Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001720.1 Hibiscus syriacus cultivar Beakdansim tig00003480_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: 117292
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:12 original size:2 final size:2
Alignment explanation
Indices: 1--2262 Score: 3637
Period size: 2 Copynumber: 1172.5 Consensus size: 2
*
1 AC AC AC -C AC AC AC AC AC AC AC AC AC A- AC AC AC AC AA AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
41 AC AC AC -C AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
81 AC AC -C AC AC AC AC AC AC AC A- AC A- AC AC AC -C AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
119 AC AC AC AC A- AC AC -C CC AC AC AC AC AC AC AC AC -C AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
158 AC AC AC A- AC AC AC AC AC AC AC AC A- AC AC AC AC AC -C AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
197 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
239 AC AC AC AC AC AC A- AC CC AC AC AC A- AC -C AC AC A- AC AC -C
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
276 AC AC AC AC AC CC AC AA AC AC AC AC AC AC AC AC -C AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
317 AC AC AC AC AC AC CC A- AC AC AC AC AC AC AC -C AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
357 A- AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC -C AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
396 AC AC CC AC A- AC AC AC AC AC AC AC -C AC AA AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
436 AC A- AC AC AC AC AC AC AC -C AC -C AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
475 AC AC AC AC AC AC AC AC AC AC AA AC -C AC AC AC A- AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
515 AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
556 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
598 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
640 AC AC AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
681 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
722 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
763 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
805 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
847 AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
887 AC A- AC AC AC AC -C AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
927 AC CC AC AC AC AA AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
968 AC A- AC AC AC AC AC AA AC -C AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1008 AC AC AC AA AC AC AC AC -C AC AC AC AC AC AC -C AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * *
1048 AC AC AC AC AC AA AA AC AC AC AC AA AC AC AC AC AC -C AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1089 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1130 AC AC AC A- AC AC AC AC AC AC AC AC AC A- AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1170 AC AC AC AC CC AC -C AC AC AC AC AC AC AC AC A- AC A- AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1209 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- AA AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1250 AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1292 AC AC A- AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1333 AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC A- AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
1373 AC AC AC AA AC AC AC CC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1415 AC AA AC AC AC AC AC AC AC AC AC -C AC AC AC -C AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1455 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
1497 AC AC AC AA AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AA
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1538 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1580 AC AC AC AC AC AC AC AC AC AC A- AC AC AC AC -C A- AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1619 AC AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AA
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1660 AC AC AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC A- AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1700 AC AC AC AC AC AA AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
1741 AC AC AC AC AC AC AC AA AC AC AC AC AA AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1783 AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1824 AC AC AC AC AC AC AC AC AC AC A- AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1865 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1906 AC AC AC AC AC AC AC A- AC AC -C AC AC AC AC AC AA AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
1946 -C AA AC A- AC AC AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
1986 AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC -C AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
2027 AC AC -C AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2068 AC AC -C AC -C AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2107 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- AC AC AC -C AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2147 AC AC AC A- AC AC AC AC AC AC -C AC A- AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2186 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2228 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2263 TGCATGCATA
Statistics
Matches: 2113, Mismatches: 64, Indels: 166
0.90 0.03 0.07
Matches are distributed among these distances:
1 83 0.04
2 2030 0.96
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11177 original size:30 final size:30
Alignment explanation
Indices: 11141--11199 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
11131 TTAAATTTCT
11141 TAAAAAAAATTAA-AAGT-TGAAATATTAAAA
1 TAAAAAAAATTAACAA-TCT-AAATATTAAAA
11171 TAAAAAAAATTAACAATCTAAATATTAAA
1 TAAAAAAAATTAACAATCTAAATATTAAA
11200 CGTGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
TAAAAAAAATTAACAATCTAAATATTAAAA
Found at i:11235 original size:5 final size:5
