Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 262 of 770
Found at i:78692788 original size:45 final size:43
Alignment explanation
Indices: 78692709--78692827 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 43
78692699 AAGTGCTAGA
*
78692709 GTAAGACATGTCTGGAACATGCATTGGCCTCGAGACGTAAGTCAGT
1 GTAAGACATGTCTGGAACATGCATCGG-CTCGAGACGT--GTCAGT
* * *
78692755 GTAAGACA-GTCTGGGATATGCATCGGCTACGAGATGTGTCAGT
1 GTAAGACATGTCTGGAACATGCATCGGCT-CGAGACGTGTCAGT
*
78692798 GTAAGACCATGTCTGGCACATGGCATCGGC
1 GTAAGA-CATGTCTGGAACAT-GCATCGGC
78692828 ACAGATATGC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 12 0.19
44 4 0.06
45 31 0.49
46 16 0.25
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
GTAAGACATGTCTGGAACATGCATCGGCTCGAGACGTGTCAGT
Found at i:78693749 original size:27 final size:26
Alignment explanation
Indices: 78693701--78693760 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
78693691 GCGAGGCTGC
*
78693701 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
78693728 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
78693754 CAGATAT
1 CAGATAT
78693761 ATATATGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:78701221 original size:2 final size:2
Alignment explanation
Indices: 78701214--78701239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78701204 CCACCAGAAC
78701214 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
78701240 GTGGCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78705146 original size:15 final size:16
Alignment explanation
Indices: 78705124--78705163 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
78705114 TAGAGAAAAG
78705124 AAAAAAAGAAA-TGAA
1 AAAAAAAGAAATTGAA
*
78705139 AGAAAAAGAAATTGAA
1 AAAAAAAGAAATTGAA
78705155 AAAAAAAGA
1 AAAAAAAGA
78705164 GTGAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAAAAAAGAAATTGAA
Found at i:78709060 original size:4 final size:4
Alignment explanation
Indices: 78709053--78709077 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
78709043 TTAAAAAAAA
78709053 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
78709078 TTAGTAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:78710034 original size:13 final size:13
Alignment explanation
Indices: 78710016--78710042 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78710006 GAAGAAATCG
78710016 CACACGGGCATGT
1 CACACGGGCATGT
78710029 CACACGGGCATGT
1 CACACGGGCATGT
78710042 C
1 C
78710043 CCTGTGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:78710434 original size:12 final size:13
Alignment explanation
Indices: 78710396--78710434 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
78710386 AAATATTTGA
78710396 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
78710409 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
78710423 CTTGTT-TTAATT
1 CTTGTTCTTAATT
78710435 TTCCAGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:78717048 original size:40 final size:40
Alignment explanation
Indices: 78716971--78717185 Score: 235
Period size: 40 Copynumber: 5.4 Consensus size: 40
78716961 GAATGATACT
* *
78716971 CGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACTATATC
1 CGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACTATATC
* *
78717011 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CTATATC
1 CGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACTATATC
* *
78717051 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATC
1 CGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACTATATC
* *
78717091 CGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACCATATC
1 CGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACTATATC
* * * **
78717131 CGGGCTATGACCCGAAGGC-CTTGTGCTAGTGGTTATATC
1 CGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACTATATC
78717170 C-GGCTAA-ATCCCGAAG
1 CGGGCTAAGAT-CCGAAG
78717186 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 116 0.78
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACTATATC
Found at i:78717106 original size:80 final size:79
Alignment explanation
Indices: 78716971--78717185 Score: 265
Period size: 80 Copynumber: 2.7 Consensus size: 79
78716961 GAATGATACT
* * * *
78716971 CGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTG
1 CGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGCATTTA
*
78717035 TGCGAGTTG-CTATATC
64 TGCGAG-TGACCATATC
*
78717051 CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTAT
1 CGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTAT
*
78717116 GCTAGTGACCATATC
65 GCGAGTGACCATATC
* * ** *
78717131 CGGGCTATGACCCGAAGGCCTTGTGCTAGTGGTTATATCC-GGCTAAATCCCGAAG
1 CGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
78717186 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 14 0.12
79 20 0.17
80 85 0.71
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATG
CGAGTGACCATATC
Found at i:78720071 original size:33 final size:33
Alignment explanation
Indices: 78719993--78720077 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
78719983 CTGATATCGT
* * *
78719993 ACTGAGATGGGCTAAGGCCCACATTGATACTGAT
1 ACTGATATGGGCTAAGG-CCACACTGATACTGAG
*
78720027 ACTG-TATTGGGCTAAGGCCACACTGATA-TTACG
1 ACTGATA-TGGGCTAAGGCCACACTGATACTGA-G
*
78720060 ACTGATATGGGCTTAGGC
1 ACTGATATGGGCTAAGGC
78720078 TTAGTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 2 0.05
33 25 0.58
34 16 0.37
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (33 bp):
ACTGATATGGGCTAAGGCCACACTGATACTGAG
Found at i:78724803 original size:29 final size:27
Alignment explanation
Indices: 78724769--78724871 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
78724759 TACTCAATCA
*
78724769 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
78724798 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
78724827 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
78724856 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78724872 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:78732598 original size:29 final size:27
Alignment explanation
Indices: 78732564--78732666 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
78732554 TACTCAATCA
*
78732564 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
78732593 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
78732622 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
78732651 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78732667 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:78732974 original size:17 final size:16
Alignment explanation
Indices: 78732948--78732980 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
78732938 AGCTTCTTGA
78732948 GCTTAATCAATAAATT
1 GCTTAATCAATAAATT
78732964 GCTTAAATCAATAAATT
1 GCTT-AATCAATAAATT
78732981 AACTAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (16 bp):
GCTTAATCAATAAATT
Found at i:78738177 original size:29 final size:29
Alignment explanation
Indices: 78738138--78738217 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
78738128 CTTAATAATC
*
78738138 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
78738168 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
78738197 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
78738218 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:78738769 original size:2 final size:2
Alignment explanation
Indices: 78738762--78738787 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78738752 ATATGCATAC
78738762 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
78738788 CAACTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78741853 original size:31 final size:31
Alignment explanation
Indices: 78741800--78741858 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
78741790 TATGTATCAA
78741800 ATATAAATTCATCAACTTTCACTTACTTTTC
1 ATATAAATTCATCAACTTTCACTTACTTTTC
* *
78741831 ATATGAATTTATCAA-TTATCACTTACTT
1 ATATAAATTCATCAACTT-TCACTTACTT
78741859 GTCAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATAAATTCATCAACTTTCACTTACTTTTC
Found at i:78743620 original size:26 final size:26
Alignment explanation
Indices: 78743583--78743640 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
78743573 TGATACAAAT
78743583 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
78743609 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
78743635 TGATAA
1 TGATAA
78743641 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:78748873 original size:29 final size:30
Alignment explanation
Indices: 78748839--78748899 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
78748829 CAAGTAGTCG
78748839 AAGCTAG-TTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
*
78748868 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
78748898 AA
1 AA
