Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 93 of 187
Found at i:27190889 original size:43 final size:43
Alignment explanation
Indices: 27190841--27190966 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
27190831 ATGATATGTT
* *
27190841 TTTAGC-GCAGTTTTTGCGAGAAGCGTCGCTAAAGGTTATGGTC
1 TTTAGCGGC-GTTTTTGCGAAAAGCGTCGCTAAAGGTCATGGTC
* * *
27190884 TTTAGCGGCG--TTTGCGACAAAAGTGCCGCTAAAGGTCATGGTT
1 TTTAGCGGCGTTTTTGCG--AAAAGCGTCGCTAAAGGTCATGGTC
* *
27190927 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATG
1 TTTAGCGGCGTTTTTGCGAAAAGCGTCGCTAAAGGTCATG
27190967 ACTTTTAACG
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
41 6 0.09
43 57 0.83
44 2 0.03
45 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGCGAAAAGCGTCGCTAAAGGTCATGGTC
Found at i:27190973 original size:43 final size:42
Alignment explanation
Indices: 27190861--27190982 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
27190851 TTTTTGCGAG
* *
27190861 AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCGACAA
1 AAGCGTCGCTAAAGGTCATGCT-TTTAGCGGCGTTTGCGACAA
* * * * **
27190904 AAGTGCCGCTAAAGGTCATGGTTTTTAGCGGCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTCAT-GCTTTTAGCGGCGTTTGCGACAA
* *
27190947 AAGCGTCGCTAAAGGTCATGACTTTTAACGACGTTT
1 AAGCGTCGCTAAAGGTCATG-CTTTTAGCGGCGTTT
27190983 ATTTCTAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.02
43 62 0.95
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (42 bp):
AAGCGTCGCTAAAGGTCATGCTTTTAGCGGCGTTTGCGACAA
Found at i:27204733 original size:13 final size:13
Alignment explanation
Indices: 27204715--27204739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27204705 AATTTGATAT
27204715 GTTTATGGTTGAA
1 GTTTATGGTTGAA
27204728 GTTTATGGTTGA
1 GTTTATGGTTGA
27204740 TTTGGTACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTATGGTTGAA
Found at i:27223033 original size:52 final size:52
Alignment explanation
Indices: 27222955--27223193 Score: 424
Period size: 52 Copynumber: 4.6 Consensus size: 52
27222945 ATGATTTGGC
27222955 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
1 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
27223007 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
1 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
27223059 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
1 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
* **
27223111 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGTTTTAGCTACA
1 CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
* *
27223163 CTTATCTGATCAAGTGAAAAAGTGATAAGTG
1 CTTATCTGATCAAGTG-ACAAGTGAAAAGTG
27223194 CTATACTTAT
Statistics
Matches: 181, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
52 169 0.93
53 12 0.07
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (52 bp):
CTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACA
Found at i:27223205 original size:36 final size:36
Alignment explanation
Indices: 27223157--27223229 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
27223147 GATAGTTTTA
27223157 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
27223193 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
27223229 G
1 G
27223230 GTAGCTTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:27230175 original size:29 final size:29
Alignment explanation
Indices: 27230101--27230176 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
27230091 ATAATATATC
* *
27230101 AATT-AAAATGTTAACATAAATTTAAATA
1 AATTAAAAATGTTAAAATAAATTGAAATA
* * * *
27230129 AATTAACAATATTGAAATAAGTTGAAATA
1 AATTAAAAATGTTAAAATAAATTGAAATA
27230158 AATTAAAAATGTTAAAATA
1 AATTAAAAATGTTAAAATA
27230177 TTTGAAAGAG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 4 0.11
29 34 0.89
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.33
Consensus pattern (29 bp):
AATTAAAAATGTTAAAATAAATTGAAATA
Found at i:27233731 original size:23 final size:22
Alignment explanation
Indices: 27233688--27233731 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27233678 TTTCAAGTCA
27233688 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
27233711 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27233732 TTAATCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:27233951 original size:23 final size:23
Alignment explanation
Indices: 27233830--27233951 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
27233820 ATAAGTGTCA
*
27233830 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27233853 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
27233876 CACTGAAATGTAGCCAAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
27233899 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27233922 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27233945 CATTGAT
1 CACTGAT
27233952 CAATAACACT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27234444 original size:29 final size:30
Alignment explanation
Indices: 27234398--27234455 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
27234388 TCCTTGACTC
27234398 AAACTTTTGCAAAATTACAATTTT-CCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
27234427 AAACTTTTTCATATTTACACTTTTGCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
27234456 AAAGCTCGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:27239759 original size:3 final size:3
Alignment explanation
Indices: 27239751--27239785 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27239741 TCCAGGCTTC
27239751 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
27239786 GGTGAGTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:27251377 original size:16 final size:15
Alignment explanation
Indices: 27251357--27251409 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
27251347 ATTGTTATTG
27251357 TCAATAATTTCAATA
1 TCAATAATTTCAATA
* *
27251372 TCCAATAAGTTTAAAAAA
1 T-CAATAA-TTT-CAATA
27251390 T-AATAATTTCAATA
1 TCAATAATTTCAATA
27251404 TCAATA
1 TCAATA
27251410 TCCAACCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 11 0.37
17 3 0.10
18 4 0.13
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (15 bp):
TCAATAATTTCAATA
Found at i:27251411 original size:38 final size:40
Alignment explanation
Indices: 27251366--27251443 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
27251356 GTCAATAATT
* *
27251366 TCAATATCCAATAAGT-TT-AAAAAATAATAATTTCAATA
1 TCAATATCCAACAAGTATTAAAAAAATAACAATTTCAATA
* *
27251404 TCAATATCCAACCAGTATTAAAAAAATAACAATTTTAATA
1 TCAATATCCAACAAGTATTAAAAAAATAACAATTTCAATA
27251444 CTAAAACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 14 0.41
39 2 0.06
40 18 0.53
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (40 bp):
TCAATATCCAACAAGTATTAAAAAAATAACAATTTCAATA
Found at i:27255340 original size:38 final size:39
Alignment explanation
Indices: 27255298--27255375 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
27255288 TTTCAAGCGT
*
27255298 AGTTTAATTTATAATTTTATGAT-TTTTTATTATTTGTA
1 AGTTTAATTTATAATTTTATGATACTTTTATTATTTGTA
27255336 AGTTTAATTTATAATTTTATGATACTTTTATTATTTGTA
1 AGTTTAATTTATAATTTTATGATACTTTTATTATTTGTA
27255375 A
1 A
27255376 ATTCTTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.31, C:0.01, G:0.08, T:0.60
Consensus pattern (39 bp):
AGTTTAATTTATAATTTTATGATACTTTTATTATTTGTA
Found at i:27256529 original size:12 final size:13
Alignment explanation
Indices: 27256496--27256533 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
27256486 TATTTAAGGT
27256496 TAATTAAGTTAATA
1 TAATTAA-TTAATA
27256510 TTAATTAATTAATA
1 -TAATTAATTAATA
27256524 -AATTAATTAA
1 TAATTAATTAA
27256534 CTAGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TAATTAATTAATA
Found at i:27260151 original size:36 final size:36
Alignment explanation
Indices: 27260089--27260165 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
27260079 TATTTCTAAT
* * * * *
27260089 TTTATCCGTCTAGTGCTAGGCGCAAAATATTATCGG
1 TTTATCCGACTAGCGCTAGGCACAAAACATTATCGA
27260125 TTTATCCGACTAGCGCT-GAGCACAAAACATTATCGA
1 TTTATCCGACTAGCGCTAG-GCACAAAACATTATCGA
27260161 TTTAT
1 TTTAT
27260166 TCAACTAGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (36 bp):
TTTATCCGACTAGCGCTAGGCACAAAACATTATCGA
Found at i:27260303 original size:76 final size:75
Alignment explanation
Indices: 27260121--27260322 Score: 242
Period size: 76 Copynumber: 2.6 Consensus size: 75
27260111 CAAAATATTA
* * * * *
27260121 TCGGTTTATCCGACTAGCGCTGAGCACAAAACATTATCGATTTATTCAACTAGTGCTGGGTACAC
1 TCGGTTTATCCGACTAGCGCTG-GCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACAC
*
27260186 ATTTGACATGG
65 ATTTGACATCG
* * * * *
27260197 TCAGTTTATCTGACTAGCACTGGGCACAAAATATTGTTGGTTTATTCGACTAGTGTTGGGCACAC
1 TCGGTTTATCCGACTAGCGCT-GGCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACAC
27260262 ATTTGACATCG
65 ATTTGACATCG
* *
27260273 TCGGTTTATCCGACTAGCGCTAGGCGCAAAATTTTGTTACGGTTTATTCA
1 TCGGTTTATCCGACTAGCGCT-GGCACAAAATATTGTT--GGTTTATTCA
27260323 TCAAGCACTG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
76 95 0.90
77 1 0.01
78 9 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (75 bp):
TCGGTTTATCCGACTAGCGCTGGCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACACA
TTTGACATCG
Found at i:27268749 original size:28 final size:28
Alignment explanation
Indices: 27268717--27268771 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
27268707 AAATATTATC
27268717 AAAATTTACAAAAAGGAAATTGAATATG
1 AAAATTTACAAAAAGGAAATTGAATATG
* *
27268745 AAAATTTATAAAAAGTAAATTGAATAT
1 AAAATTTACAAAAAGGAAATTGAATAT
27268772 CCGAATAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (28 bp):
AAAATTTACAAAAAGGAAATTGAATATG
Found at i:27279880 original size:27 final size:27
Alignment explanation
Indices: 27279839--27279890 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
27279829 GAAGAATAGC
*
27279839 TGGTAATGAATTTGTGTTATCTGGTCT
1 TGGTAATGAAATTGTGTTATCTGGTCT
*
27279866 TGGTAATGAAATTGTGTTGTCTGGT
1 TGGTAATGAAATTGTGTTATCTGGT
27279891 TTTGATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.46
Consensus pattern (27 bp):
TGGTAATGAAATTGTGTTATCTGGTCT
Found at i:27281296 original size:22 final size:23
Alignment explanation
Indices: 27281255--27281297 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27281245 ATCACCATTA
27281255 TTAAATATATTTATTTATTTAGT
1 TTAAATATATTTATTTATTTAGT
*
27281278 TTAAATATCTTT-TTTATTTA
1 TTAAATATATTTATTTATTTA
27281298 TCATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTAAATATATTTATTTATTTAGT
Found at i:27281304 original size:22 final size:23
Alignment explanation
Indices: 27281256--27281305 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
27281246 TCACCATTAT
*
27281256 TAAATATATTTATTTATTTAGTT
1 TAAATATATTTATTTATTTAGTA
*
27281279 TAAATATCTTT-TTTATTTA-TCA
1 TAAATATATTTATTTATTTAGT-A
27281301 TAAAT
1 TAAAT
27281306 TACTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.54
23 10 0.42
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TAAATATATTTATTTATTTAGTA
Found at i:27282039 original size:21 final size:21
Alignment explanation
Indices: 27282013--27282070 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
27282003 CTCCAAAACA
*
27282013 AGGGAAAATGGGTTACAATTT
1 AGGGAAAATGGCTTACAATTT
**
27282034 AGGGAAAATATCTTACAATTT
1 AGGGAAAATGGCTTACAATTT
*
27282055 AGGGAAAATGTCTTAC
1 AGGGAAAATGGCTTAC
27282071 CCTTTCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (21 bp):
AGGGAAAATGGCTTACAATTT
Found at i:27282489 original size:20 final size:20
Alignment explanation
Indices: 27282464--27282503 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27282454 AATATTTTCT
*
27282464 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
27282484 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
27282504 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:27282506 original size:34 final size:35
Alignment explanation
Indices: 27282452--27282518 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
27282442 CAAACACCAG
* *
27282452 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
27282487 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27282519 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27284498 original size:27 final size:27
Alignment explanation
Indices: 27284467--27284522 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27284457 GAAAATGATT
27284467 TTGGTTTGCGAAATTTGAGAAAACAGG
1 TTGGTTTGCGAAATTTGAGAAAACAGG
27284494 TTGGTTTGCGAAATTTGAGAAAACAGG
1 TTGGTTTGCGAAATTTGAGAAAACAGG
27284521 TT
1 TT
27284523 CGGGAGTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (27 bp):
TTGGTTTGCGAAATTTGAGAAAACAGG
Found at i:27287349 original size:44 final size:44
Alignment explanation
Indices: 27287294--27287726 Score: 551
Period size: 44 Copynumber: 9.8 Consensus size: 44
27287284 ATAAACTAAA
* ** * * * **
27287294 CTTCCACCTATTCTGCTGTTGGTTAGGGAGATAGGACTTGTAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* *
27287338 CTTCAACCTATTCCATTGCTGGTCAGGGAGATAGGACTTACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * * * *
27287382 CTTCCATCTATTCTACTGCTGGTTAGGGAGATAGGACGTACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
*
27287426 CTTCAACCTATTCCATTGCTGGTCAGGGAGATAGGACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * *
27287470 CTTCAACCTATTCTACTGTTGGTCAGGGAGATAGGGCATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* *
27287514 CATCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
*
27287558 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGCACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
27287602 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * * * * * * **
27287646 ATTCCACATATTCCACTGCTGGTTAGAGAGATAGAACTTGTAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * * *
27287690 CTTCGACCTATTCCAATACTGGTCAGGGATATAGGAC
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGAC
27287727 TGGCAATCTT
Statistics
Matches: 338, Mismatches: 51, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 338 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
Found at i:27287839 original size:43 final size:43
Alignment explanation
Indices: 27287786--27287921 Score: 130
Period size: 44 Copynumber: 3.1 Consensus size: 43
27287776 TATATTCAAC
27287786 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGAT
* *** * * * *
27287829 CTGCTTCGCTGTCAGTACAGGAAGGCAAGGTTTGCTATCTT-AAGT
1 CTGCTCCGCTG-CAACCCAGGGAGGCAAGGCTAG-TATCTTCGA-T
* * * *
27287874 CTGCTCCGCTACAACCGAGGGAGACAAGGCTGGTATCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGAT
27287917 CTGCT
1 CTGCT
27287922 TCACGTCGAT
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 22 0.31
44 32 0.46
45 16 0.23
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.25
Consensus pattern (43 bp):
CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGAT
Found at i:27287855 original size:44 final size:45
Alignment explanation
Indices: 27287732--27287858 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 45
27287722 AGGACTGGCA
* * * ** *
27287732 ATCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATTCGTT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTAGTT
* * * * *** *
27287777 ATATTCAACCTGCTCCGCTG-CAACCCAGGGAGGCAAGGCTAG-T
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTAGTT
27287820 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGG
27287859 TTTGCTATCT
Statistics
Matches: 59, Mismatches: 22, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
43 17 0.29
44 28 0.47
45 14 0.24
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTAGTT
Found at i:27287881 original size:88 final size:87
Alignment explanation
Indices: 27287732--27287999 Score: 324
Period size: 88 Copynumber: 3.1 Consensus size: 87
27287722 AGGACTGGCA
* * * * * * *
27287732 ATCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATTCGTTATATTCAACCTGCTCCGCTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTT-AACCTGCTCCGCTA
* *
27287797 CAACCCAGGGAGGCAAGGCTAGT
65 CAACCGAGGGAGGCAAGGCTGGT
* *
27287820 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGTTTGCTATCTTAAGTCTGCTCCGCTA
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTAA-CCTGCTCCGCTA
*
27287885 CAACCGAGGGAGACAAGGCTGGT
65 CAACCGAGGGAGGCAAGGCTGGT
* * * * **
27287908 ATCTTCGATCTGCTTCAC-GTC-GATGCAGGAAGGCAAGATCTGCTATCTCCAACCTGCTCTACT
1 ATCTTCGATCTGCTTCGCTGTCAG-TACAGGAAGGCAAGATTTGCTATCT-TAACCTGCTCCGCT
27287971 ACAACCGAGGGAGGCAAGGCTGGT
64 ACAACCGAGGGAGGCAAGGCTGGT
27287995 ATCTT
1 ATCTT
27288000 TAACCTGCTC
Statistics
Matches: 156, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 63 0.40
88 92 0.59
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (87 bp):
ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTAACCTGCTCCGCTAC
AACCGAGGGAGGCAAGGCTGGT
Found at i:27287986 original size:44 final size:44
Alignment explanation
Indices: 27287938--27288042 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 44
27287928 CGATGCAGGA
*
27287938 AGGCAAGATCTGCTATCTCCAACCTGCTCTACTACAACCGAGGG
1 AGGCAAGATCTGCTATCTCCAACCTGCTCCACTACAACCGAGGG
* * ** ** **
27287982 AGGCAAG-GCTGGTATCTTTAACCTGCTCCACTACTGCTTAGGG
1 AGGCAAGATCTGCTATCTCCAACCTGCTCCACTACAACCGAGGG
* *
27288025 AGGCCAGATCTGCCATCT
1 AGGCAAGATCTGCTATCT
27288043 TCACTGATCT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
43 33 0.70
44 14 0.30
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTCCAACCTGCTCCACTACAACCGAGGG
Found at i:27288034 original size:87 final size:86
Alignment explanation
Indices: 27287782--27288042 Score: 204
Period size: 87 Copynumber: 3.0 Consensus size: 86
27287772 TCGTTATATT
** * * * * * * * * *
27287782 CAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCGCTGTCAGTAC
1 CAACCTGCTCTACTACAACCGAGGGAGACAAGGCTGGTATCTTCAACCTGCTCCAC-GTCA-TGC
* * *
27287847 AGGAAGGCAAGGTTTGCTATCT-
64 AGGAAGGCAAGATCTGCCATCTC
* * ** * * *
27287869 TAAGTCTGCTCCGCTACAACCGAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCACGTCGATGC
1 CAA-CCTGCTCTACTACAACCGAGGGAGACAAGGCTGGTATCTTCAACCTGCTCCACGTC-ATGC
*
27287934 AGGAAGGCAAGATCTGCTATCTC
64 AGGAAGGCAAGATCTGCCATCTC
* *
27287957 CAACCTGCTCTACTACAACCGAGGGAGGCAAGGCTGGTATCTTTAACCTGCTCCAC-T-ACTGCT
1 CAACCTGCTCTACTACAACCGAGGGAGACAAGGCTGGTATCTTCAACCTGCTCCACGTCA-TGC-
* *
27288020 TAGGGAGGCCAGATCTGCCATCT
64 -AGGAAGGCAAGATCTGCCATCT
