Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 108 of 444
Found at i:26998870 original size:80 final size:80
Alignment explanation
Indices: 26998786--26998934 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
26998776 TATGGTAACC
* * * *
26998786 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
26998850 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
26998866 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
26998931 CCGG
66 CCGG
26998935 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:26998876 original size:40 final size:38
Alignment explanation
Indices: 26998827--26998934 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
26998817 ATCACGATTT
*
26998827 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
26998867 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
26998907 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
26998935 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27007865 original size:524 final size:524
Alignment explanation
Indices: 27006844--27007867 Score: 1344
Period size: 525 Copynumber: 2.0 Consensus size: 524
27006834 AACAAACAGT
* *
27006844 TGTATGCTTGCATGCAATCAATATATAGTGTAACAGTCAGTAGCATGTTGTACTTGTGATCAATT
1 TGTATGCTTGCATGCAATCAATATATAGTGTAACAGTCAGTAGCATGTTGTACATGCGATCAATT
* * * *
27006909 AAACATAACAATCAACATTCTACAAGACAAATAGTAACTGTGCAAATCATCCAATTTAAGCAATC
66 AAACATAACAATCAACATGCTACAAGACAAAGAGTAACAGTACAAATCATCCAATTTAAGCAATC
* * * *
27006974 ATATAATTGTCTTAACCTTTATAACACCAACATGTTCGGGTAGACATGTTTCAAGGCCCTAAAAC
131 ATACAATCGACTTAACCTTTATAACACCAACATGTTCGGGTAGACACGTTTCAAGGCCCTAAAAC
* * * *
27007039 ATTCGGTCATAGCACTTAGATCACATGCATATTTGACTAATCACCAAATAAACACTTACACATGT
196 ATTCAGTCATAGCACTTAGATCACATGCATATTTGACCAATCACAAAATAAACACTTACACATGC
* * * * *
27007104 TTACAATAGTAATTAACACAAAAAGGTAGGACTCACACCTATTTTATGCAAATGCGCCACACTAG
261 TTACAATAGTAATTAACACAAAAAGGTAGGACCCACACATATTTCACGCAAATCCGCCACACTAG
* * * *
27007169 ACTTAATTTTACAACTTCTACGGCTTCAATCTAGACAAACATCCATAAGATCTAAACATCAAACA
326 ACTTAATTCTAAAACTTCTACGGCTTCAATCTAGACAAACATCAATAAGATCTAAACACCAAACA
* ** *
27007234 CACAAAATATGAATTAGAAACAACCTTTGACACCCATATAGGTTTTGGTCAAAATAGGGATTAAC
391 CACAAAACACCAATTAGAAACAACCTTTGACACCCATATAGGTTTTGATCAAAATAGGGATTAAC
* *
27007299 AGTGACTTATTGAATTTGAGTTTTGAACACTATTTACTCTTCTAAAAAAATAGTATAATCGGTAT
456 AGTGACTAATTGAATTTGAGTTTTGAACACTACTTACTCTTCTAAAAAAATAGTATAATCGGTAT
27007364 AATC
521 AATC
* **
27007368 TGTATGCTTGGATGCAATCAATATATAGTGTAACA-TTTGATAGCATGTT-TACATGCGATCAAT
1 TGTATGCTTGCATGCAATCAATATATAGTGTAACAGTCAG-TAGCATGTTGTACATGCGATCAAT
* * *
27007431 TAAACAGTAACAATTAGCATGCTACAAGACAAAGAGTAACAGTACAAATCATCCAAATTTTAGCA
65 TAAACA-TAACAATCAACATGCTACAAGACAAAGAGTAACAGTACAAATCATCC-AATTTAAGCA
* * * ** * * * *
27007496 ATCATGCACTCGACTTAACCTTTATAGCACTTACGTGTTTGGGTAGACACGTTTCAAGGCCTTAG
128 ATCATACAATCGACTTAACCTTTATAACACCAACATGTTCGGGTAGACACGTTTCAAGGCCCTAA
*
27007561 AACATTCAGTCATAGCACTTAGATCACATGCATATTTGACCCATCACAAAATAAACACTTACACA
193 AACATTCAGTCATAGCACTTAGATCACATGCATATTTGACCAATCACAAAATAAACACTTACACA
* ** * * *
27007626 TGCTTACAATAGTCATTCGCACAAAACGTTAGGACCCATACATGA-TTCACGCAAATCCG-CAGC
258 TGCTTACAATAGTAATTAACACAAAAAGGTAGGACCCACACAT-ATTTCACGCAAATCCGCCA-C
* * * * * *
27007689 ACTAGACTTAATTCTAAAACTTTTACGGCTTCAATTTAGATAGACGTTAATAAGATC-AAA-AGC
321 ACTAGACTTAATTCTAAAACTTCTACGGCTTCAATCTAGACAAACATCAATAAGATCTAAACA-C
* * * **
27007752 CAAACACACCAAACACCAATTAGAACCAGCCTTTGACACACC-TATAAGG-TTTGATTGAAATAG
385 CAAACACACAAAACACCAATTAGAAACAACCTTTGACAC-CCATAT-AGGTTTTGATCAAAATAG
* *
27007815 GGATTAACAGTGACTAATTGAATTTGATTTTTGAACTCTACTTACTCTTCTAA
448 GGATTAACAGTGACTAATTGAATTTGAGTTTTGAACACTACTTACTCTTCTAA
27007868 CGATTAAACA
Statistics
Matches: 428, Mismatches: 64, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
523 21 0.05
524 185 0.43
525 221 0.52
526 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (524 bp):
TGTATGCTTGCATGCAATCAATATATAGTGTAACAGTCAGTAGCATGTTGTACATGCGATCAATT
AAACATAACAATCAACATGCTACAAGACAAAGAGTAACAGTACAAATCATCCAATTTAAGCAATC
ATACAATCGACTTAACCTTTATAACACCAACATGTTCGGGTAGACACGTTTCAAGGCCCTAAAAC
ATTCAGTCATAGCACTTAGATCACATGCATATTTGACCAATCACAAAATAAACACTTACACATGC
TTACAATAGTAATTAACACAAAAAGGTAGGACCCACACATATTTCACGCAAATCCGCCACACTAG
ACTTAATTCTAAAACTTCTACGGCTTCAATCTAGACAAACATCAATAAGATCTAAACACCAAACA
CACAAAACACCAATTAGAAACAACCTTTGACACCCATATAGGTTTTGATCAAAATAGGGATTAAC
AGTGACTAATTGAATTTGAGTTTTGAACACTACTTACTCTTCTAAAAAAATAGTATAATCGGTAT
AATC
Found at i:27009438 original size:46 final size:46
Alignment explanation
Indices: 27009388--27009563 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27009378 TGGTTGAGCA
27009388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27009434 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27009479 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27009527 CCCGAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27009564 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27009544 original size:93 final size:93
Alignment explanation
Indices: 27009385--27009556 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27009375 GGATGGTTGA
* *
27009385 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27009450 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
*
27009478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27009543 TGAGTCCGAATTCG
66 TGAGTCCGAATTCG
27009557 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:27016971 original size:46 final size:46
Alignment explanation
Indices: 27016921--27017096 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
27016911 TGGTTGAGCA
* *
27016921 TCCGAACTTGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27016967 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
27017012 CATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27017060 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27017097 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27017077 original size:93 final size:93
Alignment explanation
Indices: 27016918--27017089 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27016908 GGATGGTTGA
* * * *
27016918 GCATCCGAACTTGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27016983 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27017011 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27017076 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27017090 CTTATGGGCG
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:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCAGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27021314 original size:19 final size:19
Alignment explanation
Indices: 27021290--27021330 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27021280 GCTTTTTCTT
27021290 ATTATT-TCTTTTATTATAC
1 ATTATTATCTTTTATTAT-C
*
27021309 ATTATTATTTTTTATTATC
1 ATTATTATCTTTTATTATC
27021328 ATT
1 ATT
27021331 CTTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTATCTTTTATTATC
Found at i:27022886 original size:12 final size:14
Alignment explanation
Indices: 27022858--27022901 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
27022848 ATTTAGCCAT
*
27022858 TTTTTAT-TTCTAT
1 TTTTTATATTCTAA
27022871 TTTTTA-ATT-TAA
1 TTTTTATATTCTAA
27022883 TTTTTATATTCTAA
1 TTTTTATATTCTAA
27022897 TTTTT
1 TTTTT
27022902 TGTTTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 8 0.30
13 11 0.41
14 8 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTATATTCTAA
Found at i:27022887 original size:14 final size:14
Alignment explanation
Indices: 27022857--27022902 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27022847 AATTTAGCCA
27022857 TTTTTTATTTCT-AT
1 TTTTTTA-TTCTAAT
*
27022871 TTTTTAATT-TAAT
1 TTTTTTATTCTAAT
*
27022884 TTTTATATTCTAAT
1 TTTTTTATTCTAAT
27022898 TTTTT
1 TTTTT
27022903 GTTTATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 11 0.42
14 14 0.54
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTATTCTAAT
Found at i:27026891 original size:134 final size:134
Alignment explanation
Indices: 27026642--27026908 Score: 498
Period size: 134 Copynumber: 2.0 Consensus size: 134
27026632 ACCGAATTGT
27026642 CGAACCCAAAGGAACTACGAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAG
1 CGAACCCAAAGGAACTACGAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAG
* * *
27026707 AGGTTTGGTTATCTAAACTAATTACTAACTAAGAATGCACAGAAAGAAAACTTGGGAAAATACTT
66 AGGTTTGGTTATCTAAACTAATTACTAACTAAGAATGCACAAAAAAAAAACTTGGGAAAATAATT
27026772 TTTC
131 TTTC
*
27026776 CGAACCCAAAGGAACTACGAGTACTAGTATTTACTTTCTTTTTATTATCTAGCCTAAAAATTAAG
1 CGAACCCAAAGGAACTACGAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAG
27026841 AGGTTTGGTTATCTAAACTAATTACTAACTAAGAATGCACAAAAAAAAAACTTGGGAAAATAATT
66 AGGTTTGGTTATCTAAACTAATTACTAACTAAGAATGCACAAAAAAAAAACTTGGGAAAATAATT
27026906 TTT
131 TTT
27026909 GGAAAATTTA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (134 bp):
CGAACCCAAAGGAACTACGAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAG
AGGTTTGGTTATCTAAACTAATTACTAACTAAGAATGCACAAAAAAAAAACTTGGGAAAATAATT
TTTC
Found at i:27029674 original size:21 final size:21
Alignment explanation
Indices: 27029650--27029697 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
27029640 AAATCTCAAG
27029650 ATAAAATAGTA-TT-AAAAGGAA
1 ATAAAA-AGTAGTTCAAAA-GAA
27029671 ATAAAAAGTAGTTTCAAAAGAA
1 ATAAAAAGTAG-TTCAAAAGAA
27029693 ATAAA
1 ATAAA
27029698 GATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 10 0.42
23 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (21 bp):
ATAAAAAGTAGTTCAAAAGAA
Found at i:27033267 original size:27 final size:28
Alignment explanation
Indices: 27033211--27033280 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
27033201 AAACTTGTAC
27033211 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
27033239 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
27033266 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
27033281 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:27033291 original size:27 final size:27
Alignment explanation
Indices: 27033211--27033292 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