78748900 ACTTTCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (30 bp):
AAGCTAGTTTAAATCACACACTTAGTGCCA
Found at i:78757174 original size:17 final size:18
Alignment explanation
Indices: 78757132--78757180 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
78757122 AGTTGAAAAG
78757132 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
78757151 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
78757168 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
78757181 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:78758069 original size:40 final size:40
Alignment explanation
Indices: 78758003--78758169 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
78757993 AAATTGAATG
* * *
78758003 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78758042 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
78758082 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
78758122 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
78758162 ATATCCGG
1 ATATCCGG
78758170 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78766039 original size:40 final size:40
Alignment explanation
Indices: 78765973--78766139 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
78765963 AAATTGAATG
* * *
78765973 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78766012 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
78766052 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
78766092 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
78766132 ATATCCGG
1 ATATCCGG
78766140 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78768104 original size:40 final size:40
Alignment explanation
Indices: 78768044--78768227 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
78768034 TATTCGAATG
* * *
78768044 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * * * *
78768084 ATATCCAGACTAACATCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
78768124 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
78768164 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
78768204 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
78768228 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 117 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:78768184 original size:80 final size:78
Alignment explanation
Indices: 78768044--78768263 Score: 237
Period size: 80 Copynumber: 2.8 Consensus size: 78
78768034 TATTCGAATG
* * * * *
78768044 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAACAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAA-ATCCCGAAGGC
* *
78768108 ATTTGTACGAGTTG-CT
63 ATTTATACGAG-TGACC
* *
78768124 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAATCCCGAAGGCA
* *
78768189 TTTATGCTAGTGACC
64 TTTATACGAGTGACC
* * * *
78768204 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCCGGCTAAATCCTGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAATCCCGAAG
78768264 ATAATTGGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 13 0.11
79 20 0.17
80 86 0.72
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAATCCCGAAGGCATT
TATACGAGTGACC
Found at i:78773935 original size:68 final size:68
Alignment explanation
Indices: 78773808--78774062 Score: 255
Period size: 68 Copynumber: 3.7 Consensus size: 68
78773798 GTTGCAACTC
* * * * * * * * *
78773808 TTTGCCTACGAACCTAAATTTTACAACTGGGA-ATTTGCCCTCGTTAAC-AGTTTTAGAGGTCAC
1 TTTGCCTGCGAACCTTAATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTA-TTCTGGAGGTCGC
*
78773871 GACCC
65 -ACCT
** * *
78773876 TTTGCCTGCGAACCTTGGTTTTACAGCTAGGAG-TTTGCTCTCGCTAACTATTCTGGAGGTTGCA
1 TTTGCCTGCGAACCTTAATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTCGCA
*
78773940 GCT
66 CCT
* ** * *
78773943 TTTCGCCTGCAAACCTTAATTTTACATTTGGGAGCTTTGCCCTCACTAACTATTCTGGAGGTCGC
1 TTT-GCCTGCGAACCTTAATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTCGC
78774008 ACCT
65 ACCT
* *
78774012 TTTGCCCTGAGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACT
1 TTTG-CCTGCGAACCTTAATTTTACAGCTGGGAGCTTTGCTCTCGCTAACT
78774063 GTTTTGGATG
Statistics
Matches: 151, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
67 5 0.03
68 73 0.48
69 73 0.48
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (68 bp):
TTTGCCTGCGAACCTTAATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTCGCA
CCT
Found at i:78774003 original size:69 final size:69
Alignment explanation
Indices: 78773876--78774062 Score: 220
Period size: 69 Copynumber: 2.7 Consensus size: 69
78773866 GTCACGACCC
* ** * * *
78773876 TTTG-CCTGCGAACCTTGGTTTTACAGCTAGGAG-TTTGCTCTCGCTAACTATTCTGGAGGTTGC
1 TTTGCCCTGAGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTCGC
*
78773939 AGCT
66 ACCT
* ** * *
78773943 TTT-CGCCTGCA-AACCTTAATTTTACATTTGGGAGCTTTGCCCTCACTAACTATTCTGGAGGTC
1 TTTGC-CCTG-AGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTC
78774006 GCACCT
64 GCACCT
78774012 TTTGCCCTGAGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACT
1 TTTGCCCTGAGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACT
78774063 GTTTTGGATG
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
67 3 0.03
68 23 0.23
69 72 0.73
70 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (69 bp):
TTTGCCCTGAGAACCTTAATTTTAAAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGTCGC
ACCT
Found at i:78779866 original size:40 final size:38
Alignment explanation
Indices: 78779821--78779950 Score: 125
Period size: 40 Copynumber: 3.3 Consensus size: 38
78779811 CGGAATACAA
78779821 CCGGATATAACCACGTGCATGAATTCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCA-GAATTCCTTCGGGTCTTAGC
* * * *
78779861 CCGGATAGAACGACTTGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCAC-TGCA-GAATTCCTTCGGGTCTTAGC
* ** * *
78779901 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCAGAATT-CCTTCGGGTCTTAGC
78779941 CCGGATATAA
1 CCGGATATAA
78779951 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 4 0.06
40 67 0.94
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (38 bp):
CCGGATATAACCACTGCAGAATTCCTTCGGGTCTTAGC
Found at i:78782283 original size:40 final size:40
Alignment explanation
Indices: 78782171--78782338 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
78782161 TCTTCGGAAT
* * *
78782171 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* ** * * *
78782210 TTAACCCGGA-ATTGGTGACTTGCACAAAGGCCTTCGGGTC
1 TTAGCCCGGATA-TAATCACTAGCACAAATGCCTTCGGGTC
* *
78782250 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
78782290 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
78782330 TTAGCCCGG
1 TTAGCCCGG
78782339 GTATCATTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.04
40 98 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:78788044 original size:40 final size:39
Alignment explanation
Indices: 78788000--78788192 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
78787990 GTTCAAAACA
* * ** * *
78788000 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
78788040 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
78788080 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
78788119 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
78788158 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
78788193 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:78788111 original size:39 final size:39
Alignment explanation
Indices: 78788030--78788192 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
78788020 TATGGTAACC
* *
78788030 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
78788070 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
78788109 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
78788148 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
78788187 CGCACA
1 CGCACA
78788193 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:78796820 original size:40 final size:40
Alignment explanation
Indices: 78796771--78796976 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
78796761 TCTTCGGAAT
* * *
78796771 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
78796810 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
78796850 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
78796890 TTAGCCC--ATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
78796928 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
78796968 TTAGCCCGG
1 TTAGCCCGG
78796977 GTATCATTCA
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
38 32 0.23
39 4 0.03
40 106 0.75
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:78801008 original size:40 final size:39
Alignment explanation
Indices: 78800963--78801092 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
78800953 CGGAATATAA
78800963 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
