Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 112 of 259
Found at i:36087043 original size:44 final size:42
Alignment explanation
Indices: 36086980--36087085 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 42
36086970 ATGTGTTTTT
* * * * *
36086980 GTGTAAGACCACGCCTGGGAAATTGGCATGGACT-TATGATTTAC
1 GTGTAAGACCATGTCTGGGAAATCGGCAT-CA-TATATAATTT-C
* *
36087024 GTGTAAGACCATGTCTGGGACATCGGCATCATATTTAATTTC
1 GTGTAAGACCATGTCTGGGAAATCGGCATCATATATAATTTC
*
36087066 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
36087086 CAGTGATATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 21 0.40
43 7 0.13
44 25 0.47
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGAAATCGGCATCATATATAATTTC
Found at i:36087115 original size:43 final size:42
Alignment explanation
Indices: 36087020--36087129 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
36087010 GACTTATGAT
*
36087020 TTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTAA
1 TTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTAA
* * * *
36087062 TTTCGTGTAAGACCCTGTCTGGGACAGT-GATATCAATATTTGA
1 TTACGTGTAAGACCATGTCTGGGACA-TCGACATC-ATATTTAA
* * *
36087105 TTACATGTAAGACCACGTTTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
36087130 TTGGCATTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTAA
Found at i:36088764 original size:27 final size:27
Alignment explanation
Indices: 36088727--36089043 Score: 544
Period size: 27 Copynumber: 11.6 Consensus size: 27
36088717 TAAATTGTGC
*
36088727 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36088754 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36088781 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36088809 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36088837 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36088864 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36088892 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36088919 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36088947 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
36088974 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
36089002 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
36089029 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36089044 GACTTAATAT
Statistics
Matches: 282, Mismatches: 4, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
27 147 0.52
28 135 0.48
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:36088814 original size:55 final size:55
Alignment explanation
Indices: 36088727--36089043 Score: 573
Period size: 55 Copynumber: 5.8 Consensus size: 55
36088717 TAAATTGTGC
*
36088727 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36088781 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36088837 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36088892 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
36088947 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
36089002 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
36089044 GACTTAATAT
Statistics
Matches: 256, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
54 16 0.06
55 213 0.83
56 27 0.11
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:36096945 original size:27 final size:27
Alignment explanation
Indices: 36096908--36097169 Score: 452
Period size: 27 Copynumber: 9.6 Consensus size: 27
36096898 TAAATTGTGC
*
36096908 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36096935 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36096963 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36096990 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36097018 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36097045 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
36097073 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
36097100 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
36097128 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
36097155 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36097170 GACTTAATAT
Statistics
Matches: 227, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
27 119 0.52
28 108 0.48
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:36096973 original size:55 final size:55
Alignment explanation
Indices: 36096908--36097169 Score: 488
Period size: 55 Copynumber: 4.8 Consensus size: 55
36096898 TAAATTGTGC
*
36096908 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36096963 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36097018 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
36097073 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
36097128 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
36097170 GACTTAATAT
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 203 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:36103481 original size:20 final size:20
Alignment explanation
Indices: 36103458--36103515 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
36103448 TATAACCTAC
36103458 AGTTCATCTGTATAAACAGT
1 AGTTCATCTGTATAAACAGT
*
36103478 AGTTCATCAGTAGT-AACAGT
1 AGTTCATCTGTA-TAAACAGT
*
36103498 AATTCAT-TCGTATAAACA
1 AGTTCATCT-GTATAAACA
36103516 CATATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
AGTTCATCTGTATAAACAGT
Found at i:36103741 original size:26 final size:26
Alignment explanation
Indices: 36103677--36103747 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 26
36103667 CTCCGCCTAT
**
36103677 TGAGCTGA-AAA-GGTAAGCT-CTTT
1 TGAGCTGATAAACGGTAAGCTCCTCC
* *
36103700 TGAGC-CATAATCGGTAAGCTCCTCC
1 TGAGCTGATAAACGGTAAGCTCCTCC
*
36103725 TGAGCTGATAAACGGTATGCTCC
1 TGAGCTGATAAACGGTAAGCTCC
36103748 GAATAGCTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.03
23 7 0.19
24 8 0.22
25 7 0.19
26 14 0.38
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
TGAGCTGATAAACGGTAAGCTCCTCC
Found at i:36103983 original size:23 final size:24
Alignment explanation
Indices: 36103952--36103997 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
36103942 TCAATTTACG
*
36103952 AAATCATATATGTACAATTCAATC
1 AAATCATATATATACAATTCAATC
*
36103976 AAAT-ATATATATACATTTCAAT
1 AAATCATATATATACAATTCAAT
36103998 ACTCAATTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATCATATATATACAATTCAATC
Found at i:36107329 original size:94 final size:93
Alignment explanation
Indices: 36107170--36107388 Score: 235
Period size: 94 Copynumber: 2.3 Consensus size: 93
36107160 TATGTGTGCT
* * * *
36107170 AGTGTAAGACATGTCTGAGACATGCATCAACCACAGTATGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATC-AGCACAGTATGAGAGCTAGTGTAAGAAATATCTGGG
* **
36107235 ACATGCATCAG-CTTCGAGATATTTAAGCC
65 ACAGGCATCAGCCTT-GAGATATACAAGCC
* * * *
36107264 AGTGTAAGACATGTTTGGGACATGCATCAGCATTGAG-ATGAGAGTTAGTGTAAGAAATATTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGTATGAGAGCTAGTGTAAGAAATATCTGG
* * *
36107328 GACAGGCATCGGCCTTGTGATATACAAGCT
64 GACAGGCATCAGCCTTGAGATATACAAGCC
* *
36107358 AGTGTAAGACCTATCTGGGACATGGCATCAG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG
36107389 TTTGTGATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
93 3 0.03
94 89 0.86
95 12 0.12
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGTATGAGAGCTAGTGTAAGAAATATCTGGGA
CAGGCATCAGCCTTGAGATATACAAGCC
Found at i:36107396 original size:48 final size:47
Alignment explanation
Indices: 36107167--36107392 Score: 172
Period size: 46 Copynumber: 4.8 Consensus size: 47
36107157 TGATATGTGT
* * * *** *
36107167 GCTAGTGTAAGACATGTCTGAGACATGCATCAAC-CACAG-TATGAGA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATAT-AAA
* * *
36107213 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGAGATATTTAA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATA-TAAA
* * * * * *
36107261 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCATTGAGAT-GAGA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATAAA
* * * * * * *
36107307 GTTAGTGTAAGAAATATTTGGGACAGGCATCGGCCTTGTGATATACAA
1 GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATA-AA
*
36107355 GCTAGTGTAAGACCTATCTGGGACATGGCATCAG-TTTG
1 GCTAGTGTAAGACATATCTGGGACAT-GCATCAGCTTTG
36107393 TGATGTGTCA
Statistics
Matches: 143, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
46 67 0.47
47 3 0.02
48 66 0.46
49 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACATATCTGGGACATGCATCAGCTTTGAGATATAAA
Found at i:36114567 original size:48 final size:48
Alignment explanation
Indices: 36114496--36114588 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
36114486 TTCTACTAAA
* *
36114496 CCGAAGCACTTTCTTCTATGGAGACACTTTCAAAAACACTTTGTCGCT
1 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTCGCT
36114544 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTC
1 CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTC
36114589 ACTGACCTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (48 bp):
CCGAAGCACTTTCTTCCATGGAGACACTTTCAAAAACAATTTGTCGCT
Found at i:36118284 original size:55 final size:55
Alignment explanation
Indices: 36118200--36118311 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
36118190 ACTCAACCTT
36118200 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
1 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
* *
36118255 ACAAATTCCTGCTTGTATTCTGTGACAAACATACGGCCTTGTTTAAGCTCGAGAA
1 ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
36118310 AC
1 AC
36118312 TCTTTGCATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (55 bp):
ACAAATTCCTGCTCGTATTCTGTGACAAACATACGACCTTGTTTAAGCTCGAGAA
Found at i:36126264 original size:15 final size:15
Alignment explanation
Indices: 36126244--36126312 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36126234 GTATCTTAGG