27033201 AAACTTGTAC
* *
27033211 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
27033239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
27033266 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
27033293 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:27043670 original size:36 final size:36
Alignment explanation
Indices: 27043623--27043694 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
27043613 GAAAGAAAGG
27043623 GTTAGAATCGAGATTGAATTGAAGGATTTCCTAACT
1 GTTAGAATCGAGATTGAATTGAAGGATTTCCTAACT
27043659 GTTAGAATCGAGATTGAATTGAAGGATTTCCTAACT
1 GTTAGAATCGAGATTGAATTGAAGGATTTCCTAACT
27043695 AGAAAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (36 bp):
GTTAGAATCGAGATTGAATTGAAGGATTTCCTAACT
Found at i:27059376 original size:21 final size:22
Alignment explanation
Indices: 27059338--27059386 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
27059328 TTGGCCCTTC
*
27059338 CATT-TTCTTTTTGTTTATTA-
1 CATTATTCTTTTTGATTATTAT
27059358 CAATTATTCTTTTT-ATTATTAT
1 C-ATTATTCTTTTTGATTATTAT
27059380 CATTATT
1 CATTATT
27059387 ATTAGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 9 0.36
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (22 bp):
CATTATTCTTTTTGATTATTAT
Found at i:27059504 original size:6 final size:6
Alignment explanation
Indices: 27059472--27059517 Score: 64
Period size: 5 Copynumber: 8.3 Consensus size: 6
27059462 TTTTAGTTAG
27059472 TTTTTA -TTTTA -TTTTA -TTTTA -TTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
27059516 TT
1 TT
27059518 ATTAGTATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 20 0.51
6 19 0.49
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:27059519 original size:21 final size:21
Alignment explanation
Indices: 27059478--27059520 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
27059468 TTAGTTTTTA
*
27059478 TTTTATTTTATTTTATTTTAT
1 TTTTATTTTATTTTATATTAT
27059499 TTTTATTTTTATTTT-TATTAT
1 TTTTA-TTTTATTTTATATTAT
27059520 T
1 T
27059521 AGTATGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTATTTTATTTTATATTAT
Found at i:27077492 original size:3 final size:3
Alignment explanation
Indices: 27077484--27077512 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27077474 GTGCATTCAT
27077484 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
27077513 TGTCCTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:27083982 original size:93 final size:93
Alignment explanation
Indices: 27083870--27084040 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
27083860 GCCCATAAGT
* * *
27083870 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27083935 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
27083963 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27084028 CGAGTTCGGATGC
66 CGAGCTCGGATGC
27084041 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27084037 original size:46 final size:46
Alignment explanation
Indices: 27083862--27084037 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
27083852 TGTAACCCGC
* *
27083862 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
27083908 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
27083954 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27084001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27084038 TGCTCAACCA
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
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:27086430 original size:15 final size:15
Alignment explanation
Indices: 27086398--27086461 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
27086388 CAAAGATAAC
27086398 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
27086411 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
27086426 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
27086441 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
27086456 AAGAAA
1 AAGAAA
27086462 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27089519 original size:93 final size:93
Alignment explanation
Indices: 27089411--27089580 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
27089401 CCCATAAGTG
* * * *
27089411 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
27089476 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
*
27089504 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
27089569 GAGTTCGGATGC
66 GAGCTCGGATGC
27089581 TCAACCATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:27089577 original size:46 final size:46
Alignment explanation
Indices: 27089402--27089577 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
27089392 TGTAACCCGC
* *
27089402 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
27089448 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
27089498 CTC-TCA---AACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27089541 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27089578 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 62 0.57
47 25 0.23
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:27096626 original size:22 final size:22
Alignment explanation
Indices: 27096600--27096643 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27096590 GTATTTGATA
27096600 AACCGTAATTTATACATATTTT
1 AACCGTAATTTATACATATTTT
27096622 AACCGTAATTTATACATATTTT
1 AACCGTAATTTATACATATTTT
27096644 TACTCCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
AACCGTAATTTATACATATTTT
Found at i:27099769 original size:138 final size:138
Alignment explanation
Indices: 27099578--27100182 Score: 712
Period size: 138 Copynumber: 4.4 Consensus size: 138
27099568 TTTAATCCAT
* * ** **
27099578 TCCATTGCAATTTTAGGGATATAATATTTGGGGCTTCATCTTACTCCACTGCATCCTTAGGGAGA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCATCCTTAGGGAGA
* ** * * *
27099643 TAAGATTCACCATTGTAGTTTTTTTCCAACCCACTACTACTTCAGGGGTATAAGAATTGTATCTT
66 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
27099708 CAATCTGA
131 CAATCTGA
* * *
27099716 TCTACTACAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCATCCTTAGGGAGA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCATCCTTAGGGAGA
** * * * *
27099781 TAAGATTTGCCATTGTAATTTCATTCTAACTCACTGCAACTTCAAGGGTATAGGAATTGCATCTT
66 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
*
27099846 CAATTTGA
131 CAATCTGA
* * * *
27099854 TCCACTGCAA-TATTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACT-TTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCATCCTTAGGGAG
* * * * * * * *
27099918 ATAAGATTCACTATTTTAGTTTCATTCTGACCTAGTGCAACTTCAGGGGTATAGGAATTGTTTCT
65 ATAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCT
27099983 TCAAT-TCGA
130 TCAATCT-GA
* * * * * *
27099992 TTCGCTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTTCTCCGCTGCA-ACTTCAGGGAG
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCATCCTT-AGGGAG
* * * *
27100056 ATAGGATTCGCCATTGTAATTTCATTCTAACCCGCTACAACTTCAGGGGTATAGGAAATGTATCT
65 ATAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCT
* **
27100121 TTAATCCCA
130 TCAATCTGA
* * *
27100130 TCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTTATCTTACTGCACTGCA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCA
27100183 ACTTCAAGGA
Statistics
Matches: 392, Mismatches: 70, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
137 4 0.01
138 387 0.99
139 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (138 bp):
TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCATCCTTAGGGAGA
TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
CAATCTGA
Found at i:27100029 original size:44 final size:43
Alignment explanation
Indices: 27099953--27100063 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 43
27099943 TCTGACCTAG
* * ** *
27099953 TGCAACTTCAGGGGTATAGGAATTGTTTCTTCA-ATTCGATTCGC
1 TGCAACTTCAGGGATATAGGATTTGTAGCTTCACATTC--TCCGC
*
27099997 TGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTTCTCCGC
1 TGCAACTTCAGGGATATAGGATTTGTAGCTTCA-CATTCTCCGC
*
27100041 TGCAACTTCAGGGAGATAGGATT
1 TGCAACTTCAGGGATATAGGATT
27100064 CGCCATTGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 55 0.95
46 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
TGCAACTTCAGGGATATAGGATTTGTAGCTTCACATTCTCCGC
Found at i:27100167 original size:44 final size:44
Alignment explanation
Indices: 27100093--27100260 Score: 115
Period size: 44 Copynumber: 3.7 Consensus size: 44
27100083 TAACCCGCTA
* ** *
27100093 CAACTTCAGGGGTATAGGAAATGTATCTTTAATCCCATCCACTG
1 CAACTTCAGGGATATAGGATTTGTAGCTTTAATCCCATCCACTG
** *
27100137 CAACTTCAGGGATATAGGATTTGTAGCTTT-ATCTTACTGCACTG
1 CAACTTCAGGGATATAGGATTTGTAGCTTTAATCCCA-TCCACTG
* * * * * *
27100181 CAACTTCAAGGAAATAAGACTCGCTATGGTAACTTCAATCCGA-CCTACTG
1 CAACTTCAGGGATATAGGA-T---T-T-GTAGCTTTAATCCCATCC-ACTG
* *
27100231 TAACTTCAGGGGTATAGGATTTGTAGCTTT
1 CAACTTCAGGGATATAGGATTTGTAGCTTT
27100261 CTCTTGTTCC
Statistics
Matches: 93, Mismatches: 22, Indels: 18
0.70 0.17 0.14
Matches are distributed among these distances:
43 4 0.04
44 54 0.58
45 2 0.02
46 1 0.01
48 1 0.01
49 3 0.03
50 24 0.26
51 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGATATAGGATTTGTAGCTTTAATCCCATCCACTG
Found at i:27100183 original size:138 final size:137
Alignment explanation
Indices: 27099578--27100255 Score: 710
Period size: 138 Copynumber: 4.9 Consensus size: 137
27099568 TTTAATCCAT
* * ** ** *
27099578 TCCATTGCAATTTTAGGGATATAATATTTGGGGCTTCATCTTACTCCACTGCATCCTTAGGGAGA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCA-ACTTAGGGAGA
* ** * * *
27099643 TAAGATTCACCATTGTAGTTTTTTTCCAACCCACTACTACTTCAGGGGTATAAGAATTGTATCTT
65 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
*
27099708 CAATCTGA
130 CAATCCGA
* * * *
27099716 TCTACTACAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCATTGCATCCTTAGGGAGA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCA-ACTTAGGGAGA
** * * * *
27099781 TAAGATTTGCCATTGTAATTTCATTCTAACTCACTGCAACTTCAAGGGTATAGGAATTGCATCTT
65 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
**
27099846 CAATTTGA
130 CAATCCGA
* *
27099854 TCCACTGCAA-TATTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACT-TTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCAAC-TTAGGGAG
