Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002639.1 Hibiscus syriacus cultivar Beakdansim tig00005383_pilon, 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: 106721
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:2453 original size:48 final size:49
Alignment explanation
Indices: 2303--2625 Score: 411
Period size: 49 Copynumber: 6.6 Consensus size: 49
2293 AACTGCTCTA
* *
2303 TAATGCAAGTTAAATGCATAATGGTGCATTTTTTGCAGATAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
2352 TAATGCAAGTTAAATTCATAATGGTGCATTTTTGGCAGAAAGGTTCCAA
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
2401 TAATGCAAGTTAAATGCATAATGGTGCA-TTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * *
2449 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGTATAAAGGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
2498 TAATGCAA-TTAAATGCATAATGGTGTATTTTTGGCATAAAGGTACCGC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * * * * *
2546 TAATGAAAATTTAATGCATAACGGTG--TATTTGAGCATAAAAGGTACCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTG-GCA-GAAAGGTGCCAC
* *
2595 TAATGAAAGTTAAATGCATAACGGTGCATTT
1 TAATGCAAGTTAAATGCATAATGGTGCATTT
2626 CAGCATAAAA
Statistics
Matches: 243, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
47 5 0.02
48 91 0.37
49 145 0.60
51 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:2469 original size:97 final size:98
Alignment explanation
Indices: 2302--2625 Score: 406
Period size: 97 Copynumber: 3.3 Consensus size: 98
2292 GAACTGCTCT
* *
2302 ATAATGCAAGTTAAATGCATAATGGTGCATTTTTTGCAGATAGGTGCCACTAATGCAAGTTAAAT
1 ATAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* *
2367 TCATAATGGTGCATTTTTGGCAGAAAGGTTCCA
66 GCATAATGGTGCATTTTTGGCAAAAAGGTTCCA
2400 ATAATGCAAGTTAAATGCATAATGGTGCA-TTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
1 ATAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* *
2464 GCATAATGGTGCATTTTTGGTATAAAGGTGT-CA
66 GCATAATGGTGCATTTTTGGCAAAAAGGT-TCCA
* * * * * * * *
2497 CTAATGCAA-TTAAATGCATAATGGTGTATTTTTGGCATAAAGGTACCGCTAATGAAAATTTAAT
1 ATAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
* * *
2561 GCATAACGGTG--TATTTGAGCATAAAAGGTACCA
66 GCATAATGGTGCATTTTTG-GCA-AAAAGGTTCCA
* * *
2594 CTAATGAAAGTTAAATGCATAACGGTGCATTT
1 ATAATGCAAGTTAAATGCATAATGGTGCATTT
2626 CAGCATAAAA
Statistics
Matches: 199, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
95 5 0.03
96 20 0.10
97 124 0.62
98 50 0.25
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (98 bp):
ATAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAAT
GCATAATGGTGCATTTTTGGCAAAAAGGTTCCA
Found at i:5338 original size:8 final size:8
Alignment explanation
Indices: 5319--5356 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
5309 AGATAACAAT
5319 TAAATAAAA
1 TAAA-AAAA
*
5328 TAAATAAA
1 TAAAAAAA
5336 TAAAAAAA
1 TAAAAAAA
5344 TAAAAAAA
1 TAAAAAAA
5352 TAAAA
1 TAAAA
5357 GAGATTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 23 0.85
9 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:6008 original size:63 final size:62
Alignment explanation
Indices: 5936--6055 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
5926 TAAAATATCT
5936 TAAATCCTAATAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAAATAATATAATATTC
1 TAAATCCTAATAAAACAC-TAAAACCTATTTAAACTAAAATACCT-AAAAATAATATAATATTC
* ** * *
5999 TAAATCCTAATAAAATACTAAAACCTATTTAATTTAAAATATCTAAAACTAATATAA
1 TAAATCCTAATAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAATAATATAA
6056 AATATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
62 17 0.33
63 34 0.67
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (62 bp):
TAAATCCTAATAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAATAATATAATATTC
Found at i:6069 original size:18 final size:19
Alignment explanation
Indices: 6028--6071 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
6018 AAAACCTATT
* *
6028 TAATTTAAAATATCTAAAAC
1 TAATATAAAATA-CTAAAAA
6048 TAATATAAAATA-TAAAAA
1 TAATATAAAATACTAAAAA
6066 TAATAT
1 TAATAT
6072 CCTAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATATAAAATACTAAAAA
Found at i:6089 original size:32 final size:32
Alignment explanation
Indices: 6036--6097 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
6026 TTTAATTTAA
6036 AATATCTAAAACTAATATAAAATA-TAAAAAT
1 AATATCTAAAACTAATATAAAATACTAAAAAT
6067 AATATCCTAAAACTTAAT-TAAAATACTAAAA
1 AATAT-CTAAAAC-TAATATAAAATACTAAAA
6098 CCTATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 5 0.18
32 14 0.50
33 9 0.32
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (32 bp):
AATATCTAAAACTAATATAAAATACTAAAAAT
Found at i:6140 original size:76 final size:74
Alignment explanation
Indices: 5979--6152 Score: 190
Period size: 76 Copynumber: 2.3 Consensus size: 74
5969 CTAAAATACC
* * * * **
5979 TAAAAAATAATATAATATTCTAAATCCTAATAAAATACTAAAACCTATTTAATTTAAAATATCTA
1 TAAAATATAAAATAATATCCTAAAACCTAATAAAATACTAAAACCTATTTAAACTAAAATATCTA
*
6044 AAACTAATA
66 AAACAAATA
*
6053 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACCTAA-TAAAATACTAAAACCTATTTAAACTAAAATATC
6117 TAAGATA-AAATA
64 TAA-A-ACAAATA
** * *
6129 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
6153 CTTGAGTTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
74 7 0.08