Alignment explanation
Indices: 11225--11249 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11215 ATATGAGTAT
11225 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
11250 ATTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11250 original size:21 final size:21
Alignment explanation
Indices: 11226--11266 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11216 TATGAGTATT
11226 AAAATAAAATAAAATAAAATA
1 AAAATAAAATAAAATAAAATA
* * *
11247 AAAATTAAATTAAATTAAAT
1 AAAATAAAATAAAATAAAAT
11267 TTTAAATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAATA
Found at i:12492 original size:31 final size:32
Alignment explanation
Indices: 12440--12499 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
12430 TATAGTGGCG
*
12440 TTTTCCAATAAAACGCCACTATTGTTGCGACA
1 TTTTCCAAAAAAACGCCACTATTGTTGCGACA
*
12472 TTTT-CAAAAAAACGCTACTATTGTTGCG
1 TTTTCCAAAAAAACGCCACTATTGTTGCG
12500 GCTTTTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (32 bp):
TTTTCCAAAAAAACGCCACTATTGTTGCGACA
Found at i:13981 original size:2 final size:2
Alignment explanation
Indices: 13976--14000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13966 AGATTTTTTA
13976 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14001 ATACTAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14934 original size:30 final size:30
Alignment explanation
Indices: 14900--14959 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
14890 TCAAAAACGA
14900 CGTTTTTGAAAAATTACTCCCCCTTACTTT
1 CGTTTTTGAAAAATTACTCCCCCTTACTTT
14930 CGTTTTTGAAAAATTACTCCCCCTTACTTT
1 CGTTTTTGAAAAATTACTCCCCCTTACTTT
14960 AAAATTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.07, T:0.43
Consensus pattern (30 bp):
CGTTTTTGAAAAATTACTCCCCCTTACTTT
Found at i:15267 original size:15 final size:15
Alignment explanation
Indices: 15241--15288 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
15231 TTCAAATATC
*
15241 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
15257 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
15274 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
15289 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:17256 original size:22 final size:22
Alignment explanation
Indices: 17228--17289 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
17218 AGAACCCCAT
17228 GGGGGTATCGATTCCCCTGTGG
1 GGGGGTATCGATTCCCCTGTGG
17250 GGGGGTATCGATTCCCCTGTGG
1 GGGGGTATCGATTCCCCTGTGG
* *
17272 GGGGGAATCGGTTCCCCT
1 GGGGGTATCGATTCCCCT
17290 TCAAAGGGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.10, C:0.24, G:0.40, T:0.26
Consensus pattern (22 bp):
GGGGGTATCGATTCCCCTGTGG
Found at i:23113 original size:51 final size:51
Alignment explanation
Indices: 23039--23156 Score: 227
Period size: 51 Copynumber: 2.3 Consensus size: 51
23029 TACCCCTTAA
*
23039 GGGGAATCGATTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTACATAG
1 GGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTACATAG
23090 GGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTACATAG
1 GGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTACATAG
23141 GGGGAATCGGTTCCCT
1 GGGGAATCGGTTCCCT
23157 CCGAGCATAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (51 bp):
GGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTACATAG
Found at i:24475 original size:41 final size:40
Alignment explanation
Indices: 24401--24506 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
24391 ACCGTTAGAC
*
24401 AGGGGGAATCGGTACCCCT-GGGGGGAATTTGTTCCCCCT
1 AGGGGGAATCGGTACCCCTGGGGGGGAATATGTTCCCCCT
* *
24440 AGGGGGAATTGATATCCCCTGGGGGGGAATATGTTCCCCCT
1 AGGGGGAATCGGTA-CCCCTGGGGGGGAATATGTTCCCCCT
*
24481 GGGGGGAATCGGTACCCCCTGGGGGG
1 AGGGGGAATCGGTA-CCCCTGGGGGG
24507 AATCTGTACC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.21
40 5 0.09
41 41 0.71
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.21
Consensus pattern (40 bp):
AGGGGGAATCGGTACCCCTGGGGGGGAATATGTTCCCCCT
Found at i:24510 original size:20 final size:20
Alignment explanation
Indices: 24402--24517 Score: 117
Period size: 20 Copynumber: 5.8 Consensus size: 20
24392 CCGTTAGACA
24402 GGGGGAATCGGTA-CCCCTG
1 GGGGGAATCGGTACCCCCTG
** * *
24421 GGGGGAATTTGTTCCCCCTA
1 GGGGGAATCGGTACCCCCTG
* * *
24441 GGGGGAATTGATATCCCCTGG
1 GGGGGAATCGGTACCCCCT-G
** *
24462 GGGGGAATATGTTCCCCCTG
1 GGGGGAATCGGTACCCCCTG
24482 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
*
24502 GGGGGAATCTGTACCC
1 GGGGGAATCGGTACCC
24518 TTGGACAATC
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
19 10 0.13
20 53 0.69
21 14 0.18
ACGTcount: A:0.16, C:0.25, G:0.37, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:29335 original size:98 final size:98
Alignment explanation
Indices: 29161--29356 Score: 365
Period size: 98 Copynumber: 2.0 Consensus size: 98
29151 GTCACCTAGA
*
29161 AATCCTGTTCGGAATACTAACTGATCTGCCTTTTCATATAAAATTTGAGGTGTGGAAATGAAAAT
1 AATCATGTTCGGAATACTAACTGATCTGCCTTTTCATATAAAATTTGAGGTGTGGAAATGAAAAT
29226 TTATATATTTCTTAATGGAAACAGTATAGAAAG
66 TTATATATTTCTTAATGGAAACAGTATAGAAAG
* *
29259 AATCATGTTCGGAATACTAACTGATTTTCCTTTTCATATAAAATTTGAGGTGTGGAAATGAAAAT
1 AATCATGTTCGGAATACTAACTGATCTGCCTTTTCATATAAAATTTGAGGTGTGGAAATGAAAAT
29324 TTATATATTTCTTAATGGAAACAGTATAGAAAG
66 TTATATATTTCTTAATGGAAACAGTATAGAAAG
29357 TATAACATGC
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (98 bp):
AATCATGTTCGGAATACTAACTGATCTGCCTTTTCATATAAAATTTGAGGTGTGGAAATGAAAAT
TTATATATTTCTTAATGGAAACAGTATAGAAAG
Found at i:29988 original size:14 final size:16
Alignment explanation
Indices: 29959--29990 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
29949 CGTTCGTGAA
29959 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
29975 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
29989 CG
1 CG
29991 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:30265 original size:10 final size:10
Alignment explanation
Indices: 30252--30295 Score: 61
Period size: 10 Copynumber: 4.1 Consensus size: 10
30242 TGTGTTTGGT
30252 TGTTCGTTTA
1 TGTTCGTTTA
30262 TGTTCGTTTA
1 TGTTCGTTTA
30272 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
30285 TGTTCGTTTA
1 TGTTCGTTTA
