Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 1 of 28
Found at i:314 original size:14 final size:15
Alignment explanation
Indices: 295--324 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
285 AAAGCTTTTT
295 TTATAAAA-ATTTAA
1 TTATAAAATATTTAA
309 TTATAAAATATTTAA
1 TTATAAAATATTTAA
324 T
1 T
325 CTATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAAAATATTTAA
Found at i:1039 original size:2 final size:2
Alignment explanation
Indices: 1034--1060 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1024 ATATATATAT
1034 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1061 TATGTAAAAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6423 original size:102 final size:104
Alignment explanation
Indices: 6239--6442 Score: 263
Period size: 102 Copynumber: 2.0 Consensus size: 104
6229 CACTATGACC
* * * *
6239 GTGGCATAGCAGAGTTTTAAACCAAACCTCTCTTCAGATCACTAGAAGGTTCCAAGTAAATGATG
1 GTGGAATAGCAAAGTTTTAAACCAAA-CTCTCTTCAAATCACTAGAAGGTTACAAGTAAATGATG
* *
6304 AATCTAAGCATGTTGCTCGGCTTAATTCCTACGCACAGGA
65 AATCTAAGCATATTGCTCGGCTTAAGTCCTACGCACAGGA
* **
6344 GTGGAATAGCAAAGTTTTAAATCAAA-TCT-TTCAAATCACTAGGAA-GTTACAAGTGGATGATG
1 GTGGAATAGCAAAGTTTTAAACCAAACTCTCTTCAAATCACTA-GAAGGTTACAAGTAAATGATG
*
6406 -ATCCTAAGCATATTGCTCGGCTTAAGTCCTATGCACA
65 AAT-CTAAGCATATTGCTCGGCTTAAGTCCTACGCACA
6443 TGACACTAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
101 2 0.02
102 56 0.64
103 6 0.07
105 23 0.26
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (104 bp):
GTGGAATAGCAAAGTTTTAAACCAAACTCTCTTCAAATCACTAGAAGGTTACAAGTAAATGATGA
ATCTAAGCATATTGCTCGGCTTAAGTCCTACGCACAGGA
Found at i:10181 original size:13 final size:12
Alignment explanation
Indices: 10143--10187 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
10133 GAACATAATG
10143 AATATTATTATA
1 AATATTATTATA
* *
10155 ATTAATTATAATA
1 AAT-ATTATTATA
10168 AATATTGATTATA
1 AATATT-ATTATA
10181 AATATTA
1 AATATTA
10188 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
AATATTATTATA
Found at i:10554 original size:2 final size:2
Alignment explanation
Indices: 10547--10574 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10537 TCTCACTTTG
10547 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
10575 GTTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11202 original size:16 final size:14
Alignment explanation
Indices: 11154--11197 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11144 AAATTTATTT
11154 AAAT-TTAAT-TATA
1 AAATATTAATATA-A
11167 AAATA-T-ATATAA
1 AAATATTAATATAA
11179 AAATATTAATATAA
1 AAATATTAATATAA
11193 AAATA
1 AAATA
11198 AATTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 8 0.30
13 8 0.30
14 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATTAATATAA
Found at i:11528 original size:21 final size:21
Alignment explanation
Indices: 11503--11542 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11493 ATAAAAAAAT
11503 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
11524 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
11543 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:12196 original size:21 final size:21
Alignment explanation
Indices: 12170--12211 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12160 TCTGTAATTT
**
12170 TTTTATTTTAAAATTATAATA
1 TTTTATTAAAAAATTATAATA
*
12191 TTTTATTAAAAAATTTTAATA
1 TTTTATTAAAAAATTATAATA
12212 AATTTATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTAAAAAATTATAATA
Found at i:15905 original size:19 final size:19
Alignment explanation
Indices: 15883--15927 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
15873 TTAAATCAAT
15883 TTAAAATAATA-ATTTTATA
1 TTAAAATAATATATTTT-TA
15902 TTAAAATAATATATTTTTA
1 TTAAAATAATATATTTTTA
*
15921 TTTAAAT
1 TTAAAAT
15928 TTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATAATATATTTTTA
Found at i:16359 original size:184 final size:173
Alignment explanation
Indices: 16039--16386 Score: 434
Period size: 184 Copynumber: 1.9 Consensus size: 173
16029 CATAAGTTTA
* *
16039 AAATTTAAATTTTTTTCGATCATGATTCAATCCGATCCTACCAATACCTAAATCTACTAAAAAAT
1 AAATTTAAATTTTTTTCGATCATGATACAATCCGATCCTACCAATACCCAAATCTACTAAAAAAT
* *
16104 AATGAATAAGAAATTAAAAAAAAAGGAAAGTCTAAAAGTGATTGTTTTCTATCACATTATAGTAT
66 AATGAATAAGAAATTAAAAAAAAAGGAAAGTCTAAAAGTAATTGTTTTCTATCACATTATAGTAC
16169 CAATGTACCATAAGACTTTCTAAT-TTCAATCATGTAGCAAAGG
131 CAATGTACCATAAGACTTTCT-ATCTTCAATCATGTAGCAAAGG
* * * * *
16212 AAATTTAAATTTTTTTTCGGATCATGATACAA-CTCGAT-TTAATCAATGCCCAAATCTATTACA
1 AAATTTAAA-TTTTTTTC-GATCATGATACAATC-CGATCCT-ACCAATACCCAAATCTACTAAA
*
16275 AAATAATGAATAAGAAATTTTTTTATATAAAAAAGGAAAGTCTAATGAAAGTAATTGTTTTCTAT
62 AAATAATGAATAAGAAA-----TTA-AAAAAAAAGGAAAGTCT-A--AAAGTAATTGTTTTCTAT
*
16340 -ATCATTATAGTACCAATGTATCATAAGACTTTCTATCTTCAATCATG
118 CA-CATTATAGTACCAATGTACCATAAGACTTTCTATCTTCAATCATG
16387 GGATAATATG
Statistics
Matches: 149, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
173 9 0.06
174 10 0.07
175 50 0.34
180 3 0.02
181 16 0.11
182 1 0.01
183 3 0.02
184 57 0.38
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (173 bp):
AAATTTAAATTTTTTTCGATCATGATACAATCCGATCCTACCAATACCCAAATCTACTAAAAAAT
AATGAATAAGAAATTAAAAAAAAAGGAAAGTCTAAAAGTAATTGTTTTCTATCACATTATAGTAC
CAATGTACCATAAGACTTTCTATCTTCAATCATGTAGCAAAGG
Found at i:18502 original size:22 final size:22
Alignment explanation
Indices: 18458--18502 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18448 TCTTTTAACT
* *
18458 AAAATAATATGCATATATAATA
1 AAAATAATATACATATAGAATA
*
18480 AAAATAATATACATATAGCATA
1 AAAATAATATACATATAGAATA
18502 A
1 A
18503 TTATATGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAATAATATACATATAGAATA
Found at i:18515 original size:21 final size:20
Alignment explanation
Indices: 18489--18559 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
18479 AAAAATAATA
18489 TACATATAGCATAATTATATG
1 TACATATAG-ATAATTATATG
* * *
18510 TACATATA-TTAAAATATTACG
1 TACATATAGAT-AATTA-TATG
*
18531 TACATATA-ATATATCATATG
1 TACATATAGATA-ATTATATG
18551 TACATATAG
1 TACATATAG
18560 TAAAAATGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.41
21 22 0.56
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
TACATATAGATAATTATATG
Found at i:18574 original size:22 final size:20
Alignment explanation
Indices: 18458--18577 Score: 73
Period size: 20 Copynumber: 5.8 Consensus size: 20
18448 TCTTTTAACT
* *
18458 AAAATAATATGCATATATAATA
1 AAAAT-ATATGTACATAT-ATA
* *
18480 AAAATA-ATATACATATAGCA
1 AAAATATATGTACATATA-TA
* * *
18500 TAATTATATGTACATATATT
1 AAAATATATGTACATATATA
*
18520 AAAATATTACGTACATATA-A
1 AAAATA-TATGTACATATATA
* *
18540 TATATCATATGTACATATAGTA
1 AAAAT-ATATGTACATATA-TA
18562 AAAATGATATGTACAT
1 AAAAT-ATATGTACAT
18578 TTATTCCAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.01
20 30 0.41
21 23 0.32
22 19 0.26
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (20 bp):
AAAATATATGTACATATATA
Found at i:18576 original size:42 final size:40
Alignment explanation
Indices: 18472--18577 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 40
18462 TAATATGCAT
* *
18472 ATATAATAAAAATA-ATATACATATAGCATAATTATATGTAC
1 ATAT-ATAAAAATATATGTACATATA-CATAATCATATGTAC
* *
18513 ATATATTAAAATATTACGTACATATA-ATATATCATATGTAC
1 ATATATAAAAATA-TATGTACATATACATA-ATCATATGTAC
18554 ATATAGTAAAAATGATATGTACAT
1 ATATA-TAAAAAT-ATATGTACAT
18578 TTATTCCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
40 11 0.20
41 19 0.35
42 23 0.43
43 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.36
Consensus pattern (40 bp):
ATATATAAAAATATATGTACATATACATAATCATATGTAC
Found at i:22290 original size:21 final size:20
Alignment explanation
Indices: 22260--22298 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22250 GTTGGGACCT
22260 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
*
22281 TGTATTGATACATTTAGA
1 TGTATCGATACATTTAGA
22299 TAAAAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:22989 original size:15 final size:18
Alignment explanation
Indices: 22956--23004 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
22946 AATCATATGT
*
22956 ATATTAAATAATAAAATATA
1 ATATTAAATAAT-ATAT-TA
22976 A-ATTAAA-AATATATTA
1 ATATTAAATAATATATTA
22992 ATATTAAATAATA
1 ATATTAAATAATA
23005 ACTAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.12
17 9 0.35
18 7 0.27
19 6 0.23
20 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATTAAATAATATATTA
Found at i:23001 original size:28 final size:28
Alignment explanation
Indices: 22955--23049 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 28
22945 AAATCATATG
*
22955 TATATTAAATAATAAAATATAAATTAAAAA
1 TATATT-AAT-ATTAAATATAAATTAAAAA
*
22985 TATATTAATATTAAATA-ATAACTAAAAA
1 TATATTAATATTAAATATA-AATTAAAAA
* *
23013 T-TATTAA-ATT-TATACTTATATTAAAAA
1 TATATTAATATTAAATA--TAAATTAAAAA
*
23040 TAAATTAATA
1 TATATTAATA
23050 AAATTAATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
25 3 0.06
26 3 0.06
27 15 0.28
28 22 0.42
29 4 0.08
30 6 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
TATATTAATATTAAATATAAATTAAAAA
Found at i:23011 original size:73 final size:72
Alignment explanation
Indices: 22902--23043 Score: 175
Period size: 73 Copynumber: 2.0 Consensus size: 72
22892 TTAAGGACAT
*
22902 TAAATTAAAATATTTATATAATAATAAATAATTAAAAATCATTAAA-TCATA-TGTATATTAAAT
1 TAAATTAAAATATTTATATAATAATAAATAACTAAAAATCATTAAATTCATACT-TATATTAAA-
22965 AATAAAATA
64 AATAAAATA
* * *
22974 TAAATTAAAAATATATTA-ATATTAA-ATAATAACTAAAAATTATTAAATTTATACTTATATTAA
1 TAAATT-AAAATAT-TTATATAATAATA-AATAACTAAAAATCATTAAATTCATACTTATATTAA
23037 AAATAAA
63 AAATAAA
23044 TTAATAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
72 7 0.11
73 37 0.61
74 16 0.26
75 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (72 bp):