75 37 0.44
76 39 0.46
77 1 0.01
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (74 bp):
TAAAATATAAAATAATATCCTAAAACCTAATAAAATACTAAAACCTATTTAAACTAAAATATCTA
AAACAAATA
Found at i:8002 original size:12 final size:12
Alignment explanation
Indices: 7980--8029 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
7970 ATGTTCGCTA
7980 AAAACATAAAACG
1 AAAA-ATAAAACG
*
7993 AAAAATAAAATG
1 AAAAATAAAACG
8005 -AAAATAAAAAC-
1 AAAAAT-AAAACG
*
8016 AAAAATATAACG
1 AAAAATAAAACG
8028 AA
1 AA
8030 TTGGGTTGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 9 0.29
12 18 0.58
13 4 0.13
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAATAAAACG
Found at i:13466 original size:12 final size:13
Alignment explanation
Indices: 13443--13471 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13433 AGATAACAAT
13443 TAAATAAAATAAA
1 TAAATAAAATAAA
13456 TAAAT-AAATAAA
1 TAAATAAAATAAA
13468 TAAA
1 TAAA
13472 AGAGATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:14122 original size:64 final size:63
Alignment explanation
Indices: 14054--14175 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 63
14044 TAAAATATCT
14054 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAGCTAAAATACCTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAGCTAAAATACCTAAAAAA-AATATAATATTC
* ** *
14118 TAAATCCTAATTAAAATACTAAAACCTATTTAATTTAAAATACCTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAGCTAAAATACCTAAAAAAAATATAA
14176 AATATAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 12 0.23
64 41 0.77
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAGCTAAAATACCTAAAAAAAATATAATATTC
Found at i:14145 original size:19 final size:19
Alignment explanation
Indices: 14089--14150 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
14079 CTATTTAAGC
**
14089 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
14109 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
14129 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
14148 TAA
1 TAA
14151 TTTAAAATAC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 18 0.56
20 9 0.28
21 5 0.16
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:14197 original size:32 final size:32
Alignment explanation
Indices: 14156--14217 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
14146 TTTAATTTAA
14156 AATACCTAAAAC-AAATATAAAATA-TAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACTAAAAAT
*
14187 AATATCCTAAAACTTAATTAAAATACTAAAA
1 AATA-CCTAAAACTAAATTAAAATACTAAAA
14218 TCTATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (32 bp):
AATACCTAAAACTAAATTAAAATACTAAAAAT
Found at i:14260 original size:76 final size:75
Alignment explanation
Indices: 14098--14272 Score: 192
Period size: 76 Copynumber: 2.3 Consensus size: 75
14088 CTAAAATACC
* * * * **
14098 TAAAAAATAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAATTTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
*
14163 AAAACAAATA
66 AAAAAAAATA
* *
14173 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAATCTATTTAAACTAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACC
14237 -AAAGATAAAATA
65 TAAA-A-AAAATA
** * *
14249 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
14273 CTTTAGTTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
74 3 0.04
75 24 0.29
76 57 0.68
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
AAAAAAAATA
Found at i:15096 original size:17 final size:16
Alignment explanation
Indices: 15074--15108 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
15064 TTGTATAAGT
15074 AGAAAATGAAGAGATTG
1 AGAAAATGAAGAG-TTG
15091 AGAAAATGAAGAGTTG
1 AGAAAATGAAGAGTTG
15107 AG
1 AG
15109 TTATTAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (16 bp):
AGAAAATGAAGAGTTG
Found at i:15493 original size:17 final size:17
Alignment explanation
Indices: 15471--15517 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
15461 ATTAAGCCTA
15471 GAATTTTAA-AATAGGAT
1 GAATTTTAAGAA-AGGAT
15488 GAATTTTAAGAAAGGAT
1 GAATTTTAAGAAAGGAT
*
15505 GAATTTTATGAAA
1 GAATTTTAAGAAA
15518 AATTGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 26 0.93
18 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (17 bp):
GAATTTTAAGAAAGGAT
Found at i:15897 original size:49 final size:49
Alignment explanation
Indices: 15842--16152 Score: 351
Period size: 49 Copynumber: 6.3 Consensus size: 49
15832 AACTACTCTA
* * *
15842 TAATGCAAGTTAACTGCATAATGGTGCATTTTTGGCATAAAGCTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* *
15891 TAATGCAAGTTGAATGCATAATGGTGCATTTTTGGCAGAAAGGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * *
15940 CAATGCAAGTTAAATTCATAATGGTGCATAATTT-GAAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCAT-TTTTGGCAGAAAGGTGCCAC
* *
15989 TAATGCAAGTGAAATGCATAATGATGCATTTTTGGCAGAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* ** * * *
16038 TAATGCAAGTTAAATGCATAATGGTGTATTTTTTACATAAAGGTACTAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
* * * * *
16087 TAATGAAAAAG-T-AATGCATAATGGTGCA-TTTCGACATAAAAGGTACCAC
1 TAATG--CAAGTTAAATGCATAATGGTGCATTTTTGGCA-GAAAGGTGCCAC
*
16136 TAATGAAAGTTAAATGC
1 TAATGCAAGTTAAATGC
16153 GTGCATTTCA
Statistics
Matches: 224, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.02
48 10 0.04
49 203 0.91
50 4 0.02
