Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167872.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_140, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67158
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Found at i:763 original size:23 final size:23
Alignment explanation
Indices: 733--791 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
723 TTGCCATTAG
733 TGGTCGTCGGTAGTCATCGTCGA
1 TGGTCGTCGGTAGTCATCGTCGA
*
756 TGGTCGTCAGTAGTCATCGTCGA
1 TGGTCGTCGGTAGTCATCGTCGA
779 TGGTCGTCGGTAG
1 TGGTCGTCGGTAG
792 CCAGAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.31
Consensus pattern (23 bp):
TGGTCGTCGGTAGTCATCGTCGA
Found at i:2033 original size:35 final size:35
Alignment explanation
Indices: 1956--2549 Score: 199
Period size: 35 Copynumber: 16.9 Consensus size: 35
1946 AAGATTTAAT
* * *
1956 CGCGAGTCGAAGAATAAT-AAGACCAGGATCT-AAC
1 CGCGAGTCAAAGAATAATGATGACTAGGAT-TGAAC
*
1990 TGCGAGTCAAAGAATAATGATGACTAGGATTGAAC
1 CGCGAGTCAAAGAATAATGATGACTAGGATTGAAC
* * * *
2025 CGCAAGTCAAGAGGATAAAGACGACTAGGATTGAAC
1 CGCGAGTCAA-AGAATAATGATGACTAGGATTGAAC
* * * ** * *
2061 CACGAGTCAAGAGGATAAAGACAACTGGGACTGAAC
1 CGCGAGTCAA-AGAATAATGATGACTAGGATTGAAC
* * * * * *
2097 CACGAGTCAAGAAAATAATG-TCAACCAAGATTAAAC
1 CGCGAGTCAA-AGAATAATGAT-GACTAGGATTGAAC
* * * *
2133 CACGAGTC-AAGAAATCACGAGGACTAAGG-TTGAAC
1 CGCGAGTCAAAG-AATAATGATGACT-AGGATTGAAC
* * * * * *
2168 CGCGAGTCAAAAGGATAAAGACGATTGGGACTGAAC
1 CGCGAGTC-AAAGAATAATGATGACTAGGATTGAAC
* * * * *
2204 CACGAGTCAAGAAAATAATG-TCGACCAAGATTAAAC
1 CGCGAGTCAA-AGAATAATGAT-GACTAGGATTGAAC
* * * * * * *
2240 TGCGAGTCAAGGAATCACGAAGACTGGGGTTGAAC
1 CGCGAGTCAAAGAATAATGATGACTAGGATTGAAC
** * * *
2275 CATGAGTCAAGAGGATAAAGATGACTGGGATTGAAC
1 CGCGAGTCAA-AGAATAATGATGACTAGGATTGAAC
* * *
2311 TGCGAGTCAAGGAAAAATGATGACTAGGATTGAAC
1 CGCGAGTCAAAGAATAATGATGACTAGGATTGAAC
* * * * * *
2346 TGCAAGTTAAGGAATAATGATGATTGGGGA-TGAAC
1 CGCGAGTCAAAGAATAATGATGACT-AGGATTGAAC
** * * *
2381 CGTAAGTCATAA-AATAATGACGA-TCAGGATTAAAT
1 CGCGAGTCA-AAGAATAATGATGACT-AGGATTGAAC
** * * *
2416 C-ATAGGTCAGAGAATAAT-AAGATTAGGATTGAAC
1 CGCGA-GTCAAAGAATAATGATGACTAGGATTGAAC
* * * * * *
2450 CACAAGCCATAA-AATAATGATGACTGGGATTAAAT
1 CGCGAGTCA-AAGAATAATGATGACTAGGATTGAAC
* * * *
2485 GGTGAGTCAAAGAATAATGA-GA-TCGGGATTGAAT
1 CGCGAGTCAAAGAATAATGATGACT-AGGATTGAAC
* * * * *
2519 CACGTGTCAGAGAATAATGATTACTGGGATT
1 CGCGAGTCAAAGAATAATGATGACTAGGATT
2550 AAATCACGAG
Statistics
Matches: 413, Mismatches: 120, Indels: 53
0.70 0.20 0.09
Matches are distributed among these distances:
33 1 0.00
34 73 0.18
35 174 0.42
36 162 0.39
37 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.19
Consensus pattern (35 bp):
CGCGAGTCAAAGAATAATGATGACTAGGATTGAAC
Found at i:2054 original size:36 final size:36
Alignment explanation
Indices: 1992--2345 Score: 243
Period size: 36 Copynumber: 9.9 Consensus size: 36
1982 GATCTAACTG
* * *
1992 CGAGTCAA-AGAATAATGATGACTAGGATTGAACCG
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* *
2027 CAAGTCAAGAGGATAAAGACGACTAGGATTGAACCA
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * *
2063 CGAGTCAAGAGGATAAAGACAACTGGGACTGAACCA
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * * * * *
2099 CGAGTCAAGAAAATAATGTCAACCAAGATTAAACCA
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * *
2135 CGAGTCAAGA-AATCACGAGGACTAAGG-TTGAACCG
1 CGAGTCAAGAGAATAAAGACGACT-AGGATTGAACCA
* * * * *
2170 CGAGTCAAAAGGATAAAGACGATTGGGACTGAACCA
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * * * * **
2206 CGAGTCAAGAAAATAATGTCGACCAAGATTAAACTG
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * * *
2242 CGAGTCAAG-GAATCACGAAGACTGGGGTTGAACCA
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
* * * * **
2277 TGAGTCAAGAGGATAAAGATGACTGGGATTGAACTG
1 CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
*
2313 CGAGTCAAG-GAA-AAATGATGACTAGGATTGAAC
1 CGAGTCAAGAGAATAAA-GACGACTAGGATTGAAC
2346 TGCAAGTTAA
Statistics
Matches: 241, Mismatches: 72, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
34 3 0.01
35 71 0.29
36 167 0.69
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (36 bp):
CGAGTCAAGAGAATAAAGACGACTAGGATTGAACCA
Found at i:2166 original size:107 final size:106
Alignment explanation
Indices: 2047--2326 Score: 389
Period size: 107 Copynumber: 2.6 Consensus size: 106
2037 GGATAAAGAC
*
2047 GACTAGGATTGAACCACGAGTCAAGAGGATAAAGACAACTGGGACTGAACCACGAGTCAAGAAAA
1 GACTAGG-TTGAACCACGAGTCAAGAGGATAAAGACGACTGGGACTGAACCACGAGTCAAGAAAA
*
2112 TAATGTCAACCAAGATTAAACCACGAGTCAAGAAATCACGAG
65 TAATGTCAACCAAGATTAAACCACGAGTCAAGAAATCACGAA
* * *
2154 GACTAAGGTTGAACCGCGAGTCAAAAGGATAAAGACGATTGGGACTGAACCACGAGTCAAGAAAA
1 GACT-AGGTTGAACCACGAGTCAAGAGGATAAAGACGACTGGGACTGAACCACGAGTCAAGAAAA
* ** *
2219 TAATGTCGACCAAGATTAAACTGCGAGTCAAGGAATCACGAA
65 TAATGTCAACCAAGATTAAACCACGAGTCAAGAAATCACGAA
* * * * **
2261 GACTGGGGTTGAACCATGAGTCAAGAGGATAAAGATGACTGGGATTGAACTGCGAGTCAAGGAAA
1 GACT-AGGTTGAACCACGAGTCAAGAGGATAAAGACGACTGGGACTGAACCACGAGTCAA-GAAA
2326 A
64 A
2327 ATGATGACTA
Statistics
Matches: 152, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
107 144 0.95
108 8 0.05
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (106 bp):
GACTAGGTTGAACCACGAGTCAAGAGGATAAAGACGACTGGGACTGAACCACGAGTCAAGAAAAT
AATGTCAACCAAGATTAAACCACGAGTCAAGAAATCACGAA
Found at i:2344 original size:71 final size:70
Alignment explanation
Indices: 1992--2345 Score: 248
Period size: 71 Copynumber: 5.0 Consensus size: 70
1982 GATCTAACTG
* * *