27288043 TCACTGATCT
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
86 1 0.01
87 91 0.62
88 50 0.34
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (86 bp):
CAACCTGCTCTACTACAACCGAGGGAGACAAGGCTGGTATCTTCAACCTGCTCCACGTCATGCAG
GAAGGCAAGATCTGCCATCTC
Found at i:27289334 original size:20 final size:20
Alignment explanation
Indices: 27289297--27289333 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
27289287 TTTTTACTTT
*
27289297 TTTTCATTATTTATTTTTCA
1 TTTTCATTATTCATTTTTCA
27289317 TTTTCATT-TTCATTTTT
1 TTTTCATTATTCATTTTT
27289334 TTTGACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTATTCATTTTTCA
Found at i:27294306 original size:29 final size:28
Alignment explanation
Indices: 27294256--27294315 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
27294246 TTTAAAGCAC
*
27294256 AAAAGTATATATAAACATAAATATTTTAA
1 AAAAGTATATATAAACATAAAT-TATTAA
27294285 AAAAGTATCATA-AAA-ATAAAATTATTAA
1 AAAAGTAT-ATATAAACAT-AAATTATTAA
27294313 AAA
1 AAA
27294316 TATATAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.36
29 15 0.54
30 3 0.11
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAAGTATATATAAACATAAATTATTAA
Found at i:27294326 original size:29 final size:29
Alignment explanation
Indices: 27294256--27294315 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
27294246 TTTAAAGCAC
* *
27294256 AAAAGTATATATAAACATAAATATTTTAA
1 AAAAGTATACATAAAAATAAATATTTTAA
27294285 AAAAGTAT-CATAAAAATAAA-ATTATTAA
1 AAAAGTATACATAAAAATAAATATT-TTAA
27294313 AAA
1 AAA
27294316 TATATAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.11
28 17 0.61
29 8 0.29
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AAAAGTATACATAAAAATAAATATTTTAA
Found at i:27296653 original size:12 final size:13
Alignment explanation
Indices: 27296636--27296665 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
27296626 TATTACATTC
27296636 AATTTGATA-TTT
1 AATTTGATATTTT
27296648 AATTTGATATTTT
1 AATTTGATATTTT
27296661 AATTT
1 AATTT
27296666 ATCATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (13 bp):
AATTTGATATTTT
Found at i:27302072 original size:23 final size:23
Alignment explanation
Indices: 27302042--27302144 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 23
27302032 AGTGTTATTG
*
27302042 ATCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * ** *
27302065 ATCGGTGGTATCTTTGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
27302088 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
**
27302111 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
27302134 ATCAGT-GTAGC
1 ATCAGTGGTAGC
27302145 ACTTATGTGC
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
22 5 0.08
23 58 0.92
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:27302119 original size:46 final size:46
Alignment explanation
Indices: 27302042--27302144 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 46
27302032 AGTGTTATTG
* * *
27302042 ATCAGTGGTAGCTACGACTACATATCGGTGGTATCTTTGGCTATAT
1 ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGGCTACAT
* * *
27302088 TTCAGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGGCTACAT
27302134 ATCAGT-GTAGC
1 ATCAGTGGTAGC
27302145 ACTTATGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 5 0.10
46 45 0.90
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGGCTACAT
Found at i:27303385 original size:49 final size:49
Alignment explanation
Indices: 27303321--27303509 Score: 297
Period size: 49 Copynumber: 3.9 Consensus size: 49
27303311 CAATAAGTGA
*
27303321 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
* * *
27303370 TATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGGTATACGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
* * *
27303419 TATGTGATTAGGTGTAAGACCATAGTTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
* *
27303468 TATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
27303510 GAAAATAAGT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 130 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
Found at i:27311127 original size:25 final size:25
Alignment explanation
Indices: 27311083--27311132 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27311073 AAACTAAAAT
27311083 TTTAAAATAAATTCACAAATTTAAA
1 TTTAAAATAAATTCACAAATTTAAA
27311108 TTTAAAA-AATATT-ACAAAATTTAAA
1 TTTAAAATAA-ATTCAC-AAATTTAAA
27311133 ATATTCTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (25 bp):
TTTAAAATAAATTCACAAATTTAAA
Found at i:27315724 original size:3 final size:3
Alignment explanation
Indices: 27315716--27315744 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27315706 TATGAGTAAT
27315716 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27315745 CCAATTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27318569 original size:24 final size:25
Alignment explanation
Indices: 27318516--27318571 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
27318506 AGAAATGGTG
*
27318516 AGTTTTAGTATTAAGTAATACGATG
1 AGTTTTAGTATTAAGTAATACGATA
* *
27318541 CGTTTTA-TATTAAGCTAA-ACGGTA
1 AGTTTTAGTATTAAG-TAATACGATA
27318565 AGTTTTA
1 AGTTTTA
27318572 ACAGGCTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (25 bp):
AGTTTTAGTATTAAGTAATACGATA
Found at i:27318843 original size:20 final size:21
Alignment explanation
Indices: 27318801--27318843 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27318791 GATTATTTTA
*
27318801 AAAACTCAATTGACTTAATCC
1 AAAACTCAATTGACTTAACCC
27318822 AAAA-TCAACTTGACTT-ACCC
1 AAAACTCAA-TTGACTTAACCC
27318842 AA
1 AA
27318844 TTGATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAACTCAATTGACTTAACCC
Found at i:27323590 original size:25 final size:25
Alignment explanation
Indices: 27323562--27323611 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27323552 TACAGAATAT
27323562 TTTAAATTT-TGTAATATT-TTTTAAA
1 TTTAAATTTGTG-AAT-TTATTTTAAA
27323587 TTTAAATTTGTGAATTTATTTTAAA
1 TTTAAATTTGTGAATTTATTTTAAA
27323612 ATTTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 19 0.83
26 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTAAATTTGTGAATTTATTTTAAA
Found at i:27329846 original size:25 final size:24
Alignment explanation
Indices: 27329790--27329846 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
27329780 TGTTTCATAT
*
27329790 AACTCACCGTTTAGCTTAATATAA
1 AACTCACCATTTAGCTTAATATAA
*
27329814 AACGCACCATATTA-CTTAATACTAA
1 AACTCACCAT-TTAGCTTAATA-TAA
27329839 AACTCACC
1 AACTCACC
27329847 GTTTGGAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (24 bp):
AACTCACCATTTAGCTTAATATAA
Found at i:27334872 original size:70 final size:68
Alignment explanation
Indices: 27334750--27334966 Score: 290
Period size: 70 Copynumber: 3.1 Consensus size: 68
27334740 CCAAACTAAA
* * * * * *
27334750 CAGCAATTTCACACCAAATTTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAA-ATTGGACAGCTTATATACAACAAATT-GGCAGCA-ATATACAACAA
27334815 ATTGAG
63 ATTGAG
* * *
27334821 CAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAAA
1 CAGCATTTTTACACCAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAA-TATACAACAAA
27334886 TTGAG
64 TTGAG
27334891 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACC-AAAATTGGACAGCTTATATACAACAAATTGGCAGC-AATATACAACAAA
27334956 TTGAG
64 TTGAG
27334961 CAGCAT
1 CAGCAT
27334967 ATATATACAA
Statistics
Matches: 130, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
69 3 0.02
70 80 0.62
71 47 0.36
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (68 bp):
CAGCATTTTTACACCAAAATTGGACAGCTTATATACAACAAATTGGCAGCAATATACAACAAATT
GAG
Found at i:27334912 original size:48 final size:47
Alignment explanation
Indices: 27334852--27334993 Score: 123
Period size: 48 Copynumber: 3.0 Consensus size: 47
27334842 GGACAGCTTA
27334852 TACACAACAAATTGGACAGCA-ATTACACAACAAATTGAGCAGCATTTT
1 TACACAACAAATTGGACAGCATA-TACACAACAAATTG-GCAGCATTTT
* * **
27334900 TACACCAA-AAATTGGACAGCTTATATACAACAAATTGGCAGCA--AA
1 TACA-CAACAAATTGGACAGCATATACACAACAAATTGGCAGCATTTT
* * *
27334945 TATACAACAAATT-GAGCAGCATATATATACAAGAAATTGTGCAGCATTT
1 TACACAACAAATTGGA-CAGC--ATATACACAACAAATTG-GCAGCATTT
27334994 AAGCATAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
44 5 0.06
45 12 0.16
47 21 0.27
48 35 0.45
49 4 0.05
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (47 bp):
TACACAACAAATTGGACAGCATATACACAACAAATTGGCAGCATTTT
Found at i:27334970 original size:23 final size:22
Alignment explanation
Indices: 27334770--27334991 Score: 167
Period size: 23 Copynumber: 9.5 Consensus size: 22
27334760 ACACCAAATT
*
27334770 TTGGACAGCATATATACAACAAT
1 TTGG-CAGCATATATACAACAAA
*
27334793 TTAGGCAGCATATATACAACATA
1 TT-GGCAGCATATATACAACAAA
* * * *
27334816 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCATATATACAAC-AAA
* *
27334840 TTGGACAGCTTATACACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
27334863 TTGGACAGCA-ATTACACAACAAA
1 TTGG-CAGCATA-TATACAACAAA
* * *
27334886 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
*
27334911 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
27334934 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
*
27334956 TTGAGCAGCATATATATACAAGAAA
