Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 266 of 356
Found at i:87287398 original size:29 final size:30
Alignment explanation
Indices: 87287355--87287418 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
87287345 ATAGGCTAGG
87287355 ACACGACTGTGTGCCCTATTTTGAATGCCC
1 ACACGACTGTGTGCCCTATTTTGAATGCCC
*
87287385 ACACG-CTGTGTGCCTTATTTTGAATGCCC
1 ACACGACTGTGTGCCCTATTTTGAATGCCC
87287414 ACACG
1 ACACG
87287419 GCCTAAGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (30 bp):
ACACGACTGTGTGCCCTATTTTGAATGCCC
Found at i:87293952 original size:47 final size:46
Alignment explanation
Indices: 87293899--87293989 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 46
87293889 GGGTTTATAG
* * *
87293899 TTTTTAGATTGGGATTTCTTTCTTTTTTCTTTTTCTTTTTCTTTTCA
1 TTTTTAGATTAGCATTTCTTTCTCTTTTCTTTTTC-TTTTCTTTTCA
*
87293946 TTTTTAGATTAGCTTTTCTTTCTCTTTTCTTTTTCTTTTCTTTT
1 TTTTTAGATTAGCATTTCTTTCTCTTTTCTTTTTCTTTTCTTTT
87293990 TTAGTTTAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 9 0.22
47 31 0.77
ACGTcount: A:0.08, C:0.14, G:0.07, T:0.71
Consensus pattern (46 bp):
TTTTTAGATTAGCATTTCTTTCTCTTTTCTTTTTCTTTTCTTTTCA
Found at i:87293976 original size:41 final size:40
Alignment explanation
Indices: 87293924--87294007 Score: 132
Period size: 41 Copynumber: 2.1 Consensus size: 40
87293914 TTCTTTCTTT
87293924 TTTCTTTTTCTTTTTCTTTTCATTTTTAGATTAGCTTTTC
1 TTTCTTTTTCTTTTTCTTTTCATTTTTAGATTAGCTTTTC
* * *
87293964 TTTCTCTTTTCTTTTTCTTTTCTTTTTTAGTTTAGGTTTTC
1 TTTCT-TTTTCTTTTTCTTTTCATTTTTAGATTAGCTTTTC
87294005 TTT
1 TTT
87294008 GTTTCTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 5 0.12
41 35 0.88
ACGTcount: A:0.07, C:0.14, G:0.06, T:0.73
Consensus pattern (40 bp):
TTTCTTTTTCTTTTTCTTTTCATTTTTAGATTAGCTTTTC
Found at i:87293989 original size:11 final size:11
Alignment explanation
Indices: 87293958--87293990 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
87293948 TTTAGATTAG
*
87293958 CTTTTCTTTCT
1 CTTTTCTTTTT
87293969 CTTTTCTTTTT
1 CTTTTCTTTTT
87293980 CTTTTCTTTTT
1 CTTTTCTTTTT
87293991 TAGTTTAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:87302704 original size:21 final size:21
Alignment explanation
Indices: 87302680--87302727 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
87302670 ATATATATAG
*
87302680 TAACAACAATAATAATAATAA
1 TAACAACAATAATAATAAAAA
* * *
87302701 TAACAATACTAATTATAAAAA
1 TAACAACAATAATAATAAAAA
87302722 TAACAA
1 TAACAA
87302728 GGACATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACAACAATAATAATAAAAA
Found at i:87303962 original size:5 final size:5
Alignment explanation
Indices: 87303952--87303979 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
87303942 TTTAATTGAA
87303952 AATTT AATTT AATTT AATTT AATTT AAT
1 AATTT AATTT AATTT AATTT AATTT AAT
87303980 AAATAATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:87305640 original size:26 final size:28
Alignment explanation
Indices: 87305590--87305652 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 28
87305580 ACAAATAATT
87305590 TAAAAATTATAAAATTAAAATAAG-TCAA
1 TAAAAATTATAAAATTAAAATAAGTTC-A
87305618 TAAAAATTA-AAAA-TATAAA-AAGTTCA
1 TAAAAATTATAAAATTA-AAATAAGTTCA
87305644 TAAAAATTA
1 TAAAAATTA
87305653 GTATGGAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 15 0.45
27 9 0.27
28 9 0.27
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAAATTATAAAATTAAAATAAGTTCA
Found at i:87305895 original size:19 final size:18
Alignment explanation
Indices: 87305852--87305895 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
87305842 TAACACCTTT
* *
87305852 TTAAATGAACCACTTTTA
1 TTAAATCAACCACATTTA
87305870 TTAAAATCAACACACATTTA
1 TT-AAATCAAC-CACATTTA
87305890 TTAAAT
1 TTAAAT
87305896 TAATTAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAATCAACCACATTTA
Found at i:87306116 original size:15 final size:17
Alignment explanation
Indices: 87306084--87306117 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
87306074 AAACTAATAC
87306084 AATTATTGTTTTTATTA
1 AATTATTGTTTTTATTA
87306101 AATTATT-TTTTT-TTA
1 AATTATTGTTTTTATTA
87306116 AA
1 AA
87306118 ATATGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
AATTATTGTTTTTATTA
Found at i:87308071 original size:28 final size:28
Alignment explanation
Indices: 87308016--87308071 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
87308006 TTTGGGAGGC
87308016 AAAATTAAATTATATATTTTACGATAGTA
1 AAAATTAAATTATATATTTTAC-ATAGTA
87308045 AAAATATAAATT-TATCATTTTA-ATAGT
1 AAAAT-TAAATTATAT-ATTTTACATAGT
87308072 CTATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 12 0.48
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAATTAAATTATATATTTTACATAGTA
Found at i:87312081 original size:11 final size:11
Alignment explanation
Indices: 87312065--87312095 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
87312055 CGCATCTAGT
87312065 TTTGTTCTTAA
1 TTTGTTCTTAA
87312076 TTTGTTCTTAA
1 TTTGTTCTTAA
*
87312087 TTTATTCTT
1 TTTGTTCTT
87312096 GATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (11 bp):
TTTGTTCTTAA
Found at i:87325207 original size:24 final size:24
Alignment explanation
Indices: 87325180--87325232 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
87325170 TATGCGTATT
87325180 CAGATTCAGATACAAATGCAGACA
1 CAGATTCAGATACAAATGCAGACA
* * *
87325204 CAGATTTAGATACAGATGCAGTCA
1 CAGATTCAGATACAAATGCAGACA
87325228 CAGAT
1 CAGAT
87325233 CCTACCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (24 bp):
CAGATTCAGATACAAATGCAGACA
Found at i:87328870 original size:14 final size:14
Alignment explanation
Indices: 87328851--87328888 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
87328841 ACTTTATATA
87328851 CAGATGTATGTATG
1 CAGATGTATGTATG
87328865 CAGATGTATGTATG
1 CAGATGTATGTATG
*
87328879 CGGATGTATG
1 CAGATGTATG
87328889 AATATAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (14 bp):
CAGATGTATGTATG
Found at i:87338567 original size:39 final size:39
Alignment explanation
Indices: 87338521--87338620 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
87338511 CATATTCACT
* *
87338521 TTTAAGCATATATCGCATTA-TACGTATAATTACATAATG
1 TTTAAGCATATATCGCAATACT-CATATAATTACATAATG
* *
87338560 TTTAAGCACATATCGTAATACTCATATAATTACATAATG
1 TTTAAGCATATATCGCAATACTCATATAATTACATAATG
* *
87338599 TTCAAGCATATATTGCAATACT
1 TTTAAGCATATATCGCAATACT
87338621 AAAAAACGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 51 0.98
40 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (39 bp):
TTTAAGCATATATCGCAATACTCATATAATTACATAATG
Found at i:87341933 original size:26 final size:26
Alignment explanation
Indices: 87341905--87341955 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
87341895 TTGTGAATCA
*
87341905 AAAATAATATCTTTAGA-AATTTTCT
1 AAAATAATATCTTCAGATAATTTTCT
*
87341930 AAAATAATCTCTTCAGATAATTTTCT
1 AAAATAATATCTTCAGATAATTTTCT
87341956 CGCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (26 bp):
AAAATAATATCTTCAGATAATTTTCT
Found at i:87343181 original size:16 final size:16
Alignment explanation
Indices: 87343160--87343193 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
87343150 ATAAGGGGTC
87343160 TATTTTGCAAAATGAT
1 TATTTTGCAAAATGAT
87343176 TATTTTGCAAAATGAT
1 TATTTTGCAAAATGAT
87343192 TA
1 TA
87343194 AGAGTTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TATTTTGCAAAATGAT
Found at i:87343490 original size:30 final size:30
Alignment explanation
Indices: 87343454--87343510 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
87343444 TCGAGCATAG
* *
87343454 GGGCAAAATGGTCATTTTGCCAAAGACTAA
1 GGGCAAAATGATCATTTTACCAAAGACTAA
*
87343484 GGGCAAAATGATCATTTTACCTAAGAC
1 GGGCAAAATGATCATTTTACCAAAGAC
87343511 GTGAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (30 bp):
GGGCAAAATGATCATTTTACCAAAGACTAA
Found at i:87343958 original size:47 final size:46
Alignment explanation
Indices: 87343846--87343967 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
87343836 TCACTTGTGT
*
87343846 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCACGA
* * * ** *
87343892 GAGCCAGTTTAAGACCATGTCTGGGACATGGCATC-GGCATTTAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAT-CACGA
*
87343940 GTGCTAGTGTAAGACATGTCTGGGACAT
1 GAGCTAGTGTAAGACATGTCTGGGACAT
87343968 TGATAAACTG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 12 0.19
47 32 0.51
48 19 0.30
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCACGA
Found at i:87344211 original size:30 final size:30
Alignment explanation
Indices: 87344176--87344235 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
87344166 TAGGCACTTC
87344176 CACACGGGT-GATCCACACGCCCGTGTGTCA
1 CACACGGGTAGA-CCACACGCCCGTGTGTCA
*
87344206 CACACGGGTAGACTACACGCCCGTGTGTCA
1 CACACGGGTAGACCACACGCCCGTGTGTCA
87344236 TGGCCGTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTCA
