Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 165 of 433
Found at i:51537066 original size:27 final size:27
Alignment explanation
Indices: 51536986--51537067 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
51536976 AAACTTGTAC
* *
51536986 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
51537014 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
51537041 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
51537068 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:51538537 original size:22 final size:22
Alignment explanation
Indices: 51538509--51538552 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51538499 TCCGGCGACG
*
51538509 GTCTCGGGTTCGGGGTGTTACA
1 GTCTCGGGTACGGGGTGTTACA
51538531 GTCTCGGGTACGGGGTGTTACA
1 GTCTCGGGTACGGGGTGTTACA
51538553 CAAATACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.41, T:0.30
Consensus pattern (22 bp):
GTCTCGGGTACGGGGTGTTACA
Found at i:51539010 original size:36 final size:36
Alignment explanation
Indices: 51538963--51539034 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
51538953 ACATGCCCAT
51538963 GTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGG
1 GTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGG
51538999 GTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGG
1 GTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGG
51539035 CCTTACTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (36 bp):
GTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGG
Found at i:51539102 original size:120 final size:119
Alignment explanation
Indices: 51538889--51539106 Score: 337
Period size: 120 Copynumber: 1.8 Consensus size: 119
51538879 GCCATTAGCC
* * *
51538889 CGTGTAGGCCCACACGTCCAGATTGGCCTTATTCTTGTGGCCCACATAGCTTGGCCCAAAACCCA
1 CGTGTAGGCCCACACGTCCAGATTGGCCTTACTCTTGTGGCCCACACAGCCTGGCCCAAAACCCA
* *
51538954 CATGCCCATGTAGAATGCTCGTGTAGGCCTACACGTCCAGATTGGGTAGAATGCT
66 CATGCCCATATAGAATGCCCGTGTAGGCC-ACACGTCCAGATTGGGTAGAATGCT
* ** *
51539009 CGTGTAGGCCTACACGTCCAGATTGGCCTTACTCTTGTGGTTCACACGGCCTGGCCCAAAACCCA
1 CGTGTAGGCCCACACGTCCAGATTGGCCTTACTCTTGTGGCCCACACAGCCTGGCCCAAAACCCA
*
51539074 CATGCCCATATGGAATGCCCGTGTAGGCCACAC
66 CATGCCCATATAGAATGCCCGTGTAGGCCACAC
51539107 ACCCAACTTG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 4 0.05
120 84 0.95
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (119 bp):
CGTGTAGGCCCACACGTCCAGATTGGCCTTACTCTTGTGGCCCACACAGCCTGGCCCAAAACCCA
CATGCCCATATAGAATGCCCGTGTAGGCCACACGTCCAGATTGGGTAGAATGCT
Found at i:51539853 original size:13 final size:13
Alignment explanation
Indices: 51539835--51539884 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
51539825 TTGGCAATAT
51539835 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
51539848 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* * *
51539861 TGTGGAAAAATGC
1 TTTTGAAAAGTGC
* *
51539874 CTTTAAAAAGT
1 TTTTGAAAAGT
51539885 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:51541465 original size:2 final size:2
Alignment explanation
Indices: 51541458--51541483 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51541448 TAGTTACTAC
51541458 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
51541484 GATTATATGG
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:51545784 original size:52 final size:52
Alignment explanation
Indices: 51545705--51545806 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
51545695 AGTTTTAGCT
* *
51545705 TGATTGACATGGATATTATTATCAATGTAAAAAGACTTAAGTTCAAGTGTAC
1 TGATTGACATGGACATTATTATCAATGTAAAAAGACCTAAGTTCAAGTGTAC
* * * *
51545757 TGATTGACATGGGCATTATTTTTAATGTAAAAAGACCTAAGTTTAAGTGT
1 TGATTGACATGGACATTATTATCAATGTAAAAAGACCTAAGTTCAAGTGT
51545807 GCTAAGCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (52 bp):
TGATTGACATGGACATTATTATCAATGTAAAAAGACCTAAGTTCAAGTGTAC
Found at i:51550300 original size:49 final size:47
Alignment explanation
Indices: 51550190--51550404 Score: 170
Period size: 49 Copynumber: 4.5 Consensus size: 47
51550180 ATGCCAATAA
* * ** *
51550190 CATGTCCCAGACATGGTTTTACATTGGCTCATCCATCAAGTCGATGC
1 CATGTCCCAGACATGGTCTTACATTGACTCATAAATCAAGCCGATGC
* *
51550237 CATGGCCTAGACATGGTCTTACATTGACT-ATTGAAATCAAGGCCGATGC
1 CATGTCCCAGACATGGTCTTACATTGACTCA-T-AAATCAA-GCCGATGC
* * * * **
51550286 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATG-
1 CATGTCCCAGACATGGTCTTACA-TTG-ACTCATAAATC-AAGCCGATGC
* * *
51550335 CATGTCCCAGACAT-GTCTTACACTAGCACTCAT--CTTAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACA-TTG-ACTCATAAATCAA-GCCGATGC
51550382 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
51550405 CTAGCTCACA
Statistics
Matches: 137, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
46 9 0.07
47 40 0.29
48 30 0.22
49 42 0.31
50 13 0.09
51 2 0.01
52 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACATTGACTCATAAATCAAGCCGATGC
Found at i:51550401 original size:48 final size:50
Alignment explanation
Indices: 51550272--51550409 Score: 196
Period size: 48 Copynumber: 2.8 Consensus size: 50
51550262 GACTATTGAA
* *
51550272 ATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT
1 ATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACAT
**
51550322 ATCTGTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-T
1 ATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCA-CAT
51550370 -T-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
51550410 TCACAATAAC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
46 8 0.10
47 15 0.19
48 31 0.39
49 15 0.19
50 10 0.13
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (50 bp):
ATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACAT
Found at i:51552869 original size:11 final size:11
Alignment explanation
Indices: 51552844--51552877 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
51552834 CGTTTCTTGG
51552844 TTTTTATTTGAT
1 TTTTTATTTG-T
51552856 TTTTTATTTGT
1 TTTTTATTTGT
*
51552867 TTTTTCTTTGT
1 TTTTTATTTGT
51552878 CACATTCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (11 bp):
TTTTTATTTGT
Found at i:51556720 original size:49 final size:49
Alignment explanation
Indices: 51556667--51556898 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
51556657 CTGGTACGCA
* *
51556667 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
* *
51556716 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
**
51556765 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGATACACG
* * * * * * *
51556815 TAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCA-A-TTATCTGATACACG
* *
51556866 TAATAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
51556899 TCACAATAGA
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 78 0.49
50 45 0.28
51 36 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
Found at i:51556837 original size:99 final size:101
Alignment explanation
Indices: 51556665--51556899 Score: 350
Period size: 99 Copynumber: 2.4 Consensus size: 101
51556655 ATCTGGTACG
* **
51556665 CATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTAGTAGCCTGCAC
51556729 TTAGTACTACACACGTGACCA-A-TTATCCGATACA
66 TTAGTACTACACACGTGACCATAGTTATCCGATACA
* *
51556763 CGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * * *
51556828 TTAGTACTACACACGTGATCATAGTTTTCGGGTACG
66 TTAGTACTACACACGTGACCATAGTTATCCGATACA
*
51556864 CATAATAGCCTGCACTTAGTACTACACATGCGACCT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT
51556900 CACAATAGAT
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
98 32 0.26
99 47 0.39
100 1 0.01
101 41 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGACCATAGTTATCCGATACA
Found at i:51563144 original size:40 final size:40
Alignment explanation
Indices: 51563100--51563227 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
51563090 GCTGGAAATC
* * *
51563100 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
51563140 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * * *
51563180 CTATCCGGGCTAAGACCCGAAGACATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
51563220 ATATCCGG
1 ATATCCGG
51563228 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:51568023 original size:20 final size:21
Alignment explanation
Indices: 51567998--51568037 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
51567988 CCCTTGAAAT
51567998 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
51568018 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
51568038 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:51569205 original size:50 final size:48
Alignment explanation
Indices: 51569144--51569268 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
51569134 CTGACACCAC
* * *
51569144 GTCCCAAACATGGTCTTACACT-AGCTCTCACATATTTGTGCTGATGCAAG
1 GTCCCAGACATGGTCTTACACTGA-CAC-CAC-TATATGTGCTGATGCAAG