1992 CGAGTCAA-AGAATAATGATGACTAGGATTGAACCGCAAGTCAAGAGGATAAAGACGACTAGGAT
1 CGAGTCAAGAGAATAAAGATGACTAGGATTGAACCGCGAGTC-A-AGGAAAAAGACGACTAGGAT
2056 TGAACCA
64 TGAACCA
* ** * * * * * * * *
2063 CGAGTCAAGAGGATAAAGACAACTGGGACTGAACCACGAGTCAAGAAAATAATGTCAACCAAGAT
1 CGAGTCAAGAGAATAAAGATGACTAGGATTGAACCGCGAGTCAAGGAAA-AA-GACGACTAGGAT
*
2128 TAAACCA
64 TGAACCA
* * * * * *
2135 CGAGTCAAGA-AATCACGAGGACTAAGG-TTGAACCGCGAGTCAAAAGGATAAAGACGATTGGGA
1 CGAGTCAAGAGAATAAAGATGACT-AGGATTGAACCGCGAGTC--AAGGAAAAAGACGACTAGGA
*
2198 CTGAACCA
63 TTGAACCA
* * * * * * * * * * *
2206 CGAGTCAAGAAAATAATG-TCGACCAAGATTAAACTGCGAGTCAAGGAATCACGAAGACTGGGGT
1 CGAGTCAAGAGAATAAAGAT-GACTAGGATTGAACCGCGAGTCAAGGAA-AAAGACGACTAGGAT
2270 TGAACCA
64 TGAACCA
* * * * *
2277 TGAGTCAAGAGGATAAAGATGACTGGGATTGAACTGCGAGTCAAGGAAAAATGATGACTAGGATT
1 CGAGTCAAGAGAATAAAGATGACTAGGATTGAACCGCGAGTCAAGGAAAAA-GACGACTAGGATT
2342 GAAC
65 GAAC
2346 TGCAAGTTAA
Statistics
Matches: 211, Mismatches: 60, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
70 10 0.05
71 122 0.58
72 74 0.35
73 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (70 bp):
CGAGTCAAGAGAATAAAGATGACTAGGATTGAACCGCGAGTCAAGGAAAAAGACGACTAGGATTG
AACCA
Found at i:2480 original size:69 final size:69
Alignment explanation
Indices: 2388--2560 Score: 170
Period size: 69 Copynumber: 2.5 Consensus size: 69
2378 AACCGTAAGT
* * * *
2388 CATAAAATAATGACGA-TCAGGATTAAATCAT-AGGTCAGAGAATAATAAGATTAGGATTGAACC
1 CATAAAATAATGATGACT-GGGATTAAATCATGA-GTCAAAGAATAATAAGATCAGGATTGAACC
2451 ACAAGC
64 ACAAGC
** * * *
2457 CATAAAATAATGATGACTGGGATTAAATGGTGAGTCAAAGAATAATGAGATCGGGATTGAATCAC
1 CATAAAATAATGATGACTGGGATTAAATCATGAGTCAAAGAATAATAAGATCAGGATTGAACCAC
** *
2522 GTGT
66 AAGC
* * * *
2526 CAGAGAATAATGATTACTGGGATTAAATCACGAGT
1 CATAAAATAATGATGACTGGGATTAAATCATGAGT
2561 TAAAAGATGA
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
69 82 0.98
70 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (69 bp):
CATAAAATAATGATGACTGGGATTAAATCATGAGTCAAAGAATAATAAGATCAGGATTGAACCAC
AAGC
Found at i:2555 original size:35 final size:35
Alignment explanation
Indices: 2462--2560 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 35
2452 CAAGCCATAA
***
2462 AATAATGATGACTGGGATTAAATGGTGAGTCAAAG
1 AATAATGATGACTGGGATTAAATCACGAGTCAAAG
* * *
2497 AATAATGA-GA-TCGGGATTGAATCACGTGTCAGAG
1 AATAATGATGACT-GGGATTAAATCACGAGTCAAAG
*
2531 AATAATGATTACTGGGATTAAATCACGAGT
1 AATAATGATGACTGGGATTAAATCACGAGT
2561 TAAAAGATGA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.02
34 26 0.50
35 24 0.46
36 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (35 bp):
AATAATGATGACTGGGATTAAATCACGAGTCAAAG
Found at i:13873 original size:22 final size:21
Alignment explanation
Indices: 13848--13889 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
13838 GGGTTTAGAC
*
13848 TTTTAGGGTTTGGGATTTTTAA
1 TTTTAAGGTTTGGG-TTTTTAA
*
13870 TTTTAAGGTTTTGGTTTTTA
1 TTTTAAGGTTTGGGTTTTTA
13890 GGGTTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTTAAGGTTTGGGTTTTTAA
Found at i:13889 original size:37 final size:37
Alignment explanation
Indices: 13848--13918 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
13838 GGGTTTAGAC
* * *
13848 TTTTAGGGTTTGGGATTTTTAATTTTAAGGTTTTGGT
1 TTTTAGGGTTTAGAATTTTGAATTTTAAGGTTTTGGT
* *
13885 TTTTAGGGTTTAGAATTTTGGATTTTAGGGTTTT
1 TTTTAGGGTTTAGAATTTTGAATTTTAAGGTTTT
13919 AATTTCAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (37 bp):
TTTTAGGGTTTAGAATTTTGAATTTTAAGGTTTTGGT
Found at i:13941 original size:30 final size:30
Alignment explanation
Indices: 13907--13982 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
13897 GAATTTTGGA
*
13907 TTTTAGGGTTTTAATTTCAGGGTTTAAAGG
1 TTTTAGGGTTTTAATTTCAAGGTTTAAAGG
* * *
13937 TTTTAGGG-TTTACTTTTAAGGTTTGAAGG
1 TTTTAGGGTTTTAATTTCAAGGTTTAAAGG
* * *
13966 GTTTAGAGTTTTGATTT
1 TTTTAGGGTTTTAATTT
13983 TAGTGTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (30 bp):
TTTTAGGGTTTTAATTTCAAGGTTTAAAGG
Found at i:15557 original size:28 final size:27
Alignment explanation
Indices: 15492--15557 Score: 62
Period size: 28 Copynumber: 2.3 Consensus size: 27
15482 CTGATAGGAC
* * *
15492 TAGGTAGGGGTGGCTGGTCTGATGGGAT
1 TAGGTA-GGGTGACTGGTCTAACGGGAT
15520 T-GGATAAGGGTGACTGGATCTAACGGGAT
1 TAGG-T-AGGGTGACTGG-TCTAACGGGAT
15549 TAGGTAGGG
1 TAGGTAGGG
15558 GGCTGGACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 2 0.06
28 15 0.48
29 12 0.39
30 2 0.06
ACGTcount: A:0.21, C:0.08, G:0.45, T:0.26
Consensus pattern (27 bp):
TAGGTAGGGTGACTGGTCTAACGGGAT
Found at i:17540 original size:23 final size:23
Alignment explanation
Indices: 17510--17554 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
17500 ACCCCAAAAC
17510 ATATTGTGTGACATATAAGGAGA
1 ATATTGTGTGACATATAAGGAGA
17533 ATATTGTGTGACATATAAGGAG
1 ATATTGTGTGACATATAAGGAG
17555 GGACAAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (23 bp):
ATATTGTGTGACATATAAGGAGA
Found at i:21260 original size:8 final size:8
Alignment explanation
Indices: 21249--21327 Score: 74
Period size: 8 Copynumber: 9.6 Consensus size: 8
21239 AAAAAAAGAA
21249 GAAAAAAT
1 GAAAAAAT
21257 GAAAAAAT
1 GAAAAAAT
21265 G-AAAAA-
1 GAAAAAAT
*
21271 GAAAAAAG
1 GAAAAAAT
21279 GAAAAAGA-
1 GAAAAA-AT
*
21287 GAAAAAAGA
1 GAAAAAA-T
21296 GAAAAAAT
1 GAAAAAAT
21304 GAAAAAAAAT
1 G--AAAAAAT
21314 GAAAAAAAT
1 G-AAAAAAT
21323 GAAAA
1 GAAAA
21328 GGAAGAAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
6 1 0.02
7 11 0.17
8 26 0.41
9 17 0.27
10 8 0.13
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (8 bp):