TAAATTAAAATATTTATATAATAATAAATAACTAAAAATCATTAAATTCATACTTATATTAAAAA
TAAAATA
Found at i:23945 original size:8 final size:9
Alignment explanation
Indices: 23913--23988 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
23903 CTAAAAACTT
23913 TATTTAA-A
1 TATTTAATA
*
23921 GATTTAATA
1 TATTTAATA
*
23930 -A-TTCATA
1 TATTTAATA
23937 TATTTATATTA
1 TATTTA-A-TA
23948 TATTT-ATA
1 TATTTAATA
*
23956 TATTTTATTA
1 TA-TTTAATA
23966 TATTATAATCA
1 TATT-TAAT-A
23977 TATTTAATA
1 TATTTAATA
23986 TAT
1 TAT
23989 GTTTAAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
7 5 0.09
8 12 0.22
9 13 0.24
10 12 0.22
11 12 0.22
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (9 bp):
TATTTAATA
Found at i:24254 original size:15 final size:15
Alignment explanation
Indices: 24234--24264 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24224 AATTTAATTT
*
24234 AATTAATTATTTAAA
1 AATTAAATATTTAAA
24249 AATTAAATATTTAAA
1 AATTAAATATTTAAA
24264 A
1 A
24265 TTATTTTAAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAAATATTTAAA
Found at i:24286 original size:25 final size:25
Alignment explanation
Indices: 24238--24284 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24228 TAATTTAATT
24238 AATTATTTAAAAATTAAATATTTAA
1 AATTATTTAAAAATTAAATATTTAA
* *
24263 AATTATTTTAATATT-AATATTT
1 AATTATTTAAAAATTAAATATTT
24285 TATATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AATTATTTAAAAATTAAATATTTAA
Found at i:25906 original size:3 final size:3
Alignment explanation
Indices: 25898--25942 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
25888 TTTAACTTAA
25898 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25943 TAAATTGGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27519 original size:2 final size:2
Alignment explanation
Indices: 27514--27558 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
27504 AAAAAATCTT
27514 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
27556 TA T
1 TA T
27559 TATCTTCAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31125 original size:12 final size:13
Alignment explanation
Indices: 31108--31141 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
31098 CTTTTTAATT
31108 TTATATTATAAA-
1 TTATATTATAAAG
31120 TTATATTATAAAG
1 TTATATTATAAAG
31133 TTA-ATTATA
1 TTATATTATA
31142 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTATATTATAAAG
Found at i:31271 original size:2 final size:2
Alignment explanation
Indices: 31264--31300 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
31254 AGTTCTAGTT
31264 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
31301 TTTAAATATT
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:32181 original size:53 final size:52
Alignment explanation
Indices: 32103--32210 Score: 146
Period size: 53 Copynumber: 2.1 Consensus size: 52
32093 ATATGTAAAA
*
32103 TTTTTTTATTTGTACGTATATAAAAATTTTAAAATCTTAATGTTTACAATTTT
1 TTTTTTTATTTGTAAGTATATAAAAATTTTAAAATCTTAAT-TTTACAATTTT
* * * *
32156 TTTTTTTACTTT-TAAGTATTTAAAAATTTTTAAATTTTAATTTTATAATTTT
1 TTTTTTTA-TTTGTAAGTATATAAAAATTTTAAAATCTTAATTTTACAATTTT
32208 TTT
1 TTT
32211 AATCTTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 13 0.27
53 33 0.67
54 3 0.06
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (52 bp):
TTTTTTTATTTGTAAGTATATAAAAATTTTAAAATCTTAATTTTACAATTTT
Found at i:32218 original size:24 final size:25
Alignment explanation
Indices: 32156--32219 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
32146 TTACAATTTT
*
32156 TTTTTTTACTTTTAAGTATTTAAAA
1 TTTTTTTAATTTTAAGTATTTAAAA
* * *
32181 ATTTTTAAATTTTAA-T-TTTATAA
1 TTTTTTTAATTTTAAGTATTTAAAA
32204 TTTTTTTAATCTTTAA
1 TTTTTTTAAT-TTTAA
32220 AAATCTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 14 0.44
24 6 0.19
25 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTTAATTTTAAGTATTTAAAA
Found at i:32370 original size:26 final size:25
Alignment explanation
Indices: 32341--32462 Score: 92
Period size: 26 Copynumber: 4.9 Consensus size: 25
32331 TTTAATATTT
*
32341 AAATTAATATTTATACTTTTCAAAAA
1 AAATTAATATTTATAATTTT-AAAAA
32367 AAATTTAATATTTA-AATTTTAAAAA
1 AAA-TTAATATTTATAATTTTAAAAA
* *
32392 AAATTAAAATATTAATAAATTT---AA
1 AAATT--AATATTTATAATTTTAAAAA
** *
32416 ATCTTAATATTTATACTTTTTAAAAA
1 AAATTAATATTTATA-ATTTTAAAAA
* *
32442 AATTTAATATTTA-ATTTTTAA
1 AAATTAATATTTATAATTTTAA
32463 TATTTAAAAC
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
22 9 0.12
23 3 0.04
24 14 0.18
25 9 0.12
26 28 0.36
27 15 0.19
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTAATATTTATAATTTTAAAAA
Found at i:32494 original size:87 final size:82
Alignment explanation
Indices: 32370--32558 Score: 254
Period size: 87 Copynumber: 2.2 Consensus size: 82
32360 TCAAAAAAAA
*
32370 TTTAATATTTAAATTTTAAAAAAAATTAAAATATTAATAAATTTAAATCTTAATATTTATACTTT
1 TTTAATATTTAAAATTT-AAAAAAATTAAAATATTAATAAATTTAAATCTTAATATTTATAC-TT
32435 TTAAAAAAATTT-AATATTTAATT
64 TT-AAAAAATTTCAATA---AA-T
* * * *
32458 TTTAATATTTAAAACTTAAAAAAATTTAAATTTTAATAAATTTAAATTTTAATATTTATACTTTT
1 TTTAATATTTAAAATTTAAAAAAATTAAAATATTAATAAATTTAAATCTTAATATTTATACTTTT
*
32523 AAAAATTTTCAATAAAT
66 AAAAAATTTCAATAAAT
32540 TTTAATATTTAAAATTTAA
1 TTTAATATTTAAAATTTAA
32559 TACTTATATT
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
82 19 0.20
83 2 0.02
85 8 0.09
86 8 0.09
87 41 0.44
88 15 0.16
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (82 bp):
TTTAATATTTAAAATTTAAAAAAATTAAAATATTAATAAATTTAAATCTTAATATTTATACTTTT
AAAAAATTTCAATAAAT
Found at i:32500 original size:16 final size:16
Alignment explanation
Indices: 32376--32511 Score: 69
Period size: 16 Copynumber: 8.9 Consensus size: 16
32366 AAAATTTAAT
*
32376 ATTTAAATTTTAAAAAAA
1 ATTTAAATTTT--AATAA
* *
32394 ATTAAAATATTAATAA
1 ATTTAAATTTTAATAA
*
32410 ATTTAAATCTTAAT--
1 ATTTAAATTTTAATAA
*
32424 ATTTATACTTTT--TAA
1 ATTTA-AATTTTAATAA
*
32439 A---AAAATTTAAT--
1 ATTTAAATTTTAATAA
*
32450 ATTTAATTTTTAAT--
1 ATTTAAATTTTAATAA
* * *
32464 ATTTAAAACTTAAAAAA
1 ATTT-AAATTTTAATAA
32481 ATTTAAATTTTAATAA
1 ATTTAAATTTTAATAA
32497 ATTTAAATTTTAATA
1 ATTTAAATTTTAATA
32512 TTTATACTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
11 5 0.06
12 1 0.01
13 2 0.02
14 17 0.19
15 11 0.12
16 40 0.45
17 4 0.04
18 9 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAATTTTAATAA
Found at i:32527 original size:47 final size:46
Alignment explanation
Indices: 32370--32609 Score: 158
Period size: 47 Copynumber: 5.1 Consensus size: 46
32360 TCAAAAAAAA
* *
32370 TTTAATATTTA-AATTTTAAAAAAAATTA-AAATATTAATAAATTTAAAT
1 TTTAATATTTATACTTTT--AAAAAATTATAAATTTTAAT--ATTTAAAT
* * *
32418 CTTAATATTTATACTTTT--TAAA--A-AAA-TTTAATATTTAATT
1 TTTAATATTTATACTTTTAAAAAATTATAAATTTTAATATTTAAAT
* *
32458 TTTAATATTTAAAAC-TTAAAAAAATT-TAAATTTTAATAAATTTAAAT
1 TTTAATATTT-ATACTTTTAAAAAATTATAAATTTTAAT--ATTTAAAT
* *
32505 TTTAATATTTATACTTTTAAAAATTTTCAATAAATTTTAATATTTAAAA
1 TTTAATATTTATACTTTTAAAAA-ATT--ATAAATTTTAATATTTAAAT
* *
32554 TTTAATACTTATATTTTTTAAAAAATTAATATTTAAATTTTAATATTTAAAAT
1 TTTAATATTTATA-CTTTTAAAAAA-T--TA--TAAATTTTAATATTT-AAAT
32607 TTT
1 TTT
32610 TTTAAAAAAA
Statistics
Matches: 152, Mismatches: 18, Indels: 39
0.73 0.09 0.19
Matches are distributed among these distances:
40 18 0.12
41 3 0.02
42 8 0.05
43 4 0.03
44 3 0.02
45 9 0.06
46 3 0.02
47 24 0.16
48 12 0.08
49 24 0.16
50 11 0.07
51 11 0.07
52 16 0.11
53 6 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (46 bp):
TTTAATATTTATACTTTTAAAAAATTATAAATTTTAATATTTAAAT
Found at i:32528 original size:24 final size:23
Alignment explanation
Indices: 32458--32596 Score: 81
Period size: 24 Copynumber: 5.9 Consensus size: 23
32448 ATATTTAATT
* **
32458 TTTAATATTTAAAACTTAAAAAAA
1 TTTAATATTTATAA-TTTTAAAAA
* *
32482 TTTAA-ATTTTAATAAATTT-AAAT
1 TTTAATA-TTT-ATAATTTTAAAAA
*
32505 TTTAATATTTATACTTTTAAAAA
1 TTTAATATTTATAATTTTAAAAA
32528 TTTTCAATAAATTT-TAATATTT-AAAA
1 -TTT-AAT--ATTTATAAT-TTTAAAAA
* *
32554 TTTAATACTTATATTTTTTAAAAA
1 TTTAATATTTATA-ATTTTAAAAA
*
32578 ATTAATATTTA-AATTTTAA
1 TTTAATATTTATAATTTTAA
32597 TATTTAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
22 15 0.17
23 21 0.24
24 30 0.34
25 9 0.10
26 7 0.08
27 7 0.08
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAATATTTATAATTTTAAAAA
Found at i:32530 original size:16 final size:15
Alignment explanation
Indices: 32477--32530 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
32467 TAAAACTTAA
32477 AAAAATTTAAATTTT
1 AAAAATTTAAATTTT
32492 AATAAATTTAAATTTT
1 AA-AAATTTAAATTTT
* *
32508 -AATATTTATACTTTT
1 AAAAATTTA-AATTTT
32523 AAAAATTT
1 AAAAATTT
32531 TCAATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 19 0.58
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAAATTTAAATTTT
Found at i:32588 original size:38 final size:40
Alignment explanation
Indices: 32541--32618 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 40
32531 TCAATAAATT
*
32541 TTAATATTTAAAATTTAATACTT-ATA-TTTTTTAAAAAA
1 TTAATATTTAAAATTTAATACTTAAAATTTTTTTAAAAAA
* *
32579 TTAATATTTAAATTTTAATATTTAAAATTTTTTTAAAAAA
1 TTAATATTTAAAATTTAATACTTAAAATTTTTTTAAAAAA
32619 AATTTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 21 0.60
39 2 0.06
40 12 0.34
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (40 bp):
TTAATATTTAAAATTTAATACTTAAAATTTTTTTAAAAAA
Found at i:32900 original size:2 final size:2
Alignment explanation
Indices: 32893--32943 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
32883 CTTAGGAACC
32893 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
*
32935 AT GT AT AT A
1 AT AT AT AT A
32944 CAAAGATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37195 original size:21 final size:21
Alignment explanation