51 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAGGTGCCAC
Found at i:19039 original size:26 final size:26
Alignment explanation
Indices: 19003--19054 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18993 TCTAAGGTTG
19003 TTGCATCTTTTGCTGTAGATGAAGTA
1 TTGCATCTTTTGCTGTAGATGAAGTA
19029 TTGCATCTTTTGCTGTAGATGAAGTA
1 TTGCATCTTTTGCTGTAGATGAAGTA
19055 ATGATAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (26 bp):
TTGCATCTTTTGCTGTAGATGAAGTA
Found at i:19860 original size:17 final size:18
Alignment explanation
Indices: 19833--19867 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19823 TTATCGTAGG
19833 CACTGATTCGAGTTGATC
1 CACTGATTCGAGTTGATC
*
19851 CACT-ATTCGATTTGATC
1 CACTGATTCGAGTTGATC
19868 GTGGAAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (18 bp):
CACTGATTCGAGTTGATC
Found at i:22297 original size:22 final size:24
Alignment explanation
Indices: 22255--22298 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22245 AAGTCTCTCC
22255 CAAGACCCAATTACAACATCCAAG
1 CAAGACCCAATTACAACATCCAAG
*
22279 CAAG-CCCAA-TACAAGATCCA
1 CAAGACCCAATTACAACATCCA
22299 GTAGACCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.45, C:0.34, G:0.09, T:0.11
Consensus pattern (24 bp):
CAAGACCCAATTACAACATCCAAG
Found at i:23384 original size:136 final size:136
Alignment explanation
Indices: 23228--23722 Score: 690
Period size: 136 Copynumber: 3.7 Consensus size: 136
23218 CCTTTAGGAC
* * * * *
23228 GAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCCATCACTCAAGCGAGGCGTCACAGATTC
1 GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
* *** * * * *
23293 AAAATGTTGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCACTATGATCTTCTTCTCCCTCTA
66 GAAATGCCATGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTA
23358 TTGAAT
131 TTGAAT
* *
23364 GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGACGTCACTGATTC
1 GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
* * *
23429 GAAATGCCGTGAATCAAGTGATAGGTTGAACAAGCTCTTCTCATTATTAACTTCTTCTCCCTCTA
66 GAAATGCCATGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTA
*
23494 TCGAAT
131 TTGAAT
* * *
23500 GAGTTCTTCTCATTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGTGAGGCATCACTTATTC
1 GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
* * * * *
23565 GAAATGCTATGAATCAAGTGATAGGTCAAACAATCTCTTTTCATTATAAACTTCTTCTCCCTCTG
66 GAAATGCCATGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTA
*
23630 TTGGAT
131 TTGAAT
* *
23636 GAGTTATTC-C-C-ATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1 GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
*
23698 GAAATGCCATGAATCGAGTGATAGG
66 GAAATGCCATGAATCAAGTGATAGG
23723 AAATGTTAAA
Statistics
Matches: 323, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
133 71 0.22
135 1 0.00
136 251 0.78
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (136 bp):
GAGTTCTTCTCACTATGAACTCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
GAAATGCCATGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTA
TTGAAT
Found at i:24120 original size:54 final size:53
Alignment explanation
Indices: 24054--24288 Score: 285
Period size: 54 Copynumber: 4.4 Consensus size: 53
24044 AAATCTTTTG
* * *
24054 AAAATC-GAACTTAGTTTCTTTAAAACACATTTGAAAATTGTCAAGAAACTTCTG
1 AAAATCAG-ACTTAGTTTCTTTAAAACTCATTT-AAAATTATCAAGAAACTTCTC
*
24108 AAAATCAGACTTATTTTCTTTAAAAGCTCATTTAAAATTATCAAGAAACTTCTC
1 AAAATCAGACTTAGTTTCTTTAAAA-CTCATTTAAAATTATCAAGAAACTTCTC
* * * * * *
24162 AAAATCAGACTTAGTTTCTTTAAAACTCGTGGTGAAATCATCAGGAAACTTCTA
1 AAAATCAGACTTAGTTTCTTTAAAACTCAT-TTAAAATTATCAAGAAACTTCTC
* * *
24216 AAAATTAGACTTAGTTTCTTTGAAAACTCATTTTAAATGATCAAGAAACTTC-C
1 AAAATCAGACTTAGTTTCTTT-AAAACTCATTTAAAATTATCAAGAAACTTCTC
24269 AAGAATCAGACTTAGTTTCT
1 AA-AATCAGACTTAGTTTCT
24289 AAAAAACACT
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
53 6 0.04
54 136 0.87
55 15 0.10
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (53 bp):
AAAATCAGACTTAGTTTCTTTAAAACTCATTTAAAATTATCAAGAAACTTCTC
Found at i:30785 original size:45 final size:45
Alignment explanation
Indices: 30692--30778 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
30682 TGTTATTCAC
* * * * *
30692 AAAAATATCCTAACCTCGTGATATCTAATTCACATTCTTGTTCGA
1 AAAAAAATCCTAACCACATGATATCTAATTCACATACTTCTTCGA
* * *
30737 AAAAAAATCCTAACCACATGATCTCTAGTTCGCATACTTCTT
1 AAAAAAATCCTAACCACATGATATCTAATTCACATACTTCTT
30779 GCAAAAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.33
Consensus pattern (45 bp):
AAAAAAATCCTAACCACATGATATCTAATTCACATACTTCTTCGA
Found at i:31221 original size:17 final size:18
Alignment explanation
Indices: 31190--31223 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31180 ATTTGTTAAT
*
31190 AAAATTATAATACAAACA
1 AAAATTATAAAACAAACA
31208 AAAATT-TAAAACAAAC
1 AAAATTATAAAACAAAC
31224 CAGGCTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATTATAAAACAAACA
Found at i:32245 original size:66 final size:66
Alignment explanation
Indices: 32175--32367 Score: 189
Period size: 66 Copynumber: 3.1 Consensus size: 66
32165 AATATAAAAT
32175 ATAATATACGGTCAGTGACTATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTAC
1 ATAATATACGGTCAGTGACTATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTAC
32240 A
66 A
* * * * * * *