1 TTG-GCAGC--ATATATACAACAAA
27334981 TTGTGCAGCAT
1 TTG-GCAGCAT
27334992 TTAAGCATAA
Statistics
Matches: 159, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
22 21 0.13
23 83 0.52
24 18 0.11
25 37 0.23
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (22 bp):
TTGGCAGCATATATACAACAAA
Found at i:27334973 original size:47 final size:47
Alignment explanation
Indices: 27334770--27334991 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 47
27334760 ACACCAAATT
* *
27334770 TTGGACAGC--ATATATACAACAATTTAGGCAGCATATATACAACATA
1 TTGGACAGCATATATATACAACAAATT-GGCAGCATATATACAACAAA
* * * * *
27334816 TT-GAGCAGCAT-T-TTTGCACCAAAATTGGACAGCTTATACACAACAAA
1 TTGGA-CAGCATATATATACAAC-AAATTGG-CAGCATATATACAACAAA
* * * *
27334863 TTGGACAGCA-AT-TACACAACAAATTGAGCAGCATTTTTACACCAAAAA
1 TTGGACAGCATATATATACAACAAATTG-GCAGCATATATACA--ACAAA
*
27334911 TTGGACAGC-T-TATATACAACAAATTGGCAGCAAATATACAACAAA
1 TTGGACAGCATATATATACAACAAATTGGCAGCATATATACAACAAA
*
27334956 TT-GAGCAGCATATATATACAAGAAATTGTGCAGCAT
1 TTGGA-CAGCATATATATACAACAAATTG-GCAGCAT
27334992 TTAAGCATAA
Statistics
Matches: 137, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
44 2 0.01
45 12 0.09
46 29 0.21
47 60 0.44
48 34 0.25
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (47 bp):
TTGGACAGCATATATATACAACAAATTGGCAGCATATATACAACAAA
Found at i:27335754 original size:28 final size:28
Alignment explanation
Indices: 27335722--27335788 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
27335712 AATAAGTTCA
*
27335722 CACACTTAGTGCTCAATAATTAAACTCG
1 CACACTTAGTGCTCAACAATTAAACTCG
**
27335750 CACACTTAGTGCTTTACAATTAAACTCG
1 CACACTTAGTGCTCAACAATTAAACTCG
27335778 CACACTTAGTG
1 CACACTTAGTG
27335789 TCGAAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTCAACAATTAAACTCG
Found at i:27336596 original size:15 final size:14
Alignment explanation
Indices: 27336576--27336631 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 14
27336566 ATGTTTTGTT
27336576 TTATTATAACATATA
1 TTATTATAA-ATATA
*
27336591 TTATTAT-ATTATTA
1 TTATTATAAATA-TA
*
27336605 TTATTTTAAAT-T-
1 TTATTATAAATATA
27336617 TTATTATAAATATA
1 TTATTATAAATATA
27336631 T
1 T
27336632 ATATATCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
12 10 0.30
13 4 0.12
14 10 0.30
15 9 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTATAAATATA
Found at i:27338554 original size:29 final size:29
Alignment explanation
Indices: 27338508--27338570 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
27338498 TGGTGCCTTT
*
27338508 GAACCAATAACTCAGATA-TCACTTGGTTC
1 GAACCAACAACTCAGATACT-ACTTGGTTC
* *
27338537 GAACCAACAGCTCGGATACTACTTGGTTC
1 GAACCAACAACTCAGATACTACTTGGTTC
*
27338566 CAACC
1 GAACC
27338571 TTGGCTCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (29 bp):
GAACCAACAACTCAGATACTACTTGGTTC
Found at i:27346843 original size:23 final size:23
Alignment explanation
Indices: 27346817--27346865 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
27346807 TAATGACATA
27346817 AAAATGAAAATTTAAATTATTCC
1 AAAATGAAAATTTAAATTATTCC
27346840 AAAATGAAAATTTAAATTATTCC
1 AAAATGAAAATTTAAATTATTCC
27346863 AAA
1 AAA
27346866 TTAAAACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATGAAAATTTAAATTATTCC
Found at i:27352404 original size:2 final size:2
Alignment explanation
Indices: 27352364--27352391 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27352354 TTAGAATGGC
27352364 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27352392 TTTTCATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27353438 original size:59 final size:60
Alignment explanation
Indices: 27353367--27353553 Score: 218
Period size: 59 Copynumber: 3.0 Consensus size: 60
27353357 TTATAAAATT
27353367 AATAAATTGTTTATAATTAAAAAATTATGCCACCTATATTTAAAAAATTACTTCATTTAA
1 AATAAATTGTTTATAATTAAAAAATTATGCCACCTATATTTAAAAAATTACTTCATTTAA
*
27353427 AA-AAATTGTTTATAATTAAAAAATTATGCCACCTATATTT-AAAATTTACTTCATTTTTCAAAA
1 AATAAATTGTTTATAATTAAAAAATTATGCCACCTATATTTAAAAAATTACTTCA---TT-----
27353490 AAATAA
58 ---TAA
* *
27353496 AATAAATTGTTTATAATTAAAAAATCATGCCACCTATATTTAAACAATTAAC-TCATTT
1 AATAAATTGTTTATAATTAAAAAATTATGCCACCTATATTTAAAAAATT-ACTTCATTT
27353554 CTATACTCAG
Statistics
Matches: 109, Mismatches: 4, Indels: 28
0.77 0.03 0.20
Matches are distributed among these distances:
58 12 0.11
59 38 0.35
60 3 0.03
61 2 0.02
68 2 0.02
69 5 0.05
70 37 0.34
71 8 0.07
72 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (60 bp):
AATAAATTGTTTATAATTAAAAAATTATGCCACCTATATTTAAAAAATTACTTCATTTAA
Found at i:27354270 original size:19 final size:20
Alignment explanation
Indices: 27354248--27354287 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
27354238 GAAGATAAAA
*
27354248 TAAAATATAAAAG-AAATGG
1 TAAAAAATAAAAGAAAATGG
27354267 TAAAAAATAAAAGAAAATGG
1 TAAAAAATAAAAGAAAATGG
27354287 T
1 T
27354288 TTTTTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
TAAAAAATAAAAGAAAATGG
Found at i:27358304 original size:40 final size:40
Alignment explanation
Indices: 27358252--27358366 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
27358242 TGGCGTTTGG
*
27358252 ACAAAAAACGCCGCTAAAAATCGAGCATTAGTGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* * * *
27358292 ACACAAAACGCCGCTAAAGATCGAGCTTTAGCGGCGCTAT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
27358332 -CAGGAAACCGCCGCTAAAAAT-GAGCATTAGCGGCG
1 ACA-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG
27358367 TTTTTTGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 15 0.23
40 50 0.77
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (40 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:27358543 original size:41 final size:41
Alignment explanation
Indices: 27358423--27358826 Score: 659
Period size: 41 Copynumber: 9.9 Consensus size: 41
27358413 TTCAGACCTT
* * *
27358423 TCAGGGCTTTAGTGGCG-TTTTAAAAAAGCGCCACTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
27358463 TCAGGGCTTTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGC
* * *
27358505 TCAGGGCTTTAGCGGTGTTTTTGGAAAAGCGCCACTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
27358546 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
27358587 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
27358628 TCAGGGCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
27358669 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
27358710 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
27358751 TCAAGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
27358792 TCAGGGCTTTAGCGGTGTTTTGTG-AAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTT-TGAAAAAGCGCCGC
27358827 AAAAACATTT
Statistics
Matches: 345, Mismatches: 16, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
40 16 0.05
41 292 0.85
42 37 0.11
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:27359171 original size:14 final size:14
Alignment explanation
Indices: 27359154--27359190 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
27359144 GGGTTTAATA
27359154 TATATGATTTAGGG
1 TATATGATTTAGGG
* *
27359168 TATATGGTTTGGGG
1 TATATGATTTAGGG
27359182 TATATGATT
1 TATATGATT
27359191 AATTTAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TATATGATTTAGGG
Found at i:27359402 original size:73 final size:69
Alignment explanation
Indices: 27359340--27359471 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 69
27359330 TGGATTCGGT
*
27359340 GTTA-GGTTAAGG-TTTATGGTTTAAATTAATTA-CTGTATTTTAA-TT-TATATTAAATAAGGT
1 GTTAGGGTTAAGGATTTAGGGTTTAAATTAATTAGCT-T-TTTTAATTTATATATTAAATAAGGT
27359400 TTATAG
64 TTATAG
* *
27359406 GTTAGGGTTTAGGATTTAGGGTTTAGATTAATTAGCTTTTTTAATTTATATATTAAATAAGGTTT
1 GTTAGGGTTAAGGATTTAGGGTTTAAATTAATTAGCTTTTTTAATTTATATATTAAATAAGGTTT
27359471 A
66 A
27359472 GCGTTTTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
66 4 0.07
67 13 0.22
68 21 0.36
69 20 0.34
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (69 bp):
GTTAGGGTTAAGGATTTAGGGTTTAAATTAATTAGCTTTTTTAATTTATATATTAAATAAGGTTT
ATAG
Found at i:27361136 original size:550 final size:550
Alignment explanation
Indices: 27360096--27361196 Score: 2184
Period size: 550 Copynumber: 2.0 Consensus size: 550
27360086 TGCACATATA
27360096 TATTCACGTGTTTGTATTTTTCTGCTTTCTTAAAATATGTCTTGGTCTACAGGAGAAAAGGGTAT
1 TATTCACGTGTTTGTATTTTTCTGCTTTCTTAAAATATGTCTTGGTCTACAGGAGAAAAGGGTAT
27360161 TGGTCCTAAAACTGGAAAGCCATTGCACTACAAGGGTTCCTTTTTCCATCGAGTCATGAAAGGTT
66 TGGTCCTAAAACTGGAAAGCCATTGCACTACAAGGGTTCCTTTTTCCATCGAGTCATGAAAGGTT
27360226 CCCTGGCCCAGGTTTGTTGTTTTATCTTACTTCTAATCGGGATTTTCCACTAGCTGTTTCTTGTA
131 CCCTGGCCCAGGTTTGTTGTTTTATCTTACTTCTAATCGGGATTTTCCACTAGCTGTTTCTTGTA
27360291 GAACATGGCTTAGAAGTGGAATGTCGTTTAGTCAATTACTATTGTTTATGCTGTAGGAAACAGGG
196 GAACATGGCTTAGAAGTGGAATGTCGTTTAGTCAATTACTATTGTTTATGCTGTAGGAAACAGGG
27360356 CTGATGGTCACGACTGCTTTTCTTGTGATATAGTTTTTAAGGTTGTATTTACCATGTTGTGAATC
261 CTGATGGTCACGACTGCTTTTCTTGTGATATAGTTTTTAAGGTTGTATTTACCATGTTGTGAATC
27360421 CTCAAAATTTTACTGAACTTCGCTGTGTCCAACCCAGTTTTTTTTGCACATAAATGTCTTTTTTC
326 CTCAAAATTTTACTGAACTTCGCTGTGTCCAACCCAGTTTTTTTTGCACATAAATGTCTTTTTTC
27360486 TTGTGGACTAACATCTTATGTTTGTTATGTAGGGTGGTGATTTTGGAAGAAGAGATGGTATGCAT