Indices: 37155--37218 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
37145 ATATGTAATG
* *
37155 TAATTAGATTTTTTTAAAAAAT
1 TAATTA-ATTATTATAAAAAAT
37177 TAATTAATTATTATAAAAAAT
1 TAATTAATTATTATAAAAAAT
*
37198 TAATAAATTATTA-AAATAAAT
1 TAATTAATTATTATAAA-AAAT
37219 ATTTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.08
21 29 0.76
22 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTAATTATTATAAAAAAT
Found at i:39748 original size:73 final size:72
Alignment explanation
Indices: 39661--39815 Score: 249
Period size: 73 Copynumber: 2.2 Consensus size: 72
39651 ATGTTTGACC
* *
39661 TTGGAAAAATTGTTAGTATATCCCTAAGGTTCGGCCAATTCACAAAAATGATCCTAAAATGCATA
1 TTGGAAAAAATGTTAGTATATCCCTAAGGTTCGGCCAATTCAC-AAAATGATCCTAAAATGCACA
39726 TAAACATT
65 TAAACATT
* * *
39734 TTGGAAAAAATGTTAGTATATCCTTAAGGTTCGGCCAATTCACAAAATGGTCCTAAAATGCACGT
1 TTGGAAAAAATGTTAGTATATCCCTAAGGTTCGGCCAATTCACAAAATGATCCTAAAATGCACAT
39799 AAACATT
66 AAACATT
39806 TT-GAAAAAAT
1 TTGGAAAAAAT
39816 TGCTAAGACC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 8 0.10
72 28 0.36
73 41 0.53
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (72 bp):
TTGGAAAAAATGTTAGTATATCCCTAAGGTTCGGCCAATTCACAAAATGATCCTAAAATGCACAT
AAACATT
Found at i:43789 original size:29 final size:29
Alignment explanation
Indices: 43747--43802 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
43737 AGGTATAGTC
**
43747 TTAATTTTTATTTAATAATAAAAATATTT
1 TTAATTTAAATTTAATAATAAAAATATTT
*
43776 TTAATTTAAATTTAATTATAAAAATAT
1 TTAATTTAAATTTAATAATAAAAATAT
43803 ATAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAATTTAAATTTAATAATAAAAATATTT
Found at i:43813 original size:29 final size:29
Alignment explanation
Indices: 43756--43813 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
43746 CTTAATTTTT
* *
43756 ATTTAATAATAAAAATATTTTTAATTTAA
1 ATTTAATAATAAAAATATTATAAATTTAA
*
43785 ATTTAATTATAAAAATA-TATAAATATTAA
1 ATTTAATAATAAAAATATTATAAAT-TTAA
43814 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
ATTTAATAATAAAAATATTATAAATTTAA
Found at i:44232 original size:5 final size:5
Alignment explanation
Indices: 44212--44284 Score: 59
Period size: 5 Copynumber: 15.4 Consensus size: 5
44202 CGTATCATAC
* *
44212 TTATA TTAT- TT-T- TTATA TTATA TTATA TT-T- TTATT TTATT TTA-A
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
44256 TAATA TTTATA TTATA TTCATA TTATA TT
1 TTATA -TTATA TTATA TT-ATA TTATA TT
44285 TAATATTACC
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
3 5 0.09
4 7 0.12
5 37 0.64
6 9 0.16
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (5 bp):
TTATA
Found at i:44239 original size:22 final size:21
Alignment explanation
Indices: 44212--44285 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
44202 CGTATCATAC
44212 TTATATTATTTTTTATATTATA
1 TTATATT-TTTTTTATATTATA
*
44234 TTATATTTTTATTT-TATTTTAA
1 TTATATTTTT-TTTATATTAT-A
* * *
44256 TAATATTTATATTATATTCATA
1 TTATATTTTTTTTATATT-ATA
44278 TTATATTT
1 TTATATTT
44286 AATATTACCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 10 0.24
22 31 0.74
23 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATATTTTTTTTATATTATA
Found at i:44272 original size:11 final size:11
Alignment explanation
Indices: 44224--44292 Score: 70
Period size: 11 Copynumber: 6.3 Consensus size: 11
44214 ATATTATTTT
44224 TTATA-TTATA
1 TTATATTTATA
*
44234 TTATATTTTTA
1 TTATATTTATA
*
44245 TTTTATTT-TAA
1 TTATATTTAT-A
*
44256 TAATATTTATA
1 TTATATTTATA
*
44267 TTATATTCATA
1 TTATATTTATA
44278 TTATATTTAATA
1 TTATATTT-ATA
44290 TTA
1 TTA
44293 CCATATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
10 6 0.12
11 35 0.73
12 7 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTTATA
Found at i:44519 original size:15 final size:14
Alignment explanation
Indices: 44495--44527 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
44485 ACATGATATT
44495 TTAA-TAAATATAA
1 TTAATTAAATATAA
44508 TATAATTAAATATAA
1 T-TAATTAAATATAA
44523 TTAAT
1 TTAAT
44528 AATAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 7 0.39
15 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAATTAAATATAA
Found at i:44855 original size:32 final size:33
Alignment explanation
Indices: 44826--44895 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
44816 AAAATATAAC
*
44826 AATATAAA-TA-T-ATATTTCAAAATTTATAT-
1 AATATAAATTATTAATATATCAAAATTTATATA
44855 AATATAAATTATTAATATATCAAAATTTATATA
1 AATATAAATTATTAATATATCAAAATTTATATA
44888 AATATAAA
1 AATATAAA
44896 ATACTTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 8 0.22
30 2 0.06
31 1 0.03
32 17 0.47
33 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (33 bp):
AATATAAATTATTAATATATCAAAATTTATATA
Found at i:44892 original size:18 final size:17
Alignment explanation
Indices: 44844--44897 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
44834 TATATATTTC
44844 AAAATTTATAT-AATAT
1 AAAATTTATATAAATAT
44860 -AAA-TTAT-TAATATAT
1 AAAATTTATATAA-ATAT
44875 CAAAATTTATATAAATAT
1 -AAAATTTATATAAATAT
44893 AAAAT
1 AAAAT
44898 ACTTTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 7 0.22
17 8 0.25
18 8 0.25
19 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:45299 original size:25 final size:25
Alignment explanation
Indices: 45269--45345 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
45259 AATATTTAAA
*
45269 ATATAATATTATATATATTTTTATAT
1 ATATAAAATTAT-TATATTTTTATAT
* *
45295 A-ATAAAAATTATT-TAATATTTAAAT
1 ATAT-AAAATTATTAT-ATTTTTATAT
45320 ATATAAAATTATTATA-TTTTATAT
1 ATATAAAATTATTATATTTTTATAT
45344 AT
1 AT
45346 TTTAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
24 9 0.21
25 22 0.52
26 11 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATAAAATTATTATATTTTTATAT
Found at i:45351 original size:25 final size:25
Alignment explanation
Indices: 45276--45353 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
45266 AAAATATAAT
* *
45276 ATTATATATATTTT-TATATAATAAAA
1 ATTAT-TATATTTTATATAT-TTTAAA
* *
45302 ATTATT-TAATATTTAAATA-TATAAA
1 ATTATTAT-AT-TTTATATATTTTAAA
45327 ATTATTATATTTTATATATTTTAAA
1 ATTATTATATTTTATATATTTTAAA
45352 AT
1 AT
45354 AAATTAAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 8 0.20
25 21 0.51
26 9 0.22
27 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTATTATATTTTATATATTTTAAA
Found at i:45437 original size:19 final size:19
Alignment explanation
Indices: 45424--45464 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
45414 ATTATTTTAT
45424 TTTAATATTTTTATTTAAA
1 TTTAATATTTTTATTTAAA
45443 TTTAATATTTTTATTTAAA
1 TTTAATATTTTTATTTAAA
45462 TTT
1 TTT
45465 TTTTAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATATTTTTATTTAAA
Found at i:49438 original size:18 final size:19
Alignment explanation
Indices: 49400--49442 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
49390 TTTATATTTA
49400 TTTAATAGTTAAAAGTAAT
1 TTTAATAGTTAAAAGTAAT
* *
49419 TTTAATATTTAAAA-TTAT
1 TTTAATAGTTAAAAGTAAT
49437 TTTAAT
1 TTTAAT
49443 TCAAATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTAATAGTTAAAAGTAAT
Found at i:53940 original size:39 final size:39
Alignment explanation
Indices: 53897--53976 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
53887 GAAAGTTACT
*
53897 AAAATTTAAAATTTAATTTGAATTAATTCGATCATTATC
1 AAAATTTAAAATTCAATTTGAATTAATTCGATCATTATC
53936 AAAATTTAAAATTCAATTTGAATTAATTCGATCATTATC
1 AAAATTTAAAATTCAATTTGAATTAATTCGATCATTATC
53975 AA
1 AA
53977 GCTTGAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (39 bp):
AAAATTTAAAATTCAATTTGAATTAATTCGATCATTATC
Found at i:54607 original size:214 final size:213
Alignment explanation
Indices: 54259--54652 Score: 635
Period size: 214 Copynumber: 1.8 Consensus size: 213
54249 AAATAATTTA
* ** * * *
54259 ATTTTTTATTTCAAACTAAGTTCAAAAATTTAAAAGTAAAATTCGAGCTAAAAATGAATTTGATG
1 ATTTTTTATCTCAAACTAAACTCAAAAATTTAAAAGTAAAATTCGAACTAAAAATGAATTTAATC
*
54324 GAGCTCAATGTTGCATGTTTGTATGTCTACTGACAAATAATGTAAAGCCAGCTACCACATTTGAC
66 GAGCTCAATGTTGCATGTTTGTATGTCTACTGACAAATAATGTAAAGCAAGCTACCACATTTGAC
*
54389 AAGCAATATCTTGCAATAAACACAATAAAAAATCTGCCATTGTAACAAAGAAAACCCTAATTGAT
131 AAGCAATATCTTGCAATAAACAAAATAAAAAATCTGCCATTGTAACAAAGAAAACCCTAATTGAT
54454 TTAAGTACAAACAATTCG
196 TTAAGTACAAACAATTCG
* * * * *
54472 ATTTTTTATCTCAAATTAAACTCAAAATTTTAAACGTAAAATTTGAACTAAAAGTGAAATTTAAT
1 ATTTTTTATCTCAAACTAAACTCAAAAATTTAAAAGTAAAATTCGAACTAAAAATG-AATTTAAT
* * *
54537 CGAGCTCGATGTTGCATGTTTGTGTGTCTAGTGACAAATAATGTAAAGCAAGCTACCACATTTGA
65 CGAGCTCAATGTTGCATGTTTGTATGTCTACTGACAAATAATGTAAAGCAAGCTACCACATTTGA
54602 CAAGCAATATCTTGCAATAAACAAAATAAAAAATCTGCCATTGTAACAAAG
130 CAAGCAATATCTTGCAATAAACAAAATAAAAAATCTGCCATTGTAACAAAG
54653 TAAGTGCCCT
Statistics
Matches: 164, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
213 47 0.29
214 117 0.71
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (213 bp):
ATTTTTTATCTCAAACTAAACTCAAAAATTTAAAAGTAAAATTCGAACTAAAAATGAATTTAATC
GAGCTCAATGTTGCATGTTTGTATGTCTACTGACAAATAATGTAAAGCAAGCTACCACATTTGAC
AAGCAATATCTTGCAATAAACAAAATAAAAAATCTGCCATTGTAACAAAGAAAACCCTAATTGAT
TTAAGTACAAACAATTCG
Found at i:63916 original size:52 final size:52
Alignment explanation
Indices: 63847--63966 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
63837 AAAATTTATT
* *
63847 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGTAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
63899 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
63951 TGCATGTATCGATACA
1 TGCATGTATCGATACA
63967 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:63979 original size:52 final size:51
Alignment explanation
Indices: 63847--63986 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
63837 AAAATTTATT
*
63847 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGTAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