78801003 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
78801043 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
78801083 CCGGATATAA
1 CCGGATATAA
78801093 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78801107 original size:40 final size:40
Alignment explanation
Indices: 78800979--78801129 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
78800969 ATAACCATGT
* * *
78800979 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
78801019 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
78801059 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
78801099 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
78801130 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:78801113 original size:80 final size:79
Alignment explanation
Indices: 78800979--78801127 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
78800969 ATAACCATGT
* *
78800979 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
78801044 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
78801059 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
78801122 CCGGAT
64 CCGGAT
78801128 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:78810544 original size:122 final size:122
Alignment explanation
Indices: 78810324--78810546 Score: 322
Period size: 122 Copynumber: 1.8 Consensus size: 122
78810314 GAATTATGTG
* * * * * * *
78810324 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
78810389 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTTTGAGCCTTAGTAACGA
*
78810446 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
78810511 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTATAT
78810547 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 87 0.99
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (122 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTTTGAGCCTTAGTAACGA
Found at i:78810668 original size:40 final size:40
Alignment explanation
Indices: 78810541--78810670 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
78810531 ATGCTGGAAA
* *
78810541 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
78810581 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78810621 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78810661 TTATATCCGG
1 TTATATCCGG
78810671 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78810669 original size:80 final size:80
Alignment explanation
Indices: 78810503--78810670 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
78810493 CAATTGAATG
* * *
78810503 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
78810568 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
78810583 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
78810647 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
78810663 ATATCCGG
1 ATATCCGG
78810671 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:78818598 original size:124 final size:124
Alignment explanation
Indices: 78818376--78818600 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
78818366 GAATTATGTG
* * * * * * *
78818376 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
78818441 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
78818500 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
78818565 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
78818601 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 87 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:78818722 original size:40 final size:40
Alignment explanation
Indices: 78818595--78818724 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
78818585 ATGCTGGAAA
* *
78818595 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
78818635 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78818675 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78818715 TTATATCCGG
1 TTATATCCGG
78818725 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78818723 original size:80 final size:80
Alignment explanation
Indices: 78818557--78818724 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
78818547 CAATTGAATG
* * *
78818557 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
78818622 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
78818637 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
78818701 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
78818717 ATATCCGG
1 ATATCCGG
78818725 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:78831775 original size:27 final size:26
Alignment explanation
Indices: 78831727--78831786 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78831717 GCGAGACTGC
*
78831727 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
78831754 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
78831780 CAGATAT
1 CAGATAT
78831787 ATATATATAT
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:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78834531 original size:40 final size:40
Alignment explanation
Indices: 78834485--78834728 Score: 366
Period size: 40 Copynumber: 6.1 Consensus size: 40
78834475 CGGGATTTAA
* * *
78834485 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
78834525 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
78834565 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78834605 CCGGATATAGTAACTCACACAAATGCCTTCAGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78834645 CCGGATATTGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
78834685 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
78834725 CCGG
1 CCGG
78834729 TTATCATCCA
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 187 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78853258 original size:27 final size:26
Alignment explanation
Indices: 78853210--78853269 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78853200 GTGAGGTTGC
*
78853210 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
78853237 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
78853263 CAGATAT
1 CAGATAT
78853270 ATATATATGT
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:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78853282 original size:33 final size:32
Alignment explanation
Indices: 78853231--78853294 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
78853221 ACGAAGTCAC
* *
78853231 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
78853263 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
78853295 TTGCAACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:78858544 original size:47 final size:47
Alignment explanation
Indices: 78858469--78858579 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
78858459 CCCCTCGGGA
* * *
78858469 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
78858516 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
78858563 CTTATCACATATATACA
1 CTTATCACTTATATACA
78858580 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:78858635 original size:46 final size:46
Alignment explanation
Indices: 78858579--78858718 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
78858569 ACATATATAC
* *
78858579 ATCTCATACATGTTTCATACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
78858625 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
78858671 ATCACATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
78858717 AT
1 AT
78858719 ATTTAACTTG
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (46 bp):
ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
Found at i:78859900 original size:16 final size:16
Alignment explanation
Indices: 78859879--78859912 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
78859869 ATGAACAGGG
78859879 CAGCAATTAACGATAC
1 CAGCAATTAACGATAC
78859895 CAGCAATTAACGATAC
1 CAGCAATTAACGATAC
78859911 CA
1 CA
78859913 ACAAGGTAAA
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:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (16 bp):
CAGCAATTAACGATAC
Found at i:78862169 original size:46 final size:46
Alignment explanation
Indices: 78862083--78862251 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
78862073 AGGGTTTGAT
* *
78862083 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AG
78862129 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
* *
78862175 GCCAATGCATGTTCC-AAACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATG-TCCTAGACATGTCTTACACTGGCTTACATCTCGAG
* * *
78862221 GCCGATGTATGTGCTAGATATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTCTTACACT
78862252 AGCTCTTGTC
Statistics
Matches: 109, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 78 0.72
47 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
Found at i:78865062 original size:28 final size:29
Alignment explanation
