACCAAAAG
Found at i:2209995 original size:3 final size:3
Alignment explanation
Indices: 2209987--2210017 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2209977 TCGAACAAGA
2209987 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
1 CGT CGT CGT CGT CGT CGT CGT CGT CGT CGT C
2210018 TTCATCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.32, T:0.32
Consensus pattern (3 bp):
CGT
Found at i:2210040 original size:3 final size:3
Alignment explanation
Indices: 2210034--2210071 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2210024 ATCATCATCA
*
2210034 TCT TCT TCT TCT TCT TCT CCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2210072 AACAGCGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:2210098 original size:18 final size:18
Alignment explanation
Indices: 2210077--2210111 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2210067 TCTTCAACAG
* *
2210077 CGTCGTCTTCGTTGTCAT
1 CGTCATCTTCGTCGTCAT
2210095 CGTCATCTTCGTCGTCA
1 CGTCATCTTCGTCGTCA
2210112 AGATCAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.31, G:0.20, T:0.40
Consensus pattern (18 bp):
CGTCATCTTCGTCGTCAT
Found at i:2210333 original size:3 final size:3
Alignment explanation
Indices: 2210312--2210366 Score: 85
Period size: 3 Copynumber: 18.0 Consensus size: 3
2210302 TATGATTTAC
2210312 TAT TATT TACT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2210358 TAT TAT TAT
1 TAT TAT TAT
2210367 ATACATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2210838 original size:15 final size:16
Alignment explanation
Indices: 2210802--2210841 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
2210792 TTTAATATTT
*
2210802 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
2210819 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
2210834 ATAAAATT
1 ATAAAATT
2210842 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:2210844 original size:16 final size:17
Alignment explanation
Indices: 2210802--2210844 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2210792 TTTAATATTT
*
2210802 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
2210819 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
2210834 ATAAAATTTAT
1 ATAAAATTTAT
2210845 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:2210903 original size:18 final size:18
Alignment explanation
Indices: 2210877--2210912 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2210867 ATTAACACAT
* *
2210877 AAATTTTTTACTAAATTA
1 AAATATTTTAATAAATTA
2210895 AAATATTTTAATAAATTA
1 AAATATTTTAATAAATTA
2210913 TATACAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATTTTAATAAATTA
Found at i:2211082 original size:18 final size:19
Alignment explanation
Indices: 2211043--2211085 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2211033 AACTCAATAT
*
2211043 ATATAAAAATTAATACGCA
1 ATATAAAAAATAATACGCA
*
2211062 ATATAAAAAATAATATG-A
1 ATATAAAAAATAATACGCA
2211080 ATATAA
1 ATATAA
2211086 CACGAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
ATATAAAAAATAATACGCA
Found at i:2212190 original size:14 final size:15
Alignment explanation
Indices: 2212167--2212226 Score: 72
Period size: 14 Copynumber: 4.1 Consensus size: 15
2212157 AACACAATTT
2212167 TTTCTC-TTTTTTTC
1 TTTCTCTTTTTTTTC
*
2212181 TTTCT-TTTTTCTTTT
1 TTTCTCTTTTT-TTTC
*
2212196 TTTCTCTTTATTTT-
1 TTTCTCTTTTTTTTC
2212210 TTTCTCTTTTTTTTC
1 TTTCTCTTTTTTTTC
2212225 TT
1 TT
2212227 GGTTGAACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 22 0.56