* *
63899 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
*
63951 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
63987 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:63993 original size:13 final size:13
Alignment explanation
Indices: 63975--63999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63965 CAAAGATCAG
63975 TGTATCGATACAA
1 TGTATCGATACAA
63988 TGTATCGATACA
1 TGTATCGATACA
64000 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67175 original size:52 final size:52
Alignment explanation
Indices: 67094--67214 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
67084 TGAAAAGTTA
*
67094 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
67146 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
67198 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
67215 ATGTATCGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:67220 original size:13 final size:13
Alignment explanation
Indices: 67202--67227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67192 ATTTGCCTGC
67202 ATGTATCGATACA
1 ATGTATCGATACA
67215 ATGTATCGATACA
1 ATGTATCGATACA
67228 TGTGAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67311 original size:13 final size:13
Alignment explanation
Indices: 67293--67317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67283 CAAAAAAATA
67293 TGTATCGATACAT
1 TGTATCGATACAT
67306 TGTATCGATACA
1 TGTATCGATACA
67318 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67313 original size:33 final size:33
Alignment explanation
Indices: 67271--67337 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
67261 AGTAGCTTAA
67271 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
67304 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
67337 A
1 A
67338 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:67416 original size:21 final size:21
Alignment explanation
Indices: 67375--67416 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
67365 GTTGGGACCT
*
67375 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
67396 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
67417 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:68316 original size:171 final size:171
Alignment explanation
Indices: 68124--68518 Score: 700
Period size: 171 Copynumber: 2.3 Consensus size: 171
68114 TTTTAGAGAT
*
68124 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
68189 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
68254 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
68295 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
68360 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
68425 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
68466 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
68519 GTGCCAATGT
Statistics
Matches: 213, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 169 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:68341 original size:49 final size:49
Alignment explanation
Indices: 68195--68353 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
68185 AAAAGTGATA
* * * * *
68195 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
68246 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
68299 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
68348 ATGATG
1 AAGATG
68354 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:68575 original size:49 final size:49
Alignment explanation
Indices: 68366--69862 Score: 1036
Period size: 49 Copynumber: 30.9 Consensus size: 49
68356 AAAAGTGATA
* * * * * *
68366 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G
* * * *
68417 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 ---AA-GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G
* *
68471 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
1 AAGA--TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
68519 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68565 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68611 --G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68657 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
68706 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68755 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * * *
68804 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAGGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68853 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
68902 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
68945 AAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
** ** * * * * * ***
68994 AAGATGAGAA-AAG-TGA-TAAAGATGCCA-ATATGTT-GA-TTCATGGCC
1 AAGATGCCAATGTGCTGATTCAAG--GCCAGCTATATTGGACTTAAAGATG
* * ** * *
69039 AACGATATTGGGCCTAAAGATG-AGA-AAAAGG--ATG-TCA-ACGTGCTGA-TTCAAG--G
1 AA-G--A-T--GCC-AATG-TGCTGATTCAAGGCCA-GCT-ATA-TTG--GACTTAAAGATG
* * * * ** * * ** *
69092 CCAGCT-ACATTGAACTTAAAGA-TGAAGATGCCA-ATATGCT-GA-TTCAAG--G
1 -AAGATGCCAATGTGC-T---GATTCAAG--GCCAGCTATATTGGACTTAAAGATG
** * * **** * * **
69141 -CCA-GCGATAT-TG--GACTTAAAAATGATGATGAGAAAAGTGA--TAAAGATG
1 AAGATGCCA-ATGTGCTGA-TTCAAGGCCA-GCT-A-TATTG-GACTTAAAGATG
* * * * * *
69189 ------CCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G
* * * *
69234 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 ---AA-GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G
* *
69288 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
1 AAGA--TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
69336 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
69382 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
69428 --G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
69474 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
69523 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
69572 AAGATGCCAATATGCTGATTCAAGGCCAGCGATACTGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * * *
69621 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCGATATTGGACTTAAAGATA
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * * *
69670 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * * * *
69719 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAATGGTG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
69768 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1 AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G
* * *
69818 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 --AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
69863 GAGGGGTTGC
Statistics
Matches: 1158, Mismatches: 188, Indels: 196
0.75 0.12 0.13
Matches are distributed among these distances:
41 4 0.00
42 2 0.00
43 194 0.17
44 15 0.01
45 16 0.01
46 21 0.02
47 14 0.01
48 18 0.02
49 649 0.56
50 12 0.01
51 10 0.01
52 113 0.10
53 2 0.00
54 13 0.01
55 75 0.06
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
Found at i:69192 original size:171 final size:171
Alignment explanation
Indices: 68853--69334 Score: 709
Period size: 171 Copynumber: 2.9 Consensus size: 171
68843 CTTAAGGATG
* * * * *
68853 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
1 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
* * * * *
68912 TGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGATGCCAATGTGCTGAGTCAAGGC
66 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
* *
68971 CAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTGATA
131 CAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATA
*
69012 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
69077 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
66 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
* *
69142 CAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATA
131 CAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATA
69183 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
*
69248 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
66 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAA
69313 GGCCAGCTATATTGGACTTAAA
128 GGCCAGCTATATTGGACTTAAA
69335 GGTGCCAATG
Statistics
Matches: 290, Mismatches: 18, Indels: 15
0.90 0.06 0.05
Matches are distributed among these distances:
159 43 0.15
161 1 0.00
164 4 0.01
165 34 0.12
169 1 0.00
171 163 0.56
172 4 0.01
174 40 0.14
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (171 bp):
AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAAATGAAGATGAGAAAAGTGATA
Found at i:69707 original size:817 final size:819
Alignment explanation
Indices: 68127--69816 Score: 3177
Period size: 817 Copynumber: 2.1 Consensus size: 819
68117 TAGAGATGAT
* * * * *
68127 GAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTG
1 GAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTG
68192 ATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGT
66 ATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGT
68257 CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAA
131 CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAA
68322 GGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTC
196 GGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTC
68387 ATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCT
261 ATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCT
68452 ACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
326 ACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
68517 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
391 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
68582 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
456 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