* * * * * * * *
27099918 ATAAGATTCACTATTTTAGTTTCATTCTGACCTAGTGCAACTTCAGGGGTATAGGAATTGTTTCT
64 ATAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCT
*
27099983 TCAATTCGA
129 TCAATCCGA
* * * * *
27099992 TTCGCTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTTCTCCGCTGCAACTTCAGGGAGA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTT-AGGGAGA
* * * *
27100057 TAGGATTCGCCATTGTAATTTCATTCTAACCCGCTACAACTTCAGGGGTATAGGAAATGTATCTT
65 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTT
* *
27100122 TAATCCCA
130 CAATCCGA
* * * * *
27100130 TCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTTATCTTACTGCACTGCAACTTCAAGGAAA
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTT-AGGGAGA
* * * * * * ** * ** *
27100195 TAAGACTCGCTATGGTAACTTCAATCCGACCTACTGTAACTTCAGGGGTATAGGATTTGTA
65 TAAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTA
27100256 GCTTTCTCTT
Statistics
Matches: 452, Mismatches: 84, Indels: 8
0.83 0.15 0.01
Matches are distributed among these distances:
137 4 0.01
138 447 0.99
139 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (137 bp):
TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTAGGGAGAT
AAGATTCACCATTGTAATTTCATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTATCTTC
AATCCGA
Found at i:27100221 original size:94 final size:93
Alignment explanation
Indices: 27100131--27100346 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
27100121 TTAATCCCAT
* * *
27100131 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTTATCTTACTGCACTGCAACTTCAAGGAAAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTACTCCACTACAACTTCAAGGAAAT
*
27100196 AAGACTCGCTATGGTAACTTCAATCCGA
66 AAGACTCACTATGGTAACTTCAATCCGA
* * ** ** *
27100224 CCTACTGTAACTTCAGGGGTATAGGATTTGTAGCTTTCTCTTGTTCCACTACAACTTCTGGGAGA
1 CC-ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTACTCCACTACAACTTCAAGGAAA
* *
27100289 TAAGACTCACTATGGTAAGTTTAATCCGA
65 TAAGACTCACTATGGTAACTTCAATCCGA
* * *
27100318 CCCACTACAACATCAGGGGTATAAGATTT
1 -CCACTGCAACTTCAGGGGTATAGGATTT
27100347 ACTGTTTCAT
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
93 2 0.02
94 100 0.96
95 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (93 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTACTCCACTACAACTTCAAGGAAAT
AAGACTCACTATGGTAACTTCAATCCGA
Found at i:27101973 original size:27 final size:26
Alignment explanation
Indices: 27101938--27102049 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
27101928 AGCATGGCTG
* *
27101938 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
27101964 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
27101992 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
27102019 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
27102046 CCAG
1 CCAG
27102050 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27102002 original size:54 final size:54
Alignment explanation
Indices: 27101938--27102049 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
27101928 AGCATGGCTG
*
27101938 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * * *
27101992 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
27102046 CCAG
1 CCAG
27102050 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:27108997 original size:126 final size:126
Alignment explanation
Indices: 27108772--27109011 Score: 480
Period size: 126 Copynumber: 1.9 Consensus size: 126
27108762 GGCAACGGTG
27108772 ACGCAGTTTTCCAGCCTGTCCAGAAATGCCAAATTGGTCGGTACTTTAAGAGGATTTGTCTCGTT
1 ACGCAGTTTTCCAGCCTGTCCAGAAATGCCAAATTGGTCGGTACTTTAAGAGGATTTGTCTCGTT
27108837 AACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTAATTGGTA
66 AACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTAATTGGTA
27108898 ACGCAGTTTTCCAGCCTGTCCAGAAATGCCAAATTGGTCGGTACTTTAAGAGGATTTGTCTCGTT
1 ACGCAGTTTTCCAGCCTGTCCAGAAATGCCAAATTGGTCGGTACTTTAAGAGGATTTGTCTCGTT
27108963 AACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACA
66 AACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACA
27109012 GCTTCAGTCA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (126 bp):
ACGCAGTTTTCCAGCCTGTCCAGAAATGCCAAATTGGTCGGTACTTTAAGAGGATTTGTCTCGTT
AACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTAATTGGTA
Found at i:27112998 original size:27 final size:26
Alignment explanation
Indices: 27112963--27113074 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
27112953 AGCATGGCTT
* *
27112963 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
27112989 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
27113017 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
27113044 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
27113071 CCAG
1 CCAG
27113075 GACACTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27113027 original size:54 final size:54
Alignment explanation
Indices: 27112963--27113074 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
27112953 AGCATGGCTT
*
27112963 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
27113017 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
27113071 CCAG
1 CCAG
27113075 GACACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:27114520 original size:24 final size:24
Alignment explanation
Indices: 27114493--27114563 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
27114483 CTAGATTTCC
**
27114493 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
27114517 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
27114541 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
27114564 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:27120542 original size:33 final size:33
Alignment explanation
Indices: 27120491--27120595 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
27120481 AACAGTGCAT
* * * *
27120491 ACAGTAACGGTCTGGGCCTGATCCCTATTCAATA
1 ACAGT-ACAGTCTGGGCCTAAGCCCTATGCAATA
* *
27120525 ATAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAATA
* * *
27120558 ACAGTACAGTATGGGCCTAAGCCCTATGTAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAATA
27120591 ACAGT
1 ACAGT
27120596 GTGGGCCTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
33 58 0.94
34 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
ACAGTACAGTCTGGGCCTAAGCCCTATGCAATA
Found at i:27120561 original size:28 final size:28
Alignment explanation
Indices: 27120530--27120604 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 28
27120520 CAATAATAGT
27120530 ACAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTCTGGGCCTAAGCCCTATGCAGTA
*
27120558 ACAGTACAGTATGGGCCTAAGCCCTATGTAGTA
1 ACAGT-C----TGGGCCTAAGCCCTATGCAGTA
*
27120591 ACAGTGTGGGCCTA
1 ACAGTCTGGGCCTA
27120605 TGCACAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
28 13 0.32
29 1 0.03
33 26 0.65
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:27120756 original size:23 final size:23
Alignment explanation
Indices: 27120737--27120794 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
27120727 ATCGCAGCGT
*
27120737 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
* * *
27120760 AGTTGCTAGTAGTAACACAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
27120783 AGCTGCTAATAG
1 AGCTGCTAATAG
27120795 CAGTAAACGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAGCAA
Found at i:27120819 original size:27 final size:27
Alignment explanation
Indices: 27120779--27120842 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
27120769 TAGTAACACA
**
27120779 GCAAAGCTGCTAATAGCAGTAA-ACGTG
1 GCAAAGCCACTAATAGCAG-AATACGTG
* *
27120806 GCATAGCCACTAATATCAGAATACGTG
1 GCAAAGCCACTAATAGCAGAATACGTG
27120833 GCAAAGCCAC
1 GCAAAGCCAC
27120843 CAGAACAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
GCAAAGCCACTAATAGCAGAATACGTG
Found at i:27123413 original size:28 final size:28
Alignment explanation
Indices: 27123359--27123414 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
27123349 CAATAACAGT
* **
27123359 ACAGTCTGGGCCTAAGCCCTATGTAGTA
1 ACAGTCTGGGCCTAAGCCCAAAATAGTA
* *
27123387 ACAGTGTGGGCCTATGCCCAAAATAGTA
1 ACAGTCTGGGCCTAAGCCCAAAATAGTA
27123415 TAATCACAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAAAATAGTA
Found at i:27123570 original size:22 final size:23
Alignment explanation
Indices: 27123533--27123589 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
27123523 ATCACAGCGT
*
27123533 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAATGCAGAAA
* *
27123556 AGCTGCT-GTAGTAATGCGGAAA
1 AGCTGCTAATAGTAATGCAGAAA
27123578 AGCTGCTAATAG
1 AGCTGCTAATAG
27123590 CAGTAAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (23 bp):
AGCTGCTAATAGTAATGCAGAAA
Found at i:27124245 original size:10 final size:10
Alignment explanation
Indices: 27124230--27124254 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27124220 GGCATATTTT
27124230 GCCCATTGAG
1 GCCCATTGAG
27124240 GCCCATTGAG
1 GCCCATTGAG
27124250 GCCCA
1 GCCCA
27124255 GTACACGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.16
Consensus pattern (10 bp):
GCCCATTGAG
Found at i:27125455 original size:2 final size:2
Alignment explanation
Indices: 27125448--27125473 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27125438 ATAATCCAAA
27125448 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27125474 TTAAAATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27126733 original size:26 final size:26
Alignment explanation
Indices: 27126704--27126754 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
27126694 GGCCGAATAT
27126704 CCATATGGTCAAATTAACATTTTAAA
1 CCATATGGTCAAATTAACATTTTAAA
27126730 CCATATGGTCAAATTAACATTTTAA
1 CCATATGGTCAAATTAACATTTTAA
27126755 CATTCAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (26 bp):
CCATATGGTCAAATTAACATTTTAAA
Found at i:27127214 original size:43 final size:43
Alignment explanation
Indices: 27127153--27127246 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
27127143 ACAAGTCGTA
* * **
27127153 CAATGCCAATGTCCCAGAC-GTTGTCTTACATGTAGTCACATAT
1 CAATGCCAATGTCCCAGACAG-GGTCTTACACGTAAACACATAT
*
27127196 CAATGCCACTGTCCCAGACAGGGTCTTACACGTAAACACATAT