32241 AT-A-ATAC-GT-A---ACATATAA-A-AAT-TTTAAA-TTTTA-AGACCAAAT-TTAAATA-TA
1 ATAATATACGGTCAGTGAC-TATAATATAATAATTAAACATATAGTGACC-GATGTCAAATATTT
*
32292 AAA
64 ACA
32295 TATAATATACGGTCAGTGACTATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTA
1 -ATAATATACGGTCAGTGACTATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTA
32360 CA
65 CA
32362 ATAATA
1 ATAATA
32368 CGTAACATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 34
0.65 0.11 0.24
Matches are distributed among these distances:
54 3 0.03
55 12 0.13
56 6 0.06
57 9 0.10
58 5 0.05
59 4 0.04
60 5 0.05
61 5 0.05
62 4 0.04
63 5 0.05
64 9 0.10
65 6 0.06
66 18 0.19
67 3 0.03
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (66 bp):
ATAATATACGGTCAGTGACTATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTAC
A
Found at i:32258 original size:55 final size:55
Alignment explanation
Indices: 32198--32379 Score: 129
Period size: 55 Copynumber: 3.1 Consensus size: 55
32188 AGTGACTATA
32198 ATATAATAATTAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAAC
1 ATATAATAATTAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAAC
* * * * * * * *
32253 ATATAAAAATTTTAAA-TTTTA-AGACCAAAT-TTAAATA-TAAAATATAATATACGGTCAGTGA
1 ATATAATAA--TTAAACATATAGTGACC-GATGTCAAATATTTACA-AT-A-ATAC-GT-A---A
32314 C
55 C
32315 TATAATATAATAATTAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAAC
1 ----ATATAATAATTAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAAC
32374 ATATAA
1 ATATAA
32380 AAATAGGATT
Statistics
Matches: 92, Mismatches: 16, Indels: 38
0.63 0.11 0.26
Matches are distributed among these distances:
54 3 0.03
55 26 0.28
56 6 0.07
57 9 0.10
58 2 0.02
59 3 0.03
62 3 0.03
63 2 0.02
64 9 0.10
65 6 0.07
66 20 0.22
67 3 0.03
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (55 bp):
ATATAATAATTAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAAC
Found at i:32271 original size:121 final size:121
Alignment explanation
Indices: 32143--32383 Score: 482
Period size: 121 Copynumber: 2.0 Consensus size: 121
32133 CAAAAGAATA
32143 TTAAATTTTAAGACCAAATTTAAATATAAAATATAATATACGGTCAGTGACTATAATATAATAAT
1 TTAAATTTTAAGACCAAATTTAAATATAAAATATAATATACGGTCAGTGACTATAATATAATAAT
32208 TAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAACATATAAAAATT
66 TAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAACATATAAAAATT
32264 TTAAATTTTAAGACCAAATTTAAATATAAAATATAATATACGGTCAGTGACTATAATATAATAAT
1 TTAAATTTTAAGACCAAATTTAAATATAAAATATAATATACGGTCAGTGACTATAATATAATAAT
32329 TAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAACATATAAAAAT
66 TAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAACATATAAAAAT
32384 AGGATTAAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (121 bp):
TTAAATTTTAAGACCAAATTTAAATATAAAATATAATATACGGTCAGTGACTATAATATAATAAT
TAAACATATAGTGACCGATGTCAAATATTTACAATAATACGTAACATATAAAAATT
Found at i:34509 original size:195 final size:195
Alignment explanation
Indices: 34136--34522 Score: 463
Period size: 195 Copynumber: 2.0 Consensus size: 195
34126 AAGGTGGGTT
* * * * *
34136 AAATGTGAAAGTTTTGCAACTATTTTACAAGAGGCGAGCTTATAAAACTCTTGACAAAGAGTCTT
1 AAATGTGAAAATTGTGCAACTATTTCACAAGAGGCGAGCTTATAAAACTCTTGAAAAAGAGTCGT
* * * * * *
34201 ATATTCAAGACGCATTCACGAGAGTTTAGAACTAATGGATATTTATAGAAGATGAACATGCTACA
66 ACATCCAAGAAGCATTCACGAGAGCTTAGAACCAATGGACATTTATAGAAGATGAACATGCTACA
* * *
34266 GCGATGAACATCAAAGAACTAGGTGTGCTGAATCTTAACCAGAGAAGCCAACCCAAAATACCCTC
131 GCGAGGAACATAAAAGAACTAGGTGTGCTAAATCTTAACCAGAGAAGCCAACCCAAAATACCCTC
* * * * * *
34331 AAATGTTAAAATTGTGCAACTGTTTCACAAGAGGTGGGCTTATAAATCTCTTGAAAAAGTGTCGT
1 AAATGTGAAAATTGTGCAACTATTTCACAAGAGGCGAGCTTATAAAACTCTTGAAAAAGAGTCGT
* *** * * * *
34396 ACATCCAATAAGCATTTGTGAGAGCTTAGAACCAGTGGACATTTCTAGAAGATGAACATGTTAGA
66 ACATCCAAGAAGCATTCACGAGAGCTTAGAACCAATGGACATTTATAGAAGATGAACATGCTACA
* * *
34461 GCGAGGAACATAAAAGAATTAGAG-GTGCTAAATCTTGACCCA-AGAAGCCATCCCAAAATACC
131 GCGAGGAACATAAAAGAACTAG-GTGTGCTAAATCTT-AACCAGAGAAGCCAACCCAAAATACC
34523 TTTTATTCCT
Statistics
Matches: 159, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
195 154 0.97
196 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (195 bp):
AAATGTGAAAATTGTGCAACTATTTCACAAGAGGCGAGCTTATAAAACTCTTGAAAAAGAGTCGT
ACATCCAAGAAGCATTCACGAGAGCTTAGAACCAATGGACATTTATAGAAGATGAACATGCTACA
GCGAGGAACATAAAAGAACTAGGTGTGCTAAATCTTAACCAGAGAAGCCAACCCAAAATACCCTC
Found at i:36193 original size:85 final size:83
Alignment explanation
Indices: 36065--36236 Score: 222
Period size: 85 Copynumber: 2.0 Consensus size: 83
36055 CAAGATTTTT
* * * *
36065 TTTCTTGATTTGGCATCCTTAAAAGAAAAACAGAGCAATCATTGATCACGACTTGGCATCCTTTA
1 TTTCCTGATTTGGCATCCTTAAAAGAAAAACAGAACAACCATTGATCACGACTTGGCATCCTTCA
*
36130 GAGAAAGGA-ACAAGATCA
66 AAGAAAGGAGA-AAGATCA
* * *
36148 TTTCCTGATTTGGCGTCCTTCAAAA-AAAGGAGCAGAACAACCATTGATCATGACTTGGCATCCT
1 TTTCCTGATTTGGCATCCTT-AAAAGAAA--AACAGAACAACCATTGATCACGACTTGGCATCCT
36212 TCAAAGAAAGGAGAAAGATCA
63 TCAAAGAAAGGAGAAAGATCA
36233 TTTC
1 TTTC
36237 TCAATTTAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
83 21 0.27
84 4 0.05
85 51 0.66
86 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (83 bp):
TTTCCTGATTTGGCATCCTTAAAAGAAAAACAGAACAACCATTGATCACGACTTGGCATCCTTCA
AAGAAAGGAGAAAGATCA
Found at i:36305 original size:85 final size:85