* * *
51569194 GTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCTGATGCCAT
1 GTCCCAGACATGGTCTTACACTGACACCACTATATGTGCTGATGCAAG
*
51569242 GTCCTAGACATGGTCTTACACTGACAC
1 GTCCCAGACATGGTCTTACACTGACAC
51569269 ATCTCGTAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 41 0.61
49 2 0.03
50 23 0.34
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GTCCCAGACATGGTCTTACACTGACACCACTATATGTGCTGATGCAAG
Found at i:51570796 original size:20 final size:20
Alignment explanation
Indices: 51570773--51570810 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51570763 ATTTATTCGC
*
51570773 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51570793 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51570811 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51572456 original size:28 final size:28
Alignment explanation
Indices: 51572424--51572492 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51572414 GCGTAGATCA
51572424 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51572452 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51572480 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51572493 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51577891 original size:29 final size:28
Alignment explanation
Indices: 51577857--51578016 Score: 185
Period size: 29 Copynumber: 5.6 Consensus size: 28
51577847 TACTCGATTT
** * *
51577857 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCAT-ATATTTCAGCA
* *** *
51577886 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTC-AGCA
51577915 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTT-CAGCA
*
51577944 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTT-CAGCA
*
51577973 CGCACACTTAGTGCCATATATTCCAGCA
1 CGCACACTTAGTGCCATATATTTCAGCA
51578001 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51578017 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
28 23 0.20
29 90 0.79
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTCAGCA
Found at i:51577977 original size:87 final size:86
Alignment explanation
Indices: 51577858--51578016 Score: 212
Period size: 87 Copynumber: 1.8 Consensus size: 86
51577848 ACTCGATTTC
* * * * *
51577858 GCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGCTCGCACACT
1 GCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATA-CATTCCAGCACGCACACT
51577923 TAGTGCCATATATTTCCAGCAT
65 TAGTGCCATATATTTCCAGCAT
* * * *
51577945 GCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATATATTCCAGCACGCACACT
1 GCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACATTCCAGCACGCACACT
51578009 TAGTGCCA
65 TAGTGCCA
51578017 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 26 0.42
87 36 0.58
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (86 bp):
GCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACATTCCAGCACGCACACTT
AGTGCCATATATTTCCAGCAT
Found at i:51588074 original size:29 final size:29
Alignment explanation
Indices: 51588040--51588200 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
51588030 TACTCGATTT
** * *
51588040 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
51588069 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
51588098 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51588127 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51588156 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51588185 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51588201 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51590226 original size:20 final size:20
Alignment explanation
Indices: 51590201--51590238 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51590191 GTTTATTCGC
*
51590201 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51590221 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51590239 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51591897 original size:28 final size:28
Alignment explanation
Indices: 51591865--51591933 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
51591855 GCATAGATCA
51591865 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51591893 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51591921 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51591934 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51598682 original size:25 final size:25
Alignment explanation
Indices: 51598654--51598714 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
51598644 CTGGAGGCCT
51598654 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
** *
51598679 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCAAA
51598705 AGCCCTTTTA
1 AGCCCTTTTA
51598715 CACTTCCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 5 0.17
26 20 0.67
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:51598788 original size:20 final size:20
Alignment explanation
Indices: 51598763--51598818 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
51598753 TTATGAATAC
*
51598763 ATCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
*
51598783 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
51598803 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
51598819 GTCAATCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51598796 original size:11 final size:11
Alignment explanation
Indices: 51598763--51598820 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
51598753 TTATGAATAC
51598763 ATCATGTGCAT
1 ATCATGTGCAT
* *
51598774 AT--TATACAT
1 ATCATGTGCAT
51598783 ATCATGTGCAT
1 ATCATGTGCAT
*
51598794 ATC--GTACAT
1 ATCATGTGCAT
51598803 ATCATGTGCAT
1 ATCATGTGCAT
51598814 ATCATGT
1 ATCATGT
51598821 CAATCATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 15 0.41
11 22 0.59
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:51598826 original size:20 final size:21
Alignment explanation
Indices: 51598763--51598827 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 21
51598753 TTATGAATAC
* *
51598763 ATCATGTGCATATTAT-ACAT
1 ATCATGTGCATATCATGTCAT
51598783 ATCATGTGCATATC--GTACAT
1 ATCATGTGCATATCATGT-CAT
51598803 ATCATGTGCATATCATGTCA-
1 ATCATGTGCATATCATGTCAT
51598823 ATCAT
1 ATCAT
51598828 TTATATCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 35 0.90
21 2 0.05
22 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (21 bp):
ATCATGTGCATATCATGTCAT
Found at i:51606735 original size:26 final size:25
Alignment explanation
Indices: 51606717--51606789 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 25
51606707 CTTTTTTAAT
51606717 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTC-GTA
*
51606743 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTC-GTA
*
51606769 AACTGGGGCACAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
51606790 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTCGTA
Found at i:51606864 original size:20 final size:20
Alignment explanation
Indices: 51606839--51606911 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
51606829 TTATGAATAC
51606839 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
51606859 ATCATGTGCGTATCGTACAT
1 ATCATGTGCATATCATACAT
*
51606879 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
51606899 ATCATGTGCATAT
1 ATCATGTGCATAT
51606912 AATGTCAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51606931 original size:9 final size:10
Alignment explanation
Indices: 51606839--51606931 Score: 63
Period size: 9 Copynumber: 9.4 Consensus size: 10
51606829 TTATGAATAC
51606839 ATCATGTGCAT
1 ATCATGT-CAT
*
51606850 ATCAT-ACAT
1 ATCATGTCAT
*
51606859 ATCATGTGCGT
1 ATCATGT-CAT
51606870 ATC--GTACAT
1 ATCATGT-CAT
51606879 ATCATGTCCAT
1 ATCATGT-CAT
*
51606890 ATCAT-ACAT
1 ATCATGTCAT
51606899 ATCATGTGCAT
1 ATCATGT-CAT
*
51606910 ATAATGTCA-
1 ATCATGTCAT
51606919 ATCATGT-AT
1 ATCATGTCAT
51606928 ATCA
1 ATCA
51606932 AAATCCCATG
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 1 0.02
9 33 0.51
10 2 0.03
11 29 0.45
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:51610977 original size:40 final size:40
Alignment explanation
Indices: 51610932--51611098 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
51610922 CGGAATATAA
51610932 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51610972 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51611012 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51611052 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51611091 CCGGATAT
1 CCGGATAT
51611099 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51618966 original size:40 final size:40
Alignment explanation
Indices: 51618921--51619087 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
51618911 CGGAATATAA