68647 CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
521 CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
68712 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
586 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
* *
68777 AGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
651 AGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGG
* *
68842 ACTTAAGGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
716 ACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* *
68907 GCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-A
781 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
68945 -AAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTG
1 GAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTG
69009 ATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGT
66 ATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGT
69074 CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAA
131 CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAA
69139 GGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTC
196 GGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTC
69204 ATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCT
261 ATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCT
69269 ACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
326 ACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
69334 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
391 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
69399 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
456 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
69464 CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
521 CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
69529 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
586 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
*
69594 AGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGATATTGG
651 AGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGG
* * * *
69659 ACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGT
716 ACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
69724 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
781 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
*
69763 TGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 ----GAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
69817 GAAAAGGTGC
Statistics
Matches: 849, Mismatches: 17, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
817 800 0.94
818 1 0.00
823 48 0.06
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (819 bp):
GAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGTG
ATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGT
CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTC
ATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCT
ACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
AGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGG
ACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
Found at i:69957 original size:65 final size:65
Alignment explanation
Indices: 69868--70024 Score: 314
Period size: 65 Copynumber: 2.4 Consensus size: 65
69858 GCTTAGAGGG
69868 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
69933 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
1 GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
69998 GTTGCCACCGACTTGTGTGGGCTTTGG
1 GTTGCCACCGACTTGTGTGGGCTTTGG
70025 GAAGGAAAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 92 1.00
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.29
Consensus pattern (65 bp):
GTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGA
Found at i:70028 original size:32 final size:33
Alignment explanation
Indices: 69867--70024 Score: 270
Period size: 33 Copynumber: 4.8 Consensus size: 33
69857 GGCTTAGAGG
69867 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
69900 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
69933 -GTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
69965 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
69998 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
70025 GAAGGAAAAA
Statistics
Matches: 121, Mismatches: 0, Indels: 10
0.92 0.00 0.08
Matches are distributed among these distances:
31 7 0.06
32 51 0.42
33 53 0.44
34 10 0.08
ACGTcount: A:0.16, C:0.19, G:0.36, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:70073 original size:34 final size:35
Alignment explanation
Indices: 70033--71080 Score: 553
Period size: 34 Copynumber: 29.7 Consensus size: 35
70023 GGGAAGGAAA
*
70033 AAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* * *
70067 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
*
70102 AAAAAG-GTGCCATGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* ** * * *
70138 AAAGAGAGTGCCACAAAGTCGTAGGTGC-CACAGAGTTGTGGG
1 AAAAAGAGTGCCACGGAGTTGT-GG-GCTTA-A-A----AGGG
* *
70180 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAA-GG
1 ----AAAA---AGA-GTGCCACGGAGTTGTGGGCTTAAAAGGG
*
70222 AAAAAGAGTGCCACGGAGTTGTGGGCTT------T
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
70251 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * * *
70286 AAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGG
1 AAAAAGAG-TGCCACGGA-GT-TGTGGGC-TTA-AAAGGG
* *
70325 AGAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
70359 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
70393 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* **
70429 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
70464 AAAAAG-GTGCCACAGAGTTATGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* *
70498 AAGAAAGAGTGCCACGAAGTTATGGGCTTTAAAA--G
1 AA-AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
*
70533 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
*
70567 AAGAAG-GTGCCACGGAGTTGTGGGCTTTTAAAA---
1 AAAAAGAGTGCCACGGAGTTGTGGGC--TTAAAAGGG
*
70600 AAGAAGA-TGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* ** * * *
70636 AAAGAGAGTGCCACAAAGTCGTAGGTGC-CACAGAGTTGTGGG
1 AAAAAGAGTGCCACGGAGTTGT-GG-GCTTA-A-A----AGGG
* * *
70678 CTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGACTT-AAAGATG
1 ----AAAAAG----A-GTGCCACGGAGTTGTGGGCTTAAAAG-GG
70722 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
*
70756 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * *
70790 AAGAAG-GTGCCACGGAGTTGTGGACTT-AAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GG
70824 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * *
70858 AAGAAG-GTGCCACGGAGTTGTGGACTT-AAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GG
70892 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
*
70926 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
*
70960 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * *
70994 AAGAAG-GTGCCACAGAGTTGTGGGCTTTAAA-GG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
*
71027 -AAAAG-GTGCCACGGAGTTGTGGGCTTAGAA-GG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
71059 -AAAA-AGTGCCACTGAGTCGTGG
1 AAAAAGAGTGCCACGGAGTTGTGG
71081 ACTTTGAGAC
Statistics
Matches: 837, Mismatches: 84, Indels: 188
0.75 0.08 0.17
Matches are distributed among these distances:
29 26 0.03
30 2 0.00
31 6 0.01
32 53 0.06
33 77 0.09
34 361 0.43
35 99 0.12
36 62 0.07
37 65 0.08
38 18 0.02
39 9 0.01
40 4 0.00
42 8 0.01
43 1 0.00
44 1 0.00
46 7 0.01
47 2 0.00
48 3 0.00
49 6 0.01
50 15 0.02
51 12 0.01
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (35 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:70197 original size:33 final size:33
Alignment explanation
Indices: 70160--70631 Score: 535
Period size: 33 Copynumber: 13.8 Consensus size: 33
70150 ACAAAGTCGT
*
70160 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
70193 AGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAA
*
70226 AGAGTGCCACGGAGTTGTGGGCTTT--AA-AAAG
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
70257 A-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
* * * *
70290 AGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAA
1 AGG-TGCCACGGA-GT-TGTGGGCTTTA--AA-AGAAAA
* *
70329 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAA
70363 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
70397 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAA
70433 AGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAA
* *
70468 AGGTGCCACAGAGTTATGGGCTTTGAAAAGAAGAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA-AA
* * *
70503 AGAGTGCCACGAAGTTATGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
70537 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
70571 AGGTGCCACGGAGTTGTGGGCTTTTAAAA-AAGA
1 AGGTGCCACGGAGTTGTGGGC-TTTAAAAGAAAA
*
70604 AGATGCCACGGAGTTGTGGGCTTTAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA
70632 AGGGAAAGAG
Statistics
Matches: 384, Mismatches: 27, Indels: 57
0.82 0.06 0.12
Matches are distributed among these distances:
29 22 0.06
31 4 0.01
32 13 0.03
33 100 0.26
34 98 0.26
35 54 0.14
36 44 0.11
37 34 0.09
38 10 0.03
39 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:70209 original size:121 final size:120
Alignment explanation
Indices: 70040--70755 Score: 341
Period size: 137 Copynumber: 5.8 Consensus size: 120
70030 AAAAAAAAGA
* *
70040 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGAAA
1 TGCCACAGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA-GAAA
* *
70104 AAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTCGTAGG
62 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTAGTAGG
*
70163 TGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAA
1 TGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA-AAGAAAAAA
