Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 64 of 132
Found at i:17988376 original size:30 final size:31
Alignment explanation
Indices: 17988335--17988418 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
17988325 GGCTAAAAAA
* **
17988335 AAAAATACTTTTTTCAATTTTTAAA-GGGTT
1 AAAAATTCTTTTTTCAATTTTTAAATGGCAT
* * *
17988365 CAAAATTCTTTTTACCAACTTTTAAATGGCAT
1 AAAAATTCTTTTT-TCAATTTTTAAATGGCAT
*
17988397 AAAAATT-TTTCTTCAATTTTTA
1 AAAAATTCTTTTTTCAATTTTTA
17988419 TAATATCTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 19 0.45
31 14 0.33
32 9 0.21
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (31 bp):
AAAAATTCTTTTTTCAATTTTTAAATGGCAT
Found at i:17990456 original size:10 final size:11
Alignment explanation
Indices: 17990441--17990469 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
17990431 ATATTTATTA
17990441 TATATATTTT-
1 TATATATTTTG
17990451 TATATATTTTG
1 TATATATTTTG
17990462 TATATATT
1 TATATATT
17990470 AATAATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
TATATATTTTG
Found at i:17990879 original size:17 final size:18
Alignment explanation
Indices: 17990859--17990902 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
17990849 TTATTTTTAC
17990859 ATAATAAAAAATTAAA-A
1 ATAATAAAAAATTAAATA
* *
17990876 ATAATTATAAATTAAATA
1 ATAATAAAAAATTAAATA
*
17990894 AAAATAAAA
1 ATAATAAAA
17990903 TTTGTTTAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAATAAAAAATTAAATA
Found at i:17994383 original size:12 final size:12
Alignment explanation
Indices: 17994366--17994395 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17994356 AGAAACCAAT
17994366 GAAGTGCCAAAG
1 GAAGTGCCAAAG
17994378 GAAGTGCCAAAG
1 GAAGTGCCAAAG
*
17994390 AAAGTG
1 GAAGTG
17994396 GGAGTTGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.13, G:0.33, T:0.10
Consensus pattern (12 bp):
GAAGTGCCAAAG
Found at i:17999313 original size:12 final size:12
Alignment explanation
Indices: 17999296--17999326 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17999286 ATAAACTAAT
17999296 TTTATATCTATA
1 TTTATATCTATA
17999308 TTTATATCTATA
1 TTTATATCTATA
*
17999320 TATATAT
1 TTTATAT
17999327 ATGTTTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTATATCTATA
Found at i:18009515 original size:36 final size:36
Alignment explanation
Indices: 18009413--18009516 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
18009403 ATATGTCGGA
18009413 ATGTTATTCATGCCATGTGACAGTAAATATGA-GGGT
1 ATGTTATTCATGCCATGTGACAGTAAATAT-ATGGGT
** *
18009449 ATGTTATTCATGCCATAAGATAGTAAATATATGGGT
1 ATGTTATTCATGCCATGTGACAGTAAATATATGGGT
* * * *
18009485 GTGTTATTTATGCCATGTGGCAGTGAATATAT
1 ATGTTATTCATGCCATGTGACAGTAAATATAT
18009517 TGTGTTAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 1 0.02
36 56 0.98
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (36 bp):
ATGTTATTCATGCCATGTGACAGTAAATATATGGGT
Found at i:18009870 original size:66 final size:66
Alignment explanation
Indices: 18009764--18009894 Score: 208
Period size: 66 Copynumber: 2.0 Consensus size: 66
18009754 GGAAATAAGG
*
18009764 AGAGTGTTAGCTTTATGCTTCACTTTCGGAAAATATTTGACTCTATGAGTCATTTGGTGTGTTTG
1 AGAGTGTTAGCTATATGCTTCACTTTCGGAAAATATTTGACTCTATGAGTCATTTGGTGTGTTTG
18009829 A
66 A
* * * * *
18009830 AGAGTGTTAGCTATATGCTTCACTTTTGGGATATGTTTGACTCTATGAGTCTTTTGGTGTGTTTG
1 AGAGTGTTAGCTATATGCTTCACTTTCGGAAAATATTTGACTCTATGAGTCATTTGGTGTGTTTG
18009895 GAGAAATGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.44
Consensus pattern (66 bp):
AGAGTGTTAGCTATATGCTTCACTTTCGGAAAATATTTGACTCTATGAGTCATTTGGTGTGTTTG
A
Found at i:18010003 original size:23 final size:23
Alignment explanation
Indices: 18009977--18010085 Score: 146
Period size: 23 Copynumber: 4.7 Consensus size: 23
18009967 TTAAATGTGC
** *
18009977 TAAATATTGTTGTGATTTATGCT
1 TAAATATTAATGTGATTTATACT
* *
18010000 TAAATGTTAATATGATTTATACT
1 TAAATATTAATGTGATTTATACT
* *
18010023 TAAAAATTAATGTGATTTATGCT
1 TAAATATTAATGTGATTTATACT
*
18010046 TAAATATTAATGTGATTTGTACT
1 TAAATATTAATGTGATTTATACT
18010069 TAAATATTAATGTGATT
1 TAAATATTAATGTGATT
18010086 AAATGTGATT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
TAAATATTAATGTGATTTATACT
Found at i:18010056 original size:46 final size:46
Alignment explanation
Indices: 18009987--18010085 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
18009977 TAAATATTGT
*
18009987 TGTGATTTATGCTTAAATGTTAATATGATTTATACTTAAAAATTAA
1 TGTGATTTATGCTTAAATATTAATATGATTTATACTTAAAAATTAA
* * *
18010033 TGTGATTTATGCTTAAATATTAATGTGATTTGTACTTAAATATTAA
1 TGTGATTTATGCTTAAATATTAATATGATTTATACTTAAAAATTAA
18010079 TGTGATT
1 TGTGATT
18010086 AAATGTGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.47
Consensus pattern (46 bp):
TGTGATTTATGCTTAAATATTAATATGATTTATACTTAAAAATTAA
Found at i:18010105 original size:46 final size:48
Alignment explanation
Indices: 18010006--18010150 Score: 129
Period size: 46 Copynumber: 3.0 Consensus size: 48
18009996 TGCTTAAATG
* * * * *
18010006 TTAATATGATTTATACTTAAAAATTAATGTGATT-TATGCT--TAAATA
1 TTAATGTGATTTGTACTTAAATATTAATGTGATTAAATG-TGATTAATA
18010052 TTAATGTGATTTGTACTTAAATATTAATGTGATTAAATGTGATTAATA
1 TTAATGTGATTTGTACTTAAATATTAATGTGATTAAATGTGATTAATA
* * *
18010100 -T-ATGTGATGTGATAAATGCTGAAATATTCATGTGATTAAATGTGATTAATA
1 TTAATGTGATTTG-T--A--CTTAAATATTAATGTGATTAAATGTGATTAATA
18010151 CGTGAAGTGA
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
46 41 0.49
47 5 0.06
48 5 0.06
49 1 0.01
51 31 0.37
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (48 bp):
TTAATGTGATTTGTACTTAAATATTAATGTGATTAAATGTGATTAATA
Found at i:18010110 original size:28 final size:27
Alignment explanation
Indices: 18010068--18010150 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
18010058 TGATTTGTAC
*
18010068 TTAA-ATATTAATGTGATTAAATGTGA
1 TTAATATATTCATGTGATTAAATGTGA
*
18010094 TTAATATATGTGATGTGA-TAAATGCTG-
1 TTAATATAT-TCATGTGATTAAATG-TGA
18010121 --AA-ATATTCATGTGATTAAATGTGA
1 TTAATATATTCATGTGATTAAATGTGA
18010145 TTAATA
1 TTAATA
18010151 CGTGAAGTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
23 9 0.19
24 10 0.21
25 2 0.04
26 6 0.13
27 11 0.23
28 9 0.19
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (27 bp):
TTAATATATTCATGTGATTAAATGTGA
Found at i:18010133 original size:51 final size:50
Alignment explanation
Indices: 18010070--18010198 Score: 181
Period size: 49 Copynumber: 2.6 Consensus size: 50
18010060 ATTTGTACTT
* * * *
18010070 AAATATTAATGTGATTAAATGTGATTAATATATGTGATGTGATAAATGCTG
1 AAATATTCATGTGATTAAATGTGATTAA-ATACGTGAAGTGATAAATGCTA
*
18010121 AAATATTCATGTGATTAAATGTGATT-AATACGTGAAGTGATAAATGGTA
1 AAATATTCATGTGATTAAATGTGATTAAATACGTGAAGTGATAAATGCTA
*
18010170 AAATATTCATGTGACT-AATGTGATTAAAT
1 AAATATTCATGTGATTAAATGTGATTAAAT
18010199 GTGACTAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 9 0.13
49 36 0.51
50 1 0.01
51 25 0.35
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (50 bp):
AAATATTCATGTGATTAAATGTGATTAAATACGTGAAGTGATAAATGCTA
Found at i:18010192 original size:9 final size:10
Alignment explanation
Indices: 18010178--18010212 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
18010168 TAAAATATTC
18010178 ATGTGACT-A
1 ATGTGACTAA
*
18010187 ATGTGATTAA
1 ATGTGACTAA
18010197 ATGTGACTAA
1 ATGTGACTAA
18010207 ATGTGA
1 ATGTGA
18010213 TTACTACGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (10 bp):
ATGTGACTAA
Found at i:18010208 original size:68 final size:68
Alignment explanation
Indices: 18010129--18010472 Score: 492
Period size: 68 Copynumber: 5.1 Consensus size: 68
18010119 TGAAATATTC
* * * *
18010129 ATGTGATTAAATGTGATTAATACGTGAAGTGATAAATGGTAAAATATTCATGTGACTAATGTGAT
1 ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
18010194 TAA
66 TAA
* *
18010197 ATGTGACTAAATGTGATTACTACGTGATGTGATAAATGATGAAATATTCATGTGACTAATGTGAT
1 ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
18010262 TAA
66 TAA
* * *
18010265 ATGTGACTAAATGTGATTACTACGTGATGTGATAAATGTTGAAATATTCATGTGACAAATGTGAT
1 ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
18010330 TAA
66 TAA
* * *
18010333 ATGTGACTAAATGTGATTAATATGTGATCTGATAAATACTGAAATATTCATGTGACTAATGTGAT
1 ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
18010398 TAA
66 TAA
* * * * * * * * *
18010401 ATGTGATTAAATGTGATTAATATGTGTTGTGTTAAATGCTTAAGTACTCATGTGATTAATGCGAT
1 ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
18010466 T-A
66 TAA
18010468 ATGTG
1 ATGTG
18010473 TAAAAGAACG
Statistics
Matches: 253, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
67 6 0.02
68 247 0.98
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.37
Consensus pattern (68 bp):
ATGTGACTAAATGTGATTAATACGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGTGAT
TAA
Found at i:18010260 original size:9 final size:10
Alignment explanation
Indices: 18010246--18010280 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
18010236 TGAAATATTC
18010246 ATGTGACT-A
1 ATGTGACTAA
*
18010255 ATGTGATTAA
1 ATGTGACTAA
18010265 ATGTGACTAA
1 ATGTGACTAA
18010275 ATGTGA
1 ATGTGA
18010281 TTACTACGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (10 bp):
ATGTGACTAA
Found at i:18010336 original size:10 final size:10
Alignment explanation
Indices: 18010321--18010426 Score: 70
Period size: 10 Copynumber: 9.7 Consensus size: 10
18010311 TTCATGTGAC
18010321 AAATGTGATT
1 AAATGTGATT
*
18010331 AAATGTGACT
1 AAATGTGATT
18010341 AAATGTGATT
1 AAATGTGATT
18010351 AATATGTGATCTGAT
1 AA-ATGTGA--T--T
*
18010366 AAATACTGAAATAT
1 AAAT-GTG--AT-T
** *
18010380 TCATGTGACT
1 AAATGTGATT
18010390 -AATGTGATT
1 AAATGTGATT
18010399 AAATGTGATT
1 AAATGTGATT
18010409 AAATGTGATT
1 AAATGTGATT
18010419 AATATGTG
1 AA-ATGTG
18010427 TTGTGTTAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
9 7 0.09
10 42 0.55
11 12 0.16
13 3 0.04
14 6 0.08
15 6 0.08
17 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.38
Consensus pattern (10 bp):
AAATGTGATT
Found at i:18012514 original size:38 final size:38
Alignment explanation
Indices: 18012450--18012622 Score: 154
Period size: 38 Copynumber: 4.6 Consensus size: 38
18012440 TGCTAGCCCT
* * * *
18012450 AAGCTTGATAAACA-CTGACATGAAGTCTACTAGGCACA
1 AAGCCTGATAAACATC-GGCATAAAGTCTGCTAGGCACA
* *
18012488 AATCCTGATAAACATCAGCATAAAGTCTGCTAGGCACA
1 AAGCCTGATAAACATCGGCATAAAGTCTGCTAGGCACA
* * *
18012526 AAGCTTGCTAAACA-CTGGCATAAAG-CATGCTAGGCACT
1 AAGCCTGATAAACATC-GGCATAAAGTC-TGCTAGGCACA
* * * * *
18012564 AAGCCTGATTAACATCGGCACAAAGCCTTCTAAGCACA
1 AAGCCTGATAAACATCGGCATAAAGTCTGCTAGGCACA
* *
18012602 AAGCCCGATAAACATTGGCAT
1 AAGCCTGATAAACATCGGCAT
18012623 GTAGCCTGGT