Alignment explanation
Indices: 36095--36319 Score: 222
Period size: 85 Copynumber: 2.6 Consensus size: 85
36085 AAAAGAAAAA
* * * *
36095 CAGAGCAATCATTGATCACGACTTGGCATCCTTTAGAGAAAGGA-ACAAGATCATTTCCTGATTT
1 CAGAACAACCATTGATCATGACTTGGCATCCTTTAGAGAAAGGAGA-AAGATCATTTCCTAATTT
*
36159 GGCGTCCTTCAAAAAAAGGAG
65 AGCGTCCTTCAAAAAAAGGAG
* *
36180 CAGAACAACCATTGATCATGACTTGGCATCCTTCAAAGAAAGGAGAAAGATCATTT-CTCAATTT
1 CAGAACAACCATTGATCATGACTTGGCATCCTTTAGAGAAAGGAGAAAGATCATTTCCT-AATTT
* * * *
36244 AGCTTCCTTTATAGAAAGGAG
65 AGCGTCCTTCAAAAAAAGGAG
* * * * ** * * *
36265 TAGATCAACCCTTGATTATGACTTTTC-TCCCTTTAGAGAAATGAGGAAGACCATT
1 CAGAACAACCATTGATCATGACTTGGCAT-CCTTTAGAGAAAGGAGAAAGATCATT
36320 CTCTGATTTT
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
84 3 0.03
85 111 0.97
86 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (85 bp):
CAGAACAACCATTGATCATGACTTGGCATCCTTTAGAGAAAGGAGAAAGATCATTTCCTAATTTA
GCGTCCTTCAAAAAAAGGAG
Found at i:41183 original size:45 final size:45
Alignment explanation
Indices: 41141--41358 Score: 267
Period size: 45 Copynumber: 4.8 Consensus size: 45
41131 AACACCATCC
* * *
41141 TTGCACACACAGT-CCTATAGTACAAAAAATGTACTACTACCATCT
1 TTGCACACATAGTGCC-ATAGTACAACAAATGTACTACTACTATCT
** * *
41186 TTAAACACATAGTACCATAGTACAACAAATGTAGTACTACTATCT
1 TTGCACACATAGTGCCATAGTACAACAAATGTACTACTACTATCT
** * * * * *
41231 TTGCATGCATAGTGCAATAATAAAACAAATGTAATACTACTTTCT
1 TTGCACACATAGTGCCATAGTACAACAAATGTACTACTACTATCT
*
41276 TTGCACGCATAGTGCCATAGTACAACAAATGTACTACTACTATCT
1 TTGCACACATAGTGCCATAGTACAACAAATGTACTACTACTATCT
* *
41321 TTGCACACTTAGTGCCATAGTACAACAAATGCACTACT
1 TTGCACACATAGTGCCATAGTACAACAAATGTACTACT
41359 CCAATAAAGA
Statistics
Matches: 147, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
45 145 0.99
46 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (45 bp):
TTGCACACATAGTGCCATAGTACAACAAATGTACTACTACTATCT
Found at i:46145 original size:45 final size:45
Alignment explanation
Indices: 46081--46199 Score: 193
Period size: 45 Copynumber: 2.6 Consensus size: 45
46071 TAGTACATTT
* * *
46081 GTGCCATAGTACAACAAATGTACTACTTCTATCTTTGCACACATA
1 GTGCCATAGTACAACAAATGTACTACTACCATCTTTACACACATA
* *
46126 GTGCCATAGAACAACAAATGTACTACTACCATCTTTACACACCTA
1 GTGCCATAGTACAACAAATGTACTACTACCATCTTTACACACATA
46171 GTGCCATAGTACAACAAATGTACTACTAC
1 GTGCCATAGTACAACAAATGTACTACTAC
46200 AATAACACAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (45 bp):
GTGCCATAGTACAACAAATGTACTACTACCATCTTTACACACATA
Found at i:54302 original size:49 final size:50
Alignment explanation
Indices: 54248--54599 Score: 372
Period size: 49 Copynumber: 7.1 Consensus size: 50
54238 ATTTTTCATC
*
54248 TAACTTGCATTAGTGGCACCTTT-TGCCCAAAATTGCATCGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
* * ** ** *
54297 TAACTTGCATTAGTGGCACCTTTCTG-CAAAAAATG-TTCAATATTTCATC
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTA-GGCATT
*
54346 TAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
* * * * * *** **
54396 TAACTTTCATTAGTTGCACATTTCTG-CCAAAAATGCACCATTTTTCAGC
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
** * * *
54445 TAACTTGCATTAGTCACACCTTTATGCTCAAAAAGGCATCGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
* * * *** *
54495 TAACTTGCATTAGTGACACCTTTCTG-CCAAAAATGCACCATTTTTCATC
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
*
54544 TAACTTGCATTAGTGGTACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
54594 TAACTT
1 TAACTT
54600 TCGTATTAGA
Statistics
Matches: 238, Mismatches: 59, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
48 4 0.02
49 134 0.56
50 96 0.40
51 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (50 bp):
TAACTTGCATTAGTGGCACCTTTCTGCCCAAAAATGCATCGTTAGGCATT
Found at i:54396 original size:99 final size:99
Alignment explanation
Indices: 54229--54599 Score: 573
Period size: 99 Copynumber: 3.8 Consensus size: 99
54219 TTTTTTTTTT
* *
54229 AAATGCACCATTTTTCATCTAACTTGCATTAGTGGCACCTTT-TGCCCAAAATTGCATCGTTAGG
1 AAATGCACCATTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
*
54293 CATTTAACTTGCATTAGTGGCACCTTTCTGCAAA
66 CATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
** * *
54327 AAATGTTCAATATTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
1 AAATGCACCATTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
* * *
54392 CATTTAACTTTCATTAGTTGCACATTTCTGCCAA
66 CATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
* * * * *
54426 AAATGCACCATTTTTCAGCTAACTTGCATTAGTCACACCTTTATGCTCAAAAAGGCATCGTTAGG
1 AAATGCACCATTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
*
54491 CATTTAACTTGCATTAGTGACACCTTTCTGCCAA
66 CATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
**
54525 AAATGCACCATTTTTCATCTAACTTGCATTAGTGGTACCTTTCTGCCCAAAAATGCATCGTTAGG
1 AAATGCACCATTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
54590 CATTTAACTT
66 CATTTAACTT
54600 TCGTATTAGA
Statistics
Matches: 242, Mismatches: 30, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
98 37 0.15
99 205 0.85
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (99 bp):
AAATGCACCATTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCCAAAAATGCATCGTTAGG
CATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
Found at i:59679 original size:55 final size:55