** * * * *
70227 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA-AAAGAAGAA
65 G-GTGCCACGGAGTTGTGGGCTTTAAAAAG-G-G--AAAGAG-AGT--GC---CACAAAGTAGTA
70291 GG
119 GG
* * * * * * *
70293 TTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 -TGCCACAGA-GT-TGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-G
* * ** *
70358 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTTGT-GG
59 AAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTAGTAGG
** ** *
70416 -G---C----TT-T--G--AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAA
1 TGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAGA-AAAA
* * * * * *
70468 AGGTGCCACAGAGTTATGGGCTTTGAAAA--GAAGAAAGAGTGCCACGAAGTTA-TGGG
64 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA-AGAGAGTGCCACAAAG-TAGTAGG
*** * * * * *** *
70524 CTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTG
1 ---TGCCA-CAG-AGTTG---TGG-GCT-T----TAAAAGA--AA-AAGGTGCCACGGAGTTGTG
* *
70589 GGCTTTTAAA-AAAGAAGATGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAA
49 GGC-TTTAAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAA
*
70653 GTCGTAGG
113 GTAGTAGG
* *
70661 TGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAA
1 TGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA--AAA
* *
70725 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAG
63 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
70756 AAGAAGGTGC
Statistics
Matches: 450, Mismatches: 76, Indels: 135
0.68 0.11 0.20
Matches are distributed among these distances:
104 27 0.06
105 36 0.08
106 4 0.01
107 12 0.03
108 3 0.01
109 1 0.00
111 1 0.00
112 1 0.00
113 1 0.00
118 1 0.00
119 5 0.01
120 11 0.02
121 71 0.16
122 39 0.09
123 21 0.05
124 11 0.02
125 4 0.01
126 4 0.01
127 1 0.00
128 7 0.02
129 2 0.00
130 11 0.02
131 9 0.02
132 6 0.01
133 13 0.03
134 2 0.00
135 4 0.01
136 58 0.13
137 72 0.16
138 12 0.03
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (120 bp):
TGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAAAAAG
GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTAGTAGG
Found at i:71101 original size:30 final size:31
Alignment explanation
Indices: 71001--71150 Score: 162
Period size: 32 Copynumber: 4.8 Consensus size: 31
70991 AAGAAGAAGG
* * * *
71001 TGCCACAGAGTTGTGGGCTTTAAAGGAAAAGG
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAA-A
* * *
71033 TGCCACGGAGTTGTGGGC-TTAGAAGGAAAAA
1 TGCCACTGAGTCGTGGACTTTA-AAGGAAAAA
*
71064 GTGCCACTGAGTCGTGGACTTT-GA-GACAAAA
1 -TGCCACTGAGTCGTGGACTTTAAAGGA-AAAA
71095 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAA-A
71127 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
71151 AAGGTATTTG
Statistics
Matches: 104, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
30 23 0.22
31 12 0.12
32 67 0.64
33 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAA
Found at i:72101 original size:16 final size:16
Alignment explanation
Indices: 72082--72113 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72072 TTTCCTCTCT
*
72082 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
72098 TTTTGTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
72114 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:72378 original size:12 final size:11
Alignment explanation
Indices: 72360--72403 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
72350 TTTCTTCTTT
72360 TTTTTTTTTTG
1 TTTTTTTTTTG
*
72371 TGTTTTTTTTG
1 TTTTTTTTTTG
*
72382 TTTGTTTGTTTG
1 TTT-TTTTTTTG
72394 TTTTTTTTTT
1 TTTTTTTTTT
72404 CCATCACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:80187 original size:3 final size:3
Alignment explanation
Indices: 80179--80212 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
80169 GAGATAAAAT
* *
80179 TTA TTA TTA TGA TTA TTA TTT TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
80213 GTTTGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:81181 original size:2 final size:2
Alignment explanation
Indices: 81174--81214 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
81164 CCATCTGTAA
81174 AT AT 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 AT AT A
81215 AACCTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82398 original size:68 final size:68
Alignment explanation
Indices: 82318--82453 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
82308 TAAACCAATT
82318 CTAACATGATATGTATATTTTATATTTCATTGCAATTCTATGTTCTCTTTCTTTTATATGATGTA
1 CTAACATGATATGTATATTTTATATTTCATTGCAATTCTATGTTCTCTTTCTTTTATATGATGTA
82383 CCA
66 CCA
* *
82386 CTAACATGATATGTATATTTTATATTTCATTGCAATTTTATGTTCTCTTTTTTTTATATGATGTA
1 CTAACATGATATGTATATTTTATATTTCATTGCAATTCTATGTTCTCTTTCTTTTATATGATGTA
82451 CCA
66 CCA
82454 AAACAGATTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.51
Consensus pattern (68 bp):
CTAACATGATATGTATATTTTATATTTCATTGCAATTCTATGTTCTCTTTCTTTTATATGATGTA
CCA
Found at i:87060 original size:26 final size:25
Alignment explanation
Indices: 87031--87113 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 25
87021 ACATATCAAT
87031 TATTTTTTTATAAATATTATAATTTA
1 TATTTTTTTATAAAT-TTATAATTTA
* * *
87057 TATTATATTAT--ATTTAAAATATTA
1 TATTTTTTTATAAATTTATAAT-TTA
*
87081 TA-TTTTATATAAATTTTAATATATTTA
1 TATTTTTTTATAAA-TTT-ATA-ATTTA
87108 TATTTT
1 TATTTT
87114 ATGTTATATC
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
23 11 0.26
24 7 0.16
25 1 0.02
26 12 0.28
27 7 0.16
28 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTTTTTATAAATTTATAATTTA
Found at i:87061 original size:12 final size:12
Alignment explanation
Indices: 87044--87179 Score: 68
Period size: 11 Copynumber: 12.4 Consensus size: 12
87034 TTTTTTATAA
87044 ATATTATAATTT
1 ATATTATAATTT
87056 ATATTAT-A-TT
1 ATATTATAATTT
*
87066 ATATT-TAA--A
1 ATATTATAATTT
*
87075 ATATTATATTTT
1 ATATTATAATTT
87087 ATA-TA-AATTT
1 ATATTATAATTT
*
87097 -TAATAT-ATTT
1 ATATTATAATTT
*
87107 ATATT-TTATGTT
1 ATATTATAAT-TT
*
87119 ATATCATAATGTT
1 ATATTATAAT-TT
87132 -TATTAT-ATTT
1 ATATTATAATTT
* *
87142 TTATTAT-TTTT
1 ATATTATAATTT
*
87153 A-ATTATATTTT
1 ATATTATAATTT
*
87164 TTATTAT-ATTT
1 ATATTATAATTT
87175 ATATT
1 ATATT
87180 TATCATTATA
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
9 8 0.08
10 28 0.29
11 30 0.31
12 26 0.27
13 6 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (12 bp):
ATATTATAATTT
Found at i:87080 original size:14 final size:15
Alignment explanation
Indices: 87037--87085 Score: 64
Period size: 14 Copynumber: 3.2 Consensus size: 15
87027 CAATTATTTT
87037 TTTATAAATATTATAA
1 TTTATAAATATTAT-A
*
87053 TTTATATTATATTATA
1 TTTATA-AATATTATA
87069 TTTA-AAATATTATA
1 TTTATAAATATTATA
87083 TTT
1 TTT
87086 TATATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.37
15 1 0.03
16 11 0.37
17 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAAATATTATA
Found at i:87093 original size:19 final size:19
Alignment explanation
Indices: 87056--87093 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
87046 ATTATAATTT
*
87056 ATATTATATTATATTTAAA
1 ATATTATATTATATATAAA
*
87075 ATATTATATTTTATATAAA
1 ATATTATATTATATATAAA
87094 TTTTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATTATATATAAA
Found at i:87114 original size:16 final size:15
Alignment explanation
Indices: 87044--87114 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 15
87034 TTTTTTATAA
*
87044 ATATTATAATTTATATT
1 ATATTAT-ATTT-TAAT
*
87061 ATATTATA-TTTAAA
1 ATATTATATTTTAAT
87075 ATATTATATTTT-AT
1 ATATTATATTTTAAT
87089 ATA--A-ATTTTAAT
1 ATATTATATTTTAAT
87101 ATATTTATATTTTA
1 ATA-TTATATTTTA
87115 TGTTATATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
11 5 0.11
12 6 0.13
14 14 0.31
15 6 0.13
16 7 0.16
17 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTATATTTTAAT
Found at i:87164 original size:13 final size:12
Alignment explanation
Indices: 87130--87174 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
87120 TATCATAATG
87130 TTTATTATA-TT
1 TTTATTATATTT
87141 TTTA-T-TATTT
1 TTTATTATATTT
*
87151 TTAATTATATTT
1 TTTATTATATTT
87163 TTTATTATATTT
1 TTTATTATATTT
87175 ATATTTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 2 0.07
10 6 0.21
11 5 0.17
12 16 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATATTT
Found at i:87187 original size:18 final size:18
Alignment explanation
Indices: 87155--87190 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
87145 TTATTTTTAA
* *
87155 TTATATTTTTTATTATAT
1 TTATATTTATCATTATAT
87173 TTATATTTATCATTATAT
1 TTATATTTATCATTATAT
87191 AAATATTAAA
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:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATTTATCATTATAT
Found at i:87386 original size:7 final size:7
Alignment explanation
Indices: 87366--87402 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
87356 ATCTTTTATA
87366 TAAATAT
1 TAAATAT
87373 ATAAATAT
1 -TAAATAT
87381 TAAATAT
1 TAAATAT
87388 TAAATAT
1 TAAATAT
87395 TAAATAT
1 TAAATAT
87402 T
1 T
87403 TTATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATAT
Found at i:87419 original size:17 final size:16
Alignment explanation
Indices: 87397--87457 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
87387 TTAAATATTA
87397 AATATTTTATTATTTTT
1 AATA-TTTATTATTTTT
*
87414 AATATTTAAT-TTTTT
1 AATATTTATTATTTTT
*
87429 AA-ATTTATTA-ATTT
1 AATATTTATTATTTTT
87443 AATAATTTA-TATTTT
1 AAT-ATTTATTATTTT
87458 ATTTATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
14 11 0.31
15 9 0.25
16 12 0.33
17 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATATTTATTATTTTT
Found at i:87439 original size:24 final size:25
Alignment explanation
Indices: 87385--87465 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 25