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
37 2 0.02
38 103 0.95
39 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (38 bp):
AAGCCTGATAAACATCGGCATAAAGTCTGCTAGGCACA
Found at i:18012559 original size:76 final size:76
Alignment explanation
Indices: 18012450--18012615 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 76
18012440 TGCTAGCCCT
* * * *
18012450 AAGCTTGATAAACACTGACATGAAGTCTACTAGGCACAAATCCTGATAAACATCAGCATAAAGTC
1 AAGCTTGATAAACACTGACATAAAGTCTACTAGGCACAAAGCCTGATAAACATCAGCACAAAGCC
*
18012515 TGCTAGGCACA
66 TGCTAAGCACA
* * * * * *
18012526 AAGCTTGCTAAACACTGGCATAAAG-CATGCTAGGCACTAAGCCTGATTAACATCGGCACAAAGC
1 AAGCTTGATAAACACTGACATAAAGTC-TACTAGGCACAAAGCCTGATAAACATCAGCACAAAGC
*
18012590 CTTCTAAGCACA
65 CTGCTAAGCACA
**
18012602 AAGCCCGATAAACA
1 AAGCTTGATAAACA
18012616 TTGGCATGTA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
75 1 0.01
76 73 0.99
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (76 bp):
AAGCTTGATAAACACTGACATAAAGTCTACTAGGCACAAAGCCTGATAAACATCAGCACAAAGCC
TGCTAAGCACA
Found at i:18012621 original size:76 final size:76
Alignment explanation
Indices: 18012456--18012651 Score: 187
Period size: 76 Copynumber: 2.6 Consensus size: 76
18012446 CCCTAAGCTT
* * * * * * * *
18012456 GATAAACACTGACATGAAGTC-TACTAGGCACAAATCCTGATAAACATCAGCATAAAGTCTGCTA
1 GATAAACACTGGCATAAAG-CATGCTAGGCACTAACCCTGATTAACATCAGCACAAAGCCTGCTA
* **
18012520 GGCACAAAGCTT
65 AGCACAAAGCCC
* * * *
18012532 GCTAAACACTGGCATAAAGCATGCTAGGCACTAAGCCTGATTAACATCGGCACAAAGCCTTCTAA
1 GATAAACACTGGCATAAAGCATGCTAGGCACTAACCCTGATTAACATCAGCACAAAGCCTGCTAA
18012597 GCACAAAGCCC
66 GCACAAAGCCC
* ** * * *
18012608 GATAAACATTGGCATGTAGCCTGGTAGGCACTAACCCCGATTAA
1 GATAAACACTGGCATAAAGCATGCTAGGCACTAACCCTGATTAA
18012652 GACTGGCACA
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
75 1 0.01
76 96 0.99
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (76 bp):
GATAAACACTGGCATAAAGCATGCTAGGCACTAACCCTGATTAACATCAGCACAAAGCCTGCTAA
GCACAAAGCCC
Found at i:18012647 original size:38 final size:38
Alignment explanation
Indices: 18012534--18012679 Score: 105
Period size: 38 Copynumber: 3.8 Consensus size: 38
18012524 CAAAGCTTGC
* * * * * *
18012534 TAAACACTGGCATAAAGCATGCTAGGCACTAAGCCTGA
1 TAAACACTGGCACATAGCCTGGTAGGCACTAACCCCGA
* * ** * * *
18012572 TTAACA-TCGGCACAAAGCCTTCTAAGCACAAAGCCCGA
1 TAAACACT-GGCACATAGCCTGGTAGGCACTAACCCCGA
* **
18012610 TAAACATTGGCATGTAGCCTGGTAGGCACTAACCCCGA
1 TAAACACTGGCACATAGCCTGGTAGGCACTAACCCCGA
* * *
18012648 TTAAGACTGGCACATAGCCTGTTAGGCACTAA
1 TAAACACTGGCACATAGCCTGGTAGGCACTAA
18012680 GCTCGATTAA
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
37 1 0.01
38 82 0.98
39 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
TAAACACTGGCACATAGCCTGGTAGGCACTAACCCCGA
Found at i:18012699 original size:38 final size:38
Alignment explanation
Indices: 18012624--18012699 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
18012614 CATTGGCATG
* **
18012624 TAGCCTGGTAGGCACTAACCCCGATTAAGACTGGCACA
1 TAGCCTGGTAGGCACTAACCCCGATTAACACCAGCACA
* * *
18012662 TAGCCTGTTAGGCACTAAGCTCGATTAACACCAGCACA
1 TAGCCTGGTAGGCACTAACCCCGATTAACACCAGCACA
18012700 AAGCTTGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (38 bp):
TAGCCTGGTAGGCACTAACCCCGATTAACACCAGCACA
Found at i:18015857 original size:49 final size:49
Alignment explanation
Indices: 18015785--18015881 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
18015775 TCAGAAATAC
*
18015785 CTGATCATCGATAGAATACTCTATATCCTT-TCGCTTTAAATCCGCATAA
1 CTGATCACCGATAGAATACTCTATATCCTTCT-GCTTTAAATCCGCATAA
*
18015834 CTGATCACCGATAGAATACTCTATATCCTTCTGCTTTAAATTCGCATA
1 CTGATCACCGATAGAATACTCTATATCCTTCTGCTTTAAATCCGCATA
18015882 GGACTTTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (49 bp):
CTGATCACCGATAGAATACTCTATATCCTTCTGCTTTAAATCCGCATAA
Found at i:18018435 original size:37 final size:38
Alignment explanation
Indices: 18018394--18018468 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
18018384 TCACCACAGG
* * * *
18018394 AATATTTTTGAAA-TGCACCCAAAACTGTCGTTGCATA
1 AATATTCTTCAAATTGCACCCAAAAATGTCGCTGCATA
*
18018431 AATATTCTTCAAATTGCATCCAAAAATGTCGCTGCATA
1 AATATTCTTCAAATTGCACCCAAAAATGTCGCTGCATA
18018469 TGTATTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (38 bp):
AATATTCTTCAAATTGCACCCAAAAATGTCGCTGCATA
Found at i:18021185 original size:7 final size:7
Alignment explanation
Indices: 18021174--18021209 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
18021164 AGCTCAGACA
*
18021174 AAAGAAA
1 AAAGAAG
18021181 AAAGAAG
1 AAAGAAG
18021188 AAAGAAG
1 AAAGAAG
18021195 AAAGAAG
1 AAAGAAG
18021202 AAAGAAG
1 AAAGAAG
18021209 A
1 A
18021210 GAAGGACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:18022861 original size:38 final size:38
Alignment explanation
Indices: 18022808--18022905 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 38
18022798 CAAAATAACA
*
18022808 TCCAAATTTGTGCCCAAAACTGTCACCGCATGAGCACT
1 TCCAAATTTGCGCCCAAAACTGTCACCGCATGAGCACT
* **
18022846 TCCAAATTTGCGCCCAAAACTGTCGCTTCATGAGCACT
1 TCCAAATTTGCGCCCAAAACTGTCACCGCATGAGCACT
*
18022884 TCCAAATTT-C-ACCAAAACTGTC
1 TCCAAATTTGCGCCCAAAACTGTC
18022906 GTCGTAGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 11 0.20
37 1 0.02
38 43 0.78
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.26
Consensus pattern (38 bp):
TCCAAATTTGCGCCCAAAACTGTCACCGCATGAGCACT
Found at i:18028483 original size:25 final size:25
Alignment explanation
Indices: 18028450--18028504 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
18028440 AACACTAATC
18028450 ATTCATTGCTGAAACAATTCCAATA
1 ATTCATTGCTGAAACAATTCCAATA
*
18028475 ATTCATTGCTGAAACAATTCCAATC
1 ATTCATTGCTGAAACAATTCCAATA
18028500 ATTCA
1 ATTCA
18028505 ATCGAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (25 bp):
ATTCATTGCTGAAACAATTCCAATA
Found at i:18028837 original size:16 final size:18
Alignment explanation
Indices: 18028810--18028848 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18028800 ATGATGAAAT
*
18028810 AAAATGCAATTATAA-TA
1 AAAATGCAATTAAAACTA
18028827 AAAATGC-ATTAAAACTA
1 AAAATGCAATTAAAACTA
18028844 AAAAT
1 AAAAT
18028849 TTTGTACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATGCAATTAAAACTA
Found at i:18037368 original size:175 final size:175
Alignment explanation
Indices: 18037077--18037427 Score: 657
Period size: 175 Copynumber: 2.0 Consensus size: 175
18037067 TGCACCAAAA
18037077 ATTGAAACTGGTGACTGAAGGTCGATTGGTCAGAATCAGTGCTGAGGAAGACATAATTGCATATA
1 ATTGAAACTGGTGACTGAAGGTCGATTGGTCAGAATCAGTGCTGAGGAAGACATAATTGCATATA
*
18037142 TAGCAAATGAGGAACCCTACATCGGAGTAGACGAAGAGGCTTTGGAATGCTCTTTTCCATCTTTG
66 TAGCAAATGAGGAACCCTACATCGGAGCAGACGAAGAGGCTTTGGAATGCTCTTTTCCATCTTTG
* *
18037207 GAGTTTGTGAATGCAACCTTCATTATCGAAGGAAGTAAGATCTCT
131 GAGTTTGTGAATACAACCTTCATTACCGAAGGAAGTAAGATCTCT
18037252 ATTGAAACTGGTGACTGAAGGTCGATTGGTCAGAATCAGTGCTGAGGAAGACATAATTGCATATA
1 ATTGAAACTGGTGACTGAAGGTCGATTGGTCAGAATCAGTGCTGAGGAAGACATAATTGCATATA
*
18037317 TAGCAAATGAGGAACCCTACATCGGAGCAGACGAAGAGGCTTTGGAATGCTCTTTTCGATCTTTG
66 TAGCAAATGAGGAACCCTACATCGGAGCAGACGAAGAGGCTTTGGAATGCTCTTTTCCATCTTTG
*
18037382 GAGTTTGTGAATACAACCTTCATTGCCGAAGGAAGTAAGATCTCT
131 GAGTTTGTGAATACAACCTTCATTACCGAAGGAAGTAAGATCTCT
18037427 A
1 A
18037428 CACCAAAAAT
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 171 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (175 bp):
ATTGAAACTGGTGACTGAAGGTCGATTGGTCAGAATCAGTGCTGAGGAAGACATAATTGCATATA
TAGCAAATGAGGAACCCTACATCGGAGCAGACGAAGAGGCTTTGGAATGCTCTTTTCCATCTTTG
GAGTTTGTGAATACAACCTTCATTACCGAAGGAAGTAAGATCTCT
Found at i:18043016 original size:189 final size:189
Alignment explanation
Indices: 18042454--18043061 Score: 742
Period size: 189 Copynumber: 3.2 Consensus size: 189
18042444 CACTTTACAA
* * * * * *
18042454 GTAATAGATCTCAACGTCCCTGAGGTAACAGTGGAGTGGAATATAGCACCAGAATCCTATACCTC
1 GTAATAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTAAAGCACTAGAATCCTATACCCC
* * * *
18042519 TGAGTTGCAGTAGG-TTGGATGAAAATAATGAAGCTGAGCTCAACGTCCCTAAGGTTATAGTGGG
66 TGAGTTGCAGT-GGATAGGATGAAAATAATGAAGCAGAGCTCAACGTCCTTAAGGTTATAGTGGA
* *
18042583 GTGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTACAAAGAAGTGGGTTAAAACAG
130 GTGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAACAG
* * * * *
18042643 GTAGTAGATCTCAACGTCCTTGAGGTTACAATGGAGTGGAGTGAAGCA-TCAAAATCTTATACCC
1 GTAATAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTAAAGCACT-AGAATCCTATACCC
* * * * *
18042707 CTGAGTTACAGT-GAGTCA-GATTAAAACAACGAAGCAGAGCTCAACGT-CTCTGAGGTTATAGT
65 CTGAGTTGCAGTGGA-T-AGGATGAAAATAATGAAGCAGAGCTCAACGTCCT-TAAGGTTATAGT
* * *
18042769 GGAGTGG-GTGAGACTTCAAATCTCATCTTCCTGGTGAGGTATAGAGAAGTGAGTCAAAACAG
127 GGAGTGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAACAG
* * * * * * * *
18042831 ATAATAGATATCAATGTCCCTAACGTTACAGTAGAGTGGAGTAAAGGACTAGAATCCTATACCCC
1 GTAATAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTAAAGCACTAGAATCCTATACCCC
* * * * * * *
18042896 TAAGTTGTAATGGATAGGATGGAAATAATGAAGCAGAGCTCAACGTCCTTCAGGTTACAGTAGAG
66 TGAGTTGCAGTGGATAGGATGAAAATAATGAAGCAGAGCTCAACGTCCTTAAGGTTATAGTGGAG
*
18042961 TGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAACAG
131 TGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAACAG
* *
18043020 GTAACAGATCTCAACGTCCTTGAGGTTACAATGGAGTGGAGT
1 GTAATAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGT
18043062 TAGACTTCAA
Statistics
Matches: 348, Mismatches: 61, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
187 2 0.01
188 150 0.43
189 196 0.56
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (189 bp):
GTAATAGATCTCAACGTCCCTGAGGTTACAATGGAGTGGAGTAAAGCACTAGAATCCTATACCCC
TGAGTTGCAGTGGATAGGATGAAAATAATGAAGCAGAGCTCAACGTCCTTAAGGTTATAGTGGAG
TGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAACAG
Found at i:18043157 original size:95 final size:95
Alignment explanation
Indices: 18042557--18043156 Score: 460
Period size: 95 Copynumber: 6.3 Consensus size: 95
18042547 TGAAGCTGAG
* * * *
18042557 CTCAACGTCCCTAAGGTTATAGTGGGGTGGAGTGAGACTTCAAATCACATCTTCCTGGTGAGGTA
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGACTTCAAATCTCATATTCCTGGTGAGGTA
* * *
18042622 CAAAGAAGTGGGTTAAAACAGGTAGTAGAT
66 CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
* * * * * ** *
18042652 CTCAACGTCCTTGAGGTTACAATGGAGTGGAGTGA-AGCATCAAAATCT--TATACC-CCTGAGT
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGA-CTTC-AAATCTCATATTCCTGGTGAGG
* * * * * * *
18042713 TACAGTG-AGTCAGATTAAAACAACGAAGCAGAG
64 TACAGAGAAGT-GGGTCAAAAC-AGGTAGCAGAT
* * * *
