Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 30 of 276
Found at i:9508612 original size:46 final size:46
Alignment explanation
Indices: 9508559--9508815 Score: 150
Period size: 46 Copynumber: 5.5 Consensus size: 46
9508549 TTGGGCATCC
9508559 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCT
* * * * * * * * *
9508605 GAACTCGTAGAGTTGAGTCCGAG-TT-CATGAGATATAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAG-GAT-GCGA-ACGTCT
* * * ** * *
9508652 GAGCTTGTTGAGTTGAGTTCGAGTCCACTTATGGATGCGAACATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCT
* * *
9508698 GAACTCGTTGAGTTGAGTCCGAGTTT--GTGA-GATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAAC---G--TCT
* * * * * *
9508745 GAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCT
*
9508790 CAACCTCGTTGAGTTGAGTCCGAGTT
1 GAA-CTCGTTGAGTTGAGTCCGAGTT
9508816 CGCTTATGGG
Statistics
Matches: 151, Mismatches: 45, Indels: 30
0.67 0.20 0.13
Matches are distributed among these distances:
42 3 0.02
43 4 0.03
44 5 0.03
45 6 0.04
46 70 0.46
47 50 0.33
48 3 0.02
49 4 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCT
Found at i:9508653 original size:93 final size:93
Alignment explanation
Indices: 9508552--9508816 Score: 370
Period size: 93 Copynumber: 2.8 Consensus size: 93
9508542 CGGATATTTG
* * * *
9508552 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAACGTCTGAACTCGTAGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
9508617 TTGAGTCCGAGTTCATGAGATATAACTA
66 TTGAGTCCGAGTTCATGAGATATAACTA
* * * *
9508645 GGCATCCGAGCTTGTTGAGTTGAGTTCGAGTCCACTTATGGATGCGAACATCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
** *
9508710 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATATAACTA
* * * **
9508738 GGCATCTGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAACCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAA-CTCGTTGA
9508802 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
9508817 GCTTATGGGC
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
92 3 0.02
93 147 0.98
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATATAACTA
Found at i:9508746 original size:47 final size:47
Alignment explanation
Indices: 9508552--9508769 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 47
9508542 CGGATATTTG
* * *
9508552 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTAAGGATGCGAAC--
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTTA--TGA-GATG-TAACTA
* * *
9508601 -G--TCTGAACTCGTAGAGTTGAGTCCGAGTTCATGAGATATAACTA
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTTATGAGATGTAACTA
* * * * *
9508645 GGCATCCGAGCTTGTTGAGTTGAGTTCGAGTCCACTTATG-GATG---CGA
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGT----TTATGAGATGTAACTA
* *
9508692 -ACATCTGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTA
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTTATGAGATGTAACTA
* *
9508738 GGCATCTGAGCTCGTTAAGTTGAGTCCGAGTT
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTT
9508770 CACTTATGGA
Statistics
Matches: 131, Mismatches: 24, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
42 7 0.05
43 7 0.05
44 2 0.02
45 1 0.01
46 54 0.41
47 52 0.40
48 1 0.01
50 3 0.02
51 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (47 bp):
GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTTATGAGATGTAACTA
Found at i:9530341 original size:55 final size:55
Alignment explanation
Indices: 9530254--9530510 Score: 241
Period size: 55 Copynumber: 4.8 Consensus size: 55
9530244 CATTAGGTTT
* *
9530254 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
* * * * * *
9530309 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-CTCTAAGGC
* * * * *
9530364 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCAAAAGGT
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTC-TAAGGC
* *
9530417 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
* * *
9530466 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
9530511 ACCCGCGTAT
Statistics
Matches: 169, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
52 7 0.04
53 37 0.22
54 13 0.08
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
Found at i:9530460 original size:108 final size:110
Alignment explanation
Indices: 9530264--9530461 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
9530254 AAGGATACCG
* *
9530264 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCAAAGGCAAGGAAACCATGTAAGACCA
*
9530329 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * *
9530374 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCAAAAGGTAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTC-AAAGGCAAGGAAACCATGTAAGACC
*
9530436 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
9530462 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 2 0.03
108 47 0.59
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCAAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:9530721 original size:16 final size:16
Alignment explanation
Indices: 9530700--9530730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9530690 ATAAATTTGA
9530700 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
9530716 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
9530731 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:9537289 original size:44 final size:44
Alignment explanation
Indices: 9537240--9537326 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
9537230 TGAATTGACG
9537240 GAGAAGAAATTTCAGAAAGTCCCGGTTGAACATTAGGAATGTGA
1 GAGAAGAAATTTCAGAAAGTCCCGGTTGAACATTAGGAATGTGA
*
9537284 GAGAAGAAATTTCAGAAAGTCTCGGTTGAACATTAGGAATGTG
1 GAGAAGAAATTTCAGAAAGTCCCGGTTGAACATTAGGAATGTG
9537327 TAGGATACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.24
Consensus pattern (44 bp):
GAGAAGAAATTTCAGAAAGTCCCGGTTGAACATTAGGAATGTGA
Found at i:9537444 original size:55 final size:54
Alignment explanation
Indices: 9537357--9537833 Score: 420
Period size: 55 Copynumber: 8.8 Consensus size: 54
9537347 ATTAGGGTTT
* *
9537357 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTCTCTAAGGC
* * * * * * *
9537412 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGT-CTCTAAGGC
* *
9537467 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTCTCTAAGGC
* * * * * * *
9537522 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGT-CTCTAAGGC
* *
9537577 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTCTCTAAGGC
* * * * * * *
9537632 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGT-CTCTAAGGC
* * * * *
9537687 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTCTC-TAAGGC
* *
9537740 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTCTCTAAGGC
* ** *
9537789 AAGGATACCACGTAAGACCATTACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGT
9537834 ACCCGCGTAT
Statistics
Matches: 343, Mismatches: 64, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
49 38 0.11
50 2 0.01
52 7 0.02
53 37 0.11
54 39 0.11
55 190 0.55
56 30 0.09
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTCTCTAAGGC
Found at i:9537560 original size:110 final size:110
Alignment explanation
Indices: 9537367--9537784 Score: 743
Period size: 110 Copynumber: 3.8 Consensus size: 110
9537357 AAGGATACCG
9537367 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
9537432 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
9537477 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
9537542 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
9537587 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
9537652 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
* * * * *
9537697 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GT-TCATAAAGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTC-TAAGGCAAGGAAATCATGTAAGACC
* *
9537759 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCATTGATAAGTT
9537785 TCAAAAGGAT
Statistics
Matches: 300, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
107 2 0.01
108 48 0.16
109 7 0.02
110 243 0.81
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGACCA
TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:9570466 original size:40 final size:40
Alignment explanation
Indices: 9570422--9570512 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
9570412 TCGGTATCAT
* * *
9570422 ACACTTAGTGCCTCA-TATAGCTGAAGTTATTCCAATTCGC
1 ACACTTAGTGCCT-ATTATAGCCGAAGCTATTCCAAATCGC
* *
9570462 ACACTCAGTG-CTATTTATAGCCGAAGCTATTTCAAATCGC
1 ACACTTAGTGCCTA-TTATAGCCGAAGCTATTCCAAATCGC
*
9570502 ATACTTAGTGC
1 ACACTTAGTGC
9570513 AGAACATAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
38 1 0.02
39 2 0.05
40 38 0.93
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (40 bp):
ACACTTAGTGCCTATTATAGCCGAAGCTATTCCAAATCGC
Found at i:9577134 original size:26 final size:26
Alignment explanation
Indices: 9577105--9577161 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
9577095 TGTTAAAAAG
9577105 AACATTTTGGTTTATTGATATTTTTC
1 AACATTTTGGTTTATTGATATTTTTC
9577131 AACATTTTGGTTTATTGATATTTTTC
1 AACATTTTGGTTTATTGATATTTTTC
9577157 AACAT
1 AACAT
9577162 AGGGTTTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (26 bp):
AACATTTTGGTTTATTGATATTTTTC
Found at i:9579062 original size:28 final size:28
Alignment explanation
Indices: 9579031--9579102 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
9579021 TCGATATTTT