30295 T
1 T
30296 TATTTAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 21 0.68
13 10 0.32
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:30278 original size:23 final size:23
Alignment explanation
Indices: 30252--30296 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30242 TGTGTTTGGT
30252 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
30275 TGTTCGTTTATGTTCGTTTATT
1 TGTTCGTTTATGTTCGTTTATT
30297 ATTTAAATGA
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:0.09, C:0.09, G:0.20, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:30298 original size:13 final size:13
Alignment explanation
Indices: 30259--30298 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
30249 GGTTGTTCGT
30259 TTATGTTCGTTTA
1 TTATGTTCGTTTA
*
30272 TTGTGTTCG--T-
1 TTATGTTCGTTTA
30282 TTATGTTCGTTTA
1 TTATGTTCGTTTA
30295 TTAT
1 TTAT
30299 TTAAATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.36
11 1 0.05
12 1 0.05
13 12 0.55
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.62
Consensus pattern (13 bp):
TTATGTTCGTTTA
Found at i:38521 original size:2 final size:2
Alignment explanation
Indices: 38514--38542 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38504 TTATAAGAAT
38514 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38543 TTGTTTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39488 original size:3 final size:3
Alignment explanation
Indices: 39480--39506 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39470 TAGTTGCTAC
39480 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
39507 GAGTGAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:39740 original size:13 final size:13
Alignment explanation
Indices: 39722--39758 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
39712 GAGTTGTAAC
39722 ATTTGTATTTAAT
1 ATTTGTATTTAAT
39735 ATTTGTATTTAAT
1 ATTTGTATTTAAT
* *
39748 TTTTTTATTTA
1 ATTTGTATTTA
39759 GTTTGTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (13 bp):
ATTTGTATTTAAT
Found at i:40759 original size:20 final size:21
Alignment explanation
Indices: 40722--40761 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40712 AAATTAAGTT
40722 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
40743 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
40762 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:41047 original size:65 final size:63
Alignment explanation
Indices: 40931--41137 Score: 229
Period size: 65 Copynumber: 3.2 Consensus size: 63
40921 ATTTGAGGTG
* * * * *
40931 ATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATTC
1 ATGCACCGATGCATC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATTT
40995 C
63 C
* *
40996 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCACCGATGCA-TCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTTC
* * **
41061 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTC
1 ATGCACCGATGCATC-A-CCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
*
41125 ATGCATCGATGCA
1 ATGCACCGATGCA
41138 CACTTGGTGC
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 37 0.30
65 84 0.68
66 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
ATGCACCGATGCATCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
Found at i:41156 original size:64 final size:65
Alignment explanation
Indices: 40978--41141 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
40968 GAATTAATTG
* * ** *
40978 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
* ** **
41043 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
41107 AAACATCGAATGCATTTCATGCATCGATGCACACT
1 AAACATCGAATGCATTTCATGCATCGATGCACACT
41142 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
Found at i:48004 original size:2 final size:2
Alignment explanation
Indices: 47997--48032 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
47987 TAGCAGCCTA
47997 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
48033 CAATTGGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48306 original size:20 final size:21
Alignment explanation
Indices: 48269--48308 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48259 AAATTAAGTT
48269 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
48290 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
48309 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:48594 original size:65 final size:63
Alignment explanation
Indices: 48478--48684 Score: 229
Period size: 65 Copynumber: 3.2 Consensus size: 63
48468 ATTTGAGTTG
* * * * *
48478 ATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATTC
1 ATGCACCGATGCATC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATTT
48542 C
63 C
* *
48543 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTT
1 ATGCACCGATGCA-TCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTTC
* * **
48608 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTC
1 ATGCACCGATGCATC-A-CCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
*
48672 ATGCATCGATGCA
1 ATGCACCGATGCA
48685 CACTTGGTGC
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 37 0.30
65 84 0.68
66 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (63 bp):
ATGCACCGATGCATCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
Found at i:48703 original size:64 final size:65
Alignment explanation
Indices: 48525--48688 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
48515 GAATTAATTG
* * ** *
48525 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
* ** **
48590 AAACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
48654 AAACATCGAATGCATTTCATGCATCGATGCACACT
1 AAACATCGAATGCATTTCATGCATCGATGCACACT
48689 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
Found at i:48794 original size:17 final size:17
Alignment explanation
Indices: 48772--48806 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48762 GATCATGCAT
48772 CGATGCATGAGACGCTC
1 CGATGCATGAGACGCTC
48789 CGATGCATGAGACGCTC
1 CGATGCATGAGACGCTC
48806 C
1 C
48807 ACCTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (17 bp):
CGATGCATGAGACGCTC
Found at i:53135 original size:2 final size:2
Alignment explanation