15 13 0.33
16 4 0.10
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTCTTTTTTTTC
Found at i:2212209 original size:19 final size:19
Alignment explanation
Indices: 2212171--2212209 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2212161 CAATTTTTTC
*
2212171 TCTTTTTTTCTTTCTTTTT
1 TCTTTTTTTCTTTCTATTT
2212190 TCTTTTTTTCTCTT-TATTT
1 TCTTTTTTTCT-TTCTATTT
2212209 T
1 T
2212210 TTTCTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTCTTTCTATTT
Found at i:2212213 original size:29 final size:30
Alignment explanation
Indices: 2212164--2212220 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
2212154 ACAAACACAA
2212164 TTTTTTCTCTTTTTTTCTTTCT-TTTTTCT
1 TTTTTTCTCTTTTTTTCTTTCTCTTTTTCT
2212193 TTTTTTCTCTTTATTTT-TTTCTCTTTTT
1 TTTTTTCTCTTT-TTTTCTTTCTCTTTTT
2212221 TTTCTTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (30 bp):
TTTTTTCTCTTTTTTTCTTTCTCTTTTTCT
Found at i:2212222 original size:10 final size:10
Alignment explanation
Indices: 2212164--2212209 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
2212154 ACAAACACAA
2212164 TTTTTTCTCT
1 TTTTTTCTCT
2212174 TTTTTTCT-T
1 TTTTTTCTCT
2212183 TCTTTTT-TCT
1 T-TTTTTCTCT
2212193 TTTTTTCTCT
1 TTTTTTCTCT
2212203 TTATTTT
1 TT-TTTT
2212210 TTTCTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.25
10 20 0.62
11 4 0.12
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:2213034 original size:6 final size:7
Alignment explanation
Indices: 2213016--2213043 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2213006 AACCTTTTAA
2213016 TAAAAAT
1 TAAAAAT
2213023 TAAAAAT
1 TAAAAAT
2213030 TAAAAAT
1 TAAAAAT
2213037 TAAAAAT
1 TAAAAAT
2213044 AATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAAAT
Found at i:2213612 original size:25 final size:25
Alignment explanation
Indices: 2213550--2213616 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 25
2213540 TGATTTCAAC
2213550 AAAAATACACAAATATAAAAAAATTATT
1 AAAAATA-A-AAATAT-AAAAAATTATT
* *
2213578 -AAAACAAAAATATAAAATATT-TT
1 AAAAATAAAAATATAAAAAATTATT
2213601 AAAAATATAAAA-ATAA
1 AAAAATA-AAAATATAA
2213617 TATAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 2 0.06
24 16 0.47
25 10 0.29
26 1 0.03
27 5 0.15
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAATAAAAATATAAAAAATTATT
Found at i:2213622 original size:19 final size:18
Alignment explanation
Indices: 2213583--2213622 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2213573 TTATTAAAAC
* *
2213583 AAAAATATAAAATATTTT
1 AAAAATATAAAATAATAT
2213601 AAAAATATAAAAATAATAT
1 AAAAATAT-AAAATAATAT
2213620 AAA
1 AAA
2213623 TGAAACATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATATAAAATAATAT
Found at i:2214055 original size:26 final size:26
Alignment explanation
Indices: 2214020--2214078 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
2214010 ATATCAAGAC
* * *
2214020 ATAATAAAAATACAACATAAATAAA-A
1 ATAATTAAAACACAACACAAA-AAATA
2214046 ATAATTAAAACACAACACAAAAAATA
1 ATAATTAAAACACAACACAAAAAATA
2214072 AT-ATTAA
1 ATAATTAA
2214079 CACAATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.20
Consensus pattern (26 bp):
ATAATTAAAACACAACACAAAAAATA
Found at i:2214091 original size:24 final size:24
Alignment explanation
Indices: 2214064--2214128 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
2214054 AACACAACAC
*
2214064 AAAAAATAATATTAACACAATATA
1 AAAAAATAATATTAACAAAATATA
* *
2214088 AAAACATAA-ACTTATCAAAATATA
1 AAAAAATAATA-TTAACAAAATATA
*
2214112 TAAAAA-AATAATTAACA