36126244 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36126259 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36126274 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36126289 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36126304 TTTCTTTAT
1 TTTCTTTAT
36126313 TCAGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36126313 original size:30 final size:30
Alignment explanation
Indices: 36126235--36126314 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
36126225 CATAGTATCG
* *
36126235 TATCTTAGG-TTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATTCTGGATCTCTC
* *
36126265 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
36126295 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
36126315 AGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.07
30 39 0.91
31 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:36130478 original size:18 final size:18
Alignment explanation
Indices: 36130455--36130490 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36130445 GAGATGGCTG
36130455 GAGTTGATAAAAGACTAT
1 GAGTTGATAAAAGACTAT
*
36130473 GAGTTGATAATAGACTAT
1 GAGTTGATAAAAGACTAT
36130491 CACTCGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAT
Found at i:36133413 original size:48 final size:47
Alignment explanation
Indices: 36133297--36133462 Score: 140
Period size: 48 Copynumber: 3.5 Consensus size: 47
36133287 TATTTGTGCT
* * * * *
36133297 AGTGTAAGACATGTCTGGGACATGCATTAGCCAC-CG-TATGA-GAGAC
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGATAT-ACAAGCC
* * **
36133343 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGGTATTTAAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGATATACAAGCC
* * *
36133391 AGTGTAAGACATGTCATGGACATGTATCAGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTC-TGGACATGCATCAGCCTCGAGATATACAAGCC
* *
36133439 AGTGTAAGACCTGTCCGGGACATG
1 AGTGTAAGACATGT-CTGGACATG
36133463 GGGTCAGCTT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
46 31 0.31
47 1 0.01
48 65 0.66
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGACATGCATCAGCCTCGAGATATACAAGCC
Found at i:36138880 original size:19 final size:20
Alignment explanation
Indices: 36138856--36138902 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
36138846 ATAACCTGTG
36138856 GTTCATCCGT-ATAACAGTA
1 GTTCATCCGTAATAACAGTA
*
36138875 GTTCATCGGTAATAACAGTA
1 GTTCATCCGTAATAACAGTA
*
36138895 ATTCATCC
1 GTTCATCC
36138903 ACATAAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (20 bp):
GTTCATCCGTAATAACAGTA
Found at i:36139181 original size:22 final size:23
Alignment explanation
Indices: 36139153--36139196 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
36139143 ACGGTTAGCT
36139153 CTGAAGAGCTG-AATGGTAAGCC
1 CTGAAGAGCTGAAATGGTAAGCC
36139175 CTGAAGAGCTGAAATGGTAAGC
1 CTGAAGAGCTGAAATGGTAAGC
36139197 TTATATGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (23 bp):
CTGAAGAGCTGAAATGGTAAGCC
Found at i:36145252 original size:20 final size:20
Alignment explanation
Indices: 36145229--36145285 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
36145219 ATAACCTGTG
*
36145229 GTTCATCCGTATAAATAGTA
1 GTTCATCCGTATAAACAGTA
**
36145249 GTTCATTAGTA-ATAACAGTA
1 GTTCATCCGTATA-AACAGTA
*
36145269 ATTCATCCGTATAAACA
1 GTTCATCCGTATAAACA
36145286 CATATTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
GTTCATCCGTATAAACAGTA
Found at i:36147473 original size:81 final size:81
Alignment explanation
Indices: 36147358--36147624 Score: 376
Period size: 81 Copynumber: 3.3 Consensus size: 81
36147348 CTTAACATAA
* * * *
36147358 AAGGGCAAAATAGTCATCTTACCACAAAAGGGCAAAACAATCATTTTACCTCATAAAGGG-AAAA
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACAT-AAGGGCAAAA
36147422 CAATCATTTTACCTCAT
65 CAATCATTTTACCTCAT
* * * * *
36147439 ATGGGCAAAATAGTCATTTTACCTTAAAAAGGCAAAACAATCATTTTACCACGTAAGGGCAAAAC
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
36147504 AATCATTTTACCAT-AT
66 AATCATTTTACC-TCAT
* * *
36147520 AAGGGTAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAAC
1 AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
* *
36147585 AATCATTTTCCCACAT
66 AATCATTTTACCTCAT
36147601 AAGGGCAAAACAGTCATTTTACCA
1 AAGGGCAAAACAGTCATTTTACCA
36147625 ATTAGGGGTC
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 5 0.03
81 159 0.96
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (81 bp):
AAGGGCAAAACAGTCATTTTACCATAAAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAAC
AATCATTTTACCTCAT
Found at i:36147617 original size:27 final size:27
Alignment explanation
Indices: 36147358--36147624 Score: 329
Period size: 27 Copynumber: 9.9 Consensus size: 27
36147348 CTTAACATAA
* * * *
36147358 AAGGGCAAAATAGTCATCTTACCACAA
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147385 AAGGGCAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147412 AAAGGG-AAAACAATCATTTTACCTCAT
1 -AAGGGCAAAACAATCATTTTACCACAT
* * * ** *
36147439 ATGGGCAAAATAGTCATTTTACCTTAA
1 AAGGGCAAAACAATCATTTTACCACAT
* *
36147466 AAAGGCAAAACAATCATTTTACCACGT
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147493 AAGGGCAAAACAATCATTTTACCATAT
1 AAGGGCAAAACAATCATTTTACCACAT
* * *
36147520 AAGGGTAAAACAGTCATTTTACCATAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147547 AAGGGCAAAACAGTCATTTTACCACAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147574 AAGGGCAAAACAATCATTTTCCCACAT
1 AAGGGCAAAACAATCATTTTACCACAT
*
36147601 AAGGGCAAAACAGTCATTTTACCA
1 AAGGGCAAAACAATCATTTTACCA
36147625 ATTAGGGGTC
Statistics
Matches: 209, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.02
27 200 0.96
28 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (27 bp):
AAGGGCAAAACAATCATTTTACCACAT
Found at i:36147624 original size:54 final size:54
Alignment explanation
Indices: 36147326--36147624 Score: 350
Period size: 54 Copynumber: 5.5 Consensus size: 54
36147316 AAACATATAT
* * ** * * * * *
36147326 CACATAGGGGTAAAACAGTCACCTTAACATAAAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* *
36147380 CACAAAAGGGCAAAACAATCATTTTACC-TCATAAAGGG-AAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCAT-AT-AAGGGCAAAACAATCATTTTAC
* * * * * *
36147434 CTCATATGGGCAAAATAGTCATTTTACCTTAAAAAGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* * * *
36147488 CACGTAAGGGCAAAACAATCATTTTACCATATAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
* * *
36147542 CATATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTCC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
36147596 CACATAAGGGCAAAACAGTCATTTTACCA
1 CACATAAGGGCAAAACAGTCATTTTACCA
36147625 ATTAGGGGTC
Statistics
Matches: 205, Mismatches: 36, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
53 5 0.02
54 194 0.95
55 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAATCATTTTAC
Found at i:36149479 original size:21 final size:20
Alignment explanation
Indices: 36149441--36149479 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36149431 TGGGCCCGTA
*
36149441 AGCCTATTGGGCCAAATTTC
1 AGCCTATCGGGCCAAATTTC
*
36149461 AGCCTATCGAGGCCCAATT
1 AGCCTATCG-GGCCAAATT
36149480 ACCGAAGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
AGCCTATCGGGCCAAATTTC
Found at i:36151266 original size:42 final size:42
Alignment explanation
Indices: 36151105--36151268 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
36151095 TACCATACCA
* ** *
36151105 ATGCCATATCCCAGATATGGTCTTACATGTCA-TCTCGTATCG
1 ATGCCATATCCCAGATACGGTCTTACACAT-AGTCTCATATCG
* * * * *
36151147 ATGCCAATAGCCCAGCTACAGTCTTACACAAAATCTC-TCATCG
1 ATGCC-ATATCCCAGATACGGTCTTACACATAGTCTCAT-ATCG
36151190 ATGCCATATCCCAGATACGGTCTTACACGA-AGTCTCATATCG
1 ATGCCATATCCCAGATACGGTCTTACAC-ATAGTCTCATATCG
* *
36151232 ATGCCATATCCTAGATATGGTCTTACACATAGTCTCA
1 ATGCCATATCCCAGATACGGTCTTACACATAGTCTCA
36151269 GTAACCCTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 69 0.67
43 33 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATACGGTCTTACACATAGTCTCATATCG
Found at i:36153564 original size:21 final size:20
Alignment explanation
Indices: 36153540--36153579 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
36153530 ACTTGTATAT
*
36153540 CTATCAACAAGCATTCAAAAC
1 CTATCAACAAACA-TCAAAAC
*
36153561 CTATCATCAAACATCAAAA
1 CTATCAACAAACATCAAAA
36153580 TACATGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (20 bp):
CTATCAACAAACATCAAAAC
Found at i:36155363 original size:29 final size:29
Alignment explanation
Indices: 36155303--36155435 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
36155293 CTGACTGATT
* * *
36155303 TCGCACACATAGT-ACTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
36155331 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
36155360 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
* * *
36155389 TCGCACACATAGCG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
*
36155417 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCCTCA
36155436 TAATTCCAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 33 0.38
29 53 0.60
30 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:36155367 original size:57 final size:57
Alignment explanation
Indices: 36155303--36155435 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 57
36155293 CTGACTGATT
* * *
36155303 TCGCACACATAGT-ACTCGATTA-TAGAACTCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGACTCAATTACCA-AACTCGCACACATAGCG-CTCAATTAAAGAAC
* * * *
36155360 TCGCACACATAGTGCCTCAATTACCAATCTCGCACACATAGCGCTCGATTGAAGAAC
1 TCGCACACATAGTGACTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
* *
36155417 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGACTCA
36155436 TAATTCCAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 43 0.65
58 22 0.33
59 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (57 bp):
TCGCACACATAGTGACTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
Found at i:36155508 original size:40 final size:40
Alignment explanation
Indices: 36155441--36155631 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
36155431 CCTCATAATT
* * *
36155441 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGACATAACA
*
36155480 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
36155520 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
36155560 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
**
36155600 CCAGCACGAATGCTCTTCATGACTTAGCCCGG
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGG
36155632 CTATATAACT
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.10
40 129 0.90
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
Found at i:36156398 original size:48 final size:48
Alignment explanation
Indices: 36156345--36156608 Score: 447
Period size: 48 Copynumber: 5.5 Consensus size: 48
36156335 CTAGCCAAAT
* *
36156345 CACTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
36156393 CACTAGCCATTCGGGTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
36156441 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
36156489 CATTAGTCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
36156537 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
36156585 CATTAGCCATTCGGCTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
36156609 CACATATATA
Statistics
Matches: 205, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:36162200 original size:26 final size:27
Alignment explanation
Indices: 36162171--36162242 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
36162161 TTTAGTTTAC
36162171 CAAATTACCAAAATACCCTCAATTAG-
1 CAAATTACCAAAATACCCTCAATTAGA
* * **
36162197 CAAAATTACC-AGATGCCCTTGATTAGA
1 C-AAATTACCAAAATACCCTCAATTAGA
*
36162224 AAAATTACCAAAAATACCC
1 CAAATTACC-AAAATACCC
36162243 CTGGTTTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 21 0.60
27 8 0.23
28 6 0.17
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (27 bp):
CAAATTACCAAAATACCCTCAATTAGA
Found at i:36162256 original size:54 final size:54
Alignment explanation
Indices: 36162172--36162488 Score: 365
Period size: 54 Copynumber: 5.9 Consensus size: 54
36162162 TTAGTTTACC
* * * * * * * *
36162172 AAATTACCAAAATA-CCCTCAATTAGCAAAATTACC-AGATGCCCTTGATTAGAA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
36162225 AAATTACCAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
36162280 AAATTACTAAAATACCCCTTGTTTGTAAAATTACCAAAATACCCCTTG-TTTGCT-
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC-TGATTTG-TA
* * *
36162334 AAATTACCAAAATCCCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * * *
36162388 AAATTACCAAAATA-CCCTTGATTAGTAAAATTACCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGTA
* *
36162442 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
36162489 TAAGGCAGAA
Statistics
Matches: 227, Mismatches: 28, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
53 15 0.07
54 182 0.80
55 30 0.13
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:36162272 original size:27 final size:27
Alignment explanation
Indices: 36162224--36162488 Score: 370
Period size: 27 Copynumber: 9.8 Consensus size: 27
36162214 CTTGATTAGA
36162224 AAAATTACCAAAAATACCCCTGGTTTGT
1 AAAATTACC-AAAATACCCCTGGTTTGT
36162252 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
36162279 AAAATTACTAAAATACCCCTTGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
36162306 AAAATTACCAAAATACCCCTTGTTTGCT
1 AAAATTACCAAAATACCCCTGGTTTG-T
* *
36162334 -AAATTACCAAAATCCCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
36162360 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
36162387 GAAATTACCAAAATACCCTTGATTAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
36162414 AAAATTACCAAAATAACCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
36162441 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
36162468 AAAATTACTAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
36162489 TAAGGCAGAA
Statistics
Matches: 214, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.00
27 203 0.95
28 10 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:36162500 original size:27 final size:27
Alignment explanation
Indices: 36162470--36162593 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
36162460 TAATTTGTAA
* * *
36162470 AATTACTAAAATACCCCTGTAAGGCAG
1 AATTACTGAAATACCCCTATAAGGTAG
* *
36162497 AATTAAC-GAAATACTCTTAT-AGGATAG
1 AATT-ACTGAAATACCCCTATAAGG-TAG
*
36162524 AATTACTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTATAAGGTAG
*
36162551 AATTACTTAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTATAAGGTAG
*
36162578 AATTACTGAGATACCC
1 AATTACTGAAATACCC
36162594 TCATCAACCA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAAGGTAG
Found at i:36162528 original size:81 final size:81
Alignment explanation
Indices: 36162254--36162582 Score: 245
Period size: 81 Copynumber: 4.1 Consensus size: 81
36162244 TGGTTTGTAA
* * * ** * ** *
36162254 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTTGTTTGTAAAATTACCAAAA
1 AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
** *
36162319 TACCCCTTGTTTGCTA-
66 TACCCC-TGTAAGGTAG
* ** ** * *
36162335 AATTACCAAAATCCCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAA
1 AATTAACAAAATAACCCTGA-TAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAA
* * *
36162399 ATACCCTTGATTA-GTAA
65 ATACCCCTG-TAAGGTAG
* * **
36162416 AATTACCAAAATAACCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
1 AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
*
36162481 TACCCCTGTAAGGCAG
66 TACCCCTGTAAGGTAG
* * * * ** * * *
36162497 AATTAACGAAAT-ACTCTTATAGGATAGAATTACTGAAATACCCCT-ATATGGTAGAATTACTTA
1 AATTAACAAAATAACCCTGATAGG-TAAAATTACCAAAATACCCCTAAT-TTGTAAAATTACTAA
*
36162560 AATACCCCTATAAGGTAG
64 AATACCCCTGTAAGGTAG
36162578 AATTA
1 AATTA
36162583 CTGAGATACC
Statistics
Matches: 208, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
80 14 0.07
81 194 0.93
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AATTAACAAAATAACCCTGATAGGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAA
TACCCCTGTAAGGTAG
Found at i:36166202 original size:42 final size:40
Alignment explanation
Indices: 36166144--36166243 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 40
36166134 GCCAGAATGT
* * *
36166144 TCTTACACAAAATCTCACATCGATGCCATATCCTAGATACGG
1 TCTTACAC-AAGTCTCACATCGATGCCATATCCCA-AAACGG
** * *
36166186 TCTTACACGAAGTCTCATTTTGATGCCATATCCCAAAATGG
1 TCTTACAC-AAGTCTCACATCGATGCCATATCCCAAAACGG
36166227 TCTTACACATAGTCTCA
1 TCTTACACA-AGTCTCA
36166244 GTAACCCTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 19 0.39
42 29 0.59
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (40 bp):
TCTTACACAAGTCTCACATCGATGCCATATCCCAAAACGG
Found at i:36166241 original size:41 final size:42
Alignment explanation
Indices: 36166165--36166243 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
36166155 ATCTCACATC
* *
36166165 GATGCCATATCCTAGATACGGTCTTACACGAAGTCTCATTTT
1 GATGCCATATCCCAGAAACGGTCTTACACGAAGTCTCATTTT
*
36166207 GATGCCATATCCCA-AAATGGTCTTACAC-ATAGTCTCA
1 GATGCCATATCCCAGAAACGGTCTTACACGA-AGTCTCA
36166244 GTAACCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.03
41 19 0.58
42 13 0.39
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
GATGCCATATCCCAGAAACGGTCTTACACGAAGTCTCATTTT
Found at i:36172452 original size:79 final size:80
Alignment explanation
Indices: 36172296--36172520 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 80
36172286 TTGAATGATG
* * * * * *
36172296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
36172358 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
* *
36172376 TCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTACGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
36172438 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * * *
36172455 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
36172520 G
66 G
36172521 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 65 0.54
80 45 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:36172484 original size:40 final size:40
Alignment explanation
Indices: 36172296--36172520 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
36172286 TTGAATGATG
* * * *
36172296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36172336 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
36172376 TCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36172416 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36172455 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36172496 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36172521 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36172539 original size:119 final size:120
Alignment explanation
Indices: 36172296--36172526 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
36172286 TTGAATGATG
*
36172296 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * *
36172361 GTGCGAGATACTAATTCTGGACTAAGATCCGAAGGCATTTGTACGAGATACTAAT
66 GTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * ** *
36172416 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
36172478 TTGTGCGAGTTACT-ATAACCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGATACTAAT-ACCGGACTAAGAT-CCGAAGGCATTTGAACGAG
36172527 TAGCTATATC
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 4 0.04
119 72 0.77
120 18 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:36172542 original size:79 final size:79
Alignment explanation
Indices: 36172349--36172543 Score: 191
Period size: 79 Copynumber: 2.5 Consensus size: 79
36172339 GGACTAAGAT