1 CAATGCCAATGTCCCAGACAGGGTCTTACACGTAAACACATAT
27127239 CAATGCCA
1 CAATGCCA
27127247 TGGTCTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACAGGGTCTTACACGTAAACACATAT
Found at i:27131825 original size:17 final size:17
Alignment explanation
Indices: 27131800--27131839 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27131790 ACTTGATCAT
* * *
27131800 TTTAATAAAATGTTAGA
1 TTTATTAAAATGGTAAA
27131817 TTTATTAAAATGGTAAA
1 TTTATTAAAATGGTAAA
27131834 TTTATT
1 TTTATT
27131840 GGTCTACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (17 bp):
TTTATTAAAATGGTAAA
Found at i:27132736 original size:21 final size:21
Alignment explanation
Indices: 27132706--27132755 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
27132696 CTCTACTCTG
*
27132706 CTCCCATCGCTACTGTC-GCTGC
1 CTCCC-TCGCTACT-ACAGCTGC
*
27132728 CTCCCTCGCTGCTACAGCTGC
1 CTCCCTCGCTACTACAGCTGC
27132749 CTCCCTC
1 CTCCCTC
27132756 TTTGCTGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 5 0.20
ACGTcount: A:0.08, C:0.50, G:0.16, T:0.26
Consensus pattern (21 bp):
CTCCCTCGCTACTACAGCTGC
Found at i:27133202 original size:13 final size:14
Alignment explanation
Indices: 27133176--27133204 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27133166 ACTAACGACG
27133176 AATTAAACCATTAT
1 AATTAAACCATTAT
27133190 AATTAAA-CATTAT
1 AATTAAACCATTAT
27133203 AA
1 AA
27133205 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27138234 original size:7 final size:7
Alignment explanation
Indices: 27138224--27138248 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27138214 AGATAATACA
27138224 TATCAAG
1 TATCAAG
27138231 TATCAAG
1 TATCAAG
27138238 TATCAAG
1 TATCAAG
27138245 TATC
1 TATC
27138249 TAATAGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (7 bp):
TATCAAG
Found at i:27138324 original size:9 final size:9
Alignment explanation
Indices: 27138310--27138451 Score: 94
Period size: 9 Copynumber: 16.0 Consensus size: 9
27138300 TCTGTATTAC
*
27138310 GTAAGTTAA
1 GTAAGTTAT
*
27138319 GTAAGTTTT
1 GTAAGTTAT
*
27138328 GTAAGTTTT
1 GTAAGTTAT
27138337 GTAAGTTAT
1 GTAAGTTAT
27138346 GTAAGTTAT
1 GTAAGTTAT
* *
27138355 GATATGATAT
1 G-TAAGTTAT
* *
27138365 -AAATTTAT
1 GTAAGTTAT
*
27138373 GTAAGGTAT
1 GTAAGTTAT
*
27138382 ATAAGTTAT
1 GTAAGTTAT
27138391 GTAAGTTAT
1 GTAAGTTAT
* **
27138400 GATATGAAAT
1 G-TAAGTTAT
* *
27138410 AT-ATTTAT
1 GTAAGTTAT
*
27138418 GT-A-TTAC
1 GTAAGTTAT
27138425 GTAAGTTAT
1 GTAAGTTAT
*
27138434 TTAAGTTAT
1 GTAAGTTAT
27138443 GTAAGTTAT
1 GTAAGTTAT
27138452 TAAATAATAT
Statistics
Matches: 100, Mismatches: 28, Indels: 10
0.72 0.20 0.07
Matches are distributed among these distances:
7 5 0.05
8 9 0.09
9 75 0.75
10 11 0.11
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:27138467 original size:11 final size:11
Alignment explanation
Indices: 27138451--27138508 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 11
27138441 ATGTAAGTTA
27138451 TTAAATAATAT
1 TTAAATAATAT
27138462 TTAAATAAATTAAT
1 TTAAAT-AA-T-AT
*
27138476 CTAAATAATATT
1 TTAAATAATA-T
27138488 AATTAAATAATAT
1 --TTAAATAATAT
27138501 TTAAATAA
1 TTAAATAA
27138509 ATTAATCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
11 15 0.38
12 4 0.10
13 4 0.10
14 16 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATAATAT
Found at i:27138482 original size:14 final size:14
Alignment explanation
Indices: 27138463--27138520 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
27138453 AAATAATATT
27138463 TAAATAAATTAATC
1 TAAATAAATTAATC
27138477 TAAATAATATTAAT-
1 TAAATAA-ATTAATC
*
27138491 TAAAT-AA-T-ATT
1 TAAATAAATTAATC
27138502 TAAATAAATTAATC
1 TAAATAAATTAATC
*
27138516 CAAAT
1 TAAAT
27138521 TATATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.05
11 6 0.16
12 3 0.08
13 2 0.05
14 18 0.49
15 6 0.16
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATAAATTAATC
Found at i:27138504 original size:15 final size:14
Alignment explanation
Indices: 27138450--27138501 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
27138440 TATGTAAGTT
27138450 ATTAAATAATA-T-
1 ATTAAATAATATTA
27138462 -TTAAATAA-ATTA
1 ATTAAATAATATTA
27138474 ATCTAAATAATATTA
1 AT-TAAATAATATTA
27138489 ATTAAATAATATT
1 ATTAAATAATATT
27138502 TAAATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 9 0.26
13 1 0.03
14 18 0.51
15 6 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAATAATATTA
Found at i:27138505 original size:25 final size:24
Alignment explanation
Indices: 27138451--27138514 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
27138441 ATGTAAGTTA
* *
27138451 TTAAATAATATTTAAATAAATTAAT
1 TTAAATAATA-TTAATTAAATAAAT
*
27138476 CTAAATAATATTAATTAAATAATAT
1 TTAAATAATATTAATTAAATAA-AT
27138501 TTAAATAA-ATTAAT
1 TTAAATAATATTAAT
27138515 CCAAATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAATAATATTAATTAAATAAAT
Found at i:27138533 original size:39 final size:39
Alignment explanation
Indices: 27138450--27138529 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
27138440 TATGTAAGTT
*
27138450 ATTAAATAATATTTAAATAAATTAATCTAAATAATATTA
1 ATTAAATAATATTTAAATAAATTAATCCAAATAATATTA
*
27138489 ATTAAATAATATTTAAATAAATTAATCCAAATTATA-TA
1 ATTAAATAATATTTAAATAAATTAATCCAAATAATATTA
27138527 ATT
1 ATT
27138530 TAAAAAATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 5 0.13
39 34 0.87
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (39 bp):
ATTAAATAATATTTAAATAAATTAATCCAAATAATATTA
Found at i:27138700 original size:16 final size:15
Alignment explanation
Indices: 27138681--27138729 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
27138671 AAAAAAAATC
27138681 ATTTTAATTGAATAAT
1 ATTTTAATT-AATAAT
27138697 ATTTATAA--AA-AAT
1 ATTT-TAATTAATAAT
27138710 ATTTTAATTAAATAAT
1 ATTTTAATT-AATAAT
27138726 ATTT
1 ATTT
27138730 AAATAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 2 0.07
15 2 0.07
16 11 0.39
17 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTTAATTAATAAT
Found at i:27138716 original size:29 final size:30
Alignment explanation
Indices: 27138673--27138730 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
27138663 TCACATGGAA
*
27138673 AAAAAATCATTTTAATTGAATAATATTTAT
1 AAAAAATCATTTTAATTAAATAATATTTAT
27138703 AAAAAAT-ATTTTAATTAAATAATATTTA
1 AAAAAATCATTTTAATTAAATAATATTTA
27138731 AATAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AAAAAATCATTTTAATTAAATAATATTTAT
Found at i:27138736 original size:15 final size:15
Alignment explanation
Indices: 27138691--27138737 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
27138681 ATTTTAATTG
27138691 AATAATATTT--ATA
1 AATAATATTTAAATA
* *
27138704 AAAAATATTTTAATTA
1 AATAATA-TTTAAATA
27138720 AATAATATTTAAATA
1 AATAATATTTAAATA
27138735 AAT
1 AAT
27138738 TAATCCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 6 0.22
14 3 0.11
15 10 0.37
16 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATTTAAATA
Found at i:27138741 original size:16 final size:16
Alignment explanation
Indices: 27138681--27138737 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
27138671 AAAAAAAATC
* *
27138681 ATTTTAATTGAATAAT
1 ATTTTAAATAAATAAT
*
27138697 A-TTT--ATAAAAAAT
1 ATTTTAAATAAATAAT
*
27138710 ATTTTAATTAAATAAT
1 ATTTTAAATAAATAAT
27138726 A-TTTAAATAAAT
1 ATTTTAAATAAAT
27138738 TAATCCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 13 0.41
16 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTTTAAATAAATAAT
Found at i:27139005 original size:24 final size:24
Alignment explanation
Indices: 27138973--27139019 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
27138963 TTAACTTAAA
* *
27138973 TGATAAAACAGATGATAATATTTG
1 TGATAAAACAGACGAAAATATTTG
*
27138997 TGATAAAACGGACGAAAATATTT
1 TGATAAAACAGACGAAAATATTT
27139020 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (24 bp):
TGATAAAACAGACGAAAATATTTG
Found at i:27139610 original size:42 final size:42
Alignment explanation
Indices: 27139551--27139631 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
27139541 CTCAGCTTGC
27139551 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
1 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
27139593 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGT
1 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGT
27139632 GTGTTTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (42 bp):
TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
Found at i:27141499 original size:114 final size:114
Alignment explanation
Indices: 27141291--27141516 Score: 257
Period size: 114 Copynumber: 2.0 Consensus size: 114
27141281 GGCCTTTTTA
* *
27141291 GAGAAAATGCCACTAAAGGCTATTCATTTGCGGCGTTTTAGTAAAAGCTCCACTAATAGGCAGAC
1 GAGAAAATGCCACTAAAGGCTATT-ATTTACGGCGTTTTAGAAAAAGCTCCACTAATAGGCAGAC
* *
27141356 AGAAACAACAGCGTATTGCACATTGTTAAAACATTATTCGCGGCGTTTAAC
65 AAAAACAACAGCGTATTGCACATCGTTAAAACA-TATTCGCGGCGTTTAAC
* *
27141407 GAGAAAATGCCACTAAAGGCTTATT-TTTACGGTGTTTTCCA-AAAAAG-T-CACTAATAGTCAG
1 GAGAAAATGCCACTAAAGGC-TATTATTTACGGCGTTTT--AGAAAAAGCTCCACTAATAGGCAG
* * * *
27141468 ACAAAAACGACAGCGT-TTTC-CATACGCTTAAAACATATTTGCGGTGTTT
63 ACAAAAACAACAGCGTATTGCACAT-CG-TTAAAACATATTCGCGGCGTTT
27141517 TCTTAAAAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
112 3 0.03
113 16 0.17
114 34 0.36
115 12 0.13
116 25 0.26
117 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (114 bp):
GAGAAAATGCCACTAAAGGCTATTATTTACGGCGTTTTAGAAAAAGCTCCACTAATAGGCAGACA
AAAACAACAGCGTATTGCACATCGTTAAAACATATTCGCGGCGTTTAAC
Found at i:27142078 original size:20 final size:20
Alignment explanation
Indices: 27142053--27142103 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
27142043 TATGGGTTTA
27142053 AGGGTTAGGGGTTAGAAGTT
1 AGGGTTAGGGGTTAGAAGTT
** * *
27142073 AGGGTTAATGGTTAGGATTT
1 AGGGTTAGGGGTTAGAAGTT
27142093 ATGGGTTAGGG
1 A-GGGTTAGGG
27142104 TCTAGTGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
AGGGTTAGGGGTTAGAAGTT
Found at i:27142173 original size:16 final size:16
Alignment explanation
Indices: 27142148--27142191 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
27142138 AGACTTAGGG
*
27142148 TTTAAAGGTTTAGTGA
1 TTTAAGGGTTTAGTGA