18042746 CTCAACGTCTCTGAGGTTATAGTGGAGTGG-GTGAGACTTCAAATCTCATCTTCCTGGTGAGGTA
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGACTTCAAATCTCATATTCCTGGTGAGGTA
* * * **
18042810 TAGAGAAGTGAGTCAAAACAGATAATAGAT
66 CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
* * * * * ** *
18042840 ATCAATGTCCCTAACGTTACAGTAGAGTGGAGTAAAGGAC-T-AGAATC-CTATACCCCTAAGT-
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGT-GA-GACTTCA-AATCTC-ATATTCCT-GGTG
* * * *
18042901 -TGTA-ATG-GATAG-GATGG--AAATA-ATGAAGCAGAG
61 AGGTACA-GAGA-AGTG--GGTCAAA-ACAGGTAGCAGAT
* * * * *
18042934 CTCAACGTCCTTCAGGTTACAGTAGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTA
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGACTTCAAATCTCATATTCCTGGTGAGGTA
*
18042999 CAGAGAAGTGGGTCAAAACAGGTAACAGAT
66 CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
* * * *
18043029 CTCAACGTCCTTGAGGTTACAATGGAGTGGAGTTAGACTTCAAATCTCATATTCCTGGTGAGGTA
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGACTTCAAATCTCATATTCCTGGTGAGGTA
18043094 CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
66 CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
* *
18043124 CTTAACGTCCCTAAGGTTATAGTGGAGTGGAGT
1 CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGT
18043157 TGAGTGGAGT
Statistics
Matches: 385, Mismatches: 89, Indels: 62
0.72 0.17 0.12
Matches are distributed among these distances:
92 14 0.04
93 37 0.10
94 120 0.31
95 189 0.49
96 20 0.05
97 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (95 bp):
CTCAACGTCCCTAAGGTTACAGTGGAGTGGAGTGAGACTTCAAATCTCATATTCCTGGTGAGGTA
CAGAGAAGTGGGTCAAAACAGGTAGCAGAT
Found at i:18043264 original size:294 final size:283
Alignment explanation
Indices: 18042741--18043353 Score: 771
Period size: 294 Copynumber: 2.1 Consensus size: 283
18042731 AACAACGAAG
* * *
18042741 CAGAGCTCAACGT-CTCTGAGGTTATAGTGGAGTGGGTGAGACTTCAAATCTCATCTTCCTGGTG
1 CAGATCTCAACGTCCT-TGAGGTTATAATGGAGTGGGTGAGACTTCAAATCTCATATTCCTGGTG
* * *
18042805 AGGTATAGAGAAGTGAGTCAAAACAGATAATAGATATCAATGTCCCTAACGTTACAGTAGAGTGG
65 AGGTACAGAGAAGTGAGTCAAAACAGATAACAGATATCAACGTCCCTAACGTTACAGTAGAGTGG
* *
18042870 AGTAAAGGACTAGAATCCTATACCCCTAAGTTGTAATGGATAGGATGGAAATAATGAAGCAGAGC
130 AGTAAAGGACCAGAATCCTATACCCCTAAGTTGTAATGGATAGGATGAAAATAATGAAGCAGAGC
* * ** *
18042935 TCAACGTCCTTCAGGTTACAGTAGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTAC
195 TCAACATCCCTCAGGTTACAACAGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTAC
18043000 AGAGAAGTGGGTCAAAACAGGTAA
260 AGAGAAGTGGGTCAAAACAGGTAA
* *
18043024 CAGATCTCAACGTCCTTGAGGTTACAATGGAGTGGAGTTAGACTTCAAATCTCATATTCCTGGTG
1 CAGATCTCAACGTCCTTGAGGTTATAATGGAGTGG-GTGAGACTTCAAATCTCATATTCCTGGTG
* * * * * * * *
18043089 AGGTACAGAGAAGTGGGTCAAAACAGGTAGCAGATCTTAACGTCCCTAAGGTTATAGTGGAGTGG
65 AGGTACAGAGAAGTGAGTCAAAACAGATAACAGATATCAACGTCCCTAACGTTACAGTAGAGTGG
* * * * *
18043154 AGTTGAGTGGAGTGAAGCAACAGAATCCTATACTCCTAAGTTGCT-GTGGGTCGGATGAAAATAA
130 AG-T-A---AAG-G-A-C--CAGAATCCTATACCCCTAAGTTG-TAATGGATAGGATGAAAATAA
* * *
18043218 TGAAGCAGAGCTCAACATCCCTGAGGTTATAACAGAGTGGAGTGAGACTTCAAATCCTATCTTCC
184 TGAAGCAGAGCTCAACATCCCTCAGGTTACAACAGAGTGGAGTGAGACTTCAAATCCCATCTTCC
* *
18043283 TAGTGAGGTACAGAGAAGTGGGTTAAAACAGGTAG
249 TAGTGAGGTACAGAGAAGTGGGTCAAAACAGGTAA
* * *
18043318 CAAATCTCAACATCCCTGAGGTTATAATGGAGTGGG
1 CAGATCTCAACGTCCTTGAGGTTATAATGGAGTGGG
18043354 GTGAAGCACC
Statistics
Matches: 280, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
283 29 0.10
284 85 0.30
285 1 0.00
286 1 0.00
289 2 0.01
290 1 0.00
291 1 0.00
292 1 0.00
293 1 0.00
294 157 0.56
295 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (283 bp):
CAGATCTCAACGTCCTTGAGGTTATAATGGAGTGGGTGAGACTTCAAATCTCATATTCCTGGTGA
GGTACAGAGAAGTGAGTCAAAACAGATAACAGATATCAACGTCCCTAACGTTACAGTAGAGTGGA
GTAAAGGACCAGAATCCTATACCCCTAAGTTGTAATGGATAGGATGAAAATAATGAAGCAGAGCT
CAACATCCCTCAGGTTACAACAGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACA
GAGAAGTGGGTCAAAACAGGTAA
Found at i:18045459 original size:52 final size:52
Alignment explanation
Indices: 18045364--18045539 Score: 223
Period size: 52 Copynumber: 3.4 Consensus size: 52
18045354 AAGTTTGGTA
* *
18045364 ACTATGTGTCATCGTGAGTAT-TGAATCTTTTACGGATTTTGAGGTCCGATG
1 ACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATG
*
18045415 ACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCCGATG
1 ACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATG
* ** * * *
18045467 ACTATGTGTCATCGTGAGTATATGATTCCCAATACGTATTA-AAAGTCCGATG
1 ACTATGTGTCATCGTGAGTATATGAAT-CCTTTACGGATTATGAGGTCCGATG
*
18045519 ACTTTGTGTCA-CTGTGAGTAT
1 ACTATGTGTCATC-GTGAGTAT
18045540 TAAAAATGCA
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
51 21 0.19
52 80 0.72
53 10 0.09
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (52 bp):
ACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATG
Found at i:18051966 original size:52 final size:52
Alignment explanation
Indices: 18051861--18051985 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 52
18051851 TAATAGGTCC
* * *
18051861 GATGACTA--TGTCATCGTGAGTATATGAATCCTTTACGAATTATGAGGTCT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTATACGAATTATAAAGTCT
* * * *
18051911 GATGACTATGTGTCATCGTGAGTATATGATTCCTAATACGGATTA-AAATTTT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCT-ATACGAATTATAAAGTCT
18051963 GATGAC--TGTGTCATCGTGAGTAT
1 GATGACTATGTGTCATCGTGAGTAT
18051986 TAAAAATGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 25 0.38
52 32 0.49
53 8 0.12
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTATACGAATTATAAAGTCT
Found at i:18074613 original size:18 final size:18
Alignment explanation
Indices: 18074552--18074614 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
18074542 TAAGAAAATT
18074552 ATTTTCTAATTT-TTTTAA
1 ATTTT-TAATTTATTTTAA
18074570 ATTTTTTTAATTTA--TTAA
1 A--TTTTTAATTTATTTTAA
*
18074588 CTTTTTAATTTATTTTAA
1 ATTTTTAATTTATTTTAA
*
18074606 ATTGTTAAT
1 ATTTTTAAT
18074615 ATTTTATACT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.30
18 16 0.43
19 6 0.16
20 4 0.11
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTAATTTATTTTAA
Found at i:18074613 original size:26 final size:26
Alignment explanation
Indices: 18074563--18074613 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18074553 TTTTCTAATT
*
18074563 TTTTTAAATTTTTTTAATTTATTAAC
1 TTTTTAAATTTTTTTAAATTATTAAC
*
18074589 TTTTT-AATTTATTTTAAATTGTTAA
1 TTTTTAAATTT-TTTTAAATTATTAA
18074614 TATTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTAAATTTTTTTAAATTATTAAC
Found at i:18077185 original size:120 final size:120
Alignment explanation
Indices: 18076972--18077322 Score: 495
Period size: 120 Copynumber: 2.9 Consensus size: 120
18076962 TACAAACTAT
* *
18076972 AATCCAAAATTTCATCCTCATGTCTGTATCAACTCTGTTACCAGTATACGATACTGCTCACACGA
1 AATCCAAAATTTCATTCTCATGTCTATATCAACTCTGTTACCAGTATACGATACTGCTCACACGA
* * *
18077037 GTTATCGAGGACTCGTAACATATGCGGTACCCCAGTCATCGATACGAGATGCTAC
66 GCTGTCGAGGACTCGTAACATATGCGGTACCCCAGCCATCGATACGAGATGCTAC
* *
18077092 AATCCAAAATTTCATTCTCATGCCTATATCAACTCTGTTACCAGTATACGATACTGCTCACACAA
1 AATCCAAAATTTCATTCTCATGTCTATATCAACTCTGTTACCAGTATACGATACTGCTCACACGA
* * * *** *
18077157 GCTGTTGAGGACTTGTAAAATATGCGGTACCCCAGCCATCGATACTTTATGCTAT
66 GCTGTCGAGGACTCGTAACATATGCGGTACCCCAGCCATCGATACGAGATGCTAC
* * * * * *
18077212 AATCCAAAATTTCATTCTCATGTATATATCAACTTTGTTACTAGTATACAATGCTGCTCACATGA
1 AATCCAAAATTTCATTCTCATGTCTATATCAACTCTGTTACCAGTATACGATACTGCTCACACGA
** *
18077277 GCTGTCGAGGACTCACAACATATGCGGTACCCTAGCCATCGATACG
66 GCTGTCGAGGACTCGTAACATATGCGGTACCCCAGCCATCGATACG
18077323 GTATCTGTGC
Statistics
Matches: 202, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 202 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (120 bp):
AATCCAAAATTTCATTCTCATGTCTATATCAACTCTGTTACCAGTATACGATACTGCTCACACGA
GCTGTCGAGGACTCGTAACATATGCGGTACCCCAGCCATCGATACGAGATGCTAC
Found at i:18090135 original size:27 final size:26
Alignment explanation
Indices: 18090105--18090163 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
18090095 GATAATATAT
*
18090105 AAAAATTGAAAATTTTATAAAAATGAAA
1 AAAAATT-AAAATTTTAGAAAAAT-AAA
* * *
18090133 AAATATTTAAATTTTAGAAAATTAAA
1 AAAAATTAAAATTTTAGAAAAATAAA
18090159 AAAAA
1 AAAAA
18090164 ACTTACATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAAATTAAAATTTTAGAAAAATAAA
Found at i:18090173 original size:27 final size:27
Alignment explanation
Indices: 18090114--18090183 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
18090104 TAAAAATTGA
* * * *
18090114 AAATTTTATAAAAATGAAAAAATATTT
1 AAATTTTAGAAAAATAAAAAAAAACTT
*
18090141 AAATTTTAGAAAATTAAAAAAAAACTT
1 AAATTTTAGAAAAATAAAAAAAAACTT
* **
18090168 ACATTTTTCAAAAATA
1 AAATTTTAGAAAAATA
18090184 TATATTCAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATTTTAGAAAAATAAAAAAAAACTT
Found at i:18090894 original size:12 final size:12
Alignment explanation
Indices: 18090877--18090918 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
18090867 TTAACTTAAT
18090877 CGAACATGTTCA
1 CGAACATGTTCA
**
18090889 CGAACAT-TAAA
1 CGAACATGTTCA
18090900 CGAACATGTTCA
1 CGAACATGTTCA
*
18090912 TGAACAT
1 CGAACAT
18090919 ATAATTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:18090898 original size:23 final size:23
Alignment explanation
Indices: 18090872--18090941 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
18090862 TTCATTTAAC
18090872 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* *
18090895 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
**
18090918 TATAATTAAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
18090942 ATGTTAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:18091060 original size:12 final size:12
Alignment explanation
Indices: 18091031--18091075 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
18091021 ATCATTAATA
18091031 AATAAACGAGTC
1 AATAAACGAGTC
*
18091043 -ATAAACGAATC
1 AATAAACGAGTC
*
18091054 AATAAACGAGCC
1 AATAAACGAGTC
18091066 AATAAACGAG
1 AATAAACGAG
18091076 CTTGTTCGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:18091964 original size:21 final size:20
Alignment explanation
Indices: 18091927--18091965 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18091917 AGCATTTGGG
*
18091927 AGCGAAATAAGAGAAAAACA
1 AGCGAAATAAGACAAAAACA
*
18091947 AGCGAAAATAGGACAAAAA
1 AGCG-AAATAAGACAAAAA
18091966 GAGTAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.64, C:0.10, G:0.21, T:0.05
Consensus pattern (20 bp):
AGCGAAATAAGACAAAAACA
Found at i:18096822 original size:18 final size:19
Alignment explanation