87375 AAATATTAAA
*
87385 TATTAAATATTAAATATTTTATTATT
1 TATT-AATATTAAATATTTTATAATT
* *
87411 T-TTAATATTTAATTTTTTA-AATT
1 TATTAATATTAAATATTTTATAATT
* *
87434 TATTAAT-TT-AATAATTTATATTT
1 TATTAATATTAAATATTTTATAATT
*
87457 TATTTATAT
1 TATTAATAT
87466 ATATTATAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
22 7 0.16
23 15 0.33
24 20 0.44
25 2 0.04
26 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTAATATTAAATATTTTATAATT
Found at i:87527 original size:9 final size:9
Alignment explanation
Indices: 87513--87578 Score: 53
Period size: 9 Copynumber: 6.8 Consensus size: 9
87503 TAAATTAATA
87513 ATTTATATT
1 ATTTATATT
87522 ATTTATATT
1 ATTTATATT
87531 ATATTACTATT
1 AT-TTA-TATT
*
87542 ATTTTATTTAT
1 A-TTTATAT-T
87553 ATTTA-ATT
1 ATTTATATT
87561 ATTTTTATATT
1 A--TTTATATT
*
87572 TTTTATA
1 ATTTATA
87579 ATAATAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
8 2 0.04
9 18 0.38
10 13 0.28
11 13 0.28
12 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTATATT
Found at i:87541 original size:6 final size:5
Alignment explanation
Indices: 87515--87555 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
87505 AATTAATAAT
*
87515 TTATA TTAT- TTATA TTATA TTACTA TTATT TTAT- TTATA TT
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TT
87556 TAATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 8 0.25
5 19 0.59
6 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (5 bp):
TTATA
Found at i:87566 original size:20 final size:21
Alignment explanation
Indices: 87513--87568 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
87503 TAAATTAATA
*
87513 ATTTATATTATTTATA-TTAT
1 ATTTATATTATTTTTATTTAT
87533 A-TTACTATTA-TTTTATTTAT
1 ATTTA-TATTATTTTTATTTAT
87553 ATTTA-ATTATTTTTAT
1 ATTTATATTATTTTTAT
87569 ATTTTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 11 0.35
20 17 0.55
21 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTATATTATTTTTATTTAT
Found at i:89082 original size:19 final size:20
Alignment explanation
Indices: 89051--89100 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
89041 AAAATTATGT
*
89051 TTATATTAT-TTTTTTA-TA
1 TTATATTATATTTTTAATTA
*
89069 TTATATTGTA-TTTTAATTA
1 TTATATTATATTTTTAATTA
*
89088 TTATATTTTATTT
1 TTATATTATATTT
89101 CATGTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.50
19 11 0.42
20 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATATTATATTTTTAATTA
Found at i:89149 original size:19 final size:19
Alignment explanation
Indices: 89125--89161 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
89115 TCCAATATAG
89125 TTTAAAATATATTTTTTAA
1 TTTAAAATATATTTTTTAA
89144 TTTAAAATATATTTTTTA
1 TTTAAAATATATTTTTTA
89162 TGCCTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAAAATATATTTTTTAA
Found at i:91913 original size:2 final size:2
Alignment explanation
Indices: 91906--91942 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
91896 GTAAGTTTCA
91906 TC TC TC 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 TC TC TC T
91943 ATATATATAT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:91947 original size:2 final size:2
Alignment explanation
Indices: 91942--91972 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91932 TCTCTCTCTC
91942 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 T
91973 GCACTATGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92959 original size:17 final size:17
Alignment explanation
Indices: 92939--92975 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
92929 ATTAGTGCGA
92939 GACACATACCCGTA-TCC
1 GACACATACCC-TAGTCC
92956 GACACATACCCTAGTCC
1 GACACATACCCTAGTCC
92973 GAC
1 GAC
92976 TAACATTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.30, C:0.41, G:0.14, T:0.16
Consensus pattern (17 bp):
GACACATACCCTAGTCC
Found at i:96218 original size:108 final size:106
Alignment explanation
Indices: 95991--96250 Score: 270
Period size: 115 Copynumber: 2.3 Consensus size: 106
95981 TTCACCGGAT
* * *
95991 CAGAATACAAAATTATCATATTTGGTTCATTAGAAATATAACTGAGTCGTTAAACTCGGAGCTTA
1 CAGAATACAAAATTATCATATTTGGTTCATTAGAAACATAACTGAATCGCTAAACTCGGAGCTTA
* * *
96056 GCGTAATTGATTCATGTATAATTTTTTGTTTGGTTGATCAGAT
66 GCGTAATTAATTCATGTATAATTTTTTATTTGGTT-AT-AGAG
* * *
96099 CAGAATACAAAATTATCATATTTGGTTCATTAGAAACGTAACTATGAATCGCTAAATTCGGAGTT
1 CAGAATACAAAATTATCATATTTGGTTCATTAGAAACATAAC--TGAATCGCTAAACTCGGAGCT
* * *
96164 TAGCTTACTTAATTCATGTGAGTATCCATTTTTTATTTGGTT-TGGCAGAT
64 TAGCGTAATTAATTCATGT-A-TA---ATTTTTTATTTGGTTAT---AGAG
* *
96214 CAAAATACAAAATTATTATATTTGGTTCATTTAGAAA
1 CAGAATACAAAATTATCATATTTGGTTCA-TTAGAAA
96251 TGTAACTATG
Statistics
Matches: 130, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
108 40 0.31
110 33 0.25
111 1 0.01
112 2 0.02
113 1 0.01
115 46 0.35
116 7 0.05
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (106 bp):
CAGAATACAAAATTATCATATTTGGTTCATTAGAAACATAACTGAATCGCTAAACTCGGAGCTTA
GCGTAATTAATTCATGTATAATTTTTTATTTGGTTATAGAG
Found at i:96240 original size:115 final size:114
Alignment explanation
Indices: 95962--96263 Score: 359
Period size: 108 Copynumber: 2.7 Consensus size: 114
95952 TGATAGTAAT
** *
95962 GTATCCGA-TTTTTATTTGGTTCACCGGATCAGAATACAAAATTATCATATTTGGTTCATTAGAA
1 GTATCC-ATTTTTTATTTGGTTTGCCAGATCAGAATACAAAATTATCATATTTGGTTCATTAGAA
* * * *
96026 ATATAAC--TGAGTCGTTAAACTCGGAGCTTAGCGTAATTGATTCATGTA
65 ATGTAACTATGAATCGCTAAACTCGGAGCTTAGCGTAATTAATTCATGTA
* *
96074 -TA---ATTTTTTGTTTGG-TTGATCAGATCAGAATACAAAATTATCATATTTGGTTCATTAGAA
1 GTATCCATTTTTTATTTGGTTTG-CCAGATCAGAATACAAAATTATCATATTTGGTTCATTAGAA
* * * * *
96134 ACGTAACTATGAATCGCTAAATTCGGAGTTTAGCTTACTTAATTCATGTGA
65 ATGTAACTATGAATCGCTAAACTCGGAGCTTAGCGTAATTAATTCATGT-A
* * *
96185 GTATCCATTTTTTATTTGGTTTGGCAGATCAAAATACAAAATTATTATATTTGGTTCATTTAGAA
1 GTATCCATTTTTTATTTGGTTTGCCAGATCAGAATACAAAATTATCATATTTGGTTCA-TTAGAA
96250 ATGTAACTATGAAT
65 ATGTAACTATGAAT
96264 TGTTAAACCC
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
107 2 0.01
108 54 0.34
110 33 0.21
111 3 0.02
112 2 0.01
115 44 0.28
116 22 0.14
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (114 bp):
GTATCCATTTTTTATTTGGTTTGCCAGATCAGAATACAAAATTATCATATTTGGTTCATTAGAAA
TGTAACTATGAATCGCTAAACTCGGAGCTTAGCGTAATTAATTCATGTA
Found at i:96821 original size:16 final size:16
Alignment explanation
Indices: 96797--96844 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
96787 TTATATAAAA
*
96797 ATATGTTGAAATTTAT
1 ATATATTGAAATTTAT
*
96813 ATATATTG-AATTATAA
1 ATATATTGAAATT-TAT
*
96829 ATATATTAAAATTTAT
1 ATATATTGAAATTTAT
96845 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATATTGAAATTTAT
Found at i:96900 original size:16 final size:17
Alignment explanation
Indices: 96872--96906 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
96862 ACTGAAATTG
96872 TTCCATCGGAACAACGT
1 TTCCATCGGAACAACGT
96889 TTCCAT-GGAACAACGT
1 TTCCATCGGAACAACGT
96905 TT
1 TT
96907 TGTCGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (17 bp):
TTCCATCGGAACAACGT
Found at i:98147 original size:19 final size:20
Alignment explanation
Indices: 98106--98152 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
98096 TTTCTTTAGT
98106 GTATATA-ATATAATATTCA
1 GTATATATATATAATATTCA
98125 -TATATATATATAATATT-A
1 GTATATATATATAATATTCA
*
98143 GTATACATAT
1 GTATATATAT
98153 TTTAATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
GTATATATATATAATATTCA
Found at i:99332 original size:20 final size:19
Alignment explanation
Indices: 99303--99346 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
99293 AATATCTCTT
99303 AAAAAGAATTCATCCTTTTA
1 AAAAAGAATT-ATCCTTTTA
* **
99323 AAAAATAATTATTTTTTTA
1 AAAAAGAATTATCCTTTTA
99342 AAAAA
1 AAAAA
99347 ATTATTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAAGAATTATCCTTTTA
Found at i:99977 original size:17 final size:17
Alignment explanation
Indices: 99957--100012 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
99947 TTAGAAATTA
99957 TAAAAATTATATTTAAT
1 TAAAAATTATATTTAAT
* *
99974 TAAACAATAAATATGT-AT
1 TAAA-AAT-TATATTTAAT
99992 T-AAAATTATATTTATAT
1 TAAAAATTATATTTA-AT
100009 TAAA
1 TAAA
100013 TAATAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 9 0.30
18 8 0.27
19 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAAAATTATATTTAAT
Found at i:100909 original size:14 final size:14
Alignment explanation
Indices: 100869--100911 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
100859 ACTTATATTA
*
100869 TAATTTTT-AAATT
1 TAATTTTTAAAAAT
100882 TAATTTTTATAAAAT
1 TAATTTTTA-AAAAT
*
100897 TATTTTTTAAAAAT
1 TAATTTTTAAAAAT
100911 T
1 T
100912 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.31
14 6 0.23
15 12 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTTTTAAAAAT
Found at i:100967 original size:25 final size:24
Alignment explanation
Indices: 100939--100987 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
100929 ACTAAATTTA
* *
100939 TTTTATTAAGTATACTTAACATATT
1 TTTTAATAAGTATA-TTAAAATATT
*
100964 TTTTAATAATTATATTAAAATATT
1 TTTTAATAAGTATATTAAAATATT
100988 ATATATCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAATAAGTATATTAAAATATT
Found at i:101034 original size:21 final size:21
Alignment explanation
Indices: 101001--101057 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
100991 TATCTATTTT
*
101001 TATATAATAAAAATTAATAAA
1 TATATAATAAAAACTAATAAA
*
101022 TATA-AATATAAAACTAATATAT
1 TATATAATA-AAAACTAATA-AA
101044 TATATAATTAAAAA
1 TATATAA-TAAAAA
101058 TAAGTCGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.13
21 13 0.43
22 5 0.17
23 6 0.20
24 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TATATAATAAAAACTAATAAA
Found at i:102778 original size:15 final size:16
Alignment explanation