51618921 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51618961 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51619001 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51619041 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51619080 CCGGATAT
1 CCGGATAT
51619088 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51623921 original size:16 final size:16
Alignment explanation
Indices: 51623900--51623931 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51623890 TTAGCTCAAG
51623900 ATAATTTAGTGACTAT
1 ATAATTTAGTGACTAT
51623916 ATAATTTAGTGACTAT
1 ATAATTTAGTGACTAT
51623932 GACTCAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
ATAATTTAGTGACTAT
Found at i:51629849 original size:40 final size:39
Alignment explanation
Indices: 51629793--51629960 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 39
51629783 CAATTGAATG
* *
51629793 ATATCCGGGTTAAGACCCGAAGGTAATTGTGCCAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTG-CTT
*
51629834 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGAATT-GTGCAAG-TGCTT
* * *
51629873 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGG-AATTGTGCAAGTGC-TT
* ** *
51629913 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGAATT-GTGCAAGTGCTT
51629953 ATATCCGG
1 ATATCCGG
51629961 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
39 8 0.07
40 95 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGAATTGTGCAAGTGCTT
Found at i:51629926 original size:80 final size:79
Alignment explanation
Indices: 51629793--51629960 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
51629783 CAATTGAATG
* *
51629793 ATATCCGGGTTAAGACCCGAAGGTAATTGTGCCAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
51629858 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
51629873 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
51629937 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
51629953 ATATCCGG
1 ATATCCGG
51629961 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:51639713 original size:29 final size:29
Alignment explanation
Indices: 51639572--51639701 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
51639562 GACAAGATTG
* * * *
51639572 GCACTAAGTGTGCGGGTTTAAAATTGTATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
51639602 GCACTAAGTGTGCGAGTTTG--ATTCTATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
51639630 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
51639659 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
51639688 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51639702 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:51644466 original size:35 final size:35
Alignment explanation
Indices: 51644427--51644497 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
51644417 ATATTTTTAG
51644427 TTTTTTTCTCATTTGAATAAAATGGAAGACTTCGA
1 TTTTTTTCTCATTTGAATAAAATGGAAGACTTCGA
51644462 TTTTTTTCTCATTTGAATAAAATGGAAGACTTCGA
1 TTTTTTTCTCATTTGAATAAAATGGAAGACTTCGA
51644497 T
1 T
51644498 AAAATTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (35 bp):
TTTTTTTCTCATTTGAATAAAATGGAAGACTTCGA
Found at i:51646148 original size:28 final size:28
Alignment explanation
Indices: 51646108--51646208 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
51646098 ATTGCATGAC
51646108 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCCGATGGGCCA
* *
51646136 TATGAATGTGATTGGGGTCGATGGGTCA
1 TATGAATGTGATTGGGGCCGATGGGCCA
* * *
51646164 TATGAAAGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGGCC-GATGGGCCA
* *
51646193 TATGAAGGAGATTGGG
1 TATGAATGTGATTGGG
51646209 CCTAAAGGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 42 0.68
29 20 0.32
ACGTcount: A:0.25, C:0.10, G:0.38, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCGATGGGCCA
Found at i:51646219 original size:29 final size:29
Alignment explanation
Indices: 51646162--51646221 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
51646152 GTCGATGGGT
* *
51646162 CATATGAAAGTGATTTGGGCCTAATGGGC
1 CATATGAAAGAGATTTGGGCCTAAGGGGC
*
51646191 CATATGAAGGAGA-TTGGGCCTAAAGGGGC
1 CATATGAAAGAGATTTGGGCCT-AAGGGGC
51646220 CA
1 CA
51646222 AATTAATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (29 bp):
CATATGAAAGAGATTTGGGCCTAAGGGGC
Found at i:51650587 original size:11 final size:11
Alignment explanation
Indices: 51650573--51650602 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51650563 CCATGTGTGT
51650573 ACATACACTGC
1 ACATACACTGC
51650584 ACATACACTGC
1 ACATACACTGC
*
51650595 ACAGACAC
1 ACATACAC
51650603 AGTATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.13
Consensus pattern (11 bp):
ACATACACTGC
Found at i:51651541 original size:23 final size:25
Alignment explanation
Indices: 51651507--51651556 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
51651497 ATACCACAAT
*
51651507 TATATCAATTAA-GCAT-TTATACA
1 TATATCAATTAATGCATATTAAACA
51651530 TATAT-AATTTAATGCATATTAAACA
1 TATATCAA-TTAATGCATATTAAACA
51651555 TA
1 TA
51651557 CGAACTTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.09
23 9 0.39
24 4 0.17
25 8 0.35
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TATATCAATTAATGCATATTAAACA
Found at i:51653818 original size:40 final size:39
Alignment explanation
Indices: 51653679--51653832 Score: 182
Period size: 39 Copynumber: 3.9 Consensus size: 39
51653669 TGTGAATGAA
* * *
51653679 TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
51653718 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
51653757 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
51653797 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
51653833 TGTTTTGAAC
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 59 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:51653818 original size:79 final size:79
Alignment explanation
Indices: 51653679--51653832 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
51653669 TGTGAATGAA
** *
51653679 TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
51653744 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * * *
51653757 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGAGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
51653822 TGTCCCGAAGG
65 AGTCCCGAAGG
51653833 TGTTTTGAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 24 0.38
79 32 0.50
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:51672861 original size:26 final size:26
Alignment explanation
Indices: 51672824--51672874 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
51672814 CCACAATATT
51672824 GGTAAATGACTATTATG-CCTTATGA
1 GGTAAATGACTATTATGCCCTTATGA
51672849 GGTAAAGTGACTATTATGCCCTTATG
1 GGTAAA-TGACTATTATGCCCTTATG
51672875 GGATGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 11 0.46
27 7 0.29
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (26 bp):
GGTAAATGACTATTATGCCCTTATGA
Found at i:51675860 original size:41 final size:41
Alignment explanation
Indices: 51675815--51675932 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
51675805 TGAAAGATAA
51675815 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
51675856 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51675886 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51675927 ATGTAG
1 ATGTAG
51675933 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:51675871 original size:71 final size:71
Alignment explanation
Indices: 51675783--51675946 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51675773 GAGATGTATC
51675783 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51675848 AGGACA
66 AGGACA
51675854 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51675919 AGGACA
66 AGGACA
51675925 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51675947 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51682506 original size:42 final size:43
Alignment explanation
Indices: 51682367--51682533 Score: 191
Period size: 42 Copynumber: 4.0 Consensus size: 43
51682357 ATATCGTACA
* * *
51682367 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATAG
*
51682410 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AATCA-A-ATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATATA-G
* *
51682451 ATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATAG
** * *
51682494 A-GCCAACGTCCCAGATGTGGTCTTACACGAAAACACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
51682534 CGAAAATCCT
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
40 2 0.02
41 28 0.26
42 46 0.43
43 27 0.25
44 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATAG
Found at i:51682863 original size:20 final size:20
Alignment explanation
Indices: 51682838--51682875 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51682828 GTTTATTCGC
*