9579031 GCACACTAAGTGCCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
9579059 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
9579087 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
9579103 ATTTGATTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:9583012 original size:39 final size:40
Alignment explanation
Indices: 9582934--9583012 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
9582924 CAATCACCAC
* *
9582934 CACAAAGCATGCGGGACTTTAAGCCCGGATATAATACTAG
1 CACAAAGCATGCGGGACTTTAAGCCCAGATATAACACTAG
*
9582974 CACAAAGCCTGCGGGACTTT-AGCCCAGATATAACACTAG
1 CACAAAGCATGCGGGACTTTAAGCCCAGATATAACACTAG
9583013 TAGAATATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 17 0.47
40 19 0.53
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (40 bp):
CACAAAGCATGCGGGACTTTAAGCCCAGATATAACACTAG
Found at i:9586443 original size:46 final size:46
Alignment explanation
Indices: 9586384--9586652 Score: 239
Period size: 46 Copynumber: 5.8 Consensus size: 46
9586374 TATTTGGGCA
9586384 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * * * **
9586430 TTCGAACTCGTTGAGTTGAGTATGAGTTC-GTGA--GAT-TTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
9586475 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * * * **
9586523 TTCGAACTCGTTGAGTTGAGTATGAGTTC-GTGA--GAT-TTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
9586568 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * *
9586616 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
9586653 GCGGGTTACA
Statistics
Matches: 174, Mismatches: 31, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
45 6 0.03
46 86 0.49
47 52 0.30
48 6 0.03
50 8 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.33
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:9586496 original size:47 final size:47
Alignment explanation
Indices: 9586436--9586598 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
9586426 AATGTTCGAA
9586436 CTCGTTGAGTTGAGTATGAGTTCGTGAGATTTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTATGAGTTCGTGAGATTTAACTAGGCATCCGAG
* * * ** * *
9586483 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G--TTCGAA
1 CTCGTTGAGTTGAGTATGAGTTC-GTGA--GAT-TTAACTAGGCATCCGAG
9586529 CTCGTTGAGTTGAGTATGAGTTCGTGAGATTTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTATGAGTTCGTGAGATTTAACTAGGCATCCGAG
*
9586576 CTCGTTGAGTTGAGTCTGAGTTC
1 CTCGTTGAGTTGAGTATGAGTTC
9586599 ACTTATGGAT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 26 0.28
47 48 0.52
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTATGAGTTCGTGAGATTTAACTAGGCATCCGAG
Found at i:9586644 original size:93 final size:93
Alignment explanation
Indices: 9586380--9586636 Score: 478
Period size: 93 Copynumber: 2.8 Consensus size: 93
9586370 GGAATATTTG
9586380 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
9586445 TTGAGTATGAGTTCGTGAGATTTAACTA
66 TTGAGTATGAGTTCGTGAGATTTAACTA
9586473 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
9586538 TTGAGTATGAGTTCGTGAGATTTAACTA
66 TTGAGTATGAGTTCGTGAGATTTAACTA
** * *
9586566 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTTGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
9586631 TTGAGT
66 TTGAGT
9586637 CCGAGTTCAC
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
TTGAGTATGAGTTCGTGAGATTTAACTA
Found at i:9587773 original size:25 final size:25
Alignment explanation
Indices: 9587725--9587773 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9587715 CATAATTGAA
* * *
9587725 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
9587750 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
9587774 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:9590400 original size:39 final size:38
Alignment explanation
Indices: 9590333--9590594 Score: 380
Period size: 39 Copynumber: 6.7 Consensus size: 38
9590323 ACAAAGCATG
* * *
9590333 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
*
9590373 CGAGACTTTAGCCCGGATATAACACCAGCACCAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCA-CAATGCCTT
*
9590413 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
9590452 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
9590491 CAGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
*
9590530 CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
9590569 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
9590595 TTATAAAGTT
Statistics
Matches: 206, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.00
39 186 0.90
40 19 0.09
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:9590700 original size:28 final size:28
Alignment explanation
Indices: 9590667--9590739 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
9590657 ATTTAATCAT
*
9590667 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
* *
9590695 TCAATATCTCGCACATTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
* *
9590723 TAAATATTTCGTACACT
1 TCAATATTTCGCACACT
9590740 GAGTACCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:9591803 original size:27 final size:27
Alignment explanation
Indices: 9591726--9591803 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
9591716 GAAAATTATT
* *
9591726 ATTATTATTATTGTATTATTGATATTTGAA
1 ATTATTATTA-T-TATTATT-ATTTTTAAA
* *
9591756 ATTTTTATTATTA-GATATATTTTTAAA
1 ATTATTATTATTATTAT-TATTTTTAAA
9591783 ATTATTATTATTATTATTATT
1 ATTATTATTATTATTATTATT
9591804 AAGTATGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 25 0.62
28 5 0.12
29 1 0.03
30 9 0.22
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTATTATTATTATTATTATTTTTAAA
Found at i:9592925 original size:51 final size:51
Alignment explanation
Indices: 9592869--9593005 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
9592859 TATGGTAACT
* *
9592869 AATCTTAGAGGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * *** * * **
9592920 AATCTTATAAGATATTATTTTATAAGAATACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
9592971 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
9593006 TTGATGGTAG
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:9595946 original size:51 final size:51
Alignment explanation
Indices: 9595891--9596027 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
9595881 TATGGTAACT
* *
9595891 AATCTTAGAGGATATGATATTATAATCTTAGAGATCTTAGATATGACATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGACATGG
* * * *** * * ** *
9595942 AATCTTATAAGATATTATTTTATAAGAATACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGACATGG
*
9595993 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
9596028 TTGATGGTAG
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGACATGG
Found at i:9596675 original size:11 final size:11
Alignment explanation
Indices: 9596659--9596716 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
9596649 CAAATTTATA
9596659 TTTTTCTTTTT
1 TTTTTCTTTTT
9596670 TTTTTCATTTTCT
1 TTTTTC-TTTT-T
*
9596683 TTTCTTCTATTT
1 TTT-TTCTTTTT
* *
9596695 TTCTTCTTCTTG
1 TTTTTCTT-TTT
9596707 TTTTTCTTTT
1 TTTTTCTTTT
9596717 CTCCCCTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 12 0.32
12 16 0.42
13 7 0.18
14 3 0.08
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:9596687 original size:22 final size:22
Alignment explanation
Indices: 9596660--9596705 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9596650 AAATTTATAT
* *
9596660 TTTTCTTTTTTTTTTCATT-TTC
1 TTTTCTTCTATTTTTC-TTCTTC
9596682 TTTTCTTCTATTTTTCTTCTTC
1 TTTTCTTCTATTTTTCTTCTTC
9596704 TT
1 TT
9596706 GTTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTCTATTTTTCTTCTTC
Found at i:9597831 original size:22 final size:21
Alignment explanation
Indices: 9597802--9597842 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9597792 TTATTCCCCA
*
9597802 CAGGAAGTGTAGGGATGGACG
1 CAGGAAGTGCAGGGATGGACG
*
9597823 CAGGCAAGTGCAGGGTTGGA
1 CAGG-AAGTGCAGGGATGGA
9597843 TGGGGTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.12, G:0.46, T:0.15
Consensus pattern (21 bp):
CAGGAAGTGCAGGGATGGACG
Found at i:9597924 original size:20 final size:21
Alignment explanation
Indices: 9597880--9597925 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
9597870 GACTGTTCAT
9597880 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
9597900 -GTGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
9597919 TATGGGC
1 TATGGGC
9597926 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:9597994 original size:60 final size:59
Alignment explanation
Indices: 9597918--9598054 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
9597908 AACTGTGTTA
* *
9597918 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
9597978 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
9598038 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
9598055 GTTAACACTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:9600764 original size:18 final size:19
Alignment explanation
Indices: 9600731--9600767 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9600721 TACTGTATTT
*
9600731 ATTTTTACGGATATTTTAA
1 ATTTTTACGGAAATTTTAA
9600750 ATTTTTAC-GAAATTTTAA
1 ATTTTTACGGAAATTTTAA
9600768 TTAGTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (19 bp):
ATTTTTACGGAAATTTTAA
Found at i:9600808 original size:17 final size:19
Alignment explanation
Indices: 9600766--9600809 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9600756 ACGAAATTTT