GAAAAAAT
Found at i:21262 original size:9 final size:9
Alignment explanation
Indices: 21237--21327 Score: 65
Period size: 9 Copynumber: 10.7 Consensus size: 9
21227 CAATAATGGG
21237 TGAAAAAAA
1 TGAAAAAAA
21246 -GAAGAAAAAA
1 TG-A-AAAAAA
21256 TG-AAAAAA
1 TGAAAAAAA
21264 TG--AAAAA
1 TGAAAAAAA
21271 -G-AAAAAA
1 TGAAAAAAA
* *
21278 GGAAAAAGA
1 TGAAAAAAA
21287 -G-AAAAAA
1 TGAAAAAAA
21294 -GAGAAAAAA
1 TGA-AAAAAA
21303 TGAAAAAAAA
1 TG-AAAAAAA
21313 TGAAAAAAA
1 TGAAAAAAA
21322 TGAAAA
1 TGAAAA
21328 GGAAGAAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
6 1 0.01
7 16 0.23
8 11 0.16
9 25 0.36
10 15 0.21
11 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:21277 original size:7 final size:7
Alignment explanation
Indices: 21242--21301 Score: 59
Period size: 8 Copynumber: 7.9 Consensus size: 7
21232 ATGGGTGAAA
21242 AAAAGAAG
1 AAAA-AAG
21250 AAAAAATG
1 AAAAAA-G
21258 AAAAAATG
1 AAAAAA-G
21266 -AAAAAG
1 AAAAAAG
21272 AAAAAAGG
1 AAAAAA-G
21280 AAAAAGAG
1 AAAAA-AG
21288 AAAAAAG
1 AAAAAAG
21295 AGAAAAA
1 A-AAAAA
21302 ATGAAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.02
7 15 0.32
8 30 0.64
9 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:21337 original size:19 final size:19
Alignment explanation
Indices: 21239--21327 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
21229 ATAATGGGTG
21239 AAAAAAAGAAGAAAAAATG-
1 AAAAAAAGAA-AAAAAATGA
*
21258 AAAAAATGAAAAAGAAA--A
1 AAAAAAAGAAAAA-AAATGA
*
21276 AAGGAAAAAGAGAAAAAA-GA
1 AA--AAAAAGAAAAAAAATGA
*
21296 GAAAAAATGAAAAAAAATGA
1 -AAAAAAAGAAAAAAAATGA
*
21316 AAAAAATGAAAA
1 AAAAAAAGAAAA
21328 GGAAGAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
18 5 0.09
19 39 0.67
20 12 0.21
21 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.06
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAATGA
Found at i:22055 original size:79 final size:79
Alignment explanation
Indices: 21923--22268 Score: 385
Period size: 79 Copynumber: 4.4 Consensus size: 79
21913 CGACATAGCT
**
21923 TGTGAGTTATGATCAAATGATGAAAATAATGTGGATCAATGGAAAAAATTTGTTCTGAAATTG-T
1 TGTGAGTTATGATCAAATGATGAAAATAATGTGGATCAATGGATGAAATTTGTTCTGAAATTGCT
* *
21987 AAGTGCTAAAAAGCC
66 -AGTGCTGAGAAGCC
* * *
22002 TGTGAGTTATGATCAAATGATGGAAATAATGTGGATCAATGGATGAAAGTTGTTTTGAAATTGCT
1 TGTGAGTTATGATCAAATGATGAAAATAATGTGGATCAATGGATGAAATTTGTTCTGAAATTGCT
22067 AGTGCTGAGAAGCC
66 AGTGCTGAGAAGCC
* * * * * *
22081 TATGAATTGTGATTAAATGATGAAAATAATGTGGATCAAT-GA-GCAAATTTTATTCTAAAATTG
1 TGTGAGTTATGATCAAATGATGAAAATAATGTGGATCAATGGATG-AAA-TTTGTTCTGAAATTG
22144 CTAGTGCTGAGAAGCC
64 CTAGTGCTGAGAAGCC
* * * * ** *
22160 TGTGAGTTGTGATCAAATGAT-AGAAACAATGAGGATCAATGGATGAAATTTTTTCTGCCATTAC
1 TGTGAGTTATGATCAAATGATGA-AAATAATGTGGATCAATGGATGAAATTTGTTCTGAAATTGC
* * *
22224 CAATGCTGAGGAGCC
65 TAGTGCTGAGAAGCC
** * *
22239 TGTGAGTGGTGATTAGATGATGAAAATAAT
1 TGTGAGTTATGATCAAATGATGAAAATAAT
22269 ATAAATCAGT
Statistics
Matches: 227, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 6 0.03
79 212 0.93
80 7 0.03
81 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (79 bp):
TGTGAGTTATGATCAAATGATGAAAATAATGTGGATCAATGGATGAAATTTGTTCTGAAATTGCT
AGTGCTGAGAAGCC
Found at i:22231 original size:158 final size:158
Alignment explanation
Indices: 21932--22268 Score: 428
Period size: 158 Copynumber: 2.1 Consensus size: 158
21922 TTGTGAGTTA
* * *
21932 TGATCAAATGATGAAAATAATGTGGATCAATGGAAAAAATTTGTTCTGAAATTGTAAGTGCTAAA
1 TGATTAAATGATGAAAATAATGTGGATCAATGGAAAAAATTTATTCTAAAATTGTAAGTGCTAAA
* * *
21997 AAGCCTGTGAGTTATGATCAAATGATGGAAATAATGTGGATCAATGGATGAAAGTTGTTTTGAAA
66 AAGCCTGTGAGTTATGATCAAATGATAGAAACAATGAGGATCAATGGATGAAAGTTGTTTTGAAA
* * * *
22062 TTGCTAGTGCTGAGAAGCCTATGAATTG
131 TTACCAATGCTGAGAAGCCTATGAATGG
* * *
22090 TGATTAAATGATGAAAATAATGTGGATCAAT-GAGCAAATTTTATTCTAAAATTGCT-AGTGCTG
1 TGATTAAATGATGAAAATAATGTGGATCAATGGA-AAAAATTTATTCTAAAATTG-TAAGTGCTA
* * *
22153 AGAAGCCTGTGAGTTGTGATCAAATGATAGAAACAATGAGGATCAATGGATGAAA-TTTTTTCTG
64 AAAAGCCTGTGAGTTATGATCAAATGATAGAAACAATGAGGATCAATGGATGAAAGTTGTTT-TG
** * * *
22217 CCATTACCAATGCTGAGGAGCCTGTGAGTGG
128 AAATTACCAATGCTGAGAAGCCTATGAATGG
*
22248 TGATTAGATGATGAAAATAAT
1 TGATTAAATGATGAAAATAAT
22269 ATAAATCAGT
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
157 7 0.05
158 146 0.95
159 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (158 bp):
TGATTAAATGATGAAAATAATGTGGATCAATGGAAAAAATTTATTCTAAAATTGTAAGTGCTAAA
AAGCCTGTGAGTTATGATCAAATGATAGAAACAATGAGGATCAATGGATGAAAGTTGTTTTGAAA
TTACCAATGCTGAGAAGCCTATGAATGG
Found at i:23210 original size:43 final size:43
Alignment explanation
Indices: 23000--23276 Score: 356
Period size: 44 Copynumber: 6.4 Consensus size: 43
22990 TAGGATTGTC
*
23000 GAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTCTGCTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTCTACTTA
* *
23043 GAGGAACCTTATTTACTTTTTCAAAGTTGTTGAGCCTCTACTTA
1 GAGGAGCCTTATTTA-TTTTTCAAAGTCGTTGAGCCTCTACTTA
* *
23087 GAGGAGCTTTATTTATTTTTCAAAAGTTGTTGAGCCTCTACTTA
1 GAGGAGCCTTATTTATTTTTC-AAAGTCGTTGAGCCTCTACTTA
* * **
23131 GAGAAGCCTTATTTAATTTTTCAAAGTCGTTTAGCCTCTTTTTA
1 GAGGAGCCTTATTT-ATTTTTCAAAGTCGTTGAGCCTCTACTTA
* *
23175 GAAGAGCCTTATTTATTTTTCAAAGTCGTTAAGCCTCTACTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTCTACTTA
* * * * * *
23218 GAGGAGCTTTATTTATTTTTTAAAGTCATTGAGCTTTTGCTTA
1 GAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTCTACTTA
* *
23261 GAGTAGCGTTATTTAT
1 GAGGAGCCTTATTTAT
23277 GAGCCTTTGT
Statistics