51682838 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51682858 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51682876 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51690789 original size:20 final size:20
Alignment explanation
Indices: 51690764--51690801 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51690754 GTTTATTCGC
*
51690764 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51690784 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51690802 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51694455 original size:14 final size:15
Alignment explanation
Indices: 51694436--51694464 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51694426 ACACGAATAT
51694436 TTCACACA-TATAAA
1 TTCACACATTATAAA
51694450 TTCACACATTATAAA
1 TTCACACATTATAAA
51694465 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:51695520 original size:24 final size:24
Alignment explanation
Indices: 51695479--51695525 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51695469 GCTTTATCAT
**
51695479 ATAACTGAAGGCCTAGCCTCTTTTA
1 ATAACTGAAGGCAAAGCC-CTTTTA
51695504 ATAACTG-AGGCAAAGCCCTTTT
1 ATAACTGAAGGCAAAGCCCTTTT
51695526 TGGTAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
ATAACTGAAGGCAAAGCCCTTTTA
Found at i:51695526 original size:24 final size:25
Alignment explanation
Indices: 51695499--51695550 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
51695489 GCCTAGCCTC
51695499 TTTTAAT-AACTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
** * *
51695523 TTTTGGTAAATTGGGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
51695548 TTT
1 TTT
51695551 CGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGAGGCAAAGCCCT
Found at i:51697027 original size:68 final size:70
Alignment explanation
Indices: 51696955--51697152 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
51696945 ACACCCTGTA
* * * *
51696955 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51697017 ATAAAT
65 ATAAAT
*
51697023 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
51697088 ATAAAT
65 ATAAAT
*
51697094 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51697153 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51697066 original size:41 final size:41
Alignment explanation
Indices: 51697021--51697138 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
51697011 TGAAAGATAA
51697021 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
51697062 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51697092 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51697133 ATGTAG
1 ATGTAG
51697139 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:51697078 original size:71 final size:71
Alignment explanation
Indices: 51696989--51697152 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51696979 GAGATGTATC
51696989 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51697054 AGGACA
66 AGGACA
51697060 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51697125 AGGACA
66 AGGACA
51697131 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51697153 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51704593 original size:68 final size:70
Alignment explanation
Indices: 51704521--51704718 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
51704511 ACACCCTGTA
* * * *
51704521 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51704583 ATAAAT
65 ATAAAT
*
51704589 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
51704654 ATAAAT
65 ATAAAT
*
51704660 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51704719 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51704632 original size:41 final size:41
Alignment explanation
Indices: 51704587--51704704 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
51704577 TGAAAGATAA
51704587 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
51704628 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51704658 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
51704699 ATGTAG
1 ATGTAG
51704705 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:51704644 original size:71 final size:71
Alignment explanation
Indices: 51704555--51704718 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51704545 GAGATGTATC
51704555 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51704620 AGGACA
66 AGGACA
51704626 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51704691 AGGACA
66 AGGACA
51704697 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51704719 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51708708 original size:77 final size:78
Alignment explanation
Indices: 51708586--51708776 Score: 294
Period size: 77 Copynumber: 2.4 Consensus size: 78
51708576 TATGGTAACC
** * * *
51708586 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
*
51708651 CGGATATCATAA-T
65 CGGATATCACAATT
*
51708664 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
51708729 GGATATCACAATT
66 GGATATCACAATT
*
51708742 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
51708777 TCGAACATTC
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 53 0.51
78 50 0.49
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCACAATT
Found at i:51708717 original size:39 final size:39
Alignment explanation
Indices: 51708555--51708775 Score: 291
Period size: 39 Copynumber: 5.6 Consensus size: 39
51708545 TCGTTCAAAC
* * ** * **
51708555 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
51708595 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
51708635 GCCTTCGGGCTTAGCCCGGATATCATAA-TCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
51708673 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
51708712 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
51708751 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
51708776 CTCGAACATT
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 37 0.23
39 88 0.54
40 38 0.23
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:51708749 original size:116 final size:118
Alignment explanation
Indices: 51708555--51708775 Score: 356
Period size: 116 Copynumber: 1.9 Consensus size: 118
51708545 TCGTTCAAAC
* **
51708555 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
51708620 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAATCGCACAATT
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAATCGCACAATT
* * ** *
51708673 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
51708736 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
66 ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
51708776 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 54 0.57
117 32 0.34
118 9 0.09
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (118 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
ACAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAATCGCACAATT
Found at i:51708776 original size:39 final size:39
Alignment explanation
Indices: 51708586--51708776 Score: 294
Period size: 39 Copynumber: 4.9 Consensus size: 39
51708576 TATGGTAACC
** *
51708586 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
* *
51708626 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAA-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
* *
51708664 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
51708703 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
51708742 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
51708777 TCGAACATTC
Statistics
Matches: 141, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 37 0.26
39 89 0.63
40 15 0.11
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:51716777 original size:39 final size:39
Alignment explanation
Indices: 51716663--51716882 Score: 296
Period size: 39 Copynumber: 5.6 Consensus size: 39
51716653 TCGTTCAAAC
* * * ** * **
51716663 GCCTTCGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * * *
51716702 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
51716742 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
51716781 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
51716820 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
51716859 GCCTTCGGGCTTAGCCCGGATATC
1 GCCTTCGGGCTTAGCCCGGATATC
51716883 CCTCGAACAT
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 133 0.83
40 28 0.17
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:51716878 original size:117 final size:118
Alignment explanation
Indices: 51716663--51716882 Score: 352
Period size: 117 Copynumber: 1.9 Consensus size: 118
51716653 TCGTTCAAAC
* **
51716663 GCCTTCGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
1 GCCTTCGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
51716728 CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
66 CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * * ** *