*
9600766 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
9600785 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
9600803 AA-TATTA
1 AATTATTA
9600810 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:9602107 original size:14 final size:14
Alignment explanation
Indices: 9602082--9602124 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
9602072 TTTTTTTTTC
9602082 ATTTTCTCTTCTTCT
1 ATTTT-TCTTCTTCT
9602097 ATTTTTCTTCTTCTT
1 ATTTTTCTTCTTC-T
*
9602112 GTTTTTCTT-TTCT
1 ATTTTTCTTCTTCT
9602125 CCCCTATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 14 0.54
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTTTTCTTCTTCT
Found at i:9603570 original size:20 final size:21
Alignment explanation
Indices: 9603526--9603571 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
9603516 GACTGTTTGT
9603526 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
9603546 -GTGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
9603565 TATGGGC
1 TATGGGC
9603572 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:9605962 original size:46 final size:46
Alignment explanation
Indices: 9605909--9606720 Score: 1624
Period size: 46 Copynumber: 17.7 Consensus size: 46
9605899 TATTTGGGCA
9605909 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9605955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606001 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606139 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606185 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606277 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606323 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606415 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606507 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606553 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9606691 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
9606721 AGAGATGTAA
Statistics
Matches: 766, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 766 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9608583 original size:45 final size:45
Alignment explanation
Indices: 9608533--9608622 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9608523 AATGTTAATG
*
9608533 ATATACAATTTTTATGAGATAAAGGATTATAATGAAATGAACTTA
1 ATATACAATTTTTATGAGATAAAGAATTATAATGAAATGAACTTA
9608578 ATATACAATTTTTATGAGATAAAGAATTATAATGAAATGAACTTA
1 ATATACAATTTTTATGAGATAAAGAATTATAATGAAATGAACTTA
9608623 TCTATGTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (45 bp):
ATATACAATTTTTATGAGATAAAGAATTATAATGAAATGAACTTA
Found at i:9609806 original size:15 final size:15
Alignment explanation
Indices: 9609786--9609853 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
9609776 ATATCTTGGG
9609786 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
9609801 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
9609816 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
9609831 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
9609846 TTTCTTTA
1 TTTCTTTA
9609854 CCCGATTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:9609848 original size:30 final size:30
Alignment explanation
Indices: 9609777--9609853 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
9609767 CATAGTATCA
* *
9609777 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATCCTGGATCTCTC
* * * *
9609807 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATCCTGGATCTCTC
9609837 TATCTTGGATTTCTTTA
1 TATCTTGGATTTCTTTA
9609854 CCCGATTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 1 0.03
30 36 0.95
31 1 0.03
ACGTcount: A:0.13, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATCTCTC
Found at i:9622667 original size:378 final size:378
Alignment explanation
Indices: 9621972--9622724 Score: 1382
Period size: 378 Copynumber: 2.0 Consensus size: 378
9621962 TCGTAACTCA
* *
9621972 AAAATCAGTTTTGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATTTATTGTTTTCTAG
1 AAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATGTATTGTTTTCTAG
9622037 AATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTGCAGGGGTCGACT
66 AATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTGCAGGGGTCGACT
*
9622102 ACACTGACCTTTGCCCATTACGACTTGGATATCTCCCTGCACGGGGCTTCAATACTGATGCCGTT
131 ACACTGACCTTTGCCCATTACGACTGGGATATCTCCCTGCACGGGGCTTCAATACTGATGCCGTT
*
9622167 TGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTACATATATGGTACGACCCCTAATTATCTC
196 TGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGCACATATATGGTACGACCCCTAATTATCTC
*
9622232 TGGTTAATTTGTAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
261 TGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
9622297 CACAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTTCG
326 CACAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTTCG
* *
9622350 AAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTTCCCATCTATGTATTTTTTTCTAG
1 AAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATGTATTGTTTTCTAG
*
9622415 AATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGT-TCCCCAAGTTGCAGGGGTCGAC
66 AATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCT-CCCAAGTTGCAGGGGTCGAC
* *
9622479 TACACTGACCTTTTCCCATTACGACTGGGATATCTCCCTGCACGGGGCTTCAATACTGTTGCCGT
130 TACACTGACCTTTGCCCATTACGACTGGGATATCTCCCTGCACGGGGCTTCAATACTGATGCCGT
*
9622544 TTGTTTCTATGGAAACTAGACTCAGAGAGGAATCTGCACATATATGGTACGACCCCTAATTATCT
195 TTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGCACATATATGGTACGACCCCTAATTATCT
*
9622609 CTGGTTAATTTATAATGAATTTCCAAAGTTGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTC
260 CTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTC
9622674 CCACAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTT
325 CCACAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTT
9622725 ACTTCCTCAT
Statistics
Matches: 362, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
377 1 0.00
378 361 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (378 bp):
AAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATGTATTGTTTTCTAG
AATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTTGCAGGGGTCGACT
ACACTGACCTTTGCCCATTACGACTGGGATATCTCCCTGCACGGGGCTTCAATACTGATGCCGTT
TGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGCACATATATGGTACGACCCCTAATTATCTC
TGGTTAATTTATAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
CACAAAAATCTGATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTTCG
Found at i:9623586 original size:27 final size:27
Alignment explanation
Indices: 9623556--9623733 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
9623546 ATATTGAGCC
* *
9623556 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
9623583 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
9623610 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
9623638 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
9623665 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
9623692 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
9623719 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9623734 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:9623695 original size:82 final size:81
Alignment explanation
Indices: 9623576--9623732 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
9623566 GTGCTATATA
* *
9623576 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
9623641 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
9623658 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
9623722 ACACTTAGTGC
65 ACACTTAGTGC
9623733 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:9625519 original size:13 final size:13
Alignment explanation
Indices: 9625501--9625525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9625491 TTTGTAAACT
9625501 TGTTCATTTCCCA
1 TGTTCATTTCCCA
9625514 TGTTCATTTCCC
1 TGTTCATTTCCC
9625526 TTGTGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.08, T:0.48
Consensus pattern (13 bp):
TGTTCATTTCCCA
Found at i:9625567 original size:14 final size:15
Alignment explanation
Indices: 9625548--9625577 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9625538 ATTTTGTAAA
9625548 TTCCCTCTG-TCATT
1 TTCCCTCTGTTCATT
9625562 TTCCCTCTGTTCATT
1 TTCCCTCTGTTCATT
9625577 T
1 T
9625578 CCATTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.07, C:0.33, G:0.07, T:0.53
Consensus pattern (15 bp):
TTCCCTCTGTTCATT
Found at i:9630243 original size:10 final size:11
Alignment explanation
Indices: 9630228--9630270 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
9630218 TTATCTAAAT
9630228 CAAAACATA-C
1 CAAAACATACC
*
9630238 CAAAACATAATC
1 CAAAACAT-ACC
9630250 CAAAATCATACC
1 CAAAA-CATACC
9630262 CAAAACATA
1 CAAAACATA
9630271 AGATTCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.28
11 5 0.17
12 13 0.45
13 3 0.10
ACGTcount: A:0.58, C:0.28, G:0.00, T:0.14
Consensus pattern (11 bp):
CAAAACATACC
Found at i:9630266 original size:24 final size:22
Alignment explanation
Indices: 9630228--9630271 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
9630218 TTATCTAAAT
9630228 CAAAACATACCAAAACATAATC
1 CAAAACATACCAAAACATAATC
9630250 CAAAATCATACCCAAAACATAA
1 CAAAA-CATA-CCAAAACATAA
9630272 GATTCATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (22 bp):
CAAAACATACCAAAACATAATC
Found at i:9631093 original size:42 final size:43