Indices: 78865030--78865097 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
78865020 ACATACTTGT
*
78865030 ATATGGCCCACT-AGGCCC-AATCTCATTC
1 ATATGGCCCA-TGAGGCCCAAATCACATTC
78865058 ATATGGCCCATGAGGCCCAAATCACATTC
1 ATATGGCCCATGAGGCCCAAATCACATTC
*
78865087 ATATAGCCCAT
1 ATATGGCCCAT
78865098 CTGGCTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 16 0.44
29 19 0.53
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATGAGGCCCAAATCACATTC
Found at i:78866504 original size:46 final size:46
Alignment explanation
Indices: 78866451--78866579 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
78866441 TATTTGGGCA
*
78866451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
78866497 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
78866543 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78866580 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:78868818 original size:5 final size:5
Alignment explanation
Indices: 78868808--78868832 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
78868798 CAAGTATTTG
78868808 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
78868833 GAGTCAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:78871227 original size:40 final size:39
Alignment explanation
Indices: 78871182--78871346 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
78871172 CGGAATATAA
78871182 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
78871222 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCAC-AATGCCTTCGGGTCTTAGC
** * *
78871262 CCGGATATAGCCACTAGCACATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
** * * *
78871301 CCGGATATAATTTCCAGCATAATTGTCTTC-GG-CTTAGC
1 CCGGATATAATCACTAGCACAA-TGCCTTCGGGTCTTAGC
78871339 CCGGATAT
1 CCGGATAT
78871347 CATTCAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 13 0.12
39 35 0.34
40 56 0.54
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:78874827 original size:26 final size:27
Alignment explanation
Indices: 78874758--78874937 Score: 205
Period size: 27 Copynumber: 6.9 Consensus size: 27
78874748 AAAATAATCG
*
78874758 TAATACCCCTTTAGGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGACCA
*
78874785 TAATACCCCTCTAGGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGACCA
78874812 TAATA-CCCTATAGGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGACCA
* *
78874838 TAATACCCCTATAAGGTAAAAATGACCG
1 TAATACCCCTATAGGGT-AAAATGACCA
*
78874866 TAATACCCCTGTA-GG------GACCA
1 TAATACCCCTATAGGGTAAAATGACCA
* *
78874886 TAATGCCCCTGTAGGGTAAAATGACCA
1 TAATACCCCTATAGGGTAAAATGACCA
* * *
78874913 TAATGCCCCTGTATGGTAAAATGAC
1 TAATACCCCTATAGGGTAAAATGAC
78874938 GATTATGCCC
Statistics
Matches: 136, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.12
21 2 0.01
26 25 0.18
27 72 0.53
28 21 0.15
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
TAATACCCCTATAGGGTAAAATGACCA
Found at i:78874889 original size:20 final size:20
Alignment explanation
Indices: 78874861--78874901 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
78874851 AGGTAAAAAT
*
78874861 GACCGTAATACCCCTGTAGG
1 GACCATAATACCCCTGTAGG
*
78874881 GACCATAATGCCCCTGTAGG
1 GACCATAATACCCCTGTAGG
78874901 G
1 G
78874902 TAAAATGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (20 bp):
GACCATAATACCCCTGTAGG
Found at i:78874904 original size:48 final size:47
Alignment explanation
Indices: 78874780--78874925 Score: 141
Period size: 47 Copynumber: 3.0 Consensus size: 47
78874770 AGGGTAAAAT
* * *
78874780 GACCATAATACCCCTCTAGGGTAAAATGACCATAATA-CCCTATAGGG
1 GACCATAATACCCCTATAAGGTAAAATGACCATAATACCCCTGTA-GG
*
78874827 TAAAATGACCATAATACCCCTATAAGGTAAAAATGACCGTAATACCCCTGTAGG
1 ------GACCATAATACCCCTATAAGGT-AAAATGACCATAATACCCCTGTAGG
* * * *
78874881 GACCATAATGCCCCTGTAGGGTAAAATGACCATAATGCCCCTGTA
1 GACCATAATACCCCTATAAGGTAAAATGACCATAATACCCCTGTA
78874926 TGGTAAAATG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
47 21 0.26
48 19 0.23
53 20 0.24
54 16 0.20
55 6 0.07
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (47 bp):
GACCATAATACCCCTATAAGGTAAAATGACCATAATACCCCTGTAGG
Found at i:78874945 original size:27 final size:27
Alignment explanation
Indices: 78874881--78874947 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
78874871 CCCCTGTAGG
78874881 GACCATAATGCCCCTGTAGGGTAAAAT
1 GACCATAATGCCCCTGTAGGGTAAAAT
*
78874908 GACCATAATGCCCCTGTATGGTAAAAT
1 GACCATAATGCCCCTGTAGGGTAAAAT
* *
78874935 GACGATTATGCCC
1 GACCATAATGCCC
78874948 TTATGTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (27 bp):
GACCATAATGCCCCTGTAGGGTAAAAT
Found at i:78878899 original size:40 final size:40
Alignment explanation
Indices: 78878839--78879022 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
78878829 TATTCGAATG
* * *
78878839 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
78878879 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
78878919 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
78878959 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
78878999 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
78879023 CTTGTGTGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:78885096 original size:42 final size:42
Alignment explanation
Indices: 78885045--78885162 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
78885035 ATGTTATAGT
* *
78885045 ATATTGATGCCAATAG-CCCA-ACTATGTTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCTC
*
78885087 ATATCGATGCCAATGTCCTAGACATGGTCTTACACGAATCTC
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCTC
* * * *
78885129 ACATCGATACCAATGTCTCATACATGGTCTTACA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACA
78885163 TGAAATCACA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.02
42 63 0.95
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCTC
Found at i:78888270 original size:12 final size:14
Alignment explanation
Indices: 78888255--78888286 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
78888245 TTTAAATAGC
78888255 ATTTTAAA-TTA-T
1 ATTTTAAAGTTATT
78888267 ATTTTAAAGTTATT
1 ATTTTAAAGTTATT
78888281 ATTTTA
1 ATTTTA
78888287 TATAATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTTAAAGTTATT
Found at i:78888413 original size:30 final size:31
Alignment explanation
Indices: 78888344--78888417 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
78888334 GATCATCGGT
**
78888344 TAATGAAAAGGGATAGTTTCAGCTATCAAAA
1 TAATGAAAAGGGATAGCCTCAGCTATCAAAA
*
78888375 TAATGAAAAGGGATAGCCTCGGCTATC-AAA
1 TAATGAAAAGGGATAGCCTCAGCTATCAAAA
*
78888405 TTATGAAAAGGGA
1 TAATGAAAAGGGA
78888418 CGGTGACGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 15 0.38
31 24 0.62
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (31 bp):
TAATGAAAAGGGATAGCCTCAGCTATCAAAA
Found at i:78888433 original size:30 final size:29
Alignment explanation
Indices: 78888399--78888476 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
78888389 AGCCTCGGCT
* *
78888399 ATCAAATTATGAAAAGGGACGGTGACGACC
1 ATCAAATAATGAAAAGGGA-GATGACGACC
*
78888429 ATCAAATAATGAAAAGGGATATGACGACC
1 ATCAAATAATGAAAAGGGAGATGACGACC
* * *
78888458 ATCGAAGAGTGAAAAGGGA
1 ATCAAATAATGAAAAGGGA
78888477 TGGCTTTGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.57
30 18 0.43
ACGTcount: A:0.45, C:0.13, G:0.27, T:0.15
Consensus pattern (29 bp):
ATCAAATAATGAAAAGGGAGATGACGACC
Found at i:78888488 original size:89 final size:89
Alignment explanation
Indices: 78888376--78888568 Score: 203
Period size: 89 Copynumber: 2.2 Consensus size: 89
78888366 CTATCAAAAT
* * * *
78888376 AATGAAAAGGGATAGCCTCGGCTATCAAATTATGAAAAGGGA-CGGTGAC-GACCATCAAATAAT
1 AATGAAAAGGGATGGCCTCGGCTATCAAATTATGAAAAGGGATAGCT-ACAG-CAATCAAATAAT
*
78888439 GAAAAGGGAT-ATGACGACCATCGAAG
64 GAAAAGGGATGATGACGACCATC-AAC
* * * ** * * * *
78888465 AGTGAAAAGGGATGGCTTTGGCTATTGAATTGTGAAAAGTGATAGCTTCAGCAATCAAATTATGA
1 AATGAAAAGGGATGGCCTCGGCTATCAAATTATGAAAAGGGATAGCTACAGCAATCAAATAATGA
*
78888530 AAAGGGATGGTGACGACCATCAAC
66 AAAGGGATGATGACGACCATCAAC
78888554 AATGAAAAGGGATGG
1 AATGAAAAGGGATGG
78888569 TGATGAACAT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
89 71 0.84
90 14 0.16
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (89 bp):
AATGAAAAGGGATGGCCTCGGCTATCAAATTATGAAAAGGGATAGCTACAGCAATCAAATAATGA
AAAGGGATGATGACGACCATCAAC
Found at i:78888502 original size:30 final size:30
Alignment explanation
Indices: 78888466--78888539 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
78888456 CCATCGAAGA
** * **
78888466 GTGAAAAGGGATGGCTTTGGCTATTGAATT
1 GTGAAAAGGGATGGCTTCAGCAATCAAATT
* *
78888496 GTGAAAAGTGATAGCTTCAGCAATCAAATT
1 GTGAAAAGGGATGGCTTCAGCAATCAAATT
*
78888526 ATGAAAAGGGATGG
1 GTGAAAAGGGATGG
78888540 TGACGACCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (30 bp):