Found at i:87345346 original size:45 final size:45
Alignment explanation
Indices: 87345295--87345386 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 45
87345285 ACGACTATCA
*
87345295 GACATGCATCGGCT-TTAAGATGAAGCCAGTGTAAGA-CGTGTCTAG
1 GACATGCATCGGCTATTAA-ATG-AGCCAGTGTAAGACCATGTCTAG
* *
87345340 GACATGCATCGGCTATTAAATGTGTCAGTGTAAGACCATGTCTAG
1 GACATGCATCGGCTATTAAATGAGCCAGTGTAAGACCATGTCTAG
87345385 GA
1 GA
87345387 TATGGCATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.26
45 27 0.64
46 4 0.10
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (45 bp):
GACATGCATCGGCTATTAAATGAGCCAGTGTAAGACCATGTCTAG
Found at i:87346760 original size:19 final size:19
Alignment explanation
Indices: 87346723--87346761 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
87346713 AAAGCTGAAT
**
87346723 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
87346742 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
87346761 T
1 T
87346762 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:87354856 original size:23 final size:26
Alignment explanation
Indices: 87354826--87354878 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
87354816 ACTAAGGCTT
87354826 TAATATATATAATA-AT-ATATAAAAA
1 TAATATATA-AATAGATAATATAAAAA
*
87354851 TAATATATAAATAGATAATATAATAA
1 TAATATATAAATAGATAATATAAAAA
87354877 TA
1 TA
87354879 GATGGAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 11 0.44
26 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
TAATATATAAATAGATAATATAAAAA
Found at i:87354868 original size:15 final size:14
Alignment explanation
Indices: 87354828--87354872 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
87354818 TAAGGCTTTA
*
87354828 ATATATATAATAAT
1 ATATAAATAATAAT
87354842 ATATAAA-AATAAT
1 ATATAAATAATAAT
87354855 ATATAAATAGATAAT
1 ATATAAATA-ATAAT
87354870 ATA
1 ATA
87354873 ATAATAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 13 0.46
14 7 0.25
15 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
ATATAAATAATAAT
Found at i:87354878 original size:15 final size:14
Alignment explanation
Indices: 87354826--87354881 Score: 64
Period size: 15 Copynumber: 4.1 Consensus size: 14
87354816 ACTAAGGCTT
87354826 TAATATAT-ATA-A
1 TAATATATAATAGA
*
87354838 TAATATATAA-AAA
1 TAATATATAATAGA
87354851 TAATATATAAATAGA
1 TAATATAT-AATAGA
87354866 TAATATAATAATAGA
1 TAATAT-ATAATAGA
87354881 T
1 T
87354882 GGAAACTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 9 0.24
13 10 0.26
14 2 0.05
15 15 0.39
16 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAATATATAATAGA
Found at i:87358293 original size:46 final size:46
Alignment explanation
Indices: 87358244--87358506 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 46
87358234 GGCATTCGAA
* *
87358244 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * * *
87358290 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAG
* * *
87358337 CTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * *
87358383 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAG
* * *
87358430 CTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAG
*
87358476 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87358507 GCGGGTTACA
Statistics
Matches: 170, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.02
43 9 0.05
45 8 0.05
46 79 0.46
47 52 0.31
48 6 0.04
50 8 0.05
51 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
Found at i:87358352 original size:47 final size:47
Alignment explanation
Indices: 87358284--87358452 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
87358274 GATGCGAATG
*
87358284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * * *
87358331 TCTGAGCTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
87358378 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* *
87358424 TCCGAGCTTGTTGAGTTGAGTCTGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
87358453 ACTTATGGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 26 0.26
47 52 0.52
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:87358393 original size:93 final size:93
Alignment explanation
Indices: 87358234--87358499 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
87358224 GGGATATTTG
* * * * * *
87358234 GGCATTCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
87358299 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
87358327 GGCATCTGAGCTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
87358392 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
87358420 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
87358485 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
87358500 CTTATGGGCG
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:87359834 original size:48 final size:48
Alignment explanation
Indices: 87359755--87359964 Score: 173
Period size: 48 Copynumber: 4.5 Consensus size: 48
87359745 GCATATACTG
* * * *
87359755 AACATGGTATAACATGGGATCGCATAACGATGCCAATGCCATGTCCCA
1 AACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCA
* * *
87359803 AACATGGTCTTACATGGGATCATATTTCGATGCCGAT---A-G-CCC-
1 AACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCA
* * ** * * * *
87359845 AGCTATGGTCTTA-ACGAAATTACACATCGATGCCAATGTCATGTCCTA
1 AAC-ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCA
* * * * *
87359893 GACATGGTCTTACATGGGATCTCATATTGCTACCAATGCCATGTCCCA
1 AACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCA
*
87359941 GACATGGTCTTACATGGGATCACA
1 AACATGGTCTTACATGGGATCACA
87359965 CATAACCCTA
Statistics
Matches: 123, Mismatches: 31, Indels: 16
0.72 0.18 0.09
Matches are distributed among these distances:
42 18 0.15
43 12 0.10
44 1 0.01
45 2 0.02
46 1 0.01
47 11 0.09
48 78 0.63
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
AACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCA
Found at i:87362392 original size:41 final size:41
Alignment explanation
Indices: 87362335--87362480 Score: 186
Period size: 41 Copynumber: 3.6 Consensus size: 41
87362325 GGTTTAAATT
87362335 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
*
87362376 CGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCATAA-C
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
* * * * * * * * *
87362416 CGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAATT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
*
87362457 CGAGCTTGGCCTCGAAGGGCTTTT
1 CGAGCTTGGTCTCGAAGGGCTTTT
87362481 TGAGTCAGCG
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 31 0.36
41 55 0.64
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
Found at i:87363539 original size:16 final size:17
Alignment explanation
Indices: 87363514--87363546 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87363504 GTAGAAATGG
87363514 AATTAAATAAT-GAATA
1 AATTAAATAATCGAATA
*
87363530 AATTATATAATCGAATA
1 AATTAAATAATCGAATA
87363547 TTGATGAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AATTAAATAATCGAATA
Found at i:87370678 original size:41 final size:41
Alignment explanation
Indices: 87370621--87370770 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
87370611 TCGGGGTTTA
*
87370621 AATCCTAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
87370662 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
87370703 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
87370743 AATCTGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
87370771 TGAGTCAGCG
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:87377151 original size:28 final size:28
Alignment explanation
Indices: 87377088--87377184 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
87377078 ATATTAAGTC
*
87377088 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
87377115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
87377143 CGCACACTTAGTGCTGA-ACAATTAAACC
1 CGCACACTTAGTGCT-ATAAAATCAAACT
87377171 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87377185 CAATCTCAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.33
28 41 0.65
29 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:87396617 original size:41 final size:41
Alignment explanation
Indices: 87396544--87396691 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 41
87396534 TCGGGGTTTA
*
87396544 AATCCTAGCTTGGTC-CGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
87396584 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
87396625 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
87396665 AAT-CGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
87396692 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 63 0.71
41 26 0.29
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:87396683 original size:40 final size:40
Alignment explanation