1 AAAAAATAAT-ATTAACA
2214129 TCAAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
23 3 0.09
24 28 0.88
25 1 0.03
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAAATAATATTAACAAAATATA
Found at i:2214174 original size:20 final size:21
Alignment explanation
Indices: 2214151--2214214 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
2214141 ATAAATTTTT
*
2214151 AATATTTTAAATAT-ATAAAA
1 AATAATTTAAATATAATAAAA
*
2214171 AATAATATAAATATAATATAAA
1 AATAATTTAAATATAATA-AAA
*
2214193 AATAATTAAAATATAATAAAA
1 AATAATTTAAATATAATAAAA
2214214 A
1 A
2214215 TTAAATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.32
21 7 0.18
22 19 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATTTAAATATAATAAAA
Found at i:2214185 original size:6 final size:6
Alignment explanation
Indices: 2214174--2214322 Score: 73
Period size: 6 Copynumber: 25.7 Consensus size: 6
2214164 TATAAAAAAT
* * *
2214174 AATATA AATAT- AATATA AAAATA ATTA-A AATAT- AATAAA AAT-TA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
* * * * * *
2214218 AATAT- GACATA AATATA AA-A-A CATAAA ATATATA AATATTA TATAAA
1 AATATA AATATA AATATA AATATA AATATA A-ATATA AATA-TA AATATA
* * * * *
2214265 AATTTA AA-AT- ACTTTA AATAATA AAAAAA TAATATA AATATA AATATA
1 AATATA AATATA AATATA AAT-ATA AATATA -AATATA AATATA AATATA
2214313 AATATA AATA
1 AATATA AATA
2214323 CCTCTTCCCG
Statistics
Matches: 103, Mismatches: 27, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
4 3 0.03
5 24 0.23
6 58 0.56
7 18 0.17
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:2214205 original size:17 final size:17
Alignment explanation
Indices: 2214166--2214219 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2214156 TTTAAATATA
* *
2214166 TAAAAAATAATATAAA-
1 TAAAATATAATAAAAAT
*
2214182 TATAATATAA-AAATAAT
1 TAAAATATAATAAA-AAT
2214199 TAAAATATAATAAAAAT
1 TAAAATATAATAAAAAT
2214216 TAAA
1 TAAA
2214220 TATGACATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 16 0.52
18 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATAATAAAAAT
Found at i:2214215 original size:11 final size:11
Alignment explanation
Indices: 2214159--2214215 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
2214149 TTAATATTTT
2214159 AAATAT-ATAA
1 AAATATAATAA
*
2214169 AAA-ATAATAT
1 AAATATAATAA
2214179 AAATATAATATA
1 AAATATAATA-A
*
2214191 AAA-ATAATTA
1 AAATATAATAA
2214201 AAATATAATAA
1 AAATATAATAA
2214212 AAAT
1 AAAT
2214216 TAAATATGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 2 0.05
10 13 0.33
11 21 0.54
12 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATATAATAA
Found at i:2214262 original size:28 final size:29
Alignment explanation
Indices: 2214230--2214284 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
2214220 TATGACATAA
2214230 ATATAAAAACATAAAATA-TATAAATATT
1 ATATAAAAACATAAAATACTATAAATATT
** *
2214258 ATATAAAAATTTAAAATACTTTAAATA
1 ATATAAAAACATAAAATACTATAAATA
2214285 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (29 bp):
ATATAAAAACATAAAATACTATAAATATT
Found at i:2216834 original size:38 final size:37
Alignment explanation
Indices: 2216792--2216874 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 37
2216782 TTGTTAATCT
*
2216792 TAAAATAATAA-TAATAAAAT-AAATTTATATTAATA
1 TAAAATAATAATTAATAAAATAAAATTTATATAAATA
* * *
2216827 TAATAAAAATAATTAATATATTAAAATTTATATAAATA
1 TAA-AATAATAATTAATAAAATAAAATTTATATAAATA
2216865 TAAAATAATA
1 TAAAATAATA
2216875 TAAATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 3 0.08