51716781 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
51716845 CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
66 CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATC
51716883 CCTCGAACAT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
117 53 0.57
118 40 0.43
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (118 bp):
GCCTTCGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:51722309 original size:38 final size:38
Alignment explanation
Indices: 51722258--51722357 Score: 157
Period size: 38 Copynumber: 2.6 Consensus size: 38
51722248 ATGGAAAAAC
51722258 GTGGTGCTAAGTGGATATACCACGGTTATACGTG-TAA
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
* *
51722295 TGTGGTGCTAAGTGGATATACGACAGTTATACGTGTTAA
1 -GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
*
51722334 GTGGTGTTAAGTGGATATACCACG
1 GTGGTGCTAAGTGGATATACCACG
51722358 ATTACACATA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 53 0.95
39 3 0.05
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACGTGTTAA
Found at i:51722417 original size:48 final size:47
Alignment explanation
Indices: 51722341--51722451 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 47
51722331 TAAGTGGTGT
*
51722341 TAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGCTGC
1 TAAGTGGATATACCACAATTACACATATTGATACAT-TAACGTGCTGC
* * * *
51722389 TAAGTGGATATGCCACAATTACATATATTGATTCATTAACGTGGTGC
1 TAAGTGGATATACCACAATTACACATATTGATACATTAACGTGCTGC
51722436 TAAGTGGATATACCAC
1 TAAGTGGATATACCAC
51722452 GGTTAAACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 25 0.44
48 32 0.56
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (47 bp):
TAAGTGGATATACCACAATTACACATATTGATACATTAACGTGCTGC
Found at i:51722500 original size:38 final size:38
Alignment explanation
Indices: 51722426--51722500 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
51722416 TTGATTCATT
* *
51722426 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGC
1 AACGTGGTGCTAAGTAGATATACCACAGTTAAACATGC
* * *
51722464 AACGTGGTGCTAAGTAGATATGCCGCAGTTATACATG
1 AACGTGGTGCTAAGTAGATATACCACAGTTAAACATG
51722501 TTAATTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (38 bp):
AACGTGGTGCTAAGTAGATATACCACAGTTAAACATGC
Found at i:51724673 original size:27 final size:26
Alignment explanation
Indices: 51724633--51724720 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 26
51724623 ATGGAGGAAG
51724633 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCAC-AATATC
*
51724660 TATTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTCTGCCACAATATC
* *
51724686 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
51724713 TGTTCTGG
1 TGTTCTGG
51724721 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 13 0.23
27 43 0.77
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:51736885 original size:18 final size:19
Alignment explanation
Indices: 51736864--51736899 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51736854 AATAAAGAAA
*
51736864 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
51736882 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
51736900 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:51738282 original size:29 final size:29
Alignment explanation
Indices: 51738243--51738371 Score: 222
Period size: 29 Copynumber: 4.4 Consensus size: 29
51738233 ATTGTACAGA
51738243 ACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAATATATAGC
51738272 ACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAATATATAGC
* *
51738301 ACTAAGTGTGTGAGCTGAAAATTATATAGC
1 ACTAAGTGTGCGAACTGAAAA-TATATAGC
*
51738331 ACTAAGTGTGCGAGCTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAATATATAGC
51738360 ACTAAGTGTGCG
1 ACTAAGTGTGCG
51738372 GATTCACTAT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 68 0.71
30 28 0.29
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (29 bp):
ACTAAGTGTGCGAACTGAAAATATATAGC
Found at i:51738335 original size:59 final size:58
Alignment explanation
Indices: 51738243--51738371 Score: 222
Period size: 59 Copynumber: 2.2 Consensus size: 58
51738233 ATTGTACAGA
51738243 ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
* * *
51738301 ACTAAGTGTGTGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
51738360 ACTAAGTGTGCG
1 ACTAAGTGTGCG
51738372 GATTCACTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 19 0.29
59 47 0.71
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (58 bp):
ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
Found at i:51741402 original size:40 final size:40
Alignment explanation
Indices: 51741274--51741386 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
51741264 TGCTGGAAAT
* * * *
51741274 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * *
51741314 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
*
51741354 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGC
51741387 ACGTGATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:51744659 original size:27 final size:27
Alignment explanation
Indices: 51744629--51744839 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
51744619 ATTACCAAAG
*
51744629 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
51744656 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
51744683 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
51744710 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
51744737 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
51744764 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
51744791 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
51744818 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
51744840 TAAAATACCC
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:51744726 original size:81 final size:81
Alignment explanation
Indices: 51744629--51744839 Score: 343
Period size: 81 Copynumber: 2.6 Consensus size: 81
51744619 ATTACCAAAG
*
51744629 TACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
51744694 TACAAAATTA-CTGTTT
66 TACAAAATTATC-GTTT
* * *
51744710 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
51744775 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
* * *
51744791 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTAC
51744840 TAAAATACCC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
81 119 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
TACAAAATTATCGTTT
Found at i:51744865 original size:54 final size:53
Alignment explanation
Indices: 51744629--51744867 Score: 221
Period size: 54 Copynumber: 4.4 Consensus size: 53
51744619 ATTACCAAAG
* * * * * *
51744629 TACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTATAGAATTACCGT-TT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTA-C-TATT
* * * * *
51744683 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTA-TT
* * * *
51744737 TACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTATCGT-TT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTA-C-TATT
* * **
51744791 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACT-ATT
* *
51744845 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACC
51744868 AAAATACCCC
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 2 0.01
54 153 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (53 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATT
Found at i:51744876 original size:81 final size:81
Alignment explanation
Indices: 51744616--51744957 Score: 265
Period size: 81 Copynumber: 4.2 Consensus size: 81
51744606 CTCGACTTGT
* * * **
51744616 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCAA
** *
51744681 TTTACCCTCAATTTAC
66 AATACCCTCGATTTAC
***** * * * **
51744697 AAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCAA
**
51744762 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
* **** * * *
51744778 AAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCAA
* *
51744843 AATACCCTTGGTTTAC
66 AATACCCTCGATTTAC
* * * *** * *
51744859 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCT-TAGTTTGTAAAATTACC
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCATTTTACCCTCGA-TTTATAAAATTACC
* ** **
51744922 AAAATACCCTTGGCTTGT
64 AAAATACCCTCGATTTAC
51744940 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
51744958 CTGATCTGTG
Statistics
Matches: 217, Mismatches: 42, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
80 3 0.01
81 214 0.99
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCAA
AATACCCTCGATTTAC
Found at i:51744971 original size:27 final size:28
Alignment explanation
Indices: 51744832--51744979 Score: 146
Period size: 27 Copynumber: 5.5 Consensus size: 28
51744822 CTCGATTTAC
* * * **
51744832 AAAATTACTAAAATACCCTTG-GTTTAC