Alignment explanation
Indices: 9631000--9631103 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
9630990 GTCCCAAACG
* *
9631000 TGGTCTTACATGTAATCAAATATCGATGTCACTATCCCAGACA
1 TGGTCTTACATGAAATCAAATATCGATGTCACTATCCCAGAAA
* * * * *
9631043 GGGTCTTACATGAAATCAAATA-GGATGCTGA-TGTCCCATAAA
1 TGGTCTTACATGAAATCAAATATCGATG-TCACTATCCCAGAAA
*
9631085 TGGTCTTACACGTAAATCA
1 TGGTCTTACATG-AAATCA
9631104 TAAGTCGATG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
42 22 0.44
43 28 0.56
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGTCACTATCCCAGAAA
Found at i:9664001 original size:29 final size:29
Alignment explanation
Indices: 9663957--9664039 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
9663947 CCAAAGTACT
*
9663957 GATATT-ATGGCCTGAAGCCAAATCAGCC
1 GATATTCATGGCTTGAAGCCAAATCAGCC
9663985 GATATTCATGGCTTGAAGCCAAATCAGCC
1 GATATTCATGGCTTGAAGCCAAATCAGCC
*
9664014 GATATTCATGGCTTGAAGCCATATCA
1 GATATTCATGGCTTGAAGCCAAATCA
9664040 AGGTAATTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
28 6 0.12
29 46 0.88
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (29 bp):
GATATTCATGGCTTGAAGCCAAATCAGCC
Found at i:9666191 original size:10 final size:10
Alignment explanation
Indices: 9666168--9666220 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
9666158 TGAATTTCAG
* *
9666168 TTTTAGTTAT
1 TTTTATTTAA
9666178 TTTTATTTAA
1 TTTTATTTAA
*
9666188 TTTTATTTTA
1 TTTTATTTAA
9666198 -TTTATTTATA
1 TTTTATTTA-A
9666208 TTTTATTTAA
1 TTTTATTTAA
9666218 TTT
1 TTT
9666221 AAGGCTACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.19
10 22 0.59
11 8 0.22
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTATTTAA
Found at i:9666196 original size:15 final size:16
Alignment explanation
Indices: 9666174--9666221 Score: 75
Period size: 15 Copynumber: 3.2 Consensus size: 16
9666164 TCAGTTTTAG
9666174 TTAT-TTTTATTTAAT
1 TTATATTTTATTTAAT
9666189 TT-TATTTTATTT-AT
1 TTATATTTTATTTAAT
9666203 TTATATTTTATTTAAT
1 TTATATTTTATTTAAT
9666219 TTA
1 TTA
9666222 AGGCTACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.17
15 20 0.67
16 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATATTTTATTTAAT
Found at i:9666196 original size:25 final size:25
Alignment explanation
Indices: 9666168--9666220 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9666158 TGAATTTCAG
* *
9666168 TTTTAGTTATTTTTATTTAATTTTA
1 TTTTAGTTATTTATATTTAATTTAA
* *
9666193 TTTTATTTATTTATATTTTATTTAA
1 TTTTAGTTATTTATATTTAATTTAA
9666218 TTT
1 TTT
9666221 AAGGCTACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTAGTTATTTATATTTAATTTAA
Found at i:9666241 original size:5 final size:5
Alignment explanation
Indices: 9666178--9666220 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
9666168 TTTTAGTTAT
* *
9666178 TTTTA TTTAA TTTTA TTTTA -TTTA TTTATA TTTTA TTTAA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTT
9666221 AAGGCTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:9676989 original size:26 final size:26
Alignment explanation
Indices: 9676906--9677041 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
9676896 CTGGAGGCCT
9676906 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
9676930 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
9676955 AGCCCTTTTCAATAAGCTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
***
9676981 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
9677007 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
9677033 AGCCCTTTT
1 AGCCCTTTT
9677042 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.33
26 55 0.57
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:9677030 original size:52 final size:51
Alignment explanation
Indices: 9676906--9677041 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
9676896 CTGGAGGCCT
9676906 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
* *
9676955 AGCCCTTTTCAATAAGCTGGGGCATAAGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
9677007 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
9677042 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 24 0.30
52 35 0.44
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:9677116 original size:20 final size:20
Alignment explanation
Indices: 9677091--9677157 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
9677081 TTATGAATAC
9677091 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
9677111 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
9677131 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
9677151 ATCATGT
1 ATCATGT
9677158 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:9677900 original size:27 final size:27
Alignment explanation
Indices: 9677870--9677921 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9677860 TATTCATCAT
9677870 TTTACCATACAAGGG-TATTACGGTCAC
1 TTTACCATACAAGGGCT-TTACGGTCAC
* *
9677897 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCATACAAGGGCTTTACGGTC
9677922 TTTTCACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
TTTACCATACAAGGGCTTTACGGTCAC
Found at i:9678013 original size:27 final size:27
Alignment explanation
Indices: 9677983--9678090 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
9677973 GTAAATCTAC
*
9677983 AAACCAAGGGTGTTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
9678010 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
9678036 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
9678066 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
9678091 ACAAATTGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.01
27 40 0.60
28 7 0.10
29 18 0.27
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:9678078 original size:56 final size:54
Alignment explanation
Indices: 9677960--9678203 Score: 165
Period size: 54 Copynumber: 4.5 Consensus size: 54
9677950 TTTCATCCTA
* * * * * * *
9677960 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTGTTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAAC
* * *
9678014 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAA-TCAAGGGTATTTCTGTAATTTTGTAAAC
* * ** *
9678070 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAA-TTT-CACAAC
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTA-AAC
* * * * * **
9678123 CTAGTGGTATTTCGGTAATTTTACGAA-CTAGGGTTATTT-TGGTAATTTTACAAAC
1 CAAG-GGTATTTTGATAATTTTACAAATCAAGGG-TATTTCT-GTAATTTTGTAAAC
* * *
9678178 TAGGGGTATTTTGGTAATTTTACAAA
1 CAAGGGTATTTTGATAATTTTACAAA
9678204 CTAGGGGTAT
Statistics
Matches: 151, Mismatches: 29, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 12 0.08
54 77 0.51
55 23 0.15
56 38 0.25
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCTGTAATTTTGTAAAC
Found at i:9678096 original size:27 final size:27
Alignment explanation
Indices: 9678046--9678221 Score: 207
Period size: 27 Copynumber: 6.5 Consensus size: 27
9678036 AGAAAGTCAA
**
9678046 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
9678073 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
9678099 AGGGTATTTCT-GTAATTTCACAACCTAG
1 -GGGTATTT-TGGTAATTTTACAAACTAG
* * *
9678127 TGGTATTTCGGTAATTTTACGAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
9678154 GGTTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
9678181 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
9678208 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
9678222 CTCTATCCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 123 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:9678237 original size:54 final size:53
Alignment explanation
Indices: 9678071--9678256 Score: 182
Period size: 54 Copynumber: 3.5 Consensus size: 53
9678061 TTTGTAAATC
* *
9678071 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCT-GTAATT-TCACAACCT
1 AGGGGTATTTCGGTAATTTTACAAACTAG-GGGTATTT-TGGTAATTATC-CAA-CT
* * * * *
9678125 AGTGGTATTTCGGTAATTTTACGAACTAGGGTTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTAT-CCAACT
* *
9678179 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAACTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-T-TATCCAACT
* *
9678233 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTTACAA
9678257 TCGAGGGTAA
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
53 1 0.01
54 97 0.88
55 9 0.08
56 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTATCCAACT
Found at i:9678242 original size:81 final size:80
Alignment explanation
Indices: 9678070--9678265 Score: 209
Period size: 81 Copynumber: 2.4 Consensus size: 80
9678060 TTTTGTAAAT
* * *
9678070 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAACCTAGTGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCTGTAATTTCACAAACTAGGGGTATTT
* * *
9678135 CGGTAATTTTACGAA
66 CGGTAACTCTACCAA
* *
9678150 CTAGGGTTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TGGTAATTTTACAAACTAGGGGTA
1 C-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCT-GTAATTTCACAAACTAGGGGTA
* *
9678213 TTTTGGTAACTCTATCCTA
63 TTTCGGTAACTCTA-CCAA
** * *
9678232 CAGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTA
9678266 AAACGGTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
79 2 0.02
80 9 0.09
81 80 0.83
82 5 0.05
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCTGTAATTTCACAAACTAGGGGTATTT
CGGTAACTCTACCAA
Found at i:9678373 original size:81 final size:81
Alignment explanation