** * * * **
36172349 CCGAAGGCATTTGTGCGAGATACTAATTCTGGACTAAGAT-CCGAAGGCATTTGTACGAGATACT
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGATACT
*
36172413 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
36172428 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
*
36172492 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
*
36172508 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAA
36172544 ATTTCGAAGG
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 71 0.72
80 25 0.25
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:36187246 original size:48 final size:48
Alignment explanation
Indices: 36187175--36187351 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
36187165 AGGGTAAATT
* * * * **
36187175 GTAGATGCCATGTCTCAGACATGGTCTTACATTGGCTCACAT-GTCAAG
1 GTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
*
36187223 GTAGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
1 GTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
** *
36187271 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* *
36187319 GTCGATGTCATGTCCCAGACATGGTCTTACACT
1 GTAGATGCCATGTCCCAGACATGGTCTTACACT
36187352 AGCACACATA
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
48 113 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (48 bp):
GTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:36187342 original size:96 final size:96
Alignment explanation
Indices: 36187178--36187354 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 96
36187168 GTAAATTGTA
* *
36187178 GATGCCATGTCTCAGACATGGTCTTACATTGGCTCACATGTCAAGGTAGATGCCATGTCCCAGAC
1 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCACATATCAAGGTAGATGCCATGTCCCAGAC
36187243 ATGGTCTTACACTAGCTCTCATAATGTGGCC
66 ATGGTCTTACACTAGCTCTCATAATGTGGCC
* ** * *
36187274 GATGCCATGTC-CTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGTCATGTCCCAG
1 GATGCCATGTCTC-AGACATGGTCTTACACTGGCTCACAT-ATCAAGGTAGATGCCATGTCCCAG
36187337 ACATGGTCTTACACTAGC
64 ACATGGTCTTACACTAGC
36187355 ACACATATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 1 0.01
96 70 0.97
97 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCTCAGACATGGTCTTACACTGGCTCACATATCAAGGTAGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATAATGTGGCC
Found at i:36191866 original size:40 final size:40
Alignment explanation
Indices: 36191798--36191875 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
36191788 AAGTTCCATA
**
36191798 TATATAGCCAAAGCTATTCCAATTCGCACACCAAGTGCTT
1 TATATAGCCAAAGCTATTCCAAAACGCACACCAAGTGCTT
*
36191838 TATATAGCCAAAGCTA-TCTCAAAACGCACACTAAGTGC
1 TATATAGCCAAAGCTATTC-CAAAACGCACACCAAGTGC
36191876 CAAACATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (40 bp):
TATATAGCCAAAGCTATTCCAAAACGCACACCAAGTGCTT
Found at i:36196908 original size:21 final size:20
Alignment explanation
Indices: 36196879--36196917 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
36196869 TACATGAGTA
36196879 TTTGATGTTTGATGATAGAT
1 TTTGATGTTTGATGATAGAT
36196899 TTTGAATGTTTGATGATAG
1 TTTG-ATGTTTGATGATAG
36196918 TTATACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTGATGTTTGATGATAGAT
Found at i:36202903 original size:13 final size:13
Alignment explanation
Indices: 36202885--36202914 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36202875 TCAAAACTAT
*
36202885 TTAACATCTAAGC
1 TTAACATCCAAGC
36202898 TTAACATCCAAGC
1 TTAACATCCAAGC
36202911 TTAA
1 TTAA
36202915 TCCCTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACATCCAAGC
Found at i:36203107 original size:23 final size:23
Alignment explanation
Indices: 36203081--36203126 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
36203071 GGGATATTAG
*
36203081 ATATTTACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
36203104 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
36203127 TCAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:36206614 original size:35 final size:35
Alignment explanation
Indices: 36206470--36206637 Score: 126
Period size: 35 Copynumber: 4.8 Consensus size: 35
36206460 TCTTTCGAGA
*
36206470 TGACACCATGAT-GATGGTATATAGGTCCTTCAGGG
1 TGACACCAT-ATAAATGGTATATAGGTCCTTCAGGG
* ** * * * *
36206505 CGACACTGTGTAAACGGCATATAGGTCTTTC-GAGG
1 TGACACCATATAAATGGTATATAGGTCCTTCAG-GG
* * * * * * * *
36206540 CGACACCGTGTAAATAG-ATGTAAGTCTTTCATGG
1 TGACACCATATAAATGGTATATAGGTCCTTCAGGG
36206574 TGACACCATATAAATGGTATATAGGTCCTTCAGGG
1 TGACACCATATAAATGGTATATAGGTCCTTCAGGG
* * *
36206609 TGACACCCTATAAATGATATATAAGTCCT
1 TGACACCATATAAATGGTATATAGGTCCT
36206638 ACGGGGGGGC
Statistics
Matches: 104, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
34 28 0.27
35 76 0.73
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (35 bp):
TGACACCATATAAATGGTATATAGGTCCTTCAGGG
Found at i:36216476 original size:12 final size:12
Alignment explanation
Indices: 36216459--36216487 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36216449 AAACCAGTTC
36216459 ATTCAGTTCACG
1 ATTCAGTTCACG
36216471 ATTCAGTTCACG
1 ATTCAGTTCACG
36216483 ATTCA
1 ATTCA
36216488 TGATTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (12 bp):
ATTCAGTTCACG
Found at i:36218870 original size:21 final size:21
Alignment explanation
Indices: 36218831--36218871 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36218821 TCGATGACAG
* **
36218831 TGGTGGCTATTGGTTGTCCAA
1 TGGTGGCTAGTGGAGGTCCAA
36218852 TGGTGGCTAGTGGAGGTCCA
1 TGGTGGCTAGTGGAGGTCCA
36218872 GCGGTGGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.32
Consensus pattern (21 bp):
TGGTGGCTAGTGGAGGTCCAA
Found at i:36227614 original size:46 final size:47
Alignment explanation
Indices: 36227534--36227700 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 47
36227524 ATGTCTCAGG
* * *
36227534 CATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGAAG-
1 CATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGAAGC
* * * * *
36227580 TATGTCCCAGACATTTTTTACACTAGCACT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAGGCCGAAGC
* * *
36227627 CATGTCCCAGACATGGTCTTACACT-GGCT-C-TCTTAATGTGGCCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGCCTACGTCTCAA---GGCCGAAGC
36227674 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
36227701 TCATAATAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
45 5 0.05
46 49 0.49
47 30 0.30
48 15 0.15
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGAAGC
Found at i:36230330 original size:46 final size:44
Alignment explanation
Indices: 36230277--36230449 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 44
36230267 TTGGGCATCT
36230277 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCC
*** * *
36230323 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAGTCC
* *
36230370 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCC
* *
36230416 CAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36230450 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAGTCC
Found at i:36230429 original size:93 final size:93
Alignment explanation
Indices: 36230270--36230441 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36230260 AGGATATTTG
* * * *
36230270 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
36230335 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
36230363 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCCAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
36230428 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
36230442 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:36233442 original size:15 final size:15
Alignment explanation
Indices: 36233420--36233488 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36233410 GTATATTGGG
36233420 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36233435 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36233450 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36233465 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36233480 TTTCTTTAT
1 TTTCTTTAT
36233489 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36233489 original size:30 final size:29
Alignment explanation
Indices: 36233415--36233502 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
36233405 ATATCGTATA
* * * *
36233415 TTGGGTTTCTTTATCCTGGATCTCTTTAT
1 TTGGATTTCTTTATTCTGGATTTCTCTAT
*
36233444 TCTGGATTTCTTTATTCTGGGTTTCTCTAT
1 T-TGGATTTCTTTATTCTGGATTTCTCTAT
*
36233474 CTTGGATTTCTTTATTC-GGTTTTCT-TAT
1 -TTGGATTTCTTTATTCTGGATTTCTCTAT
36233502 T
1 T
36233503 ATCTTTGTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 1 0.02
28 3 0.06
29 8 0.16
30 38 0.75
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (29 bp):
TTGGATTTCTTTATTCTGGATTTCTCTAT
Found at i:36235925 original size:46 final size:44
Alignment explanation
Indices: 36235872--36236047 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 44
36235862 TATTTGGGCA
*
36235872 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
36235918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
36235965 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * *
36236011 CCCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36236048 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:36236027 original size:93 final size:93
Alignment explanation
Indices: 36235868--36236039 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36235858 AGGATATTTG
* * *
36235868 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
36235933 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
36235961 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCCAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
36236026 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
36236040 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:36240859 original size:28 final size:27