*
27142164 TTTAAGGGTTTAGTGC
1 TTTAAGGGTTTAGTGA
*
27142180 GTT-AGGGTTTAG
1 TTTAAGGGTTTAG
27142192 AGAAAACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.43
Consensus pattern (16 bp):
TTTAAGGGTTTAGTGA
Found at i:27147298 original size:72 final size:72
Alignment explanation
Indices: 27147181--27147324 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
27147171 ATTGTTAAAA
*
27147181 GTGTGAAAGTTTAGGGGCTGATGTGTAAATAGGCGTAAATGTATGTTTTGGACTAAATTGAATGA
1 GTGTGAAAGTTTAGGGGCTAATGTGTAAATAGGCGTAAATGTATGTTTTGGACTAAATTGAATGA
27147246 ATGGTTG
66 ATGGTTG
* *
27147253 GTGTGAAAGTTTAGGGGCTAATGTGTAAATAGTCTTAAATGTATGTTTTGGACTAAATTGAATGA
1 GTGTGAAAGTTTAGGGGCTAATGTGTAAATAGGCGTAAATGTATGTTTTGGACTAAATTGAATGA
27147318 ATGGTTG
66 ATGGTTG
27147325 ATTAAATAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (72 bp):
GTGTGAAAGTTTAGGGGCTAATGTGTAAATAGGCGTAAATGTATGTTTTGGACTAAATTGAATGA
ATGGTTG
Found at i:27149445 original size:9 final size:9
Alignment explanation
Indices: 27149422--27149477 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
27149412 TTTATGCAGT
*
27149422 AGAATAAAA
1 AGAAGAAAA
27149431 AG-AGAAAA
1 AGAAGAAAA
27149439 AGAAG---A
1 AGAAGAAAA
*
27149445 AG-AGAACA
1 AGAAGAAAA
*
27149453 AGAAGAAGA
1 AGAAGAAAA
27149462 AGAAGAAAA
1 AGAAGAAAA
27149471 AGAAGAA
1 AGAAGAA
27149478 GGAGAAGGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
8 10 0.26
9 24 0.62
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:27149446 original size:3 final size:3
Alignment explanation
Indices: 27149433--27149491 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
27149423 GAATAAAAAG
* * * *
27149433 AGA AAA AGA AGA AG- AGA ACA AGA AGA AGA AGA AGA AAA AGA AGA AGG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
27149480 AGA AGG AGA AGA
1 AGA AGA AGA AGA
27149492 GAAAAGATAG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:27150682 original size:21 final size:21
Alignment explanation
Indices: 27150640--27150708 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
27150630 AGTTTGTAAT
* *
27150640 TGAGTTAGGGCAG-CATCCTGC
1 TGAGTTAGGGTAGAC-TCTTGC
*
27150661 TGAGTTAGGGTATACTCTTGC
1 TGAGTTAGGGTAGACTCTTGC
* * * *
27150682 TGATTTGGGGTAGCCTGTTGC
1 TGAGTTAGGGTAGACTCTTGC
27150703 TGAGTT
1 TGAGTT
27150709 GGAGCAACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.35
Consensus pattern (21 bp):
TGAGTTAGGGTAGACTCTTGC
Found at i:27150710 original size:21 final size:21
Alignment explanation
Indices: 27150658--27150710 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
27150648 GGCAGCATCC
* *
27150658 TGCTGAGTTAGGGTATACTCT
1 TGCTGAGTTGGGGTAGACTCT
* * *
27150679 TGCTGATTTGGGGTAGCCTGT
1 TGCTGAGTTGGGGTAGACTCT
27150700 TGCTGAGTTGG
1 TGCTGAGTTGG
27150711 AGCAACCACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.36, T:0.38
Consensus pattern (21 bp):
TGCTGAGTTGGGGTAGACTCT
Found at i:27151251 original size:20 final size:20
Alignment explanation
Indices: 27151226--27151269 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
27151216 TACTAGGTCC
*
27151226 ACCACATGCTGACTGTCTAA
1 ACCACATGCTGACTGCCTAA
**
27151246 ACCACATTTTGACTGCCTAA
1 ACCACATGCTGACTGCCTAA
27151266 ACCA
1 ACCA
27151270 TATTCAACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (20 bp):
ACCACATGCTGACTGCCTAA
Found at i:27151549 original size:82 final size:81
Alignment explanation
Indices: 27151355--27151558 Score: 201
Period size: 82 Copynumber: 2.5 Consensus size: 81
27151345 AAATAGTCAC
* * * * *
27151355 TAAACTAGTCATGTGACCAGCCCCACATATAATCATACACACACATACCTAAAAATAGTCACTAC
1 TAAAC-AG-CATGTGACCAGCCCCACAAACAATCATACACACACACACCTAAAAACAATCACTAC
27151420 ATGCATATTAAAAAACAG
64 ATGCATATTAAAAAACAG
* * * * * * * * *
27151438 TCAACAGCATGTGGCTAGCTCCACCAACAATCATACACATATACACCTAAAAAACAATCATTGCA
1 TAAACAGCATGTGACCAGCCCCACAAACAATCATACACACACACACCT-AAAAACAATCACTACA
* * *
27151503 TGTATATTTAAAAATAG
65 TGCATATTAAAAAACAG
* * *
27151520 TAAACAGCATGCGACCAACCCCACAAACAAGCATACACA
1 TAAACAGCATGTGACCAGCCCCACAAACAATCATACACA
27151559 GACTGATTAA
Statistics
Matches: 95, Mismatches: 25, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
81 32 0.34
82 59 0.62
83 4 0.04
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.20
Consensus pattern (81 bp):
TAAACAGCATGTGACCAGCCCCACAAACAATCATACACACACACACCTAAAAACAATCACTACAT
GCATATTAAAAAACAG
Found at i:27159675 original size:43 final size:43
Alignment explanation
Indices: 27159550--27159694 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
27159540 TATCCCGGAT
* * * * *
27159550 ATGGTCTTACATGCT-ATCACATATCGATGCGACTGTTCCAGAC
1 ATGGTCTTACACG-TAATCTCATATCGATGCCAATGTCCCAGAC
*
27159593 AGGGTCTTACACG-AA--TCATATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGAC
27159634 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
*
27159677 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGTAATC
27159695 ACGCTTTGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
40 5 0.06
41 28 0.31
42 3 0.03
43 47 0.53
44 6 0.07
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:27161610 original size:40 final size:42
Alignment explanation
Indices: 27161473--27161611 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 42
27161463 AATACTCGAT
* * ** ***
27161473 ATCTCACACACTAAGTGCCAAATCATAGATGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCCG
* * *
27161515 ATCTCGCACACTAAGTGCC-TTTCATAGCCAAAGCTATCTCAG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCCG
*
27161557 -TCTCGCATA-TAAGTGCCATAT-ATAGCCGAAGCTATTCCG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCCG
27161596 AT-TCGCACACTAAGTG
1 ATCTCGCACACTAAGTG
27161612 TTTTATATAG
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
39 9 0.11
40 28 0.35
41 23 0.29
42 19 0.24
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCCG
Found at i:27161643 original size:40 final size:40
Alignment explanation
Indices: 27161575--27161651 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
27161565 ATAAGTGCCA
*
27161575 TATATAGCCGAAGCTATTCCGATTCGCACACTAAGTGTTT
1 TATATAGCCGAAGCTATTCCGATACGCACACTAAGTGTTT
* * *
27161615 TATATAGCCGAAGTTA-TCTCTATACGCACACTGAGTG
1 TATATAGCCGAAGCTATTC-CGATACGCACACTAAGTG
27161652 CCAAACATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
TATATAGCCGAAGCTATTCCGATACGCACACTAAGTGTTT
Found at i:27165561 original size:20 final size:21
Alignment explanation
Indices: 27165536--27165577 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27165526 TATGTGTGAT
*
27165536 TTTTTAAT-TTTATTGATAGA
1 TTTTTAATGCTTATTGATAGA
*
27165556 TTTTTAATGCTTGTTGATAGA
1 TTTTTAATGCTTATTGATAGA
27165577 T
1 T
27165578 ATACAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTTAATGCTTATTGATAGA
Found at i:27166228 original size:29 final size:28
Alignment explanation
Indices: 27166186--27166240 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
27166176 GGGTTCAATC
*
27166186 GATTTGGCTTTGGGTCATGCATATCAGCT
1 GATTTGGCTTTGGGCCATG-ATATCAGCT
27166215 GATTTGGCTTTGGGCCATGATATCAG
1 GATTTGGCTTTGGGCCATGATATCAG
27166241 TATTTCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTTGGGCCATGATATCAGCT
Found at i:27177315 original size:30 final size:30
Alignment explanation
Indices: 27177267--27177343 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
27177257 AATTATTTGT
*
27177267 GTTATTTGATTT-AAAACAACTAAGTCTTG
1 GTTATCTGATTTCAAAACAACTAAGTCTTG
27177296 GTTATCTGATTTCAAAACAACTAAGTCTTG
1 GTTATCTGATTTCAAAACAACTAAGTCTTG
27177326 GTTATCTGATTTCAAAAC
1 GTTATCTGATTTCAAAAC
27177344 CAATTTCTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 11 0.24
30 35 0.76
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (30 bp):
GTTATCTGATTTCAAAACAACTAAGTCTTG
Found at i:27178410 original size:16 final size:16
Alignment explanation
Indices: 27178389--27178420 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27178379 AAGAGAAAAA
27178389 TTAGAATCAGCCAAGC
1 TTAGAATCAGCCAAGC
27178405 TTAGAATCAGCCAAGC
1 TTAGAATCAGCCAAGC
27178421 CGACGAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (16 bp):
TTAGAATCAGCCAAGC
Found at i:27179661 original size:31 final size:30
Alignment explanation
Indices: 27179620--27179691 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
27179610 TAATTTGATG
*
27179620 TAATTATATATATAAAATTCTAATTATAATT
1 TAATTATATATA-AAAATTATAATTATAATT
* *
27179651 TAAATGTATAT-TAAAAATTATAATTTTGATT
1 T-AAT-TATATATAAAAATTATAATTATAATT
27179682 TAATTATATA
1 TAATTATATA
27179692 CATTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 5 0.14
30 3 0.09
31 17 0.49
32 5 0.14
33 5 0.14
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
TAATTATATATAAAAATTATAATTATAATT
Found at i:27181196 original size:26 final size:24
Alignment explanation
Indices: 27181153--27181210 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
27181143 CTTGTTTTAA
* *
27181153 TATTTATTTTTATGTTTTTAAATG
1 TATTTATTTTTATATTTTAAAATG
27181177 TATTTGATTTATTATATTTTAAAAT-
1 TATTT-ATTT-TTATATTTTAAAATG
*
27181202 TTTTTATTT
1 TATTTATTT
27181211 AATGAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
25 8 0.28
26 12 0.41
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TATTTATTTTTATATTTTAAAATG
Found at i:27182004 original size:2 final size:2
Alignment explanation
Indices: 27181997--27182071 Score: 136
Period size: 2 Copynumber: 38.5 Consensus size: 2
27181987 TAGGAATGTG
27181997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27182038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27182072 AAGACCCAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 69 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27183095 original size:19 final size:20
Alignment explanation
Indices: 27183058--27183095 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27183048 CTCGCTTTAA
* *
27183058 GTCTAATTTTTTTTTTTGCG
1 GTCTAATTTTCTTTCTTGCG
27183078 GTCT-ATTTTCTTTCTTGC
1 GTCTAATTTTCTTTCTTGC
27183096 ACCAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.08, C:0.16, G:0.13, T:0.63
Consensus pattern (20 bp):
GTCTAATTTTCTTTCTTGCG
Found at i:27184854 original size:2 final size:2
Alignment explanation