391 TTGTGGACTAACATCTTATGTTTGTTATGTAGGGTGGTGATTTTGGAAGAAGAGATGGTATGCAT
27360551 TCTTTGCAAAGAGGACTTTTATTTTAATTTTTTGTAGCTGTTAATTGATTTTACTTTAGATAAGA
456 TCTTTGCAAAGAGGACTTTTATTTTAATTTTTTGTAGCTGTTAATTGATTTTACTTTAGATAAGA
27360616 TCTCTTTAAGGGTTGCCATCTATGTGACTG
521 TCTCTTTAAGGGTTGCCATCTATGTGACTG
27360646 TATTCACGTGTTTGTATTTTTCTGCTTTCTTAAAATATGTCTTGGTCTACAGGAGAAAAGGGTAT
1 TATTCACGTGTTTGTATTTTTCTGCTTTCTTAAAATATGTCTTGGTCTACAGGAGAAAAGGGTAT
27360711 TGGTCCTAAAACTGGAAAGCCATTGCACTACAAGGGTTCCTTTTTCCATCGAGTCATGAAAGGTT
66 TGGTCCTAAAACTGGAAAGCCATTGCACTACAAGGGTTCCTTTTTCCATCGAGTCATGAAAGGTT
27360776 CCCTGGCCCAGGTTTGTTGTTTTATCTTACTTCTAATCGGGATTTTCCACTAGCTGTTTCTTGTA
131 CCCTGGCCCAGGTTTGTTGTTTTATCTTACTTCTAATCGGGATTTTCCACTAGCTGTTTCTTGTA
*
27360841 GAACATGGCTTAGAAGTGGAATGTTGTTTAGTCAATTACTATTGTTTATGCTGTAGGAAACAGGG
196 GAACATGGCTTAGAAGTGGAATGTCGTTTAGTCAATTACTATTGTTTATGCTGTAGGAAACAGGG
27360906 CTGATGGTCACGACTGCTTTTCTTGTGATATAGTTTTTAAGGTTGTATTTACCATGTTGTGAATC
261 CTGATGGTCACGACTGCTTTTCTTGTGATATAGTTTTTAAGGTTGTATTTACCATGTTGTGAATC
27360971 CTCAAAATTTTACTGAACTTCGCTGTGTCCAACCCAGTTTTTTTTGCACATAAATGTCTTTTTTC
326 CTCAAAATTTTACTGAACTTCGCTGTGTCCAACCCAGTTTTTTTTGCACATAAATGTCTTTTTTC
*
27361036 TTGTGGACTAACATCTTATGTTTGTTGTGTAGGGTGGTGATTTTGGAAGAAGAGATGGTATGCAT
391 TTGTGGACTAACATCTTATGTTTGTTATGTAGGGTGGTGATTTTGGAAGAAGAGATGGTATGCAT
27361101 TCTTTGCAAAGAGGACTTTTATTTTAATTTTTTGTAGCTGTTAATTGATTTTACTTTAGATAAGA
456 TCTTTGCAAAGAGGACTTTTATTTTAATTTTTTGTAGCTGTTAATTGATTTTACTTTAGATAAGA
27361166 TCTCTTTAAGGGTTGCCATCTATGTGACTG
521 TCTCTTTAAGGGTTGCCATCTATGTGACTG
27361196 T
1 T
27361197 TGGTTGAAGT
Statistics
Matches: 549, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
550 549 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (550 bp):
TATTCACGTGTTTGTATTTTTCTGCTTTCTTAAAATATGTCTTGGTCTACAGGAGAAAAGGGTAT
TGGTCCTAAAACTGGAAAGCCATTGCACTACAAGGGTTCCTTTTTCCATCGAGTCATGAAAGGTT
CCCTGGCCCAGGTTTGTTGTTTTATCTTACTTCTAATCGGGATTTTCCACTAGCTGTTTCTTGTA
GAACATGGCTTAGAAGTGGAATGTCGTTTAGTCAATTACTATTGTTTATGCTGTAGGAAACAGGG
CTGATGGTCACGACTGCTTTTCTTGTGATATAGTTTTTAAGGTTGTATTTACCATGTTGTGAATC
CTCAAAATTTTACTGAACTTCGCTGTGTCCAACCCAGTTTTTTTTGCACATAAATGTCTTTTTTC
TTGTGGACTAACATCTTATGTTTGTTATGTAGGGTGGTGATTTTGGAAGAAGAGATGGTATGCAT
TCTTTGCAAAGAGGACTTTTATTTTAATTTTTTGTAGCTGTTAATTGATTTTACTTTAGATAAGA
TCTCTTTAAGGGTTGCCATCTATGTGACTG
Found at i:27365613 original size:43 final size:43
Alignment explanation
Indices: 27365559--27365855 Score: 195
Period size: 43 Copynumber: 6.7 Consensus size: 43
27365549 GTCAATGTTA
* * **
27365559 TAGCGGTGTTTTTAGTAGAAGCACCGCTAAAGGTCA-TGAG-CTT
1 TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGT-ATTG-GTCTT
**
27365602 TAGCGGCGTTTTGGGTAAAAGCGTCGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGTATTGGTCTT
* * *
27365645 TAGCGGTGATTTTAGAAAAAGCGTCGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGTATTGGTCTT
* * * * * **
27365688 TAGCGGCGATTCT-GCGAAAAGCATCGCTAAAGCTAAAGGTCCAAGTCTT
1 TAGCGGCGTTTTTAG-TAAAAGCGTCGCTAAAGGT--A--T--TGGTCTT
* * * * *
27365737 TAGCGGCGTTTTTGGGAAAAGCGCCACTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGTATTGGTCTT
* * * * * * * *
27365780 TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGTCTTGGTATT
1 TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGTATTGGTCTT
** *
27365823 TAGCGGCGTTTTTTTCTAAAAGCGCCGCTAAAG
1 TAGCGGCG-TTTTTAGTAAAAGCGTCGCTAAAG
27365856 TTAGCGACGC
Statistics
Matches: 205, Mismatches: 38, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
42 3 0.01
43 149 0.73
44 18 0.09
45 2 0.01
47 1 0.00
49 31 0.15
50 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTAGTAAAAGCGTCGCTAAAGGTATTGGTCTT
Found at i:27365626 original size:85 final size:86
Alignment explanation
Indices: 27365531--27365718 Score: 197
Period size: 86 Copynumber: 2.2 Consensus size: 86
27365521 TGACGTTTGT
* * *
27365531 GAAAATGCGTCGCTAAAAGTCAAT-GT-TATAGCGGTGTTTTTAGTAGAAGCACCGCTAAAGGTC
1 GAAAA-GCGTCGCTAAAAGT-AATGGTCTATAGCGGTGATTTTAGAAAAAGCACCGCTAAAGGT-
* *
27365594 A-TGAG-CTTTAGCGGCG-TTTTGG
63 ATTG-GTCTTTAGCGGCGATTCTGC
* * * **
27365616 GTAAAAGCGTCGCTAAAGGTATTGGTCTTTAGCGGTGATTTTAGAAAAAGCGTCGCTAAAGGTAT
1 G-AAAAGCGTCGCTAAAAGTAATGGTCTATAGCGGTGATTTTAGAAAAAGCACCGCTAAAGGTAT
27365681 TGGTCTTTAGCGGCGATTCTGC
65 TGGTCTTTAGCGGCGATTCTGC
*
27365703 GAAAAGCATCGCTAAA
1 GAAAAGCGTCGCTAAA
27365719 GCTAAAGGTC
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.02
85 18 0.21
86 61 0.71
87 5 0.06
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (86 bp):
GAAAAGCGTCGCTAAAAGTAATGGTCTATAGCGGTGATTTTAGAAAAAGCACCGCTAAAGGTATT
GGTCTTTAGCGGCGATTCTGC
Found at i:27368456 original size:16 final size:16
Alignment explanation
Indices: 27368431--27368571 Score: 99
Period size: 16 Copynumber: 8.3 Consensus size: 16
27368421 CGAGAAATTT
*
27368431 TTTTTAAAACACGATAA
1 TTTTTGAAACACGA-AA
27368448 -TTTTGAAACAC-AATA
1 TTTTTGAAACACGAA-A
27368463 TTTTTTGAAGACACGGAAA
1 -TTTTTGAA-ACAC-GAAA
*
27368482 TTTTTTAAACA-GAGGAA
1 TTTTTGAAACACGA--AA
27368499 TTTTTTGAAACACGAAA
1 -TTTTTGAAACACGAAA
* *
27368516 CTTTTGAAACATGAAAAA
1 TTTTTGAAACACG--AAA
*
27368534 TTTTTGAAAACATGAAA
1 TTTTTG-AAACACGAAA
* *
27368551 ATTTTGAAACACGAGA
1 TTTTTGAAACACGAAA
27368567 TTTTT
1 TTTTT
27368572 TAAAAGGACG
Statistics
Matches: 101, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.01
15 4 0.04
16 33 0.33
17 22 0.22
18 29 0.29
19 10 0.10
20 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.35
Consensus pattern (16 bp):
TTTTTGAAACACGAAA
Found at i:27368485 original size:18 final size:17
Alignment explanation
Indices: 27368431--27368563 Score: 80
Period size: 18 Copynumber: 7.8 Consensus size: 17
27368421 CGAGAAATTT
*
27368431 TTTTTAAAACAC-GATAA
1 TTTTTGAAACACGGA-AA
27368448 -TTTTGAAACAC--AATA
1 TTTTTGAAACACGGAA-A
27368463 TTTTTTGAAGACACGGAAA
1 -TTTTTGAA-ACACGGAAA
* * *
27368482 TTTTTTAAACAGAGGAAT
1 TTTTTGAAACA-CGGAAA
27368500 TTTTTGAAACAC-GAAA
1 TTTTTGAAACACGGAAA
* * *
27368516 CTTTTGAAACATGAAAAA
1 TTTTTGAAACACG-GAAA
*
27368534 TTTTTGAAA-ACATGAAA
1 TTTTTGAAACAC-GGAAA
*
27368551 ATTTTGAAACACG
1 TTTTTGAAACACG
27368564 AGATTTTTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
14 1 0.01
15 2 0.02
16 23 0.26
17 22 0.25
18 38 0.43
19 1 0.01
20 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGGAAA
Found at i:27368486 original size:19 final size:18
Alignment explanation
Indices: 27368448--27368572 Score: 79
Period size: 17 Copynumber: 7.2 Consensus size: 18
27368438 AACACGATAA
27368448 TTTTGAAACAC--AATATT
1 TTTTGAAACACGGAA-ATT
27368465 TTTTGAAGACACGGAAATT
1 TTTTGAA-ACACGGAAATT
*
27368484 TTTT-AAACA-GAGGAATT
1 TTTTGAAACACG-GAAATT
*
27368501 TTTTGAAACAC-GAAA-C
1 TTTTGAAACACGGAAATT
* * *
27368517 TTTTGAAACATGAAAAAT
1 TTTTGAAACACGGAAATT
* *
27368535 TTTTGAAA-ACATGAAA-A
1 TTTTGAAACAC-GGAAATT
*
27368552 TTTTGAAACAC-GAGATT
1 TTTTGAAACACGGAAATT
27368569 TTTT
1 TTTT
27368573 AAAAGGACGT
Statistics
Matches: 85, Mismatches: 12, Indels: 22
0.71 0.10 0.18
Matches are distributed among these distances:
16 14 0.16
17 38 0.45
18 24 0.28
19 7 0.08
20 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (18 bp):
TTTTGAAACACGGAAATT
Found at i:27368536 original size:35 final size:33
Alignment explanation
Indices: 27368430--27368561 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 33
27368420 ACGAGAAATT
* * *
27368430 TTTTTTAAAACACGATAATTTTGAAACA-CAATA
1 TTTTTTGAAACACGA-AATTTTGAAACAGAAAAA
* **
27368463 TTTTTTGAAGACACGGAAATTTTTTAAACAGAGGAA
1 TTTTTTGAA-ACAC-GAAA-TTTTGAAACAGAAAAA
27368499 TTTTTTGAAACACGAAACTTTTGAAACATGAAAAA
1 TTTTTTGAAACACGAAA-TTTTGAAACA-GAAAAA
*
27368534 -TTTTTGAAAACATGAAAATTTTGAAACA
1 TTTTTTG-AAACACG-AAATTTTGAAACA
27368562 CGAGATTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
33 8 0.10
34 25 0.31
35 35 0.43
36 13 0.16
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (33 bp):
TTTTTTGAAACACGAAATTTTGAAACAGAAAAA
Found at i:27369054 original size:10 final size:9
Alignment explanation
Indices: 27369035--27369060 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27369025 GGTTTTTTCC
27369035 TTTTTCTTT
1 TTTTTCTTT
27369044 TTTTTCTTT
1 TTTTTCTTT
27369053 TTTTTCTT
1 TTTTTCTT
27369061 CCTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:27369125 original size:14 final size:14
Alignment explanation
Indices: 27369106--27369132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27369096 GGCACTCATG
27369106 GGCCTACTGCTGGT
1 GGCCTACTGCTGGT
27369120 GGCCTACTGCTGG
1 GGCCTACTGCTGG
27369133 CACTGGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.26
Consensus pattern (14 bp):
GGCCTACTGCTGGT
Found at i:27369356 original size:4 final size:4
Alignment explanation
Indices: 27369349--27369425 Score: 72
Period size: 4 Copynumber: 19.0 Consensus size: 4
27369339 TTTTTATTTT
*
27369349 TTTC TTTCC CTTTC -TTC TTCC TTGTC CTTTC -TTC TTTC TTTC TTTC
1 TTTC TTT-C -TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TTTC
27369395 TTTC -TTC TCTT- TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC
27369426 ACGATCAGCG
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