Indices: 18096801--18096848 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
18096791 ACAAAAGTCG
*
18096801 AAAAGAAAATTTGA-AAAA
1 AAAAGAAAAATTGAGAAAA
18096819 AAAAGAGAAAATTGAGAAAA
1 AAAAGA-AAAATTGAGAAAA
18096839 AAAAGAAAAA
1 AAAAGAAAAA
18096849 AATATAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 10 0.37
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAGAAAAATTGAGAAAA
Found at i:18096827 original size:20 final size:20
Alignment explanation
Indices: 18096804--18096848 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18096794 AAAGTCGAAA
18096804 AGAAAATTTGA-AAAAAAAAG
1 AGAAAA-TTGAGAAAAAAAAG
18096824 AGAAAATTGAGAAAAAAAAG
1 AGAAAATTGAGAAAAAAAAG
18096844 A-AAAA
1 AGAAAA
18096849 AATATAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
AGAAAATTGAGAAAAAAAAG
Found at i:18102093 original size:21 final size:21
Alignment explanation
Indices: 18102067--18102120 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
18102057 TAGTACAGAT
18102067 TTCTACCGATACAAGTGAC-T-C
1 TTCTACCGATACAAGT--CTTAC
*
18102088 TTCTACCGAAACAAGTCTTAC
1 TTCTACCGATACAAGTCTTAC
18102109 TTCTACCGATAC
1 TTCTACCGATAC
18102121 TAAAAATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 27 0.93
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTCTTAC
Found at i:18102838 original size:19 final size:19
Alignment explanation
Indices: 18102807--18102865 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
18102797 TCCTTGCTAT
*
18102807 CCAATATTTCTCTTACGAG
1 CCAATATTGCTCTTACGAG
*
18102826 CCAGTATTGCTCTTACGAG
1 CCAATATTGCTCTTACGAG
*
18102845 CCAATATTGCTC-AACGAG
1 CCAATATTGCTCTTACGAG
18102863 CCA
1 CCA
18102866 TTATGCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 8 0.22
19 28 0.78
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (19 bp):
CCAATATTGCTCTTACGAG
Found at i:18104939 original size:129 final size:129
Alignment explanation
Indices: 18104685--18104930 Score: 307
Period size: 129 Copynumber: 1.9 Consensus size: 129
18104675 AGGCCTATTT
** * * *
18104685 CACAGCTCATGAGAGCATTACGGGATATGGGTGCTGGTCTTGGATGTCCTACCAATGGTTGAGGT
1 CACAGCTCATGAGAGCATTACAAGATATCGGTGCTGGTCTTGAATGTCCTACCAATGGCTGAGGT
* * * ** * * *
18104750 CTTACATTTATTGTAGATTCTCCATAGCTCATGTGAGCAGTATCGTGTAGCTAACATCTTGACC
66 CCTACATTTATTGTAGATTCTCCACAGCTCATGTAAGCAACATCCTGTACCCAACATCTTGACC
* * * *
18104814 CACAGCTCGTGTA-AGCATTACAAGATATCGGTGTTGGTTTTGAATGTCCTACCGATGGCTGAGG
1 CACAGCTCATG-AGAGCATTACAAGATATCGGTGCTGGTCTTGAATGTCCTACCAATGGCTGAGG
*
18104878 TCCTACATTTGTTGTAGATTCTCCACAGCTCATGTAAGCAACATCCTG-ACCCA
65 TCCTACATTTATTGTAGATTCTCCACAGCTCATGTAAGCAACATCCTGTACCCA
18104931 CAGCTCTTGT
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
128 3 0.03
129 94 0.96
130 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (129 bp):
CACAGCTCATGAGAGCATTACAAGATATCGGTGCTGGTCTTGAATGTCCTACCAATGGCTGAGGT
CCTACATTTATTGTAGATTCTCCACAGCTCATGTAAGCAACATCCTGTACCCAACATCTTGACC
Found at i:18104971 original size:26 final size:26
Alignment explanation
Indices: 18104929--18104997 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
18104919 CATCCTGACC
* * * *
18104929 CACAGCTCTTGTCAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGACCCATAT
* **
18104955 CATAGCTTGTGTGAGCAGACCCATAT
1 CACAGCTCATGTGAGCAGACCCATAT
18104981 CACAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
18104998 TACATGATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGACCCATAT
Found at i:18111233 original size:20 final size:20
Alignment explanation
Indices: 18111208--18111251 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
18111198 ACTAGTCAAC
*
18111208 GGTCAATGGTTAATGAGTCG
1 GGTCAATGGTCAATGAGTCG
*
18111228 GGTCAATGGTCAATGGGTCG
1 GGTCAATGGTCAATGAGTCG
18111248 GGTC
1 GGTC
18111252 GGGTTAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (20 bp):
GGTCAATGGTCAATGAGTCG
Found at i:18128010 original size:155 final size:155
Alignment explanation
Indices: 18127739--18128022 Score: 388
Period size: 155 Copynumber: 1.8 Consensus size: 155
18127729 TTCATAGCTC
* * * * * * *
18127739 GTGTGAGCGTTACAGGATATGGGTGCTAATCTTGGATGTCCTACCGATAGCTAAGGTCCTTTATT
1 GTGTCAGCATTACAGGATATGAGTGCTAATCTTGAATGTCCTACCAATAGCTAAGATCCTGTATT
** * * * * *
18127804 TATTTTAGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCTAACATCCCGACCCATAACTCA
66 TATTACAGATTCTCCACAACTCGTGTAAGCAACATCGTGTAGCTAAAATCCCGACCCACAACTCA
18127869 TATGAGTAGGACCATTTCACAGATT
131 TATGAGTAGGACCATTTCACAGATT
** * *
18127894 GTGTCAGCATTACAGGATATGAGTGCTGGTCTTGAATGTCCTACCAATGGCTGAGATCCTGTATT
1 GTGTCAGCATTACAGGATATGAGTGCTAATCTTGAATGTCCTACCAATAGCTAAGATCCTGTATT
* *
18127959 TGTTACAGATTCTCCACAACTCGTGTAAGCAACATCGTGTAGCTAAAATCCCGATCCACAACTC
66 TATTACAGATTCTCCACAACTCGTGTAAGCAACATCGTGTAGCTAAAATCCCGACCCACAACTC
18128023 TTGTGAGCAA
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
155 109 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (155 bp):
GTGTCAGCATTACAGGATATGAGTGCTAATCTTGAATGTCCTACCAATAGCTAAGATCCTGTATT
TATTACAGATTCTCCACAACTCGTGTAAGCAACATCGTGTAGCTAAAATCCCGACCCACAACTCA
TATGAGTAGGACCATTTCACAGATT
Found at i:18128044 original size:26 final size:27
Alignment explanation
Indices: 18128015--18128083 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
18128005 AATCCCGATC
* *
18128015 CACAACTCTTGTGAGCAAG-CCCATTT
1 CACAACTCGTGTGAGCAAGACCCATAT
18128041 CACAACTCGTGTGAGC-AGACCCATAT
1 CACAACTCGTGTGAGCAAGACCCATAT
* *
18128067 CATAGCTCGTGTGAGCA
1 CACAACTCGTGTGAGCA
18128084 TATATGATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.05
26 35 0.95
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (27 bp):
CACAACTCGTGTGAGCAAGACCCATAT
Found at i:18130451 original size:178 final size:178
Alignment explanation
Indices: 18130152--18130507 Score: 694
Period size: 178 Copynumber: 2.0 Consensus size: 178
18130142 CCCAACACAC
18130152 ACACTATGATTCAGTCCTAGGATAGACTAAATCGTAGCTCTAATACCACTAAATGTAATACCTCT
1 ACACTATGATTCAGTCCTAGGATAGACTAAATCGTAGCTCTAATACCACTAAATGTAATACCTCT
*
18130217 TGCCTGACCCGATCTTCGAGTCCAAGCTATAGGATACTACTTTCATTTTTGAATTAACAACATTT
66 TGCCCGACCCGATCTTCGAGTCCAAGCTATAGGATACTACTTTCATTTTTGAATTAACAACATTT
18130282 AAATGCAACATAATTTTTATTAATTCAACAATTTATAATCACTAACAT
131 AAATGCAACATAATTTTTATTAATTCAACAATTTATAATCACTAACAT
18130330 ACACTATGATTCAGTCCTAGGATAGACTAAATCGTAGCTCTAATACCACTAAATGTAATACCTCT
1 ACACTATGATTCAGTCCTAGGATAGACTAAATCGTAGCTCTAATACCACTAAATGTAATACCTCT
*
18130395 TGCCCGACCCGATCTTCGAGTCCAAGCTATAGGATACTACTTTCATTTTTGAATTAACTACATTT
66 TGCCCGACCCGATCTTCGAGTCCAAGCTATAGGATACTACTTTCATTTTTGAATTAACAACATTT
18130460 AAATGCAACATAATTTTTATTAATTCAACAATTTATAATCACTAACAT
131 AAATGCAACATAATTTTTATTAATTCAACAATTTATAATCACTAACAT
18130508 GATCATTCCA
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 176 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (178 bp):
ACACTATGATTCAGTCCTAGGATAGACTAAATCGTAGCTCTAATACCACTAAATGTAATACCTCT
TGCCCGACCCGATCTTCGAGTCCAAGCTATAGGATACTACTTTCATTTTTGAATTAACAACATTT
AAATGCAACATAATTTTTATTAATTCAACAATTTATAATCACTAACAT
Found at i:18135596 original size:10 final size:9
Alignment explanation
Indices: 18135576--18135605 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18135566 TTCTTCTTTC
18135576 TTTTGTTTT
1 TTTTGTTTT
18135585 TTTTGTTTT
1 TTTTGTTTT
*
18135594 TTTTATTTT
1 TTTTGTTTT
18135603 TTT
1 TTT
18135606 ATTTACTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:18146793 original size:8 final size:8
Alignment explanation
Indices: 18146776--18146826 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
18146766 ACAGCATATA
18146776 TTTC-TTT
1 TTTCTTTT
18146783 TTTCTTTT
1 TTTCTTTT
*
18146791 TTTCTCTT
1 TTTCTTTT
* *
18146799 TTCCTCTTC
1 TTTCT-TTT
*
18146808 TTTCTTTC
1 TTTCTTTT
18146816 TTTCTTTT
1 TTTCTTTT
18146824 TTT
1 TTT
18146827 TTTATAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 4 0.11
8 27 0.75
9 5 0.14
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCTTTT
Found at i:18146811 original size:25 final size:25
Alignment explanation
Indices: 18146778--18146825 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18146768 AGCATATATT
* *
18146778 TCTTTTTTCTTTTTTTCTCTTTTCC
1 TCTTCTTTCTTTCTTTCTCTTTTCC
*
18146803 TCTTCTTTCTTTCTTTCTTTTTT
1 TCTTCTTTCTTTCTTTCTCTTTT
18146826 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (25 bp):
TCTTCTTTCTTTCTTTCTCTTTTCC
Found at i:18147438 original size:18 final size:18
Alignment explanation
Indices: 18147411--18147452 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
18147401 TTGTACTAGT
18147411 AAAT-AAAATGCAATGAA
1 AAATAAAAATGCAATGAA
18147428 AAATAAAAATGCAATGAA
1 AAATAAAAATGCAATGAA
*
18147446 AACTAAA
1 AAATAAA
18147453 TGCTATGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (18 bp):
AAATAAAAATGCAATGAA
Found at i:18147579 original size:19 final size:20
Alignment explanation
Indices: 18147532--18147579 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
18147522 TTGGCTTTCT
* *
18147532 TCTTCTTCTTCTTTGGGCGC
1 TCTTTTTCTGCTTTGGGCGC
* *
18147552 TCCTTTTCTGCTTTGTGC-C
1 TCTTTTTCTGCTTTGGGCGC
18147571 TCTTTTTCT
1 TCTTTTTCT
18147580 TGTCTTTCCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (20 bp):
TCTTTTTCTGCTTTGGGCGC
Found at i:18158605 original size:153 final size:153
Alignment explanation
Indices: 18158327--18158634 Score: 571
Period size: 153 Copynumber: 2.0 Consensus size: 153
18158317 GAGAAGAAAT
* * * *
18158327 CAGAGTAGATCTAACATTAATAGGTACTTCCATACATAATTAAAGTCAATAGAATTTATCAACAT
1 CAGAGTAGATCTAACATTAATAGGTACTTCCATACACAATTAAAATCAACAAAATTTATCAACAT
18158392 TCAAGAGGAATTAAAGAAGAAATTGAAGCATTCTATTCCTAGCCTACTAGAATCCTTCCGTAATT
66 TCAAGAGGAATTAAAGAAGAAATTGAAGCATTCTATTCCTAGCCTACTAGAATCCTTCCGTAATT
18158457 GCTCCTTTTGCGTCGCACTTAGA
131 GCTCCTTTTGCGTCGCACTTAGA
18158480 CAGAGTAGATCTAACATTAATAGGTACTTCCATACACAATTAAAATCAACAAAATTTATCAACAT
1 CAGAGTAGATCTAACATTAATAGGTACTTCCATACACAATTAAAATCAACAAAATTTATCAACAT
18158545 TCAAGAGGAATTAAAGAAGAAATTGAAGCATTCTATTCCTAGCCTACTAGAATCCTTCCGTAATT
66 TCAAGAGGAATTAAAGAAGAAATTGAAGCATTCTATTCCTAGCCTACTAGAATCCTTCCGTAATT
*
18158610 GCTCCTTTTGTGTCGCACTTAGA
131 GCTCCTTTTGCGTCGCACTTAGA
18158633 CA
1 CA
18158635 CTTTTCATTA
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 150 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (153 bp):
CAGAGTAGATCTAACATTAATAGGTACTTCCATACACAATTAAAATCAACAAAATTTATCAACAT
TCAAGAGGAATTAAAGAAGAAATTGAAGCATTCTATTCCTAGCCTACTAGAATCCTTCCGTAATT
GCTCCTTTTGCGTCGCACTTAGA
Found at i:18161787 original size:3 final size:3
Alignment explanation
Indices: 18161779--18161816 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18161769 GAGAAAGTTG