Matches: 205, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
43 95 0.46
44 103 0.50
45 7 0.03
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (43 bp):
GAGGAGCCTTATTTATTTTTCAAAGTCGTTGAGCCTCTACTTA
Found at i:23397 original size:44 final size:44
Alignment explanation
Indices: 23298--23513 Score: 215
Period size: 44 Copynumber: 5.0 Consensus size: 44
23288 TAAAAGAGTC
* ** * *
23298 TTATTTAGTTTTCAAAA-TCACTAAGCTTCTACTTAGAGGAGCT
1 TTATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCT
** *
23341 TTATTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGTT
1 TTATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCT
* * * * *
23385 TTGTTTAGTTTTC-AAAGTTGTTGAGCCTCTGCTTAGAAGAGCT
1 TTATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCT
* * *
23428 TTATTTATTTTTCAAAAGTCATT-ACGCTTCTACTTAGAGAAGCT
1 TTATTTATTTTTCAAAAGTCGTTGA-GCCTCTACTTAGAGGAGCT
* * *
23472 CTATTTATTTTTCAAAAGTTG-TGAAGCCTCTATTTAGAGGAG
1 TTATTTATTTTTCAAAAGTCGTTG-AGCCTCTACTTAGAGGAG
23514 TTTTTATGAA
Statistics
Matches: 140, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
43 55 0.39
44 84 0.60
45 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (44 bp):
TTATTTATTTTTCAAAAGTCGTTGAGCCTCTACTTAGAGGAGCT
Found at i:23465 original size:87 final size:88
Alignment explanation
Indices: 23299--23502 Score: 220
Period size: 87 Copynumber: 2.3 Consensus size: 88
23289 AAAAGAGTCT
** * * * *
23299 TATTTAGTTTTCAAAA-TCACT-AAGCTTCTACTTAGAGGAGCTTTATTTATTTTTCAAAAGTCG
1 TATTTAGTTTTCAAAAGT-TGTGAAGCCTCTGCTTAGAAGAGCTTTATTTATTTTTCAAAAGTCA
** * * *
23362 TTGAGCCTCTGTTTAGAGGAGTTT
65 TTGAGCCTCTACTTAGAGAAGCTC
*
23386 TGTTTAGTTTTC-AAAGTTGTTG-AGCCTCTGCTTAGAAGAGCTTTATTTATTTTTCAAAAGTCA
1 TATTTAGTTTTCAAAAGTTG-TGAAGCCTCTGCTTAGAAGAGCTTTATTTATTTTTCAAAAGTCA
*
23449 TT-ACGCTTCTACTTAGAGAAGCTC
65 TTGA-GCCTCTACTTAGAGAAGCTC
*
23473 TATTTATTTTTCAAAAGTTGTGAAGCCTCT
1 TATTTAGTTTTCAAAAGTTGTGAAGCCTCT
23503 ATTTAGAGGA
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
86 4 0.04
87 78 0.81
88 14 0.15
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (88 bp):
TATTTAGTTTTCAAAAGTTGTGAAGCCTCTGCTTAGAAGAGCTTTATTTATTTTTCAAAAGTCAT
TGAGCCTCTACTTAGAGAAGCTC
Found at i:23486 original size:131 final size:130
Alignment explanation
Indices: 23276--23517 Score: 353
Period size: 131 Copynumber: 1.9 Consensus size: 130
23266 GCGTTATTTA
* * *
23276 TGAGCCTTTGTTTAAAAGAGTCTTATTTAGTTTTCAAAATCACTAAGCTTCTACTTAGAGGAGCT
1 TGAGCCTCTGCTTAAAAGAGTCTTATTTAGTTTTCAAAATCACTAAGCTTCTACTTAGAGAAGCT
* *
23341 TTATTTATTTTTCAAAAGTCGTTG-AGCCTCTGTTTAGAGGAGTTTTGTTTAGTTTTCAAAGTTG
66 CTATTTATTTTTCAAAAGTCG-TGAAGCCTCTATTTAGAGGAGTTTTGTTTAGTTTTCAAAGTTG
23405 T
130 T
* * * *
23406 TGAGCCTCTGCTTAGAAGAG-CTTTATTTATTTTTCAAAAGTCATTACGCTTCTACTTAGAGAAG
1 TGAGCCTCTGCTTAAAAGAGTC-TTATTTAGTTTTCAAAA-TCACTAAGCTTCTACTTAGAGAAG
*
23470 CTCTATTTATTTTTCAAAAGTTGTGAAGCCTCTATTTAGAGGAGTTTT
64 CTCTATTTATTTTTCAAAAGTCGTGAAGCCTCTATTTAGAGGAGTTTT
23518 TATGAAGTCT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
129 1 0.01
130 35 0.35
131 63 0.64
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (130 bp):
TGAGCCTCTGCTTAAAAGAGTCTTATTTAGTTTTCAAAATCACTAAGCTTCTACTTAGAGAAGCT
CTATTTATTTTTCAAAAGTCGTGAAGCCTCTATTTAGAGGAGTTTTGTTTAGTTTTCAAAGTTGT
Found at i:24595 original size:8 final size:8
Alignment explanation
Indices: 24582--24608 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24572 AAATTTTTTT
24582 AAAAAATA
1 AAAAAATA
24590 AAAAAATA
1 AAAAAATA
24598 AAAAAATA
1 AAAAAATA
24606 AAA
1 AAA
24609 TATTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:24859 original size:26 final size:28
Alignment explanation
Indices: 24830--24890 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 28
24820 AATGATGAGA
*
24830 TTCTTAAAAAAT-TC-AAATGGGAAATT
1 TTCTTAAAAAATCTCTAAATGAGAAATT
* *
24856 TTC-TAAGAAATCTCTAAGTGAGAAATT
1 TTCTTAAAAAATCTCTAAATGAGAAATT
*
24883 TTTTTAAA
1 TTCTTAAA
24891 TTTGTCCCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
25 7 0.26
26 5 0.19
27 12 0.44
28 3 0.11
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (28 bp):
TTCTTAAAAAATCTCTAAATGAGAAATT
Found at i:26787 original size:13 final size:16
Alignment explanation
Indices: 26754--26786 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
26744 AAATCCTATT
26754 AAAATAATATATTTAA
1 AAAATAATATATTTAA
26770 AAAATAA-A-ATTTAA
1 AAAATAATATATTTAA
26784 AAA
1 AAA
26787 TCATTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAATATATTTAA
Found at i:30928 original size:260 final size:261
Alignment explanation
Indices: 30501--31019 Score: 685
Period size: 260 Copynumber: 2.0 Consensus size: 261
30491 CTTTTTAAGG
* *
30501 TTTAGGGTTTAAGGTTCAATGGATTATTCAAGGTGTTTTCTGATAAAAAATGCCTTGAATAATCT
1 TTTAGGGTTTAAGGTTCAAGGGATTATTCAAGGTGTTTTCTGAGAAAAAATGCCTTGAATAATCT
* * * *
30566 CTAAAAAAAAATTTGGAAAGGATTATTCAATGCTTTTTTTACCAAAAATGCCTTAAATAATCCCT
66 CTAAAAAAAAATTTAGAAAGGATTATTCAAGGCATTTTTTACCAAAAACGCCTTAAATAATCCCT
* *** * * * *
30631 TTCAAATTTTTAAATGGGATTATTTAAGGCATTTTTGGCTA-TAACGCCTTGAATAATCCTTTAC
131 GTCAAAAAATGAAATGAGATTATTTAAGGCATTTTTGGCTAGAAACGCCTTGAATAATCCCTTAC
**
30695 AAAAAAATTTAATGGGGTTATTCAAGGTATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAA
196 -AAAAAATTTAATAAGGTTATTCAAGGTATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAA
30760 TT
260 TT
* * * *
30762 TTTAGGGTTTAGGGTTTAAGGGATTATTCAAGGTGTTTTTTG-GCAAAAATGCCTTGAATAATC-
1 TTTAGGGTTTAAGGTTCAAGGGATTATTCAAGGTGTTTTCTGAGAAAAAATGCCTTGAATAATCT
* * * *
30825 CT-AAAAAAAA-TTAGAGAGGATTAATT-AAGGCATTTTTTGCCAAAAACG-CTTTAGTAATCCC