Indices: 87396550--87396729 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
87396540 TTTAAATCCT
87396550 AGCTTGGTC-CGAAGGGCTTTTGAGCCAGTGTCATAATCCG
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT-CG
* *
87396590 AGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCATAACCG
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCG
* * * * * * * *
87396630 AACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAATCG
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCG
* * * *
87396670 AGCTTGGTCTCGAAGGGCTTTTTGAGTCAGCGCTAAGAATCG
1 AGCTTGGTCTCGAAGGGC-TTTTGAGCCAGTG-TCATAATCG
* *
87396712 GGCTTGGTTTCGAAGGGC
1 AGCTTGGTCTCGAAGGGC
87396730 GTCTGTGACG
Statistics
Matches: 111, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 55 0.50
41 33 0.30
42 23 0.21
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCG
Found at i:87403053 original size:28 final size:28
Alignment explanation
Indices: 87402990--87403087 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
87402980 ATATTAAGTC
*
87402990 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
87403017 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
87403045 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
87403074 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87403088 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:87403082 original size:29 final size:28
Alignment explanation
Indices: 87402989--87403087 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
87402979 TATATTAAGT
* *
87402989 CCGCACACTCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
87403016 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
87403044 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
87403073 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
87403088 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:87409676 original size:40 final size:40
Alignment explanation
Indices: 87409617--87409828 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
87409607 CATTTGAATG
*
87409617 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
87409657 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
87409697 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
87409737 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
87409777 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
87409817 ATATCC-GGCTAA
1 ATATCCGGGCTAA
87409829 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:87411298 original size:47 final size:47
Alignment explanation
Indices: 87411179--87411305 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
87411169 AATCGATAAG
* * * *
87411179 TACCTATACCATGGTCCGAAACCAAATCAAGGTAACTTATGCCGGAG
1 TACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCATGCCGGAA
* * * * * *
87411226 TACCTATACCATAGCTCATAACCAAATAAAGGTAACTCCT-CTCTGAA
1 TACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCATGC-CGGAA
*
87411273 TACCTATACCATGGCCCGTAGCCAAATCAAGGT
1 TACCTATACCATGGCCCGTAACCAAATCAAGGT
87411306 CTTATTCGCA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCATGCCGGAA
Found at i:87417154 original size:18 final size:18
Alignment explanation
Indices: 87417131--87417178 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
87417121 ATTGAATCGG
* *
87417131 ATTTTTTAATTTTTTATT
1 ATTTTTTAAATTTTTAAT
87417149 ATTTTTTAAATTTTTAAT
1 ATTTTTTAAATTTTTAAT
*
87417167 AATTTTTAAATT
1 ATTTTTTAAATT
87417179 AGATCGATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTAAATTTTTAAT
Found at i:87418647 original size:25 final size:23
Alignment explanation
Indices: 87418600--87418646 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
87418590 TAACGAGTGT
87418600 TTGTTATTTTTTCCCTAATTATA
1 TTGTTATTTTTTCCCTAATTATA
*
87418623 TTGTTATTTTTTCTCTAATTATA
1 TTGTTATTTTTTCCCTAATTATA
87418646 T
1 T
87418647 AATTACATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.64
Consensus pattern (23 bp):
TTGTTATTTTTTCCCTAATTATA
Found at i:87421828 original size:16 final size:15
Alignment explanation
Indices: 87421803--87421840 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
87421793 GGCCCGAAAC
87421803 CAAA-AATAATAAAAT
1 CAAATAATAAT-AAAT
87421818 CAAATAATAATAAAT
1 CAAATAATAATAAAT
87421833 CTAAATAA
1 C-AAATAA
87421841 ACAGTCCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
CAAATAATAATAAAT
Found at i:87423196 original size:85 final size:86
Alignment explanation
Indices: 87423050--87423222 Score: 296
Period size: 85 Copynumber: 2.0 Consensus size: 86
87423040 TTATTTTGGA
*
87423050 TTCTTCCTAAATTATTTATTTTTACGAATGTTTTTTTTATTTTAGTCCCTTTTTTATTTATTTTA
1 TTCTTCCTAAATTATTTATTTTTACGAA--TTTTTTTTATTTTAGTCCCTTTATTATTTATTTTA
87423115 TTTGTTCTTACTTTAATCCTTTT
64 TTTGTTCTTACTTTAATCCTTTT
87423138 TTCTTCCTAAATTATTTATTTTTATC-AA-TTTTTTTATTTTAGTCCCTTTATTATTTATTTTAT
1 TTCTTCCTAAATTATTTATTTTTA-CGAATTTTTTTTATTTTAGTCCCTTTATTATTTATTTTAT
87423201 TTGTTCTTACTTTAATCCTTTT
65 TTGTTCTTACTTTAATCCTTTT
87423223 ATTTACTTAT
Statistics
Matches: 83, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
85 56 0.67
88 26 0.31
89 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (86 bp):
TTCTTCCTAAATTATTTATTTTTACGAATTTTTTTTATTTTAGTCCCTTTATTATTTATTTTATT
TGTTCTTACTTTAATCCTTTT
Found at i:87423241 original size:16 final size:16
Alignment explanation
Indices: 87423220--87423259 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
87423210 CTTTAATCCT
*
87423220 TTTATTTACTT-ATTTA
1 TTTATTCACTTGA-TTA
87423236 TTTATTCACTTGATTA
1 TTTATTCACTTGATTA
87423252 TTTATTCA
1 TTTATTCA
87423260 TTATTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTATTCACTTGATTA
Found at i:87423407 original size:3 final size:3
Alignment explanation
Indices: 87423399--87423436 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
87423389 GTTTGTGCCT
*
87423399 TTA TTA TTA TTA TCA TTA TTA TTA TT- TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
87423437 CATCTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:87423684 original size:3 final size:3
Alignment explanation
Indices: 87423676--87423724 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
87423666 TTTACACATT
* *
87423676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87423724 T
1 T
87423725 ATTTTTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:87425191 original size:18 final size:18
Alignment explanation
Indices: 87425168--87425203 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
87425158 CGTGATGTCT
87425168 TCACCTCCGTATAGGATA
1 TCACCTCCGTATAGGATA
87425186 TCACCTCCGTATAGGATA
1 TCACCTCCGTATAGGATA
87425204 GTGGATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
TCACCTCCGTATAGGATA
Found at i:87427463 original size:25 final size:25
Alignment explanation
Indices: 87427430--87427496 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
87427420 CCTCTTTTTG
87427430 CATT-CATCCCATGCATTCGCATTA
1 CATTGCATCCCATGCATTCGCATTA
87427454 CATTGCATCCCATGCATTCGCATTA
1 CATTGCATCCCATGCATTCGCATTA
**
87427479 CATTGCATCATATGCATT
1 CATTGCATCCCATGCATT
87427497 AGATTTCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (25 bp):
CATTGCATCCCATGCATTCGCATTA
Found at i:87429000 original size:20 final size:21
Alignment explanation
Indices: 87428975--87429013 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87428965 CCCTTGAAAC
87428975 AGGGC-ACACGCCCGTGTGAA
1 AGGGCAACACGCCCGTGTGAA
87428995 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
87429014 GCCATTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGAA
Found at i:87441635 original size:81 final size:80
Alignment explanation
Indices: 87441528--87441686 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 80
87441518 AATATTCTTT
* * * *
87441528 TATTCTTTTCATTTCATTCATAATCATACTATACAGATAATTATTCTTAGATTCTTTTTTTCTTT
1 TATTCTTTTCATTTCATTCATAATCATACCATACAAATAACTATTCTTAGATTCTTTTGTTCTTT
87441593 GGA-CTTTCCTTCAAA
66 GGATC-TTCCTTCAAA
* *
87441608 TATTCTTTT-ATTCTTCATTCATGATCATACCATATAAATAACTATTCTTAGATTCTTTTGTTCT
1 TATTCTTTTCA-T-TTCATTCATAATCATACCATACAAATAACTATTCTTAGATTCTTTTGTTCT
87441672 TTGGATCTTCCTTCA
64 TTGGATCTTCCTTCA
87441687 TCCCAATAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
79 1 0.01
80 10 0.14
81 58 0.83
82 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (80 bp):
TATTCTTTTCATTTCATTCATAATCATACCATACAAATAACTATTCTTAGATTCTTTTGTTCTTT
GGATCTTCCTTCAAA
Found at i:87445346 original size:95 final size:95
Alignment explanation
Indices: 87445237--87445418 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 95
87445227 TTTAAGCTAC
* * *
87445237 AAGTTACAAATCCTATACCCCTAAAGTTGCAGTCGGACGGATTAAAGTTATTATGGC-AAGCCTT
1 AAGTTACAAATCCTATACCCCTAAAGTTGCAGTAGGACGGATTAAAGTTATCATAGCGAA-CCTT
87445301 ATCTCCCTGAAATTGCAGTGGAGCAAGTCAA
65 ATCTCCCTGAAATTGCAGTGGAGCAAGTCAA
* *