Indices: 53130--53170 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
53120 ATATTTGGAG
53130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53171 CATAATATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53698 original size:18 final size:17
Alignment explanation
Indices: 53675--53709 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
53665 CTTCTATCTC
53675 TTATCTATCTATTATTTT
1 TTATCTATCTATT-TTTT
53693 TTATCTATCTATTTTTT
1 TTATCTATCTATTTTTT
53710 CTTTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATCTATCTATTTTTT
Found at i:53699 original size:14 final size:15
Alignment explanation
Indices: 53680--53709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53670 ATCTCTTATC
53680 TATCTAT-TATTTTT
1 TATCTATCTATTTTT
53694 TATCTATCTATTTTT
1 TATCTATCTATTTTT
53709 T
1 T
53710 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:54384 original size:2 final size:2
Alignment explanation
Indices: 54379--54403 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54369 AAGGTAAAAT
54379 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
54404 TGGGTTGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56134 original size:2 final size:2
Alignment explanation
Indices: 56127--56154 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56117 TTATATTTAG
56127 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
56155 GTTTTCGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58428 original size:13 final size:13
Alignment explanation
Indices: 58398--58426 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
58388 TAAACTTCAC
58398 TTTTAAAAAATAT
1 TTTTAAAAAATAT
58411 TTTT-AAAAATAT
1 TTTTAAAAAATAT
58423 TTTT
1 TTTT
58427 TACATCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:58600 original size:53 final size:52
Alignment explanation
Indices: 58506--58610 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 52
58496 CAATTAATAG
* * *
58506 CTCAAATTAGTCTTTGTAGACCCAAATTTCTTGGTTCTGCCCTTCGCTTTAA
1 CTCAAATTAATCTTTGTAGACCCAAATTTCATGGTTCTGCCCTTCACTTTAA
* *
58558 CTCAAATTAATCTTTGTCAGCCCCAAATTTCATGGTTTTGCCCTTCACTTTAA
1 CTCAAATTAATCTTTGT-AGACCCAAATTTCATGGTTCTGCCCTTCACTTTAA
58611 GTCAGATAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 16 0.34
53 31 0.66
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (52 bp):
CTCAAATTAATCTTTGTAGACCCAAATTTCATGGTTCTGCCCTTCACTTTAA
Found at i:60530 original size:3 final size:3
Alignment explanation
Indices: 60522--60640 Score: 195
Period size: 3 Copynumber: 39.7 Consensus size: 3
60512 TTTTTATCCA
60522 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
60569 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
*
60615 TAT TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
60641 AATATATTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.02
3 103 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:61424 original size:13 final size:13
Alignment explanation
Indices: 61406--61434 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61396 ACCACCGTTA
61406 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
61419 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
61432 CGG
1 CGG
61435 AATACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:64413 original size:14 final size:14
Alignment explanation
Indices: 64394--64446 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
64384 TTTTAAATAA
*
64394 TTTACATTTACATT
1 TTTACATTTGCATT
*
64408 TTTACATTTGCATA
1 TTTACATTTGCATT
64422 TTTACATTTGGCATT
1 TTTACATTT-GCATT
*
64437 TTTGCATTTG
1 TTTACATTTG
64447 TATTGCACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:64515 original size:27 final size:26
Alignment explanation
Indices: 64485--64544 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
64475 CATTCACATA
*
64485 TTTACATTTGAATTTGCATTTGCATTT
1 TTTACATTTGAATTTACATTTGCA-TT
* * *
64512 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGAATTTACATTTGCATT
64538 TTTACAT
1 TTTACAT
64545 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTACATTTGAATTTACATTTGCATT
Found at i:65890 original size:1 final size:1
Alignment explanation
Indices: 65884--65909 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
65874 CATCCAAGCC
65884 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
65910 CCTCAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:66514 original size:6 final size:6
Alignment explanation
Indices: 66498--66543 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
66488 CTCATCCAGC
*
66498 AAAGAA AGAAGAA GAAGAA AAAGAA AAAGAA AAAGAA AAAGGAA AA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
66544 TCGAATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 26 0.72
7 10 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:68819 original size:83 final size:83
Alignment explanation
Indices: 68680--68888 Score: 409
Period size: 83 Copynumber: 2.5 Consensus size: 83
68670 TTTCAGTGTC
68680 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
68745 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
*
68763 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
68828 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
68846 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
68889 TGGTAGGAAC
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 125 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
TAGAAGATGAATTTGCCA
Found at i:71518 original size:22 final size:22
Alignment explanation
Indices: 71492--71568 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
71482 ATCTACGCTC
71492 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
71514 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* *
71536 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
71558 TTCAAAGATGA
1 TTCAAAGATGA
71569 AAGCTTGATC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:72169 original size:113 final size:113
Alignment explanation
Indices: 71971--73096 Score: 1910
Period size: 113 Copynumber: 9.9 Consensus size: 113
71961 GCAAAGTTCA
* * * *
71971 AATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72036 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