GTGAAAAGGGATGGCTTCAGCAATCAAATT
Found at i:78888563 original size:29 final size:30
Alignment explanation
Indices: 78888526--78888597 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
78888516 CAATCAAATT
*
78888526 ATGAAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGAACATCAAACA
* *
78888555 ATGAAAAGGGATGGTGATGAACATCAAATA
1 ATGAAAAGGGATGGTGACGAACATCAAACA
78888585 ATGAAAAAGGGAT
1 ATG-AAAAGGGAT
78888598 AGCTTCAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 23 0.61
30 6 0.16
31 9 0.24
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.17
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGAACATCAAACA
Found at i:78888590 original size:119 final size:120
Alignment explanation
Indices: 78888378--78888602 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
78888368 ATCAAAATAA
* * *
78888378 TGAAAAGGGATAGCCTCGGCTATCAAATTATGAAAAGGGACGGTGACGACCATCAAATAATGAAA
1 TGAAAAGGGATAGCCTCAGCAATCAAATTATGAAAAGGGACGGTGACGACCATCAAACAATGAAA
* * * *
78888443 AGGGATATGACGACCATCGAAGAGTG-AAAAGGGATGGCTTTGGCTATTGAATTG
66 AGGGATATGACGAACATCAAAGAATGAAAAAGGGATAGCTTTGGCTATTGAATTG
* * *
78888497 TGAAAAGTGATAGCTTCAGCAATCAAATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAA
1 TGAAAAGGGATAGCCTCAGCAATCAAATTATGAAAAGGGACGGTGACGACCATCAAACAATGAAA
* * *
78888561 AGGGATGGTGATGAACATCAAATAATGAAAAAGGGATAGCTT
66 AGGGAT-ATGACGAACATCAAAGAATGAAAAAGGGATAGCTT
78888603 CAGTTATCGG
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
118 15 0.16
119 63 0.69
120 13 0.14
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (120 bp):
TGAAAAGGGATAGCCTCAGCAATCAAATTATGAAAAGGGACGGTGACGACCATCAAACAATGAAA
AGGGATATGACGAACATCAAAGAATGAAAAAGGGATAGCTTTGGCTATTGAATTG
Found at i:78888620 original size:31 final size:31
Alignment explanation
Indices: 78888585--78888655 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
78888575 ACATCAAATA
* *
78888585 ATGAAAAAGGGATAGCTTCAGTTATCGGGCT
1 ATGAAAAAGGGATAGCTTCAGCTATCGAGCT
*
78888616 ATG-AAAAGGGATAGCTTCAGCTATTGAGCT
1 ATGAAAAAGGGATAGCTTCAGCTATCGAGCT
78888646 ATGAAAAAGG
1 ATGAAAAAGG
78888656 TTAGAACAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.75
31 9 0.25
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (31 bp):
ATGAAAAAGGGATAGCTTCAGCTATCGAGCT
Found at i:78889972 original size:27 final size:27
Alignment explanation
Indices: 78889942--78889995 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
78889932 AATAAAGAAC
78889942 AGAGTAAGCTTTCAAACCTTAGTAAAT
1 AGAGTAAGCTTTCAAACCTTAGTAAAT
78889969 AGAGTAAGCTTTCAAACCTTAGTAAAT
1 AGAGTAAGCTTTCAAACCTTAGTAAAT
78889996 TTTAAGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (27 bp):
AGAGTAAGCTTTCAAACCTTAGTAAAT
Found at i:78890561 original size:38 final size:38
Alignment explanation
Indices: 78890478--78890705 Score: 260
Period size: 38 Copynumber: 5.9 Consensus size: 38
78890468 GAATCCAGTC
* * * *
78890478 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * *
78890518 ACCAGCACTAGGCCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
78890556 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
78890594 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* ** *
78890632 ACCAGCGCGAAGCCTATGGGATTTAACCCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
78890670 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
78890706 CACATCAAAT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 128 0.79
39 10 0.06
40 24 0.15
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:78905903 original size:15 final size:15
Alignment explanation
Indices: 78905871--78905899 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78905861 ATATTCTATG
78905871 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
78905886 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
78905900 ATTTTTGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:78906432 original size:15 final size:15
Alignment explanation
Indices: 78906412--78906442 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78906402 AAATATGAAA
*
78906412 GATATGTTTTGGATT
1 GATATGTTTTGCATT
78906427 GATATGTTTTGCATT
1 GATATGTTTTGCATT
78906442 G
1 G
78906443 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
GATATGTTTTGCATT
Found at i:78909453 original size:40 final size:40
Alignment explanation
Indices: 78909423--78909522 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
78909413 GGACTAAGAT
*
78909423 CCGAAGGCATTCGTGCGAGTTAATAAATCCGAGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGAGCTAAGTC
* * **
78909463 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGCTTTGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AATCCGAGCTAAGTC
* *
78909503 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
78909523 CGTTATATCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGAGCTAAGTC
Found at i:78917440 original size:40 final size:40
Alignment explanation
Indices: 78917357--78917509 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
78917347 TTGAATGATG
* * * * * *
78917357 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGAGCTAAGTCCCGAAGGCATTCGTGC-GAGTTAATAAA
78917397 TCCG-GACTAAGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGAG-CTAAG-TCCCGAAGGCATTCGTGCGAGTTAATAAA
* *
78917437 TCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGAGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AA
* ** * *
78917478 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGAGCTAAGTCCCGAAGGCATTCGTGCGAGT
78917510 CGTTATATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
39 2 0.02
40 82 0.87
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:78924590 original size:40 final size:40
Alignment explanation
Indices: 78924546--78924731 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
78924536 GCTACTCGTT
* * *
78924546 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
78924586 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
78924626 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
78924666 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
78924707 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78924732 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78928178 original size:46 final size:45
Alignment explanation
Indices: 78928111--78928282 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 45
78928101 AACCCGCCCC
*
78928111 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATCCA
* *
78928157 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
78928203 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
*
78928250 TAAGTGAACTCGGACTCAACTCCACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
78928283 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 60 0.56
47 31 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:78928228 original size:93 final size:93
Alignment explanation
Indices: 78928116--78928286 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78928106 GCCCCTAAGT
78928116 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78928180 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
78928209 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78928274 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78928287 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:78928740 original size:30 final size:30
Alignment explanation
Indices: 78928706--78928765 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
78928696 ATTTAATACG
78928706 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
78928736 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
78928766 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:78930613 original size:15 final size:14
Alignment explanation
Indices: 78930572--78930613 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
78930562 TGTGGATTTG
*
78930572 GATTTTAAAG-ATT
1 GATTTTAAAGAAAT
78930585 GATTTTAAAGAAAT
1 GATTTTAAAGAAAT
*
78930599 GATTTGTAAATAAAT
1 GATTT-TAAAGAAAT
78930614 TGAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 10 0.40
14 7 0.28
15 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (14 bp):
GATTTTAAAGAAAT
Found at i:78935609 original size:40 final size:39
Alignment explanation
Indices: 78935564--78935771 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
78935554 CGGAATACAA
*
78935564 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78935604 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78935644 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78935684 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
78935724 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
78935764 CCGGATAT
1 CCGGATAT
78935772 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78935704 original size:80 final size:81