1 AAAATTACCAAAATACCCCTGAGTCTGT
*
51744859 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGAGTCTGT
* *
51744886 AAAATTACCAAAATA-CCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGAGTCTGT
*
51744913 AAAATTACCAAAATACCCTTG-G-CTTGT
1 AAAATTACCAAAATACCCCTGAGTC-TGT
51744940 AAAATTACCAAAATACCCCTGA-TCTGT
1 AAAATTACCAAAATACCCCTGAGTCTGT
* *
51744967 GAAATTATCAAAA
1 AAAATTACCAAAA
51744980 AAGTCTCGAT
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTGAGTCTGT
Found at i:51744972 original size:54 final size:54
Alignment explanation
Indices: 51744832--51744979 Score: 165
Period size: 54 Copynumber: 2.7 Consensus size: 54
51744822 CTCGATTTAC
* * ** *
51744832 AAAATTACTAAAATACCCTTG-GTTTACAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCC-TGAGTCTGTAAAATTACCAAAATACCCCTAGCTTGT
* * * *
51744886 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGGCTTGT
1 AAAATTACCAAAATACCCTGAGTCTGTAAAATTACCAAAATACCCCTAGCTTGT
* *
51744940 AAAATTACCAAAATACCCCTGA-TCTGTGAAATTATCAAAA
1 AAAATTACCAAAATA-CCCTGAGTCTGTAAAATTACCAAAA
51744980 AAGTCTCGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 75 0.93
55 5 0.06
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTGAGTCTGTAAAATTACCAAAATACCCCTAGCTTGT
Found at i:51744993 original size:81 final size:81
Alignment explanation
Indices: 51744819--51744997 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
51744809 TTACCGTTTT
** * * *
51744819 ACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTT
1 ACCCTCGATTTGTAAAATTACCAAAATACCCTTGGCTTACAAAATTACCAAAATACCCCTAGTCT
*
51744884 GTAAAATTACCAAAAT
66 GTAAAATTACCAAAAA
* **
51744900 ACCCT-TAGTTTGTAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCT-GAT
1 ACCCTCGA-TTTGTAAAATTACCAAAATACCCTTGGCTTACAAAATTACCAAAATACCCCTAG-T
* *
51744963 CTGTGAAATTATCAAAAA
64 CTGTAAAATTACCAAAAA
**
51744981 AGTCTCGATTTGTAAAA
1 ACCCTCGATTTGTAAAA
51744998 CATCGAAATA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 2 0.02
81 78 0.96
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
ACCCTCGATTTGTAAAATTACCAAAATACCCTTGGCTTACAAAATTACCAAAATACCCCTAGTCT
GTAAAATTACCAAAAA
Found at i:51744994 original size:54 final size:54
Alignment explanation
Indices: 51744819--51744997 Score: 148
Period size: 54 Copynumber: 3.3 Consensus size: 54
51744809 TTACCGTTTT
** * * ** *
51744819 ACCCTCGATTTACAAAATTACTAAAATACCCTTG-GTTTACAAAATTACCAAAAT
1 ACCCTCGATTTGTAAAATTACCAAAATACCC-TGAGTCTGTAAAATTACCAAAAA
* * * *
51744873 ACCC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAAT
1 ACCCTCGA-TTTGTAAAATTACCAAAATACCCTGAGTCTGTAAAATTACCAAAAA
* ** * *
51744927 ACCCTTGGCTTGTAAAATTACCAAAATACCCCTGA-TCTGTGAAATTATCAAAAA
1 ACCCTCGATTTGTAAAATTACCAAAATA-CCCTGAGTCTGTAAAATTACCAAAAA
**
51744981 AGTCTCGATTTGTAAAA
1 ACCCTCGATTTGTAAAA
51744998 CATCGAAATA
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
53 3 0.03
54 92 0.92
55 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
ACCCTCGATTTGTAAAATTACCAAAATACCCTGAGTCTGTAAAATTACCAAAAA
Found at i:51745039 original size:27 final size:27
Alignment explanation
Indices: 51745001--51745190 Score: 299
Period size: 27 Copynumber: 7.0 Consensus size: 27
51744991 TGTAAAACAT
51745001 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
51745028 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
51745055 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
51745082 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
51745109 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
51745136 CGTAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
51745163 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
51745190 C
1 C
51745191 ATTTTGCCCT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:51756530 original size:40 final size:39
Alignment explanation
Indices: 51756419--51756568 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
51756409 TTAATCACGT
* * *
51756419 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
51756459 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
51756499 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
51756539 GCATATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAT
51756569 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
38 13 0.14
39 11 0.12
40 67 0.74
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:51758990 original size:13 final size:13
Alignment explanation
Indices: 51758972--51758999 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51758962 ACCCCTGCTT
51758972 TATTTAATTCTTC
1 TATTTAATTCTTC
51758985 TATTTAATTCTTC
1 TATTTAATTCTTC
51758998 TA
1 TA
51759000 CAAGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTAATTCTTC
Found at i:51762316 original size:6 final size:6
Alignment explanation
Indices: 51762298--51762422 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
51762288 AAAAAACATT
* *
51762298 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
51762347 ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCA-A
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
51762395 TATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 -ATCA-G-A ATCAGA ATCAGA ATCAGA AT
51762423 GTGAATACAA
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
5 7 0.07
6 77 0.80
7 8 0.08
8 3 0.03
9 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:51762321 original size:18 final size:18
Alignment explanation
Indices: 51762298--51762422 Score: 89
Period size: 19 Copynumber: 6.8 Consensus size: 18
51762288 AAAAAACATT
51762298 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
51762316 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGA
* * *
51762334 ATCAG-GTGACAAAATCAAA
1 ATCAGAAT--CAGAATCAGA
*
51762353 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA-G-A
*
51762373 A-CAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
51762390 ATCA-ATATCAGGTAA-CAGA
1 ATCAGA-ATCA-G-AATCAGA
*
51762409 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
51762423 GTGAATACAA
Statistics
Matches: 85, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
17 6 0.07
18 35 0.41
19 38 0.45
20 6 0.07
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:51762356 original size:31 final size:31
Alignment explanation
Indices: 51762312--51762422 Score: 170
Period size: 31 Copynumber: 3.6 Consensus size: 31
51762302 GAACTAGAAT
* *
51762312 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
51762343 CAAAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
51762374 CAGAATCAAAATCAGAATCA-ATATCAGGTAA
1 CAGAATCAAAATCAGAATCAGA-ATCAGGTAA
51762405 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
51762423 GTGAATACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:51762589 original size:27 final size:26
Alignment explanation
Indices: 51762541--51762600 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
51762531 GCGAGGCTGC
*
51762541 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
51762568 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
51762594 CAGATAT
1 CAGATAT
51762601 ATATATGTCG
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:51762964 original size:27 final size:27
Alignment explanation
Indices: 51762934--51763050 Score: 139
Period size: 27 Copynumber: 4.3 Consensus size: 27
51762924 GGGGTAAAAT
* *
51762934 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
51762961 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* *
51762988 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
51763015 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
51763042 GGTAATTTT
1 GGTAATTTT
51763051 GTAAATCGAG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
26 6 0.08
27 63 0.83
28 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:51762994 original size:54 final size:54
Alignment explanation
Indices: 51762935--51763050 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
51762925 GGGTAAAATG
* *
51762935 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCA
1 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGG-GTATTTCA
* * * * *
51762989 GTAATTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCA
51763043 GTAATTTT
1 GTAATTTT
51763051 GTAAATCGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.94
55 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:51763100 original size:27 final size:26
Alignment explanation
Indices: 51763030--51763102 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
51763020 TTCTACCCTA
*
51763030 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTT-GGTAATTCTGTAAAT
* ****
51763057 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGT-ATTTGGTAATTCTGTAAAT
51763084 CAAGGGTACTTTGGTAATT
1 CAAGGGTA-TTTGGTAATT
51763103 TTACAAGTTG
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (26 bp):