18161779 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18161817 GATATTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18164097 original size:29 final size:30
Alignment explanation
Indices: 18164041--18164097 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
18164031 TTTGATTTTA
* *
18164041 GGGATTAATTTTGAATTTTAGTGGAAATAG
1 GGGATTAATTTTGAATTTTAATGAAAATAG
*
18164071 GGGATTAA-TTTGAATTTTAATTAAAAT
1 GGGATTAATTTTGAATTTTAATGAAAAT
18164098 TCAATGGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (30 bp):
GGGATTAATTTTGAATTTTAATGAAAATAG
Found at i:18176248 original size:23 final size:22
Alignment explanation
Indices: 18176212--18176255 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18176202 TAAATTTTTC
*
18176212 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
18176235 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
18176256 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:18188048 original size:23 final size:22
Alignment explanation
Indices: 18188017--18188060 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18188007 AAAGAAATAA
*
18188017 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
18188039 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
18188061 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:18190274 original size:10 final size:10
Alignment explanation
Indices: 18190259--18190306 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18190249 AGGTATATTA
*
18190259 ATACATTTAT
1 ATACATATAT
18190269 ATACATATAT
1 ATACATATAT
*
18190279 ATACCCGTATAT
1 ATA--CATATAT
*
18190291 ATATATATAT
1 ATACATATAT
18190301 ATACAT
1 ATACAT
18190307 GTTTATCTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 22 0.71
12 9 0.29
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:18191200 original size:29 final size:30
Alignment explanation
Indices: 18191150--18191482 Score: 221
Period size: 30 Copynumber: 11.2 Consensus size: 30
18191140 CCCTAAATTG
* * *
18191150 TCCAAAAATCTATATTTGAACCTCAAACTT
1 TCCAAAAATTTAGATTTGAACCCCAAACTT
* *
18191180 CCCAAAAATTTGGATTT-AACCCCTAAACTT
1 TCCAAAAATTTAGATTTGAACCCC-AAACTT
* *
18191210 T-CAAAAATTCAAATTT-AACCCCCAAACTT
1 TCCAAAAATTTAGATTTGAA-CCCCAAACTT
*
18191239 TCC-AAAATTTATG-TTCTGACCCCCAAA-TT
1 TCCAAAAATTTA-GATT-TGAACCCCAAACTT
*
18191268 TCCAAAAA-TTATGTTTTG-ACCCACAAACTT
1 TCCAAAAATTTA-GATTTGAACCC-CAAACTT
* * *
18191298 TCCAAAAATTAAGTTTTG-ATCCCAAACTT
1 TCCAAAAATTTAGATTTGAACCCCAAACTT
* *
18191327 TCCAAAAATTCAAATTTG-ACCCTCAAAC-T
1 TCCAAAAATTTAGATTTGAACCC-CAAACTT
*
18191356 TCCTAAAAATTTAGATTTG-ACCTCTAAACTT
1 TCC-AAAAATTTAGATTTGAACC-CCAAACTT
* **
18191387 ACCAAAAATTTAGATTTG-ACCCCTACTCTT
1 TCCAAAAATTTAGATTTGAACCCC-AAACTT
* * *
18191417 TCCAAAAATTCATATTTG-ACCCTTAAACTT
1 TCCAAAAATTTAGATTTGAACCC-CAAACTT
* * * *
18191447 T-CAAAAAATTATGTTTTG-GCACCAAACTT
1 TCCAAAAATTTA-GATTTGAACCCCAAACTT
18191476 TCCAAAA
1 TCCAAAA
18191483 TTTCATTTTG
Statistics
Matches: 245, Mismatches: 39, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.01
29 96 0.39
30 139 0.57
31 7 0.03
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (30 bp):
TCCAAAAATTTAGATTTGAACCCCAAACTT
Found at i:18191237 original size:59 final size:59
Alignment explanation
Indices: 18191163--18191453 Score: 261
Period size: 59 Copynumber: 4.9 Consensus size: 59
18191153 AAAAATCTAT
* * * * *
18191163 ATTTGAACCTCAAACTTCCCAAAAATTTGGATTTAACCCCTAAACTTTCAAAAATTCAA
1 ATTTGACCCCCAAACTTTCCAAAAATTTAGATTTGACCCCTAAACTTTCAAAAATTCAA
* * *
18191222 ATTTAACCCCCAAACTTTCC-AAAATTTATG-TTCTGACCCCCAAA-TTTCCAAAAATT-ATG
1 ATTTGACCCCCAAACTTTCCAAAAATTTA-GATT-TGACCCCTAAACTTT-CAAAAATTCA-A
* * * * *
18191281 TTTTGACCCACAAACTTTCCAAAAATTAAGTTTTGATCCC-AAACTTTCCAAAAATTCAA
1 ATTTGACCCCCAAACTTTCCAAAAATTTAGATTTGACCCCTAAACTTT-CAAAAATTCAA
* * * * *
18191340 ATTTGACCCTCAAAC-TTCCTAAAAATTTAGATTTGACCTCTAAACTTACCAAAAATTTAG
1 ATTTGACCCCCAAACTTTCC-AAAAATTTAGATTTGACCCCTAAACTT-TCAAAAATTCAA
* ** * * *
18191400 ATTTGACCCCTACTCTTTCCAAAAATTCATATTTGACCCTTAAACTTTCAAAAA
1 ATTTGACCCCCAAACTTTCCAAAAATTTAGATTTGACCCCTAAACTTTCAAAAA
18191454 ATTATGTTTT
Statistics
Matches: 188, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
58 20 0.11
59 105 0.56
60 59 0.31
61 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (59 bp):
ATTTGACCCCCAAACTTTCCAAAAATTTAGATTTGACCCCTAAACTTTCAAAAATTCAA
Found at i:18191488 original size:59 final size:57
Alignment explanation
Indices: 18191150--18191496 Score: 221
Period size: 59 Copynumber: 5.9 Consensus size: 57
18191140 CCCTAAATTG
* * * *
18191150 TCCAAAAATCTAT-ATTTGAACCTCAAACTTCCCAAAAATTTGGA-TTTAACCCCTAAACTT
1 TCCAAAAAT-TATGATTTG-ACCCCAAACTTTCC-AAAATTT--ATTTTGACCCTTAAACTT
* * **
18191210 T-CAAAAATTCA-AATTTAACCCCCAAACTTTCCAAAATTTATGTTCTGACCCCCAAA-TT
1 TCCAAAAATT-ATGATTTGA-CCCCAAACTTTCCAAAATTTAT-TT-TGACCCTTAAACTT
* *
18191268 TCCAAAAATTATGTTTTGACCCACAAACTTTCCAAAAATTAAGTTTTGATCCC--AAACTT
1 TCCAAAAATTATGATTTGACCC-CAAACTTTCC-AAAATTTA-TTTTGA-CCCTTAAACTT
* *
18191327 TCCAAAAATTCA-AATTTGACCCTCAAAC-TTCCTAAAAATTTAGATTTGA-CCTCTAAACTT
1 TCCAAAAATT-ATGATTTGACCC-CAAACTTTCC--AAAATTTA-TTTTGACCCT-TAAACTT
* ** *
18191387 ACCAAAAATT-TAGATTTGACCCCTACTCTTTCCAAAAATTCATATTTGACCCTTAAACTT
1 TCCAAAAATTAT-GATTTGACCCC-AAACTTTCC-AAAATTTAT-TTTGACCCTTAAACTT
* * * *
18191447 TCAAAAAATTATGTTTTGGCACCAAACTTTCCAAAATTTCATTTTGACCC
1 TCCAAAAATTATGATTTGACCCCAAACTTTCCAAAATTT-ATTTTGACCC
18191497 CATTTTCCTT
Statistics
Matches: 233, Mismatches: 28, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
56 1 0.00
57 2 0.01
58 39 0.17
59 106 0.45
60 76 0.33
61 9 0.04
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (57 bp):
TCCAAAAATTATGATTTGACCCCAAACTTTCCAAAATTTATTTTGACCCTTAAACTT
Found at i:18193758 original size:16 final size:17
Alignment explanation
Indices: 18193725--18193762 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
18193715 TATATAGAAT
*
18193725 TTTTTATTTTTTAAATAA
1 TTTTAATTTTTT-AATAA
18193743 TTTTAATTTTTT-ATAA
1 TTTTAATTTTTTAATAA
18193759 TTTT
1 TTTT
18193763 TATATAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTTTAATAA
Found at i:18198755 original size:24 final size:24
Alignment explanation
Indices: 18198687--18198745 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
18198677 TTAAACTCTG
18198687 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
18198711 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
*
18198735 TCTGGGCTCGT
1 TCTAGGCTCGT
18198746 GTTGGCTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (24 bp):
TCTAGGCTCGTAAGAGCTAATCAT
Found at i:18202319 original size:99 final size:99
Alignment explanation
Indices: 18202148--18202345 Score: 328
Period size: 99 Copynumber: 2.0 Consensus size: 99
18202138 ACAAGCAAAC
*
18202148 CTTGACCATTTTTAGTAATTTTTATGTTTTTGAGTCCGTGTTAGCCTGATCTAGCTAATCTAAGG
1 CTTGACCATTTTTAGTAATTTTTATGTTTTTGAGTCCGTGTTAGCCCGATCTAGCTAATCTAAGG
*
18202213 ACTAAATTGCGAATCTT-TCAAATGTTGTGAATTT
66 ACTAAATTGCGAAT-TTGTCAAATGTTATGAATTT
* *
18202247 CTTGATCATTTTTTGT-ATTTTTGATGTTTTTGAGTCCGTGTTAGCCCGATCTAGCTAATCTAAG
1 CTTGACCATTTTTAGTAATTTTT-ATGTTTTTGAGTCCGTGTTAGCCCGATCTAGCTAATCTAAG
18202311 GACTAAATTGCGAATTTGTCAAATGTTATGAATTT
65 GACTAAATTGCGAATTTGTCAAATGTTATGAATTT
18202346 TACCATTGTT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
98 8 0.09
99 85 0.91
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (99 bp):
CTTGACCATTTTTAGTAATTTTTATGTTTTTGAGTCCGTGTTAGCCCGATCTAGCTAATCTAAGG
ACTAAATTGCGAATTTGTCAAATGTTATGAATTT
Found at i:18203252 original size:24 final size:24
Alignment explanation
Indices: 18203185--18203243 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
18203175 TTAAACTCTA
*
18203185 TCTGGGCTCGTAATAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
18203209 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
*
18203233 TTTGGGCTCGT
1 TCTGGGCTCGT
18203244 GTTGGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAATCAT
Found at i:18207088 original size:67 final size:67
Alignment explanation
Indices: 18206980--18207149 Score: 263
Period size: 67 Copynumber: 2.5 Consensus size: 67
18206970 AGTTCATCTG
* * *
18206980 AATAATTGAAGTTGATACAATAATGAAAATTCAATACAAAAACAAAAACATAATGCAAATATATG
1 AATAATTTAAGTTGATACAAGAATGAAAATTCAATAAAAAAACAAAAACATAATGCAAATATATG
18207045 TA
66 TA
*
18207047 AATAATTTAAGTTGATACAAGAATG-ATATTCAATAAAAAAA-ATAGAAACATAATGCAAATATA
1 AATAATTTAAGTTGATACAAGAATGAAAATTCAATAAAAAAACA-A-AAACATAATGCAAATATA
18207110 TGTA
64 TGTA
*
18207114 AATAATTTAAGTTGATACAAGAATCAAAATTCAATA
1 AATAATTTAAGTTGATACAAGAATGAAAATTCAATA
18207150 CATAAATCAC
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 15 0.16
67 69 0.73
68 9 0.10
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (67 bp):
AATAATTTAAGTTGATACAAGAATGAAAATTCAATAAAAAAACAAAAACATAATGCAAATATATG
TA
Found at i:18210851 original size:3 final size:3
Alignment explanation
Indices: 18210840--18210879 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
18210830 TTATTTTTTT
18210840 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18210880 CAGATCAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18212591 original size:59 final size:59
Alignment explanation
Indices: 18212520--18212746 Score: 278
Period size: 59 Copynumber: 3.8 Consensus size: 59
18212510 ATGCTGAAGT
** * * * *
18212520 CGAGGTTAAAAAATAAAATTTTTGAGAGTTCGAGGGTAAAACGATAATTTTGGGTGAAAC
1 CGAGGTT-AAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAAC
* *
18212580 CGAGGTTAAAAATGGAATTTTAGAAAGTTC-AGGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGAGGTTAAAAATGGAATTTTAGAAAGTTCGA-GGGTAAAATGATAATTTTTGGTGAAAC
* * *
18212639 CGGGGTTAAAAATGGAATTTTGGAAAGTTCGA-GGTAAAATGATAGTTTTTGGTGAAAC
1 CGAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAAC
* * * * *
18212697 CGGGGTTAAAAATGGAATTTTAGAAGGCTCGGGGGTAAAATGGTAATTTT
1 CGAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTTT
18212747 CAGAAGTTTC
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
58 52 0.36
59 85 0.59
60 8 0.06
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.30
Consensus pattern (59 bp):
CGAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAAC
Found at i:18212643 original size:29 final size:30
Alignment explanation
Indices: 18212565--18212717 Score: 103
Period size: 29 Copynumber: 5.2 Consensus size: 30
18212555 GTAAAACGAT
* * *
18212565 AATTTTGGGTGAAACCGAGGTTAAAAATGG
1 AATTTTTGGTGAAATCGGGGTTAAAAATGG
*
18212595 AA-TTTT--AGAAAGTTCAGGGG-T-AAAATGG
1 AATTTTTGGTGAAA--TC-GGGGTTAAAAATGG
18212623 TAATTTTTGGTGAAATCGGGGTTAAAAATGG
1 -AATTTTTGGTGAAATCGGGGTTAAAAATGG