66 CTAAAAAAAAATTTAGAAAGGATT-ATTCAAGGCATTTTTTACCAAAAACGCCTTAAATAAT-CC
30886 CTAGTCAAAAAAATGAAA-GAGATTATTTAAGGCATTTTTTTGGCTAGAAACGCCTTGAATAATC
129 CT-GTC-AAAAAATGAAATGAGATTATTTAAGGCA--TTTTTGGCTAGAAACGCCTTGAATAATC
* *
30950 CCTTACAAAAAATTTAATAAGGTTATTCAAGGTATTTATGGCAAAAAATGCCTTTAATAATCCAC
190 CCTTACAAAAAATTTAATAAGGTTATTCAAGGTATTTATAGCAAAAAATGCCTTCAATAATCCAC
31015 TTCAA
255 TTCAA
31020 AATTTATGAG
Statistics
Matches: 225, Mismatches: 26, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
256 8 0.04
257 32 0.14
258 28 0.12
259 9 0.04
260 89 0.40
261 59 0.26
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (261 bp):
TTTAGGGTTTAAGGTTCAAGGGATTATTCAAGGTGTTTTCTGAGAAAAAATGCCTTGAATAATCT
CTAAAAAAAAATTTAGAAAGGATTATTCAAGGCATTTTTTACCAAAAACGCCTTAAATAATCCCT
GTCAAAAAATGAAATGAGATTATTTAAGGCATTTTTGGCTAGAAACGCCTTGAATAATCCCTTAC
AAAAAATTTAATAAGGTTATTCAAGGTATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAAT
T
Found at i:30960 original size:63 final size:61
Alignment explanation
Indices: 30797--30962 Score: 167
Period size: 63 Copynumber: 2.7 Consensus size: 61
30787 ATTCAAGGTG
* * * *
30797 TTTTTTGGCAAAAATGCCTTGAATAAT-CCTAAAAAAAATTAGAGAGGATTAATTAAGGCA
1 TTTTTTGGCAAAAACGCCTTGAATAATCCCTACAAAAAATGAAAGAGGATTAATTAAGGCA
* * * *
30857 TTTTTTGCCAAAAACG-CTTTAGTAATCCCCTAGTCAAAAAAATGAAAGA-GATTATTTAAGGCA
1 TTTTTTGGCAAAAACGCCTTGAATAAT-CCCTA--C-AAAAAATGAAAGAGGATTAATTAAGGCA
*
30920 TTTTTTTGGCTAGAAACGCCTTGAATAATCCCTTACAAAAAAT
1 -TTTTTTGGC-AAAAACGCCTTGAATAATCCC-TACAAAAAAT
30963 TTAATAAGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
59 8 0.09
60 14 0.16
61 4 0.05
63 20 0.24
64 20 0.24
65 9 0.11
66 10 0.12
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (61 bp):
TTTTTTGGCAAAAACGCCTTGAATAATCCCTACAAAAAATGAAAGAGGATTAATTAAGGCA
Found at i:31009 original size:62 final size:61
Alignment explanation
Indices: 30923--31073 Score: 166
Period size: 62 Copynumber: 2.5 Consensus size: 61
30913 TAAGGCATTT
* * * *
30923 TTTTGGCTAGAAACGCCTTGAATAATCC-CTTACAAAAAATTTAAT-AAG-G-TTATTCAAGGTA
1 TTTTGGCAAAAAATGCCTTGAATAATCCACTT-C--AAAATTT-ATGAAGTGATTATTCAAGGCA
* *
30984 TTTATGGCAAAAAATGCCTTTAATAATCCACTTCAAAATTTATGAGGTGATTATTCAAGGCA
1 TTT-TGGCAAAAAATGCCTTGAATAATCCACTTCAAAATTTATGAAGTGATTATTCAAGGCA
*
31046 TTTTTGCAAAAAATGCCTTGAATAATCC
1 TTTTGGCAAAAAATGCCTTGAATAATCC
31074 TTAATTTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
59 2 0.03
60 9 0.12
61 27 0.35
62 36 0.47
63 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (61 bp):
TTTTGGCAAAAAATGCCTTGAATAATCCACTTCAAAATTTATGAAGTGATTATTCAAGGCA
Found at i:31236 original size:322 final size:319
Alignment explanation
Indices: 30521--31236 Score: 780
Period size: 322 Copynumber: 2.2 Consensus size: 319
30511 AAGGTTCAAT
** * *
30521 GGATTATTCAAGGTGTTTTCTGATAAAAAATGCCTTGAATAAT-CTCTA-AAAAAAAATTTGGAA
1 GGATTATTCAAGGCATTTT-TGACAAAAAATGCCTTGAATAATCCCCTAGAAAAAAAA-TT-GAA
* * * * ** *
30584 AG-GATTATTCAATGCTTTTTTTACCAAAAATGCCTTAAATAATCCCTTTCAAATTTTTAAATGG
63 AGAGATTATTTAAGGCTTTTTTTACCAAAAACGCCTTAAATAATCCCTTACAAAAATTTAAATAG
* * * * *
30648 GATTATTTAAGGCATTTTTGGCTATAACGCCTTGAATAATCCTTTACAAAAAAATTTAATGGGGT
128 GATTATTCAAGGCATTTATGGCAAAAACGCCTTGAATAATCCCTTAC--AAAAATTTAATGGGGT
* *
30713 TATTCAAGGTATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAATTTTTAGGGTTTAGGGTT
191 TATTCAAGGCATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAATTTTTAGGGTTTAAGGTT
* * * * *
30778 TAAGGGATTATTCAAGGTGTTTTTTGGCAAAAATGCCTTGAATAATCCTAAAAAAAATTAGAGA
256 TAAGAGATTATTCAAGGTGTTTTTTGGCAAAAACGCCATGAATAATCCCAAAAAAAATTAAAGA
* * * * *
30842 GGATTAATT-AAGGCATTTTTTG-CCAAAAACG-CTTTAGTAATCCCCTAGTCAAAAAAA-TGAA
1 GGATT-ATTCAAGGCA-TTTTTGACAAAAAATGCCTTGAATAATCCCCTAG-AAAAAAAATTGAA
* * * *
30903 AGAGATTATTTAAGGCATTTTTTTGGCTAGAAACGCCTTGAATAATCCCTTACAAAAAATTT-AA
63 AGAGATTATTTAAGGC-TTTTTTT-ACCAAAAACGCCTTAAATAATCCCTTAC-AAAAATTTAAA
* * *
30967 TAAGG-TTATTCAAGGTATTTATGGCAAAAAATGCCTTTAATAATCCACTT-C-AAAATTT-ATG
125 T-AGGATTATTCAAGGCATTTATGGC-AAAAACGCCTTGAATAATCC-CTTACAAAAATTTAATG
* *
31028 AGGTGATTATTCAAGGCATTT-TTGCAAAAAATGCCTTGAATAAT-C-CTT-AATTTTTAGGGTT
187 -GG-G-TTATTCAAGGCATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAATTTTTAGGGTT
*
31089 TAAGGTTTAAGAGATTATTCAATGTGTTTTTTGGCCAAAAACGCCATGAATAATCCCCAAAAAAA
249 TAAGGTTTAAGAGATTATTCAAGGTGTTTTTTGG-CAAAAACGCCATGAATAAT-CCCAAAAAAA
* *
31154 TTTTAAAGG
312 -ATTAAAGA
31163 GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTGAATAATCCCCTAGAAAAAAAATTGAAAGA
1 GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTGAATAATCCCCTAGAAAAAAAATTGAAAGA
31228 GATTATTTA
66 GATTATTTA
31237 GCAACTAAAA
Statistics
Matches: 328, Mismatches: 45, Indels: 43
0.79 0.11 0.10
Matches are distributed among these distances:
318 44 0.13
319 36 0.11
320 50 0.15
321 70 0.21
322 101 0.31
323 25 0.08
324 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (319 bp):
GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTGAATAATCCCCTAGAAAAAAAATTGAAAGA
GATTATTTAAGGCTTTTTTTACCAAAAACGCCTTAAATAATCCCTTACAAAAATTTAAATAGGAT
TATTCAAGGCATTTATGGCAAAAACGCCTTGAATAATCCCTTACAAAAATTTAATGGGGTTATTC
AAGGCATTTATAGCAAAAAATGCCTTCAATAATCCACTTCAATTTTTAGGGTTTAAGGTTTAAGA
GATTATTCAAGGTGTTTTTTGGCAAAAACGCCATGAATAATCCCAAAAAAAATTAAAGA
Found at i:33321 original size:18 final size:19
Alignment explanation
Indices: 33300--33341 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
33290 CCCAAATGGC
*
33300 TAAAGCTCT-CAATCAAAA
1 TAAAGCTCTACAACCAAAA
33318 TAAAG-TCTACAACCAAAA