CAAGGGTATTTGGTAATTCTGTAAAT
Found at i:51763153 original size:81 final size:80
Alignment explanation
Indices: 51763068--51763453 Score: 251
Period size: 81 Copynumber: 4.8 Consensus size: 80
51763058 GAGGGTAAAA
* * *
51763068 CAGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTAC-AAGTTGAGGGTATTTCAATAATTTT
1 CAGTAATT-TGTAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCAATAATTTT
* ***
51763132 ATAGGTCAAGAGTATTT
64 ACAAACCAAGAGTATTT
** * **
51763149 CAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTA
1 CAGTAATTT-GTAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAATAATTTTA
* *
51763214 CAAACCAGGGGTATTT
65 CAAACCAAGAGTATTT
** * * *** *
51763230 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTA
1 CAGTAA-TTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAATAATTTTA
* *
51763295 TAAACCAAGGGTA-TT
65 CAAACCAAGAGTATTT
* * ** * * ***
51763310 CTAGTAATTT-TACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 C-AGTAATTTGTA-AATC-AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAATAATTT
***
51763374 TACAAATTGAG-GATATTT
63 TACAAACCAAGAG-TATTT
** * * ** * * *
51763392 GGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTAC-AACTGGGGGTATTTCAGTAATTT
1 CAGTAA-TTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAATAATTT
51763454 GGTAAACTAA
Statistics
Matches: 246, Mismatches: 49, Indels: 21
0.78 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 28 0.11
81 199 0.81
82 15 0.06
83 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
CAGTAATTTGTAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAATAATTTTAC
AAACCAAGAGTATTT
Found at i:51763173 original size:27 final size:27
Alignment explanation
Indices: 51763151--51763432 Score: 341
Period size: 27 Copynumber: 10.4 Consensus size: 27
51763141 GAGTATTTCA
* *
51763151 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*
51763178 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*
51763205 ATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
** *
51763232 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
51763259 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * * *
51763286 GTGATTTTATAAACCAAGGGTATTCTA
1 GTAATTTTACAAACCAGGGGTATTTTG
*
51763313 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
** *
51763340 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
** * *
51763367 GTAATTTTACAAA-TTGAGGATATTTGG
1 GTAATTTTACAAACCAG-GGGTATTTTG
* * *
51763394 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
51763421 GTAATTTTACAA
1 GTAATTTTACAA
51763433 CTGGGGGTAT
Statistics
Matches: 212, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 211 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:51774455 original size:22 final size:22
Alignment explanation
Indices: 51774430--51774487 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
51774420 TGTTTGAGTT
*
51774430 AAATTAAAAAATTGAACATTTC
1 AAATTAAAATATTGAACATTTC
51774452 AAATTAAAATATTGAACATTTC
1 AAATTAAAATATTGAACATTTC
51774474 AAATTAAAATATTG
1 AAATTAAAATATTG
51774488 TTATAGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATTAAAATATTGAACATTTC
Found at i:51774673 original size:18 final size:18
Alignment explanation
Indices: 51774635--51774690 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
51774625 TTTTAGAAAA
**
51774635 TTTTTA-AAATTTTAACC
1 TTTTTATAAATTTTAAAT
* *
51774652 TTTTTATATATTTTTAAT
1 TTTTTATAAATTTTAAAT
*
51774670 TTTTTTTAAATTTTAAAT
1 TTTTTATAAATTTTAAAT
51774688 TTT
1 TTT
51774691 GATTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTATAAATTTTAAAT
Found at i:51774717 original size:18 final size:19
Alignment explanation
Indices: 51774696--51774734 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
51774686 ATTTTGATTT
*
51774696 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
51774714 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
51774733 TT
1 TT
51774735 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:51782008 original size:16 final size:15
Alignment explanation
Indices: 51781983--51782021 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
51781973 AATTGTTTTC
*
51781983 TTTTTCATTTAATTAA
1 TTTTTTATTTAA-TAA
51781999 TTTTTTATTTAATAA
1 TTTTTTATTTAATAA
*
51782014 CTTTTTAT
1 TTTTTTAT
51782022 CTTTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTATTTAATAA
Found at i:51782018 original size:15 final size:16
Alignment explanation
Indices: 51781982--51782021 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
51781972 AAATTGTTTT
51781982 CTTTTTCATTTAATTAA
1 CTTTTT-ATTTAATTAA
*
51781999 TTTTTTATTTAA-TAA
1 CTTTTTATTTAATTAA
51782014 CTTTTTAT
1 CTTTTTAT
51782022 CTTTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTTTTATTTAATTAA
Found at i:51784148 original size:54 final size:53
Alignment explanation
Indices: 51783956--51784154 Score: 299
Period size: 53 Copynumber: 3.7 Consensus size: 53
51783946 CTTACCACTA
* *
51783956 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGTACTCACCAATG
1 CCATGCCTTGACATGGTCTTACGTGATATCCTTGCCTTATGTACTCACCAATG
*
51784009 CCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGTACTCACCAATG
1 CCATGCCTTGACATGGTCTTACGTGATATCCTTGCCTTATGTACTCACCAATG
* * * *
51784062 CCATGCCTTGACATGGTCTTACGTGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACGTGATATCCTTGCCTTAT-GTACTCACCAATG
* * *
51784116 CCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 CCATGCCTTGACATGGTCTTACGTGATATCCTTGCCTTA
51784155 CCAAATTCCA
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 90 0.67
54 45 0.33
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (53 bp):
CCATGCCTTGACATGGTCTTACGTGATATCCTTGCCTTATGTACTCACCAATG
Found at i:51787344 original size:48 final size:48
Alignment explanation
Indices: 51787198--51787422 Score: 183
Period size: 48 Copynumber: 4.8 Consensus size: 48
51787188 GGGTTATGTA
* * * **
51787198 CGATCCCATGTAAGACCATGTCTAGGACATTGCTTTGGCATCGGTATG
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATG
* **** * *
51787246 CAATTTTGTGTAAGACCATAG-CTGGG-C-T---ATCGGCATCGATATG
1 CGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGACATG
* * *
51787289 TGATCCCATGTAAGACCATGTCAGGGACATGGCATTGGCATCGACCTG
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATG
* * * *
51787337 CGTTCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCGATATG
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATG
* * * * *
51787385 TGATCCCATATAAGACCATATCTGAGATATGGCATTGG
1 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
51787423 AATCCTATCA
Statistics
Matches: 136, Mismatches: 34, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.74
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATG
Found at i:51798916 original size:39 final size:39
Alignment explanation
Indices: 51798862--51799044 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
51798852 AATGTTCGAG
*
51798862 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
51798901 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
51798940 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
51798979 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
51799019 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
51799045 GTTTGAACGA
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:51803751 original size:24 final size:24
Alignment explanation
Indices: 51803720--51803767 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
51803710 CTGAGCTGAT
51803720 GAACAGTAAGCTCTGACGAGCTAA
1 GAACAGTAAGCTCTGACGAGCTAA
* *
51803744 GAACAGTAAGCTCTTATGAGCTAA
1 GAACAGTAAGCTCTGACGAGCTAA
51803768 TATATCGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
GAACAGTAAGCTCTGACGAGCTAA
Found at i:51805220 original size:33 final size:33
Alignment explanation
Indices: 51805178--51805244 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
51805168 TGATTTGGAG
51805178 CTTGAGCAGTTAGATGTGAAAACAACATTCTTA
1 CTTGAGCAGTTAGATGTGAAAACAACATTCTTA
51805211 CTTGAGCAGTTAGATGTGAAAACAACATTCTTA
1 CTTGAGCAGTTAGATGTGAAAACAACATTCTTA
51805244 C
1 C
51805245 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (33 bp):
CTTGAGCAGTTAGATGTGAAAACAACATTCTTA
Found at i:51805673 original size:35 final size:35
Alignment explanation
Indices: 51805627--51805696 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
51805617 GAAAAACATG
**
51805627 TAAATTGTACCTAAGTCAAAAATGGTACATTGAGA
1 TAAATTGTACCTAAGTCAAAAACAGTACATTGAGA
*
51805662 TAAATTGTACCTAAGTCAGAAACAGTACATTGAGA
1 TAAATTGTACCTAAGTCAAAAACAGTACATTGAGA
51805697 AAGTTCTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (35 bp):
TAAATTGTACCTAAGTCAAAAACAGTACATTGAGA
Found at i:51806195 original size:17 final size:17
Alignment explanation