87445332 AAGTTACAAATCCTATACCCCTAAAGTTGCAGTAGGATGGATTGAAGTTATCATAGCGAACCTTA
1 AAGTTACAAATCCTATACCCCTAAAGTTGCAGTAGGACGGATTAAAGTTATCATAGCGAACCTTA
*
87445397 TCTCCCTGAAGTTGCAGTGGAG
66 TCTCCCTGAAATTGCAGTGGAG
87445419 TAGATTAAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 78 0.98
96 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (95 bp):
AAGTTACAAATCCTATACCCCTAAAGTTGCAGTAGGACGGATTAAAGTTATCATAGCGAACCTTA
TCTCCCTGAAATTGCAGTGGAGCAAGTCAA
Found at i:87445453 original size:44 final size:44
Alignment explanation
Indices: 87445388--87445650 Score: 224
Period size: 44 Copynumber: 6.0 Consensus size: 44
87445378 GTTATCATAG
* *
87445388 CGAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * * * **
87445432 CGAACCTTATCTCACTAAAGTTGCAGTGAAGCAGGTTGAAGTTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * *
87445476 CAAATCTCAACTCCCTGAAGTTGCAGTGGAGCAGATTGTAAATG--G
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TAAA-GCCA
* * * ** *
87445521 CTAATCTTATCTCCCTAAAGTTACAACGAAGCAGATTAAAGCCA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * ** * *
87445565 TGAATCTTATCTCTCTGAAGTTGCAGTGGAGTGGATTATAGCTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * *
87445609 CAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATCAAAGC
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
87445651 GACAATTCCT
Statistics
Matches: 167, Mismatches: 47, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 130 0.78
45 28 0.17
46 3 0.02
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
Found at i:87445563 original size:133 final size:133
Alignment explanation
Indices: 87445393--87445644 Score: 328
Period size: 133 Copynumber: 1.9 Consensus size: 133
87445383 CATAGCGAAC
* * ** * *
87445393 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACGAACCTTATCTCACTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTACAACGAAGCAGATTAAAGCCACGAACCTTATCTCACTAAAGTTGCAG
* *
87445458 TGAAGCAGG-TTGA-AGTTACAAATCTCAACTCCCTGAAGTTGCAGTGGAGCAGATTGTAAATGG
66 TGAAG-AGGATT-ATAGCTACAAATCTCAACTCCATGAAGTTGCAGTGGAGCAGATTGTAAATGG
87445521 CTAAT
129 CTAAT
* * * *
87445526 CTTATCTCCCTAAAGTTACAACGAAGCAGATTAAAGCCATGAATCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTACAACGAAGCAGATTAAAGCCACGAACCTTATCTCACTAAAGTTGCAG
* * * *
87445591 TGGAGTGGATTATAGCTACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGAT
66 TGAAGAGGATTATAGCTACAAATCTCAACTCCATGAAGTTGCAGTGGAGCAGAT
87445645 CAAAGCGACA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
132 3 0.03
133 98 0.97
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTACAACGAAGCAGATTAAAGCCACGAACCTTATCTCACTAAAGTTGCAG
TGAAGAGGATTATAGCTACAAATCTCAACTCCATGAAGTTGCAGTGGAGCAGATTGTAAATGGCT
AAT
Found at i:87445869 original size:13 final size:13
Alignment explanation
Indices: 87445851--87445882 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
87445841 CAGAAACCAA
87445851 AAATAATAAAACC
1 AAATAATAAAACC
*
87445864 AAATAATAAATCC
1 AAATAATAAAACC
87445877 AAATAA
1 AAATAA
87445883 AAAGTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAATAAAACC
Found at i:87447170 original size:16 final size:16
Alignment explanation
Indices: 87447149--87447188 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
87447139 CTTTAATCCT
*
87447149 TTTATTTACTT-ATTTA
1 TTTATTCACTTGA-TTA
87447165 TTTATTCACTTGATTA
1 TTTATTCACTTGATTA
87447181 TTTATTCA
1 TTTATTCA
87447189 TTATTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTATTCACTTGATTA
Found at i:87447212 original size:8 final size:8
Alignment explanation
Indices: 87447158--87447245 Score: 62
Period size: 8 Copynumber: 11.6 Consensus size: 8
87447148 TTTTATTTAC
*
87447158 TTATTTAT
1 TTATTCAT
87447166 TTATTCACT
1 TTATTCA-T
*
87447175 TGATT-AT
1 TTATTCAT
87447182 TTATTCA-
1 TTATTCAT
87447189 TTATTC-T
1 TTATTCAT
87447196 TTA--CAT
1 TTATTCAT
87447202 TTATTCAT
1 TTATTCAT
**
87447210 TTATTTGT
1 TTATTCAT
*
87447218 TTATTCAC
1 TTATTCAT
*
87447226 ATA-TCAT
1 TTATTCAT
*
87447233 TCATTCAT
1 TTATTCAT
87447241 TTATT
1 TTATT
87447246 TTTCATCATA
Statistics
Matches: 60, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
5 1 0.02
6 4 0.07
7 18 0.30
8 32 0.53
9 5 0.08
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.60
Consensus pattern (8 bp):
TTATTCAT
Found at i:87447237 original size:27 final size:27
Alignment explanation
Indices: 87447204--87447255 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
87447194 CTTTACATTT
* *
87447204 ATTCATTTATTTGTTTATTCA-CATATC
1 ATTCATTCATTTATTT-TTCATCATATC
87447231 ATTCATTCATTTATTTTTCATCATA
1 ATTCATTCATTTATTTTTCATCATA
87447256 CCCTGATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTCATTCATTTATTTTTCATCATATC
Found at i:87447351 original size:3 final size:3
Alignment explanation
Indices: 87447345--87447468 Score: 70
Period size: 3 Copynumber: 38.7 Consensus size: 3
87447335 CATCATCATC
87447345 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATCT ATT AATCT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -AT-T A-TT ATT
* * * ** ** *
87447394 ACT CTT TTT ATGT ATAT ATAT AAA AAG ATT -TAG ATT ATT ATAT ATT
1 ATT ATT ATT AT-T AT-T AT-T ATT ATT ATT AT-T ATT ATT AT-T ATT
* *
87447440 GTT ATT ATT ATT ATT ATT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
87447469 CAATAGTTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
2 1 0.01
3 72 0.75
4 21 0.22
5 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:87449519 original size:13 final size:13
Alignment explanation
Indices: 87449501--87449539 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
87449491 AAGTAATCGT
87449501 ACACGGGCGTGTC
1 ACACGGGCGTGTC
87449514 ACACGGGCGTGTC
1 ACACGGGCGTGTC
*
87449527 ACATGGGCGTGTC
1 ACACGGGCGTGTC
87449540 TTTGCCGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.18
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:87453529 original size:21 final size:21
Alignment explanation
Indices: 87453503--87453585 Score: 139
Period size: 21 Copynumber: 4.0 Consensus size: 21
87453493 CAAATCTGCC
* *
87453503 AAATGAACACGGGCATGTAAA
1 AAATGAACACGGGCGTGTCAA
87453524 AAATGAACACGGGCGTGTCAA
1 AAATGAACACGGGCGTGTCAA
*
87453545 AAATGAACATGGGCGTGTCAA
1 AAATGAACACGGGCGTGTCAA
87453566 AAATGAACACGGGCGTGTCA
1 AAATGAACACGGGCGTGTCA
87453586 CACGCCCGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.16
Consensus pattern (21 bp):
AAATGAACACGGGCGTGTCAA
Found at i:87455863 original size:21 final size:20
Alignment explanation
Indices: 87455826--87455867 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
87455816 TACTCGAAGA
*
87455826 AAGCTGATTGATCCATCTAAG
1 AAGCTGATTCATCCATC-AAG
87455847 AAGCTAGATTCAT-CATCAAG
1 AAGCT-GATTCATCCATCAAG
87455867 A
1 A
87455868 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (20 bp):
AAGCTGATTCATCCATCAAG
Found at i:87462262 original size:18 final size:18
Alignment explanation
Indices: 87462220--87462262 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87462210 GCCCATTCCG
* *
87462220 AAGTATATATATATACAT
1 AAGTATGTATATACACAT
87462238 ATA-TATGTATATACACAT
1 A-AGTATGTATATACACAT
87462256 AAGTATG
1 AAGTATG
87462263 CCCATTCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:87462783 original size:27 final size:28
Alignment explanation
Indices: 87462699--87462796 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
87462689 CATGAGATTG
* * *
87462699 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
87462728 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87462756 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87462783 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
87462797 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.37
28 20 0.32
29 19 0.31
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87462807 original size:27 final size:27
Alignment explanation
Indices: 87462727--87462809 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
87462717 TAAATTGTTC
* * *
87462727 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGGGA-CTTGAATATAT
* * *
87462755 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGGGACTTGAATATAT
*
87462782 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTG-GGACTTGAATATAT
87462809 A
1 A
87462810 TTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGGGACTTGAATATAT
Found at i:87470492 original size:18 final size:18
Alignment explanation
Indices: 87470450--87470492 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87470440 GCCCATTCCG
* *
87470450 AAGTATATATATATACAT
1 AAGTATGTATATACACAT
87470468 ATA-TATGTATATACACAT
1 A-AGTATGTATATACACAT
87470486 AAGTATG
1 AAGTATG
87470493 CCCATTCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:87471012 original size:27 final size:28
Alignment explanation