Alignment explanation
Indices: 78935564--78935769 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
78935554 CGGAATACAA
* * *
78935564 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
78935628 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
78935644 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
78935707 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
78935724 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
78935770 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:78943620 original size:27 final size:27
Alignment explanation
Indices: 78943590--78943681 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
78943580 GGGGCAAAAT
*
78943590 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* * *
78943617 GGTAATTCTACCATACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATCTC
* * * *
78943644 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
**
78943671 AATAATTCTAC
1 GGTAATTCTAC
78943682 AACTTATCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:78946267 original size:40 final size:40
Alignment explanation
Indices: 78946222--78946351 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
78946212 CGGAATACAA
78946222 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
78946262 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
78946302 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
78946342 CCGGATATAA
1 CCGGATATAA
78946352 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:78953431 original size:40 final size:40
Alignment explanation
Indices: 78953365--78953515 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
78953355 AAATTGAATG
* * *
78953365 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
78953404 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
78953444 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
78953484 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
78953516 ACGTGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:78953529 original size:40 final size:40
Alignment explanation
Indices: 78953401--78953531 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
78953391 TATGCTGGAA
* * *
78953401 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
78953441 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
78953481 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
78953521 ATTATATCCGG
1 ATTATATCCGG
78953532 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:78961528 original size:40 final size:40
Alignment explanation
Indices: 78961400--78961530 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
78961390 TATGCTGGAA
* * * *
78961400 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
78961440 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
78961480 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
78961520 ATTATATCCGG
1 ATTATATCCGG
78961531 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:78963506 original size:41 final size:43
Alignment explanation
Indices: 78963460--78963611 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 43
78963450 ACCGCCACGA
* * *
78963460 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTAT
* *
78963501 CGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
* ** * * * *
78963544 AGCCTGCTAGGCCCGAAGCCTGATATTATGTCATCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
* **
78963587 AGCCTGCTAGGCCCGAAGCCCGATA
1 AGCCTGCTAGACTTGAAGCCCGATA
78963612 ATATTATTCA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 21 0.22
42 13 0.14
43 61 0.64
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
Found at i:78963562 original size:43 final size:43
Alignment explanation
Indices: 78963488--78963611 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
78963478 TCTGAACTCA
* **
78963488 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
78963530 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
78963573 GTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
78963612 ATATTATTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 12 0.16
43 61 0.84
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:78974085 original size:55 final size:54
Alignment explanation
Indices: 78973998--78974252 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
78973988 ATTAGGGTTT
* * *
78973998 AAGGATACCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
78974053 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
78974108 AAAGG-TCCCATGTAAGACCATG-CTAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
78974161 AATGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
78974210 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
78974253 GTACCCATGT
Statistics
Matches: 169, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 13 0.08
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:78974204 original size:108 final size:110
Alignment explanation
Indices: 78974005--78974205 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
78973995 TTTAAGGATA
* *
78974005 CCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
78974070 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
78974115 CCATGTAAGACCATGCTAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAATGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
78974177 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
78974206 TTAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:78974347 original size:23 final size:24
Alignment explanation
Indices: 78974321--78974365 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
78974311 AAGGTAAGGT
*
78974321 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
78974344 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
78974366 GAAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:78974465 original size:16 final size:16
Alignment explanation
Indices: 78974444--78974474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78974434 ATAAATTTGA
78974444 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
78974460 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
78974475 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:78976869 original size:6 final size:6
Alignment explanation
Indices: 78976853--78976887 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
78976843 CCTATATTAA
78976853 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
78976888 ACTACTGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:78977916 original size:32 final size:32
Alignment explanation
Indices: 78977875--78977938 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78977865 AAGAAGTAAG
78977875 ATTCAATCTCAGAATGGATTATGGTTCTTATT
1 ATTCAATCTCAGAATGGATTATGGTTCTTATT
78977907 ATTCAATCTCAGAATGGATTATGGTTCTTATT
1 ATTCAATCTCAGAATGGATTATGGTTCTTATT
78977939 CCCAATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (32 bp):
ATTCAATCTCAGAATGGATTATGGTTCTTATT
Found at i:78982607 original size:23 final size:23
Alignment explanation
Indices: 78982577--78982622 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
78982567 AGTGGTAATG
78982577 TATAAAGCCTTAGTTGACCCTCT
1 TATAAAGCCTTAGTTGACCCTCT
78982600 TATAAAGCCTTAGTTGACCCTCT
1 TATAAAGCCTTAGTTGACCCTCT
78982623 GCCCCCCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (23 bp):
TATAAAGCCTTAGTTGACCCTCT
Found at i:78985132 original size:14 final size:16
Alignment explanation
Indices: 78985097--78985133 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
78985087 CAAACGATGC
78985097 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
78985112 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
78985127 -ATGCAAA
1 GATGCAAA
78985134 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:78990522 original size:25 final size:25
Alignment explanation
Indices: 78990488--78990539 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
78990478 CGCGAAGTCC
*
78990488 TAGCATTGATTATGAAAAGATATAA
1 TAGCATTGATTATAAAAAGATATAA
78990513 TAGCATTGATTATAAAAAGATATAA
1 TAGCATTGATTATAAAAAGATATAA
78990538 TA
1 TA
78990540 TTCTTTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (25 bp):
TAGCATTGATTATAAAAAGATATAA
Found at i:78996309 original size:166 final size:166
Alignment explanation
Indices: 78996035--78996368 Score: 641
Period size: 166 Copynumber: 2.0 Consensus size: 166
78996025 TGAATAAAAC
78996035 CAACATTAATGCAAACATGAAGCTTGACCCCGCTCCATTCCCATTCATAATCCAACCACAAGTAG
1 CAACATTAATGCAAACATGAAGCTTGACCCCGCTCCATTCCCATTCATAATCCAACCACAAGTAG
* *
78996100 TCATGCCACTATTTCAATTGTTTACGTCGTCTAACGTTGAAGGAAAAATGTAAGACTGTAATTCT
66 TCATACCACTATTTCAATTGTTTACATCGTCTAACGTTGAAGGAAAAATGTAAGACTGTAATTCT
78996165 AGATGTCTAACAACAAGCCATCTTTGTTAGAAGAAG
131 AGATGTCTAACAACAAGCCATCTTTGTTAGAAGAAG