Alignment explanation
Indices: 36240795--36240946 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
36240785 TTATTAAGTC
* *
36240795 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
36240822 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
36240850 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
36240877 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
36240905 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
36240932 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36240947 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36240879 original size:55 final size:55
Alignment explanation
Indices: 36240795--36240971 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
36240785 TTATTAAGTC
* * *
36240795 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
36240850 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
36240905 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
36240961 CGCACACTTAG
1 CGCACACTTAG
36240972 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:36260338 original size:42 final size:43
Alignment explanation
Indices: 36260279--36260374 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
36260269 TGAGATTTAT
* * *
36260279 GTGTAAGACCATGTCTGGGACATTGGCATC-ATATCTG-ATTTC
1 GTGTAAGACCATATCTGGGACAGTGGCATCGATA-CTGAATTAC
*
36260321 GTGTAAGACCCTATCTGGGACAGTGGCATCGATACTGAATTAC
1 GTGTAAGACCATATCTGGGACAGTGGCATCGATACTGAATTAC
*
36260364 ATGTAAGACCA
1 GTGTAAGACCA
36260375 CGTCCGGGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACAGTGGCATCGATACTGAATTAC
Found at i:36260384 original size:43 final size:42
Alignment explanation
Indices: 36260280--36260392 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
36260270 GAGATTTATG
* * * *
36260280 TGTAAGACCATGTCTGGGACATTGGCATCATATCTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCATATCTGATTACA
*
36260322 TGTAAGACC-CTATCTGGGACAGTGGCATCGATA-CTGAATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATCTG-ATTACA
*
36260365 TGTAAGACCACGTCCGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
36260393 TGTACGCGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 29 0.49
43 29 0.49
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCATATCTGATTACA
Found at i:36267581 original size:29 final size:29
Alignment explanation
Indices: 36267515--36267605 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
36267505 AAGTCTACAT
* * *
36267515 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCTATTAGGCCCAAATC
*
36267543 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCTATTAGGCCCAAATC
36267572 ACATTCATATGGCCTATCT-GGCCCAAATC
1 ACATTCATATGGCCTAT-TAGGCCCAAATC
36267601 A-ATTC
1 ACATTC
36267606 CAAGCCATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 24 0.43
29 31 0.55
30 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCTATTAGGCCCAAATC
Found at i:36271686 original size:43 final size:42
Alignment explanation
Indices: 36271634--36271792 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
36271624 ATATGTTTTC
* *
36271634 TCGTGTAAGATCACGTCTGGGACGTTAGCATTGGTATGTGAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATTGGTATGTGAT
* * * *
36271676 TACGTGTAAGACCATGTCTGGGACATCT-GCA-TCGTATTTGAT
1 T-CGTGTAAGACCACGTCTGGGACGT-TGGCATTGGTATGTGAT
* *
36271718 TCGTGTAAGACCCAAC--CTGGGACAG-TGGCATCGATATGTGAT
1 TCGTGTAAGA-CC-ACGTCTGGGAC-GTTGGCATTGGTATGTGAT
* *
36271760 TGCATGTAAGACCACGTCTGGAACGTTGGCATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATT
36271793 ATACGATATG
Statistics
Matches: 92, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
40 1 0.01
41 21 0.23
42 24 0.26
43 45 0.49
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATTGGTATGTGAT
Found at i:36271738 original size:41 final size:43
Alignment explanation
Indices: 36271667--36271772 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 43
36271657 GTTAGCATTG
** *
36271667 GTATGTGATTACGTGTAAGA-CCATGTCTGGGACA-TCTGCATC
1 GTATGTGATTACGTGTAAGACCCATACCTGGGACAGT-GGCATC
*
36271709 GTATTTGATT-CGTGTAAGACCCA-ACCTGGGACAGTGGCATC
1 GTATGTGATTACGTGTAAGACCCATACCTGGGACAGTGGCATC
* *
36271750 GATATGTGATTGCATGTAAGACC
1 G-TATGTGATTACGTGTAAGACC
36271773 ACGTCTGGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
41 23 0.43
42 21 0.39
43 10 0.19
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
GTATGTGATTACGTGTAAGACCCATACCTGGGACAGTGGCATC
Found at i:36276473 original size:48 final size:49
Alignment explanation
Indices: 36276416--36276593 Score: 188
Period size: 48 Copynumber: 3.7 Consensus size: 49
36276406 TACGAGATGT
*
36276416 GTCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACGT-G-TAGAGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TCGATAGAGATA
* ***
36276465 -TCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAGAGATA
* * **
36276513 GTCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTAAT-G-GATAA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAGAGAT-A
* *
36276560 GCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
36276594 ACATTACACC
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
46 4 0.04
47 33 0.30
48 43 0.39
49 30 0.27
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAGAGATA
Found at i:36277228 original size:36 final size:36
Alignment explanation
Indices: 36277188--36277259 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
36277178 ATAATTACCC
* *
36277188 TAAATTTTCTTTCTCTCTATGCTTATTTGTACTTTA
1 TAAATTTTCTTTCTCTCCACGCTTATTTGTACTTTA
*
36277224 TAAATTTTCTTTCTCTCCACGCTTATTTGTGCTTTA
1 TAAATTTTCTTTCTCTCCACGCTTATTTGTACTTTA
36277260 CTCAGACACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.18, C:0.19, G:0.07, T:0.56
Consensus pattern (36 bp):
TAAATTTTCTTTCTCTCCACGCTTATTTGTACTTTA
Found at i:36288698 original size:46 final size:46
Alignment explanation
Indices: 36288532--36288707 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
36288522 TGTAACCCGC
* * * * *
36288532 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * * *
36288578 CCATGAGTAAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
36288628 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
36288671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36288708 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 1 0.01
45 2 0.02
46 56 0.53
47 27 0.26
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:36288703 original size:93 final size:93
Alignment explanation
Indices: 36288541--36288710 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
36288531 CCCATAAGCG
* * *
36288541 AACTCGAACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTAAACTCGGACTCAACTCAAT
1 AACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTAAACTCGGACTCAACTCAAC
36288606 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* * * *
36288634 AACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGAACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
36288698 CGAGTTCGGATGC
65 CGAGTTCGGATGC
36288711 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTAAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:36291118 original size:233 final size:233
Alignment explanation
Indices: 36290711--36291187 Score: 945
Period size: 233 Copynumber: 2.0 Consensus size: 233
36290701 TCGTCGAAAG
36290711 GTAGTAACATCAAATCAACCAGAAAACATGAATCTCGAATCATCAACGGGCAATTCTTACACACT
1 GTAGTAACATCAAATCAACCAGAAAACATGAATCTCGAATCATCAACGGGCAATTCTTACACACT
36290776 TTGTCAACCAGAACACACCGACCCAGGGGGTTTCATACTCGAATTACAAACTCAGTAGACTCAAC
66 TTGTCAACCAGAACACACCGACCCAGGGGGTTTCATACTCGAATTACAAACTCAGTAGACTCAAC
36290841 AGGCAAAGTCTTAGTGGATACTAATGTTTCACACATATATGAATGAGTCAAACCAGGATCAATCA
131 AGGCAAAGTCTTAGTGGATACTAATGTTTCACACATATATGAATGAGTCAAACCAGGATCAATCA
36290906 ATGCAATAACACTAGTATCATAAAGAGTGAAAGTACCA
196 ATGCAATAACACTAGTATCATAAAGAGTGAAAGTACCA
36290944 GTAGTAACATCAAATCAACCAGAAAACATGAATCTCGAATCATCAACGGGCAATTCTTACACACT
1 GTAGTAACATCAAATCAACCAGAAAACATGAATCTCGAATCATCAACGGGCAATTCTTACACACT
36291009 TTGTCAACCAGAACACACCGACCCAGGGGGTTTCATACTCGAATTACAAACTCAGTAGACTCAAC
66 TTGTCAACCAGAACACACCGACCCAGGGGGTTTCATACTCGAATTACAAACTCAGTAGACTCAAC
36291074 AGGCAAAGTCTTAGTGGATACTAATGTTTCACACATATATGAATGAGTCAAACCAGGATCAATCA
131 AGGCAAAGTCTTAGTGGATACTAATGTTTCACACATATATGAATGAGTCAAACCAGGATCAATCA
36291139 ATGCAATAACACTAGTATCATAAAGAGTGAAAGTACCA
196 ATGCAATAACACTAGTATCATAAAGAGTGAAAGTACCA
*
36291177 GTAATAACATC
1 GTAGTAACATC
36291188 TGGGGAAGAA
Statistics
Matches: 243, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 243 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (233 bp):
GTAGTAACATCAAATCAACCAGAAAACATGAATCTCGAATCATCAACGGGCAATTCTTACACACT
TTGTCAACCAGAACACACCGACCCAGGGGGTTTCATACTCGAATTACAAACTCAGTAGACTCAAC
AGGCAAAGTCTTAGTGGATACTAATGTTTCACACATATATGAATGAGTCAAACCAGGATCAATCA
ATGCAATAACACTAGTATCATAAAGAGTGAAAGTACCA
Found at i:36305563 original size:29 final size:29
Alignment explanation
Indices: 36305530--36305603 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
36305520 GTTGTGAGAT
* *
36305530 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
36305559 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
36305588 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36305604 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:36307881 original size:40 final size:39
Alignment explanation
Indices: 36307837--36307957 Score: 109
Period size: 39 Copynumber: 3.1 Consensus size: 39
36307827 ACTAGGCAAA
* * *
36307837 AAGCTTATAAAATCTGATCCA-ACTGAAATACGCCAAACAG
1 AAGCTCATAAAAGCTGATCCACA-TGAAACACGCC-AACAG
* * *
36307877 AAGCTCATAAGAGCTGGTCCACATGAAACACGCCAATAG
1 AAGCTCATAAAAGCTGATCCACATGAAACACGCCAACAG
* * ** *
36307916 AAGCTCATAAGAGCTGGTCCACCCGAATCACGCCGAACAG
1 AAGCTCATAAAAGCTGATCCACATGAAACACGCC-AACAG
36307956 AA