36 7 0.17
37 13 0.32
38 17 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (37 bp):
TAAAATAATAATTAATAAAATAAAATTTATATAAATA
Found at i:2216840 original size:24 final size:26
Alignment explanation
Indices: 2216797--2216850 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
2216787 AATCTTAAAA
2216797 TAATAATAATAAAATAAATT-TATAT
1 TAATAATAATAAAATAAATTATATAT
2216822 TAAT-ATAATAAAA-ATAATTAATATAT
1 TAATAATAATAAAATA-AATT-ATATAT
2216848 TAA
1 TAA
2216851 AATTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.04
24 13 0.50
25 4 0.15
26 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TAATAATAATAAAATAAATTATATAT
Found at i:2216865 original size:18 final size:19
Alignment explanation
Indices: 2216791--2216877 Score: 60
Period size: 18 Copynumber: 4.8 Consensus size: 19
2216781 TTTGTTAATC
*
2216791 TTAAAA-TAATAATAATAAA
1 TTAAAATTAAT-ATAATATA
* *
2216810 AT-AAATTTATATTAATATA
1 TTAAAATTAATA-TAATATA
* *
2216829 ATAAAAATAAT-TAATATA
1 TTAAAATTAATATAATATA
*
2216847 TTAAAATTTATATAA-ATA
1 TTAAAATTAATATAATATA
2216865 -TAAAA-TAATATAA
1 TTAAAATTAATATAA
2216878 ATTTAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
16 7 0.13
17 5 0.09
18 22 0.40
19 15 0.27
20 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATTAATATAATATA
Found at i:2216888 original size:30 final size:30
Alignment explanation
Indices: 2216794--2216888 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 30
2216784 GTTAATCTTA
*
2216794 AAATAATAATAATAAAATAAATTTATATTA-AT
1 AAAT-ATAA-AATAATATAAATTTA-ATTATAT
2216826 ATAATA-AAAATAAT-TAATATATTAAAATTTATAT
1 A-AATATAAAATAATATAA-AT-TT--AA-TTATAT
2216860 AAATATAAAATAATATAAATTTAATTATA
1 AAATATAAAATAATATAAATTTAATTATA
2216889 ATTTAATGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
29 3 0.06
30 12 0.23
31 6 0.11
32 3 0.06
33 13 0.25
34 13 0.25
35 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATATAAAATAATATAAATTTAATTATAT
Found at i:2219862 original size:14 final size:13
Alignment explanation
Indices: 2219838--2219876 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
2219828 TAACATAATT
2219838 ATATAATATAAAAA
1 ATAT-ATATAAAAA
2219852 ATAATATATAAAAA
1 AT-ATATATAAAAA
*
2219866 ATTTATATAAA
1 ATATATATAAA
2219877 TATATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATATATAAAAA
Found at i:2219872 original size:13 final size:14
Alignment explanation
Indices: 2219843--2219876 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2219833 TAATTATATA
2219843 ATATAAAAAATAAT
1 ATATAAAAAATAAT
*
2219857 ATATAAAAAAT-TT
1 ATATAAAAAATAAT
2219870 ATATAAA
1 ATATAAA
2219877 TATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATAAAAAATAAT
Found at i:2219878 original size:21 final size:21
Alignment explanation
Indices: 2219854--2219895 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2219844 TATAAAAAAT
2219854 AATATATAAAAAATTTATATA
1 AATATATAAAAAATTTATATA
*
2219875 AATATATAAATAATTTATATA
1 AATATATAAAAAATTTATATA
2219896 TAATTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATATAAAAAATTTATATA
Found at i:2220379 original size:3 final size:3
Alignment explanation
Indices: 2220371--2220406 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2220361 AAGCAATTTA
*
2220371 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2220407 TTAAATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:2221624 original size:4 final size:4
Alignment explanation
Indices: 2221615--2221639 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2221605 TGATGTCATG