78996201 CAACATTAATGCAAACATGAAGCTTGACCCCGCTCCATTCCCATTCATAATCCAACCACAAGTAG
1 CAACATTAATGCAAACATGAAGCTTGACCCCGCTCCATTCCCATTCATAATCCAACCACAAGTAG
*
78996266 TCATACTACTATTTCAATTGTTTACATCGTCTAACGTTGAAGGAAAAATGTAAGACTGTAATTCT
66 TCATACCACTATTTCAATTGTTTACATCGTCTAACGTTGAAGGAAAAATGTAAGACTGTAATTCT
78996331 AGATGTCTAACAACAAGCCATCTTTGTTAGAAGAAG
131 AGATGTCTAACAACAAGCCATCTTTGTTAGAAGAAG
78996367 CA
1 CA
78996369 TTCCTACTGC
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 165 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (166 bp):
CAACATTAATGCAAACATGAAGCTTGACCCCGCTCCATTCCCATTCATAATCCAACCACAAGTAG
TCATACCACTATTTCAATTGTTTACATCGTCTAACGTTGAAGGAAAAATGTAAGACTGTAATTCT
AGATGTCTAACAACAAGCCATCTTTGTTAGAAGAAG
Found at i:79000573 original size:30 final size:27
Alignment explanation
Indices: 79000528--79000599 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
79000518 TCACATTTTC
79000528 AAAAAAATTTAAAATTTTGTAAAAAATGG
1 AAAAAAATTTAAAA-TTT-TAAAAAATGG
* * *
79000557 AAAAAAATATTTAAATTTTAGAAAATTG
1 AAAAAAAT-TTAAAATTTTAAAAAATGG
79000585 AAAAAAA-TTAAAATT
1 AAAAAAATTTAAAATT
79000600 AAAGAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 7 0.18
28 15 0.39
29 11 0.29
30 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAAAAATTTAAAATTTTAAAAAATGG
Found at i:79001804 original size:14 final size:14
Alignment explanation
Indices: 79001773--79001806 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
79001763 ATGTTATAAA
**
79001773 AAAATTCAAAATTT
1 AAAATTCAAAATGG
79001787 AAAATTCAAAATGG
1 AAAATTCAAAATGG
79001801 AAAATT
1 AAAATT
79001807 GAGAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATTCAAAATGG
Found at i:79005730 original size:31 final size:31
Alignment explanation
Indices: 79005677--79005762 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
79005667 CTACACCATT
* * * * *
79005677 AGTCACTAAACTATTTGTAAGTTTTCGTTTT
1 AGTCACTGAACTATTCGAAAGTTTTCATTTA
* * *
79005708 GGTTATTGAACTATTCGAAAGTTTTCATTTA
1 AGTCACTGAACTATTCGAAAGTTTTCATTTA
*
79005739 AGTCACTGAACTATTCAAAAGTTT
1 AGTCACTGAACTATTCGAAAGTTT
79005763 GGAGTCACTA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (31 bp):
AGTCACTGAACTATTCGAAAGTTTTCATTTA
Found at i:79008537 original size:44 final size:43
Alignment explanation
Indices: 79008466--79008616 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 43
79008456 GTTTGCCAAT
* * * *
79008466 AAATTGCCACTAGGTTGTGAGTGCACAGTAAGATTCATAGATA
1 AAATTGCCACTAGGTTGTGAGTACACAGCAAAATTCACAGATA
*
79008509 AAATCTGCCACTAGGTTGTG-GATACACAGCAAAATTCGCAGATAA
1 AAAT-TGCCACTAGGTTGTGAG-TACACAGCAAAATTCACAGAT-A
* * * *
79008554 AAATTTCCACT-GGATTGTGAATACATAGCAAAATATCGCAGATA
1 AAATTGCCACTAGG-TTGTGAGTACACAGCAAAAT-TCACAGATA
* *
79008598 AAATTTGCCATTGGGTTGT
1 AAA-TTGCCACTAGGTTGT
79008617 AGATGCACAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
43 7 0.08
44 58 0.64
45 23 0.26
46 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (43 bp):
AAATTGCCACTAGGTTGTGAGTACACAGCAAAATTCACAGATA
Found at i:79008595 original size:45 final size:44
Alignment explanation
Indices: 79008466--79008600 Score: 139
Period size: 44 Copynumber: 3.0 Consensus size: 44
79008456 GTTTGCCAAT
* * * * * **
79008466 AAATTGCCACTAGGTTGTGAGTGCACAGTAAGATTCATAGAT-A
1 AAATTTCCACTAGGTTGTGAATACACAGCAAAATTCGCAGATAA
* *
79008509 AAATCTGCCACTAGGTTGTGGATACACAGCAAAATTCGCAGATAA
1 AAAT-TTCCACTAGGTTGTGAATACACAGCAAAATTCGCAGATAA
*
79008554 AAATTTCCACT-GGATTGTGAATACATAGCAAAATATCGCAGATAA
1 AAATTTCCACTAGG-TTGTGAATACACAGCAAAAT-TCGCAGATAA
79008599 AA
1 AA
79008601 TTTGCCATTG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 6 0.08
44 55 0.71
45 17 0.22
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (44 bp):
AAATTTCCACTAGGTTGTGAATACACAGCAAAATTCGCAGATAA
Found at i:79008885 original size:39 final size:38
Alignment explanation
Indices: 79008823--79008907 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 38
79008813 ACATTAGAAA
* * *
79008823 TAGACATGTATAACGTGTACTCAATTCGTTAATAACAG
1 TAGACATGTATAACATGTACTCAATTCATCAATAACAG
*
79008861 TAGACATGTTTTAACATGTACTCAATTCATCAATAACAG
1 TAGACATG-TATAACATGTACTCAATTCATCAATAACAG
79008900 TAGACATG
1 TAGACATG
79008908 CTTATCATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 8 0.19
39 34 0.81
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (38 bp):
TAGACATGTATAACATGTACTCAATTCATCAATAACAG
Found at i:79009430 original size:17 final size:17
Alignment explanation
Indices: 79009408--79009442 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
79009398 CATTAATTTG
*
79009408 AATGAAAGTTTGACATT
1 AATGAAAGATTGACATT
79009425 AATGAAAGATTGACATT
1 AATGAAAGATTGACATT
79009442 A
1 A
79009443 GATGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (17 bp):
AATGAAAGATTGACATT
Found at i:79012418 original size:20 final size:20
Alignment explanation
Indices: 79012393--79012443 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
79012383 AATTGAGGTG
79012393 AATGTGATATTGAATTATGA
1 AATGTGATATTGAATTATGA
**
79012413 AATGTGATATTGAATTATTT
1 AATGTGATATTGAATTATGA
79012433 AATGTGATATT
1 AATGTGATATT
79012444 ATGGACTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (20 bp):
AATGTGATATTGAATTATGA
Found at i:79014683 original size:24 final size:26
Alignment explanation
Indices: 79014630--79014691 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
79014620 ATTGAAATAG
*
79014630 GAAAGAATAAAAAATAAAAGTCATTT
1 GAAAGAATAAAAAATAAAAGTCATTA
* *
79014656 GAAAGAAT-TAAAATCAAA-TCATTA
1 GAAAGAATAAAAAATAAAAGTCATTA
*
79014680 GAAAGAAGAAAA
1 GAAAGAATAAAA
79014692 TGATTTCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.40
25 10 0.33
26 8 0.27
ACGTcount: A:0.63, C:0.05, G:0.13, T:0.19
Consensus pattern (26 bp):
GAAAGAATAAAAAATAAAAGTCATTA
Found at i:79017178 original size:17 final size:17
Alignment explanation
Indices: 79017158--79017192 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
79017148 AAAATCAAAG
79017158 TAAATTTTACCTAATAA
1 TAAATTTTACCTAATAA
79017175 TAAATTTTACCTAATAA
1 TAAATTTTACCTAATAA
79017192 T
1 T
79017193 GAACCTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTTACCTAATAA
Found at i:79017552 original size:16 final size:16
Alignment explanation
Indices: 79017531--79017561 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
79017521 ATACTCAAAA
79017531 TACTAGTTGCAATGTG
1 TACTAGTTGCAATGTG
79017547 TACTAGTTGCAATGT
1 TACTAGTTGCAATGT
79017562 TGTTCCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (16 bp):
TACTAGTTGCAATGTG
Found at i:79018766 original size:14 final size:14
Alignment explanation
Indices: 79018747--79018773 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79018737 AAGAATGACG
79018747 TATGAAAATTTTAA
1 TATGAAAATTTTAA
79018761 TATGAAAATTTTA
1 TATGAAAATTTTA
79018774 TTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
TATGAAAATTTTAA
Found at i:79022384 original size:50 final size:50
Alignment explanation
Indices: 79022299--79022401 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
79022289 TAGGTAGAAC
* **
79022299 AAACAAATACAAGAAAGAAGTAAAAACTATCAAGCCATGGACATAATGAT
1 AAACAAATACAAGAAAGAAGTAAAAACTATAAAGCCATAAACATAATGAT
*
79022349 AAACAAATACAAGAAAGAAGTAAAAGCTATAAAGCCATAAACATAATGAT
1 AAACAAATACAAGAAAGAAGTAAAAACTATAAAGCCATAAACATAATGAT
79022399 AAA
1 AAA
79022402 TAATGCCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.16
Consensus pattern (50 bp):
AAACAAATACAAGAAAGAAGTAAAAACTATAAAGCCATAAACATAATGAT
Found at i:79022707 original size:103 final size:103
Alignment explanation
Indices: 79022505--79022714 Score: 260
Period size: 103 Copynumber: 2.0 Consensus size: 103
79022495 CATACCAGAG
* * *
79022505 AATTCTTATGGCAATAGCATATATGACAATAAAGACATAACACAAAATTTAGGCTAGTAGAATAC
1 AATTCTTATGGCAATAGCATATATGACAATAAAGACACAACACAAAATTCAAGCTAGTAGAATAC
* ** * * *
79022570 AAGCAATGGAAAAATTAGCATTGTTCTTAAAATAGAAA
66 AAGCAATGGAAAAATCAAAACTGTACTCAAAATAGAAA
* *** *
79022608 AATTCTTATGGCAATAGCATATAT-AGCAATAAAGACACAATAGGGACTTCAAGCTAGTAGAATA
1 AATTCTTATGGCAATAGCATATATGA-CAATAAAGACACAACACAAAATTCAAGCTAGTAGAATA
* *
79022672 CAAGGAATGGAAAAATCAAAACTGTACTCAGAATAGAAA
65 CAAGCAATGGAAAAATCAAAACTGTACTCAAAATAGAAA
79022711 AATT
1 AATT
79022715 AGAGATAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
102 1 0.01
103 89 0.99
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (103 bp):
AATTCTTATGGCAATAGCATATATGACAATAAAGACACAACACAAAATTCAAGCTAGTAGAATAC
AAGCAATGGAAAAATCAAAACTGTACTCAAAATAGAAA
Found at i:79023343 original size:149 final size:151
Alignment explanation
Indices: 79023179--79023480 Score: 484
Period size: 149 Copynumber: 2.0 Consensus size: 151
79023169 TTAGGAATAT
*
79023179 TTTTTTTATATTTATATATAAAATTAATAAAAATAAATTATGGTAAGATTTAAACTTATAATATT
1 TTTTTTTATATTTATATATAAAATTAATAAAAATAAATTATGATAAGATTTAAACTTATAATATT