*
18212654 AA-TTTT-G-GAAAGTTCGAGG-T-AAAAT-G
1 AATTTTTGGTGAAA--TCGGGGTTAAAAATGG
*
18212680 ATAGTTTTTGGTGAAACCGGGGTTAAAAATGG
1 A-A-TTTTTGGTGAAATCGGGGTTAAAAATGG
18212712 AATTTT
1 AATTTT
18212718 AGAAGGCTCG
Statistics
Matches: 96, Mismatches: 8, Indels: 38
0.68 0.06 0.27
Matches are distributed among these distances:
26 2 0.02
27 14 0.15
28 9 0.09
29 28 0.29
30 20 0.21
31 17 0.18
32 6 0.06
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (30 bp):
AATTTTTGGTGAAATCGGGGTTAAAAATGG
Found at i:18212716 original size:117 final size:119
Alignment explanation
Indices: 18212493--18212746 Score: 343
Period size: 117 Copynumber: 2.2 Consensus size: 119
18212483 TGGACACCCG
* * * * *
18212493 GGGGAAAAATGGTAA-TTATGCTGAAGTCGAGGTTAAAAAATAAAATTTTTGAGAGTTCGAGGGT
1 GGGGTAAAATGGTAATTTTTGCTGAAATCGAGGTTAAAAAATAAAATTTTGGAAAGTTCGAGGGT
*
18212557 AAAACGATAATTTTGGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAAGTTCA
66 AAAACGATAATTTTGGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAAGCTCA
* * **
18212611 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTCGA-GGT
1 GGGGTAAAATGGTAATTTTTGCTGAAATCGAGGTTAAAAAATAAAATTTTGGAAAGTTCGAGGGT
* * * * * *
18212674 AAAATGATAGTTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAGGCTCG
66 AAAACGATAATTTTGGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAAGCTCA
18212728 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
18212747 CAGAAGTTTC
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
117 69 0.58
118 35 0.29
119 15 0.13
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (119 bp):
GGGGTAAAATGGTAATTTTTGCTGAAATCGAGGTTAAAAAATAAAATTTTGGAAAGTTCGAGGGT
AAAACGATAATTTTGGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAAGCTCA
Found at i:18213435 original size:16 final size:16
Alignment explanation
Indices: 18213414--18213444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18213404 GCTTTAACCC
18213414 CCTCCGACAGACCCAA
1 CCTCCGACAGACCCAA
*
18213430 CCTCCGTCAGACCCA
1 CCTCCGACAGACCCA
18213445 CACGCGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.52, G:0.13, T:0.10
Consensus pattern (16 bp):
CCTCCGACAGACCCAA
Found at i:18213494 original size:12 final size:12
Alignment explanation
Indices: 18213477--18213522 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
18213467 CAATGTAGTA
18213477 TTTCTTCTCTTT
1 TTTCTTCTCTTT
18213489 TTTCTTC-CTTT
1 TTTCTTCTCTTT
*
18213500 TTGTTTTCT-TTT
1 TT-TCTTCTCTTT
18213512 TTTCTT-TCTTT
1 TTTCTTCTCTTT
18213523 ATTGTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 1 0.03
11 12 0.41
12 16 0.55
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTCTTCTCTTT
Found at i:18213516 original size:23 final size:25
Alignment explanation
Indices: 18213481--18213528 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
18213471 GTAGTATTTC
18213481 TTCTCTTTTTTCTTCCTTT-TTGTT
1 TTCTCTTTTTTCTTCCTTTATTGTT
*
18213505 TTCT-TTTTTTCTTTCTTTATTGTT
1 TTCTCTTTTTTCTTCCTTTATTGTT
18213529 AAAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (25 bp):
TTCTCTTTTTTCTTCCTTTATTGTT
Found at i:18213786 original size:3 final size:3
Alignment explanation
Indices: 18213780--18213820 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
18213770 TTATCTTCTT
* *
18213780 TTA TTA TTA TTA TTA TTA ATA TTTA TTA TTA TTA ATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
18213821 ATTTAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18213795 original size:22 final size:22
Alignment explanation
Indices: 18213779--18213825 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
18213769 TTTATCTTCT
18213779 TTTATTATTATTATTATTAATA
1 TTTATTATTATTATTATTAATA
*
18213801 TTTATTATTATTAATATT-ATA
1 TTTATTATTATTATTATTAATA
18213822 TTTA
1 TTTA
18213826 GTATAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATTATTATTATTATTAATA
Found at i:18213805 original size:16 final size:16
Alignment explanation
Indices: 18213786--18213823 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
18213776 TCTTTTATTA
18213786 TTATTATTATTAATAT
1 TTATTATTATTAATAT
18213802 TTATTATTATTAATAT
1 TTATTATTATTAATAT
18213818 TATATT
1 T-TATT
18213824 TAGTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTATTATTAATAT
Found at i:18213860 original size:19 final size:19
Alignment explanation
Indices: 18213781--18213881 Score: 61
Period size: 19 Copynumber: 5.4 Consensus size: 19
18213771 TATCTTCTTT
18213781 TATTATT-ATTATTATTAA
1 TATTATTAATTATTATTAA
18213799 TA-T-TT-ATTATTATTAA
1 TATTATTAATTATTATTAA
* *
18213815 TATTA-TATTTAGTA-TAA
1 TATTATTAATTATTATTAA
*
18213832 AACCCTTTATTAATTATTATTAA
1 TA----TTATTAATTATTATTAA
* * **
18213855 TATTATTTATTACTGCTAA
1 TATTATTAATTATTATTAA
18213874 TATTATTA
1 TATTATTA
18213882 GTGTCATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
16 15 0.24
17 7 0.11
18 7 0.11
19 20 0.32
21 3 0.05
22 7 0.11
23 4 0.06
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTATTAATTATTATTAA
Found at i:18213864 original size:16 final size:18
Alignment explanation
Indices: 18213839--18213880 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
18213829 TAAAACCCTT
*
18213839 TATTAATTATTA-T-TAA
1 TATTATTTATTACTCTAA
18213855 TATTATTTATTACTGCTAA
1 TATTATTTATTACT-CTAA
18213874 TATTATT
1 TATTATT
18213881 AGTGTCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
19 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTTATTACTCTAA
Found at i:18214565 original size:13 final size:13
Alignment explanation
Indices: 18214543--18214603 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
18214533 ACTTTTATTT
18214543 TATTAATTTTAAA
1 TATTAATTTTAAA
*
18214556 TATTATTTTTAAA
1 TATTAATTTTAAA
18214569 T-TTAA--TTAAA
1 TATTAATTTTAAA
*
18214579 T-TTAAATTTAAA
1 TATTAATTTTAAA
*
18214591 -A-TAAATTTAAA
1 TATTAATTTTAAA
18214602 TA
1 TA
18214604 AATGAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
10 10 0.24
11 10 0.24
12 9 0.21
13 13 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAATTTTAAA
Found at i:18214572 original size:6 final size:6
Alignment explanation
Indices: 18214563--18214665 Score: 69
Period size: 6 Copynumber: 18.0 Consensus size: 6
18214553 AAATATTATT
* * *
18214563 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAATGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* *
18214610 TTT-AA TTTAAGA --TAAA TTTAAA TTTAAA -TAAAA TTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
18214654 TTTAAA CTTAAA
1 TTTAAA TTTAAA
18214666 AATCAAAATC
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
4 3 0.04
5 24 0.32
6 44 0.58
7 1 0.01
8 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:18214576 original size:16 final size:16
Alignment explanation
Indices: 18214563--18214665 Score: 86
Period size: 17 Copynumber: 6.4 Consensus size: 16
18214553 AAATATTATT
18214563 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
18214579 TTTAAATTTAAAATAAA
1 TTTAAATTT-AATTAAA
* *
18214596 TTTAAA--TAAATGAA
1 TTTAAATTTAATTAAA
*
18214610 TTT-AATTTAAGATAAA
1 TTTAAATTTAA-TTAAA
*
18214626 TTTAAATTTAAATAAAA
1 TTTAAATTT-AATTAAA
*
18214643 TTTAAAATTAATTTAAA
1 TTTAAATTTAA-TTAAA
*
18214660 CTTAAA
1 TTTAAA
18214666 AATCAAAATC
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.03
14 9 0.12
15 4 0.06
16 18 0.25
17 37 0.51
18 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:18214597 original size:17 final size:16
Alignment explanation
Indices: 18214563--18214653 Score: 107
Period size: 17 Copynumber: 5.7 Consensus size: 16
18214553 AAATATTATT
*
18214563 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
18214579 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
*
18214596 TTTAAA--TAAATGAA
1 TTTAAATTTAAATAAA
18214610 TTT-AATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
18214626 TTTAAATTTAAATAAAA
1 TTTAAATTTAAAT-AAA
*
18214643 TTTAAAATTAA
1 TTTAAATTTAA
18214654 TTTAAACTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
13 2 0.03
14 9 0.14
15 4 0.06
16 18 0.28
17 32 0.49
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:18214602 original size:10 final size:10
Alignment explanation
Indices: 18214565--18214632 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
18214555 ATATTATTTT
*
18214565 TAAATTTAAT
1 TAAATTTAAA
18214575 TAAATTTAAA
1 TAAATTTAAA
*
18214585 T---TTAAAA
1 TAAATTTAAA
18214592 TAAATTTAAA
1 TAAATTTAAA
* *
18214602 TAAA-TGAAT
1 TAAATTTAAA
*
18214611 TTAATTTAAGA
1 TAAATTTAA-A
18214622 TAAATTTAAA
1 TAAATTTAAA
18214632 T
1 T
18214633 TTAAATAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
7 6 0.14
9 6 0.14
10 24 0.55
11 8 0.18
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:18214617 original size:36 final size:36
Alignment explanation
Indices: 18214572--18214641 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
18214562 TTTTAAATTT
18214572 AATTAAATTTAA-ATTTAAA-ATAAATTTAAATAAATG
1 AATTAAATTTAAGA--TAAATATAAATTTAAATAAATG
* *
18214608 AATTTAATTTAAGATAAATTTAAATTTAAATAAA
1 AATTAAATTTAAGATAAATATAAATTTAAATAAA
18214642 ATTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 4 0.13
36 25 0.83
37 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (36 bp):
AATTAAATTTAAGATAAATATAAATTTAAATAAATG
Found at i:18215055 original size:38 final size:38
Alignment explanation
Indices: 18215013--18215215 Score: 145
Period size: 38 Copynumber: 5.3 Consensus size: 38
18215003 ACGTTGGTCT
18215013 TACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
1 TACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
* ** *
18215051 TACTTCAATTTCAAGAGGAT-AGGAAATGACCTTG--C-TCT-
1 TACTTCAATTTC-AGA-GATGACGACTTG---TTGTCCAACTC
* * *
18215089 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
* ** * **
18215127 TACTTCAATTTCA-AG-TGGGTAGGAAATGATGT--TGCTC
1 TACTTCAATTTCAGAGAT--G-ACGACTTGTTGTCCAACTC
18215164 TTACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
1 -TACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
18215203 TACTTCAATTTCA
1 TACTTCAATTTCA
18215216 AGAGGATAGG
Statistics
Matches: 124, Mismatches: 23, Indels: 36
0.68 0.13 0.20
Matches are distributed among these distances:
34 2 0.02
36 5 0.04
37 23 0.19
38 64 0.52
39 22 0.18
40 5 0.04
42 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (38 bp):
TACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTC
Found at i:18215074 original size:76 final size:76
Alignment explanation
Indices: 18214931--18215601 Score: 932
Period size: 76 Copynumber: 8.9 Consensus size: 76
18214921 AGGTTTCATC
* * *