Indices: 9678255--9678452 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
9678245 GTAATTTCAC
* * * * *
9678255 AATCGAGGGTAAAACGGTAATTTTTTAAA-CTGTGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATATTGTAAATCGAGGGT
*
9678319 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTATA
*
9678336 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATATTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATATTGTAAATCGAGGGTA
*
9678401 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
* *
9678417 AATCGAGGGTAAAATGATAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
9678453 CATTTCAGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 105 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATATTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:9678437 original size:27 final size:27
Alignment explanation
Indices: 9678255--9678452 Score: 238
Period size: 27 Copynumber: 7.3 Consensus size: 27
9678245 GTAATTTCAC
* * *
9678255 AATCGAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
9678282 AA-CTGTGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
** *
9678309 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
9678336 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
9678363 AATCGAGGGTAAAATGGTAATAT-TGTA
1 AATCGAGGGTAAAATGGTAAT-TCTATA
* *
9678390 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
9678417 AATCGAGGGTAAAATGATAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
9678444 AATCGAGGG
1 AATCGAGGG
9678453 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:9689367 original size:34 final size:34
Alignment explanation
Indices: 9689329--9689393 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
9689319 TACTGTACTA
9689329 AAATGAGATAAGGCCCAAACTGCCACTGTTATTG
1 AAATGAGATAAGGCCCAAACTGCCACTGTTATTG
* * * *
9689363 AAATGGGCTAAGGCCCAGACTGCTACTGTTA
1 AAATGAGATAAGGCCCAAACTGCCACTGTTA
9689394 CTGGAAAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (34 bp):
AAATGAGATAAGGCCCAAACTGCCACTGTTATTG
Found at i:9701247 original size:43 final size:43
Alignment explanation
Indices: 9701098--9701250 Score: 184
Period size: 43 Copynumber: 3.6 Consensus size: 43
9701088 CGTACAATGA
* * *
9701098 CAACGTCCCAGACATGGTCTTACATGTAATCACATATCGATGC
1 CAACGTCCCAGACGTGGTCTTACACGTAATCACATATAGATGC
*
9701141 C-ACTGTCCCAAACAG-GGTCTTACACGTAATCACATATAGATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATAGATGC
** * *
9701184 CAACGTCCTGGACGTAGTCTTACACGTAATCACATATTGATGC
1 CAACGTCCCAGACGTGGTCTTACACGTAATCACATATAGATGC
* *
9701227 CAACATCCCAGATGTGGTCTTACA
1 CAACGTCCCAGACGTGGTCTTACA
9701251 TGCACACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.03
43 87 0.95
44 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAATCACATATAGATGC
Found at i:9703935 original size:14 final size:14
Alignment explanation
Indices: 9703916--9703945 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9703906 CATTCCGAAG
*
9703916 TATATATATATACA
1 TATATACATATACA
9703930 TATATACATATACA
1 TATATACATATACA
9703944 TA
1 TA
9703946 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:9704504 original size:27 final size:28
Alignment explanation
Indices: 9704420--9704517 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
9704410 TAAATTGTAC
*
9704420 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
9704448 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
9704476 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
9704503 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9704518 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:9704528 original size:27 final size:27
Alignment explanation
Indices: 9704420--9704530 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
9704410 TAAATTGTAC
* *
9704420 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9704448 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9704476 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9704503 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9704530 A
1 A
9704531 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:9712338 original size:27 final size:26
Alignment explanation
Indices: 9712290--9712349 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
9712280 GCAAGGCTAC
*
9712290 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
9712317 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
9712343 AAGATAT
1 CAGATAT
9712350 ATATATATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:9712996 original size:26 final size:27
Alignment explanation
Indices: 9712967--9713020 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9712957 TCACACAAGT
*
9712967 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
9712993 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
9713020 T
1 T
9713021 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:9713051 original size:27 final size:27
Alignment explanation
Indices: 9713021--9713162 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
9713011 GGGGCAAAAT
* *
9713021 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
9713048 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
9713075 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
9713102 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
9713129 AGTAATTTTACCTTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
9713156 GGTAATT
1 GGTAATT
9713163 CTACAACTTA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 88 0.94
28 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:9713094 original size:54 final size:54
Alignment explanation
Indices: 9713022--9713166 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
9713012 GGGCAAAATG
* * * *
9713022 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
9713076 GT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
9713130 GTAATTTTACCTTACAGGGGTATTTTGGTAATTCTAC
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTAC
9713167 AACTTATTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.05
54 71 0.90
55 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:9714191 original size:21 final size:22
Alignment explanation
Indices: 9714167--9714212 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9714157 ATTACGAATG
9714167 CATACA-TAATAA-TTTACAAAA
1 CATACAGTAA-AATTTTACAAAA
*
9714188 CATATAGTAAAATTTTACAAAA
1 CATACAGTAAAATTTTACAAAA
9714210 CAT
1 CAT
9714213 TAACATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACAGTAAAATTTTACAAAA
Found at i:9717139 original size:27 final size:27
Alignment explanation
Indices: 9717094--9717221 Score: 186
Period size: 27 Copynumber: 4.7 Consensus size: 27
9717084 GGTTGTTATC
* *
9717094 TAGGGTAAAATAACCGTAATACCCCTG
1 TAGGGTAAAATGACTGTAATACCCCTG
9717121 TAGGGTAAAATGACTGTAATACCCCTG
1 TAGGGTAAAATGACTGTAATACCCCTG
*
9717148 TAGGGTAAAATGATTGTAATACCCCTG
1 TAGGGTAAAATGACTGTAATACCCCTG
* *
9717175 TAGGATAAAATGA-TCGTAATACCCCTA
1 TAGGGTAAAATGACT-GTAATACCCCTG
*
9717202 TAGGGTAAAATGACCGTAAT
1 TAGGGTAAAATGACTGTAAT
9717222 GTAACGCCCC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 91 0.99
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGTAAAATGACTGTAATACCCCTG
Found at i:9718078 original size:27 final size:27
Alignment explanation
Indices: 9718048--9718111 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
9718038 TGGATAAGTT
9718048 GTAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCTTGTAGG
* * *
9718075 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCTTGTAGG
9718102 GT--AATTACCA
1 GTAGAATTACCA
9718112 TTTTGCCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 7 0.21
27 26 0.79
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCTTGTAGG
Found at i:9718141 original size:27 final size:26
Alignment explanation
Indices: 9718111--9718164 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
9718101 GGTAATTACC
*
9718111 ATTTTGCCCCTACGGTG-TTAAATGACT
1 ATTTTGCCCCT-C-GTGCGTAAATGACT
9718138 ATTTTGCCCCTCGTGCGTAAATGACT
1 ATTTTGCCCCTCGTGCGTAAATGACT
9718164 A
1 A
9718165 ACTTGTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 3 0.12
26 11 0.44
27 11 0.44
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTTTGCCCCTCGTGCGTAAATGACT
Found at i:9718805 original size:27 final size:26
Alignment explanation
Indices: 9718760--9718811 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
9718750 CCTCGCTGCA
*
9718760 TTCTGGTGGCCTCGCCACATATATCTG
1 TTCTGGTGACCTCGCCACA-ATATCTG
* *
9718787 TTCTGGTGACTTCGTCACAATATCT
1 TTCTGGTGACCTCGCCACAATATCT
9718812 AGCAGCCTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (26 bp):
TTCTGGTGACCTCGCCACAATATCTG
Found at i:9718909 original size:27 final size:26
Alignment explanation
Indices: 9718857--9718916 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
9718847 ATATATATAT
*
9718857 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
9718883 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
9718910 ATATCTG
1 ATATCTG
9718917 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:9719717 original size:27 final size:27
Alignment explanation
Indices: 9719637--9719717 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
9719627 GGGTGTTACA
* *
9719637 CGTAATACCCCTATAGGGTAAAATGAA
1 CGTAATACCCCTGTAGGGTAAAATGAC
* * * *
9719664 TGTAATGCTCTTGTAGGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* *