72084 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72149 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * * *
72197 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
72262 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
72310 AACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72375 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
72423 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
72488 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
72536 AACCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72601 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
72649 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
72714 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
72762 AACCCATCATTTGGTGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
72827 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
72875 AATCCATCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
72940 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTGCTTG
* * * * ** *
72989 AATTCATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAG
*
73054 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
73097 GTTTGATATC
Statistics
Matches: 959, Mismatches: 52, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
113 857 0.89
114 42 0.04
115 60 0.06
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:73399 original size:3 final size:3
Alignment explanation
Indices: 73391--73503 Score: 199
Period size: 3 Copynumber: 37.7 Consensus size: 3
73381 TTTTTATCCA
73391 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
73439 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
73487 TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
73504 AATATATTAA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:74286 original size:13 final size:13
Alignment explanation
Indices: 74268--74296 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
74258 ACCACCGTTA
74268 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
74281 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
74294 CGG
1 CGG
74297 AATACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:85453 original size:20 final size:20
Alignment explanation
Indices: 85424--85461 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85414 TAATCCTATT
* *
85424 CACTGGTAATCTTTTATTTC
1 CACTGATAATCTTATATTTC
85444 CACTGATAATCTTATATT
1 CACTGATAATCTTATATT
85462 CCGTGAACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (20 bp):
CACTGATAATCTTATATTTC
Found at i:85981 original size:24 final size:24
Alignment explanation
Indices: 85905--85981 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
85895 CTATATTTTT
*
85905 AAAA-TTATATTATATACGTTTTCAA
1 AAAACTTATA-TA-ATATGTTTTCAA
* * * *
85930 AATACTATATGTAATATGTCTTCTA
1 AAAACT-TATATAATATGTTTTCAA
85955 AAAACTTATATAATATGTTTTCAA
1 AAAACTTATATAATATGTTTTCAA
85979 AAA
1 AAA
85982 TATTTTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.44
25 17 0.41
26 3 0.07
27 3 0.07
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (24 bp):
AAAACTTATATAATATGTTTTCAA
Found at i:86012 original size:82 final size:83
Alignment explanation
Indices: 85897--86062 Score: 207
Period size: 82 Copynumber: 2.0 Consensus size: 83
85887 TAATAATACT
* *
85897 ATATTTTTAAAATTATATTATATACGTTTTCAAAATACTATATGTA-ATATG-TCTTCTAAAAAC
1 ATATTTTAAAAATTATATTATATA-GTTATCAAAA-ACTATAT-TATATATGATCTTC-AAAAAC
85960 T-TATATAATATGTTTTCAAAA
62 TATATATAATATGTTTTCAAAA
* *
85981 ATATTTTCAAAAATTATA-TATAT-GTTATCAAAAATTATATTATATATGATTTTCAAAAACTAT
1 ATATTTT-AAAAATTATATTATATAGTTATCAAAAACTATATTATATATGATCTTCAAAAACTAT
*
86044 ATATAATATGTTTTTAAAA
65 ATATAATATGTTTTCAAAA
86063 TTATAATATG
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
80 2 0.03
81 18 0.25
82 32 0.44
84 12 0.16
85 9 0.12
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (83 bp):
ATATTTTAAAAATTATATTATATAGTTATCAAAAACTATATTATATATGATCTTCAAAAACTATA
TATAATATGTTTTCAAAA
Found at i:86038 original size:24 final size:23
Alignment explanation
Indices: 85984--86071 Score: 94
Period size: 25 Copynumber: 3.9 Consensus size: 23
85974 TTCAAAAATA
85984 TTTTCAAAAA-T-TATATATATG
1 TTTTCAAAAATTATATATATATG
*
86005 TTATCAAAAATTATATTATATATG
1 TTTTCAAAAATTATA-TATATATG
*
86029 ATTTTCAAAAACTATATATAATATG
1 -TTTTCAAAAATTATATAT-ATATG
*
86054 TTTT-TAAAATTATA-ATAT
1 TTTTCAAAAATTATATATAT
86072 GTTTTTATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
21 11 0.19
22 3 0.05
23 10 0.18
24 15 0.26
25 18 0.32
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (23 bp):
TTTTCAAAAATTATATATATATG
Found at i:86119 original size:25 final size:25
Alignment explanation
Indices: 86091--86140 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
86081 ATACGTTTTT
86091 AAAACCATATCATATATTTTCAAAA
1 AAAACCATATCATATATTTTCAAAA
* * *
86116 AAAACTATATTATATATTTTTAAAA
1 AAAACCATATCATATATTTTCAAAA
86141 CACACATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAACCATATCATATATTTTCAAAA
Found at i:86140 original size:23 final size:23
Alignment explanation
Indices: 86091--86290 Score: 104
Period size: 23 Copynumber: 8.8 Consensus size: 23
86081 ATACGTTTTT
* *
86091 AAAACCATATCATATATTTTCAAAA
1 AAAACTATATTATATATTTTC--AA
*
86116 AAAACTATATTATATATTTTTAA
1 AAAACTATATTATATATTTTCAA
*
86139 AACACAC-ATTTTTATAGTAAGTTTTC--
1 AA-A-ACTA-TATTATA-T-A-TTTTCAA
* *
86165 AAAATTATATCATATATTTTCAA
1 AAAACTATATTATATATTTTCAA
*
86188 AAAATTATATTATATATTTTCAA
1 AAAACTATATTATATATTTTCAA
* *
86211 AACA-TATATATATATATATTTCGA
1 AAAACTATAT-TATATAT-TTTCAA
*
86235 AAAAC-ATATGTAT-T-TTTT--G
1 AAAACTATAT-TATATATTTTCAA
*
86254 AAAATTATA-TAT-TATTTTCAA
1 AAAACTATATTATATATTTTCAA
86275 AAAA-TATA-TAT-TATTT
1 AAAACTATATTATATATTT
86291 ATACTAAACA
Statistics
Matches: 143, Mismatches: 16, Indels: 37
0.73 0.08 0.19
Matches are distributed among these distances:
18 4 0.03
19 8 0.06
20 15 0.10
21 12 0.08
22 7 0.05
23 38 0.27
24 23 0.16
25 28 0.20
26 3 0.02
27 1 0.01
28 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (23 bp):
AAAACTATATTATATATTTTCAA
Found at i:86176 original size:74 final size:72
Alignment explanation