1 TAAAGCTCTACAACCAAAA
33336 TAAAGC
1 TAAAGC
33342 AACAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAGCTCTACAACCAAAA
Found at i:34628 original size:15 final size:16
Alignment explanation
Indices: 34608--34637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34598 AATTGAAAAG
34608 AAAT-AATAAAAATTT
1 AAATAAATAAAAATTT
34623 AAATAAATAAAAATT
1 AAATAAATAAAAATT
34638 AAAAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAATAAAAATTT
Found at i:35229 original size:12 final size:12
Alignment explanation
Indices: 35202--35237 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
35192 TAAATAAATG
35202 AAACCCTAATACA
1 AAACCCTAA-ACA
*
35215 AAACTCTAAACA
1 AAACCCTAAACA
35227 AAACCCTAAAC
1 AAACCCTAAAC
35238 CTTATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
AAACCCTAAACA
Found at i:35313 original size:19 final size:19
Alignment explanation
Indices: 35227--35312 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
35217 ACTCTAAACA
* *
35227 AAACCCTAAACCTTATGTG
1 AAACCCTAAACCCTAGGTG
* * *
35246 AAATCTTAAACCCTAGGTA
1 AAACCCTAAACCCTAGGTG
* *
35265 AAACTCTAAACCCTAAGTG
1 AAACCCTAAACCCTAGGTG
** *
35284 AAA-TTTGAAATCCTAGGTG
1 AAACCCT-AAACCCTAGGTG
35303 AAACCCTAAA
1 AAACCCTAAA
35313 TTTTAGGTGA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
18 2 0.04
19 47 0.94
20 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACCCTAAACCCTAGGTG
Found at i:35323 original size:38 final size:38
Alignment explanation
Indices: 35226--35327 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
35216 AACTCTAAAC
*
35226 AAAACCCTAAACCTTATGTGAAATCTTAAACCCTAGGT
1 AAAACCCTAAACCTTAAGTGAAATCTTAAACCCTAGGT
* * *
35264 AAAACTCTAAACCCTAAGTGAAAT-TTGAAATCCTAGGT
1 AAAACCCTAAACCTTAAGTGAAATCTT-AAACCCTAGGT
* ** *
35302 GAAACCCTAAATTTTAGGTGAAATCT
1 AAAACCCTAAACCTTAAGTGAAATCT
35328 AAAATAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 2 0.04
38 49 0.94
39 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (38 bp):
AAAACCCTAAACCTTAAGTGAAATCTTAAACCCTAGGT
Found at i:35592 original size:14 final size:14
Alignment explanation
Indices: 35564--35598 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
35554 ATAAGATTAG
35564 ATAAAAATAATAAA
1 ATAAAAATAATAAA
35578 ATAAAGAATAA-AAA
1 ATAAA-AATAATAAA
35592 ATAAAAA
1 ATAAAAA
35599 GTAGGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
ATAAAAATAATAAA
Found at i:41343 original size:19 final size:18
Alignment explanation
Indices: 41314--41394 Score: 73
Period size: 19 Copynumber: 4.6 Consensus size: 18
41304 TCAATAAAGG
*
41314 AAAAAGAAAAAGGTGAAA
1 AAAAAGAAAAAAGTGAAA
41332 AAAAAGAGAAAAAGTGAAA
1 AAAAAGA-AAAAAGTGAAA
*
41351 AAAAA-AAAGAA---AAA
1 AAAAAGAAAAAAGTGAAA
*
41365 CAAAAGAAAAAA-TGCAAGA
1 AAAAAGAAAAAAGTG-AA-A
41384 AAAAAGAAAAA
1 AAAAAGAAAAA
41395 GAAGCAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
14 7 0.13
15 5 0.10
17 4 0.08
18 10 0.19
19 26 0.50
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAAAGTGAAA
Found at i:41361 original size:20 final size:20
Alignment explanation
Indices: 41314--41364 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
41304 TCAATAAAGG
41314 AAAAAGAAAAAGGTGAAAAA
1 AAAAAGAAAAAGGTGAAAAA
*
41334 AAAGAGAAAAA-GTGAAAAAA
1 AAAAAGAAAAAGGTG-AAAAA
41354 AAAAAGAAAAA
1 AAAAAGAAAAA
41365 CAAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAAGGTGAAAAA
Found at i:41363 original size:31 final size:30
Alignment explanation
Indices: 41328--41394 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
41318 AGAAAAAGGT
*
41328 GAAAAA-AAAGAGAAAAAGTGAAAAAAAAAAA
1 GAAAAACAAA-AGAAAAAATG-AAAAAAAAAA
* *
41359 GAAAAACAAAAGAAAAAATGCAAGAAAAAA
1 GAAAAACAAAAGAAAAAATGAAAAAAAAAA
41389 GAAAAA
1 GAAAAA
41395 GAAGCAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 14 0.44
31 15 0.47
32 3 0.09
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (30 bp):
GAAAAACAAAAGAAAAAATGAAAAAAAAAA
Found at i:42751 original size:33 final size:33
Alignment explanation
Indices: 42679--43081 Score: 215
Period size: 33 Copynumber: 12.2 Consensus size: 33
42669 CACCTATAAG
* * *
42679 AATTAAACCC-AATCTAGCTGGCACTC-ATAAAAA
1 AATTTAACCCTAATTTAGCTGGCAC-CAAT-GAAA
* * *
42712 AATTTAACCCTACTTTAGTTGGCACCCATGAAA
1 AATTTAACCCTAATTTAGCTGGCACCAATGAAA
* *
42745 ATTTTAAGCCC-AATTTAACTGGCACCTAATG-AA
1 AATTTAA-CCCTAATTTAGCTGGCACC-AATGAAA
* * *
42778 AATTTAAGCCC-AGTTTAGTTCGCACCAATGAAA
1 AATTTAA-CCCTAATTTAGCTGGCACCAATGAAA
* * *
42811 AGTTAAACCCT-ATTTAGCTAGCACTC-ATGAAA
1 AATTTAACCCTAATTTAGCTGGCAC-CAATGAAA
* * * * *
42843 AGATTCAAGCTTAATTTACCTGGCACTC-ATAAAA
1 A-ATTTAACCCTAATTTAGCTGGCAC-CAATGAAA
* *
42877 AATTTTAACCCTAGTTTAGCTGGCACCTATGAAA
1 AA-TTTAACCCTAATTTAGCTGGCACCAATGAAA
* ** *
42911 AATTTAAGCCC-AGTTTAATTTGCACCTAATG-AA
1 AATTTAA-CCCTAATTTAGCTGGCACC-AATGAAA
42944 AATTTAAGCCC-AATTTAGCTGGCACCAATGAAA
1 AATTTAA-CCCTAATTTAGCTGGCACCAATGAAA
* * ** *
42977 AGTTAAACCCT-GCTTAGCTAGCACTC-ATGAAA
1 AATTTAACCCTAATTTAGCTGGCAC-CAATGAAA
* * * **
43009 AGATTTAAGCTTAATTTAGTTGGCACCAATG-GG
1 A-ATTTAACCCTAATTTAGCTGGCACCAATGAAA
* * * *
43042 AATTTAAACCTAGTCTAGCTAGCACCTAAT-AAA
1 AATTTAACCCTAATTTAGCTGGCACC-AATGAAA
43075 AATTTAA
1 AATTTAA
43082 GTCCAATCTA
Statistics
Matches: 285, Mismatches: 64, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
32 67 0.24
33 137 0.48
34 81 0.28
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (33 bp):
AATTTAACCCTAATTTAGCTGGCACCAATGAAA
Found at i:42876 original size:166 final size:166
Alignment explanation
Indices: 42696--43026 Score: 536