3 11 0.18
4 39 0.63
5 7 0.11
6 5 0.08
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:27369399 original size:19 final size:19
Alignment explanation
Indices: 27369375--27369425 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 19
27369365 CTTCCTTGTC
27369375 CTTTCTTCTTTCTTTCTTT
1 CTTTCTTCTTTCTTTCTTT
27369394 CTTTCTTCTCTT-TTTCTTT
1 CTTTCTTCT-TTCTTTCTTT
27369413 CTTTCTTTCTTTC
1 CTTTC-TTCTTTC
27369426 ACGATCAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
CTTTCTTCTTTCTTTCTTT
Found at i:27369417 original size:27 final size:28
Alignment explanation
Indices: 27369347--27369425 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 28
27369337 TTTTTTTATT
* *
27369347 TTTTTCTTTCCCTTTC-TTCTTCCTTGTCC
1 TTTTTCTTT--CTTTCTTTCTTTCTTCTCC
27369376 TTTCTTCTTTCTTTCTTTCTTTCTTCT-C
1 TTT-TTCTTTCTTTCTTTCTTTCTTCTCC
27369404 TTTTTCTTTCTTTCTTTCTTTC
1 TTTTTCTTTCTTTCTTTCTTTC
27369426 ACGATCAGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 19 0.41
28 9 0.20
29 12 0.26
30 6 0.13
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (28 bp):
TTTTTCTTTCTTTCTTTCTTTCTTCTCC
Found at i:27369953 original size:29 final size:29
Alignment explanation
Indices: 27369909--27370052 Score: 135
Period size: 30 Copynumber: 4.9 Consensus size: 29
27369899 AATATCGTAA
* * **
27369909 AAATTTTAGGGCTAAAGTGTAATTTTGGG
1 AAATTTTAGGGTTAAAATGTAATTTTAAG
*
27369938 AAATTTTAGGGTTAAAATGTAATTCTAAG
1 AAATTTTAGGGTTAAAATGTAATTTTAAG
* *
27369967 AAAGTTTAAGGGTTAAAATGCAATTTTAAG
1 AAA-TTTTAGGGTTAAAATGTAATTTTAAG
* * * *
27369997 AAAGTTTAGAGGTTGAAATGTAATTTCAAA
1 AAATTTTAG-GGTTAAAATGTAATTTTAAG
* * * *
27370027 AAAGTTAAAGGTCAAAATGTAATTTT
1 AAATTTTAGGGTTAAAATGTAATTTT
27370053 TTTTAAAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
29 45 0.48
30 49 0.52
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.35
Consensus pattern (29 bp):
AAATTTTAGGGTTAAAATGTAATTTTAAG
Found at i:27370031 original size:60 final size:58
Alignment explanation
Indices: 27369937--27370052 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 58
27369927 GTAATTTTGG
* * * *
27369937 GAAATTTTAGGGTTAAAATGTAATTCTAAGAAAGTTTAAGGGTTAAAATGCAATTTTAA
1 GAAAGTTTAGGGTTAAAATGTAATTCTAAAAAAG-TTAAAGGTCAAAATGCAATTTTAA
* *
27369996 GAAAGTTTAGAGGTTGAAATGTAATT-TCAAAAAAGTTAAAGGTCAAAATGTAATTTT
1 GAAAGTTTAG-GGTTAAAATGTAATTCT-AAAAAAGTTAAAGGTCAAAATGCAATTTT
27370053 TTTTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 29 0.59
60 20 0.41
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.34
Consensus pattern (58 bp):
GAAAGTTTAGGGTTAAAATGTAATTCTAAAAAAGTTAAAGGTCAAAATGCAATTTTAA
Found at i:27372577 original size:27 final size:27
Alignment explanation
Indices: 27372547--27372625 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
27372537 TTGCCAATTA
* * * *
27372547 GTTTGGCAAGCTGGAGTTCACTAGTTG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
* *
27372574 GTTTGGCGAGTTGGGGTTCGCCAGTAG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
*
27372601 GTTTTGCGAGCTGGGGTTCACCAGT
1 GTTTGGCGAGCTGGGGTTCACCAGT
27372626 CTAAGTCAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.14, C:0.16, G:0.38, T:0.32
Consensus pattern (27 bp):
GTTTGGCGAGCTGGGGTTCACCAGTAG
Found at i:27373216 original size:14 final size:16
Alignment explanation
Indices: 27373199--27373230 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27373189 TCAAGTTGTG
27373199 TTTTT-AAGTTAT-TT
1 TTTTTAAAGTTATGTT
27373213 TTTTTAAAGTTATGTT
1 TTTTTAAAGTTATGTT
27373229 TT
1 TT
27373231 ATGCGTGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTTTAAAGTTATGTT
Found at i:27376727 original size:43 final size:43
Alignment explanation
Indices: 27376658--27376739 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
27376648 TATGTGATTG
* *
27376658 ATATTGAAATGAAAAAGATTAGAAATGAATATGAGATGAAAAA
1 ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAAAAA
* * *
27376701 ATATTGAAATGACAAATATGAAAAATGATTATGAGATGA
1 ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGA
27376740 GAAATGAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.55, C:0.01, G:0.18, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAAAAA
Found at i:27377663 original size:30 final size:30
Alignment explanation
Indices: 27377629--27377703 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
27377619 CACGGCTTGG
* *
27377629 ACACACGGGCGTGTGTCACACACGGGCAAC
1 ACACATGGGCGTGTGTCACACACAGGCAAC
*
27377659 ACACATGGGCATGTGTCACACACAGGCAAC
1 ACACATGGGCGTGTGTCACACACAGGCAAC
27377689 ACACATGGGCGTGTG
1 ACACATGGGCGTGTG
27377704 ACCCAAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.13
Consensus pattern (30 bp):
ACACATGGGCGTGTGTCACACACAGGCAAC
Found at i:27382997 original size:2 final size:2
Alignment explanation
Indices: 27382990--27383027 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27382980 CAAGGCTCAC
27382990 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
27383028 GATGATTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27392357 original size:166 final size:166
Alignment explanation
Indices: 27392083--27392417 Score: 580
Period size: 166 Copynumber: 2.0 Consensus size: 166
27392073 AAGTTTTGAG
27392083 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
1 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
*
27392148 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTGAGCATTTTCATGTAATCATT
66 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
27392213 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
131 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
* * **
27392249 TAAGGAACTGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTTATTTTTGATGACTTT
1 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
* * *
27392314 GAGGATCTTATGACTCTGTTGTGTTCTTCTTTTAGGAAATCTTTCTGCATTTTCATGTAATCATT
66 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
* *
27392379 GTGATTGTCTAGTTGTCTTCTCTAATTTCTTTTAAT
131 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
27392415 TAA
1 TAA
27392418 TGTTAATTTT
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 159 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (166 bp):
TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
Found at i:27402306 original size:81 final size:81
Alignment explanation
Indices: 27402171--27402340 Score: 331
Period size: 81 Copynumber: 2.1 Consensus size: 81
27402161 ACTGAAAACG
27402171 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
1 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
27402236 CGCATCCTGGCGCACA
66 CGCATCCTGGCGCACA
*
27402252 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTGGCATGTAAGTGCATACTAGCGCATACAA
1 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
27402317 CGCATCCTGGCGCACA
66 CGCATCCTGGCGCACA
27402333 AAGTGCAT
1 AAGTGCAT
27402341 ATTTGGCACA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (81 bp):
AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
CGCATCCTGGCGCACA
Found at i:27402601 original size:21 final size:21
Alignment explanation
Indices: 27402569--27402619 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
27402559 TATTCTCACT
27402569 CAATTCCATAACATATTTCAGA
1 CAATT-CATAACATATTTCAGA
27402591 CAATTCATAACATATTTCAGA
1 CAATTCATAACATATTTCAGA
27402612 CAATTCAT
1 CAATTCAT
27402620 GCTATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
CAATTCATAACATATTTCAGA
Found at i:27415988 original size:21 final size:20
Alignment explanation
Indices: 27415963--27416001 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27415953 TAGAAATAAG
27415963 TATATAAATTAAATGCTAACA
1 TATATAAATTAAAT-CTAACA
* *
27415984 TATATCAATTGAATCTAA
1 TATATAAATTAAATCTAA
27416002 TCATGGAAAA
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:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
TATATAAATTAAATCTAACA
Found at i:27417164 original size:20 final size:20
Alignment explanation
Indices: 27417139--27417276 Score: 77
Period size: 20 Copynumber: 6.9 Consensus size: 20
27417129 ATAGATGCGT
27417139 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
27417159 AACAGAGGCA-C-AATTTTGCA
1 AACAGAGGCACCGAA--GTGCA
* * *
27417179 ATCAAAGGCA-CGATTGTGCA
1 AACAGAGGCACCGA-AGTGCA
** * **
27417199 ATGAGAGGCACTGCTGTGCA
1 AACAGAGGCACCGAAGTGCA
** *
27417219 AACAGAAACACCGAAGTGTA
1 AACAGAGGCACCGAAGTGCA
* *
27417239 AATAGAGGCACTGAAGTGCGA
1 AACAGAGGCACCGAAGTGC-A
*
27417260 AA-AGAGGCACTGAAGTG
1 AACAGAGGCACCGAAGTG
27417277 TAATCCCGTA
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 82 0.91
21 5 0.06
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.14
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:27419049 original size:42 final size:42
Alignment explanation
Indices: 27419002--27419082 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
27418992 TTTCGAACAG
27419002 ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
1 ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
27419044 ATTGGTTATTAAAACAATTCATTAATTACATTAATATAC
1 ATTGGTTATTAAAACAATTCATTAATTACATTAATATAC
27419083 TTTGTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (42 bp):
ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
Found at i:27425427 original size:38 final size:38
Alignment explanation
Indices: 27425373--27425471 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
27425363 ACCAGTAGGC
* ** *
27425373 CGAAGG-CCAGTAGATAACTGTTCGTACGGTGTTGCCT
1 CGAAGGACCAGTAGATAACCGTTCACACAGTGTTGCCT
*
27425410 CGAAGGACCAGTGGATAACCGTTCACACAGTGTTGCCT
1 CGAAGGACCAGTAGATAACCGTTCACACAGTGTTGCCT
* *
27425448 CGAAGGACGAGTAGATAGCCGTTC
1 CGAAGGACCAGTAGATAACCGTTC
27425472 CATGATTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 6 0.11
38 47 0.89
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.22
Consensus pattern (38 bp):
CGAAGGACCAGTAGATAACCGTTCACACAGTGTTGCCT
Found at i:27431445 original size:7 final size:7
Alignment explanation
Indices: 27431442--27431484 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
27431432 AATAAAAAAG
27431442 AAAAGAA
1 AAAAGAA
27431449 AAAAGAA
1 AAAAGAA
27431456 AAAAGAA
1 AAAAGAA
27431463 AAAA-AA
1 AAAAGAA
27431469 AAGAA-AA
1 AA-AAGAA
27431476 AAAAGAA
1 AAAAGAA
27431483 AA
1 AA
27431485 TTAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:27431457 original size:18 final size:19
Alignment explanation
Indices: 27431435--27431477 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
27431425 AAATAACAAT
27431435 AAAAAAGAAAAGAAAAAAG
1 AAAAAAGAAAAGAAAAAAG
27431454 AAAAAAGAAAA-AAAAAAG
1 AAAAAAGAAAAGAAAAAAG
27431472 AAAAAA
1 AAAAAA
27431478 AAGAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAGAAAAAAG
Found at i:27431478 original size:19 final size:20
Alignment explanation
Indices: 27431435--27431484 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
27431425 AAATAACAAT
27431435 AAAAAAGAAAAGAAAAAAG-
1 AAAAAAGAAAAGAAAAAAGA
27431454 AAAAAAGAAAA-AAAAAAGAA
1 AAAAAAGAAAAGAAAAAAG-A
27431474 AAAAAAGAAAA
1 AAAAAAGAAAA
27431485 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.24
19 11 0.38
20 11 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAAAGA
Found at i:27431494 original size:19 final size:18
Alignment explanation
Indices: 27431411--27431484 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
27431401 ATAAATCCAG
* *
27431411 AAAAGAAGAAAAACAAATA
1 AAAAGAA-AAAAAAAAAAA
* * *
27431430 ACAATAAAAAAGAAAAGAA
1 AAAAGAAAAAA-AAAAAAA
*
27431449 AAAAGAAAAAAGAAAAAA
1 AAAAGAAAAAAAAAAAAA
27431467 AAAAGAAAAAAAAGAAAA
1 AAAAGAAAAAAAA-AAAA
27431485 TTAAATAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 21 0.49
19 22 0.51
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAAAA
Found at i:27433350 original size:9 final size:9
Alignment explanation
Indices: 27433336--27433362 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
27433326 ATATTTATAA
27433336 CTCATAAAC
1 CTCATAAAC
27433345 CTCATAAAC
1 CTCATAAAC
27433354 CTCATAAAC
1 CTCATAAAC
27433363 AAAAGCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (9 bp):
CTCATAAAC
Found at i:27437229 original size:20 final size:20
Alignment explanation
Indices: 27437204--27437243 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27437194 AACATTCAAA
27437204 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
27437224 ATACCATAACACAAGCCAAG
1 ATACCATAACACAAGCCAAG
27437244 CCATATGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.12
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:27438370 original size:25 final size:25
Alignment explanation
Indices: 27438342--27438438 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 25
27438332 GTATGCGCAT
* * *
27438342 ACGAGTTATGAATCGGTATGCTCTC
1 ACGAGCTATAAATCGGTAAGCTCTC
27438367 ACGAGCTATAAATCGGTAAGCTCAT-
1 ACGAGCTATAAATCGGTAAGCTC-TC
* * *
27438392 ACGAGCTGA-GAATCGATAAGCTCTA
1 ACGAGCT-ATAAATCGGTAAGCTCTC
**
27438417 ACGAGCT-GCAATCGGTAAGCTC
1 ACGAGCTATAAATCGGTAAGCTC
27438439 ATATGAACCG
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
24 13 0.21
25 46 0.75
26 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
ACGAGCTATAAATCGGTAAGCTCTC
Found at i:27444600 original size:9 final size:9
Alignment explanation
Indices: 27444586--27444634 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
27444576 GTAGTGATTC
27444586 AATTCGGTT
1 AATTCGGTT
*
27444595 AATTCGGGT
1 AATTCGGTT
27444604 AATTCGGTT
1 AATTCGGTT
* *
27444613 AATTTGTTT
1 AATTCGGTT
27444622 AATTCGGTT
1 AATTCGGTT
27444631 AATT
1 AATT
27444635 TTAAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27444988 original size:18 final size:19
Alignment explanation
Indices: 27444957--27444992 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27444947 TTAATTAATT
27444957 TGATTTTGATTTTTGTTCC
1 TGATTTTGATTTTTGTTCC
27444976 TGATTTT-ATTTTTGTTC
1 TGATTTTGATTTTTGTTC
27444993 AAATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.11, C:0.08, G:0.14, T:0.67
Consensus pattern (19 bp):
TGATTTTGATTTTTGTTCC
Found at i:27446821 original size:7 final size:7
Alignment explanation
Indices: 27446811--27446835 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27446801 TATAATGATA
27446811 ATTATTT
1 ATTATTT
27446818 ATTATTT
1 ATTATTT
27446825 ATTATTT
1 ATTATTT
27446832 ATTA
1 ATTA
27446836 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTATTT
Found at i:27447265 original size:21 final size:21
Alignment explanation
Indices: 27447239--27447280 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27447229 ATAATATAAG
*
27447239 TAATGAGTAGCTTATTTTTCT
1 TAATGAGTAGCTTATATTTCT
*
27447260 TAATGAGTTGCTTATATTTCT
1 TAATGAGTAGCTTATATTTCT
27447281 AAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
TAATGAGTAGCTTATATTTCT
Found at i:27452676 original size:27 final size:27
Alignment explanation
Indices: 27452636--27452689 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
27452626 ATAAAAATCC
*
27452636 TTGTCTAAATCCCATCCAAGTCGGGTT
1 TTGTCTAAACCCCATCCAAGTCGGGTT
*
27452663 TTGTCTAAACCCCATTCAAGTCGGGTT
1 TTGTCTAAACCCCATCCAAGTCGGGTT
27452690 GGGCGGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
TTGTCTAAACCCCATCCAAGTCGGGTT
Found at i:27453666 original size:21 final size:19
Alignment explanation
Indices: 27453642--27453684 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
27453632 AAAATAAAAT
27453642 AATTAAGATAAAAATATTACA
1 AATTAA-ATAAAAATATTA-A
* *
27453663 AATTAATTTAAAATATTAA
1 AATTAAATAAAAATATTAA
27453682 AAT
1 AAT
27453685 ATTGTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATTAAATAAAAATATTAA
Found at i:27454088 original size:18 final size:18
Alignment explanation
Indices: 27454042--27454104 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
27454032 TCGAGATAAT
27454042 GAAAAAT-ATTAAATTTAAA
1 GAAAAATAATT-AA-TTAAA
27454061 -AATAAA-AATTAATTAAA
1 GAA-AAATAATTAATTAAA
27454078 GAAAAATAATTTAA-TAAA
1 GAAAAATAA-TTAATTAAA
*
27454096 TAAAAATAA
1 GAAAAATAA
27454105 ACTAGAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 8 0.21
18 20 0.53
19 10 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
GAAAAATAATTAATTAAA
Found at i:27454091 original size:19 final size:18
Alignment explanation
Indices: 27454069--27454104 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27454059 AAAATAAAAA
27454069 TTAATTAAAGAAAAATAAT
1 TTAA-TAAAGAAAAATAAT
*
27454088 TTAATAAATAAAAATAA
1 TTAATAAAGAAAAATAA
27454105 ACTAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAATAAAGAAAAATAAT
Found at i:27456814 original size:13 final size:13
Alignment explanation
Indices: 27456796--27456820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27456786 TAATTTATAT
27456796 GTGTGAAAATTTC
1 GTGTGAAAATTTC
27456809 GTGTGAAAATTT
1 GTGTGAAAATTT
27456821 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:27458276 original size:41 final size:41
Alignment explanation
Indices: 27458216--27458328 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
27458206 TATAATTGGT
* * *
27458216 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
27458257 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
27458298 CTTCAGACTTTATGTCTAGCAGGCTTCATGC
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGC
27458329 TAGTGTACTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:27458350 original size:41 final size:39
Alignment explanation
Indices: 27458217--27458341 Score: 126
Period size: 41 Copynumber: 3.1 Consensus size: 39
27458207 ATAATTGGTT
* * * * * *
27458217 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTG-A-TAC
* *
27458258 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTG-A-TAC
*
27458299 TTCAGACTTTATGTCTAGCAGGCTTCATGCTAGTG-TAC
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTGATAC
27458337 TTCAG
1 TTCAG
27458342 TAAGCTTTAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 8 0.10
41 69 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (39 bp):
TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTGATAC
Found at i:27460723 original size:6 final size:6
Alignment explanation
Indices: 27460709--27460755 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
27460699 AGAACAAATT
* * *
27460709 AGATAC AGATGC AGATGC AGATGC AGA-GT AGAT-C AGATAC AGATGC
1 AGATGC AGATGC AGATGC AGATGC AGATGC AGATGC AGATGC AGATGC