1 AA
36307958 AGTATAACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.51
40 33 0.48
41 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (39 bp):
AAGCTCATAAAAGCTGATCCACATGAAACACGCCAACAG
Found at i:36307925 original size:39 final size:40
Alignment explanation
Indices: 36307860--36307957 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 40
36307850 CTGATCCAAC
*
36307860 TGAAATACGCCAAACAGAAGCTCATAAGAGCTGGTCCACA
1 TGAAACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACA
* *
36307900 TGAAACACGCC-AATAGAAGCTCATAAGAGCTGGTCCACC
1 TGAAACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACA
* * *
36307939 CGAATCACGCCGAACAGAA
1 TGAAACACGCCAAACAGAA
36307958 AGTATAACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 35 0.69
40 16 0.31
ACGTcount: A:0.39, C:0.28, G:0.20, T:0.13
Consensus pattern (40 bp):
TGAAACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACA
Found at i:36310959 original size:38 final size:38
Alignment explanation
Indices: 36310908--36310988 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
36310898 ATATTTGATG
* * *
36310908 TATATCCGGGTTAAATCCCGAAGGCTTCGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGAAGGCCTAGTGCTGGTAT
*
36310946 TATATCCGAGTTAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGAGTTAAATCCCGAAGGCCTAGTGCTGGTAT
36310984 TATAT
1 TATAT
36310989 TCGGGCCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (38 bp):
TATATCCGAGTTAAATCCCGAAGGCCTAGTGCTGGTAT
Found at i:36314486 original size:40 final size:40
Alignment explanation
Indices: 36314427--36314600 Score: 280
Period size: 40 Copynumber: 4.4 Consensus size: 40
36314417 CGGGTGTAAC
*
36314427 AACCAGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
** *
36314467 AACTAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
*
36314507 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
36314547 AA-CCGCACGAATGCCTTCGGGACTTAACCC-AGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGA-TTATAAT
36314586 AACCCGCACGAATGC
1 AACCCGCACGAATGC
36314601 TATGCACATA
Statistics
Matches: 127, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 37 0.29
40 90 0.71
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
Found at i:36314588 original size:79 final size:80
Alignment explanation
Indices: 36314427--36314600 Score: 305
Period size: 79 Copynumber: 2.2 Consensus size: 80
36314417 CGGGTGTAAC
*
36314427 AACCAGCACGAATGCCTTCGGGACTTAACCCGATTATAATAACTAGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAATAACTAGCACGAATGCCTTCGGGACT
*
36314492 TAACCCGGTTATAAT
66 TAACCCAGTTATAAT
* *
36314507 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAAC-CGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAATAACTAGCACGAATGCCTTCGGGACT
36314571 TAACCCAGTTATAAT
66 TAACCCAGTTATAAT
36314586 AACCCGCACGAATGC
1 AACCCGCACGAATGC
36314601 TATGCACATA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 49 0.54
80 41 0.46
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (80 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAATAACTAGCACGAATGCCTTCGGGACT
TAACCCAGTTATAAT
Found at i:36317786 original size:42 final size:42
Alignment explanation
Indices: 36317665--36317786 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
36317655 TATCGTACTA
* * * *
36317665 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATACCCCAGATATGGTCTTACACGTAATCTCATATCG
* * **
36317707 ATCCCAATAGCCCACCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATACCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* *
36317750 ATGCCATACCCCAGATATAGTCTTGCACGTAATCTCA
1 ATGCCATACCCCAGATATGGTCTTACACGTAATCTCA
36317787 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:36325505 original size:19 final size:20
Alignment explanation
Indices: 36325470--36325507 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36325460 GTTTTTTTAT
36325470 TATATTATGATTTTATAACA
1 TATATTATGATTTTATAACA
*
36325490 TATATTATTA-TTTATAAC
1 TATATTATGATTTTATAAC
36325508 CTTTATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TATATTATGATTTTATAACA
Found at i:36329598 original size:15 final size:15
Alignment explanation
Indices: 36329580--36329610 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36329570 AATAATGTTA
36329580 TAACTCAAACTTCTT
1 TAACTCAAACTTCTT
36329595 TAACTCAAACTTCTT
1 TAACTCAAACTTCTT
36329610 T
1 T
36329611 GCAGGAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TAACTCAAACTTCTT
Found at i:36330909 original size:28 final size:28
Alignment explanation
Indices: 36330878--36330973 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
36330868 TATAGTCTCT
*
36330878 TTTATTTTATTTCATTATTATTCATT-TC
1 TTTATTTTATTT-ATTATTATTTATTATC
* * *
36330906 TTTATTTTCTTTATT-TCATTTATTAGC
1 TTTATTTTATTTATTATTATTTATTATC
* *
36330933 TTTTATTTTCTTTATTTATTATTTATTCTC
1 -TTTATTTTATTTA-TTATTATTTATTATC
36330963 TTTATTTTATT
1 TTTATTTTATT
36330974 CTCAGTTTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.12
27 4 0.07
28 24 0.43
29 12 0.21
30 9 0.16
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTATTTTATTTATTATTATTTATTATC
Found at i:36330910 original size:15 final size:13
Alignment explanation
Indices: 36330878--36330973 Score: 59
Period size: 15 Copynumber: 6.8 Consensus size: 13
36330868 TATAGTCTCT
36330878 TTTATTTTATTTC
1 TTTATTTTATTTC
*
36330891 ATTATTATTCATTTC
1 TTTATT-TT-ATTTC
* *
36330906 TTTATTTTCTTTA
1 TTTATTTTATTTC
*
36330919 TTTCA-TTTATTAGC
1 TTT-ATTTTATT-TC
* *
36330933 TTTTATTTTCTTTA
1 -TTTATTTTATTTC
36330947 TTTATTATTTATTCTC
1 TTTA-T-TTTATT-TC
36330963 TTTATTTTATT
1 TTTATTTTATT
36330974 CTCAGTTTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
13 20 0.32
14 13 0.21
15 24 0.39
16 5 0.08
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTTC
Found at i:36330916 original size:9 final size:9
Alignment explanation
Indices: 36330902--36330970 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
36330892 TTATTATTCA
36330902 TTTCTTTAT
1 TTTCTTTAT
36330911 TTTCTTTA-
1 TTTCTTTAT
36330919 TTTCATTTAT
1 TTTC-TTTAT
**
36330929 TAGCTTTTAT
1 TTTC-TTTAT
36330939 TTTCTTTATT
1 TTTCTTTA-T
*
36330949 TATTATTTAT
1 T-TTCTTTAT
*
36330959 TCTCTTTAT
1 TTTCTTTAT
36330968 TTT
1 TTT
36330971 ATTCTCAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 4 0.09
9 24 0.51
10 13 0.28
11 6 0.13
ACGTcount: A:0.16, C:0.10, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:36337983 original size:46 final size:46
Alignment explanation
Indices: 36337930--36338105 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
36337920 TATTTGGGCA
*
36337930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
36337976 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
36338023 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
36338069 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36338106 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:36338085 original size:93 final size:93
Alignment explanation
Indices: 36337926--36338097 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
36337916 GGGATATTTG
* * * * *
36337926 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
36337991 TTAAGTCCGAGTTCGTGAGATGTAACTA
66 TTAAGTCCGAGTTCGTGAGATGTAACTA
* *
36338019 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
*
36338084 TTGAGTCCGAGTTC
66 TTAAGTCCGAGTTC
36338098 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
TTAAGTCCGAGTTCGTGAGATGTAACTA
Found at i:36340976 original size:50 final size:50
Alignment explanation
Indices: 36340901--36341184 Score: 239
Period size: 50 Copynumber: 5.6 Consensus size: 50
36340891 TTGGTATGCA
* * * *
36340901 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACTCG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* ** * * ** *
36340951 TAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * * * *
36341002 TATTAGCCTGCACTTAGTCCTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* ** * * * *
36341052 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT-GGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
***
36341103 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * *
36341153 AAGTAGCCTACACTTAGTACTACACACTTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
36341185 TCACAACGGA
Statistics
Matches: 177, Mismatches: 51, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
49 5 0.03
50 98 0.55
51 69 0.39
52 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
Found at i:36341017 original size:51 final size:51
Alignment explanation
Indices: 36340951--36341128 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
36340941 CTAGTACTCG
*
36340951 TAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGTTAACGGGTATGCA
1 TAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGTTAACGGGTACGCA
* * ** * * * * *
36341002 TATTAGCCTGCACTTAGTC-CTACACACGTGA-CTTAA-CCATCTGATACACG
1 TAGTAGCCTGCACTTAG-CACTACACACGTGATC-GAAGTTAACGGGTACGCA
* * *
36341052 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTTAATGGGTACGCA
1 TAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGTTAACGGGTACGCA
*
36341103 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGCACTACACA
36341129 TACGACCTAT
Statistics
Matches: 99, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
50 36 0.36
51 62 0.63
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGTTAACGGGTACGCA
Found at i:36341062 original size:101 final size:101
Alignment explanation
Indices: 36340893--36341179 Score: 414
Period size: 101 Copynumber: 2.8 Consensus size: 101
36340883 GAAGCTCTTT
*
36340893 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-AGTACTCGTAGTAG
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGA-TACACGTAGTAG
*
36340957 CCTGCACTTAGCACTACACACGTGATCGAAGTTAACG