Indices: 87470928--87471024 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
87470918 CATGAGATTG
* * *
87470928 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
87470957 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87470985 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87471012 GCA-TGAGTGTGCG
1 GCACTAAGTGTGCG
87471025 GACTTAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
26 9 0.14
27 14 0.22
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87471035 original size:26 final size:27
Alignment explanation
Indices: 87470956--87471037 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
87470946 TAAATTGTTC
* *
87470956 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
87470984 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
87471011 AGCA-TGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
87471037 A
1 A
87471038 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.31
27 18 0.37
28 16 0.33
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:87488106 original size:27 final size:27
Alignment explanation
Indices: 87488075--87488252 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
87488065 TAAATTGTAC
87488075 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
87488102 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
87488128 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
87488156 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
87488184 AGCACTAAGTGTGCGATTTTATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
87488211 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
87488238 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87488253 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 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:87488216 original size:82 final size:81
Alignment explanation
Indices: 87488076--87488231 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
87488066 AAATTGTACA
* *
87488076 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
87488141 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
87488157 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
87488221 GTGCGAGTTGA
64 GTGCGAATTGA
87488232 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:87488243 original size:82 final size:81
Alignment explanation
Indices: 87488072--87488252 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
87488062 GATTAAATTG
* *
87488072 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
87488137 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
87488153 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
87488217 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
87488235 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
87488253 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:87489961 original size:42 final size:42
Alignment explanation
Indices: 87489911--87490009 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 42
87489901 CCTACACAGA
* *
87489911 GTCTTACACGAAAT-CAAATACGATACCTACATCCCATACATG
1 GTCTTACACGAAATACAAAT-CGATACCAACATCCCAAACATG
* * **
87489953 GTCTTACACGTAAATACCAAATCGATGCCAACGTCCCAAATGTG
1 GTCTTACACG-AAATA-CAAATCGATACCAACATCCCAAACATG
87489997 GTCTTACACGAAA
1 GTCTTACACGAAA
87490010 AAACATATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 10 0.21
43 7 0.15
44 26 0.54
45 5 0.10
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (42 bp):
GTCTTACACGAAATACAAATCGATACCAACATCCCAAACATG
Found at i:87491042 original size:21 final size:21
Alignment explanation
Indices: 87491004--87491045 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87490994 TTTTAATAAG
*
87491004 ACAAATCAATAGACACTTTTA
1 ACAAATCAATAGAAACTTTTA
87491025 ACAAA-CAATAGAAAACTTTTA
1 ACAAATCAATAG-AAACTTTTA
87491046 TATTTTACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (21 bp):
ACAAATCAATAGAAACTTTTA
Found at i:87492850 original size:13 final size:13
Alignment explanation
Indices: 87492832--87492856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87492822 AAACTGTACT
87492832 TTTAAAAACATAC
1 TTTAAAAACATAC
87492845 TTTAAAAACATA
1 TTTAAAAACATA
87492857 GGCTTGCATA
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAACATAC
Found at i:87493244 original size:13 final size:13
Alignment explanation
Indices: 87493206--87493251 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
87493196 GAGCATGGAT
* *
87493206 AAAACATATCTTT
1 AAAACATAACTTG
*
87493219 AAAACATAGCTTG
1 AAAACATAACTTG
87493232 AAAACATAACTTG
1 AAAACATAACTTG
*
87493245 GAAACAT
1 AAAACAT
87493252 GTTTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:87493446 original size:326 final size:328
Alignment explanation
Indices: 87492851--87493510 Score: 1029
Period size: 326 Copynumber: 2.0 Consensus size: 328
87492841 ATACTTTAAA
*
87492851 AACATAGGCTTGCATAGGAGCACGAATAAAACATATCTTTAGAACATAGCTTGAAAACATAACTT
1 AACATAGGCTTGCATAGGAGCACGAATAAAACATATCTTTAAAACATAGCTTGAAAACATAACTT
* * * * * *
87492916 GGAAACATGTTTTAAACCAGAGTGTCAGATATTAAAAGATAGAGATTGTAGAAAAATCTTACTCT
66 GGAAACATGTTTTAAAACAGAGTGTCAGAGATTAAAAGAAAAAGATTGTAAAAAAAGCTTACTCT
* *
87492981 TGGAACTTTAGTTTAAAAATAAAATTTTTGGAAAACATAACAGTTTGCACACAAGTTACGAACTC
131 TGGAACTTTAGTTTAAAAACAAAATTTTTGGAAAACATAACAGTTCGCACACAAGTTACGAACTC
* * *
87493046 TGAGCATTCATACTGAAAACGTGATAGTTTAGCACACTTCTGACCATTATTAACCACTCACCAAG
196 TGAGCATTCATACTGAAAACGTAATAGTTTAGCACACTTATGACCATTATTAACCACTCACCAAA
* * *
87493111 AATCTTGAGAATTTAAATGAGTTTAGGTTTGGCTTTATCCTTGCTAGT-AGTTGGTTCGACTAGC
261 AAGCTTGAGAATTTAAATGAGTTTAGCTTTGGCTTTATCCTTACT-GTCAGTTGGTTCGACTAGC
87493175 TTGC
325 TTGC
* *
87493179 AACATAGGCTTGCATAGGAGCATGGATAAAACATATCTTTAAAACATAGCTTGAAAACATAACTT
1 AACATAGGCTTGCATAGGAGCACGAATAAAACATATCTTTAAAACATAGCTTGAAAACATAACTT
* * *
87493244 GGAAACATGTTTTAAAATAGAGTGTTAGAGCTTAAAA-AAAAAGATTGTAAAAAAAGCTTACTCT
66 GGAAACATGTTTTAAAACAGAGTGTCAGAGATTAAAAGAAAAAGATTGTAAAAAAAGCTTACTCT
* * * *
87493308 TGGAACTTTAGTTTAAAAACAAGA-TTTTGGAAAACATAATAGTTCGCACACAAGTTATGAACTT
131 TGGAACTTTAGTTTAAAAACAAAATTTTTGGAAAACATAACAGTTCGCACACAAGTTACGAACTC
* * * *
87493372 TGAGCATTCATACTGAAAACGTAATAGTTTATCACACTTATGGCTATTCTTAACCACTCACCAAA
196 TGAGCATTCATACTGAAAACGTAATAGTTTAGCACACTTATGACCATTATTAACCACTCACCAAA
*
87493437 AAGCTTGAGAATTTAAATGAGTTTAGCTTTGGCTTTATCCTTACTGTCAGTTGGTTCGACTAGTT
261 AAGCTTGAGAATTTAAATGAGTTTAGCTTTGGCTTTATCCTTACTGTCAGTTGGTTCGACTAGCT
87493502 TGC
326 TGC
87493505 AACATA
1 AACATA
87493511 CATAAACACA
Statistics
Matches: 302, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
325 2 0.01
326 161 0.53
327 45 0.15
328 94 0.31
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (328 bp):
AACATAGGCTTGCATAGGAGCACGAATAAAACATATCTTTAAAACATAGCTTGAAAACATAACTT
GGAAACATGTTTTAAAACAGAGTGTCAGAGATTAAAAGAAAAAGATTGTAAAAAAAGCTTACTCT
TGGAACTTTAGTTTAAAAACAAAATTTTTGGAAAACATAACAGTTCGCACACAAGTTACGAACTC
TGAGCATTCATACTGAAAACGTAATAGTTTAGCACACTTATGACCATTATTAACCACTCACCAAA
AAGCTTGAGAATTTAAATGAGTTTAGCTTTGGCTTTATCCTTACTGTCAGTTGGTTCGACTAGCT
TGC
Found at i:87493883 original size:27 final size:27
Alignment explanation
Indices: 87493837--87493889 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
87493827 TGACTTGACT
*
87493837 TTGACTGGCGAACCCTAGTTC-ACAAC
1 TTGACTGGCGAACCCCAGTTCGACAAC
*
87493863 TTGACTGGTGAACCCCCAGTTCGACAA
1 TTGACTGGCGAA-CCCCAGTTCGACAA
87493890 ACCAACTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 8 0.35
28 4 0.17
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (27 bp):
TTGACTGGCGAACCCCAGTTCGACAAC
Found at i:87493897 original size:28 final size:27
Alignment explanation
Indices: 87493866--87493931 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
87493856 TCACAACTTG
*
87493866 ACTGGTGAACCCCCAGTTCGACAAACCA
1 ACTGGTGAACCCCCACTT-GACAAACCA
* *
87493894 ACTGGTGAA-CCCTACTTGCCAAACCA
1 ACTGGTGAACCCCCACTTGACAAACCA
*
87493920 ACTGGTAAACCC
1 ACTGGTGAACCC
87493932 AACTTGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 16 0.48
27 8 0.24
28 9 0.27
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.17
Consensus pattern (27 bp):
ACTGGTGAACCCCCACTTGACAAACCA
Found at i:87493923 original size:26 final size:26
Alignment explanation
Indices: 87493887--87493937 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
87493877 CCCAGTTCGA
* *
87493887 CAAACCAACTGGTGAACCCTACTTGC
1 CAAACCAACTGGTAAACCCAACTTGC
87493913 CAAACCAACTGGTAAACCCAACTTG
1 CAAACCAACTGGTAAACCCAACTTG
87493938 TAATAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (26 bp):
CAAACCAACTGGTAAACCCAACTTGC
Found at i:87509043 original size:7 final size:6
Alignment explanation
Indices: 87509012--87509041 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
87509002 TTTAAACTAC
87509012 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