27460755 A
1 A
27460756 AAACAAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 8 0.23
6 27 0.77
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (6 bp):
AGATGC
Found at i:27461548 original size:62 final size:63
Alignment explanation
Indices: 27461410--27461579 Score: 193
Period size: 62 Copynumber: 2.7 Consensus size: 63
27461400 TCCTTCACAT
* * * * *
27461410 GGCCTAGACACACGCCCGTGTCACTGTCCCGTGTGACCTTAAATCCAAAACAGTAAGTTACAC
1 GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAATCAAAAACAATAAGTTACAC
* * * * * *
27461473 AGCCTGGACACACGCCTGTGTCCCTGACCTGTGTGACC-T-AATGTAAAAACAATGAGTTATAC
1 GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAAT-CAAAAACAATAAGTTACAC
*
27461535 GGCCTGGACACACGCCCGTGTCCCTCG-CTCGTGTGACCTTAAATC
1 GGCCTGGACACACGCCCGTGTCCCT-GACCCGTGTGACCTTAAATC
27461580 CATAAACAGT
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
61 3 0.03
62 47 0.54
63 34 0.39
64 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (63 bp):
GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAATCAAAAACAATAAGTTACAC
Found at i:27462845 original size:18 final size:19
Alignment explanation
Indices: 27462819--27462855 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27462809 TTAAAAAGTC
*
27462819 AAAATAATAT-ATAAAAAT
1 AAAAAAATATCATAAAAAT
27462837 AAAAAAATATCATAAAAAT
1 AAAAAAATATCATAAAAAT
27462856 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATATCATAAAAAT
Found at i:27462939 original size:15 final size:15
Alignment explanation
Indices: 27462919--27462949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27462909 ACTTTTTAGA
27462919 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
27462934 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
27462949 A
1 A
27462950 AAAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:27462961 original size:23 final size:22
Alignment explanation
Indices: 27462905--27462962 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
27462895 CTTGAAATTT
*
27462905 AAATACTTTTTAGAATTTTAGAA
1 AAATA-TTTTTAGAATTTTAAAA
**
27462928 TTATATATTTTAGAATTTTATAAA
1 AAATAT-TTTTAGAATTTTA-AAA
27462952 AAATATTTTTA
1 AAATATTTTTA
27462963 AACCTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 1 0.04
23 21 0.75
24 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
AAATATTTTTAGAATTTTAAAA
Found at i:27462988 original size:18 final size:18
Alignment explanation
Indices: 27462967--27463018 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
27462957 TTTTTAAACC
* *
27462967 TTTTTTTTATTTTTTACA
1 TTTTTTTCAATTTTTACA
27462985 TTTTTTTCAATTTTTACA
1 TTTTTTTCAATTTTTACA
* * *
27463003 ATATTTTAAATTTTTA
1 TTTTTTTCAATTTTTA
27463019 ATAACATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTCAATTTTTACA
Found at i:27463004 original size:9 final size:9
Alignment explanation
Indices: 27462977--27463018 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
27462967 TTTTTTTTAT
*
27462977 TTTTTACAT
1 TTTTTACAA
*
27462986 TTTTTTCAA
1 TTTTTACAA
27462995 TTTTTACAA
1 TTTTTACAA
27463004 TATTTTA-AA
1 T-TTTTACAA
27463013 TTTTTA
1 TTTTTA
27463019 ATAACATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTACAA
Found at i:27463514 original size:30 final size:30
Alignment explanation
Indices: 27463480--27463542 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
27463470 ACTTATTTTA
27463480 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
27463510 TTGTTAATTTTGTTATTATTTTAGAGTCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
27463540 TTG
1 TTG
27463543 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:27463690 original size:12 final size:11
Alignment explanation
Indices: 27463657--27463696 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
27463647 GATATATTAT
*
27463657 ATAATTTAAAA
1 ATAATATAAAA
*
27463668 ATTATATAAAA
1 ATAATATAAAA
27463679 ATAATATAAAA
1 ATAATATAAAA
27463690 ATTAATA
1 A-TAATA
27463697 CGGGCGTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:27464612 original size:19 final size:21
Alignment explanation
Indices: 27464576--27464631 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
27464566 AAAAAAAGAA
27464576 TCAAAATAATTTTCAAAAA-T
1 TCAAAATAATTTTCAAAAATT
27464596 TCAAAAT-ATTTAT-AAAAATT
1 TCAAAATAATTT-TCAAAAATT
*
27464616 TCAAAA-AAATTTCAAA
1 TCAAAATAATTTTCAAA
27464632 TTTTATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (21 bp):
TCAAAATAATTTTCAAAAATT
Found at i:27465006 original size:13 final size:13
Alignment explanation
Indices: 27464988--27465016 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27464978 AAAATAAGAC
27464988 TAATCAAGTCTAT
1 TAATCAAGTCTAT
27465001 TAATCAAGTCTAT
1 TAATCAAGTCTAT
27465014 TAA
1 TAA
27465017 CTTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (13 bp):
TAATCAAGTCTAT
Found at i:27472864 original size:25 final size:26
Alignment explanation
Indices: 27472828--27472946 Score: 93
Period size: 25 Copynumber: 4.7 Consensus size: 26
27472818 GTTTTGACCC
* *
27472828 ACAGCTCATGTGAGCATACT-GATTT
1 ACAGCTCGTGTGAGCATACTAGATCT
* *
27472853 ATAGCTCGTGTGAGCATA-TCGATCT
1 ACAGCTCGTGTGAGCATACTAGATCT
* * *
27472878 ACAGATCGTGTGAGCATA-TAGGTTT
1 ACAGCTCGTGTGAGCATACTAGATCT
* * * *
27472903 ATAGCTTGTGAGAGCATAC-CGATCT
1 ACAGCTCGTGTGAGCATACTAGATCT
* *
27472928 ACAGCTCGAGTGAACATAC
1 ACAGCTCGTGTGAGCATAC
27472947 CGTTTCACAG
Statistics
Matches: 72, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
24 1 0.01
25 71 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCATACTAGATCT
Found at i:27472894 original size:50 final size:51
Alignment explanation
Indices: 27472836--27472946 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 51
27472826 CCACAGCTCA
* *
27472836 TGTGAGCATACT-GATTTATAGCTCGTGTGAGCATATCGATCTACAGATCG
1 TGTGAGCATACTAGATTTATAGCTCGTGAGAGCATACCGATCTACAGATCG
* * *
27472886 TGTGAGCATA-TAGGTTTATAGCTTGTGAGAGCATACCGATCTACAGCTCG
1 TGTGAGCATACTAGATTTATAGCTCGTGAGAGCATACCGATCTACAGATCG
* *
27472936 AGTGAACATAC
1 TGTGAGCATAC
27472947 CGTTTCACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.02
50 51 0.98
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (51 bp):
TGTGAGCATACTAGATTTATAGCTCGTGAGAGCATACCGATCTACAGATCG
Found at i:27473651 original size:20 final size:20
Alignment explanation
Indices: 27473609--27473655 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
27473599 TATTTAAGCT
*
27473609 AAAGATAATAAATGCAAGGG
1 AAAGATAATAAATGCAAAGG
*
27473629 AAAG-TAATGAAATGCAAATG
1 AAAGATAAT-AAATGCAAAGG
27473649 AAA-ATAA
1 AAAGATAA
27473656 GAAAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAGATAATAAATGCAAAGG
Found at i:27475882 original size:41 final size:41
Alignment explanation
Indices: 27475825--27475908 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
27475815 CCAAGGTATA
27475825 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
1 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
27475866 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
1 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
27475907 AA
1 AA
27475909 CTTAAGTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (41 bp):
AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
Found at i:27475895 original size:23 final size:23
Alignment explanation
Indices: 27475828--27475895 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
27475818 AGGTATAAAG
27475828 GCTAAAAGTGTAAATAAACCTAA
1 GCTAAAAGTGTAAATAAACCTAA
* *
27475851 GCT-ACA-T-T-GAT-AA-CTAA
1 GCTAAAAGTGTAAATAAACCTAA
27475868 GGCTAAAAGTGTAAATAAACCTAA
1 -GCTAAAAGTGTAAATAAACCTAA
27475892 GCTA
1 GCTA
27475896 CATTGATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 4 0.12
18 5 0.15
19 4 0.12
20 2 0.06
21 2 0.06
22 4 0.12
23 9 0.26
24 4 0.12
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (23 bp):
GCTAAAAGTGTAAATAAACCTAA
Found at i:27480248 original size:37 final size:37
Alignment explanation
Indices: 27480123--27480258 Score: 121
Period size: 37 Copynumber: 3.7 Consensus size: 37
27480113 AGGTCTTCGA
* * * * * * *
27480123 AGCATTTGTCATGTTATTGGCTGGACTAGCTCTACGG
1 AGCATTTGGCGTGTTATCGGTTGGATTACCTCTATGG
* *
27480160 AGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTTGG
1 AGCATTTGGCGTGTTATCGGTTGGATTACCTCTATGG
* * * *
27480197 AACATATGGTGTGTTATCAGTTGGATTACCTCTCAT-G
1 AGCATTTGGCGTGTTATCGGTTGGATTACCTCT-ATGG
* *
27480234 AGCATTTGACGTGTTTTCGGTTGGA
1 AGCATTTGGCGTGTTATCGGTTGGA
27480259 CTATTGTGCT
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
37 78 0.99
38 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (37 bp):
AGCATTTGGCGTGTTATCGGTTGGATTACCTCTATGG
Found at i:27486697 original size:40 final size:40
Alignment explanation
Indices: 27486621--27486704 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
27486611 TGTATAAGCC
*
27486621 TTCAGGAGTACCGAAGTACAAACAGAGACATATATGTGCA
1 TTCAGGAGTACCGAAGTACAAACAGAGACACATATGTGCA
* * * *
27486661 TTCAGGGGTACTGAAGTACAAACATG-GGCACGTATGTGCA
1 TTCAGGAGTACCGAAGTACAAACA-GAGACACATATGTGCA
27486701 TTCA
1 TTCA
27486705 TAGAACAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
TTCAGGAGTACCGAAGTACAAACAGAGACACATATGTGCA
Done.