Alignment explanation
Indices: 59595--59703 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
59585 ATTACCAAAT
*
59595 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
* * * *
59650 GGCACTTTGTGTGTAAAAATAATAAATTCATAATAAGTTTATGAATTTTGGTAT
1 GGCACTATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
59704 TAGTAATATG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
Found at i:59716 original size:55 final size:55
Alignment explanation
Indices: 59600--59720 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
59590 CAAATGGCAC
* * *
59600 TATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCAC
1 TATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTATGAGCAA
* * * * * *
59655 TTTGTGTGTAAAAATAATAAATTCATAATAAGTTTATGAATTTTGGTATTAGTAA
1 TATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTATGAGCAA
59710 TATGTGTGCAA
1 TATGTGTGCAA
59721 CCCACTTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (55 bp):
TATGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTTCGTATGAGCAA
Found at i:59977 original size:81 final size:81
Alignment explanation
Indices: 59841--60252 Score: 554
Period size: 81 Copynumber: 5.1 Consensus size: 81
59831 TATTCCAAAA
* * * * *
59841 TAAAAGATTATTGGTCTAGATGTGCATTTTGATACAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCTGTGCA-TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
59906 GCTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * *
59923 TAAAAGATTAAGGGCCTAGCTGTGCATTTGACATAAAAGTGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
59988 GTTAAATACCTTTTAG
66 GTTAAATACCTTTGAG
* * * *
60004 TAAACGATTAATGGCCTAGCTGTGTATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
60069 GTTAAATATCTTTAAG
66 GTTAAATACCTTTGAG
* *
60085 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
60150 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
60166 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGGAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
60231 GTTATATGCATTTGGG
66 GTTAAATACCTTTGAG
60247 TAAAAG
1 TAAAAG
60253 TTTATATGTT
Statistics
Matches: 293, Mismatches: 37, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
81 271 0.92
82 22 0.08
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:62716 original size:2 final size:2
Alignment explanation
Indices: 62709--62770 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
62699 TGTCAGAAAC
62709 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
62751 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
62771 GTATGTATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64537 original size:90 final size:90
Alignment explanation
Indices: 64435--64601 Score: 291
Period size: 90 Copynumber: 1.9 Consensus size: 90
64425 ATTTAATTTT
*
64435 AATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAAAC-
1 AATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGT-AACT
64499 TGGATATAAAAGGATTATTAAATTCC
65 TGGATATAAAAGGATTATTAAATTCC
*
64525 AATTAATTAAATATATATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
*
64590 GGCTATAAAAGG
66 GGATATAAAAGG
64602 GTGTGTTAGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
89 3 0.04
90 70 0.96
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
GGATATAAAAGGATTATTAAATTCC
Found at i:66686 original size:77 final size:77
Alignment explanation
Indices: 66602--66755 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
66592 AAGAGAGATA
66602 TGAGACCTCTAAAGCTCTATTTCAATGCAAAATGGAAGAGTGAACTCCTGTAGGAGCTCATGTCA
1 TGAGACCTCTAAAGCTCTATTTCAATGCAAAATGGAAGAGTGAACTCCTGTAGGAGCTCATGTCA
66667 TCAAGAGGATGG
66 TCAAGAGGATGG
* *
66679 TGAGACCTCTAAAGCTCTATTTCAATGCAAAATGGAAGATTGAACTCTTGTAGGAGCTCATGTCA
1 TGAGACCTCTAAAGCTCTATTTCAATGCAAAATGGAAGAGTGAACTCCTGTAGGAGCTCATGTCA
*
66744 TCAAGATGATGG
66 TCAAGAGGATGG
66756 GTATATCCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (77 bp):
TGAGACCTCTAAAGCTCTATTTCAATGCAAAATGGAAGAGTGAACTCCTGTAGGAGCTCATGTCA
TCAAGAGGATGG
Found at i:73187 original size:81 final size:81
Alignment explanation
Indices: 72615--73166 Score: 798
Period size: 81 Copynumber: 6.8 Consensus size: 81
72605 TATTCCAAAA
* * * *
72615 TAAAAGATTATTGGCCTAGTTGTGCATTTGACTGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
72680 GTTAAATACCTTTTGAG
66 GTTAAATACC-TTTGAG
* * * * *
72697 TAAAAGATTAATGGCCTAGTTGTCCATTTGACAAAAAGGTCTCAATTATGCCAGTTAGACGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
72762 GTTAAATATCTTTGCG
66 GTTAAATACCTTTGAG
* * * *
72778 TAAAATATTAATGGTCTAGCTGTGCATTTGAAAGAAAGGTGTCAATTATTCCAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
72843 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
72859 TAAAATATTAATGGCCTAGTTGTTCATTTAATAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
72924 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
72940 TAATATATTAATGGGCTTGTTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
73005 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* *
73021 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGCCAATTATGCCAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
73086 GTTAAACACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * **
73102 TAAAATATTAATGGCCTAGCTGTGCATTTGATAGGAAGGTGTCAATCATGTAAGTTAGATGAAAG