** * *
79023244 ATGATTCATAATCTTTT-A-TTTTTATATGAAATTTTAATAAATATATTTTACATAATTTTTTAC
66 ATGATTCATAATCTTTTAATTTTTTATACAAAATTTTAAGAAATATAGTTTACATAATTTTTTAC
*
79023307 TCATATCAGCT-ATAACACTTG
131 TCACATCAG-TGATAACACTTG
*
79023328 TTTTTTTATATTTATATATAAAATTAATAAAAATAATTTATGATAAGATTTAAACTTATAATATT
1 TTTTTTTATATTTATATATAAAATTAATAAAAATAAATTATGATAAGATTTAAACTTATAATATT
* *
79023393 ATGATTCATAATCTTTTAATTTTTTATACAAAATTTTAAGAAATATAGTTTGCATATTTTTTTAC
66 ATGATTCATAATCTTTTAATTTTTTATACAAAATTTTAAGAAATATAGTTTACATAATTTTTTAC
*
79023458 TCACATCAGTGATAGCACTTG
131 TCACATCAGTGATAACACTTG
79023479 TT
1 TT
79023481 GTCTAATATT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
149 80 0.57
150 2 0.01
151 58 0.41
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (151 bp):
TTTTTTTATATTTATATATAAAATTAATAAAAATAAATTATGATAAGATTTAAACTTATAATATT
ATGATTCATAATCTTTTAATTTTTTATACAAAATTTTAAGAAATATAGTTTACATAATTTTTTAC
TCACATCAGTGATAACACTTG
Found at i:79023426 original size:75 final size:74
Alignment explanation
Indices: 79023182--79023427 Score: 212
Period size: 75 Copynumber: 3.3 Consensus size: 74
79023172 GGAATATTTT
* * *
79023182 TTTTATATTTATATATAAAATTAATAAAAATAAATTATGGTAAGATTTAAACTTATAATATTATG
1 TTTTAT-TTTTTATATAAAATTAATAAAAATAATTTATGATAAGATTTAAACTTATAATATTATG
79023247 ATTCATAATC
65 ATTCATAATC
* * * * * ** * *
79023257 TTTTA-TTTTTATATGAAATTTTAATAAATATATTTTA-CATAA-TTTTTTACTCAT-ATCAGCT
1 TTTTATTTTTTATAT-AAA-ATTAATAAAAATAATTTATGATAAGATTTAAACTTATAAT-A-TT
* ** * ** *
79023318 ATAACACTTGTTT
62 ATGATTCATAATC
*
79023331 TTTTATATTTATATATAAAATTAATAAAAATAATTTATGATAAGATTTAAACTTATAATATTATG
1 TTTTAT-TTTTTATATAAAATTAATAAAAATAATTTATGATAAGATTTAAACTTATAATATTATG
79023396 ATTCATAATC
65 ATTCATAATC
*
79023406 TTTTAATTTTTTATACAAAATT
1 TTTT-ATTTTTTATATAAAATT
79023428 TTAAGAAATA
Statistics
Matches: 123, Mismatches: 38, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
72 2 0.02
73 17 0.14
74 33 0.27
75 50 0.41
76 19 0.15
77 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (74 bp):
TTTTATTTTTTATATAAAATTAATAAAAATAATTTATGATAAGATTTAAACTTATAATATTATGA
TTCATAATC
Found at i:79027424 original size:20 final size:20
Alignment explanation
Indices: 79027399--79027440 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
79027389 TTATTTTCAA
79027399 AGAATATTCTAAATAGACTG
1 AGAATATTCTAAATAGACTG
79027419 AGAATATTCTAAATAGACTG
1 AGAATATTCTAAATAGACTG
79027439 AG
1 AG
79027441 TCTAGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
AGAATATTCTAAATAGACTG
Found at i:79028448 original size:22 final size:22
Alignment explanation
Indices: 79028423--79028480 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
79028413 AAGATGAAGT
79028423 AAATAAT-ATATAAAGCAA-TTTA
1 AAATAATAATATAAA--AAGTTTA
79028445 AAATAAATAATATAAAAAGTTTA
1 AAAT-AATAATATAAAAAGTTTA
79028468 AAATAATAATATA
1 AAATAATAATATA
79028481 TATATAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.45
23 11 0.33
24 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (22 bp):
AAATAATAATATAAAAAGTTTA
Found at i:79028467 original size:23 final size:25
Alignment explanation
Indices: 79028422--79028587 Score: 90
Period size: 26 Copynumber: 6.4 Consensus size: 25
79028412 AAAGATGAAG
79028422 TAAATAATATATAAAGCAATTTAAAA
1 TAAATAATATATAAA-CAATTTAAAA
*
79028448 TAAATAATATA-AAA-AGTTTAAAA
1 TAAATAATATATAAACAATTTAAAA
* * *
79028471 T-AATAATATATATATAGTAACTTAAAG
1 TAAATAATATATA-A-A-CAATTTAAAA
* * *
79028498 CAAATAATATATCAACACTTTAAAAA
1 TAAATAATATATAAACAATTT-AAAA
* *
79028524 TAGTATATAATA-A-AAACAGTTTGAAA
1 TA--A-ATAATATATAAACAATTTAAAA
* * * *
79028550 TAAATACTATTTAAAATAATTTAAGA
1 TAAATAATATAT-AAACAATTTAAAA
79028576 TAAAATAATATA
1 T-AAATAATATA
79028588 ATATTTTAAA
Statistics
Matches: 104, Mismatches: 22, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
22 9 0.09
23 15 0.14
24 2 0.02
25 7 0.07
26 31 0.30
27 22 0.21
28 12 0.12
29 6 0.06
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
TAAATAATATATAAACAATTTAAAA
Found at i:79032628 original size:96 final size:96
Alignment explanation
Indices: 79032473--79032693 Score: 236
Period size: 96 Copynumber: 2.3 Consensus size: 96
79032463 ACATCAAGTT
* * * *
79032473 GATGCCACGTCTCAGACATGGTCTTACATTGACTATCGCAATCGAGGCCGAAGCCATGTCTCAGA
1 GATGCCATGTCCCAGACATGGTCTTACATTGACCATCGCAATC-AGGCCGAAGCCATGTCCCAGA
* * * *
79032538 CCTAGTCTTACACTAGCTCTCACATATTC-GTGTC
65 CATAGTCTTACACTAGCTCT--CAT-GTCAATGCC
* *
79032572 GATGCCATGTCCCAGACATGGTCTTACGTTGACACATCTC-AT-A-GCCGATA-CCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACATTGAC-CATCGCAATCAGGCCGA-AGCCATGTCCCAG
* *
79032633 ACATGGTCTTACACTAGCTCTCGTGTCAATGCC
64 ACATAGTCTTACACTAGCTCTCATGTCAATGCC
*
79032666 AATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
79032694 CTGGCTCTCA
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
93 2 0.02
94 31 0.30
96 34 0.32
97 2 0.02
99 32 0.30
100 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGACCATCGCAATCAGGCCGAAGCCATGTCCCAGAC
ATAGTCTTACACTAGCTCTCATGTCAATGCC
Found at i:79034244 original size:26 final size:28
Alignment explanation
Indices: 79034193--79034261 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
79034183 CTTTTTTAAC
*
79034193 AAAAG-AAAAACAAGAAGATAAAAAAG-
1 AAAAGAAAAAAAAAGAAGATAAAAAAGT
**
79034219 AAAAGAAAAAAAAAGAA-ATATGAAAGT
1 AAAAGAAAAAAAAAGAAGATAAAAAAGT
79034246 AAAATGAAATAAAAAA
1 AAAA-GAAA-AAAAAA
79034262 ACCACATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.33
27 14 0.39
28 4 0.11
29 6 0.17
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (28 bp):
AAAAGAAAAAAAAAGAAGATAAAAAAGT
Found at i:79034949 original size:44 final size:44
Alignment explanation
Indices: 79034872--79034961 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
79034862 CTTGTTCTGA
* * * *
79034872 TCCACTGTAACTTCAGAGAGATGAGACTTGTAGCTTTGATTTAC
1 TCCAATGTAACTTCAGAGAGAAGAGACTTGTAGCTTCGATCTAC
* *
79034916 TCCAATGTAA-TTCCAGGGAGAAGAGATTTGTAGCTTCGATCTAC
1 TCCAATGTAACTT-CAGAGAGAAGAGACTTGTAGCTTCGATCTAC
79034960 TC
1 TC
79034962 TGGTGGAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
TCCAATGTAACTTCAGAGAGAAGAGACTTGTAGCTTCGATCTAC
Found at i:79035330 original size:45 final size:44
Alignment explanation
Indices: 79035190--79035395 Score: 144
Period size: 44 Copynumber: 4.6 Consensus size: 44
79035180 TTTAATATGT
* *
79035190 TCCACTGTAACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTGC
1 TCCACTGTAACTTCAGGGAGATGAGATTT-CTATCTTCAGTCTGC
* * * * * ** *
79035235 TCCGCT-TCAACTTCAGAGAGATAAGACTTGTGGCTTCAATCTGC
1 TCCACTGT-AACTTCAGGGAGATGAGATTTCTATCTTCAGTCTGC
* *
79035279 TCCACTGTAACTTTAGGGAGATGAGATTTCCTATCTTCAGTCTAC
1 TCCACTGTAACTTCAGGGAGATGAGATTT-CTATCTTCAGTCTGC
* * * * * * * ** * *
79035324 TTCACTGCAATTTCAAGGAGATAAGAGTTGTGGCTTCAATCTGA
1 TCCACTGTAACTTCAGGGAGATGAGATTTCTATCTTCAGTCTGC
* * *
79035368 TCTACTGTAACTTGAGGGAGATTAGATT
1 TCCACTGTAACTTCAGGGAGATGAGATT
79035396 CGCAATGATG
Statistics
Matches: 117, Mismatches: 41, Indels: 7
0.71 0.25 0.04
Matches are distributed among these distances:
44 63 0.54
45 54 0.46
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
TCCACTGTAACTTCAGGGAGATGAGATTTCTATCTTCAGTCTGC
Found at i:79035345 original size:89 final size:89
Alignment explanation
Indices: 79035190--79035395 Score: 270
Period size: 89 Copynumber: 2.3 Consensus size: 89
79035180 TTTAATATGT
* * * * * *
79035190 TCCACTGTAACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTGCTCCGCTTCAACTTCAGAGAG
1 TCCACTGTAACTTCAGGGAGATGAGATTTCCTATCTTCAGTCTACTCCACTGCAACTTCAGAGAG
*
79035255 ATAAGACTTGTGGCTTCAATCTGC
66 ATAAGACTTGTGGCTTCAATCTGA
* * *
79035279 TCCACTGTAACTTTAGGGAGATGAGATTTCCTATCTTCAGTCTACTTCACTGCAATTTCA-AGGA
1 TCCACTGTAACTTCAGGGAGATGAGATTTCCTATCTTCAGTCTACTCCACTGCAACTTCAGA-GA
*
79035343 GATAAGAGTTGTGGCTTCAATCTGA
65 GATAAGACTTGTGGCTTCAATCTGA
* * *
79035368 TCTACTGTAACTTGAGGGAGATTAGATT
1 TCCACTGTAACTTCAGGGAGATGAGATT
79035396 CGCAATGATG
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 101 0.99
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (89 bp):
TCCACTGTAACTTCAGGGAGATGAGATTTCCTATCTTCAGTCTACTCCACTGCAACTTCAGAGAG
ATAAGACTTGTGGCTTCAATCTGA
Found at i:79045451 original size:29 final size:29
Alignment explanation
Indices: 79045418--79045578 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
79045408 GTGACGAGAT
79045418 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
79045447 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
79045476 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
79045505 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
79045534 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
79045563 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
79045579 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Done.