18214931 TTGCTCTTA-TTCGATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGTGGGT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
18214995 AGGAAATGACG
66 AGGAAATGACG
* * * *
18215006 TTGGTCTTACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
18215071 AGGAAATGACC
66 AGGAAATGACG
* *
18215082 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGTGGGT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
18215147 AGGAAATGATG
66 AGGAAATGACG
* * *
18215158 TTGCTCTTACTTCAATTTCAGAGATGACGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
18215223 AGGAAAAGATC-
66 AGGAAATGA-CG
* * * *
18215234 TTGCTCTTACTTCATTTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
18215299 AGGGAATGATC-
66 AGGAAATGA-CG
* * * *
18215310 TTGCTCTTACTTCAATTTCAGAGATAAAAACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
18215375 AGGAAATGACG
66 AGGAAATGACG
* * * *
18215386 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCTAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
18215451 AGGAAATGATC-
66 AGGAAATGA-CG
* *
18215462 TTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTC-A-A-G--
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
18215522 CGG--ATGACG
66 AGGAAATGACG
* * *
18215531 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTCAAGTGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
18215596 AGGAAA
66 AGGAAA
18215602 AGATCTTGGT
Statistics
Matches: 532, Mismatches: 52, Indels: 23
0.88 0.09 0.04
Matches are distributed among these distances:
68 1 0.00
69 57 0.11
70 1 0.00
71 2 0.00
72 1 0.00
73 1 0.00
74 3 0.01
75 10 0.02
76 455 0.86
77 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGACG
Found at i:18227891 original size:31 final size:29
Alignment explanation
Indices: 18227855--18228013 Score: 84
Period size: 31 Copynumber: 5.4 Consensus size: 29
18227845 GTTCGGGGGT
18227855 AAAATGGTAACTTTCGGTGAAATTGAGGTTA
1 AAAATGGTAA-TTT-GGTGAAATTGAGGTTA
* * * *
18227886 AAAATGG-AATTTTG-GAAGTTCGGGGGT-
1 AAAATGGTAATTTGGTGAAATT-GAGGTTA
**
18227913 AAAATGGTAATTTTTGGTGAAACCGAGGTTA
1 AAAATGGTAA--TTTGGTGAAATTGAGGTTA
*
18227944 AAAATGGT-ATTT--TAGAAAGTTCG-GGGT-
1 AAAATGGTAATTTGGT-GAAA-TT-GAGGTTA
* *
18227971 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
1 AAAATGGTAA-TTT-GGTGAAATTGAGGTTA
18228002 AAAATGG-AATTT
1 AAAATGGTAATTT
18228014 TGGAAAGTTC
Statistics
Matches: 97, Mismatches: 15, Indels: 34
0.66 0.10 0.23
Matches are distributed among these distances:
26 1 0.01
27 24 0.25
28 14 0.14
29 11 0.11
30 17 0.18
31 29 0.30
32 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTGGTGAAATTGAGGTTA
Found at i:18227906 original size:117 final size:117
Alignment explanation
Indices: 18227738--18228163 Score: 588
Period size: 117 Copynumber: 3.6 Consensus size: 117
18227728 ACCCGAGGGC
* * * ** * *
18227738 AAAATGGTAATTAT-GATGAAGTCGAGGTTAAAAATAAAATTTTTGAGAGTTCGGGGGTAAAACG
1 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTGGA-AGTTCGGGGGTAAAATG
*
18227802 GTAATTTTGGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
65 GTAATTTTTGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
* * *
18227855 AAAATGGTAACTTTCGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTAAAATGG
1 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTAAAATGG
*
18227920 TAATTTTTGGTGAAACCGAGGTTAAAAATGGTATTTTAGAAAGTTC-GGGGT
66 TAATTTTTGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
*
18227971 AAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATG
1 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTCGGGGGTAAAATG
* * * * *
18228036 ATAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTCGAGGGT
65 GTAATTTTTGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
* * * * * *
18228088 AAAATGGTAGTTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATG
1 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTGGAA-GTTCGGGGGTAAAATG
18228153 GTAATTTTTGG
65 GTAATTTTTGG
18228164 AAGTTTCGGG
Statistics
Matches: 278, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
116 69 0.25
117 183 0.66
118 26 0.09
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (117 bp):
AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTAAAATGG
TAATTTTTGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
Found at i:18228143 original size:29 final size:31
Alignment explanation
Indices: 18228111--18228177 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
18228101 TTGGTGAAAC
18228111 CGGGGTCAAAAATGG-AA-TTTTAGAAGGTT
1 CGGGGTCAAAAATGGTAATTTTTAGAAGGTT
* *
18228140 CGGGGGT--AAAATGGTAATTTTTGGAAGTTT
1 C-GGGGTCAAAAATGGTAATTTTTAGAAGGTT
18228170 CGGGGTCA
1 CGGGGTCA
18228178 GAATGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
28 7 0.23
29 8 0.26
30 16 0.52
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.30
Consensus pattern (31 bp):
CGGGGTCAAAAATGGTAATTTTTAGAAGGTT
Found at i:18228177 original size:59 final size:59
Alignment explanation
Indices: 18227738--18228163 Score: 563
Period size: 58 Copynumber: 7.3 Consensus size: 59
18227728 ACCCGAGGGC
* * * * ** * *
18227738 AAAATGGTAA-TTATGATGAAGTCGAGGTTAAAAATAAAATTTTTGAGAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* * * *
18227796 AAAACGGTAATTTTGGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* * * * *
18227855 AAAATGGTAACTTTCGGTGAAATTGAGGTTAAAAATGGAATTTT-GGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* * *
18227913 AAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGTATTTTAGAAAGTTC-GGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* *
18227971 AAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* * *
18228030 AAAATGATAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
* * * *
18228088 AAAATGGTAGTTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
18228147 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
18228164 AAGTTTCGGG
Statistics
Matches: 322, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
58 167 0.52
59 155 0.48
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
Found at i:18228204 original size:117 final size:115
Alignment explanation
Indices: 18227733--18228211 Score: 482
Period size: 117 Copynumber: 4.1 Consensus size: 115
18227723 TGAACACCCG
* * * * * ** *
18227733 AGGGCAAAATGGTAATTAT-GATGAAGTCGAGGTTAAAAATAAAATTTTTGAGAGTTCGGGGGTA
1 AGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGA-AGTTCGGGGGTA
* * * *
18227797 AAACGGTAATTTTGGGTGAAACCGGGGTTAAAAATGGT-ATTTTAGAAAGTTC
65 AAATGGTAATTTTTGGTGAAATCGGGG-TAAAAAT-GTAATTTTAGAAATTTC
* * * * *
18227849 GGGGGTAAAATGGTAACTTTCGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTA
1 -AGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTA
* * *
18227914 AAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGT-ATTTTAGAAAGTTC
65 AAATGGTAATTTTTGGTGAAATCG-GGGTAAAAAT-GTAATTTTAGAAATTTC
*
18227966 GGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
1 AGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTCGGGGGTA
* * * * *
18228031 AAATGATAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTC
65 AAATGGTAATTTTTGGTGAAATCGGGGTAAAAATGTAATTTTAGAAATTTC
* * * * *
18228082 GAGGGTAAAATGGTAGTTTTTGGTGAAACCGGGGTCAAAAATGGAATTTTAGAAGGTTCGGGGGT
1 -AGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAA-GTTCGGGGGT
* * * * *
18228147 AAAATGGTAATTTTT-G-GAAGTTTCGGGGTCAGAATGTAATTTCTTGAAATTTT
64 AAAATGGTAATTTTTGGTGAA--ATCGGGGTAAAAATGTAATTT-TAGAAATTTC
18228200 AGGGTCAAAATG
1 AGGGT-AAAATG
18228212 CAATTTCTGG
Statistics
Matches: 315, Mismatches: 37, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
115 4 0.01
116 71 0.23
117 199 0.63
118 41 0.13
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.31
Consensus pattern (115 bp):
AGGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTCGGGGGTAA
AATGGTAATTTTTGGTGAAATCGGGGTAAAAATGTAATTTTAGAAATTTC
Found at i:18228858 original size:16 final size:16
Alignment explanation
Indices: 18228837--18228867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18228827 GCTTTAACCC
18228837 CCTCCGGCAGACCCAA
1 CCTCCGGCAGACCCAA
*
18228853 CCTCCGTCAGACCCA
1 CCTCCGGCAGACCCA
18228868 CACGCGTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.52, G:0.16, T:0.10
Consensus pattern (16 bp):
CCTCCGGCAGACCCAA
Found at i:18229219 original size:13 final size:13
Alignment explanation
Indices: 18229203--18229228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18229193 ATCTTCTTTT
18229203 TTTATTATTATTA
1 TTTATTATTATTA
18229216 TTTATTATTATTA
1 TTTATTATTATTA
18229229 ATATTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:18229223 original size:16 final size:17
Alignment explanation
Indices: 18229204--18229238 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18229194 TCTTCTTTTT
*
18229204 TTATTATTATTATT-TA
1 TTATTATTAATATTATA
18229220 TTATTATTAATATTATA
1 TTATTATTAATATTATA
18229237 TT
1 TT
18229239 TAGTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATTAATATTATA
Found at i:18229275 original size:19 final size:19
Alignment explanation
Indices: 18229204--18229296 Score: 55
Period size: 19 Copynumber: 4.8 Consensus size: 19
18229194 TCTTCTTTTT
* *
18229204 TTATTATTATTATTTATTA
1 TTATTAATATTATTAATTA
*
18229223 TTATTAATATTA-TATTTA
1 TTATTAATATTATTAATTA
* *
18229241 GTA-TAAAACCCTTTATTAATTA
1 TTATTAATA----TTATTAATTA
*
18229263 TTATTAATATTATTTATTA
1 TTATTAATATTATTAATTA
* **
18229282 CTGCTAATATTATTA
1 TTATTAATATTATTA
18229297 GTGTCATTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
17 4 0.07
18 6 0.11
19 31 0.56
21 3 0.05
22 7 0.13
23 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (19 bp):
TTATTAATATTATTAATTA
Found at i:18229279 original size:16 final size:18
Alignment explanation
Indices: 18229254--18229295 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
18229244 TAAAACCCTT
*
18229254 TATTAATTATTA-T-TAA
1 TATTATTTATTACTCTAA
18229270 TATTATTTATTACTGCTAA
1 TATTATTTATTACT-CTAA
18229289 TATTATT
1 TATTATT
18229296 AGTGTCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
19 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTTATTACTCTAA
Found at i:18229980 original size:13 final size:13
Alignment explanation
Indices: 18229958--18230018 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
18229948 ACTTTTATTT
18229958 TATTAATTTTAAA
1 TATTAATTTTAAA
*
18229971 TATTATTTTTAAA
1 TATTAATTTTAAA
18229984 T-TTAA--TTAAA
1 TATTAATTTTAAA
*
18229994 T-TTAAATTTAAA
1 TATTAATTTTAAA
*
18230006 -A-TAAATTTAAA
1 TATTAATTTTAAA
18230017 TA
1 TA
18230019 AATGAAGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
10 10 0.24
11 10 0.24
12 9 0.21