87509042 TAGCAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:87519277 original size:40 final size:40
Alignment explanation
Indices: 87519233--87519313 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
87519223 TTCTTACCAC
87519233 AAGCTCATCATATTTCATGTCATTCACATGAGTTCGATGT
1 AAGCTCATCATATTTCATGTCATTCACATGAGTTCGATGT
87519273 AAGCTCATCATATTTCATGTCATTCACATGAGTTCGATGT
1 AAGCTCATCATATTTCATGTCATTCACATGAGTTCGATGT
87519313 A
1 A
87519314 CATACCTGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (40 bp):
AAGCTCATCATATTTCATGTCATTCACATGAGTTCGATGT
Found at i:87521632 original size:27 final size:26
Alignment explanation
Indices: 87521600--87521711 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
87521590 ATGGCTACCG
* *
87521600 GAACAGATATTGTGACAGAGTCACTA
1 GAACAGATATTGTGGCAGAGCCACTA
*
87521626 GATACAGATATTGTGGCAGAGCCACCA
1 GA-ACAGATATTGTGGCAGAGCCACTA
*
87521653 GAACAGATATCTGTGGCATAGCCACTA
1 GAACAGATAT-TGTGGCAGAGCCACTA
* *
87521680 GAAACAGATAATTGTGGCATAGCCACCA
1 G-AACAGAT-ATTGTGGCAGAGCCACTA
87521708 GAAC
1 GAAC
87521712 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.13
27 41 0.54
28 23 0.30
29 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GAACAGATATTGTGGCAGAGCCACTA
Found at i:87521704 original size:55 final size:53
Alignment explanation
Indices: 87521600--87521711 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
87521590 ATGGCTACCG
* *
87521600 GAACAGATATTGTGACAGAGTCACTAGATACAGATATTGTGGCAGAGCCACCA
1 GAACAGATATTGTGACAGAGCCACTAGAAACAGATATTGTGGCAGAGCCACCA
* * *
87521653 GAACAGATATCTGTGGCATAGCCACTAGAAACAGATAATTGTGGCATAGCCACCA
1 GAACAGATAT-TGTGACAGAGCCACTAGAAACAGAT-ATTGTGGCAGAGCCACCA
87521708 GAAC
1 GAAC
87521712 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 10 0.19
54 21 0.40
55 21 0.40
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (53 bp):
GAACAGATATTGTGACAGAGCCACTAGAAACAGATATTGTGGCAGAGCCACCA
Found at i:87521875 original size:27 final size:28
Alignment explanation
Indices: 87521813--87521878 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
87521803 AAAAATTAAC
* *
87521813 CTTAGGGGTATAATGGTCATTTTGCATA
1 CTTAGGGGTATAATGGTAATTGTGCATA
87521841 CTTAGGGGTATAATGGTAATTGT-CATA
1 CTTAGGGGTATAATGGTAATTGTGCATA
87521868 CTTAGGGGTAT
1 CTTAGGGGTAT
87521879 TTTAGTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (28 bp):
CTTAGGGGTATAATGGTAATTGTGCATA
Found at i:87528453 original size:47 final size:47
Alignment explanation
Indices: 87528399--87528894 Score: 771
Period size: 47 Copynumber: 10.6 Consensus size: 47
87528389 TAATTGAATA
*
87528399 AAAGTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
87528446 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
87528493 AATGTGAATAGGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
87528540 AAAGTGAACGTGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
87528587 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
87528634 AAAGTGAACGTGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
87528681 AAAGTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
87528728 -AAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
87528774 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * *
87528821 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* **
87528868 AATGTGAA-AGTGTATAAATGTGATAAG
1 AAAGTGAACA-TGTATATGTGTGATAAG
87528895 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 46 0.11
47 371 0.89
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:87528491 original size:22 final size:22
Alignment explanation
Indices: 87528464--87528538 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
87528454 CATGTATATG
87528464 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ** *
87528486 TGTGATGAATG-TGAATAGGTGTATG
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
87528511 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
87528533 TGTGAT
1 TGTGAT
87528539 GAAAGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:87528750 original size:24 final size:24
Alignment explanation
Indices: 87528674--87528750 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 24
87528664 GAATGGCCAA
87528674 TGTGATGAAAGTGAACATGTATATG
1 TGTGATG-AAGTGAACATGTATATG
* * *** *
87528699 TGTGATAAAGCCG-A-ATGGCCA-A
1 TGTGATGAAG-TGAACATGTATATG
87528721 TGTGATGAAGTGAACATGTATATG
1 TGTGATGAAGTGAACATGTATATG
87528745 TGTGAT
1 TGTGAT
87528751 AAGGCCGAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 9
0.63 0.21 0.16
Matches are distributed among these distances:
21 1 0.03
22 10 0.28
23 8 0.22
24 10 0.28
25 7 0.19
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (24 bp):
TGTGATGAAGTGAACATGTATATG
Found at i:87529069 original size:37 final size:37
Alignment explanation
Indices: 87529013--87529092 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
87529003 CCGGGCTCTA
* * *
87529013 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
87529050 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
87529087 AAGACT
1 AAGACT
87529093 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:87535837 original size:50 final size:50
Alignment explanation
Indices: 87535629--87535989 Score: 338
Period size: 50 Copynumber: 7.5 Consensus size: 50
87535619 TGATATGTGC
* *** * *
87535629 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC--AT-TTTGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACACTGATAGACGAGA
* * *
87535677 GCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCA-TG-GAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
* * *
87535723 GCTAGTGTAAGACTATGT-T-GGACATGGCATCGGCA-TG-GAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
* * * *
87535769 GCTAGTGTAAGACTATGTCTGGGACATGACATCGACACTAATAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
* * * *
87535819 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
* * *
87535869 GCTAGTGTAACACCATGTCTGGGACATGGCATTG-C-CTCGATATACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACT-GATAGACGAGA
* * ** * *
87535918 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGAT-G-GGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
87535966 GCTAGTGTAAGACCATGTCTGGGA
1 GCTAGTGTAAGACCATGTCTGGGA
87535990 TATGATGTCG
Statistics
Matches: 265, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
45 3 0.01
46 76 0.29
47 2 0.01
48 57 0.22
49 40 0.15
50 86 0.32
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGACGAGA
Found at i:87535887 original size:100 final size:96
Alignment explanation
Indices: 87535715--87535994 Score: 269
Period size: 99 Copynumber: 2.9 Consensus size: 96
87535705 ATCGGCATGG
* ** *
87535715 AGACGAGAGCTAGTGTAAGACTATGTT-GGACATGGCATCGGCATGGAGACGAGAGCTAGTGTAA
1 AGACGAGAGCTAGTGTAAGACCATGTTGGGACATGGCATCAACACGGAGACGAGAGCTAGTGTAA
* *
87535779 GACTATGTCTGGGACATGACATCGACACT-AAT
66 CACCATGTCTGGGACATGACATCG-C-CTCAAT
* * * *
87535811 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGAGCTAGTG
1 AGACGAGAGCTAGTGTAAGACCATGT-TGGGACATGGCATCAACA-CG-GAGACGAGAGCTAGTG
* * *
87535876 TAACACCATGTCTGGGACATGGCATTGCCTCGAT
63 TAACACCATGTCTGGGACATGACATCGCCTCAAT
* * * *** * *
87535910 ATACGAGAGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGATG-GGTGAGCTAGTGT
1 AGACGAGAGCTAGTGTAAGACCATG-TTGGGACATGGCATCAACACGGA-GACGAGAGCTAGTGT
* *
87535974 AAGACCATGTCTGGGATATGA
64 AACACCATGTCTGGGACATGA
87535995 TGTCGGCACC
Statistics
Matches: 150, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
96 24 0.16
97 31 0.21
98 16 0.11
99 41 0.27
100 38 0.25
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (96 bp):
AGACGAGAGCTAGTGTAAGACCATGTTGGGACATGGCATCAACACGGAGACGAGAGCTAGTGTAA
CACCATGTCTGGGACATGACATCGCCTCAAT
Found at i:87535943 original size:99 final size:100
Alignment explanation
Indices: 87535715--87535950 Score: 277
Period size: 99 Copynumber: 2.4 Consensus size: 100
87535705 ATCGGCATGG
* *** * * *
87535715 AGACGAGAGCTAGTGTAAGACTATGT-T-GGACATGGCATCGGCA-TG-GAGACGAGAGCTAGTG
1 AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGAGCTAGTG
* *
87535776 TAAGACTATGTCTGGGACATGACATCGACACTAAT
66 TAACACCATGTCTGGGACATGACATCGACACTAAT
*
87535811 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGAGCTAGTG
1 AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGAGCTAGTG
* * *
87535876 TAACACCATGTCTGGGACATGGCATTG-C-CTCGAT
66 TAACACCATGTCTGGGACATGACATCGACACT-AAT
* * *
87535910 ATACGAGAGTTAGTGTAAGACCATGTTTGGGACATGGCATC
1 AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
87535951 GACTTTGATG
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
96 24 0.20
97 1 0.01
98 15 0.13
99 41 0.35
100 37 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (100 bp):
AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAATACCGATAGATGAGAGCTAGTG
TAACACCATGTCTGGGACATGACATCGACACTAAT
Found at i:87537175 original size:31 final size:31