1 TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
73167 TCTATATGCC
Statistics
Matches: 418, Mismatches: 52, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
81 351 0.84
82 67 0.16
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (81 bp):
TAAAATATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:76384 original size:2 final size:2
Alignment explanation
Indices: 76377--76414 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
76367 CGTAAATTGA
76377 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
76415 CTTACTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83981 original size:97 final size:97
Alignment explanation
Indices: 83795--84082 Score: 371
Period size: 97 Copynumber: 3.0 Consensus size: 97
83785 ATATTGTTGT
* * * * * * *
83795 AAGTATCAATATTAACAGAAATG-TATTGATACCAGGGATTCCAGAATGTAGAAATGGTATAGAT
1 AAGTATCAATACTAAGAGAAA-GATATCGATACCATGCATTACAGAATGTAGAAATGGTATCGAT
*
83859 ACTAAAAGGGAGTATCGGTACCATAATATATAG
65 ACTGAAAGGGAGTATCGGTACCATAATATATAG
* * * * * * *
83892 AATTATCGATAGTAAGAGAAAGGTATCGATACCATGCATTATAGAATTTAGAAATCGTATCGATA
1 AAGTATCAATACTAAGAGAAAGATATCGATACCATGCATTACAGAATGTAGAAATGGTATCGATA
*
83957 CTGAAAGGGAGTATCGGTATCATAATATATAG
66 CTGAAAGGGAGTATCGGTACCATAATATATAG
* *
83989 AAGTATCAATACTAAGAGAAAGATATCGATACCATGGATTACAGAAGGTAGAAATGGTATCGATA
1 AAGTATCAATACTAAGAGAAAGATATCGATACCATGCATTACAGAATGTAGAAATGGTATCGATA
** *
84054 CTGAAAGGGAGTATTAGTACCATAGTATA
66 CTGAAAGGGAGTATCGGTACCATAATATA
84083 AAATTATTGA
Statistics
Matches: 163, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 1 0.01
97 162 0.99
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (97 bp):
AAGTATCAATACTAAGAGAAAGATATCGATACCATGCATTACAGAATGTAGAAATGGTATCGATA
CTGAAAGGGAGTATCGGTACCATAATATATAG
Found at i:84550 original size:45 final size:45
Alignment explanation
Indices: 84500--84786 Score: 247
Period size: 45 Copynumber: 6.6 Consensus size: 45
84490 TATAGTAGGA
*
84500 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTACATT
1 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATT
* * *
84545 ATAGGCATGAAAGGATTCCATATATGTAATTCAGT-ACGGTGCGTT
1 ATAGGCATGAAAGGATGCCATATATGTAATGCA-TAACGGTGCATT
* * *
84590 ATAGTCATGAAAGGATGACATGTATGTAATGCATAACGGTGCATT
1 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATT
* * * *
84635 ATAGGCTTGAAATGATACC--ATA---AAT---T-A-GATGCATT
1 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATT
* * * *
84670 ATCGGTATGAAAGGATGCCATAAATG-AATTTCATAACGGTGCATT
1 ATAGGCATGAAAGGATGCCATATATGTAA-TGCATAACGGTGCATT
* * * * * *
84715 ATTGGCGTAAAAGGATACCATAAATGAAAATGCATAACGGTGCATT
1 ATAGGCATGAAAGGATGCCATATATG-TAATGCATAACGGTGCATT
* * *
84761 ATAAGCATGAAATGATGCTATATATG
1 ATAGGCATGAAAGGATGCCATATATG
84787 AAAATAAAGT
Statistics
Matches: 190, Mismatches: 38, Indels: 27
0.75 0.15 0.11
Matches are distributed among these distances:
35 21 0.11
36 1 0.01
37 3 0.02
39 2 0.01
40 4 0.02
43 3 0.02
44 2 0.01
45 118 0.62
46 34 0.18
47 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (45 bp):
ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATT
Found at i:84788 original size:46 final size:46
Alignment explanation
Indices: 84679--84791 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 46
84669 TATCGGTATG
* * * ** *
84679 AAAGGATGCCATAAATG-AATTTCATAACGGTGCATTATTGGCGTA
1 AAAGGATACCATAAATGAAAATGCATAACGGTGCATTATAAGCATA
*
84724 AAAGGATACCATAAATGAAAATGCATAACGGTGCATTATAAGCATG
1 AAAGGATACCATAAATGAAAATGCATAACGGTGCATTATAAGCATA
* * * *
84770 AAATGATGCTATATATGAAAAT
1 AAAGGATACCATAAATGAAAAT
84792 AAAGTATAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
45 16 0.29
46 40 0.71
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (46 bp):
AAAGGATACCATAAATGAAAATGCATAACGGTGCATTATAAGCATA
Found at i:93911 original size:11 final size:12
Alignment explanation
Indices: 93895--93939 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
93885 TTTGCAATTC
93895 CTTTATCTT-TT
1 CTTTATCTTATT
*
93906 CTTTATCTTGTT
1 CTTTATCTTATT
*
93918 -TTAATCTTATT
1 CTTTATCTTATT
93929 C-TTATCTTATT
1 CTTTATCTTATT
93940 TCTAGTACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (12 bp):
CTTTATCTTATT
Found at i:96850 original size:97 final size:97
Alignment explanation
Indices: 96683--96959 Score: 425
Period size: 97 Copynumber: 2.9 Consensus size: 97
96673 ATATTTCTGT
* * * * *
96683 ATGTATCGATATTAAGAGAAAGGTATCGATACCAGGGATTCCAGAATGTAGAAATGGCATCGATA
1 ATGTATCGATACTAAGAGAAAGGTATCGATACCATGGATTACAGAATATAGAAATGGTATCGATA
* *
96748 TTGAAAGGGAGTATCGGTTCCATAATATATAG
66 CTGAAAGGGAGTATCGGTACCATAATATATAG
*
96780 ATGTATCGATACTAAGAGAAAGGTATCGATACCATGGATTACAAAATATAGAAATGGTATCGATA
1 ATGTATCGATACTAAGAGAAAGGTATCGATACCATGGATTACAGAATATAGAAATGGTATCGATA
96845 CTGAAAGGGAGTATCGGTACCATAATATATAG
66 CTGAAAGGGAGTATCGGTACCATAATATATAG
*
96877 AAGTATCGATACT-A-A-AAAGGTATCGATACCATGGATTACAGAATATAGAAATGGTATCGATA
1 ATGTATCGATACTAAGAGAAAGGTATCGATACCATGGATTACAGAATATAGAAATGGTATCGATA
* * *
96939 CTGAAAAGGAGTGTCGATACC
66 CTGAAAGGGAGTATCGGTACC
96960 TATATAAATA
Statistics
Matches: 167, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
94 64 0.38
95 1 0.01
96 1 0.01
97 101 0.60
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (97 bp):
ATGTATCGATACTAAGAGAAAGGTATCGATACCATGGATTACAGAATATAGAAATGGTATCGATA