Indices: 51806173--51806207 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51806163 ACTAGAATTT
51806173 TTAAAAA-ATCTATTTGG
1 TTAAAAAGA-CTATTTGG
51806190 TTAAAAAGACTATTTGG
1 TTAAAAAGACTATTTGG
51806207 T
1 T
51806208 GAACTCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (17 bp):
TTAAAAAGACTATTTGG
Found at i:51806441 original size:113 final size:113
Alignment explanation
Indices: 51806243--51806467 Score: 326
Period size: 113 Copynumber: 2.0 Consensus size: 113
51806233 ATACAATATT
* * *
51806243 TTGTGATAGTGAGAGTGCCATCTTCCTTACGAATGATCAAATGTTTCACTAGAGAACAAATCACA
1 TTGTGATAGTCAGAATGCCATCTTCCTTACAAATGATCAAATGTTTCACTAGAGAACAAATCACA
* *
51806308 TCAATGTTCAGTATCATTTTATACGTGATATTATTGCTCGTGATGATA
66 TCAATATTCAGTATCATTTTATACGTAATATTATTGCTCGTGATGATA
* * *
51806356 TTGTGATAGTCATAATGTCATCTTCCTTACAAATGATCAAATGTTTCA-TAAGATAACAAATCAC
1 TTGTGATAGTCAGAATGCCATCTTCCTTACAAATGATCAAATGTTTCACT-AGAGAACAAATCAC
* * * *
51806420 ATCGATATTCAGTGTCATTTTATGCGTAATATTATTGCTCGTGGTGAT
65 ATCAATATTCAGTATCATTTTATACGTAATATTATTGCTCGTGATGAT
51806468 GTGAGCAAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
112 1 0.01
113 98 0.99
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (113 bp):
TTGTGATAGTCAGAATGCCATCTTCCTTACAAATGATCAAATGTTTCACTAGAGAACAAATCACA
TCAATATTCAGTATCATTTTATACGTAATATTATTGCTCGTGATGATA
Found at i:51807196 original size:23 final size:23
Alignment explanation
Indices: 51807169--51807213 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
51807159 ATTCCAAGGT
51807169 AACTGCAAGAAAAATAATGCTCG
1 AACTGCAAGAAAAATAATGCTCG
51807192 AACTGCAAGAAAAATAATGCTC
1 AACTGCAAGAAAAATAATGCTC
51807214 TTAGGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
AACTGCAAGAAAAATAATGCTCG
Found at i:51813659 original size:27 final size:26
Alignment explanation
Indices: 51813622--51813733 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
51813612 AGCATGGCTG
* *
51813622 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
51813648 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
51813676 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
51813703 CCAGATCAGATATCTGTGGTATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
51813730 CCAG
1 CCAG
51813734 GACACTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:51813681 original size:54 final size:54
Alignment explanation
Indices: 51813622--51813733 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
51813612 AGCATGGCTG
*
51813622 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATC-GTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGAT-ATCTGTGGCAGAGCCA
* * *
51813676 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATCTGTGGTATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATATCTGTGGCAGAGCCA
51813730 CCAG
1 CCAG
51813734 GACACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 3 0.06
54 31 0.60
55 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATATCTGTGGCAGAGCCA
Found at i:51814138 original size:8 final size:8
Alignment explanation
Indices: 51814122--51814151 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
51814112 CTCAAAATAC
51814122 CGGCTTTT
1 CGGCTTTT
*
51814130 CGGCATTT
1 CGGCTTTT
51814138 CGGCTTTT
1 CGGCTTTT
51814146 CGGCTT
1 CGGCTT
51814152 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:51817380 original size:27 final size:26
Alignment explanation
Indices: 51817279--51817391 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
51817269 AGGAAGCGTC
* * * *
51817279 CTGGTGGCTATACCACAGATATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGTT
*
51817306 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
51817333 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* **
51817361 CTGGTGTCTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
51817387 CTGGT
1 CTGGT
51817392 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:51817383 original size:54 final size:54
Alignment explanation
Indices: 51817279--51817391 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
51817269 AGGAAGCGTC
*
51817279 CTGGTGGCTATACCACAGATATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATACCACAGATATCTGATCTGGTGGCTCTACCACATATATCTATT
* * * * *
51817333 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGTCTCTATCACAT-TATCTGTT
1 CTGGTGGCTATACCACAGA-TATCTG-ATCTGGTGGCTCTACCACATATATCTATT
51817387 CTGGT
1 CTGGT
51817392 AGCCATGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
53 2 0.04
54 32 0.63
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAGATATCTGATCTGGTGGCTCTACCACATATATCTATT
Found at i:51827736 original size:40 final size:40
Alignment explanation
Indices: 51827609--51827738 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
51827599 ATGCTGGAAA
* * *
51827609 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
51827649 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
51827689 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
51827729 TTATATCCGG
1 TTATATCCGG
51827739 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:51833696 original size:27 final size:27
Alignment explanation
Indices: 51833654--51833741 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
51833644 TGGAGGAAGC
51833654 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
51833681 GTTCTGGTGGCACTGCCACAAATATCA
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
51833708 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
51833735 GTTCTGG
1 GTTCTGG
51833742 CAACCATTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.09
27 34 0.64
28 14 0.26
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:51834924 original size:2 final size:2
Alignment explanation
Indices: 51834917--51834996 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
51834907 ATTTCAATGT
51834917 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
51834959 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
51834997 TATATATATA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:51835001 original size:2 final size:2
Alignment explanation
Indices: 51834996--51835021 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51834986 ACACACACAC
51834996 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
51835022 GTGATATTTA
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:51835999 original size:5 final size:5
Alignment explanation
Indices: 51835989--51836022 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
51835979 ATTATGAGAC
51835989 ATAAA ATAAA ATTAAA ATAAA ATTAAA ATAAA AT
1 ATAAA ATAAA A-TAAA ATAAA A-TAAA ATAAA AT
51836023 TTATTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
ATAAA
Found at i:51836006 original size:11 final size:11
Alignment explanation
Indices: 51835990--51836023 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
51835980 TTATGAGACA
51835990 TAAAATAAAAT
1 TAAAATAAAAT
51836001 TAAAATAAAAT
1 TAAAATAAAAT
51836012 TAAAATAAAAT
1 TAAAATAAAAT
51836023 T
1 T
51836024 TATTTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAAAAT
Found at i:51836010 original size:16 final size:16
Alignment explanation
Indices: 51835989--51836022 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
51835979 ATTATGAGAC
51835989 ATAAAATAAAATTAAA
1 ATAAAATAAAATTAAA
51836005 ATAAAATTAAAA-TAAA
1 ATAAAA-TAAAATTAAA
51836021 AT
1 AT
51836023 TTATTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAATAAAATTAAA
Found at i:51852934 original size:30 final size:31
Alignment explanation
Indices: 51852858--51852940 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
51852848 TTAGTCTCGA
51852858 CATAT-ACTGGGCCGAAGCCTTTTCATAAAC
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
*
51852888 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
51852919 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
51852941 ACTGTAAGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAC
Found at i:51853193 original size:25 final size:25
Alignment explanation
Indices: 51853160--51853229 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
51853150 CTCTTTTAAT
51853160 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* * *
51853185 AACTGGGGCAAAGCCTTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
51853210 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
51853230 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:51854101 original size:27 final size:27
Alignment explanation
Indices: 51854039--51854116 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
51854029 GGGCATATTC
51854039 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
51854066 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
51854093 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
51854117 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Done.