2221615 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
2221640 AGCACTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:2222751 original size:24 final size:24
Alignment explanation
Indices: 2222724--2222803 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
2222714 TTTAAGCAGG
*
2222724 TATAATTATATAACATTAATTTAA
1 TATAATTATATAACATTAATATAA
* * **
2222748 TATAAAAATAATAAAACATTAATACGA
1 TAT---AATTATATAACATTAATATAA
2222775 TATAATTATATAACATTAATATAA
1 TATAATTATATAACATTAATATAA
2222799 TATAA
1 TATAA
2222804 AAATAATAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 25 0.57
27 19 0.43
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (24 bp):
TATAATTATATAACATTAATATAA
Found at i:2222798 original size:19 final size:18
Alignment explanation
Indices: 2222774--2222821 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
2222764 CATTAATACG
*
2222774 ATATAATTATATAACATTA
1 ATATAATTATATAA-AATA
2222793 ATATAA-TATA-AAAATA
1 ATATAATTATATAAAATA
*
2222809 ATAAAATTATATA
1 ATATAATTATATA
2222822 TGATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 5 0.20
19 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAATTATATAAAATA
Found at i:2222827 original size:26 final size:25
Alignment explanation
Indices: 2222733--2222841 Score: 96
Period size: 26 Copynumber: 4.3 Consensus size: 25
2222723 GTATAATTAT
* * *
2222733 ATAACATTAATTTAATATAAAAATA
1 ATAAAATTAATATGATATAAAAATA
* **
2222758 ATAAAACATTAATACGATATAATTAT-
1 AT-AAA-ATTAATATGATATAAAAATA
* *
2222784 ATAACATTAATATAATATAAAAATA
1 ATAAAATTAATATGATATAAAAATA
2222809 ATAAAATTATATATGATATAAAAA-A
1 ATAAAATTA-ATATGATATAAAAATA
2222834 ATATAAAT
1 ATA-AAAT
2222842 ACAATATTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
24 15 0.23
25 16 0.24
26 21 0.32
27 14 0.21
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAAAATTAATATGATATAAAAATA
Found at i:2222840 original size:27 final size:27
Alignment explanation
Indices: 2222782--2222884 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
2222772 CGATATAATT
* *
2222782 ATATAACATTA-ATATAATATAAAAAT
1 ATATAAAATTATATATAATATAAAAAA
*
2222808 A-ATAAAATTATATATGATATAAAAAA
1 ATATAAAATTATATATAATATAAAAAA
** *
2222834 ATATAAATACAATAT-TAATATATAAAA
1 ATATAAA-ATTATATATAATATAAAAAA
* *
2222861 ATATTAAAATT-TCTATAAAATAAA
1 ATA-TAAAATTATATATAATATAAA
2222885 TTATTATCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
25 8 0.13
26 17 0.28
27 26 0.43
28 9 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATAAAATTATATATAATATAAAAAA
Found at i:2222848 original size:26 final size:26
Alignment explanation
Indices: 2222782--2222864 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
2222772 CGATATAATT
2222782 ATATAACATT-AATATAATATAAAAATA
1 ATATAA-ATTAAATATAATATAAAAA-A
* *
2222809 ATA-AAATTATATATGATATAAAAAA
1 ATATAAATTAAATATAATATAAAAAA
*
2222834 ATATAAA-TACAATATTAATATATAAAA
1 ATATAAATTA-AATA-TAATATAAAAAA
2222861 ATAT
1 ATAT
2222865 TAAAATTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
25 9 0.19
26 21 0.45
27 17 0.36
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (26 bp):
ATATAAATTAAATATAATATAAAAAA
Found at i:2222913 original size:17 final size:17
Alignment explanation
Indices: 2222860--2222913 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
2222850 AATATATAAA
*
2222860 AATATTAAAATTTCTAT
1 AATATTAAAATTTATAT
*
2222877 AA-AAT-AAA-TTATTAT
1 AATATTAAAATTTA-TAT
*
2222892 CATATTAAAATTTATAT
1 AATATTAAAATTTATAT
2222909 AATAT
1 AATAT