CTGAAAGGGAGTATCGGTACCATAATATATAG
Found at i:97404 original size:24 final size:24
Alignment explanation
Indices: 97377--97449 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
97367 AATGATGCCA
97377 TATATGTAATGCATAACGGTGCAT
1 TATATGTAATGCATAACGGTGCAT
**
97401 TATA-GGCATG-A-AA-GGATGCCA-
1 TATATGTAATGCATAACGG-TG-CAT
97422 TATATGTAATGCATAACGGTGCAT
1 TATATGTAATGCATAACGGTGCAT
97446 TATA
1 TATA
97450 GGCATGAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 2 0.05
21 8 0.21
22 7 0.18
23 7 0.18
24 12 0.32
25 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (24 bp):
TATATGTAATGCATAACGGTGCAT
Found at i:97407 original size:45 final size:45
Alignment explanation
Indices: 97357--97642 Score: 321
Period size: 45 Copynumber: 6.4 Consensus size: 45
97347 TAGAGTAGGA
* *
97357 ATAGGCATGAAATGATGCCATATATGTAATGCATAACGGTGCATT
1 ATAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTGCATT
*
97402 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATT
1 ATAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTGCATT
** * * *
97447 ATAGGCATGAAAGGATATCATATATATAATGCATAACAGTGCATT
1 ATAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTGCATT
* * *
97492 ATAGGCATGAAAGAATACCATAAATG-AGATGC-TAACGTTGCATT
1 ATAGGCATGAAAGGATGCCATAAATGTA-ATGCATAACGGTGCATT
* * *
97536 ATCGGCATGAAAGGATGCCTTAAATG-AACCT-CATAATGGTGCATT
1 ATAGGCATGAAAGGATGCCATAAATGTAA--TGCATAACGGTGCATT
* * * * *
97581 ATTGGCATAAAAGGATG-CATAAATGAAATGTATAACGGTGAATT
1 ATAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTGCATT
* *
97625 ATAAGCATGAAATGATGC
1 ATAGGCATGAAAGGATGC
97643 TACAAATGAA
Statistics
Matches: 207, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.01
44 66 0.32
45 139 0.67
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (45 bp):
ATAGGCATGAAAGGATGCCATAAATGTAATGCATAACGGTGCATT
Found at i:97425 original size:21 final size:21
Alignment explanation
Indices: 97357--97425 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
97347 TAGAGTAGGA
*
97357 ATAGGCATGAAATGATGCCAT
1 ATAGGCATGAAAGGATGCCAT
**
97378 ATATGTAATGCATAACGG-TG-CATT
1 ATA-GGCATG-A-AA-GGATGCCA-T
97402 ATAGGCATGAAAGGATGCCAT
1 ATAGGCATGAAAGGATGCCAT
97423 ATA
1 ATA
97426 TGTAATGCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
20 2 0.06
21 11 0.31
22 7 0.19
23 7 0.19
24 8 0.22
25 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (21 bp):
ATAGGCATGAAAGGATGCCAT
Found at i:97457 original size:90 final size:89
Alignment explanation
Indices: 97357--97642 Score: 328
Period size: 89 Copynumber: 3.2 Consensus size: 89
97347 TAGAGTAGGA
*
97357 ATAGGCATGAAATGATGCCATATATGTAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
1 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
*
97422 TATATGTAATGCATAACGGTGCATT
66 TAAATG-AATGCATAACGGTGCATT
** * * * *
97447 ATAGGCATGAAAGGATATCATATATATAATGCATAACAGTGCATTATAGGCATGAAAGAATACCA
1 ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
*
97512 TAAATGAGATGC-TAACGTTGCATT
66 TAAATGA-ATGCATAACGGTGCATT
* * * * * *
97536 ATCGGCATGAAAGGATGCCTTAAATG-AACCT-CATAATGGTGCATTATTGGCATAAAAGGATG-
1 ATAGGCATGAAAGGATGCCATATATGTAA--TGCATAACGGTGCATTATAGGCATGAAAGGATGC
* *
97598 CATAAATGAAATGTATAACGGTGAATT
64 CATAAATG-AATGCATAACGGTGCATT
* *
97625 ATAAGCATGAAATGATGC
1 ATAGGCATGAAAGGATGC
97643 TACAAATGAA
Statistics
Matches: 164, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
88 13 0.08
89 83 0.51
90 68 0.41
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (89 bp):
ATAGGCATGAAAGGATGCCATATATGTAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
TAAATGAATGCATAACGGTGCATT
Found at i:99977 original size:32 final size:32
Alignment explanation
Indices: 99934--100035 Score: 150
Period size: 32 Copynumber: 3.2 Consensus size: 32
99924 TACACGTATG
*
99934 ACCTGAACATATTGTGCATTATATGAATGCAA
1 ACCTGAACATATTGTGCATTATCTGAATGCAA
* *
99966 ACCTGATCATATTGTGCATTATCTAAATGCAA
1 ACCTGAACATATTGTGCATTATCTGAATGCAA
* * *
99998 ACTTGAACATATTATGTATTATCTGAATGCAA
1 ACCTGAACATATTGTGCATTATCTGAATGCAA
100030 ACCTGA
1 ACCTGA
100036 CTAGTATCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
ACCTGAACATATTGTGCATTATCTGAATGCAA
Found at i:101245 original size:18 final size:18
Alignment explanation
Indices: 101224--101258 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101214 TTATCCCCAA
*
101224 TTCAACTAGTATCGATAT
1 TTCAACCAGTATCGATAT
*
101242 TTCATCCAGTATCGATA
1 TTCAACCAGTATCGATA
101259 CTTGAACCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (18 bp):
TTCAACCAGTATCGATAT
Found at i:101742 original size:21 final size:21
Alignment explanation
Indices: 101708--101749 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
101698 GTGCTTGAGG
101708 AGGAAGAAAAAAGAAATGGAAA
1 AGGAAGAAAAAAGAAA-GGAAA
*
101730 AGGAA-AATAAAGAAAGGAAA
1 AGGAAGAAAAAAGAAAGGAAA
101750 TGAGATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (21 bp):
AGGAAGAAAAAAGAAAGGAAA
Found at i:106474 original size:20 final size:21
Alignment explanation
Indices: 106449--106488 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
106439 CATTTCACTT
106449 TCTAACATCAATTT-CAACAC
1 TCTAACATCAATTTACAACAC
*
106469 TCTAACATTAATTTACAACA
1 TCTAACATCAATTTACAACA
106489 TAGCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (21 bp):
TCTAACATCAATTTACAACAC
Done.