Indices: 86073--86214 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 72
86063 TTATAATATG
* * *
86073 TTTTTATAATACGTTTTTAAAACCATATCATATATTTTCAAAAAAAACTATATTATATATTTTTA
1 TTTTTATAATAAGTTTTCAAAACCATATCATATATTTTC--AAAAAACTATATTATATATTTTCA
86138 AAACACACA
64 AAACACACA
* ** *
86147 TTTTTATAGTAAGTTTTCAAAATTATATCATATATTTTCAAAAAATTATATTATATATTTTCAAA
1 TTTTTATAATAAGTTTTCAAAACCATATCATATATTTTCAAAAAACTATATTATATATTTTCAAA
86212 ACA
66 ACA
86215 TATATATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 27 0.44
74 34 0.56
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (72 bp):
TTTTTATAATAAGTTTTCAAAACCATATCATATATTTTCAAAAAACTATATTATATATTTTCAAA
ACACACA
Found at i:86185 original size:21 final size:21
Alignment explanation
Indices: 86160--86290 Score: 119
Period size: 20 Copynumber: 6.1 Consensus size: 21
86150 TTATAGTAAG
86160 TTTTC-AAAATTATATCATATA
1 TTTTCAAAAATTATAT-ATATA
86181 TTTTCAAAAAATTATATTATATA
1 TTTTC-AAAAATTATA-TATATA
86204 TTTTCAAAACATATATATATATA
1 TTTTCAAAA-AT-TATATATATA
* *
86227 TATTTCGAAAAA-CATATGTAT-
1 T-TTTC-AAAAATTATATATATA
**
86248 TTTTTGAAAATTATATAT-TA
1 TTTTCAAAAATTATATATATA
*
86268 TTTTCAAAAAATATATAT-TA
1 TTTTCAAAAATTATATATATA
86288 TTT
1 TTT
86291 ATACTAAACA
Statistics
Matches: 92, Mismatches: 9, Indels: 19
0.77 0.08 0.16
Matches are distributed among these distances:
19 5 0.05
20 28 0.30
21 6 0.07
22 11 0.12
23 28 0.30
24 10 0.11
25 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTCAAAAATTATATATATA
Found at i:86271 original size:20 final size:20
Alignment explanation
Indices: 86160--86290 Score: 106
Period size: 23 Copynumber: 6.2 Consensus size: 20
86150 TTATAGTAAG
*
86160 TTTTC-AAAATTATATCATATA
1 TTTTCAAAAAATATAT-AT-TA
86181 TTTTCAAAAAATTATATTATATA
1 TTTTCAAAAAA-TATA-TAT-TA
86204 TTTTCAAAACATATATATATATA
1 TTTTCAAAA-A-ATATATAT-TA
*
86227 TATTTCGAAAAACATATGTATT-
1 T-TTTC-AAAAA-ATATATATTA
* *
86249 TTTT-GAAAATTATATATTA
1 TTTTCAAAAAATATATATTA
86268 TTTTCAAAAAATATATATTA
1 TTTTCAAAAAATATATATTA
86288 TTT
1 TTT
86291 ATACTAAACA
Statistics
Matches: 93, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
18 7 0.08
19 8 0.09
20 16 0.17
21 8 0.09
22 5 0.05
23 26 0.28
24 18 0.19
25 5 0.05
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTTCAAAAAATATATATTA
Found at i:86683 original size:20 final size:20
Alignment explanation
Indices: 86658--86751 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
86648 TTTTCCTAAT
*
86658 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
86678 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
86698 TCACAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
86719 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
86739 TCGCAATGCGAAT
1 TCGCAATGCGAAT
86752 CTGACTATCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 44 0.72
21 17 0.28
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:87339 original size:14 final size:14
Alignment explanation
Indices: 87320--87380 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
87310 GGAAATGACT
*
87320 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
87334 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
87353 ATCGCAACGAGACA
1 ATCGCAACGAGAAA
*
87367 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
87381 CCAAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:87357 original size:33 final size:33
Alignment explanation
Indices: 87299--87391 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
87289 CGAGAATGAA
** *
87299 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAC
87333 AATCGCAACGCGAAATGAAAATCGCAACGAGAC
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAC
**
87366 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
87392 TTGCGATTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 43 0.80
34 11 0.20
ACGTcount: A:0.43, C:0.26, G:0.22, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAC
Found at i:87390 original size:19 final size:18
Alignment explanation
Indices: 87333--87391 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
87323 GCAACGAGAG
*
87333 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-CAA
*
87352 AATCGCAA--CGAGAC--
1 AATCGCAACGCGAAACAA
87366 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
87385 AATCGCA
1 AATCGCA
87392 TTGCGATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 8 0.25
16 4 0.12
17 5 0.16
19 15 0.47
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAACAA
Found at i:87434 original size:33 final size:33
Alignment explanation
Indices: 87387--87494 Score: 99
Period size: 33 Copynumber: 3.1 Consensus size: 33
87377 GAAACCAAAA
*
87387 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
* * * **
87420 TCGTGTTGCGATTCTCTCGCTGAGATAGTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
87453 TCCGCGTTGCGATTTTCATTCTCTCGTTGCGATTTTCATT
1 T-CGCGTTGCG------ATTCTCTCGTTGCGATTTTCATT
87493 TC
1 TC
87495 AACCAAAAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
33 28 0.49
34 8 0.14
39 1 0.02
40 20 0.35
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:89522 original size:42 final size:42
Alignment explanation
Indices: 89446--89534 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
89436 GACTTGCCTG
* * *
89446 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
89488 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
89530 TCATC
1 TCATC
89535 GTTGAATAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:91083 original size:19 final size:20
Alignment explanation
Indices: 91048--91095 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
91038 AAAACAGACT
91048 ATCGCAACGCGGAAATGAAA
1 ATCGCAACGCGGAAATGAAA
*
91068 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGAAA
91087 ATCGCAACG
1 ATCGCAACG
91096 AGTGAATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGAAA
Found at i:91130 original size:19 final size:19
Alignment explanation
Indices: 91102--91190 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
91092 AACGAGTGAA
*
91102 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
91121 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
91140 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