Indices: 27184847--27184906 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
27184837 AAGACAGTTG
* * *
27184847 GA GA GA GA CA -A GA GA GA AA GA GA G- GA -A GA GA GA GC GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
27184886 CA GC GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA G
27184907 TTGTTTCAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.48, C:0.07, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27187633 original size:44 final size:44
Alignment explanation
Indices: 27187579--27188017 Score: 312
Period size: 44 Copynumber: 9.6 Consensus size: 44
27187569 TATGCATACT
* * * *
27187579 GATGCATGTCCTAGACATGTCTTACAATAGCACAAATCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * * *
27187623 GATGCGTGTCCCAGACACGTCTTACACTGGC-GATCTTTGTAGAGGCT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT-T--A-GCC
* * * *
27187670 GATGTATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * *
27187714 GATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTGCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT--TA-GCC
* *
27187760 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * *
27187804 GATGCGTGTCCCAGACGCGTCTTACACTGGC-TATCTCTGTAGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT-T--A-GCC
* *
27187851 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * *
27187895 GATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTATCGAGGTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT-T--A-GCC
* * * * *
27187942 GATGTATGTCCCAGACATGTCTTACTCTGGCAC-TCATCTCTATGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAAC-TCT-TA-GCC
*
27187988 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACA-CGTCTTACACT
27188018 GGCTCTCATA
Statistics
Matches: 307, Mismatches: 66, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
43 18 0.06
44 117 0.38
45 4 0.01
46 39 0.13
47 107 0.35
48 22 0.07
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
Found at i:27187686 original size:91 final size:91
Alignment explanation
Indices: 27187577--27188060 Score: 656
Period size: 91 Copynumber: 5.3 Consensus size: 91
27187567 TATATGCATA
* ** *
27187577 CTGATGCATGTCCTAGACATGTCTTACAATAGCACAAATCTTAGCCGATGCGTGTCCCAGACACG
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
* *
27187642 TCTTACACTGGCGATCTTTGTAGAGG
66 TCTTACACTGGCTATCTCTGTAGAGG
* *
27187668 CTGATGTATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCTGATGCGTGTCCCAGACACG
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
*
27187733 TCTTACACTGGCTATCTCTG-CGAGG
66 TCTTACACTGGCTATCTCTGTAGAGG
* *
27187758 CCGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACGCG
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
27187823 TCTTACACTGGCTATCTCTGTAGAGG
66 TCTTACACTGGCTATCTCTGTAGAGG
*
27187849 CCGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
* *
27187914 TCTTACACTGGCTATCTCTATCGAGG
66 TCTTACACTGGCTATCTCTGTAGAGG
* * * *
27187940 -TCGATGTATGTCCCAGACATGTCTTACTCTGGCAC-TCATCTCTATGCCGATGCCATGTCCCAG
1 CT-GATGCATGTCCCAGACATGTCTTACTCTAGCACAAC-TCT-TA-GCCGATG-CGTGTCCCAG
* * *
27188003 ACATGGTCTTACACTGGC--TCTCAT-AATGTGG
61 ACA-CGTCTTACACTGGCTATCTC-TGTA-GAGG
*
27188034 CTGAAGCATGTCCCAGACATGTCTTAC
1 CTGATGCATGTCCCAGACATGTCTTAC
27188061 AGTGGCACAC
Statistics
Matches: 355, Mismatches: 28, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
90 86 0.24
91 203 0.57
92 2 0.01
93 11 0.03
94 39 0.11
95 14 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (91 bp):
CTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACG
TCTTACACTGGCTATCTCTGTAGAGG
Found at i:27187883 original size:181 final size:181
Alignment explanation
Indices: 27187579--27188060 Score: 677
Period size: 181 Copynumber: 2.6 Consensus size: 181
27187569 TATGCATACT
* ** * *
27187579 GATGCATGTCCTAGACATGTCTTACAATAGCACAAATCTTAGCCGATGCGTGTCCCAGACACGTC
1 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACGCGTC
* *
27187644 TTACACTGGCGATCTTTGTAGAGGCTGATGTATGTCCCAGACATGTCTTACTCTAGCACAACTCT
66 TTACACTGGC-ATCTCTGTAGAGGCTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCT
*
27187709 TAGCTGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCT-GCGAGGCC
130 TAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTAGCGAGGCC
27187760 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACGCGTC
1 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACGCGTC
*
27187825 TTACACTGGCTATCTCTGTAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCT
66 TTACACTGGC-ATCTCTGTAGAGGCTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCT
* *
27187890 TAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTATCGAGGTC
130 TAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTAGCGAGGCC
* * * *
27187942 GATGTATGTCCCAGACATGTCTTACTCTGGCAC-TCATCTCTATGCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACTCTAGCACAAC-TCT-TA-GCCGATG-CGTGTCCCAGAC-
* * *
27188006 TG-GTCTTACACTGGC-TCTCAT-AATGTGGCTGAAGCATGTCCCAGACATGTCTTAC
61 -GCGTCTTACACTGGCATCTC-TGTA-GAGGCTGATGCATGTCCCAGACATGTCTTAC
27188061 AGTGGCACAC
Statistics
Matches: 272, Mismatches: 20, Indels: 14
0.89 0.07 0.05
Matches are distributed among these distances:
181 164 0.60
182 40 0.15
183 2 0.01
184 12 0.04
185 40 0.15
186 13 0.05
187 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (181 bp):
GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGCCGATGCGTGTCCCAGACGCGTC
TTACACTGGCATCTCTGTAGAGGCTGATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTT
AGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTAGCGAGGCC
Found at i:27189903 original size:13 final size:13
Alignment explanation
Indices: 27189885--27189912 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27189875 AACAAAAAGA
27189885 TAGTTATTACTAG
1 TAGTTATTACTAG
27189898 TAGTTATTACTAG
1 TAGTTATTACTAG
27189911 TA
1 TA
27189913 CTTTTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
TAGTTATTACTAG
Found at i:27193987 original size:6 final size:6
Alignment explanation
Indices: 27193976--27194014 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
27193966 TCCTCTTATC
*
27193976 TTTTTA TTTTTA TTTTTA TTTTTA TTTCTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
27194015 CAATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:27194015 original size:12 final size:12
Alignment explanation
Indices: 27193980--27194021 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
27193970 CTTATCTTTT
*
27193980 TATTTTTATTTT
1 TATTTTTATTTC
27193992 TATTTTTATTTC
1 TATTTTTATTTC
27194004 TATTTTTATTTC
1 TATTTTTATTTC
*
27194016 AATTTT
1 TATTTT
27194022 ATTATTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTTC
Found at i:27194020 original size:18 final size:17
Alignment explanation
Indices: 27193983--27194024 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
27193973 ATCTTTTTAT
**
27193983 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTCAA
27194000 TTTCTATTTTTATTTCAA
1 TTT-TATTTTTATTTCAA
27194018 TTTTATT
1 TTTTATT
27194025 ATTTTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTTCAA
Found at i:27194965 original size:23 final size:23
Alignment explanation
Indices: 27194931--27194977 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
27194921 TTAAACCCTT
* *
27194931 AGTAAACTCCCTTGAGCTTACTA
1 AGTAAACCCCCTTGAGCCTACTA
27194954 AGTAAACCCCCTTGAGCCTACTA
1 AGTAAACCCCCTTGAGCCTACTA
27194977 A
1 A
27194978 CCCTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
AGTAAACCCCCTTGAGCCTACTA
Found at i:27199643 original size:39 final size:39
Alignment explanation
Indices: 27199551--27199751 Score: 332
Period size: 39 Copynumber: 5.2 Consensus size: 39
27199541 TGTGAATGAA
27199551 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
27199589 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
27199628 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
27199667 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
27199706 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
27199746 TGTGCG
1 TGTGCG
27199752 GGTTACCATA
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
38 38 0.25
39 99 0.64
40 17 0.11
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:27207654 original size:39 final size:39
Alignment explanation
Indices: 27207560--27207757 Score: 305
Period size: 39 Copynumber: 5.2 Consensus size: 39
27207550 TGTGAATGAA
27207560 TGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAA-
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
27207597 TGT--GAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
27207634 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
27207673 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
27207712 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
27207752 TGTGCG
1 TGTGCG
27207758 GTTACCATAA
Statistics
Matches: 149, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
35 14 0.09
36 18 0.12
37 6 0.04
39 94 0.63
40 17 0.11
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:27207773 original size:78 final size:78
Alignment explanation
Indices: 27207560--27207786 Score: 277
Period size: 78 Copynumber: 2.9 Consensus size: 78
27207550 TGTGAATGAA
** ***
27207560 TGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAA-TGT--GAATTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATCCGGGCTAA
27207621 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
**
27207634 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATCCGGGCTAA
27207699 GCCCGAAGGCAAT
66 GCCCGAAGGCAAT
* * * *
27207712 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GTTACCATAAT-CGGGCT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCAT-ATCCGGGCT
*
27207775 ATGTCCCGAAGG
64 AAG-CCCGAAGG
27207787 TGTTTTGAAC
Statistics
Matches: 136, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
74 19 0.14
75 18 0.13
76 3 0.02
78 69 0.51
79 27 0.20
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATCCGGGCTAA
GCCCGAAGGCAAT
Found at i:27207773 original size:117 final size:114
Alignment explanation
Indices: 27207571--27207786 Score: 285
Period size: 117 Copynumber: 1.9 Consensus size: 114