Period size: 166 Copynumber: 2.0 Consensus size: 166
42686 CCCAATCTAG
* *
42696 CTGGCACTCATAAAAAAATTTAACCCTACTTTAGTTGGCACCCATGAAAATTTTAAGCCCAATTT
1 CTGGCACTCATAAAAAAATTTAACCCTACTTTAGCTGGCACCCATGAAAAATTTAAGCCCAATTT
* * *
42761 AACTGGCACCTAATGAAAATTTAAGCCCAGTTTAGTTCGCACCAATGAAAAGTTAAACCCTATTT
66 AACTGGCACCTAATGAAAATTTAAGCCCAATTTAGCTCGCACCAATGAAAAGTTAAACCCTACTT
42826 AGCTAGCACTCATGAAAAGATTCAAGCTTAATTTAC
131 AGCTAGCACTCATGAAAAGATTCAAGCTTAATTTAC
* * * *
42862 CTGGCACTCATAAAAAATTTTAACCCTAGTTTAGCTGGCACCTATGAAAAATTTAAGCCCAGTTT
1 CTGGCACTCATAAAAAAATTTAACCCTACTTTAGCTGGCACCCATGAAAAATTTAAGCCCAATTT
* * * *
42927 AATTTGCACCTAATGAAAATTTAAGCCCAATTTAGCTGGCACCAATGAAAAGTTAAACCCTGCTT
66 AACTGGCACCTAATGAAAATTTAAGCCCAATTTAGCTCGCACCAATGAAAAGTTAAACCCTACTT
*
42992 AGCTAGCACTCATGAAAAGATTTAAGCTTAATTTA
131 AGCTAGCACTCATGAAAAGATTCAAGCTTAATTTA
43027 GTTGGCACCA
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (166 bp):
CTGGCACTCATAAAAAAATTTAACCCTACTTTAGCTGGCACCCATGAAAAATTTAAGCCCAATTT
AACTGGCACCTAATGAAAATTTAAGCCCAATTTAGCTCGCACCAATGAAAAGTTAAACCCTACTT
AGCTAGCACTCATGAAAAGATTCAAGCTTAATTTAC
Found at i:43510 original size:17 final size:17
Alignment explanation
Indices: 43485--43524 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
43475 AGCAAAAAAT
*
43485 AAAATAAAAAAACTAAAC
1 AAAA-AAAAAAACCAAAC
43503 AAAAAAAAAAACCAAAC
1 AAAAAAAAAAACCAAAC
43520 AAAAA
1 AAAAA
43525 CAATGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAAACCAAAC
Found at i:43525 original size:23 final size:24
Alignment explanation
Indices: 43477--43564 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 24
43467 AGGAATAAAG
* *
43477 CAAAAAATAAAATAAAAAAAC-TAAA
1 CAAAAAA-AAAA-ACAAAAACAAAAA
*
43502 CAAAAAAAAAAAC-CAAACAAAAA
1 CAAAAAAAAAAACAAAAACAAAAA
* *
43525 CAATGAATAAAAACAAAAACAAACAA
1 CAA-AAAAAAAAACAAAAACAAA-AA
43551 CAAACAACAAAAAA
1 CAAA-AA-AAAAAA
43565 TTTGCCTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 4 0.08
23 7 0.14
24 12 0.24
25 14 0.29
26 7 0.14
27 5 0.10
ACGTcount: A:0.78, C:0.15, G:0.01, T:0.06
Consensus pattern (24 bp):
CAAAAAAAAAAACAAAAACAAAAA
Found at i:43552 original size:13 final size:13
Alignment explanation
Indices: 43492--43563 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
43482 AATAAAATAA
43492 AAAAACTAAACAA-
1 AAAAAC-AAACAAC
*
43505 AAAAAAAAACCAAAC
1 AAAAACAAA-C-AAC
** *
43520 AAAAACAATGAAT
1 AAAAACAAACAAC
43533 AAAAACAAA-AAC
1 AAAAACAAACAAC
43545 AAACAACAAACAAC
1 AAA-AACAAACAAC
43559 AAAAA
1 AAAAA
43564 ATTTGCCTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.17
13 24 0.51
14 8 0.17
15 7 0.15
ACGTcount: A:0.78, C:0.17, G:0.01, T:0.04
Consensus pattern (13 bp):
AAAAACAAACAAC
Found at i:45186 original size:18 final size:18
Alignment explanation
Indices: 45163--45228 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
45153 CCTATCATAG
45163 GTTTTCTTTTATCATTTT
1 GTTTTCTTTTATCATTTT
45181 GTTTTCTGTTT-TCATTTT
1 GTTTTCT-TTTATCATTTT
*
45199 -TATTTATTTTAT--TTTT
1 GT-TTTCTTTTATCATTTT
45215 AGATTTTCTTTTAT
1 -G-TTTTCTTTTAT
45229 TATTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.10
17 4 0.10
18 28 0.70
19 4 0.10
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.73
Consensus pattern (18 bp):
GTTTTCTTTTATCATTTT
Found at i:54946 original size:16 final size:17
Alignment explanation
Indices: 54925--54957 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54915 AAATGAAAAG
54925 TGATTCA-TTTTCATAA
1 TGATTCATTTTTCATAA
54941 TGATTCATTTTTCATAA
1 TGATTCATTTTTCATAA
54958 AATAAGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
TGATTCATTTTTCATAA
Found at i:55194 original size:43 final size:44
Alignment explanation
Indices: 55083--55270 Score: 174
Period size: 43 Copynumber: 4.4 Consensus size: 44
55073 TTAGAAAGCC
* * *** *
55083 ATTTTAAAGTTGTTTAGCCTTTAAATA-AATGAGTTCATTTCAT
1 ATTTTAAAGTTGTTTAGCCTTTGAATATAAGGAACACATTTCCT
* *
55126 ATTTTAAAGTTGTTTAACCTTTGAATATAA-GAGCACATTTCCT
1 ATTTTAAAGTTGTTTAGCCTTTGAATATAAGGAACACATTTCCT
* * * *
55169 ATTTTAAAGTTGTTTAGCCTATGAATA-GAGGAACGCATTTTC-
1 ATTTTAAAGTTGTTTAGCCTTTGAATATAAGGAACACATTTCCT
* * * *
55211 ATTTTAAATTTGTTTGGCCTTT--ATTTAGAGGAACACA-TTCTT
1 ATTTTAAAGTTGTTTAGCCTTTGAATATA-AGGAACACATTTCCT
55253 ATTTTAAAGTTGTTTAGC
1 ATTTTAAAGTTGTTTAGC
55271 TTCTGTTTAG
Statistics
Matches: 119, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 44 0.37
43 69 0.58
44 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (44 bp):
ATTTTAAAGTTGTTTAGCCTTTGAATATAAGGAACACATTTCCT
Found at i:55240 original size:42 final size:42
Alignment explanation
Indices: 55159--55284 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
55149 AATATAAGAG
* *
55159 CACATTTCCTATTTTAAAGTTGTTTAGC--CTATGAATAGAGGAA
1 CACA-TTCTTATTTTAAAGTTGTTTAGCTTCTAT--TTAGAGGAA
* * *
55202 CGCATT-TTCATTTTAAATTTGTTTGGCCTT-TATTTAGAGGAA
1 CACATTCTT-ATTTTAAAGTTGTTTAG-CTTCTATTTAGAGGAA
*
55244 CACATTCTTATTTTAAAGTTGTTTAGCTTCTGTTTAGAGGA
1 CACATTCTTATTTTAAAGTTGTTTAGCTTCTATTTAGAGGA
55285 GTTCTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
41 4 0.06
42 55 0.81
43 6 0.09
44 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.44
Consensus pattern (42 bp):
CACATTCTTATTTTAAAGTTGTTTAGCTTCTATTTAGAGGAA
Found at i:57731 original size:1 final size:1
Alignment explanation
Indices: 57725--57749 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
57715 CCCCGATACC
57725 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
57750 GAACAGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:59857 original size:29 final size:28