Alignment explanation
Indices: 87537137--87537198 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
87537127 ATTTTCATAC
87537137 GGTCTTACTAAGCCATAAAGCTTACTCTCTT
1 GGTCTTACTAAGCCATAAAGCTTACTCTCTT
87537168 GGTCTTACTAAGCCATAAAGCTTACTCTCTT
1 GGTCTTACTAAGCCATAAAGCTTACTCTCTT
87537199 ACTTTCCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (31 bp):
GGTCTTACTAAGCCATAAAGCTTACTCTCTT
Found at i:87545925 original size:20 final size:20
Alignment explanation
Indices: 87545897--87545936 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
87545887 ATACAACTTA
*
87545897 ACCATTATGCCATTTGGAAC
1 ACCAATATGCCATTTGGAAC
87545917 ACCAATATGCCATTTGGAAC
1 ACCAATATGCCATTTGGAAC
87545937 CATCACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (20 bp):
ACCAATATGCCATTTGGAAC
Found at i:87547161 original size:20 final size:20
Alignment explanation
Indices: 87547114--87547177 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
87547104 CACTGGAGTG
* *
87547114 CAAATAGAGACACTAAAGTC
1 CAAATAGAGGCATTAAAGTC
*
87547134 TAAATAGAGGCATTAAAGTC
1 CAAATAGAGGCATTAAAGTC
* * *
87547154 CAAGTAGAGGCATTGAAGTG
1 CAAATAGAGGCATTAAAGTC
87547174 CAAA
1 CAAA
87547178 CTCGTAGAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (20 bp):
CAAATAGAGGCATTAAAGTC
Found at i:87551849 original size:22 final size:23
Alignment explanation
Indices: 87551807--87551849 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
87551797 TAGTAATGGC
* *
87551807 TTATTTTGGTATGATTAAGTAGG
1 TTATTATGATATGATTAAGTAGG
87551830 TTATTATGATATG-TTAAGTA
1 TTATTATGATATGATTAAGTA
87551850 TGTGTGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (23 bp):
TTATTATGATATGATTAAGTAGG
Found at i:87555945 original size:46 final size:46
Alignment explanation
Indices: 87555895--87556070 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87555885 TGGTTGAGCA
87555895 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87555941 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87555986 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87556034 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87556071 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87556051 original size:93 final size:93
Alignment explanation
Indices: 87555892--87556063 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87555882 GGATGGTTGA
* *
87555892 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87555957 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
87555985 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87556050 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87556064 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87563521 original size:46 final size:46
Alignment explanation
Indices: 87563471--87563646 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
87563461 TGGTTGAGCA
87563471 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87563517 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
87563562 CATCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87563610 CCCGAGCTCGTTGAGTTGAGCCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87563647 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87563627 original size:93 final size:93
Alignment explanation
Indices: 87563468--87563639 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
87563458 GGATGGTTGA
* *
87563468 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
87563533 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* *
87563561 GCATCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87563626 TGAGCCCGAGTTCG
66 TGAGCCCGAGTTCG
87563640 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:87567375 original size:20 final size:20
Alignment explanation
Indices: 87567349--87567396 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
87567339 TTCCATATTT
*
87567349 CAGAGGCACCGTAATGCTTA
1 CAGAGGCACCATAATGCTTA
* * *
87567369 TAGAGGCACTATAGTGCTTA
1 CAGAGGCACCATAATGCTTA
87567389 CAGAGGCA
1 CAGAGGCA
87567397 TGAATCTGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (20 bp):
CAGAGGCACCATAATGCTTA
Found at i:87567457 original size:20 final size:20
Alignment explanation
Indices: 87567419--87567498 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
87567409 TAAGGTTACT
* *
87567419 GAAGTAGAAACAAGAGTACC
1 GAAGTACAAACAGGAGTACC
* * *
87567439 AAACTACAAACAGGTGTACC
1 GAAGTACAAACAGGAGTACC
**
87567459 GAAGTACAAGTAGGAGTACC
1 GAAGTACAAACAGGAGTACC
87567479 GAAGTACAAACAGGAGTACC
1 GAAGTACAAACAGGAGTACC
87567499 TGTAACAGCT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
GAAGTACAAACAGGAGTACC
Found at i:87569526 original size:53 final size:53
Alignment explanation
Indices: 87569444--87569556 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
87569434 AAGTCAATGA
* * * * *
87569444 GTTACATGGCTTAGCACACGGCCTAACACATGGGCGTGTGTGGCACTCATAGT
1 GTTACACGACTTAGCACACGACCTAACACACGGGCGTGTGTAGCACTCATAGT
* * *
87569497 GTTACACGACTTAGCACATGACCTGACACACGGGTGTGTGTAGCACTCATAGT
1 GTTACACGACTTAGCACACGACCTAACACACGGGCGTGTGTAGCACTCATAGT
87569550 GTTACAC
1 GTTACAC
87569557 AACCTGGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (53 bp):
GTTACACGACTTAGCACACGACCTAACACACGGGCGTGTGTAGCACTCATAGT
Found at i:87573912 original size:56 final size:56
Alignment explanation
Indices: 87573846--87573970 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 56
87573836 GAGATTGGCG
* *
87573846 CTAAGAGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAGATTGACTATGTAGCA
* * * *
87573902 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCA
*
87573958 CTAGGTGTGCGAG
1 CTAAGTGTGCGAG
87573971 CTGATTATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
55 16 0.27
56 41 0.68
57 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCA
Found at i:87573928 original size:28 final size:28
Alignment explanation
Indices: 87573871--87573995 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
87573861 TAAATTGTGC
*
87573871 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
87573898 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
87573926 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
87573954 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
87573981 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87573996 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.41
28 53 0.59
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:87573935 original size:55 final size:55
Alignment explanation
Indices: 87573871--87573995 Score: 171
Period size: 55 Copynumber: 2.3 Consensus size: 55
87573861 TAAATTGTGC
* *
87573871 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAG-CTGACTATAT
* * * *
87573926 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGCTGACTATAT
*
87573981 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87573996 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 37 0.60
56 25 0.40
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGCTGACTATAT
Found at i:87582069 original size:28 final size:28
Alignment explanation
Indices: 87582012--87582164 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
87582002 TAAATTGTGC
* *
87582012 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
87582039 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
87582067 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
87582095 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
87582123 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
87582150 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87582165 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:87582155 original size:83 final size:83
Alignment explanation
Indices: 87582012--87582164 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
87582002 TAAATTGTGC
* *
87582012 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
87582077 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
87582095 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
87582159 TGTGCG
65 TGTGCG
87582165 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:87585073 original size:27 final size:27
Alignment explanation
Indices: 87585044--87585177 Score: 187
Period size: 27 Copynumber: 5.0 Consensus size: 27
87585034 CCCCAAAATA
* * *
87585044 GGTAAAATAACCGTAATACCCTTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
87585071 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
87585098 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
87585125 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
87585152 GGTAAAATGATCGTATTACCCCTGTA
1 GGTAAAATGACCGTAATACCCCTGTA
87585178 TGACAAAATG
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:87585186 original size:54 final size:54
Alignment explanation