65 CCTGCACTTAGTACTACACACGTGATCGAAGTTAACG
* * * * * * * *
36340994 GGTATGCATATTAGCCTGCACTTAGTCCTACACACGTGACTTAACCATCTGATACACGTAGTATC
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGC
*
36341059 CTGCACTTAGTACTACACACGTGATCGAAGTTAATG
66 CTGCACTTAGTACTACACACGTGATCGAAGTTAACG
* * * *
36341095 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGAAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGC
*
36341160 CTACACTTAGTACTACACAC
66 CTGCACTTAGTACTACACAC
36341180 TTGACTCACA
Statistics
Matches: 161, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
101 160 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATCGAAGTTAACG
Found at i:36341561 original size:19 final size:20
Alignment explanation
Indices: 36341533--36341579 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
36341523 AAGAACATGT
36341533 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
36341554 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
36341573 TATATAT
1 TATATAT
36341580 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:36345580 original size:28 final size:28
Alignment explanation
Indices: 36345518--36345587 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
36345508 TGATTTTAGT
* * *
36345518 GGTAAGCTATGAAAAGAATAGTCATTGT
1 GGTAAACTATGAAAAGAATAGCCATTGC
* *
36345546 GGCAAACTATGAAAAGAATAGCCTTTGC
1 GGTAAACTATGAAAAGAATAGCCATTGC
*
36345574 GGTAAACTCTGAAA
1 GGTAAACTATGAAA
36345588 GGGATGCCTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (28 bp):
GGTAAACTATGAAAAGAATAGCCATTGC
Found at i:36350103 original size:27 final size:27
Alignment explanation
Indices: 36350047--36350104 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
36350037 GCAATCATAG
* *
36350047 AGTCCACCGGGACAATAAACATAAGGT
1 AGTCCACCGGGACAATAAAAATAAGAT
* *
36350074 AGTCCACTGGGACAGTAAAAAT-AGAAT
1 AGTCCACCGGGACAATAAAAATAAG-AT
36350101 AGTC
1 AGTC
36350105 TGTCAAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.17
Consensus pattern (27 bp):
AGTCCACCGGGACAATAAAAATAAGAT
Found at i:36356948 original size:56 final size:56
Alignment explanation
Indices: 36356881--36356994 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
36356871 AATGATTGAA
36356881 AAATGACAAATGATTCACTAGATTTACTCATTGGAGTATTAGGTGCTTCTTAGTTT
1 AAATGACAAATGATTCACTAGATTTACTCATTGGAGTATTAGGTGCTTCTTAGTTT
*
36356937 AAATGACAAATGGTTCACTAGATTTACTCATTGGAGTATTAGGTGCTTCTTAGTTT
1 AAATGACAAATGATTCACTAGATTTACTCATTGGAGTATTAGGTGCTTCTTAGTTT
36356993 AA
1 AA
36356995 TGATAAGTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (56 bp):
AAATGACAAATGATTCACTAGATTTACTCATTGGAGTATTAGGTGCTTCTTAGTTT
Found at i:36357095 original size:100 final size:99
Alignment explanation
Indices: 36356970--36357168 Score: 326
Period size: 100 Copynumber: 2.0 Consensus size: 99
36356960 TTACTCATTG
* * * *
36356970 GAGTATTAGGTGCTTCTTAGTTTAATGATAAGTTTGATTTAAGATTAATTTAGTCATTTTGAATA
1 GAGTATTAGGTACTTCTTAGCTTAATGATAAGTTTGATTTAAGATTAATTTAATCACTTTGAATA
36357035 TTTATTTAATAAAATAAATAATGATTCTAAAATA
66 TTTATTTAATAAAATAAATAATGATTCTAAAATA
* *
36357069 GAGTATTAGGTACTTTCTTAGCTTAATGATAAGTTTGATTTAGGGTTAATTTAATCACTTTGAAT
1 GAGTATTAGGTAC-TTCTTAGCTTAATGATAAGTTTGATTTAAGATTAATTTAATCACTTTGAAT
*
36357134 ATTTATTTAATAGAATAAATAATGATTCTAAAATA
65 ATTTATTTAATAAAATAAATAATGATTCTAAAATA
36357169 AAGCTAAATT
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 12 0.13
100 80 0.87
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (99 bp):
GAGTATTAGGTACTTCTTAGCTTAATGATAAGTTTGATTTAAGATTAATTTAATCACTTTGAATA
TTTATTTAATAAAATAAATAATGATTCTAAAATA
Found at i:36360208 original size:5 final size:5
Alignment explanation
Indices: 36360198--36360233 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
36360188 GGAGTTGTGA
36360198 AAAAT AAAAT AAAAT AAAAT -AAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36360234 GAACACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.21
5 23 0.79
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:36364664 original size:12 final size:12
Alignment explanation
Indices: 36364647--36364671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36364637 TGTGAAAAAT
36364647 AAAATAAAATAA
1 AAAATAAAATAA
36364659 AAAATAAAATAA
1 AAAATAAAATAA
36364671 A
1 A
36364672 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:36372148 original size:4 final size:4
Alignment explanation
Indices: 36372139--36372167 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36372129 AAAAAAAGTA
36372139 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
36372168 TGCAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:36375524 original size:21 final size:21
Alignment explanation
Indices: 36375482--36375535 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
36375472 TTCTCATTTT
* * *
36375482 CAGCAACTTCTTCTTTTTCAG
1 CAGCAACTTCCTCTTCTGCAG
36375503 C-GACAACTTCCTCTTCTGCAG
1 CAG-CAACTTCCTCTTCTGCAG
36375524 CAGCAACTTCCT
1 CAGCAACTTCCT
36375536 TCTCAACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.33
Consensus pattern (21 bp):
CAGCAACTTCCTCTTCTGCAG
Found at i:36382410 original size:27 final size:27
Alignment explanation
Indices: 36382380--36382556 Score: 113
Period size: 27 Copynumber: 6.5 Consensus size: 27
36382370 ATATTGAGCC
* * * *
36382380 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACACAATCAAAT
**
36382407 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
36382434 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACACAAT-CAAAT
* *** *
36382462 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
36382489 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CACAATCAAAT
* * * *
36382516 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
*
36382543 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
36382557 TGTACAATTT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 97 0.80
28 24 0.20
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCACACAATCAAAT
Found at i:36382472 original size:55 final size:55
Alignment explanation
Indices: 36382380--36382556 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
36382370 ATATTGAGCC
* * * * *
36382380 CGCACACTCAGTGCTATACA-AT-CAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCAT-CATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
* * *
36382434 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCATCATA-TCCATCTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
36382489 CGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
*
36382543 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
36382557 TGTACAATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.55
55 43 0.42
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36382519 original size:82 final size:81
Alignment explanation
Indices: 36382401--36382556 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
36382391 TGCTATACAA
* * * **
36382401 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGT-CAAATCGCA
36382466 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36382483 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
36382547 CCCTTAGTGC
65 CACTTAGTGC
36382557 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36386921 original size:40 final size:40
Alignment explanation
Indices: 36386867--36387059 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
36386857 GGATATAGCT
*
36386867 ACTCGCCCAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
*
36386907 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
* * *
36386947 ACTCGCACAAATGCCTTCGGGACTTAACCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
* *** *
36386987 ACTCGCACAATTGCCTTCGGGACTTAGCCC-AAAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCA-TAGTA
*
36387027 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
36387060 TATTATCCGA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
Found at i:36391338 original size:18 final size:17
Alignment explanation
Indices: 36391309--36391350 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
36391299 TAATTATTAG
36391309 TTTTATTATTATGTTT-A
1 TTTTATTATTAT-TTTCA
*
36391326 TTTCTATTTTTATTTTCA
1 TTT-TATTATTATTTTCA
36391344 TTTTATT
1 TTTTATT
36391351 GTACTCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTATTATTTTCA
Found at i:36394967 original size:13 final size:13
Alignment explanation
Indices: 36394949--36394973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36394939 ACAAACGATA
36394949 AAATTTTCACACG
1 AAATTTTCACACG
36394962 AAATTTTCACAC
1 AAATTTTCACAC
36394974 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:36409772 original size:13 final size:13
Alignment explanation
Indices: 36409754--36409778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36409744 ACAAACGATA
36409754 AAATTTTCACACG
1 AAATTTTCACACG
36409767 AAATTTTCACAC
1 AAATTTTCACAC
36409779 ATAGAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:36411583 original size:18 final size:18
Alignment explanation
Indices: 36411560--36411595 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36411550 TCCAAGGAGG
*
36411560 AGTGTTATAATTTCTTAT
1 AGTGTTATAATATCTTAT
36411578 AGTGTTATAATATCTTAT
1 AGTGTTATAATATCTTAT
36411596 TAAGTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (18 bp):
AGTGTTATAATATCTTAT
Found at i:36412182 original size:35 final size:35
Alignment explanation
Indices: 36412105--36412174 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36412095 ATTTTCTAGT
36412105 GGGTCTTTCTAATTTGATCAAAAACCCTTTTTTTC
1 GGGTCTTTCTAATTTGATCAAAAACCCTTTTTTTC
36412140 GGGTCTTTCTAATTTGATCAAAAACCCTTTTTTTC
1 GGGTCTTTCTAATTTGATCAAAAACCCTTTTTTTC
36412175 TTTTCTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (35 bp):
GGGTCTTTCTAATTTGATCAAAAACCCTTTTTTTC
Found at i:36425028 original size:4 final size:4