Indices: 102735--102783 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
102725 ATATTATAAA
102735 AATATATTATAATTTATT
1 AATATA-TATAA-TTATT
* *
102753 TATAAATATAATT-TT
1 AATATATATAATTATT
102768 AATATATATAATTATT
1 AATATATATAATTATT
102784 TTATACATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.50
16 4 0.15
17 5 0.19
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATATATAATTATT
Found at i:102859 original size:63 final size:61
Alignment explanation
Indices: 102723--102888 Score: 150
Period size: 63 Copynumber: 2.8 Consensus size: 61
102713 TATTTTAATT
* * * * *
102723 TAATATTATAAAAATATATTATAATTTATTTATAAATATAATTTTAATATATATAATTATT
1 TAATATTATTAAAATATAGTATAATATATATATAAATATAATTTTAATATATATAATTATC
* * *
102784 TTATA-CATTTAAAATATTAGTATATATATATATATACATATATGATTTTAATATATAT-A-TAT
1 TAATATTA-TTAAAATA-TAGTATA-ATATATATATA-A-ATATAATTTTAATATATATAATTAT
102846 C
61 C
*
102847 TAATATTATTAAAA-ATA-TA-AATAAATATATAAA-AT-ATTTTAA
1 TAATATTATTAAAATATAGTATAATATATATATAAATATAATTTTAA
102889 AAGATAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
54 7 0.08
55 2 0.02
56 1 0.01
57 1 0.01
58 10 0.11
59 1 0.01
60 3 0.03
61 13 0.15
62 7 0.08
63 22 0.25
64 3 0.03
65 18 0.20
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (61 bp):
TAATATTATTAAAATATAGTATAATATATATATAAATATAATTTTAATATATATAATTATC
Found at i:103411 original size:28 final size:27
Alignment explanation
Indices: 103341--103404 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
103331 TATGAATATG
* *
103341 ATATAAAAA-ATTA-AAATATAATTTA
1 ATATAAAAATAATATAAATAAAATTTA
103366 ATATAAAAATAATATAAATAAAATATTA
1 ATATAAAAATAATATAAATAAAAT-TTA
*
103394 ATATATAAATA
1 ATATAAAAATA
103405 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.27
26 3 0.09
27 8 0.24
28 13 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
ATATAAAAATAATATAAATAAAATTTA
Found at i:103427 original size:40 final size:41
Alignment explanation
Indices: 103335--103428 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 41
103325 ATATTATATG
* *
103335 AATATGATATAAAAAATTAAAATATAATTTAATATAAAAAT
1 AATATAATATAAAAAATTAAAATATAATATAATATAAAAAT
* * * * *
103376 AATATAA-ATAAAATATTAATATATAA-ATATTTTAAAATT
1 AATATAATATAAAAAATTAAAATATAATATAATATAAAAAT
*
103415 TATATAATATAAAA
1 AATATAATATAAAA
103429 CTATAACATA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 15 0.34
40 23 0.52
41 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (41 bp):
AATATAATATAAAAAATTAAAATATAATATAATATAAAAAT
Found at i:103686 original size:13 final size:13
Alignment explanation
Indices: 103668--103707 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
103658 TTGACATATA
103668 TTTAAATATAAAT
1 TTTAAATATAAAT
103681 TTTAAAATATAATAT
1 TTT-AAATATAA-AT
*
103696 TCTAAATATAAA
1 TTTAAATATAAA
103708 ATAATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTAAATATAAAT
Found at i:104596 original size:41 final size:41
Alignment explanation
Indices: 104550--104680 Score: 131
Period size: 41 Copynumber: 3.1 Consensus size: 41
104540 ATTTTGATAC
104550 ATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATAT
1 ATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATAT
* * * * ** ** *
104591 ATTAAT-GTTGTGATTTCTTTTTATGTTTTTTCG-TATTTGATAC
1 ATTAATAATT-TGA-GT-TATATAAATTTTTGAGATATTT-ATAT
104634 ATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATAT
1 ATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATAT
104675 ATTAAT
1 ATTAAT
104681 GTTGTGATTT
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.03
41 28 0.42
42 12 0.18
43 22 0.33
44 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (41 bp):
ATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATAT
Found at i:104636 original size:84 final size:84
Alignment explanation
Indices: 104542--104712 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
104532 TTATATAAAT
104542 TTTGATACATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATATATTAATGTTGTGATTT
1 TTTGATACATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATATATTAATGTTGTGATTT
104607 CTTTTTATGTTTTTTCGTA
66 CTTTTTATGTTTTTTCGTA
104626 TTTGATACATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATATATTAATGTTGTGATTT
1 TTTGATACATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATATATTAATGTTGTGATTT
104691 CTTTTTATGTTTTTTCGTA
66 CTTTTTATGTTTTTTCGTA
104710 TTT
1 TTT
104713 TATGTTATGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.57
Consensus pattern (84 bp):
TTTGATACATTAATAATTTGAGTTATATAAATTTTTGAGATATTTATATATTAATGTTGTGATTT
CTTTTTATGTTTTTTCGTA
Found at i:104638 original size:43 final size:42
Alignment explanation
Indices: 104582--104712 Score: 133
Period size: 41 Copynumber: 3.1 Consensus size: 42
104572 ATTTTTGAGA
104582 TATTTATATATTAATGTTGTGATTTCTTTTTATGTTTTTTCG
1 TATTTATATATTAATGTTGTGATTTCTTTTTATGTTTTTTCG
* * * * * ** **
104624 TATTTGATACATTAATAATT-TGA-GT-TATATAAATTTTTGAG
1 TATTT-ATATATTAAT-GTTGTGATTTCTTTTTATGTTTTTTCG
104665 ATATTTATATATTAATGTTGTGATTTCTTTTTATGTTTTTTCG
1 -TATTTATATATTAATGTTGTGATTTCTTTTTATGTTTTTTCG
104708 TATTT
1 TATTT
104713 TATGTTATGG
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
40 2 0.03
41 22 0.34
42 17 0.26
43 22 0.34
44 2 0.03
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.60
Consensus pattern (42 bp):
TATTTATATATTAATGTTGTGATTTCTTTTTATGTTTTTTCG
Found at i:106306 original size:13 final size:14
Alignment explanation
Indices: 106281--106311 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
106271 AGAAAAAGAT
106281 TTTAAATTTTTAAA
1 TTTAAATTTTTAAA
106295 TTTAAA-TTTTAAA
1 TTTAAATTTTTAAA
106308 TTTA
1 TTTA
106312 TTATATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAATTTTTAAA
Found at i:107519 original size:3 final size:3
Alignment explanation
Indices: 107511--107549 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
107501 ATCTGTAATG
107511 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
107550 TAAGTTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:109061 original size:40 final size:40
Alignment explanation
Indices: 109017--109093 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
109007 AGCAGCCGTC
**
109017 TAAAAATTTTTAAAATTTTTTATTTATGTAAAATTTAGTT
1 TAAAAATTTTTAAAATTTTTTATTTAAATAAAATTTAGTT
*
109057 TAAAAATTTTTTAAATTTTTTATTTAAATAAAATTTA
1 TAAAAATTTTTAAAATTTTTTATTTAAATAAAATTTA
109094 ATTTCGTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (40 bp):
TAAAAATTTTTAAAATTTTTTATTTAAATAAAATTTAGTT
Found at i:109563 original size:11 final size:11
Alignment explanation
Indices: 109547--109607 Score: 67
Period size: 10 Copynumber: 5.8 Consensus size: 11
109537 AAAATAATTT
109547 ATTTTATATAA
1 ATTTTATATAA
109558 ATTTTA-ATAA
1 ATTTTATATAA
109568 ATTTTATAT-A
1 ATTTTATATAA
*
109578 TTTTTAT-TATA
1 ATTTTATATA-A
109589 ATTTTAT-TAA
1 ATTTTATATAA
*
109599 TTTTTATAT
1 ATTTTATAT
109608 CATATTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
9 1 0.02
10 24 0.56
11 18 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTATATAA
Found at i:109591 original size:21 final size:21
Alignment explanation
Indices: 109547--109632 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
109537 AAAATAATTT
*
109547 ATTTTATATAAATTTTA-ATAA
1 ATTTTATATAATTTTTATAT-A
109568 ATTTTATAT-ATTTTTATTATA
1 ATTTTATATAATTTTTA-TATA
*
109589 ATTTTAT-TAATTTTTATATC
1 ATTTTATATAATTTTTATATA
109609 ATATTTA-AT-A-TTTTATATA
1 AT-TTTATATAATTTTTATATA
*
109628 TTTTT
1 ATTTT
109633 TTATCACATA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.05
19 9 0.16
20 13 0.23
21 29 0.52
22 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATATAATTTTTATATA
Found at i:109621 original size:29 final size:30
Alignment explanation
Indices: 109549--109638 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 30
109539 AATAATTTAT
* *
109549 TTTATATAAATTTTAATAAATTTTATAT-ATT
1 TTTATAT-AATTTT-ATAATTTTTATATCATA
109580 TTTATTATAATTTTATTAATTTTTATATCATA
1 TTTA-TATAATTTTA-TAATTTTTATATCATA
*
109612 TTTA-AT-ATTTTATATATTTTTTTATCA
1 TTTATATAATTTTATA-ATTTTTATATCA
109639 CATACAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.04
29 17 0.33
30 3 0.06
31 21 0.40
32 9 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTATATAATTTTATAATTTTTATATCATA
Found at i:109630 original size:9 final size:9
Alignment explanation
Indices: 109546--109631 Score: 59
Period size: 10 Copynumber: 8.7 Consensus size: 9
109536 TAAAATAATT
109546 TATTTTATA
1 TATTTTATA
109555 TAAATTTTAATA
1 T--ATTTT-ATA
*
109567 AATTTTATA
1 TATTTTATA
109576 TATTTTTATTA
1 TA-TTTTA-TA
109587 TAATTTTAT-
1 T-ATTTTATA
109596 TAATTTTTATA
1 T-A-TTTTATA
109607 TCATATTTA-A
1 T-AT-TTTATA
109617 TATTTTATA
1 TATTTTATA
109626 TATTTT
1 TATTTT
109632 TTTATCACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
8 4 0.06
9 17 0.27
10 20 0.31
11 19 0.30
12 4 0.06
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTATA
Found at i:110566 original size:12 final size:12
Alignment explanation
Indices: 110520--110563 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
110510 CAAAACATAT
110520 TTATATGAAAAA
1 TTATATGAAAAA
*
110532 TT-TATAAAAAA
1 TTATATGAAAAA
*
110543 TTATATGAATAA
1 TTATATGAAAAA
110555 TTATA-GAAA
1 TTATATGAAA
110564 TAAATAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (12 bp):
TTATATGAAAAA
Found at i:110732 original size:36 final size:36
Alignment explanation
Indices: 110673--110742 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
110663 TTGATTATAC
*
110673 GATTACGATCTTATAATTATAATTAAAATATTAAGA
1 GATTACGATCTTATAATCATAATTAAAATATTAAGA
* * **
110709 GATTACGATTTTATAATCGTAATTTTAATATTAA
1 GATTACGATCTTATAATCATAATTAAAATATTAA
110743 AAAATACTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (36 bp):
GATTACGATCTTATAATCATAATTAAAATATTAAGA
Done.