Alignment explanation
Indices: 59812--59903 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
59802 AAAATATCAC
*
59812 ATTA-ATTAATATATTTATAATTTAAAT
1 ATTATATTAATATTTTTATAATTTAAAT
* *
59839 GTTATATTACATATTTTTAAAATTTAAAT
1 ATTATATTA-ATATTTTTATAATTTAAAT
*
59868 ATTATATTAAATATTTTATTATAATTTAAAG
1 ATTATATT-AATA-TTT-TTATAATTTAAAT
59899 ATTAT
1 ATTAT
59904 TTATTGTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.06
28 4 0.07
29 27 0.50
30 4 0.07
31 16 0.30
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTATATTAATATTTTTATAATTTAAAT
Found at i:61733 original size:687 final size:676
Alignment explanation
Indices: 60394--61735 Score: 1541
Period size: 687 Copynumber: 2.0 Consensus size: 676
60384 TGTTAAAATT
* *
60394 TTTGATAAAAAATAAAATTTTCAATGAGAATGATTTATATTATTAACATGTGAATGATTTTAAAA
1 TTTGATAAAAAAAAAAATTTTCAATGAGAATGA-TTATATTATTAACATGTGAATGATCTTAAAA
* * *
60459 ATCGTCTTGTATCTTATATTTTATTTTATTTGAATTATTTTTAAAAAATTAAATTAATTATATTA
65 ATCATCATGTATCTTATATTTTATTTTATGTGAATTATTTTTAAAAAATTAAATTAATTATATTA
* * * *
60524 ATGTTTATCTTAAAATTAGTCTCAATTAAATTCATATTAAAGATAATAAAACTTGAATCGACATC
130 ATATTTATATTAAAATCACTCTCAATTAAATTCATATTAAAGATAATAAAACTTGAATCGACATC
* * * *
60589 ATAGAGTAATTTTGTATTTTTTTTTAATTATAAGATTCAACTTTTAAATTATATTTATGTAAAAA
195 ATAGAATAATTTTGTATCTTTTTTTAATTATAAGATTCAACTCTTAAATTATATTTATATAAAAA
* * *
60654 AATTCACTTTCCTATTTTTTAATCTATGGCCTGTTTATTTACTTCACTTTTTAAGTTATGTATAC
260 AATTCACTTTCCTATTTTCTAATCTATGGCCTATTTATTTACTCCACTTTTTAAGTTATGTATAC
*
60719 AGGTTTAGCTAGTATACATATATATATTAATTTTAAAATAATAAAAAGATGATCAAATAAATTAA
325 ACGTTTAGCTAGTAT--ATATATATATTAATTTTAAAATAAT-AAAAGATGATCAAATAAATTAA
* *
60784 AATTAATTTTGGAATATATCAAAATCCTTATTTTTCATTTCTCCCAATCGACTTAAATACATAAT
387 AATTAATTTTGGAACATATCAAAATCCTTATTTTTCATTTCTCCCAAGCGACTTAAATACATAAT
* * *
60849 ATCATATATAAATATATAAAAGCTAAAACTTTTGGTAAAAAAATTTTTTTTTCAATGTGGATGGT
452 ATCATATATAAATATATAAAAGCCAAAACTTTTGGTAAAAAAA---TATTTTCAATGTGAATGGT
* * * * *
60914 CTATATTATTGACATGTAAATGATCTTGAAAATCACCATGTATTTTTATTTTATTTGAATTATTT
514 CTACATTATTGAAATGTAAACGATCTTGAAAATCACCATGTACTTTTATTTTATTTCAATTATTT
* *
60979 TTTAAAAATTAAATTAATTACATTTATTTTCTATTACTATTTCCCTCAAATCACTCTTAATTAAA
579 TTAAAAAATTAAATTAATTACATTTATTTTCTATTACTATTTACCTCAAATCACTCTTAATTAAA
61044 TTCATGTCTTATATGAATATATAAGCTAAAGTC
644 TTCATGTCTTATATGAATATATAAGCTAAAGTC
* * * * *
61077 TTTGGTAAAAAAGAAAAATTTT-AATGTGAATGA-TATATTATTGACATGT-TATGATCTTGAAA
1 TTTGATAAAAAA-AAAAATTTTCAATGAGAATGATTATATTATTAACATGTGAATGATCTTAAAA
* *
61139 ATCATCATGTGTCTTATATTTTA-TTTATGTG-ATTATTTTTAAAAAATTAAGTTAATTGCCATT
65 ATCATCATGTATCTTATATTTTATTTTATGTGAATTATTTTTAAAAAATTAAATTAATT---A--
* * * *
61202 TATTATTATTTATTATTATCTTAATCACTCTCAATTATATTCCATATT-AAGATAATAAAACTTT
125 TATTAATATTTA-TATTA---AAATCACTCTCAATTAAATT-CATATTAAAGATAATAAAACTTG
* * * * *
61266 AATTGGCCATC-TAGAATAATTTATTTCTCTTTTTTTAATTATAATATTCAACTCCTTAAATTTA
185 AA-TCGACATCATAGAATAATTT-TGTATCTTTTTTTAATTATAAGATTCAACT-CTTAAA-TTA
* *
61330 TATTTATATAAAAAAAATTCAGATTTCTCCTATTTTCTAATTTATGGCCTATTTACTTT-CTCCA
246 TATTTATAT-AAAAAAATTC--ACTT-TCCTATTTTCTAATCTATGGCCTATTTA-TTTACTCCA
* * *
61394 C-TTTTAAGTTGATGTATACGACGTTTAG-TA-T-T-TATGTATATT-A-TTTAAAATGAT-TAA
306 CTTTTTAAGTT-ATGTATAC-ACGTTTAGCTAGTATATATATATATTAATTTTAAAATAATAAAA
* *
61451 GATTATCAAATCAATT-AAATT-ATTTTGGAACATATC-AAATCCTTA-TTTTCAATTTCT-CCA
369 GATGATCAAATAAATTAAAATTAATTTTGGAACATATCAAAATCCTTATTTTTC-ATTTCTCCCA
* *
61511 AGC-ACCTTACATCACATAATATCGTTATATAAATATATAAAAGCCAAAACTTTTGGTAGAAAGG
433 AGCGA-CTTAAAT-ACATAATATC-ATATATAAATATATAAAAGCCAAAACTTTTGGTA-AAA--
* * *
61575 AAA-ATTTTCAATGTGAATGGT-TACATTATTGAAATTTGAACGATCTTGAAAATCGCCATAACG
492 AAATATTTTCAATGTGAATGGTCTACATTATTGAAATGTAAACGATCTTGAAAATCACCAT---G
*
61638 T-CTTTTACTTTATCTTCTTCAATTATTTTTAAAAAAATTAAATTAATTACATTTA-TTTCTATT
554 TACTTTTA-TTT-T-AT-TTCAATTATTTTT-AAAAAATTAAATTAATTACATTTATTTTCTATT
* * *
61701 ATTATTTATCTTAAATCACT-TTCAATTAAATTCAT
614 ACTATTTACCTCAAATCACTCTT-AATTAAATTCAT
61736 ATTAAAGAAA
Statistics
Matches: 560, Mismatches: 61, Indels: 72
0.81 0.09 0.10
Matches are distributed among these distances:
678 25 0.04
679 7 0.01
680 31 0.06
681 64 0.11
682 41 0.07
683 82 0.15
684 25 0.04
685 17 0.03
686 6 0.01
687 101 0.18
688 62 0.11
689 14 0.03
690 11 0.02
691 10 0.02
692 1 0.00
693 13 0.02
694 40 0.07
695 10 0.02
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (676 bp):
TTTGATAAAAAAAAAAATTTTCAATGAGAATGATTATATTATTAACATGTGAATGATCTTAAAAA
TCATCATGTATCTTATATTTTATTTTATGTGAATTATTTTTAAAAAATTAAATTAATTATATTAA
TATTTATATTAAAATCACTCTCAATTAAATTCATATTAAAGATAATAAAACTTGAATCGACATCA
TAGAATAATTTTGTATCTTTTTTTAATTATAAGATTCAACTCTTAAATTATATTTATATAAAAAA
ATTCACTTTCCTATTTTCTAATCTATGGCCTATTTATTTACTCCACTTTTTAAGTTATGTATACA
CGTTTAGCTAGTATATATATATATTAATTTTAAAATAATAAAAGATGATCAAATAAATTAAAATT
AATTTTGGAACATATCAAAATCCTTATTTTTCATTTCTCCCAAGCGACTTAAATACATAATATCA
TATATAAATATATAAAAGCCAAAACTTTTGGTAAAAAAATATTTTCAATGTGAATGGTCTACATT
ATTGAAATGTAAACGATCTTGAAAATCACCATGTACTTTTATTTTATTTCAATTATTTTTAAAAA
ATTAAATTAATTACATTTATTTTCTATTACTATTTACCTCAAATCACTCTTAATTAAATTCATGT
CTTATATGAATATATAAGCTAAAGTC
Found at i:66421 original size:16 final size:15
Alignment explanation
Indices: 66390--66428 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
66380 TGGCACTTGG
*
66390 ATATAT-ATATATAT
1 ATATATAATATACAT
66404 ATATATAATATACCAT
1 ATATATAATATA-CAT
66420 ATATATAAT
1 ATATATAAT
66429 TATAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATAATATACAT
Done.