13 13 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAATTTTAAA
Found at i:18229987 original size:6 final size:6
Alignment explanation
Indices: 18229978--18230081 Score: 62
Period size: 6 Copynumber: 18.0 Consensus size: 6
18229968 AAATATTATT
* * *
18229978 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAATGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* *
18230025 GTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
*
18230070 TTTAAA CTTAAA
1 TTTAAA TTTAAA
18230082 AATCAAAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
4 7 0.09
5 15 0.20
6 45 0.60
7 5 0.07
8 3 0.04
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:18229991 original size:16 final size:16
Alignment explanation
Indices: 18229978--18230081 Score: 86
Period size: 17 Copynumber: 6.4 Consensus size: 16
18229968 AAATATTATT
18229978 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
18229994 TTTAAATTTAAAATAAA
1 TTTAAATTT-AATTAAA
* *
18230011 TTTAAA--TAAATGAA
1 TTTAAATTTAATTAAA
* *
18230025 GTTAAATTTAAGATAAA
1 TTTAAATTTAA-TTAAA
*
18230042 TTTAAATTTAAATAAA
1 TTTAAATTTAATTAAA
*
18230058 TTTTAAAATTAATTTAAA
1 -TTTAAATTTAA-TTAAA
*
18230076 CTTAAA
1 TTTAAA
18230082 AATCAAAATC
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
16 17 0.23
17 41 0.55
18 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:18230010 original size:11 final size:11
Alignment explanation
Indices: 18229996--18230047 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
18229986 TAATTAAATT
18229996 TAAATTTAAAA
1 TAAATTTAAAA
18230007 TAAATTT-AAA
1 TAAATTTAAAA
* **
18230017 TAAA-TGAAGT
1 TAAATTTAAAA
*
18230027 TAAATTTAAGA
1 TAAATTTAAAA
18230038 TAAATTTAAA
1 TAAATTTAAA
18230048 TTTAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 1 0.03
10 12 0.36
11 20 0.61
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:18230064 original size:11 final size:10
Alignment explanation
Indices: 18229980--18230048 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
18229970 ATATTATTTT
*
18229980 TAAATTTAAT
1 TAAATTTAAA
18229990 TAAATTTAAA
1 TAAATTTAAA
*
18230000 T---TTAAAA
1 TAAATTTAAA
18230007 TAAATTTAAA
1 TAAATTTAAA
* *
18230017 TAAA-TGAAGT
1 TAAATTTAA-A
18230027 TAAATTTAAGA
1 TAAATTTAA-A
18230038 TAAATTTAAA
1 TAAATTTAAA
18230048 T
1 T
18230049 TTAAATAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
7 6 0.13
9 3 0.06
10 25 0.53
11 13 0.28
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:18230069 original size:17 final size:16
Alignment explanation
Indices: 18229978--18230060 Score: 107
Period size: 17 Copynumber: 5.2 Consensus size: 16
18229968 AAATATTATT
*
18229978 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
18229994 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
*
18230011 TTTAAA--TAAATGAA
1 TTTAAATTTAAATAAA
*
18230025 GTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
18230042 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
18230058 TTT
1 TTT
18230061 TAAAATTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
14 11 0.19
15 1 0.02
16 20 0.34
17 26 0.45
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:18230485 original size:19 final size:19
Alignment explanation
Indices: 18230461--18230501 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18230451 TTTCCAAGTG
*
18230461 CATAACTAATATTACACCA
1 CATAACTAATACTACACCA
* *
18230480 CATAACTAGTACTACGCCA
1 CATAACTAATACTACACCA
18230499 CAT
1 CAT
18230502 TAAAGCATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.24
Consensus pattern (19 bp):
CATAACTAATACTACACCA
Found at i:18232692 original size:8 final size:8
Alignment explanation
Indices: 18232679--18232714 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
18232669 ATTTTGAAGT
18232679 AGAAGAGA
1 AGAAGAGA
18232687 AGAAGAGA
1 AGAAGAGA
*
18232695 AG-AGAAA
1 AGAAGAGA
18232702 AGAAGAGA
1 AGAAGAGA
18232710 AGAAG
1 AGAAG
18232715 GAAAGGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (8 bp):
AGAAGAGA
Found at i:18232706 original size:15 final size:13
Alignment explanation
Indices: 18232674--18232714 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 13
18232664 TCAAAATTTT
18232674 GAAGTAGAAGAGAA
1 GAAG-AGAAGAGAA
18232688 GAAGAGAAGAG-A
1 GAAGAGAAGAGAA
18232700 -AA-AGAAGAGAA
1 GAAGAGAAGAGAA
18232711 GAAG
1 GAAG
18232715 GAAAGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 3 0.12
13 7 0.29
14 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (13 bp):
GAAGAGAAGAGAA
Found at i:18239762 original size:20 final size:22
Alignment explanation
Indices: 18239720--18239763 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18239710 TGCTCTATTC
*
18239720 TTTCTCTTTTTATTTTTCATTT
1 TTTCTCCTTTTATTTTTCATTT
18239742 TTTCTCCTTTT-TTTTTC-TTT
1 TTTCTCCTTTTATTTTTCATTT
18239762 TT
1 TT
18239764 CTTTTTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTCTCCTTTTATTTTTCATTT
Found at i:18244699 original size:47 final size:47
Alignment explanation
Indices: 18244633--18244729 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
18244623 TTAATGATTA
*
18244633 ATTCATTCATTATCTTACAATTGTAATGCAAGTATAACGTAAACATG
1 ATTCATTCATTATCTTACAATTGTAATGCAAGTATAACATAAACATG
*
18244680 ATTCATTCGTTATCTTACAATTGTAATGCAAGTATAACATAAACATG
1 ATTCATTCATTATCTTACAATTGTAATGCAAGTATAACATAAACATG
18244727 ATT
1 ATT
18244730 TTATTTAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (47 bp):
ATTCATTCATTATCTTACAATTGTAATGCAAGTATAACATAAACATG
Found at i:18247170 original size:192 final size:191
Alignment explanation
Indices: 18246919--18247266 Score: 493
Period size: 192 Copynumber: 1.8 Consensus size: 191
18246909 ACACCAAGAA
* *
18246919 TGGTGGTGCCATTTAAAATGGATCCACCAAAAATAAAATATACATTAAAAATTTTATAAAACAAA
1 TGGTGGCGCCATTTAAAATGGATCCACCAAAAATAAAATATACATTAAAAATATTATAAAACAAA
* * * * *
18246984 TAATAAAAATACAAAT-ATAGTAAAAAGTGAATTGGTGGCGCCAATTT-GAATGACTCCACCAAA
66 TAATAAAAAAACAAATAATAGTAAAAAGTAAACTAGTGGCGCC-ATTTAGAAGGACTCCACCAAA
*
18247047 AAGAAAAAAATAAATTTTAAAAAAACAAAAAAAAAGTACATAAATTAAAGCATATATTGGGAAC
130 AA-AAAAAAATAAA-ATTAAAAAAACAAAAAAAAAGTACATAAATTAAAGCATATATTGGGAAC
* * * * * *
18247111 TGGTGGCGCCATTTAGAATGGTTCTACCAAAACTAAAATATACATTCAAAATATTATAAAATAAA
1 TGGTGGCGCCATTTAAAATGGATCCACCAAAAATAAAATATACATTAAAAATATTATAAAACAAA
* *
18247176 TAATAAAAAAACAAATAATAGTAAAAAGTAAACTAGTGGCTCCATTTAGAAGGGCTCCACCAAAA
66 TAATAAAAAAACAAATAATAGTAAAAAGTAAACTAGTGGCGCCATTTAGAAGGACTCCACCAAAA
**
18247241 AAAAAATTTAAAATTAAAAAAACAAA
131 AAAAAAAATAAAATTAAAAAAACAAA
18247267 TAATAAACAA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
191 13 0.10
192 85 0.62
193 38 0.28
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.24
Consensus pattern (191 bp):
TGGTGGCGCCATTTAAAATGGATCCACCAAAAATAAAATATACATTAAAAATATTATAAAACAAA
TAATAAAAAAACAAATAATAGTAAAAAGTAAACTAGTGGCGCCATTTAGAAGGACTCCACCAAAA
AAAAAAAATAAAATTAAAAAAACAAAAAAAAAGTACATAAATTAAAGCATATATTGGGAAC
Found at i:18250840 original size:18 final size:18
Alignment explanation
Indices: 18250817--18250852 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18250807 GACTTATACC
18250817 GAAAT-AATATAAAATAAT
1 GAAATAAATA-AAAATAAT
18250835 GAAATAAATAAAAATAAT
1 GAAATAAATAAAAATAAT
18250853 ATGAGCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
GAAATAAATAAAAATAAT
Found at i:18251167 original size:20 final size:20
Alignment explanation
Indices: 18251142--18251187 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
18251132 TGAAGGGGTG
*
18251142 ATAACCACATTTTCCACCGT
1 ATAACCACATCTTCCACCGT
18251162 ATAACCACATCTTCCACCGT
1 ATAACCACATCTTCCACCGT
*
18251182 ACAACC
1 ATAACC
18251188 CAACCCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.39, G:0.04, T:0.24
Consensus pattern (20 bp):
ATAACCACATCTTCCACCGT
Found at i:18259984 original size:103 final size:103
Alignment explanation
Indices: 18259851--18260070 Score: 334
Period size: 103 Copynumber: 2.1 Consensus size: 103
18259841 ACAGCTTGTG
18259851 TGAGCAACATCATGAGTTGAGAAAGAGATATGAATCCTAAAATGGATTATAGGACCTGCGATAGC
1 TGAGCAACATCATGAGTTGAGAAAGAGATATGAATCCTAAAATGGATTATAGGACCTGCGATAGC
*
18259916 TGGGATTTATGCATAAGTGTATATTCTCGACAGCTCTA
66 TAGGATTTATGCATAAGTGTATATTCTCGACAGCTCTA
* * * * *
18259954 TGAGCAGCATCGTGAGTT-AGGAAAGAGATATGAATCCTAAAATGGATTATAGGCCCTGTGATGG
1 TGAGCAACATCATGAGTTGA-GAAAGAGATATGAATCCTAAAATGGATTATAGGACCTGCGATAG
* *
18260018 CTAGGATTTATGCATAAGTGTATATTCTCGACGGCTCATG
65 CTAGGATTTATGCATAAGTGTATATTCTCGACAGCTC-TA
*
18260058 TGAACAACATCAT
1 TGAGCAACATCAT
18260071 TAGGGGACAT
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
102 1 0.01
103 92 0.88
104 11 0.11
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (103 bp):
TGAGCAACATCATGAGTTGAGAAAGAGATATGAATCCTAAAATGGATTATAGGACCTGCGATAGC
TAGGATTTATGCATAAGTGTATATTCTCGACAGCTCTA
Found at i:18261669 original size:40 final size:41
Alignment explanation
Indices: 18261625--18261712 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 41
18261615 TCTCAAAAAA
*
18261625 GTCAATGGA-AAAGTCAACGA-TCAATAAACAACGATCAATG
1 GTCAATGGATAAAGTCAAC-ATTCAATAAACAACGACCAATG
* **
18261665 GTCAAT-GATCAAGTCAACATTCAATAGTCAACGACCAATG
1 GTCAATGGATAAAGTCAACATTCAATAAACAACGACCAATG
*
18261705 GCCAATGG
1 GTCAATGG
18261713 CCAACGGTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.08
40 36 0.90
41 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (41 bp):
GTCAATGGATAAAGTCAACATTCAATAAACAACGACCAATG
Found at i:18265152 original size:6 final size:6
Alignment explanation
Indices: 18265130--18265165 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
18265120 TCACATGTAT
* *
18265130 ATCTCA ATTTTA ATCTCA ATCTCA ATCTCA ATCTCA
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA
18265166 TGATATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (6 bp):
ATCTCA
Found at i:18266748 original size:4 final size:4
Alignment explanation
Indices: 18266734--18266778 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
18266724 CAAATTGAAG
18266734 AGAA AGAAA AGAA AGGAA AG-A AGAA AG-A AGAA AG-A AGAA AGAA AG
1 AGAA AG-AA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
18266779 GGGAAAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 9 0.25
4 19 0.53
5 8 0.22
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:18266761 original size:7 final size:7
Alignment explanation
Indices: 18266749--18266776 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18266739 GAAAAGAAAG
18266749 GAAAGAA
1 GAAAGAA
18266756 GAAAGAA
1 GAAAGAA
18266763 GAAAGAA
1 GAAAGAA
18266770 GAAAGAA
1 GAAAGAA
18266777 AGGGGAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
GAAAGAA
Done.