Indices: 87585074--87585189 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
87585064 CTTGTAAGGT
* **
87585074 AAAATGACCGTAATACCCCTGTAGGGTAAAATGATCGTAATACCCCTATAGGGT
1 AAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGGAC
* * * *
87585128 AAAATGACCGTAATGCCCCTATAGGGTAAAATGATCGTATTACCCCTGTATGAC
1 AAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGGAC
87585182 AAAATGAC
1 AAAATGAC
87585190 GAGTAGCCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (54 bp):
AAAATGACCGTAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGGAC
Found at i:87585388 original size:27 final size:27
Alignment explanation
Indices: 87585358--87585409 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
87585348 CATTCACTAT
*
87585358 TACTGGTGGCTATGCCACAATTACTGA
1 TACTAGTGGCTATGCCACAATTACTGA
* *
87585385 TACTAGTGGCTTTGCCACATTTACT
1 TACTAGTGGCTATGCCACAATTACT
87585410 TTTTTGGCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TACTAGTGGCTATGCCACAATTACTGA
Found at i:87588791 original size:53 final size:54
Alignment explanation
Indices: 87588706--87588912 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
87588696 TTCCCTTTTA
* * *
87588706 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * **
87588759 AACTCACCATTGCCAGGCCTTGGCATGGTCTTACATGGGATATTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
87588813 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
87588868 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
87588913 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 39 0.32
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:87591680 original size:80 final size:81
Alignment explanation
Indices: 87591547--87591782 Score: 279
Period size: 80 Copynumber: 3.0 Consensus size: 81
87591537 GGAATTTAAT
* * *
87591547 CGGATATAGCT-AC-TCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAAT
1 CGGATATAG-TAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAT
87591609 TGCCTTCGGGACTTAGAC
64 TGCCTTCGGGACTTAGAC
* * * * *
87591627 CGGATTTAGTAA-TTCGCACAAATGCCTTCGGGGCTTAGCTCGGATTTAGTAACTCACACAAATG
1 CGGATATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTG
*
87591691 CCTTCGGGACTT-GTC
66 CCTTCGGGACTTAGAC
** * * *
87591706 CGGATATAGTAACTT-GCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAGCGCAATTG
1 CGGATATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTG
87591769 CCTTCGGGACTTAG
66 CCTTCGGGACTTAG
87591783 CCCAGTTATC
Statistics
Matches: 132, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 31 0.23
79 35 0.27
80 64 0.48
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CGGATATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTG
CCTTCGGGACTTAGAC
Found at i:87591726 original size:39 final size:39
Alignment explanation
Indices: 87591547--87591785 Score: 248
Period size: 40 Copynumber: 6.0 Consensus size: 39
87591537 GGAATTTAAT
* *
87591547 CGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGAC-TTGCC
* * * *
87591587 CGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGAC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTT-GCC
* * * *
87591627 CGGATTTAGTAATTCGCACAAATGCCTTCGGGGCTTAGCT
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTT-GCC
* * *
87591667 CGGATTTAGTAACTCACACAAATGCCTTCGGGACTTGTC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGCC
*
87591706 CGGATATAGTAACTTGCACAAATGCCTTCGGGACTTGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGCC
* * * *
87591745 CGGA-ACTAGTCACTAGCGCAATTGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTT-GCC
87591785 C
1 C
87591786 AGTTATCATC
Statistics
Matches: 168, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 68 0.40
40 99 0.59
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGCC
Found at i:87593693 original size:23 final size:23
Alignment explanation
Indices: 87593572--87593713 Score: 135
Period size: 24 Copynumber: 6.0 Consensus size: 23
87593562 GGACTCATCA
*
87593572 CAGCTCGTATGAGCTTATTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
* * *
87593598 CAGCTCGTAAGAGCTTATTGGTCT
1 CAGCTCGTATGAGCTTACT-GTTT
87593622 CAGCTCGTATGAGCTTACTGTTCT
1 CAGCTCGTATGAGCTTACTGTT-T
**
87593646 CAGCTCGTATGAGCTTACTAATT
1 CAGCTCGTATGAGCTTACTGTTT
*
87593669 CAGCTCGTCA-GAGCTTACCGTTT
1 CAGCTCGT-ATGAGCTTACTGTTT
*
87593692 CAGCTC-AATAGAGCTTACTGTT
1 CAGCTCGTAT-GAGCTTACTGTT
87593714 CATCAGCTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.01
23 38 0.38
24 40 0.40
26 19 0.19
27 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:87593720 original size:71 final size:74
Alignment explanation
Indices: 87593572--87593721 Score: 193
Period size: 71 Copynumber: 2.1 Consensus size: 74
87593562 GGACTCATCA
* ** *
87593572 CAGCTCGTATGAGCTTATTGATATATCAGCTCGTAAGAGCTTATTGGTCTCAGCTCGTATGAGCT
1 CAGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTATCCGTCTCAGCTCATATGAGCT
87593637 TACTGTTCT
66 TACTGTTCT
* *
87593646 CAGCTCGTATGAGCTTACT-A-AT-TCAGCTCGTCAGAGCTTA-CCGTTTCAGCTCA-ATAGAGC
1 CAGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTATCCGTCTCAGCTCATAT-GAGC
87593706 TTACTGTTCAT
65 TTACTGTTC-T
87593717 CAGCT
1 CAGCT
87593722 TAGGAGGAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
69 2 0.03
70 22 0.32
71 23 0.34
72 2 0.03
73 1 0.01
74 18 0.26
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (74 bp):
CAGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTATCCGTCTCAGCTCATATGAGCT
TACTGTTCT
Found at i:87603328 original size:39 final size:39
Alignment explanation
Indices: 87603273--87603348 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
87603263 ACTCAACACG
* *
87603273 GTAACCTCAGTTGTAGTGCTTTCAACCACAATACCCATA
1 GTAACCTCACTCGTAGTGCTTTCAACCACAATACCCATA
*
87603312 GTAACCTCACTCGTAGTGCTTTTAACCACAATACCCA
1 GTAACCTCACTCGTAGTGCTTTCAACCACAATACCCA
87603349 AAGTCTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (39 bp):
GTAACCTCACTCGTAGTGCTTTCAACCACAATACCCATA
Found at i:87605628 original size:23 final size:22
Alignment explanation
Indices: 87605598--87605640 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
87605588 TGCCGTGAGC
87605598 TAAGGAAAAGA-AAAAGAAAGGA
1 TAAGGAAAA-ACAAAAGAAAGGA
87605620 TAAGAGAAAAACAAAAGAAAG
1 TAAG-GAAAAACAAAAGAAAG
87605641 ACAAAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (22 bp):
TAAGGAAAAACAAAAGAAAGGA
Found at i:87606807 original size:25 final size:25
Alignment explanation
Indices: 87606748--87606848 Score: 123
Period size: 25 Copynumber: 3.8 Consensus size: 25
87606738 TTAAATTGCA
87606748 TAGCACTAAGTGTGC-AGTTTGATTAG
1 TAGCACTAAGTGTGCGAGTTTGA-T-G
*
87606774 TAGCACTAAGTGTGCGTGTTTGATG
1 TAGCACTAAGTGTGCGAGTTTGATG
87606799 TAGCACTAAGTGTGCGAGTTTGATTATG
1 TAGCACTAAGTGTGCGAGTTTG---ATG
*
87606827 TAAGCACTAAGTGTTCGAGTTT
1 T-AGCACTAAGTGTGCGAGTTT
87606849 ATTATATAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
25 22 0.33
26 16 0.24
27 6 0.09
28 4 0.06
29 19 0.28
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.36
Consensus pattern (25 bp):
TAGCACTAAGTGTGCGAGTTTGATG
Found at i:87614488 original size:18 final size:18
Alignment explanation
Indices: 87614446--87614488 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87614436 GCCCATTCCG
* *
87614446 AAGTATATATATATACAT
1 AAGTATGTATATACACAT
87614464 ATA-TATGTATATACACAT
1 A-AGTATGTATATACACAT
87614482 AAGTATG
1 AAGTATG
87614489 CCCATTCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:87615009 original size:27 final size:28
Alignment explanation
Indices: 87614925--87615022 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
87614915 CATGAGATTG
* * *
87614925 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
87614954 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87614982 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87615009 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
87615023 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87615036 original size:29 final size:27
Alignment explanation
Indices: 87614953--87615036 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
87614943 TAAATTGTTC
* *
87614953 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
87614981 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
87615008 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
87615037 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:87617781 original size:26 final size:26
Alignment explanation
Indices: 87617752--87617807 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
87617742 ACTACTTTTA
87617752 AGACCCCCATAGGGACATCACCTTAC
1 AGACCCCCATAGGGACATCACCTTAC
* *
87617778 AGACCCCCATAGGGACATCACTTTAT
1 AGACCCCCATAGGGACATCACCTTAC
87617804 AGAC
1 AGAC
87617808 TTGTCTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (26 bp):
AGACCCCCATAGGGACATCACCTTAC
Done.