91159 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
91178 TCGCATTGCGATT
1 TCGCATTGCGATT
91191 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:91222 original size:20 final size:19
Alignment explanation
Indices: 91102--91248 Score: 142
Period size: 19 Copynumber: 7.9 Consensus size: 19
91092 AACGAGTGAA
* *
91102 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTGTCATT
*
91121 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTGTCATT
*
91140 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTGTCATT
* *
91159 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTGTCATT
*
91178 TCGCATTGCGA-T-TC-TC
1 TCGCATTGCGATTGTCATT
*
91194 TCG--TTGCGATAGTCATT
1 TCGCATTGCGATTGTCATT
*
91211 TCCGCATTGCGATAGTCAATT
1 T-CGCATTGCGATTGTC-ATT
* *
91232 CCGCATTGCGATGGTCA
1 TCGCATTGCGATTGTCA
91249 AATGAATGCC
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.05
16 6 0.05
17 4 0.04
18 3 0.03
19 66 0.58
20 25 0.22
21 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (19 bp):
TCGCATTGCGATTGTCATT
Found at i:91249 original size:20 final size:20
Alignment explanation
Indices: 91197--91249 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
91187 GATTCTCTCG
*
91197 TTGCGATAGTCATTTCCGCA
1 TTGCGATAGTCAATTCCGCA
91217 TTGCGATAGTCAATTCCGCA
1 TTGCGATAGTCAATTCCGCA
*
91237 TTGCGATGGTCAA
1 TTGCGATAGTCAA
91250 ATGAATGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAATTCCGCA
Found at i:91740 original size:20 final size:20
Alignment explanation
Indices: 91715--92057 Score: 338
Period size: 20 Copynumber: 16.9 Consensus size: 20
91705 AAAATCTCGT
91715 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
*
91735 TACGATTACGTAAATCG-AA
1 TGCGATTACGTAAATCGCAA
* *
91754 GTGCGAATTAGGAAAATCGCAA
1 -TGCG-ATTACGTAAATCGCAA
*
91776 TGCGATTACGTAAAGCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
91796 TGCGAATAAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
*
91817 TACGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
91837 TACGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
91858 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
91878 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
91898 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
91918 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
91938 TGCGAATACGT-AATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
91957 TGCAATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
91977 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
91998 TACGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
92018 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
92039 TGCGATTTACGT-AATCGCA
1 TGCGA-TTACGTAAATCGCA
92058 TTGCAATTTA
Statistics
Matches: 275, Mismatches: 39, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
19 18 0.07
20 175 0.64
21 80 0.29
22 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:91967 original size:40 final size:41
Alignment explanation
Indices: 91715--92099 Score: 358
Period size: 41 Copynumber: 9.5 Consensus size: 41
91705 AAAATCTCGT
* *
91715 TGCGATTTAC-TAAATCGCAATACGATTACGTAAATCG-AA
1 TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * *
91754 GTGCGAATTAGGAAAATCGCAATGCGATTACGTAAAGCGCAA
1 -TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * *
91796 TGCGAATAAGGAAAATCGCAATACGATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * *
91837 TACGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
91878 TGCG-ATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
*
91918 TGCG-ATTACGTAAATCGCAATGCGAATACGT-AATCGCAA
1 TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * * *
91957 TGC-AATTTACGT-AATCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGAA-TTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * * *
91998 TACGATTTACGT-AATCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGAATTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * *
92039 TGCGATTTACGT-AATCGCATTGCAATTTATGT-ATTCGCAT
1 TGCGAATTACGTAAATCGCAATGCGA-TTACGTAAATCGCAA
* *
92079 TGCGAATTAGGAAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
92100 CGTGAATTTG
Statistics
Matches: 305, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
39 24 0.08
40 98 0.32
41 180 0.59
42 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:91997 original size:21 final size:21
Alignment explanation
Indices: 91852--92083 Score: 162
Period size: 20 Copynumber: 11.5 Consensus size: 21
91842 ATTAGGAAAA
* * *
91852 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTTCGTAAT
* * *
91872 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTTCGTAAT
* * *
91892 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTTCGTAAT
* * *
91912 TCGCAATGCGA-TTACGTAAA
1 TCGCATTGCGATTTTCGTAAT
* * *
91932 TCGCAATGCGA-ATACGTAA-
1 TCGCATTGCGATTTTCGTAAT
* * *
91951 TCGCAATGCAATTTACGTAA-
1 TCGCATTGCGATTTTCGTAAT
*
91971 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCGTAAT
* *
91992 TCGCATTACGATTTACGTAA-
1 TCGCATTGCGATTTTCGTAAT
*
92012 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCGTAAT
*
92033 TCGCATTGCGATTTACGTAA-
1 TCGCATTGCGATTTTCGTAAT
*
92053 TCGCATTGCAATTTAT-GT-AT
1 TCGCATTGCGATTT-TCGTAAT
92073 TCGCATTGCGA
1 TCGCATTGCGA
92084 ATTAGGAAAA
Statistics
Matches: 189, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
19 11 0.06
20 143 0.76
21 35 0.19
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTTCGTAAT
Found at i:92097 original size:21 final size:21
Alignment explanation
Indices: 92073--92125 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
92063 ATTTATGTAT
*
92073 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * * *
92094 TCGCAACGTGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
92115 TCGCAATGCGA
1 TCGCAATGCGA
92126 TAGTCAGAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:96723 original size:14 final size:15
Alignment explanation
Indices: 96678--96723 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
96668 TCATAATAGA
96678 TAACATTCAACAAATC
1 TAACATTCAAC-AATC
* *
96694 TAATATTCAA-ATTC
1 TAACATTCAACAATC
96708 TAACA-TCAACAATC