27207561 GTGCGAATTG
27207571 TGATATCCGGCTAAGCCCGAAGGCAATGTGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGATATCCGGCTAAGCCCGAAGGCAATGTGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
***
27207636 TGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
66 TGCGAATTACCATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTA
* *
27207684 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCC-GGCTAAGCCCGAAGGCAA-TGT--GAATTGTGATATCCGGGCTAAG-CCCGAAGGC
* * *
27207749 ATTTGTGCG-GTTACCATAAT-CGGGCTATGTCCCGAAGG
61 AATTGTGCGAATTACCAT-ATCCGGGCTAAGTCCCGAAGG
27207787 TGTTTTGAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
113 8 0.09
114 18 0.20
115 3 0.03
117 32 0.36
118 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (114 bp):
TGATATCCGGCTAAGCCCGAAGGCAATGTGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
TGCGAATTACCATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTA
Found at i:27225416 original size:47 final size:46
Alignment explanation
Indices: 27225356--27225803 Score: 210
Period size: 47 Copynumber: 9.7 Consensus size: 46
27225346 ACAACTCTTA
* * * *
27225356 GCCGATGCGTGTCCTAGACACGTCTTACATTGGCTATCGCTGTAGAG
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTATCTCTAT-GAG
* * * * *
27225403 GCCGATGCATGTCCCAGACATGTCTTACGCTAGAAC-AACTCT-T-A-
1 GCCGATGCATGTCCCAGACACGTCTTAC-ATTG-GCTATCTCTATGAG
** * * *
27225447 GCTAATGCGTTTCCCAGACACGTCTTACATTGGCTATCTCTAAAGAG
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTATCTCT-ATGAG
* * * * * * * *
27225494 GTCGATGCATGTCTCAAACATGTCTTACTTTAGCACAACTCT-T-A-
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGC-TATCTCTATGAG
* *
27225538 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTATAGAG
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTATCTCTAT-GAG
* * * * *
27225585 GCTGATGCATGTCCCAGACATGTCTTAC-TCTAGCACAACTCT-T-A-
1 GCCGATGCATGTCCCAGACACGTCTTACAT-TGGC-TATCTCTATGAG
* * * * *
27225629 GTCGATGCGTGTCCCAGACACGTATTACACTGGCTATCTCTGTCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTATCTCTAT-GAG
* * *
27225676 GTCGATGCATGTCCTAGACATGTCTTAC-TCTGGCATTCATCTCTAT---
1 GCCGATGCATGTCCCAGACACGTCTTACAT-TGGC--T-ATCTCTATGAG
* * * * *
27225722 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCTCATAATGTG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACATTGGCTATCTC-T-ATGAG
* * * *
27225770 GCTGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGC
27225804 GTAAAAAATC
Statistics
Matches: 298, Mismatches: 72, Indels: 63
0.69 0.17 0.15
Matches are distributed among these distances:
42 1 0.00
43 21 0.07
44 78 0.26
45 5 0.02
46 22 0.07
47 132 0.44
48 30 0.10
49 2 0.01
50 7 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACATTGGCTATCTCTATGAG
Found at i:27225441 original size:91 final size:91
Alignment explanation
Indices: 27225285--27225797 Score: 570
Period size: 91 Copynumber: 5.6 Consensus size: 91
27225275 CTTAGACATA
* * * * *
27225285 GTCTTACACTGGC--TCTCATATATGCGTGCTGATGCATGTCCCAGACATGTTTTGCACTAGCAC
1 GTCTTACACTGGCTATCTC-TATA-GAG-GCCGATGCATGTCCCAGACATGTCTTACTCTAGCAC
*
27225348 AACTCTTAGCCGATGCGTGTCCTAGACAC
63 AACTCTTAGCCGATGCGTGTCCCAGACAC
* * * * *
27225377 GTCTTACATTGGCTATCGCTGTAGAGGCCGATGCATGTCCCAGACATGTCTTACGCTAGAACAAC
1 GTCTTACACTGGCTATCTCTATAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACAAC
** *
27225442 TCTTAGCTAATGCGTTTCCCAGACAC
66 TCTTAGCCGATGCGTGTCCCAGACAC
* * * * * *
27225468 GTCTTACATTGGCTATCTCTAAAGAGGTCGATGCATGTCTCAAACATGTCTTACTTTAGCACAAC
1 GTCTTACACTGGCTATCTCTATAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACAAC
27225533 TCTTAGCCGATGCGTGTCCCAGACAC
66 TCTTAGCCGATGCGTGTCCCAGACAC
*
27225559 GTCTTACACTGGCTATCTCTATAGAGGCTGATGCATGTCCCAGACATGTCTTACTCTAGCACAAC
1 GTCTTACACTGGCTATCTCTATAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACAAC
*
27225624 TCTTAGTCGATGCGTGTCCCAGACAC
66 TCTTAGCCGATGCGTGTCCCAGACAC
* * * * * *
27225650 GTATTACACTGGCTATCTCTGTCGAGGTCGATGCATGTCCTAGACATGTCTTACTCTGGCATTCA
1 GTCTTACACTGGCTATCTCTATAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCA--CA
* * * *
27225715 TCTC-TATGTCGATGCCATGTCCCAGACATG
64 ACTCTTA-GCCGATG-CGTGTCCCAGACA-C
* * * *
27225745 GTCTTACACTAGC--TCTC-ATAATGTGGCTGAAGCATGTCCCAGACATGTCTTAC
1 GTCTTACACTGGCTATCTCTAT-A-GAGGCCGATGCATGTCCCAGACATGTCTTAC
27225798 ACTGGCGTAA
Statistics
Matches: 360, Mismatches: 52, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
91 272 0.76
92 17 0.05
93 19 0.05
94 41 0.11
95 11 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (91 bp):
GTCTTACACTGGCTATCTCTATAGAGGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACAAC
TCTTAGCCGATGCGTGTCCCAGACAC
Found at i:27225563 original size:44 final size:44
Alignment explanation
Indices: 27225315--27225757 Score: 221
Period size: 47 Copynumber: 9.7 Consensus size: 44
27225305 TATGCGTGCT
* * *
27225315 GATGCATGTCCCAGACATGTTTTGCACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * * * *
27225359 GATGCGTGTCCTAGACACGTCTTACATTGGCTATC-GCTGTAGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGC-A-CAACTCT-TA-GCC
* * * *
27225406 GATGCATGTCCCAGACATGTCTTACGCTAGAACAACTCTTAGCT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * * * * * *
27225450 AATGCGTTTCCCAGACACGTCTTACATTGGC-TATCTCTAAAGAGGTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT---TA-GCC
* * * **
27225497 GATGCATGTCTCAAACATGTCTTACTTTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * *
27225541 GATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTATAGAGGCT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT-T--A-GCC
* * *
27225588 GATGCATGTCCCAGACATGTCTTACTCTAGCACAACTCTTAGTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * * * * *
27225632 GATGCGTGTCCCAGACACGTATTACACTGGC-TATCTCTGTCGAGGTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCT-T--A-GCC
* * * * * *
27225679 GATGCATGTCCTAGACATGTCTTACTCTGGCATTCATCTC-TATGTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCA--CAACTCTTA-GCC
*
27225725 GATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GATG-CATGTCCCAGACA-CGTCTTACACTAGC
27225758 TCTCATAATG
Statistics
Matches: 293, Mismatches: 82, Indels: 44
0.70 0.20 0.11
Matches are distributed among these distances:
43 15 0.05
44 104 0.35
45 8 0.03
46 17 0.06
47 122 0.42
48 22 0.08
50 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
Found at i:27233612 original size:42 final size:42
Alignment explanation
Indices: 27233551--27233650 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
27233541 ATGGATAAAG
* * *
27233551 ACACAAGCATGTGTTTCAGCTGTGTGTGACACACGACCTAGC
1 ACACAGGCATGTGTCTCAGCTGTGTGTGACACACAACCTAGC
* *
27233593 ACACAGGCGTGTGTCTCAGCTGTGTGTGACACACAACCTGGC
1 ACACAGGCATGTGTCTCAGCTGTGTGTGACACACAACCTAGC
*
27233635 ACACAGGCTTGTGTCT
1 ACACAGGCATGTGTCT
27233651 TGGCCGTGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (42 bp):
ACACAGGCATGTGTCTCAGCTGTGTGTGACACACAACCTAGC
Found at i:27239544 original size:40 final size:40
Alignment explanation
Indices: 27239415--27239550 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
27239405 TATCATAATC
*
27239415 TCGCACACTAAGTGCCTTT-CATAGCCGAAGCTATCT-TAGT
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCTA-T
* ** *
27239455 CTCACACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAT
1 -TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCT-CTAT
*
27239496 TCGTACACTAAGTGCTTTATATAGCCGAAGCTATCTCTAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCTAT
27239536 AT-GCACACTAAGTGC
1 -TCGCACACTAAGTGC
27239551 CAAACATAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
40 48 0.61
41 30 0.38
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCTAT
Found at i:27239827 original size:14 final size:14
Alignment explanation
Indices: 27239808--27239834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27239798 TCCACAACAC
27239808 ACATTTGGGCATTA
1 ACATTTGGGCATTA
27239822 ACATTTGGGCATT
1 ACATTTGGGCATT
27239835 TTTACACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (14 bp):
ACATTTGGGCATTA
Found at i:27246859 original size:29 final size:29
Alignment explanation
Indices: 27246827--27246899 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
27246817 TGACGAGATT
* * *
27246827 GGCACTGAGTGTGCGAGCTTGTAATGTAC
1 GGCACTAAGTGTGCGAGCTTGGAATATAC
* * *
27246856 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGCTTGGAATATAC
27246885 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
27246900 TGATTGAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTTGGAATATAC
Found at i:27257779 original size:5 final size:5
Alignment explanation
Indices: 27257769--27257800 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27257759 CAATTTGTGA
27257769 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
27257801 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:27257794 original size:9 final size:9
Alignment explanation
Indices: 27257770--27257800 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27257760 AATTTGTGAA
27257770 AAATAAAAT
1 AAATAAAAT
27257779 AAAATAAAAT
1 -AAATAAAAT
27257789 AAATAAAAT
1 AAATAAAAT
27257798 AAA
1 AAA
27257801 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:27258600 original size:19 final size:19
Alignment explanation
Indices: 27258564--27258611 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
27258554 TTGTTTTGTG
*
27258564 TGTCTTTTACTGTTCTTTT
1 TGTCTTTTACAGTTCTTTT
27258583 TGTCTTTT-CAGTTACTTTT
1 TGTCTTTTACAGTT-CTTTT
*
27258602 GGTCTGTTTA
1 TGTCT-TTTA
27258612 GTGTTGTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (19 bp):
TGTCTTTTACAGTTCTTTT
Found at i:27261763 original size:22 final size:23
Alignment explanation
Indices: 27261717--27261763 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
27261707 GTGTAGTTTG
* * *
27261717 TTTATTGTTATTTTTATGTTGTT
1 TTTATTGTTATTTTAAAGTTATT
27261740 TTTATT-TTATTTTAAAGTTATT
1 TTTATTGTTATTTTAAAGTTATT
27261762 TT
1 TT
27261764 GTTAGTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTATTGTTATTTTAAAGTTATT
Found at i:27262013 original size:115 final size:115
Alignment explanation