9719691 CGTAATACCCCTGTATGGTAATATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
9719718 GATTATGCCC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
CGTAATACCCCTGTAGGGTAAAATGAC
Found at i:9719888 original size:27 final size:27
Alignment explanation
Indices: 9719858--9719943 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
9719848 GGAAGTACTG
*
9719858 TACTGGTGACTATGTCAC-ATTCACTAT
1 TACTGGTGACTATGCCACAATT-ACTAT
* * *
9719885 TACTAGTGGCTATGCCACAATTACTGT
1 TACTGGTGACTATGCCACAATTACTAT
* **
9719912 TACTGGT-AGCTTTGCCACGTTTACTAT
1 TACTGGTGA-CTATGCCACAATTACTAT
9719939 T-CTGG
1 TACTGG
9719944 CAGCTATGCT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.09
27 40 0.85
28 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
TACTGGTGACTATGCCACAATTACTAT
Found at i:9719969 original size:26 final size:25
Alignment explanation
Indices: 9719936--9719988 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
9719926 CCACGTTTAC
9719936 TATTCTGGCAGCTATGCTGCGATAT
1 TATTCTGGCAGCTATGCTGCGATAT
* * *
9719961 TATTACTGGTAGCTTTGTTGCGATAT
1 TATT-CTGGCAGCTATGCTGCGATAT
9719987 TA
1 TA
9719989 GTGTGTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (25 bp):
TATTCTGGCAGCTATGCTGCGATAT
Found at i:9723731 original size:41 final size:42
Alignment explanation
Indices: 9723593--9723751 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
9723583 TAACAGTGAT
* *
9723593 ATATCAGGCTTATTGCCTAACAGCCTTTGATGCCGATGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
* *
9723635 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
*
9723677 ATACCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGATGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTA-TG
* * * *
9723719 A-ATCAGGTTTATTACCTAGTAGGCTCTG-TGCCG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCG
9723752 GTGTTTTATA
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 36 0.35
42 67 0.65
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
Found at i:9723737 original size:83 final size:83
Alignment explanation
Indices: 9723597--9723778 Score: 244
Period size: 83 Copynumber: 2.2 Consensus size: 83
9723587 AGTGATATAT
* *
9723597 CAGGCTTATTGCCTAACAGCCTTTGATGCCGATGTATGATATCAGGCTTATTGCCTAGTAGGCTT
1 CAGGCTTATTGCCTAACAGCCTTTGATGCCGATGTATGATATCAGGCTTATTACCTAGTAGGCTC
9723662 TGATGCCGGTGTATGATAC
66 TG-TGCCGGTGTATGATAC
* * *
9723681 CAGGCTTATTGCCTAGCAGGCTTT-ATGCCGATGTATTGA-ATCAGGTTTATTACCTAGTAGGCT
1 CAGGCTTATTGCCTAACAGCCTTTGATGCCGATGTA-TGATATCAGGCTTATTACCTAGTAGGCT
* *
9723744 CTGTGCCGGTGTTTTATAC
65 CTGTGCCGGTGTATGATAC
*
9723763 AAGGCTT-TATGCCTAA
1 CAGGCTTAT-TGCCTAA
9723779 TGAATTTTAT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
81 1 0.01
82 26 0.30
83 35 0.40
84 25 0.29
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (83 bp):
CAGGCTTATTGCCTAACAGCCTTTGATGCCGATGTATGATATCAGGCTTATTACCTAGTAGGCTC
TGTGCCGGTGTATGATAC
Found at i:9726575 original size:33 final size:32
Alignment explanation
Indices: 9726494--9726576 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
9726484 AAAGTATGGC
* * * *
9726494 CATGT-GGCCACACGGGCTAGGCTAATTTGGG
1 CATGTAGGCCACACGGGCAAGGCCAATCTGGA
9726525 CATGTAGGCCACACGGGCAAGGCCAATCTGGA
1 CATGTAGGCCACACGGGCAAGGCCAATCTGGA
* *
9726557 CGTGTGGGCCCACACGGGCA
1 CATGTAGG-CCACACGGGCA
9726577 TGTGGGTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 5 0.11
32 28 0.64
33 11 0.25
ACGTcount: A:0.22, C:0.28, G:0.35, T:0.16
Consensus pattern (32 bp):
CATGTAGGCCACACGGGCAAGGCCAATCTGGA
Found at i:9732957 original size:28 final size:29
Alignment explanation
Indices: 9732900--9732974 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
9732890 TATATATATA
* **
9732900 AATGGCACTTAGTGTGC-AAAGTATTGAG
1 AATGGCACTTAGTGTGCGAAAGCATCCAG
*
9732928 AATGGCACATAGTGTGCGAAA-CATCCAG
1 AATGGCACTTAGTGTGCGAAAGCATCCAG
* *
9732956 AATAGCACTTAGCGTGCGA
1 AATGGCACTTAGTGTGCGA
9732975 GGTATCGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (29 bp):
AATGGCACTTAGTGTGCGAAAGCATCCAG
Found at i:9735725 original size:50 final size:50
Alignment explanation
Indices: 9735663--9735802 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 50
9735653 TGATATGTGT
*
9735663 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCGT-GA-AAAGAGGAGAGG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATAAA-A-GAGAGG
* * * * *
9735713 CAGTGTAAGACCATGTCTAGGATACGGCATCTGCCTCGATATAAGAGAGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATAAAAGAGAGG
* *
9735763 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATA
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATA
9735803 TGTGATTACA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 8 0.10
50 65 0.83
51 3 0.04
52 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATAAAAGAGAGG
Found at i:9735864 original size:43 final size:45
Alignment explanation
Indices: 9735765--9735925 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 45
9735755 AAGAGAGTCA
9735765 GTGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-TC-ATATGTGATTAC
* * *
9735812 ATGTAAGACCATGTCTGGGACATTGGCATTG-T-AT-TGTGATTTC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATCATATGTGATTAC
* * * * *
9735855 GTGTAAGACCCTGTGTGGGATAGTGGCATCG---ATATGTTATAAC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATCATATGTGATTAC
* * * *
9735898 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
9735926 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 8 0.08
43 56 0.59
44 2 0.02
46 1 0.01
47 21 0.22
48 7 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATCATATGTGATTAC
Found at i:9740533 original size:12 final size:13
Alignment explanation
Indices: 9740505--9740537 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9740495 TTATTTCTTT
9740505 TTCTCCATCTACC
1 TTCTCCATCTACC
*
9740518 TTCTCC-TCTTCC
1 TTCTCCATCTACC
9740530 TTCTCCAT
1 TTCTCCAT
9740538 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:9741621 original size:28 final size:28
Alignment explanation
Indices: 9741589--9741652 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
9741579 ATTTACTAGA
*
9741589 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATAACCATT
* *
9741617 ATACCCCTATGTGTGCAAAATAACCTTT
1 ATACCCCTATGTATGCAAAATAACCATT
9741645 ATACCCCT
1 ATACCCCT
9741653 TAGGGTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATAACCATT
Found at i:9741818 original size:27 final size:28
Alignment explanation
Indices: 9741760--9741849 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
9741750 AGGAAGCATC
*
9741760 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
9741788 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
9741815 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
9741844 CTGGTG
1 CTGGTG
9741850 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:9741860 original size:29 final size:28
Alignment explanation
Indices: 9741770--9741860 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
9741760 CTGGTGGCTA
* * *
9741770 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
9741798 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
9741825 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
9741854 TGTCACA
1 TGCCACA
9741861 TTTTCTATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:9744254 original size:27 final size:27
Alignment explanation
Indices: 9744224--9744371 Score: 183
Period size: 27 Copynumber: 5.5 Consensus size: 27
9744214 TACCCCATAA
* *
9744224 GGGTATCTCGATAATTCTACCCTACAG
1 GGGTATTTTGATAATTCTACCCTACAG
* * *
9744251 GGGTA-TTTCAGTATTTCTACCCTATTA-
1 GGGTATTTTGA-TAATTCTACCCTA-CAG
*
9744278 GGGTATTTTGGTAATTCTACCCTACAG
1 GGGTATTTTGATAATTCTACCCTACAG
* *
9744305 GGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGATAATTCTACCCTACAG
*
9744332 GGGTATTTTGATAATTCTACCTTACAG
1 GGGTATTTTGATAATTCTACCCTACAG
9744359 GGGTATTTTGATA
1 GGGTATTTTGATA
9744372 TTTTACAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGATAATTCTACCCTACAG
Found at i:9744367 original size:54 final size:54
Alignment explanation
Indices: 9744205--9744368 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 54
9744195 AGGGGCAAAA
* * * * *
9744205 TGGTAATTTTACCCCATAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTATCAGGGTATTTTGATAATTCTACCCTACAGGGGTATTT
** * * *
9744259 CAGTATTTCTACCCTATTAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTATCAGGGTATTTTGATAATTCTACCCTACAGGGGTATTT
* *
9744313 TGGTAATTCTATCCTA-CAGGGGTATTTTGATAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTATCA-GGGTATTTTGATAATTCTACCCTACAGGGGTATTT
9744367 TG
1 TG
9744369 ATATTTTACA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (54 bp):
TGGTAATTCTACCCTATCAGGGTATTTTGATAATTCTACCCTACAGGGGTATTT
Found at i:9744644 original size:27 final size:27
Alignment explanation
Indices: 9744278--9744623 Score: 312
Period size: 27 Copynumber: 12.9 Consensus size: 27
9744268 TACCCTATTA
* **
9744278 GGGTATTTTGGTAATTCTACCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* **
9744305 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* * **
9744332 GGGTATTTTGATAATTCTACCTTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
9744359 GGGTATTTTGAT-ATTTTACAAA-TCAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
* ** * *
9744385 GAGTATTCCGATAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