1 TAACATTCAACAATC
96722 TA
1 TA
96724 TGCGATTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.16
14 12 0.48
16 9 0.36
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
TAACATTCAACAATC
Found at i:97254 original size:26 final size:24
Alignment explanation
Indices: 97186--97256 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
97176 AAAAGACAAG
97186 AAAATTAAACAA-ATAATAA-ATA
1 AAAATTAAACAACATAATAATATA
*
97208 AATAA-T-AACATACAAAATAATGATA
1 AA-AATTAAACA-ACATAATAAT-ATA
97233 AAAATTAAACAACATAATTAATAT
1 AAAATTAAACAACATAA-TAATAT
97257 GGAAGTGGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
21 4 0.10
22 4 0.10
23 8 0.21
24 2 0.05
25 13 0.33
26 8 0.21
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.25
Consensus pattern (24 bp):
AAAATTAAACAACATAATAATATA
Found at i:97318 original size:18 final size:19
Alignment explanation
Indices: 97295--97337 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
97285 AATAAAGATA
97295 AAAAAAAGACAAAT-AAGG
1 AAAAAAAGACAAATAAAGG
* *
97313 -AAAAAAGATAAATAAATG
1 AAAAAAAGACAAATAAAGG
97331 AAAAAAA
1 AAAAAAA
97338 TAAACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (19 bp):
AAAAAAAGACAAATAAAGG
Found at i:97582 original size:12 final size:12
Alignment explanation
Indices: 97565--97602 Score: 67
Period size: 12 Copynumber: 3.1 Consensus size: 12
97555 GTAAATAATA
97565 ATAGAAAAAAAT
1 ATAGAAAAAAAT
97577 ATAGAAAAAAAAT
1 ATAG-AAAAAAAT
97590 ATAGAAAAAAAT
1 ATAGAAAAAAAT
97602 A
1 A
97603 AAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAGAAAAAAAT
Found at i:97585 original size:13 final size:13
Alignment explanation
Indices: 97565--97600 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
97555 GTAAATAATA
97565 ATAG-AAAAAAAT
1 ATAGAAAAAAAAT
97577 ATAGAAAAAAAAT
1 ATAGAAAAAAAAT
97590 ATAGAAAAAAA
1 ATAGAAAAAAA
97601 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (13 bp):
ATAGAAAAAAAAT
Found at i:98251 original size:23 final size:23
Alignment explanation
Indices: 98207--98253 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
98197 GTTTCAAATC
* *
98207 TCACCGTATTTCTTGTGTAATTT
1 TCACCGTATTTCGTATGTAATTT
98230 TCACTCGTATTTCGTATG-AATTT
1 TCAC-CGTATTTCGTATGTAATTT
98253 T
1 T
98254 TTGTGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (23 bp):
TCACCGTATTTCGTATGTAATTT
Found at i:98680 original size:2 final size:2
Alignment explanation
Indices: 98669--98701 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
98659 AAATAATACT
*
98669 TA TA TA -A TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98702 GGTTTTTCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:100648 original size:35 final size:35
Alignment explanation
Indices: 100597--100672 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
100587 AACACAATCC
*
100597 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
* * * *
100632 TCAATTACATTTTAAACCCTAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
100667 TCAATT
1 TCAATT
100673 TAAGGTTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:102534 original size:34 final size:35
Alignment explanation
Indices: 102480--102555 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
102470 TCTAAACCCT
102480 AAATTAAAGTATATTAGAATTTAGGG-TTAAAATG
1 AAATTAAAGTATATTAGAATTTAGGGTTTAAAATG
* * * * * *
102514 TAATTAAATTATTTTGGAATTTGGGGTTTAGAATG
1 AAATTAAAGTATATTAGAATTTAGGGTTTAAAATG
102549 AAATTAA
1 AAATTAA
102556 GGATTGTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 21 0.62
35 13 0.38
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (35 bp):
AAATTAAAGTATATTAGAATTTAGGGTTTAAAATG
Found at i:103334 original size:29 final size:29
Alignment explanation
Indices: 103302--103357 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
103292 AATCATGTGC
*
103302 AATTAAATCAAAATATAATAATTCATCAT
1 AATTAAACCAAAATATAATAATTCATCAT
** * *
103331 AATTCTACCAAATTATAATAGTTCATC
1 AATTAAACCAAAATATAATAATTCATC
103358 GCAATTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (29 bp):
AATTAAACCAAAATATAATAATTCATCAT
Found at i:105712 original size:14 final size:14
Alignment explanation
Indices: 105693--105719 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105683 CAATAAAAAT
105693 ATAATAAAAATATC
1 ATAATAAAAATATC
105707 ATAATAAAAATAT
1 ATAATAAAAATAT
105720 TGTTATTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAAAAATATC
Found at i:107359 original size:2 final size:2
Alignment explanation
Indices: 107354--107394 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
107344 TACGTGTGTG
* *
107354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107395 GTATCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109952 original size:27 final size:28
Alignment explanation
Indices: 109922--109994 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
109912 ATTTTTCCTT
* *
109922 TAAGTAATTAAAATATTTT-TGTCAAAA
1 TAAGTACTTAAATTATTTTATGTCAAAA
*
109949 TAAGTACTTGAATTATTTTATGTCAAAA
1 TAAGTACTTAAATTATTTTATGTCAAAA
109977 TAAGTACTTAAATTATTT
1 TAAGTACTTAAATTATTT
109995 AATTTTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (28 bp):
TAAGTACTTAAATTATTTTATGTCAAAA
Found at i:110147 original size:29 final size:30
Alignment explanation
Indices: 110078--110151 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
110068 AAAAAAATTG
*
110078 ATCACTTTAGGTACATATTTTAACAAAAAA
1 ATCACTTTAGATACATATTTTAACAAAAAA
* *
110108 ATGTAACTTTAGATACATATTTTGACAAAAAA
1 A--TCACTTTAGATACATATTTTAACAAAAAA
110140 A-CACTTTAGATA
1 ATCACTTTAGATA
110152 AATAAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
29 10 0.26
30 1 0.03
32 27 0.71
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (30 bp):
ATCACTTTAGATACATATTTTAACAAAAAA
Found at i:116949 original size:29 final size:29
Alignment explanation
Indices: 116885--116949 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
116875 TTTATGTTGT
* *
116885 GGGTGAATTTAAATTTATAAAATTTTGGA
1 GGGTGAACTTAAACTTATAAAATTTTGGA
* *
116914 GGTTGAACTTGAACTTATAAAATTTTAGG-
1 GGGTGAACTTAAACTTATAAAATTTT-GGA
116943 GGGTGAA
1 GGGTGAA
116950 AACAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
GGGTGAACTTAAACTTATAAAATTTTGGA
Done.