Indices: 27261796--27262010 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 115
27261786 TTTGTTTAAT
* *
27261796 GTTTATTGTGATTTGTTAGGTAATGAATGTAAATTTTTATTAATTTTTAATTTACTTTAAAGTTA
1 GTTTATTATGATTTGTTAGGTAATGAATGTAAATTTTTAATAATTTTTAATTTACTTTAAAGTTA
* * * * *
27261861 TTTTGTTAGTAAGTTTTGTGATTAGGTTAATTGTTAGTTTAGGGTTTAGG
66 TTTTGTTAGTAACTATTATAATTAGATTAATTGTTAGTTTAGGGTTTAGG
* *
27261911 GTTTATTATGATTTGTTAGGTTATGAATG-CAATCTTTTAAT-ATCTTTTAATTTA-TTTGAAAG
1 GTTTATTATGATTTGTTAGGTAATGAATGTAAAT-TTTTAATAAT-TTTTAATTTACTTT-AAAG
27261973 TTATTTTGTTAGTAACTATTAT-A--A-ATTAATTGTTAGTT
63 TTATTTTGTTAGTAACTATTATAATTAGATTAATTGTTAGTT
27262011 AGTGACGACA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
111 13 0.15
112 1 0.01
114 9 0.10
115 66 0.74
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (115 bp):
GTTTATTATGATTTGTTAGGTAATGAATGTAAATTTTTAATAATTTTTAATTTACTTTAAAGTTA
TTTTGTTAGTAACTATTATAATTAGATTAATTGTTAGTTTAGGGTTTAGG
Found at i:27263261 original size:21 final size:22
Alignment explanation
Indices: 27263235--27263277 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
27263225 AAGTTCTTGT
27263235 TTATTTTGATTTT-TTTTATTG
1 TTATTTTGATTTTATTTTATTG
27263256 TTATTTTGATTTTGATTTTATT
1 TTATTTTGATTTT-ATTTTATT
27263278 TATATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TTATTTTGATTTTATTTTATTG
Found at i:27269347 original size:66 final size:66
Alignment explanation
Indices: 27269238--27269457 Score: 295
Period size: 66 Copynumber: 3.4 Consensus size: 66
27269228 AACACTCAGT
* * * * *
27269238 ACCACCCATGTGACCTAGCCA-ATTTATCTCATAGCTCTCTTGTCTACATGGTGTCCTTACCTGG
1 ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTACCTGG
27269302 A
66 A
*
27269303 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTT-ACCTG
27269368 GA
65 GA
* * * *
27269370 ACCACGCATGCGA-CTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTAC--ACATAG
1 ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTACCTGG
*
27269432 T
66 A
*
27269433 ATCACCCATGCGACCTAGCTACATA
1 ACCACCCATGCGACCTAGCTACATA
27269458 ATAATGTCTT
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
63 15 0.11
64 11 0.08
65 18 0.13
66 76 0.54
67 20 0.14
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (66 bp):
ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTACCTGG
A
Found at i:27273394 original size:2 final size:2
Alignment explanation
Indices: 27273387--27273416 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27273377 GTGAAAGTCG
27273387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27273417 TTGAAAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27274521 original size:38 final size:38
Alignment explanation
Indices: 27274465--27274539 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
27274455 GATGTGTATT
* * *
27274465 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
27274503 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
27274540 TCGGCCTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:27274629 original size:43 final size:43
Alignment explanation
Indices: 27274516--27274702 Score: 292
Period size: 43 Copynumber: 4.4 Consensus size: 43
27274506 GATAAATCCC
* * *
27274516 GCAGGCCTAGTGCTGGT-AT-TATATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
27274556 GCAGGCTTAGTG-CGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
27274598 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
27274641 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
27274684 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
27274703 AATGATATGT
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.02
40 13 0.10
41 6 0.04
42 26 0.19
43 88 0.65
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:27275086 original size:45 final size:42
Alignment explanation
Indices: 27275019--27275126 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
27275009 TTGACTTGAT
* *
27275019 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
27275064 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
27275106 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
27275127 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:27278724 original size:29 final size:30
Alignment explanation
Indices: 27278691--27278750 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27278681 TCCTTAACTA
27278691 AAACTTTAG-AAAATTACAATTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
* * * *
27278720 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
27278750 A
1 A
27278751 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGCAAAATTACAATTTTGCCCCT
Found at i:27283237 original size:64 final size:64
Alignment explanation
Indices: 27283155--27283282 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
27283145 CATATAATAA
* * *
27283155 CACATTTAGTTAGTAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
*
27283219 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
27283283 TGATACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:27283471 original size:45 final size:45
Alignment explanation
Indices: 27283400--27283788 Score: 179
Period size: 45 Copynumber: 8.8 Consensus size: 45
27283390 ATTGTAGATT
* * ** *
27283400 TTGTCTCCCTGAAGTTGCAATAGAGCAGATCGAAGACGGCGAATC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
* * * * * *
27283445 TTGTCTCCTTGAAGTTGTAGTGGAGCAAATTTAAG-CCAC-CATC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
* * ** * *
27283488 TTATCTCCCT-AAGTTGTAGTGGAATAGGTTAAAAGATTGTA-GAA-C
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGA-CG-ACGAATC
* * * * * *
27283533 TTGTCTCCCTAAAGTTACAGTGGAGCAAATCAAAGACGGCGAATA
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
* * *
27283578 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTTAAG-CCAC-CATC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
* * * * * *
27283621 TTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG-CCACAAATC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
* * * * * ** **
27283665 TTATCCCCCTAAAGTTGCAGTGGGGCAGGTCGAA-ATTAC-AAGTC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAA-TC
* * * ** * * *
27283709 TTATCTACCTGAAGTTGCAGTGGAGTAGCCTGAAGA-TAGCAAATC
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGA-CGAATC
* ** *
27283754 TTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAG
1 TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
27283789 CTACAAATCC
Statistics
Matches: 261, Mismatches: 69, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
42 16 0.06
43 53 0.20
44 70 0.27
45 105 0.40
46 17 0.07
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TTGTCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACGACGAATC
Found at i:27283569 original size:133 final size:132
Alignment explanation
Indices: 27283357--27283644 Score: 423
Period size: 133 Copynumber: 2.2 Consensus size: 132
27283347 TCACAAGCCC
* * ** * *
27283357 TATCTCCCTAAATTGTAGTGGAGTAGGCTAAAGATTGTAGATTTTGTCTCCCTGAAGTTGCAATA
1 TATCTCCCTAAGTTGTAGTGGAATAGGCTAAAGATTGTAGAACTTGTCTCCCTAAAGTTACAATA
* * * * *
27283422 GAGCAGATCGAAGACGGCGAATCTTGTCTCCTTGAAGTTGTAGTGGAGCAAATTTAAGCCACCAT
66 GAGCAAATCAAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCAT
27283487 CT
131 CT
* *
27283489 TATCTCCCTAAGTTGTAGTGGAATAGGTTAAAAGATTGTAGAACTTGTCTCCCTAAAGTTACAGT
1 TATCTCCCTAAGTTGTAGTGGAATAGGCT-AAAGATTGTAGAACTTGTCTCCCTAAAGTTACAAT
* *
27283554 GGAGCAAATCAAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCACCA
65 AGAGCAAATCAAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCA
27283619 TCT
130 TCT
27283622 TATCTCCCTGAAGTTGTAGTGGA
1 TATCTCCCT-AAGTTGTAGTGGA
27283645 GTAGATTGAA
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 26 0.19
133 100 0.72
134 13 0.09
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
TATCTCCCTAAGTTGTAGTGGAATAGGCTAAAGATTGTAGAACTTGTCTCCCTAAAGTTACAATA
GAGCAAATCAAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCAT
CT
Found at i:27283643 original size:43 final size:44
Alignment explanation
Indices: 27283581--27284016 Score: 214
Period size: 44 Copynumber: 9.8 Consensus size: 44
27283571 GCGAATATTG
* *
27283581 TCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCAC-CATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
* *
27283624 TCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
* * * * * *** *
27283668 TCCCCCTAAAGTTGCAGTGGGGCAGGTCGAAATTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
* * ** **
27283712 TCTACCTGAAGTTGCAGTGGAGTAGCCTGAAGATAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAATCTTA
** * * * *
27283757 TCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
* * * * ** * * * *
27283801 TAC-CTCTGAAGTTGCGGTAGG-TCGGATCAAATCTACCATGTTGGATCTTT
1 T-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCA-CA-----AATCTTA
* * * * * *
27283851 TCTCCCTGAAGTTGTAGTGAAGTAGATTGTAGCCAAAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
* * * * *** *
27283895 TCCCCCTGAAGTTGCATTAGG-GCAGGTCGAAATTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAATCTTA
** ** **
27283939 TCTCCCTGAAGTTGCAGTAAAGCAGCCTGAAGATATCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAATCTTA
* * * *
27283984 TTTCCCTAAAGTTACAGTGGAGCAGATTAAAGC
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
27284017 TATAAATTAT
Statistics
Matches: 284, Mismatches: 94, Indels: 28
0.70 0.23 0.07
Matches are distributed among these distances:
43 33 0.12
44 153 0.54
45 72 0.25
49 3 0.01
50 23 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTA
Found at i:27284150 original size:43 final size:45
Alignment explanation
Indices: 27284091--27284174 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 45
27284081 CTAAAGTAAC
** *
27284091 AGTGGAACAGGTTGAAGTTA-AAG-TCTTATATCCCTAAAGTTGT
1 AGTGGAACAGACTGAAGATAGAAGATCTTATATCCCTAAAGTTGT
* *
27284134 AGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTAAAG
1 AGTGGAACAGACTGAAGATAGAAGATCTTATATCCCTAAAG
27284175 GTGCAATGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 17 0.50
44 2 0.06
45 15 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
AGTGGAACAGACTGAAGATAGAAGATCTTATATCCCTAAAGTTGT
Done.