9744412 GGGTATTTTGGTAATTTTACAAGCTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
9744439 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
9744466 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
9744493 GGGTATTTTGGTAATTTTACTGA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
9744519 AGGGTATTTTGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
9744547 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
9744574 AGGTATTTAT-GTAATTTTATAAACTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
9744601 GGGTATTTTAGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
9744624 TTGAGGGCAT
Statistics
Matches: 271, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 17 0.06
27 248 0.92
28 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:9750350 original size:17 final size:17
Alignment explanation
Indices: 9750328--9750366 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9750318 TGGGCTAAAC
9750328 GGGCCACACGGGTATGT
1 GGGCCACACGGGTATGT
9750345 GGGCCACACGGGTATGT
1 GGGCCACACGGGTATGT
9750362 GGGCC
1 GGGCC
9750367 CGCAATATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (17 bp):
GGGCCACACGGGTATGT
Found at i:9756831 original size:12 final size:12
Alignment explanation
Indices: 9756814--9756839 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9756804 CATTCCGAAG
9756814 TATATATATACA
1 TATATATATACA
9756826 TATATATATACA
1 TATATATATACA
9756838 TA
1 TA
9756840 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:9757352 original size:27 final size:27
Alignment explanation
Indices: 9757321--9757498 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
9757311 TAAATGGTAC
9757321 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9757348 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9757374 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9757402 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9757430 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9757457 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
9757484 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
9757499 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9757435 original size:82 final size:81
Alignment explanation
Indices: 9757322--9757477 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9757312 AAATGGTACA
* *
9757322 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9757386 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9757403 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9757468 TGCGAGTTGA
65 TGCGAATTGA
9757478 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9769362 original size:41 final size:38
Alignment explanation
Indices: 9769317--9769405 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 38
9769307 AAACAGGTTT
*
9769317 TTAGCGGCATTTGGATAACAAACGCCGCTATAGATTGAGCA
1 TTAGCGGC-TTT-GATAA-AAACGCCGCTATAGATCGAGCA
**
9769358 TTAGCGACGCTTTTTTAAAAACGCCGCTATAGATCGAGCA
1 TTAGCG--GCTTTGATAAAAACGCCGCTATAGATCGAGCA
*
9769398 TTACCGGC
1 TTAGCGGC
9769406 GCTTTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
38 2 0.05
40 26 0.62
41 9 0.21
42 3 0.07
43 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (38 bp):
TTAGCGGCTTTGATAAAAACGCCGCTATAGATCGAGCA
Found at i:9769381 original size:40 final size:40
Alignment explanation
Indices: 9769336--9769451 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
9769326 TTTGGATAAC
*
9769336 AAACGCCGCTATAGATTGAGCATTAGCGACGCTTTTTTAA
1 AAACGCCGCTATAGATTGAGCATTAGCGACGCTTTTTAAA
* * *
9769376 AAACGCCGCTATAGATCGAGCATTACCGGCGCTTTTTAAA
1 AAACGCCGCTATAGATTGAGCATTAGCGACGCTTTTTAAA
* *
9769416 AAACGCCACTATAGGTTG-GCCATTAGCGACGCTTTT
1 AAACGCCGCTATAGATTGAG-CATTAGCGACGCTTTT
9769452 CAGGAAATGC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 65 0.98
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (40 bp):
AAACGCCGCTATAGATTGAGCATTAGCGACGCTTTTTAAA
Found at i:9769775 original size:21 final size:21
Alignment explanation
Indices: 9769728--9769769 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9769718 TTAAATTTTT
*
9769728 GAGTTTAGGGTTTATGGTTTA
1 GAGTTTAGGGTTTATGATTTA
*
9769749 GAGTTTGGGGTTTATGATTTA
1 GAGTTTAGGGTTTATGATTTA
9769770 TTGTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (21 bp):
GAGTTTAGGGTTTATGATTTA
Found at i:9769980 original size:21 final size:21
Alignment explanation
Indices: 9769955--9770000 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9769945 TTAGGGTGTA
*
9769955 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGATCTAAGATTTAG
* *
9769976 GGTTTATGATCTAGGATTTGG
1 GGTTTATGATCTAAGATTTAG
9769997 GGTT
1 GGTT
9770001 CGATGTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.43
Consensus pattern (21 bp):
GGTTTATGATCTAAGATTTAG
Found at i:9770446 original size:8 final size:8
Alignment explanation
Indices: 9770435--9770522 Score: 67
Period size: 7 Copynumber: 10.9 Consensus size: 8
9770425 TTTATATGTT
9770435 AATTTAAA
1 AATTTAAA
*
9770443 AATTATAGA
1 AATT-TAAA
9770452 AATCTTCAAAAA
1 AAT-TT--AA-A
9770464 AATTT-AA
1 AATTTAAA
9770471 AATTT-AA
1 AATTTAAA
9770478 AATTT-AA
1 AATTTAAA
9770485 AATTT-AA
1 AATTTAAA
9770492 AATTTAAA
1 AATTTAAA
*
9770500 AAATTAAA
1 AATTTAAA
*
9770508 AACTTAAA
1 AATTTAAA
*
9770516 ATTTTAA
1 AATTTAA
9770523 TATTTAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
7 27 0.40
8 26 0.38
9 7 0.10
10 1 0.01
11 3 0.04
12 4 0.06
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (8 bp):
AATTTAAA
Found at i:9770474 original size:7 final size:7
Alignment explanation
Indices: 9770462--9770534 Score: 83
Period size: 7 Copynumber: 10.0 Consensus size: 7
9770452 AATCTTCAAA
9770462 AAAATTT
1 AAAATTT
9770469 AAAATTT
1 AAAATTT
9770476 AAAATTT
1 AAAATTT
9770483 AAAATTT
1 AAAATTT
9770490 AAAATTT
1 AAAATTT
*
9770497 AAAAAATTA
1 --AAAATTT
*
9770506 AAAACTT
1 AAAATTT
9770513 AAAATTTT
1 AAAA-TTT
*
9770521 AATATTT
1 AAAATTT
*
9770528 AATATTT
1 AAAATTT
9770535 TAGTCCATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 47 0.81
8 5 0.09
9 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (7 bp):
AAAATTT
Found at i:9770750 original size:41 final size:41
Alignment explanation
Indices: 9770635--9770750 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
9770625 GAAAAAAATT
* **
9770635 AAAATTGAGCAATAATGGCGTTTTTGG-GCAAAATGCCACAA
1 AAAATTGAGCTATAATGGCGTTTTTGGTG-AAAACACCACAA
* * * **
9770676 AAAATTGAGCTATAGTGGCATTTTTGGTAAAAACACCGTAA
1 AAAATTGAGCTATAATGGCGTTTTTGGTGAAAACACCACAA
9770717 AAAATTGAGCTATAATGGCGTTTTTGGTGAAAAC
1 AAAATTGAGCTATAATGGCGTTTTTGGTGAAAAC
9770751 GCAACAATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (41 bp):
AAAATTGAGCTATAATGGCGTTTTTGGTGAAAACACCACAA
Found at i:9774954 original size:86 final size:85
Alignment explanation
Indices: 9774778--9775039 Score: 273
Period size: 86 Copynumber: 3.1 Consensus size: 85
9774768 GGTCATCTTT
* * * *
9774778 TTTAGCGGTGTTTGTGAGAAAAGTGCCGCTAAAGGT-ATGTT-TTATAGCGGCATTTGTGGTAAA
1 TTTAGCGGTGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGTTCTT-TAGCGGCGTTTGTGGGAAA
* * **
9774841 AGTGCCGTTAA-AAGTCATGTTC
65 AGCGCCGCTAAGAA--CATGACC
* * *
9774863 TTTAGCGATGTTTGTGAGAGAAGCGTCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAA
1 TTTAGCGGTGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAA
9774928 GCGCCGCTAGAGAACATGACC
66 GCGCCGCTA-AGAACATGACC
* * * * *
9774949 TTTAGCGGCGTTTGTGGGAAAAATGC-T-GCTAAAGGTCATGATCTTTAGTGGCGTTTTTGGGAA
1 TTTAGCGGTGTTTGTGAG-AAAA-GCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA
*
9775012 AAGCGCCGCTAAAGATCATGACC
64 AAGCGCCGCT-AAGAACATGACC
9775035 TTTAG
1 TTTAG
9775040 TGCCATTTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
85 32 0.21
86 106 0.71
87 8 0.05
88 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (85 bp):
TTTAGCGGTGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAA
GCGCCGCTAAGAACATGACC
Found at i:9775041 original size:43 final size:43
Alignment explanation
Indices: 9774778--9775039 Score: 215
Period size: 43 Copynumber: 6.1 Consensus size: 43
9774768 GGTCATCTTT
* * * * **
9774778 TTTAGCGGTGTTTGTGAGAAAAGTGCCGCTAAAGGT-ATG-TT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
* * * * **
9774819 TTATAGCGGCATTTGTGGTAAAAGTGCCGTTAAA-AGTCATGTTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCATGACC
** * * * * **
9774863 TTTAGCGATGTTTGTGAGAGAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
* * *
9774906 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAGAGAACATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
** * * *
9774949 TTTAGCGGCGTTTGTGGGAAAAATGCTGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
* *
9774992 TTTAGTGGCGTTTTTGGGAAAAGCGCCGCTAAAGATCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
9775035 TTTAG
1 TTTAG
9775040 TGCCATTTTT
Statistics
Matches: 173, Mismatches: 43, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
41 2 0.01
42 27 0.16
43 141 0.82
44 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
Found at i:9777437 original size:18 final size:19
Alignment explanation
Indices: 9777404--9777439 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9777394 TCTTGCCCCG
*
9777404 TTTTTAATGATTTTTGTAT
1 TTTTTAATGATCTTTGTAT
9777423 TTTTTAAT-ATCTTTGTA
1 TTTTTAATGATCTTTGTA
9777440 ACTTGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTTTAATGATCTTTGTAT
Found at i:9779199 original size:27 final size:27
Alignment explanation
Indices: 9779151--9779309 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
9779141 GCGAGACTGC
* * *
9779151 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
9779178 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
9779204 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
9779231 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
9779258 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
9779285 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
9779310 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.09
27 100 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:9779270 original size:81 final size:80
Alignment explanation
Indices: 9779151--9779309 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
9779141 GCGAGACTGC
* *
9779151 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGAT-ATATGT
1 CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAAT-TGT
*
9779215 GGTAGAGCCACCAGAT
65 GGCAGAGCCACCAGAT
* * **
9779231 CAGATAATTGTGGCATAGCCACCAG-GACAGATATATGTGGCAGAGCCACCAGATTAGATAATTG
1 CAGAT-ATTGTGACAAAGCCACCAGAGACAGATAT-TGTGGCAGAGCCACCAGAACAGATAATTG
*
9779295 TGGCATAGCCACCAG
64 TGGCAGAGCCACCAG
9779310 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 13 0.19
81 53 0.78
82 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (80 bp):
CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAATTGTG
GCAGAGCCACCAGAT
Found at i:9779310 original size:54 final size:54
Alignment explanation
Indices: 9779151--9779312 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 54
9779141 GCGAGACTGC
* * * * *
9779151 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
9779204 CAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
9779258 CAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
9779312 C
1 C
9779313 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 87 0.88
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:9779715 original size:8 final size:8
Alignment explanation
Indices: 9779699--9779728 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9779689 CTCAAAATAC
9779699 CGGCTTTT
1 CGGCTTTT
*
9779707 CGGCATTT
1 CGGCTTTT
9779715 CGGCTTTT
1 CGGCTTTT
9779723 CGGCTT
1 CGGCTT
9779729 GTGCTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:9780937 original size:26 final size:26
Alignment explanation
Indices: 9780907--9781013 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9780897 TGAAATTCCC
9780907 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9780933 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9780959 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9780985 ATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9781010 ATCA
1 ATCA
9781014 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 18 0.23
26 59 0.77
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9786351 original size:48 final size:48
Alignment explanation
Indices: 9786212--9786355 Score: 150
Period size: 48 Copynumber: 3.0 Consensus size: 48
9786202 TACTTGGGAG
* * *
9786212 TCTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCTAAATCAA-TGAA
1 TCTCACACCCAAAGTGCCAATATCAT-GCCCGAAGCCAAATCAATTGAA
* * * *
9786260 TCTCACACCCGAAGTGCCAATATCATGCCCGGAGCCACATCAATTTAA
1 TCTCACACCCAAAGTGCCAATATCATGCCCGAAGCCAAATCAATTGAA
** * *
9786308 -CTTGCACTCAAAGTACCAATATCATGTCCCGAAGCCAAATCAA-TGAA
1 TCTCACACCCAAAGTGCCAATATCATG-CCCGAAGCCAAATCAATTGAA
9786355 T
1 T
9786356 TCCCTAATGA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
47 38 0.48
48 41 0.52
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (48 bp):
TCTCACACCCAAAGTGCCAATATCATGCCCGAAGCCAAATCAATTGAA
Found at i:9788945 original size:28 final size:28
Alignment explanation
Indices: 9788913--9788980 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
9788903 GATATGACAT
*
9788913 TGTGCTAAGTGAAATAAGTTCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
9788941 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
*
9788969 TGTGATAAGTGA
1 TGTGCTAAGTGA
9788981 GAAATTTCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:9789085 original size:51 final size:51
Alignment explanation
Indices: 9789004--9789253 Score: 367
Period size: 51 Copynumber: 4.9 Consensus size: 51
9788994 TGAACCTTAG
* * * *
9789004 GAATAAAATAGCTTTGGACACAAGTATGGTACTATATGAAGGCCACTTTTT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
9789055 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTCAAGGTCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
9789106 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
**
9789157 GAATATAATAGCTTTAAACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* ** * *
9789208 GAATAAAATAGCTTT-CTCTACATGGGTGGTACTATGTGAAGGCCAC
1 GAATATAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
9789254 CGTGTATCTG
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 182 0.99
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:9806717 original size:93 final size:93
Alignment explanation
Indices: 9806608--9806780 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
9806598 CGCCTATAAG
** *
9806608 CGAACTCAGACTCAACTCAATGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACAAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
9806672 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
9806701 CGAACTCGGACTCAACTCAACAAGTTCGGACGTTCACATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
9806766 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
9806781 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:9806773 original size:46 final size:46
Alignment explanation
Indices: 9806603--9806776 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
9806593 TAACCCGCCT
* * * * * *
9806603 ATAAGCGAACTCAGACTCAACTCAATGAGCTCAGG-CATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCACATCC
9806649 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACATCC
* * * *
9806697 TTCA-CGAACTCGGACTCAACTCAACAAGTTCGGACGTTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
*
9806742 ATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
9806777 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 4 0.04
46 55 0.53
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
Found at i:9811937 original size:31 final size:31
Alignment explanation
Indices: 9811899--9811961 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
9811889 CAATCGATCA
*
9811899 ACGAACCGTTTGCACACAATATCTTTAGTAG
1 ACGAACCGTTTGCACACAATATCTTCAGTAG
9811930 ACGAACCGTTTGCACACAATATCTTCAGTAG
1 ACGAACCGTTTGCACACAATATCTTCAGTAG
9811961 A
1 A
9811962 AACATACTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (31 bp):
ACGAACCGTTTGCACACAATATCTTCAGTAG
Found at i:9814889 original size:42 final size:42
Alignment explanation
Indices: 9814830--9814915 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
9814820 CCAAAGGTCT
*
9814830 ATTTCAATAACACATGAAATATCAATGAATGTATGCAAGCCC
1 ATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCCC
* *
9814872 ATTTCAATATCACATGAAATACCATTGAATGTATGCAAGCCC
1 ATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCCC
9814914 AT
1 AT
9814916 CTAGAGAGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (42 bp):
ATTTCAATAACACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:9815133 original size:26 final size:26
Alignment explanation
Indices: 9815062--9815184 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
9815052 TGTCTTTAAT
* **
9815062 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
9815087 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
9815112 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
9815138 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
9815164 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
9815185 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.36
26 58 0.64
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:9815173 original size:52 final size:51
Alignment explanation
Indices: 9815062--9815184 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
9815052 TGTCTTTAAT
*
9815062 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
9815112 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
9815164 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
9815185 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 9 0.13
51 25 0.36
52 36 0.51
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:9815259 original size:20 final size:20
Alignment explanation
Indices: 9815234--9815290 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
9815224 TTATGAATTC
*
9815234 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
9815254 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
9815274 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
9815291 TCATGTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9815265 original size:11 final size:11
Alignment explanation
Indices: 9815234--9815289 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
9815224 TTATGAATTC
9815234 ATCATGTGCAT
1 ATCATGTGCAT
* *
9815245 TTCA--TACAT
1 ATCATGTGCAT
9815254 ATCATGTGCAT
1 ATCATGTGCAT
9815265 ATCA--TGCAT
1 ATCATGTGCAT
9815274 ATCATGTGCAT
1 ATCATGTGCAT
9815285 ATCAT
1 ATCAT
9815290 ATCATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Done.