Alignment explanation
Indices: 36425014--36425050 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
36425004 TTACTACTAA
*
36425014 TATG AATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
36425051 TTTTTTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:36428289 original size:20 final size:20
Alignment explanation
Indices: 36428229--36428280 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
36428219 CTCACTTCTC
36428229 CCACGCCCGTGTATGTATGT
1 CCACGCCCGTGTATGTATGT
*
36428249 CCACGCCCGTGTATGAATGT
1 CCACGCCCGTGTATGTATGT
36428269 CCACGCCCGTGT
1 CCACGCCCGTGT
36428281 TTTTTTGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (20 bp):
CCACGCCCGTGTATGTATGT
Found at i:36431541 original size:28 final size:28
Alignment explanation
Indices: 36431509--36431592 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
36431499 AACTGTGATC
36431509 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
36431537 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
36431559 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
36431587 ACGTGT
1 ACGTGT
36431593 ACCGAAATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:36431582 original size:50 final size:48
Alignment explanation
Indices: 36431461--36431693 Score: 251
Period size: 50 Copynumber: 4.8 Consensus size: 48
36431451 TGAGGTCGCA
* * * *
36431461 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGA-TGTTGGTCACG
*
36431512 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTT-GGTCACG
* *
36431562 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATG-TGATCA--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATGTTGGTCACG
* * *
36431608 -GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTGGTCACG
* *
36431656 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
36431694 AGCTTCGGCT
Statistics
Matches: 159, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.01
45 34 0.21
46 4 0.03
47 1 0.01
48 8 0.05
49 36 0.23
50 41 0.26
51 33 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTGGTCACG
Found at i:36431644 original size:95 final size:98
Alignment explanation
Indices: 36431454--36431689 Score: 336
Period size: 95 Copynumber: 2.4 Consensus size: 98
36431444 TCTATTGTGA
* *
36431454 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCAC--GTGTAG
* *
36431519 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
64 TACTAAGTGCAGGCTACTACGTGTACCAGATGATT
* *
36431554 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCG-AAA-TGTGATCA-GTGTAGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTAGT
*
36431615 ACTAAGTGCAGGCTACTACGTGTACCAGATTATT
65 ACTAAGTGCAGGCTACTACGTGTACCAGATGATT
* *
36431649 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
36431690 AGATAGCTTC
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
94 35 0.28
95 39 0.32
98 8 0.07
99 3 0.02
100 3 0.02
101 35 0.28
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (98 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTAGTA
CTAAGTGCAGGCTACTACGTGTACCAGATGATT
Found at i:36434728 original size:15 final size:14
Alignment explanation
Indices: 36434708--36434772 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 14
36434698 GTATCTTAGG
36434708 TTTCTTTATTCTGGA
1 TTTCTTTATT-TGGA
*
36434723 TTTCTTTATTTTGA
1 TTTCTTTATTTGGA
36434737 GTTT-TTCTATCTTGGA
1 -TTTCTT-TAT-TTGGA
*
36434753 TTTCTTTATTTGGT
1 TTTCTTTATTTGGA
36434767 TTTCTT
1 TTTCTT
36434773 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 15 0.35
15 22 0.51
16 6 0.14
ACGTcount: A:0.11, C:0.11, G:0.12, T:0.66
Consensus pattern (14 bp):
TTTCTTTATTTGGA
Found at i:36436957 original size:51 final size:50
Alignment explanation
Indices: 36436891--36437125 Score: 240
Period size: 51 Copynumber: 4.7 Consensus size: 50
36436881 TGAGGTCGCA
* *
36436891 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-TGATCACG
* * *** * * *** *
36436942 TGTGTAGTACTAAGTGTACGCTACTACATGTATCAG-ATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTT-GATCACG
* * * * * * * *
36436992 TGTGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAA-TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTGATCACG
36437041 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-TGATCACG
36437092 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
36437126 AGATAGCTTC
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
49 41 0.28
50 39 0.26
51 68 0.46
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTGATCACG
Found at i:36454338 original size:40 final size:40
Alignment explanation
Indices: 36454301--36454486 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
36454291 GCTACTCGTT
* * *
36454301 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
36454341 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
36454381 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
36454421 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36454462 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36454487 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36458992 original size:27 final size:27
Alignment explanation
Indices: 36458962--36459139 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
36458952 ATATTGAGTC
* *
36458962 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36458989 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36459016 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
36459044 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
36459071 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
36459098 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36459125 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36459140 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36467035 original size:27 final size:27
Alignment explanation
Indices: 36467005--36467182 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
36466995 ATATTGAGTC
* *
36467005 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
36467032 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAATCAACT
*
36467059 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** **
36467087 CGCACACTTAGTGCCGCATGGTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
* **
36467113 GCGCACACTTAGTGC-ATCATATTCATTT
1 -CGCACACTTAGTGCTA-CATAATCAACT
* * *
36467141 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36467168 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36467183 GTACAATTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.02
27 100 0.78
28 26 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36467165 original size:54 final size:54
Alignment explanation
Indices: 36467005--36467181 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
36466995 ATATTGAGTC
* * *
36467005 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAAC-ATAGTCAAAT
* ** *
36467059 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTC-AAT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
36467113 GCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 -CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
36467168 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36467182 TGTACAATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.01
54 58 0.56
55 44 0.42
56 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:36470578 original size:55 final size:55
Alignment explanation
Indices: 36470472--36470599 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
36470462 CGAGCCTGCC
* * *
36470472 AAAACAACACAGGCGTGCGACACACCTGTGTGGAAGAACTATGGGCGAACCTATT
1 AAAATAACACAGGCGTGCGACACACCTGTGTGGAACAACTATGGGCAAACCTATT
* * * * * * *
36470527 AAAATAGCACAGGCGTTCGACACGCCTGTGTGGAACACCTGTGGTCAAACCTGTT
1 AAAATAACACAGGCGTGCGACACACCTGTGTGGAACAACTATGGGCAAACCTATT
*
36470582 AAATTAACACAGGGCGTG
1 AAAATAACACA-GGCGTG
36470600 GGGCTTGTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
55 54 0.92
56 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (55 bp):
AAAATAACACAGGCGTGCGACACACCTGTGTGGAACAACTATGGGCAAACCTATT
Found at i:36472610 original size:6 final size:6
Alignment explanation
Indices: 36472599--36472628 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36472589 TTAAAACCAC
36472599 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
36472629 GTATATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:36476309 original size:30 final size:30
Alignment explanation
Indices: 36476262--36476321 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36476252 TTCCCGAGCC
36476262 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
36476292 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
36476322 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:36477047 original size:49 final size:50
Alignment explanation
Indices: 36476967--36477163 Score: 252
Period size: 50 Copynumber: 3.9 Consensus size: 50
36476957 AGCTATTGTG
* * *
36476967 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
36477017 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * **
36477067 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
36477117 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
36477164 GCTTCAGCTA
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 40 0.33
50 45 0.37
51 38 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:36478011 original size:23 final size:23
Alignment explanation
Indices: 36477981--36478032 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
36477971 GTACAAATGA
36477981 GTTAGTTTTATTGTGGGAAGCAT
1 GTTAGTTTTATTGTGGGAAGCAT
36478004 GTTAGTTTTATTGTGGGAAGCAT
1 GTTAGTTTTATTGTGGGAAGCAT
36478027 GTTAGT
1 GTTAGT
36478033 AAATTGCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (23 bp):
GTTAGTTTTATTGTGGGAAGCAT
Done.