2222914 ATAATAACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
14 2 0.07
15 7 0.25
16 4 0.14
17 12 0.43
18 3 0.11
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAAAATTTATAT
Found at i:2223829 original size:10 final size:12
Alignment explanation
Indices: 2223801--2223845 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
2223791 TTTTGACTTA
*
2223801 ATTTATTATTTAT
1 ATTTATTA-TAAT
2223814 ATTTATTATAA-
1 ATTTATTATAAT
2223825 A-TTATTATAAT
1 ATTTATTATAAT
2223836 ATTTATTATA
1 ATTTATTATA
2223846 TTTATAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.31
11 2 0.07
12 10 0.34
13 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTATTATAAT
Found at i:2223840 original size:22 final size:23
Alignment explanation
Indices: 2223803--2223845 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2223793 TTGACTTAAT
*
2223803 TTATTATTTATATTTATTATAAA
1 TTATTATTAATATTTATTATAAA
2223826 TTATTA-TAATATTTATTATA
1 TTATTATTAATATTTATTATA
2223846 TTTATAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTATTAATATTTATTATAAA
Found at i:2224258 original size:28 final size:29
Alignment explanation
Indices: 2224185--2224263 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 29
2224175 GTCTAGCATT
2224185 TATTTTAATGGCTATAAACTACTCCCAGGA
1 TATTTTAATGGCTATAAACTACTCCCA-GA
*
2224215 TATTTAATTGATGGCTATAAACTACTCCCA-A
1 TA-TT--TTAATGGCTATAAACTACTCCCAGA
2224246 TATTTTAATGGCTATAAA
1 TATTTTAATGGCTATAAA
2224264 ATTCACATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 13 0.30
30 4 0.09
31 5 0.11
33 22 0.50
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (29 bp):
TATTTTAATGGCTATAAACTACTCCCAGA
Found at i:2227373 original size:12 final size:12
Alignment explanation
Indices: 2227356--2227383 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2227346 TTTTTATAAT
2227356 AATATTTGGTAA
1 AATATTTGGTAA
2227368 AATATTTGGTAA
1 AATATTTGGTAA
2227380 AATA
1 AATA
2227384 ATTTTGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (12 bp):
AATATTTGGTAA
Found at i:2228987 original size:19 final size:20
Alignment explanation
Indices: 2228960--2228998 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2228950 ATAATTAAAT
*
2228960 TTAAATAAA-AATATTTTTA
1 TTAAATAAATAATAATTTTA
*
2228979 TTAATTAAATAATAATTTTA
1 TTAAATAAATAATAATTTTA
2228999 AATCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATAAATAATAATTTTA
Found at i:2230759 original size:13 final size:13
Alignment explanation
Indices: 2230741--2230766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2230731 AAAAAAATTG
2230741 ATTTTTATTTTTT
1 ATTTTTATTTTTT
2230754 ATTTTTATTTTTT
1 ATTTTTATTTTTT
2230767 GGTCCCCTAC
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:2235396 original size:5 final size:5
Alignment explanation
Indices: 2235370--2235410 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
2235360 ATTCGAAAAT
*
2235370 TTTAA TTTAA ATT-A TTTAAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTT-AA TTTAA TTTAA TTTAA TTTAA T
2235411 AAAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 25 0.78
6 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTAA
Found at i:2235493 original size:16 final size:16
Alignment explanation
Indices: 2235472--2235502 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2235462 TAAATCAAAG
2235472 TGATTAAAATTTAAAT
1 TGATTAAAATTTAAAT
*
2235488 TGATTAAATTTTAAA
1 TGATTAAAATTTAAA
2235503 ATTCGATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TGATTAAAATTTAAAT
Done.